##maf version=1 scoring=roast.v3.3
a score=273.000000
s hg38.chr5_KI270796v1_alt         0 1 +    172708 A
s panTro5.chr5             125110068 1 + 181907262 a
i panTro5.chr5             N 0 C 0
s panPan2.chr5             126447089 1 + 183735486 a
i panPan2.chr5             N 0 C 0

a score=5818.000000
s hg38.chr5_KI270796v1_alt         1 3 +    172708 TCG
s panTro5.chr5             125110069 3 + 181907262 tcg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126447090 3 + 183735486 tcg
i panPan2.chr5             C 0 C 0
s nomLeu3.chr2             139769854 3 + 163208435 tca
i nomLeu3.chr2             N 0 C 0
s colAng1.NW_012119644v1      224831 3 -   1175262 tcg
i colAng1.NW_012119644v1   N 0 C 0
s calJac3.chr2             123558903 3 - 204313951 tca
i calJac3.chr2             N 0 C 0
s saiBol1.JH378106          55612738 3 -  71252344 tca
i saiBol1.JH378106         N 0 C 0
s mm10.chr18                55446830 3 +  90702639 tct
i mm10.chr18               N 0 C 0
s dasNov3.JH567306           2541669 3 +   3667625 tct
i dasNov3.JH567306         N 0 C 0

a score=105557.000000
s hg38.chr5_KI270796v1_alt         4 26 +    172708 TCCTAAAGAAGCAtgagtt-cctcaaa
s panTro5.chr5             125110072 26 + 181907262 tcctaaagaagcatgagtt-cctcaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126447093 26 + 183735486 tcctaaagaagcatgagtt-cctcaaa
i panPan2.chr5             C 0 C 0
s nomLeu3.chr2             139769857 26 + 163208435 tcataaagaagcatgagtt-cctcaaa
i nomLeu3.chr2             C 0 C 0
s colAng1.NW_012119644v1      224834 26 -   1175262 tcctgaagaagcatgagtt-cctcaaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123558906 26 - 204313951 tcctaaagaagcatgagtt-cctcaaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55612741 26 -  71252344 tcctcaagaagcatgagtt-cctcaaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1306052 25 -   1400280 tcctaaagaagcatgagtt--ctcaaa
i cebCap1.NW_016107829v1   N 0 C 0
s aotNan1.NW_018505940v1    13101912 26 -  42888418 tcctaaagaagcatgagtt-cctcaaa
i aotNan1.NW_018505940v1   N 0 C 0
s mm10.chr18                55446833 26 +  90702639 ccctgaggagccatgagct-cctccag
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2541672 27 +   3667625 tccttaaggagcatgagctccctcaaa
i dasNov3.JH567306         C 0 C 0

a score=53014.000000
s hg38.chr5_KI270796v1_alt        30 14 +    172708 gcagaatctgtgcc
s panTro5.chr5             125110098 14 + 181907262 gcagaatctgtgcc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126447119 14 + 183735486 gcagaatctgtgcc
i panPan2.chr5             C 0 C 0
s nomLeu3.chr2             139769883 14 + 163208435 gcagaatctgtgcc
i nomLeu3.chr2             C 0 C 0
s colAng1.NW_012119644v1      224860 14 -   1175262 gcagaatatatgcg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123558932 14 - 204313951 gcagaatctgtgcc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55612767 14 -  71252344 gcagaatctgtgcc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1306077 14 -   1400280 gcagaatctgtgcc
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13101938 14 -  42888418 gcagaatctgtgcc
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2978990 14 +   4132165 GTAgagtctatgcc
i otoGar3.GL873679         N 0 C 0
s mm10.chr18                55446859 13 +  90702639 gcag-gtcaatacc
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2541699 11 +   3667625 acaggaactat---
i dasNov3.JH567306         C 0 C 0

a score=257282.000000
s hg38.chr5_KI270796v1_alt        44 25 +    172708 tcatccacctttgtatcattaatgt
s panTro5.chr5             125110112 25 + 181907262 tcatccacctttgtatcattaatgt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126447133 25 + 183735486 tcatccacctttgtatcattaatgt
i panPan2.chr5             C 0 C 0
s nomLeu3.chr2             139769897 25 + 163208435 tcatccacctttgtatcattaatgt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122755146 25 + 180051392 tcatccacctttggatcattaatgt
i rheMac8.chr6             N 0 C 0
s macFas5.chr6             124178654 25 + 181584905 tcatccacctttggatcattaatgt
i macFas5.chr6             N 0 C 0
s macNem1.NW_012012355v1    16176667 25 +  18395747 tcatccacctttggatcattaatgt
i macNem1.NW_012012355v1   N 0 C 0
s cerAty1.NW_012002512v1     5180660 25 +  26952557 tcatccacctttatatcattaatgt
i cerAty1.NW_012002512v1   N 0 C 0
s chlSab2.chr23             28290534 25 +  82825804 tcatccacctttgtatcattaatgt
i chlSab2.chr23            N 0 C 0
s manLeu1.NW_012103321v1     3954661 25 -   4237731 tcatccacctttgtatcattaatgt
i manLeu1.NW_012103321v1   N 0 C 0
s colAng1.NW_012119644v1      224874 25 -   1175262 tcatccacctttgtatcattaatgt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123558946 25 - 204313951 tcatccatctttctatcattaatgt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55612781 25 -  71252344 tcatccatctttgtatcattaatgc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1306091 25 -   1400280 tcatccatctttgtatcattaatgt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13101952 25 -  42888418 taatccatctttgtatcattaatgt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2979004 25 +   4132165 ttatccatctttgaagctatagtgt
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55446872 21 +  90702639 tcatccatttttgca-aattaa---
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2541710 17 +   3667625 --------ttttgtatctttcatgt
i dasNov3.JH567306         C 0 C 0

a score=479739.000000
s hg38.chr5_KI270796v1_alt        69 40 +    172708 ctagtacagtacctggcacagagtag-ttccttgaatagtt
s panTro5.chr5             125110137 40 + 181907262 ctagtacagtacctggcacagagtag-ttccttgaatagtt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126447158 40 + 183735486 ctagtacagtacctggcacagagtag-ttccttgaatagtt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1638856 40 +   8933513 ctagtacagtacctggcacagagtag-ttccttgaatagtt
i gorGor5.CYUI01015135v1   N 0 C 0
s nomLeu3.chr2             139769922 40 + 163208435 gtagtacagtacctggcacagagtag-ttccttgaatagtt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122755171 40 + 180051392 ctagtacagtacctggcacagagtag-ttccttgaatagat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124178679 40 + 181584905 ctagtacagtacctggcacagagtag-ttccttgaatagat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16176692 40 +  18395747 ctagtacagtacctggcacagagtag-ttccttgaatagat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5180685 40 +  26952557 ctagtacagtacctggcacagagtag-ttccttgaatagat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28290559 40 +  82825804 ctagtacagtacctggcacagagtag-ttccttgaatagat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3954686 40 -   4237731 ctagtacagtacctggcacagagtag-ttccttgaatagat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      224899 40 -   1175262 cttgtacagtacctggcacagagtag-ttccttgaatagat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123558971 40 - 204313951 ctagtacagtacctggcacagagtaa-ttcctcgaatacat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55612806 40 -  71252344 ctagtaaagtacctggcacagagtaa-ttcctcgaatagat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1306116 40 -   1400280 ctagtacagtacctggcacagagtaa-ttcctcgaatagat
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13101977 40 -  42888418 ctagtacagtacctggcacagagtaa-ttccttgaatagat
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2979029 41 +   4132165 ctagtacagtacctggtacacactggtttccttgagtttcc
i otoGar3.GL873679         C 0 I 2
s mm10.chr18                55446893 35 +  90702639 -----gtagtctttgacacaaataga-ttccttaaacacct
i mm10.chr18               C 0 I 4
s dasNov3.JH567306           2541727 35 +   3667625 ctagtaca------cacagagagtaggttccttgaatactt
i dasNov3.JH567306         C 0 C 0

a score=3019620.000000
s hg38.chr5_KI270796v1_alt       109 242 +    172708 -----aatgaatggacgaTGTTCTATCTGCAAAACTCTGAAAGATGCATAGTTTGGCATTTCACTAGATCCTGAATCAC-ATCATCTTTTGTCTCAGCTCCTCAAGATTGGCTAA----TAACACCTTATTGAAA-AA-AT-ATATGAATTAGCAAGGGAAAACT--GAATGTGTCA-TGCCAGAGTGGTAG--CATACTTCC--AGTACTTCCATCTCACCACA---TCTTTCA-GAAAATAACACATGATT-CTGTTGCTGTCAC
s panTro5.chr5             125110177 242 + 181907262 -----aatgaatggacgaTGTTCTATCTGCAAAACTCTGAAAGATGCATAGTTTGGCATTTCACTAGATCCTGAATCAC-ATCATCTTTTGTCTCAGCTCCTCAAGATTGACTAA----TAACACCTTATTGAAA-AA-AT-ATATGAATTAGCAAGGGAAAACT--GAATGTGTCA-TGCCAGAGTGGTAG--CATACTTCC--AGTACTTCCATCTCACCACA---TCTTTCA-GAAAATAACACATGATT-CTGTTGCTGTCAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126447198 242 + 183735486 -----aatgaatggacgaTGTTCTATCTGCAAAACTCTGAAAGATGCATAGTTTGGCATTTCACTAGATCCTGAATCAC-ATCATCTTTTGTCTCAGCTCCTCAAGATTGGCTAA----TAACACCTTATTGAAA-AA-AT-ATATGAATTAGCAAGGGAAAACT--GAATGTGTCA-TGCCAGAGTGGTAG--CATACTTCC--AGTACTTCCATCTCACCACA---TCTTTCA-GAAAATAACACATGATT-CTGTTGCTGTCAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1638896 242 +   8933513 -----aatgaatggacgaTGTTCTATCTGCAAAACTCTGAAAGATGCATATTTTGGCATTTCACTAGATCCTGAATCAC-ATCATCTTTTGTCTCAGCTCCTCAAGATTGGCTAA----TAACAGCTTATTGAAA-AA-AT-ATATGAATTAGCAAGGGAAAACT--GAATGTGTCA-TGCCAGATTGGTAG--CATACTTCC--AGTACTTCCATCTCACCACA---TCTTTCA-GAAAATAACACATGATT-CTGTTGCTGTCAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139769962 242 + 163208435 -----aatgaatggatgaTGTTCTATCTGCAGAACTGTGAAAGATGCATAGTTTGGCATTTCACTAGATCCTGAACCAC-ATCATCTTTTGTCTCAGCTCCTCAAGATTGGCTAA----TAACACCTTATTGAAA-AA-AT-ATATGAATTAGCAAGGGAAAACT--GAATGTGTAG-TGCCAGAGTGGTAG--CACACTTCC--AGTACTTCCATCTCACCACA---TCTTTCA-GAAAATAACACATGATT-CTGTTGCTGTCAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122755211 242 + 180051392 -----aatgaatggatgaTGTTCTATCTGCAAAACTCTGAAAGATGCACAGTTTGGCATTTCACTAGATCCTGAAACAC-ATCATCTTTTGTCTCAGCTCCCCAAGACTGGCTAA----TAACACCTTCTTGAAA-AA-AT-ATGTGAATTAGCAAGGGAAAACT--GAATGCGTCT-TGCCAGAGTGGTAG--CACACTTCC--AGTACTTCCATCTCGCCACA---TCTTTCA-GAAAACAACACATGATT-CTATTGCTGTCAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124178719 242 + 181584905 -----aatgaatggatgaTGTTCTATCTGCAAAACTCTGAAAGATGCACAGTTTGGCATTTCACTAGATCCTGAAACAC-ATCATCTTTTGTCTCAGCTCCCCAAGACTGGCTAA----TAACACCTTCTTGAAA-AA-AT-ATGTGAATTAGCAAGGGAAAACT--GAATGCGTCT-TACCAGAGTGGTAG--CACACTTCC--AGTACTTCCATCTCGCCACA---TCTTTCA-GAAAACAACACATGATT-CTATTGCTGTCAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16176732 242 +  18395747 -----aatgaatggatgaTGTTCTATCTGCAAAACTCTGAAAGATGCAGAGTTTGGCATTTCACTAGATCCTGAAACAC-ATCATCTTTTGTCTCAGCTCCCCAAGACTGGCTAA----TAACACCTTCTTGAAA-AA-AT-ATGTGAATTAGCAAGGGAAAACT--GAATGCGTCT-TGCCAGAGTGGTAG--CACACTTCC--AGTACTTCCATCTCGCCACA---TCTTTCA-GAAAACAACACATGATT-CTATTGCTGTCAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5180725 242 +  26952557 -----aatgaatagatgaTGTTCTATCTGCAAAACTCTGAAAGATGCACAGTTTGGCATTTCACTAGATCCTGAAACAC-ATCATCTTTTGTCTCAGCTCCCCAAGACTGGCTAA----TAACACCTTCTCGAAA-AA-AT-ACGTGAATTAGCAAGGGAAAACT--GAATGCGTCT-TGCCAGAGTGGTAG--CACACTTCC--AGTACTTCCATCTCGCCACA---TCTTTCA-GAAAACAACACATGATT-CTATTGCTGTCAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28290599 242 +  82825804 -----aatgaatggatgaTGTTCTATCTGCAAAACTCTGAAAGATGCACAGTTTGGCATTTCACTAGATCCTGAAACAC-ATCATCTTTTGTCTCAGCTCCCCAAGACTGGCTAA----TAACACCTTATTGAAA-AA-AT-ATGTGAATTAGCAAGGGAAAACT--GAATGCGTCT-TGCCAGAGTGGTAG--CACACTTCC--AGTACTTCCATCTCGCCACA---TCTTTCA-GAAAACAACACATGATT-CTGTTGCTGTCAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3954726 242 -   4237731 -----aatgaatagatgaTGTTCTATCTGCAAAACTCTGAAAGATGCACAGTTTGGCATTTCACTAGATCCTGAGACAC-ATCATCTTTTGTCTCAGCTCCCCAAGACTGGCTAA----TAACACCTTCTCGAAA-AA-AT-ATGTGAATTAGCAAGGGAAAACT--GAATGCGTCT-TGCCAGAGTGGTAG--CACACTTCC--AGTACTTCCATCTCGCCACA---TCTTTCA-GAAAACAACACATGATT-CTATTGCTGTCAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      224939 242 -   1175262 -----aatggatggatgaTGTTCTATCTGCAAAACTCTGAAAGATGCCCAGTTTGGCATTTCACTAGATCCTGAATCAC-ATCATCTTTTGTCTCAGCTCCCCAAGACTGGCTAA----TAACACCTTATTGAAA-AA-AT-ATGTGAATTAGCAAGGGAAAACT--GAATGTGTCT-TGCCAGAGTGGTAG--CACACTTCC--AGTACTTCCATCTTGCCACA---TCTTTCA-GAAAACAACACATGATT-CTGTTGCTGTCAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123559011 234 - 204313951 -----aatgaatggatgaTGTTCTATCTGCAAAACTCTGAAAGATGC--AGTTTGGCATTTCACTAGATCACAAATCAC-ATCATCTTTTGTCTTGGCTCCTCAAGATTGTCTAA----TAACATCTTATTGAAG-AA-AT-ATATGAATTAGCAAGGGA--------AATGTTTCA-TGCCATAGTGGTAG--CACACTTGC--AGTACTTCCATCTCACCACA---TCTTTCA-GAAAACAACACACGATT-CTGTTGCCATCAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55612846 234 -  71252344 -----aatgaatggatgaCGTTCTATCAGCAAAACTCTGAAAGATGC--AGTTTGACATTTCACTAGATCCCAAATCAC-ATCATCTTTTGTCTTAGCCCCTCAAGATTGTCTAA----TAACATCTTTTTGAAG-AA-AT-ATGTGAATTTGCAAGGGA--------AATGTGTCA-TGCCAGAGTGGTAG--CACACTTTC--AGTACTTCCATCTCACCACA---TCTTTCA-GACAACAACACACGATT-CTTTTGCCATCAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1306156 234 -   1400280 -----aatgaatgaatgaTGTTCTATCTGCAAAACTCTGAAAGATGC--AGTTTGGCATTTCACTAGATCCCAAATCAC-ATCATCTTTTGTCTTAGCTCCTCAAGATTGTCTAA----TAACATCTTATTGAAG-AA-AT-ATATGAACTAGCAAGGGA--------AATGTGTCA-TGCCAGAGTGGTAG--CACACTTTC--AGTACTTCCATCTCACCACA---TCTTTCA-GAAAACAACACACGATT-CTGCTGCCATCAC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13102017 234 -  42888418 -----aatgaatggatgaTGTTCTATCTGCAAAACTCTGAAAGATGC--AGTTTGGCATTTCACTAGATCCCAAATCAC-ATCGTCTTTTGTCTTAGCTCCTCAAGATTGTCTAA----TAACATCTTATTGAAG-AA-AT-ACATGAATTAGCAAGGGA--------AATGTGTCG-TGCCAGAGTGGTAG--CACACTTTC--AGTACTTCCATCTCACCACA---TCTTTCA-GAAAACAACACACGATT-CTGTTGCCGTCAT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3495893 245 +  11683526 -----aatgaatggatGATGTCCTATCTGCAAAACTCTGAAAGACACACAG--CAGCATTTCACTGGATCCTGAATCAC-ATCATTCTCTCTCTCGGTCCCTCAAGATTGTCTAA----TAACATCTTATTGAAA-AA-AACATATGAATTAGTACGGGAAAACT--GAATGTGTGTGTGCCAGAGTGGGAG--CACCCTTTTTTAGTACTTCCACATCATCACG---TCTTTCATGAAGACAACACATGATT-CTGTTGCTGTCAC
i proCoq1.NW_012155062v1   N 0 I 89
s otoGar3.GL873679           2979072 212 +   4132165 -----aatgaatggatGACGTCTT-----TAAAACTCTGA---------AG--CAGCATTTCACTGGACCTTGAAAAACAATCACCCACTGTCTCACTTCCTCAAGATTGCCTAA----TAATGTATTATTGAAA-AA-AA-ATATGAATTAGCAAGGGAGAAGT--GAATGTATCTGTACCAGACTGGGAG--CACCCTTTT-------------------AAT---GCTTTCCTGAAAATAACCTGCAAGT-CTGTTGCTGTTAC
i otoGar3.GL873679         I 2 C 0
s mm10.chr18                55446932 249 +  90702639 -----aacgaatgcatGGGCTCCTGTCTGTGAAAATCTGGA--ATGTATAATACAGCATACAGCACAATACTG----AC-ACAGTCCTCTGTCTCAGCTCTTCCGGGCTCCTTAATAAGTAAGGTCTCCTTGAAA-GGCAG-AGGTGTATTAGTCAGGGAAGACTGAGAATTTGTAT-GCCAAGGGTAGTAGCTCACACGCCC--CACATTTATGATTCATTTCATCCTCTTCCATGGAGAGAGCAGATGATT-CAGTTGCTGTCAC
i mm10.chr18               I 4 C 0
s dasNov3.JH567306           2541762 251 +   3667625 aatgaaatgattgaatGATGTCTTATCTGCAAAACTCTGAAATATAAATAGTGTGGCTCTTCACTTCATCCTGAAAGAC-ATCATCCTCTATCTCAGTTCCTAAAGATTGTCTAA----TAATGTTTTATTGAAAGGA-AC-ATAGGAATTAGCAACGGAAATCT--GAATGCATCTGTACCAGAACAGGAG--CACACTTTT--TGTACTTCCACTTCGCCACA---GCTTTCATGAAGTCAAAGAAGTATTGCTTTTGTTGTTAT
i dasNov3.JH567306         C 0 C 0

a score=954800.000000
s hg38.chr5_KI270796v1_alt       351 92 +    172708 CAGTGTAC------AAACTGCTGCTTAGTAGGGTTTTTACACAAATGAAGAAGCAATACAATTCAAAAGTCG--TAAGTATAATGGCTCATTACAATCAG
s panTro5.chr5             125110419 92 + 181907262 CAGAGTAC------AAACTGCTGCTTAGTAGGGGTTTTACACAAATGAAGAAGCAATACAATTCAAAAGTCG--TAAGTATAATGGCTCATTACAATCAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126447440 92 + 183735486 CAGAGTAC------AAACTGCTGCTTAGTAGGGGTTTTACACAAATGAAGAAGCAATACAATTCAAAAGTCG--TAAGTATAATGGCTCATTACAATCAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1639138 92 +   8933513 CAGAGTAC------AAACTGCTGCTTAGTAGGGGTTTTACACAAATGAAGAAGCAATACAATTCAAAAGTCG--TAAGTATAATGGCGCATTATAATCAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139770204 91 + 163208435 CAGAGTAC------GAACTGCT-CTTAGTAGGGGTTTTACACAAATGAAGAAACAATACAATTCAAAAGTCG--TAAGCATAATGGCTCGTTACAATCAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122755453 92 + 180051392 CAGAGTAC------AAACTGCTGCTTAGTAGGGGGTTCACATAAATGATGAAGCAATACAATTCAAAAGTCG--TAAGTATAATGGCTCATTACAATCAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124178961 92 + 181584905 CAGAGTAC------AAACTGCTGCTTAGTAGGGGGTTCACATAAATGATGAAGCAATACAATTCAAAAGTCG--TAAGTATAATGGCTCATTACAATCAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16176974 92 +  18395747 CAGAGTAC------AAACTGCTGCTTAGTAGGGGGTTCACATAAATGATGAAGCAATACAATTCAAAAGTCG--TAAGTATAATGGCTCATTACAATCAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5180967 92 +  26952557 CAGAGTAC------AAACTGCTGCTTAGTAGGGGGTTCACATAAATGATGAAGCAATACAATTCAAAAGTCG--TAAGTATAATGGCTCATTACAATCAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28290841 92 +  82825804 CAGAGTAC------AAACTGCTGCTTAGTAGGGGGTTCACATAAATGATGAAGCAATACAATTCAAAAGTCA--TAAGTATAATGGCTCATTACAATCAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3954968 92 -   4237731 CAGAGTAC------AAACTGCTGCTTAGTAGGGGGTTCACATAAATGATGAAGCAATACAATTCAAAAGTCG--TAAGTATAATGGCTCATTACAATCAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      225181 92 -   1175262 CAGAGTAC------AAACTGCTGCTTAGTAGGGGGTTCACACAAATGATGAAGCAATACAATTCAAAAGTCA--TAAGTATAATGGCTCATTACAATCAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123559245 90 - 204313951 CAGAGTAC------AAATTGCTGCTTTAGTAGGGTTTCACACAACTGAAGAAGCAATGCAATTC--GAGTCA--TAAGTATAATGGCTCATGACAATCAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55613080 92 -  71252344 CAGAGTAC------AGATTGCTGCTTTAGTAGGGTTTCACACAACTGAAGAAGCAATACAATTCAAGAGTCA--TAAGTATAATGGCTCATGACAATCAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1306390 92 -   1400280 CAGAGTAC------AAACTGCTGCTTTAGTAGGGTTTCACACAACTGAAGGAGCAATACAATTCAAGAGTCA--TAAGTATAATGGCTCATGACAATCAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13102251 92 -  42888418 CAGAGTAC------AAACTGCTGCTTTAGTAGGGTTTCACACAACTGAAGAAGCAATACAATTCAAGAGTCA--TAAGTATAATGGCTCATGACAATCAG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2979284 89 +   4132165 TAGAATGC-------AACTGTTTCTCT----GGGTTCCACACAAATGAAGAAGCAACCTGACTGGAGAGTGGTTTAAGTTTGGAAGATAATTACAATGAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55447181 78 +  90702639 TAGAGAAT------GAGACACT--TAAGT--GAGTTCCATGCAAATGAGG----------ACTCCAGAGTGG--GAAGTCTGGTAGATCATGTCAATCAC
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2542013 92 +   3667625 TAGAGTACTAAGAAGAACT----CTTGAGTAGAGATCCACACAAATGAAGCAATGAAACAACTC--CAGTGG--CAAGTGTGGTGACTGATTAAAAACTG
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3496138 89 +  11683526 I

a score=676412.000000
s hg38.chr5_KI270796v1_alt       443 52 +    172708 CTGTGAACTAAAACAGGAACAAAACTTGTTGCACTAACTTTTGCGATCAAAT
s panTro5.chr5             125110511 52 + 181907262 CTGTGAACTAAAACAGGAGCAAAACTTTTTGCACTAACTTTTGCGATCAAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126447532 52 + 183735486 CTGTGAACTAAAACAGGAGCAAAACTTGTTGCACTAACTTTTGCGATCAAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1639230 52 +   8933513 CTGTGAACTAAAACAGGAACAAAACTTGTTGCACTAACTTTTGTGATCAAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139770295 52 + 163208435 CTGTGAACTAAAACAGGAACAAAATTTGTTGCACTAACTTTTGCGATCAAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122755545 52 + 180051392 CTGTGAACTAAAACAGGACCAAAACTTGCTGCACTAAGTTTTGCGATCAAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124179053 52 + 181584905 CTGTGAACTAAAACAGGACCAAAACTTGCTGCACTAAGTTTTGCGATCAAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16177066 52 +  18395747 CTGTGAACTAAAACAGGACCAAAACTTGCTGCACTAAGTTTTGCGATCAAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5181059 52 +  26952557 CTGTGAACTAAAACAGGACCAAAACTTGCTGCACTAAGTTTTGCGATCAAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28290933 52 +  82825804 CTGTGAACTAAAACAGGCCCAAAACTTGCTGCACTAAGTTTTGCGATCAAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3955060 52 -   4237731 CTGTGAACTAAAACAGGACCAAAACTTGCTGCACTAAGTTTTGCGATCAAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      225273 52 -   1175262 CTGTGAACTAAAACAGGACCAAAACTTGCTGCACTAAGTTTTGCGATCAAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123559335 52 - 204313951 CTGTGAATTAAAACAGGAACAAAACTTGTTGCACTAACTTTGGCGATCAAAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55613172 52 -  71252344 CTGTGAACTAAAACAGGAACAAAACTTGTTGCACTAGCTTTGACGATCAAAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1306482 52 -   1400280 CTGTGAACTAAAACAGGAACAAAACTTGTTGCACCAACTTTGGTGATCAAAC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13102343 52 -  42888418 CTGTGAACTAAAACAGGAACAAAACTTGTTGCGCTAACTTTGGCGATCAAAC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3496227 52 +  11683526 CTGTGAATTAAAACAAGGACAAAACTTGTCACACTGACTTTTGAGATCAAAT
i proCoq1.NW_012155062v1   I 89 I 136
s otoGar3.GL873679           2979373 52 +   4132165 TTATAAATTCAAACAGGGACGAAACTTGGCATATTGACTTTTGAGATCAAAT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55447259 50 +  90702639 -TACTCGCTTAAACCA-AGCAAATCCCATGACACTAATTGCCCAGGTCAAAT
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2542105 52 +   3667625 CTGTGAATTTAAATAAGGCCAAAACTTGTGAAACTGACTTTTGGGATCAAAT
i dasNov3.JH567306         C 0 C 0

a score=506743.000000
s hg38.chr5_KI270796v1_alt       495 53 +    172708 TTTAGAAGGTTTTGGAAAGAGGGGTGGGGGAAGTGG-GGACAGGGAAAGACAAA
s panTro5.chr5             125110563 53 + 181907262 TTTAGAAGGTTTTGGAAAGAGGGGTGGGGGAAATGG-GGACAGGGAAAGACAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126447584 53 + 183735486 TTTAGAAGGTTTTGGAAAGAGGGGTGGGGGAAATGG-GGACAGGGAAAGACAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1639282 53 +   8933513 TTTAGAAGGTTTTGGAAAGAGGGGTGGGGGAAATGG-GGACAGGGAAAGACAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139770347 53 + 163208435 TTTAGAAGGTTTTGCAAAGAGGGGTGGGGGAAATGG-GGACAGGGAAAGACAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122755597 53 + 180051392 TCTAGAAGTTTTTCCAAAGAGATGTGGGGGAAATGG-GGACAGGGAAAGACAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124179105 53 + 181584905 TCTAGAAGTTTTTCCAAAGAGATGTGGGGGAAATGG-GGACAGGGAaagacaaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16177118 53 +  18395747 TCTAGAAGTTTTTCCAAAGAGATGTGGGGGAAATGG-GGACAGGGAAAGACAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5181111 53 +  26952557 TCTAGAAGTTTTTCCAAAGAGATGTGGGGGAAATGG-GGACAGGGAAAGACAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28290985 53 +  82825804 TCTAGAAGTTTTTCCAAAGAGATGTGGGGGAAATGG-GGACAGGGAAAGACAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3955112 53 -   4237731 TCTAGAAGTTTTTCCAAAGAGATGTGGGGGAAATGG-GGACAGGGAAAGACAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      225325 53 -   1175262 TCTAGAAACTTTTCCAAAGAGATGTGGgggaaatgg-ggacagggaaaggcaaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123559387 53 - 204313951 TCTGGAAGCTTTTTCAAAGAGGGGTGGGGGAAATGG-GGACAGGGAAAGTCAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55613224 50 -  71252344 TCTGGAAGCTTTTGCaaa---gggtaggggaaatgg-ggacagggaaagacaaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1306534 53 -   1400280 TCTGGAAGCTTTTACAAAGAGGGGTGGGGGAAATAG-GGACAGAGGAAGACAAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13102395 53 -  42888418 TCTGGAAGCTTTTGCAAAGAGGGGTGGgggaaatgg-ggacagggaaagacaaa
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2979425 54 +   4132165 GCTAAATGCCCTTAAAAAgagggatggaggagttaatggagaagtaaagaggaa
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55447309 44 +  90702639 GCCAGATGCTTTCTCAAAGAAAGGT-GGGAAGATGG-GG--------AGACAGT
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2542157 18 +   3667625 GTTGTACACTATTGCAAG------------------------------------
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3496279 136 +  11683526 I

a score=591106.000000
s hg38.chr5_KI270796v1_alt       548 64 +    172708 AGGGgagtagagagagatgag------aggaggcaagggagcaaagaaagggggaagggacagaaagagc
s panTro5.chr5             125110616 64 + 181907262 AGGGgagtagagagagatgag------aggaggcaagggagcaaagaaagggggaagggacagaaagagc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126447637 64 + 183735486 AGGGgagtagagagagatgag------aggaggcaagggagcaaagaaagggggaagggacagaaagagc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1639335 64 +   8933513 AGGGgagtagagagagatgag------aggaggcaagggagcaaagaaagggggaagggacagaaagagc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139770400 44 + 163208435 AGGGgagtagagagagatgag------agga--------------------gggaagggacagaaagagg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122755650 64 + 180051392 AGGGGAGTAGAGAAAGATGAG------AGGAGGCAAGGGAGCAAAGTAAGGGGGAAGGGACAGAAAGAGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124179158 64 + 181584905 aggggagtagagaaagatgag------aggaggcaagggagcaaagtaagggggaagggacagaaagagc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16177171 64 +  18395747 AGGGGAGTAGAGAAAGATGAG------AGGAGGCAAGGGAGCAAAGTAAGGGGGAAGGGACAGAAAGAGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5181164 64 +  26952557 AGGGGAGTAGAGAAAGATGAG------AGGAGGCAAGGGAGCAAAGTAAGGGGGAAGGGACAGAAAGAGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28291038 64 +  82825804 AGGAGAGTAGAGAAAGATGAG------AGGAGGCAAGGGAGCAAAGAAAGGTGGAAGGGACAGAAAGAGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3955165 64 -   4237731 AGGGGAGTAGAGAAAGATGAG------AGGAGGCAAGGGAGCAAAGTAAGGGGGAAGGGACAGAAAGAGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      225378 64 -   1175262 aggggagtagagaaagatgag------aggaggcaagggaacaaagaaagggggaagggacagAAAGAGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123559440 60 - 204313951 AGGGGAGTAGAGAGGGATAAG------AAAAGGCAAGGGAGCAAAGAAAGCGGGAAAGGAC----AGAGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55613274 60 -  71252344 aggggagtagagagggatgag------aaaaggcaagggagcaaagaaagggggaaggggc----agagc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1306587 60 -   1400280 AGGGGAGTAGAGAGGGATGAG------AAAAGGCAAGGGAGCAAAGAAAGGGGGAAGGGAC----AGAGC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13102448 60 -  42888418 aggggagcagagagggatgag------aaaaggcaagggagcaaagaaagggggaagggaC----ACAGC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2979479 37 +   4132165 ggaggagtagggag---------------------------------aagggagagaggatagagaggga
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55447353 46 +  90702639 CGGGG----GGAAGCGGTTAG------AGAAAGGGAGGTA------------GGAGGGGATGGAAAGA--
i mm10.chr18               C 0 C 0
s canFam3.chr11             14849971 68 +  74389097 agtagTGTGgggagaggtgaggagagaaagaggaaggggaagaaaaatagagagaatgaatataagaa--
i canFam3.chr11            N 0 C 0
s dasNov3.JH567306           2542175 40 +   3667625 -----------------------------GGGGTAGGATAGGGAGACAAAGAGGAAAGGAAAGTAACTG-
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3496279 136 +  11683526 I

a score=3699261.000000
s hg38.chr5_KI270796v1_alt       612 283 +    172708 agagaaagagagacaga----------atgagacagTGCCATTCAAATAACTTTAAAAAGTTTAGCTCCCAA-GCTATATTCTTGGACTCCAGGAGAAAAATT-----AATTGCAAGGAAATTGTTCAAAATTCAAGTGTACA-----TAACCC-----TTTTACCTACAGGAAATTAATAGTTGCCTTACCTATGGACTAAAGCCAGAAGTTGAGGAATA--AGAATAGTTTGAGATTATACACAGGCCTACAAAAAG------A-----GCTAGATGGGAAGTCAGGATATGTGGGTTTCAGGTA-TGACTTCATGGCTCT
s panTro5.chr5             125110680 283 + 181907262 agagaaagagagacaga----------ATGACACAGTGCCATTCAAATAACTTTAAAAAGTTTAGCTTCCAA-GCTATATTCTTGGACTCCAGGAGAAAAATT-----AATTCCAAGGAAATTGTTCAAAATTCAAGTGTACA-----TAACCC-----TTTTACCTACAGAAAATTAATAGTTGCCTTACCTATGGACTAAAGCCAGAAGTTGAGGAATA--AGAATAGTTTGAGATTATACACAGGCCTACAAAAAG------A-----GCTAGATGGGAAGTCAGGATATGTGGGTTTCAGGTA-TGACTTCATGGCTCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126447701 283 + 183735486 agagaaagagagacaga----------ATGACACAGTGCCATTCAAATAACTTTAAAAAGTTTAGCTTCCAA-GCTATATTCTTGGACTCCAGGAGAAAAATT-----AATTCCAAGGAAATTGTTCAAAATTCAAGTGTACA-----TAACCC-----TTTTACCTACAGAAAATTAATAGTTGCCTTACCTATGGACTAAAGCCAGAAGTTGAGGAATA--AGAATAGTTTGAGATTATACACAGGCCTACAAAAAG------A-----GCTAGATGGGAAGTCAGGATATGTGGGTTTCAGGTA-TGACTTCATGGCTCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1639399 283 +   8933513 agagaaagagagacaga----------atgagacagTGCCATTCAAATAACTTTAAAAAGTTTAGCTTCCAA-GCTATATTCTTGGACTCCAGGAGAAAAATT-----AATTCCAAGGAAATTGTTCGAAATTTGAGTGTACA-----TAACCC-----TTTTACCTACAGAAAATTAATAGTTGCCTTACCTATGGACTAAAGCCAGAAGTTGAGGAATA--AGAATAGTTTGAGATTATACACAGGCCTACAAAAAG------A-----GCTAGATGGGAAGTCAGGATATGTGGGTTTCAGGTA-TGACTTCATGGCTCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139770444 283 + 163208435 agagaaagagagacaga----------atgagacagTGCCATTCAAATAACTTTAAAAAGTTTAGCTTCCAA-GCTATATATTTGGACTCCAGGAGGAAAATT-----AATTCCAAGGAAATTGTTCAAAATACGAGTGTACA-----TAACCC-----TTTTATCTACAGAAAATTAATAGTTGCCTTACCTATGGACTAAAGCCAGAAGTTGAGAAATA--AGAATAGTTTGAGATTATACACAGGCCTACAAAAAG------A-----GCTAGATGGGAAGTCAGGATATGTGGGTTTCAGGTA-TGACTTCATGGCTCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122755714 279 + 180051392 AGAGAAAGAGAGACAGA----------ATGAGACAGTGCCATTCAAATAACTTTGAAAAGTTTAGCTTCCAA-GCCATATTCTTGGACTCCAGGAGAAAAATT-----AATTCCAAGGAAATTCTTCAAAATTTGAGTGTACA-----TAACAC-----TTTTATCTATAGAAAATTAATAGCTGCCTTACCCATGGACTAAAACCGGAAGTCAAGGAATA--AGAATAGTTTGAGATTATACACAGGCCTACAAAAAG---------------AGATGGGAAGTCAGGATATGTGGGTTTCAGGTA-TGACTTCATGGCTCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124179222 277 + 181584905 agagaa--agagacaga----------atgagaCAGTGCCATTCAAATAACTTTGAAAAGTTTAGCTTCCAA-GCTATATTCTTGGACTCCAGGAGAAAAATT-----AATTCCAAGGAAATTCTTCAAAATTTGAGTGTACA-----TAACAC-----TTTTATCTATAGAAAATTAATAGCTGCCTTACCCATGGACTAAAACCGGAAGTCAAGGAATA--AGAATAGTTTGAGATTACACACAGGCCTACAAAAAG---------------AGATGGGAAGTCAGGATATGTGGGTTTCAGGTA-TGACTTCCTGGCTCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16177235 279 +  18395747 AGAGAAAGAGAGACAGA----------ATGAGACAGTGCCATTCAAATAACTTTGAAAAGTTTAGCTTCCAA-GCTATATTCTTGGACTCCAGGAGAAAAATT-----AATTCCAAGGAAATTCTTCAAAATTTGAGTGTACA-----TAACAC-----TTTTATCTATAGAAAATTAATAGCTGCCTTACCCATGGACTAAAACCGGAAGTCAAGGAATA--AGAATAGTTTGAGATTATACACAGGCCTACAAAAAG---------------AGATGGGAAGTCAGGATATGTGGGTTTCAGGTA-TGACTTCATGGCTCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5181228 279 +  26952557 AGAGAAAGAGAGACAGA----------ATGAGACAGTGCCATTCAAATAACTTTGAAAAGTTTAGCTTCCAA-GCTGTATTCTTGGACTCCAGGAGAAAAATT-----AATTCCAAGGAAATTCTTCAAAATTTGAGTGTACG-----TAACAC-----TTTTATCTGTAGAAAATTAATAGCTGCCTTACCCATGGACTAAAACTGGAAGTCAAGGAATA--AGAATAGTTTGAGATTATACACAGGCCTACAAAAAG---------------AGATGGGAAGTCAGGATATGTGGGTTTCAGGTA-TGACTTCATGGCTCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28291102 279 +  82825804 AGAGAAAGAGAGACAGA----------ATGAGACAGTGCCATTCAAATAACTTTGAAAAGTTTAGCTTCCAA-GCTATATTCTTGGACTCCAGGAGAAAAATT-----AATTCCAAGGAAATTCTTCAAAATTTGAGTGTACA-----TAACAC-----TTTTATCTATAGAAAATTAATAGCTGCCTTACCTATGGACTAAAGCTGGAAGTCAAGGAATA--AGAATAGTTTGAGATTATACACAGGCCTACAAAAAG---------------AGATGGGAAGTCAGGATATGTGGGTTTCAGGTA-TGACTTCATGGCTCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3955229 279 -   4237731 AGAGAAAGAGAGACAGA----------ATGAGACAGTGCCATTCAAATAACTTTGAAAAGTTTAGCTTCCAA-GCTGTATTCTTGGACTCCAGGAGAAAAATT-----AATTCCAAGGAAATTCTTCAAAATTTGAGTGTACG-----TAACAC-----TTTTATCTATAGAAAATTAATAGCTGCCTTACCCATGGACTAAAACTGGAAGTCAAGGAATA--AGAATAGTTTGAGATTATACACAGGCCTACAAAAAG---------------AGATGGGAAGTCAGGATATGTGGGTTTCAGGTA-TGACTTCATGGCTCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      225442 275 -   1175262 AGAGAA----AGACAGA----------ATGAGACAGTGCCATTCAAATAACTTGGAAAAGTTTAGCTTCCAA-GCTATATTCTTGGACTCCAGGAGAAAAATT-----AATTCCAAGGAAATTCTTGAAAATTTGAGTGTACA-----TAACAC-----TTTTATCTATAGAAAATTAATAGTTGCCTTACCTATGGACTGAAGCCGGAAGTCAAAGAATA--AGAATAGTTTGAGATTATACACAGACCTACAAAAAG---------------AGATGGGAAGTCAGGATATGTGGGTTTCAGGTA-TGACTTCATGGCTCC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123559500 282 - 204313951 AAAGAAAGAAAGACAGA----------ATTAGACAGTGCCATTCAAATAACTTTAACAAGTTTAGCTTCCAA-GCTGTATTCTTGTACTGGAGGAGAAAAATT-----AATTCCAAGGAAATTCTTCAAAATTTGAGTGTACA-----TAACTC-----TTTTATCTATAGAAAATTAATAGTTGCCTTACCTATAGACTAAAGTCAGAAGTTGAGGATTA--AGAATAGTTTGAGATTATACACAGGCCTACAAAAAG------A-----TCTAGATAGGCATTCAGGATATGTGGGTTTCAGGT--TGATTTCATGGCTCC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55613334 282 -  71252344 aaagaaagagagaCAGA----------ATTAGACAGTGCCATTCAAATAACTTCAACAAGTTTAGCTTCCAA-GCTATATTCTTGGACTGGAGGAAAAAAATT-----AATTCCAAGGAAATTCTTCCAAATTTGAGTGTACA-----TAACTC-----TTTTATCTATAGAAAATTAATAGTTGCCTTACCTATAGACTAAAGCCAGAATTTGAGGAATA--AGAATAGTTTGAGATTATACACAGGCCTACAAAAAG------A-----GCTAGATAGGCAGTCAGGAtatgtgggtttcaggt--tgacatcatggctcc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1306647 282 -   1400280 AACGAAAGAGAGACAGA----------ATTAGACAATGCCATTCAAATAACTTTAACAAGTTTAGCTTCCAA-GTGTTATTCTTGGACTGGAGGAGAAAAATC-----AATTCCAAGGAAATTCTTCAAAATTTGAGTGTACA-----TAACTC-----TTTTATCTATAGAAAATTAATAGTTGCCTTACCTATAGACTAAAGCCAGAAGCTGAGGAATA--AGAATAGTTTGAGATTATACACAGCCCTACAAAAAG------A-----GCTAGATAGGCAGTCAGGATATATGGGTTTcaggt--tgacttcacggctcc
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13102508 282 -  42888418 AAAGAAAGAGAGACAGA----------ATTAGACAGTGCCATTCAAATAACTTTAACAAGTTTAGCTTCCAA-GCTATATTCTTGGACTGGAGGAGAAAAATT-----AATTCCAAGGAAATTCTTCAAAATTTGATTGTACG-----TAACTC-----TTGTATCTATAGAAAATTAATAGTTGCTTTATCTATAGACTAAAGCCAGAAGTTGAGGAATA--AGAATAGTTTGAGATTATACACAGGCCTACAAAAAG------A-----GCTAGATAGGTAGTCAGGAtatgtgggtttcaggt--tgacttcatggctcc
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3496415 288 +  11683526 agagagagagagagaAT----------GTCACACAGTGCCCTTTAAATTACTTTTAACAGTTTAGCCTTCAA-GTTATATTCTTGGACTCCAGGAGGAAAATA-----AATTCTAAGGAAATTCTTTAAAATTCTGGTGTACG-----TAACTCAACTTTTGCATCTACAGAAAATTAATAATTGCCTTACCTATGGATTAAAGCCAGCAATTGAGAAGTA--AGAATAGTTTAGGATTATATATAGCCCTgcgaagag------a-----gctagactagaattcaggatatgtgggttctagGTG-TGACTTCATGGTTCT
i proCoq1.NW_012155062v1   I 136 I 7181
s otoGar3.GL873679           2979516 281 +   4132165 -------aggagagagA----------CTCTTACAGTGCCTTTCATATTACCTTAAAAAGTTTAGCCTTCAATTTTATATTCTTAGATTCCATGAAGAAAATA-----AATTTCAAGGAAATTATTTTAAAGTTTAGTGTACA-----TCACTCAAATTTTATATCTACAGAAAATTAATAATTGCCTTTTCTATGGATTAAATACAACAATT-AGAGGGA--AGAAGACTTTAGTATTATACACAGTCCCACAAAGAG------A-----GCTAGACTAGAAATCAGGATATGTTGGCTCCAGGTG-TGACCTCATGGGTTC
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55447399 227 +  90702639 ----------AGGCATC----------TTGAAACA---------------------------CAAGTTCCAG-GTTCTGTTTTTAGACCCCCTGA----------------------GAGATTATTGAACATTATATAGTACACCACTCAACTC-----TCTCCTCTACAGAAATGTAATCAGTGCCTTGCACAG----TAAAGCCAGTCTTTGAAGAGTGGTATAACAGGTTGAGGTTATACACAGTCTGGCAAAAAG-----GA-----CCCAGATTCAAAGCCAGGC------GATTGGAGGTG-TATCCACAGGCCACT
i mm10.chr18               C 0 I 1
s canFam3.chr11             14850039 298 +  74389097 agagagagagagaaggagggagGTGTTATTATACAGTGCCTTTTGAATTACTTTTAAAAGTTGAGCTTTCAA-GTTACATTCTTGGACTCCAAGAGAGACATA-----AACTCTAAGGAAGTTCTTTAAAATCCTAGCATATC-----TAACTCAACT-TTTTCTCCACAGAAAATT----GCTGCCTAACCTGTGGATTAAAGTCAGCAGTTGATGAATA--AGAATAGTTTAAAATCACATATAGCTCTGCAAAAGGGAATTGG-----ACTAGATA-GAAGTCAGGATATATAAGTTCTAAGTG-TCACTTCATAGATCT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2542215 295 +   3667625 ---GGAACTTTAATGGA----------ATTATATAGGGACTTTCAAATTACTTTCAAAGGTTTAGTTTCCAA-GGTGAATCCTTGGACACAGTGAGAAAAATTAAGGAAACTCCAAGGGAAATATTTAAAATCCTAGTATACA-----TAACTCAACTATTTTATCTAGAGAAAATTGATAGTTGCCTTATTTATGGATTAAAGCCAAAAGTTGCAGTATA--AGAATAGTTTCAGATCCTATGCAA-TCTACAACAAG------AAGAGTGCTGTACCAGAAGTCAGGCCACATGGACTTCAGGTGTttacttcatggctct
i dasNov3.JH567306         C 0 C 0

a score=274167.000000
s hg38.chr5_KI270796v1_alt       895 24 +    172708 ATTACTCTTTCTTTGTAATGAGAA
s panTro5.chr5             125110963 24 + 181907262 ATTACTCTTTCGTTGTAATGAGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126447984 24 + 183735486 ATTACTCTTTCGTTGTAATGAGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1639682 24 +   8933513 ATTACTCTTTCTTTGTAATTAGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139770727 24 + 163208435 AGTACTCTTTCTTTGTAATTAGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122755993 24 + 180051392 AGTACTCTTTCTTTGTAATTAGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124179499 24 + 181584905 AGTACTCTTTCTTTGTAATTAGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16177514 24 +  18395747 AGTACTCTTTCTTTGTAATTAGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5181507 24 +  26952557 AGTACTCTTTCTTTGTAATTAGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28291381 24 +  82825804 AGTACTCTTTCTTTGTAATTAGGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3955508 24 -   4237731 AGTACTCTTTCTTTGTAATTAGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      225717 24 -   1175262 AGTACTCTTTCTTTGTAATTAGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123559782 24 - 204313951 AGGACTCATTCTTTGTAATTAGAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55613616 24 -  71252344 aggactcattctttgtaattagaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1306929 24 -   1400280 aggactcattctttgtaattagaa
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13102790 24 -  42888418 aggactcattctttgtaattagaa
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2979798 24 +   4132165 TGGCTTCATTCCTTATAATCAGAA
i otoGar3.GL873679         I 1 I 7022
s mm10.chr18                55447627 23 +  90702639 AGT-CTTACTCTGTGTAGTCAGAA
i mm10.chr18               I 1 I 1
s canFam3.chr11             14850337 24 +  74389097 GAATCTCATTCTTTATGATCAGAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2542510 24 +   3667625 gggtcttcttctttatctctagag
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3496703 7181 +  11683526 I

a score=392324.000000
s hg38.chr5_KI270796v1_alt       919 36 +    172708 AAAAGAATTTTGGGTTTTGGTCTAGGTGCCTCAAAG
s panTro5.chr5             125110987 36 + 181907262 AAAAGAATTTTGGGTTTTGGTCTAGGTGCCTCAAAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126448008 36 + 183735486 AAAAGAATTTTGGGTTTTGGTCTAGGTGCCTCAAAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1639706 36 +   8933513 AAAAGAATTTTGGGTTTTGGTCTAGGTGCTTCAAAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139770751 36 + 163208435 AAAAGAATTTTGGGTTTTGGTCTAGGTGCCTCAAAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122756017 36 + 180051392 AAAAGAATTTTGGGTTTTGGTCTAGGTGCCTCAAAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124179523 36 + 181584905 AAAAGAATTTTGGGTTTTGGTCTAGGTGCCTCAAAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16177538 36 +  18395747 AAAAGAATTTTGGGTTTTGGTCTAGGTGCCTCAAAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5181531 36 +  26952557 AAAAGAATTTTGGGTTTTGGTCTAGGTACCTCAAAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28291405 36 +  82825804 AAAAGAATTTTGGGTTTTGGTCAAGGTGCCTCAAAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3955532 36 -   4237731 AAAAGAATTTTGGGTTTTGGTCTAGGTACCTCAAAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      225741 36 -   1175262 AAAAGAATTTTGGGTTTTGGTCTAGGTGCCTCAAAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123559806 36 - 204313951 AAAGGAGTTTTAGGTTTTGGTCTAGGTGTCTCAAAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55613640 36 -  71252344 aaaagagttttaggttttggtctaggtgtctcaaag
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1306953 36 -   1400280 aaaggagttttagattttggtctaggcgtctcaaag
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13102814 36 -  42888418 aaaggagttttaggttttggtctaggtgtctcaaag
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55447651 28 +  90702639 AGAAGAGCTATCCAT--------AGCAATCTCAAGG
i mm10.chr18               I 1 C 0
s canFam3.chr11             14850361 25 +  74389097 -----------GAGTTTTGTAGTAGGAATTTCAAGG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2542534 32 +   3667625 --aagagtgttca--tacgtactaggtgtttcagag
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3496703 7181 +  11683526 I
e otoGar3.GL873679           2979822 7022 +   4132165 I

a score=1177955.000000
s hg38.chr5_KI270796v1_alt       955 120 +    172708 GCCTCTTCTAGTTTTAAAATGT-CATGTTA-GAG-AAAAAATATTTTTATAGGAGTATA---------AAATTTACAAAAATAGGTAAC-----ATATGCTATGGACAAAGAGAAT-TCAGATTA---TGATAAAACAGAG
s panTro5.chr5             125111023 120 + 181907262 GCCTCTTCTAGTTTTAAAATGT-CATGTTA-GAG-AAAAAATATTTTTATAGGAGTATA---------AAATTTACAAAAATAGGTAAC-----ATATGCTATGGACAAAGAGAAT-TCAGATTA---TGATAAAACAGAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126448044 120 + 183735486 GCCTCTTCTAGTTTTAAAATGT-CATGTTA-GAG-AAAAAATATTTTTATAGGAGTATA---------AAATTTACAAAAATAGGTAAC-----ATATGCTATGGACAAAGAGAAT-TCAGATTA---TGATAAAACAGAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1639742 120 +   8933513 GCCTCTTCTAGTTTTAAAATGT-CATGTTA-GAG-AAAAAATATTTTTATAGGAGTATA---------AAATTTACAAAAATAGGTAAC-----ATATACTATGGACAAAGAGAAT-TCAGATTA---TGATAAAACAGAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139770787 120 + 163208435 GCCTCTTCTAGTTTTAAAATGT-CATGTTA-GAG-AAAAAATATTTTTGTAGGAGTATA---------AAATTTACAAAAATATGTAAC-----ATATACTATGGACAAAGAGAAT-TCAGATTA---TGATAAAACAGAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122756053 113 + 180051392 GCCTTTTCTAGTTTTAAAATGT-CATGTTA-GAG-AAAAAATATTTTTATATGAGTATA---------AAATTTACAAAAAAATATAGC------------ATGGACAAAGAGAAT-TCAGATTA---TGATGAAACAGAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124179559 113 + 181584905 GCCTTTTCTAGTTTTAAAATGT-CATGTTA-GAG-AAAAAATATTTTTATATGAGTATA---------AAATTTACAAAAAAATATAGC------------ATGGACAAAGAGAAT-TCAGATTA---TGATGACACAGAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16177574 113 +  18395747 GCCTTTTCTAGTTTTAAAATGT-CATGTTA-GAG-AAAAAATATTTTTATATGAGTATA---------AAATTTACAAAAAAATATAGC------------ATGGACAAAGAGAAT-TCAGATTA---TGATGAAACAGAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5181567 114 +  26952557 GCCTTTTCTAGTTTTAAAATGT-CATGTTA-GAGAAAAAAATATTTTTATATGAGTATA---------AAATTTACAAAAAAATATAGC------------ATGGACAAAGAGAAT-TCAGATTA---TGATAAAACAGAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28291441 113 +  82825804 GCCTTTTCTAGTTTTAAAATGT-CATGTTA-GAG-AAAAAATATTTTTATATGAGTATA---------AAATTTACAAAAAAATATAGC------------ATGGACAAAGAGAAT-TCAGATTA---TGATAAAACAGAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3955568 114 -   4237731 GCCTTTTCTAGTTTTAAAATGT-CATGTTA-GAGAAAAAAATATTTTTATATGAGTATA---------AAATTTACAAAAAAATATAGC------------ATGGACAAAGAGAAT-TCAGATTA---TGATAAAACAGAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      225777 113 -   1175262 GCCTTTTCTAGTTTTAAAATGT-CATGTTA-GAG-AAAAAATATTTTTATATGAGTATA---------AAATTTACAAAGAAATATAGC------------ATGGACAAAGAGAAT-TCAGATTA---TGATAAAACAGAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123559842 118 - 204313951 GTCTCTTCTAGTTTTAAAATGT-CATTTTA-GAA-AAAAAAGATTTTTGTAGGAGTATA---------AAATTTGC--AAAAAAGTAAC-----GTGTACTACCAAAAAAGAGAAT-TCAGATTA---CTATAAAATAGAG
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55613676 120 -  71252344 gtctcttctagttttaaaatgc-catgTTA-GAG-ATAAAAGATTTTTATAGGCGTATA---------AAATTTGCATAAAAAAGTAAC-----ATATACTACCAACAAAGAGAAT-TCAGATTA---CGATAAAACAGAT
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107829v1     1306989 120 -   1400280 gtctcttctagttttaaaatgt-catgTTA-GAG-AAAAAAGATTTTTATAGGAGTATA---------AAATTTGCAAAAAAAAGTAAC-----ATATACTACCAACAAAGAAAAT-TCAGATTA---CGATAAAACAGAG
i cebCap1.NW_016107829v1   C 0 I 1
s aotNan1.NW_018505940v1    13102850 117 -  42888418 gtctcttctagttttaaaatgt-catgTTA-GAG-AAAAAAGATTTTTATAGGAGTATA---------AAATTTGC---AAAAAGTAAC-----ATATACTACCAACAAAGATAAT-TCAGATCA---TGATAAAATAGAG
i aotNan1.NW_018505940v1   C 0 I 1
s otoGar3.GL873679           2986844 120 +   4132165 GTCCCTTCCAATTTTAAAGCAT-TATGTTA-CAA-AAAG------TTTATGCAAGTATG---------GAATAACCAAAAAAAAAGAGAGTCATGTGTAGTATGGACAGTAAAAACATCAGATTG---CAATAAAGCAATT
i otoGar3.GL873679         I 7022 I 4
s mm10.chr18                55447679 127 +  90702639 GCTTCTTTCCATCTCAACATATACATTTTG-AAA-ACAAA----TCATATGGGAGTATGAAAGAAAACAAACAAACAAACAAAAGCAAG-----ACATAAAATGAACAAAGAAAAAGTAAGACTA---TCAAGATAATTAG
i mm10.chr18               C 0 I 2
s canFam3.chr11             14850386  92 +  74389097 GTCTCTTCTAGTTTTAAAACTT--------------------------ATGGGGGTATG---------aaata---aaaaatatatatt-----at-----ataaaCAGAGGAAAA-TCAGATTACAGTGATAAAATTAGA
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2542566 116 +   3667625 gttccttctaattttaaagtat-tatgttatgaA-AATGAAGACTTTTATGGGGGTATT---------GAAT--AATAATAATAGTAAC-------AGACCACAAACA-AGAAAAT-CCAGATTA---CAGTGAAACAAAT
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3496703 7181 +  11683526 I

a score=1556199.000000
s hg38.chr5_KI270796v1_alt      1075 89 +    172708 AAAACTGAGGTCCCTAATATACCAAATATTACAGAAAAG--AAAGACTCTTTACTCCAGATGGCTAATTGAATAGAAGATTTCTGTGAATG
s panTro5.chr5             125111143 89 + 181907262 AAAACTGAAGTCCCTAATATACCAAATATTACAGAAAAG--AAAGACTCTTTACTCCAGATGGCTAATTGAATAGAAGATTTCTGTGAATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126448164 89 + 183735486 AAAACTGAAGTCCCTAATATACCAAATATTACAGAAAAG--AAAGACTCTTTACTCCAGATGGCTAATTGAATAGAAGATTTCTGTGAATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1639862 88 +   8933513 AAACCTGAGGTCCCTATTACACCAAATATTACAGAAAAG--AAA-ACTCTTTGCTCCAGATGGCTAATTGAATAGAAGATTTCTGTGAATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139770907 89 + 163208435 AAAACTGAAGTCCCTAACATACCAAATATTACAGAAAAG--AAAGACTCTTTACTCCAGATGGCTAACTGAATAGAAGATTTCTGTGAATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122756166 89 + 180051392 AAAACTGAAGTCCCTAATATACCAAATATTACAGAAAAG--AAAGACTCTTTACTCCAGATGGCTAATTAAATAGAAGATTTGTGTGAATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124179672 89 + 181584905 AAAACTGAAGTCCCTAATATACCAAATATTACAGAAAAG--AAAGACTCTTTACTCCAGATGGCTAATTAAATAGAAGATTTGTGTGAATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16177687 89 +  18395747 AAAACTGAAGTCCCTAATATACCAAATATTACAGAAAAG--AAAGACTCTTTACTCCAGATGGCTAATTAAATAGAAGATTTGTGTGAATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5181681 89 +  26952557 AACACCGAAGTCCCTAATATACCAAATATTACAGAAAAG--AAAGACTCTTTACTCCAGATGGCTAATTAAATAGAAGATTTGTGTGAATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28291554 89 +  82825804 AAAACCGAAGTCCCTAATATACCAAATATTACAGAAAAG--AAAGACTCTTTACTCCAGATGGCTAATTAAATAGAAGATTTGTGTGAATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3955682 89 -   4237731 AAAACCGAAGTCCCTAATATACCAAATATTACAGAAAAG--AAAGACTCTTTACTCCAGATGGCTAATTAAATAGAAGATTTGTGTGAATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      225890 89 -   1175262 AAAACCGAAGTCCCTAATATACCAAATATTACAGAAAAG--AAAGACTCTTTACTCCAGATGGCTAATTGAATAGAAGATTTGTGTGAATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123559961 83 - 204313951 AAAACTTAAGTCCCTAATATACCAAATATTACA-AAAAA--AAAGACTCTTTATTCCAGATGGCT-----AATAGAAGATTTGTGTGAATG
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55613797 89 -  71252344 AAAACTTAAGTCCCTAATATACCAAATATTACAGAAAAG--AAAGACTCTTTATTCCAGATGGCTAATTGAATAGAAGATTTGTGTGAATG
i saiBol1.JH378106         I 1 C 0
s cebCap1.NW_016107829v1     1307110 89 -   1400280 AAAACTTAAGTCCCTAATATACCAAATATTACAGAAAAG--AAAGACTCTTTATTCCAGATGGTTAATTGAACAGAAGATTTGTGTGAATG
i cebCap1.NW_016107829v1   I 1 C 0
s aotNan1.NW_018505940v1    13102968 89 -  42888418 AAAACTTAAGTGCCTAATATACCAAATATTACAGAAAAG--AAAGACTCTTTATTCCAGATGGCTAATTGAATAGAAGATTTGTGTGAATG
i aotNan1.NW_018505940v1   I 1 C 0
s micMur3.chr12             60466775 90 + 108143057 AAAACTGAAGACCCTAATATACCAAATATTACATATAAGA-AAAGGCTCTTCACTCCAGATGGCTAATAGAATAGAATATTTGTGTGAATG
i micMur3.chr12            N 0 C 0
s proCoq1.NW_012155062v1     3503884 90 +  11683526 AAAACTGAAGACCCTAATATACCAAATATTACAAACAAGA-AAAGGCTCTTTACTCCAGATGGCTAATTGAATAGAATATTTGTGTGAATG
i proCoq1.NW_012155062v1   I 7181 C 0
s otoGar3.GL873679           2986968 91 +   4132165 GAAACTGAAGTCTCCAATATACCAGATATTGCACAAAAAAGAAAGGCTCTTTACTCCAGATGGCTAATTGAATAGAGTATTTGTGTAAATG
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55447808 88 +  90702639 AAAACTGA-GCCTCCAGACTATCAGATATCATAGTGAAG--AAGGGCCATTCACTCCAGATGGCTGATTGGATTGAAGATTTGTATGGATA
i mm10.chr18               I 2 C 0
s canFam3.chr11             14850479 89 +  74389097 AAAACTGAAGTCCCCAATATACCAGATATTGCAGAAAAG--AAAGGCTCTTTATTCCAGATGGCTAATTGAATCAAAGATTTGTGTGAATG
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2542682 89 +   3667625 AAAACTAAAGTCCCCAATAAACCAACTATTGCAGAAAAG--GAAGGCTCTTTGTTCCAGATGACTAATTGAATAGAAGATTTGTGTGACtg
i dasNov3.JH567306         C 0 I 553

a score=1178137.000000
s hg38.chr5_KI270796v1_alt      1164  85 +    172708 CACATGAAAATGGCAAGAGTAGACATAAACTTGGTGTGAAATAAATCAGAACAACCATGCA---------TTTTTTT---ACAGT---------------------------------GTAGAA-ACTTGT------
s panTro5.chr5             125111232  86 + 181907262 CACATGAAAATGGCAAGAGTAGACATAAACTTGGTGTGAAATAAATCAGAACAACCATGCA---------TTTTTTT--TACAGT---------------------------------GTAGAA-ACTTGT------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126448253  86 + 183735486 CACATGAAAATGGCAAGAGTAGACATAAACTTGGTGTGAAATAAATCAGAACAACCATGCA---------TTTTTTT--TACAGT---------------------------------GTAGAA-ACTTGT------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1639950  88 +   8933513 CACATGAAAATGGCAAGAGTAGACATAAACTTGGTGTGAAATAAATCAGAACAACCATGCA---------TTTTTTTTTTACAGT---------------------------------GTAGAA-ACTTGT------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139770996  88 + 163208435 CACATGAAAATGGCAAGCATAGACATAAACTTGGTGTGAAATAAATCAGAACAATCATGCA---------TTTTTTTTTTACAGT---------------------------------GTAGAA-ACTTGT------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122756255  89 + 180051392 CACATGAAAATGACAAGCATAGACATAAACTTGGTGTGAAATAAATCAGAACAATCGTGCA--------TTTTTTTTTTTACAGT---------------------------------GTAGAA-ACTTGT------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124179761  89 + 181584905 CACATGAAAATGACAAGCATAGACATAAACTTGGTGTGAAATAAATCAGAACAATCGTGCA--------TTTTTTTTTTTACAGT---------------------------------GTAGAA-ACTTGT------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16177776  88 +  18395747 CACATGAAAATGACAAGCATAGACATAAACTTGGTGTGAAATAAATCAGAACAATCGTGCA---------TTTTTTTTTTACAGT---------------------------------GTAGAA-ACTTGT------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5181770  92 +  26952557 CACATGAAAATGACAAGCATAGACATAAACTTGGTGTGAAATAAATCAGAACAATCGTGCTTT-----TTTTTTTTTTTTACAGT---------------------------------GTAGAA-ACTTGT------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28291643  86 +  82825804 CACATGAAAATGACAAGCATAGACATAAACTTGGTGTGAAATAAATCAGAACAATCGTGCA-----------TTTTTTTTACAGT---------------------------------GTAGAA-ACTTGT------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3955771  91 -   4237731 CACATGAAAATGACAAGCATAGACATAAACTTGGTGTGAAATAAATCAGAACAATCGTGCA-T-----TTTTTTTTTTTTACAGT---------------------------------GTAGAA-ACTTGT------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      225979  85 -   1175262 CACATGAAAATGGCAAGCAGAGACGTAAACTTAGTGTGAAATAAATCAGAACAATCGTGCA------------TTTTTTTACAGT---------------------------------GTAGAA-ATTTGT------
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123560044  89 - 204313951 TGCATGAAAATGGCAAGCATAGACATAAACTTGGAGTGAAATAAATCAGAAAAATCATGTA-G-----TTTTTTTTT--AACAAT---------------------------------ATAGAA-ACTTGT------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55613886  91 -  71252344 CACATGAAAATGGCAAACATAGACATAAACTTGGAGTGAAATAAATCAGAACAATTGTGTA-G-----TTTTTTTTTTCTAAAGT---------------------------------GTAGAA-ACTTGT------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1307199  96 -   1400280 CACATGAAAATGGTAAGCATAGACATAAACTTGGAGTGAAATAAATCAGAACAATCATGTA-GGTTTTTTTTTTTTTTTACCAGT---------------------------------GTAGAA-ACTTGT------
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13103057  94 -  42888418 CACATGAAAATGGCAAGCATAGACATAAACTTGGAGTGAAATAAATCAGAACAATCATGTA-G--TGTTTTTTTTTTTTTACAGT---------------------------------GTAGAA-ACTTGT------
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60466865  85 + 108143057 CACATGAAAATGGCATGCAGAGACATAAACCTGATGTGAAATAAATAAGAACAATCATGC------------TGTTGTTTTAAAT---------------------------------GTGGAA-ACTTAT------
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3503974  87 +  11683526 CACATGAAAATGGCATGCATAGACATAAACCTGGTGTGAAATAAATCAGAACAATCATGCA----------GTTTTTTTTTAAAT---------------------------------GTGGAA-ACTTAT------
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2987059  86 +   4132165 CACATGAAAATGGCATACAAAGACATAAACTTGGTGTGAAATAAATTAGAACAATCATGCA----------GTTTTG-TAAAAAT---------------------------------GTCGAA-ACTTGT------
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55447896 128 +  90702639 GACATGAGAATAACAAGCAAGGGCTTAGCGTGGATGGGAACTATACCACGGGATTCATGCA---GatttttttttttttttaaataGGAATTCCTCAggagtaggtttagctcagttggtagagtgcttgt------
i mm10.chr18               C 0 I 186
s canFam3.chr11             14850568  85 +  74389097 CACATGAAAATGGCATGCATAGACATAAACTTGGTACTAAATAAATCAAAATAATCATGCA---------GCTTTTTCTCA---T---------------------------------GTAAAA-ACTTCT------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2543324  95 +   3667625 --CACAAGAGTGGCATGCAAAGACAGAATGTGAGTGTGAAATAAATTGGAACAATCATGAG------TTTTGTTCTTTTTCAAAT---------------------------------GTAGAA-CCCTCATTTCCT
i dasNov3.JH567306         I 553 C 0

a score=9373151.000000
s hg38.chr5_KI270796v1_alt      1249 662 +    172708 ATTTATAAACAAGGA-AACAAGAAAAGTGAAGGACAGAAT-AAGATAAAGGAGCACATGTAACTC----ATATATTCTAGGTTCAATGCATTAGTGAAAATGACAGATAAAAAGAA-A---TTTTTTCTCCTTCTTGGATCCATTACAAGGTATTTGTAGAGAC--TGAATACTATTTCAGCTAATGTGTGTAGAAGCTCTGGATTTTCCTACTAAAAACAG-----CA---CTTTTTTTTTTT--------AACAGTCTGACTTTTAACAATC--AGAGATTAAATGGAGCATGTGTTGAGACTCTCCATCTTTGGCATTCCAACTGTTTTTTCATAAAAATGAAAA----ATAAAAAA---CA--C-AAAATGC--AAAAAACACTGTATCACATAAATAACAC-ATTA-GTTGCTATTTCTTCTGCTTGATGAGAC-TTTTTCTTGATTCAGTCAGCTCTATATCTCT----GGCACAGAAAACCT-GGGGAAAGGGGAT-GAAGGGAT-AGCAAACATGAAATCAATTCTTGTTCTCATTAAGTGAATTCTTTCACATTAAGTGAAAGA-AAGAAAAAGATAACAGATTAGTTGTCCACCACCAAATTGCCTGGATGGTAATGGACAG-AAAAAAAATGAAATGGCATAAAT-TGAT-ATGATT---------------------ATCAGTAGATTTACATC----CAATTTCTGAGCTCTCGATGAGTGTGTAGCTAA
s panTro5.chr5             125111318 661 + 181907262 ATTTATAAACAAGGA-AACAAGAAAAGTGAAGGACAGAAT-AAGATAAAGGAGCACATGTAACTC----ATATATTCAAGGTTCAATGCATTAGTGAAAATGACAGATAAAAAGAA-A---TTTTTTCTCCTTCTTGGATCCATTACAAGGTATTTGTAGAGAC--TGAATACTATTTCAGCTAATGTGTGTAGAAGCTCTGGATTTTCCTACTAAAAACAG-----CA---CTTTTTTTTTT---------AACAGTCTGACTTTTAACAATC--AGAGATTAAATGGAGCATGTGTTGAGACTCTCCATCTTTGGCATTCCAACTGTTTTTTCATAAAAATGAAAA----ATAAAAAA---CA--C-AAAATGC--AAAAAACACTGTATCACATAAATAACAC-ATTA-GTTGCTATTTCTTCTGCTTGATGAGAC-TTTTTCTTTATTCAGTCAGCTCTATGTGTCT----GGCACAGAAAACCT-GGGGAAAGGGGAT-GAAGGGAT-AACAAACATGAAATCAATTCTTGTTCTCATTAAGTGAATTCTTTCACATTAAGTGAAAGA-AAGAAAAAGATAACAGATTAGTTATCCACCACCAAAGTGCCTGGGTGGTAATGGACAG-AAAAAAAATGAAATGGCATAAAT-TGAT-ATGATT---------------------ATCGGTAGATTTGCATC----CAATTTCTGAGCTCTCGATGAGTGTGTAGCTAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126448339 658 + 183735486 ATTTATAAACAAGGA-AACAAGAAAAGTGAAGGACAGAAT-AAGATAAAGGAGCACATGTAACTC----ATATATTCAAGGTTCAATGCATTAGTGAAAATGACAGATAAAAAGAA-A---TTTTTTCTCCTTCTTGGATCCATTACAAGGTATTTGTAGAGAC--TGAATACTATTTCAGCTAATGTGTGTAGAAGCTCTGGATTTTCCTACTAAAAACAG-----CA---CTTTTTTTTT----------AACAGTCTGACTTTTAACAATC--AGAGATTAAATGGAGCATGTGTTGAGACTCTCCATCTTCGGCATTCCAACTG-TTTTTCATAAAAATGAAAA----AT-AAAAA---CA--C-AAAATGC--AAAAAACACTGTATCACATAAATAACAC-ATTA-GTTGCTATTTCTTCTGCTTGATGAGAC-TTTTTCTTTATTCAGTCAGCTCTATGTGTCT----GGCACAGAAAACCT-GGGGAAAGGGGAT-GAAGGGAT-AACAAACATGAAATCAATTCTTGTTCTCATTAAGTGAATTCTTTCACATTAAGTGAAAGA-AAGAAAAAGATAACAGATTAGTTATCCACCACCAAAGTGCCTGGATGGTAATGGACAG-AAAAAAAATGAAATGGCATAAAT-TGAT-ATGATT---------------------ATCGGTAGATTTGCATC----CAATTTCTGAGCTCTCGATGAGTGTGTAGCTAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1640038 661 +   8933513 ATTTATAAACAAGGA-AACAAGAAAAGTGAAGGACAGAAT-AAGATAAAGGAGCACATGTAACTC----ATATATTCAAGGTTCAATGCATTAGTGAAAATGACAGATAAAAAGAATT---TTTTTTTTCCTTCTTGGATCCATTACAAGGTATTTGTAGAGAC--TGAATACTATTTCAGCTAATGTGTGTAGAAGCTCTGGATTTTCCTACTAAAAACAG-----CA---CTTTTTTTT-----------AACAGTCTGACTTTTAACAATC--AGAGATTAAATGGAGCATGTGTTGAGACTCTCCATCTTTGGCATTCCAACTGTTTTTTCATAAAAATGAAAA----ATAAAAAA---CA--C-AAAATGC--AAAAAACACTGTATCACATAAATAACAC-ATTA-GTTGCTATTTCTTCTGCTTGATGAGAC-TTTTTCTTGATTCAGTCAGCTCTATGTCTCT----GGCACAGAAAACTTGGGGGAAAGGGGAT-GAAGGGAT-AGCAAACATGAAATCAATTCTTGTTCTCATTAAGTGAATTCTTTCACATTAAGTGAAAGA-AAGAAAAAGATAACAGATTAGTTATCTACCACCAAAGTGCCTGGATGGTAATGGACAG-AAAAAAAATGAAATGGCATAAAT-TGAT-ATGATT---------------------ATCAGTAGATTTGCATC----CAATTTCTGAGCTCTTGATGAGTGTGTAGCTAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139771084 660 + 163208435 ATTTATAAACAGGGA-AACAAGAAAAGTAAAGGACAGAAT-AAGATAAAGGAGCACATGTAACTC------ATATTCAAGGTTCATGGCATCAGTGAAAATGACAGATAAAAAGAA-C---TTTTTTTTCCTTCTTGGATCCATTACAAGGTATTTGTAGAGACTGTGAATACTATTTCAGCTAATGTGTATAGAAGCTCTGGATTTTCCTACTAAAAACAG-----CA---CTTTTTTTTTT---------AACAGTCTGACTTTTAACAATC--AGAGATGAAATGCAGCATGTGTTGAGACTCTCCATCTTTGGCATTCCAACTGTTTTTTCATAAAAATGAAAA----A--AAAAC---CA--C-AAAATGC--AAAAAACACTGTATCACACAAATAACAC-ATTA-GTTGCTATTTCTTCTGCTTGATGAGCC-TTTTTCTTGATTCAGTCAGCTCTATGTCTCT----GGCACAGAAAATCTGGGGGAAAGGGGAT-GAAGGGAT-AGCAAACATGAAATCAATTCTTGTTCTCATTAAGTGAATTCTTTCACATTAAGTGAAAGA-AAGAAAAAGATAACAGATTAGTTATCCACCACCAAAGTGCCTGGATGGTAATGGATAG-AAAAAAAATTAAATGGCATAAAT-TGAT-ATGATT---------------------ATCAGTAGATTTGTATC----CAATTTCTGAGCTCTTGATGAGTGTGTAGCTAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122756344 663 + 180051392 ATTTAGAAACTAGGA-AACAAGAAAAGTAAAGGACAGAAT-AAGATAAAGGAGCACATGTAACCC--TTATATACTCAAAGTTCATGACATTAGTGAAAATGACAGATAAAAATAACT---TTTTTTTTCCTTCTTGGATCCATTAAAAGGTGTTTGCAGAGAC--TGAATACTATTTCAGCTAATGTGTATAGAAGCTCTGGCTTTTCCTACTAAAAACAG-----CATTTTTTTTTTTTT----------CACAGTCTGACTTTTAACAATC--AGAGATTAAATGGAGCATGTGTTGAGACTCTCCATCTTTGGCATTCCAACTGTTTTTACATAAAAATGAAAA----ATAAAAAA---CA--C-AAAATGC--AAAAAACACTGTATCACATAAATAACAC-ATTA-GTTGCTATTTCTTCTGCTTGATGAGAC-TTTTTCTTGATTCAGTCAGCCCTATGTCTCT----GGCACAGAAAATTTGGGGGAAAGGGGAT-GAAAGGAT-AGCAAACATGAAATCAATTCTTGTTCTCATTAAGCGAATTCTTTCACATTAAGT----AA-AAGGAAAAGATAACAGATTAGTAATCCACCACCAAAGTGCCTGGATGGTAATGGACAG-AAAAAAATTGAAATGGCATAAAT-TGAT-ATGATT---------------------ATCAGTAGATTTGCATC----CAATTTCTGAGCTCTTGATGAGTGTGTAGCTAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124179850 661 + 181584905 ATTTAGAAACTAGGA-AACAAGAAAAGTAAAGGACAGAAT-AAGATAAAGGAGCACATGTAACCC--TTATATACTCAAAGTTCATGACATTAGTGAAAATGACAGATAAAAAGAACT---TTTTTTTTCCTTCTTGGATCCATTAAAAGGTGTTTGTAGAGAC--TGAATACTATTTCAGCTAATGTGTATAGAAGCTCTGGCTTTTCCTACTAAAAACAG-----CA---TTTTTTTTTT----------CACAGTCTGACTTTTAACAATC--AGAGATTAAATGGAGCATGTGTTGAGACTCTCCATCTTTGGCATTCCAACTGTTTTTACATAAAAATGAAAA----ATAAAAAA---CA--C-AAAATGC--AAAAAACACTGTATCACATAAATAACAC-ATTA-GTTGCTATTTCTTCTGCTTGATGAGAC-TTTTTCTTGATTCAGTCAGCCCTATGTCTCT----GGCACAGAAAATTTGGGGGAAAGGGGAT-GAAAGGAT-AGCAAACATGAAATCAATTCTTGTTCTCATTAAGCAAATTCTTTCACATTAAGT----AA-AAGGAAAAGATAACAGATTAGTAATCCACCACCAAAGTGCCTGGATGGTAATGGACAGAAAAAAAATTGAAATGGCATAAAT-TGAT-ATGATT---------------------ATCAGTAGATTTGCATC----CAATTTCTGAGCTCTTGATGAGAGTGTAGCTAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16177864 659 +  18395747 ATTTAGAAACTAGGA-AACAAGAAAAGTAAAGGACAGAAT-AAGATAAAGGAGCACATGTAACCC--TTATATACTCAAGGTTCATGACATTAGTGAAAATGACAGATAAAAAGAACT---TTTTTTTTCCTTCTTGGATCCATTAAAAGGTATTTGTAGAGAC--TGAATAATATTTCAGCTAATGTGTATAGAAGCTCTGGCTTTTCCTACTAAAAACAG-----CA---TTTTTTTTTT----------CACAGTCTGACTTTTAACAATC--AGAGATTAAATGGAGCATGTGTTGAGACTCTCCATCTTTGGCATTCCAACTGTTTTTACATAAAAATGAAAA----ATAAAAAA---CA--C-AAAATGC---AAAAGCACTGTATCACATAAATAACAC-ATTA-GTTGCTATTTCTTCTGCTTGATGAGAC-TTTTTCTTGATTCAGTCAGCCCTATGTCTCT----GGCACAGAAAATTTGGGGGAAAGGGGAT-GAAAGGAT-AGCAAACATGAAATCAATTCTTGTTCTCATTAAGCGAATTCTTTCACATTAAGT----AA-AAGAAAAAGATAACAGATTAGTAATCCACCACCAAAGTGCCTGGATGGTAATGGACAG-AAAAAAATTGAAATGGCATAAAT-TGAT-ATGATT---------------------ATCAGTAGATTTGCATC----CAATTTCTGAGCTCTTGATGAGTGTGTAGCTAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5181862 662 +  26952557 ATTTAGAAACTAGGA-AACAAGAAAAGTAAAGGACAGAAT-AAGATAAAGGAGCACACGTAACCC--TTACATACTCAAGGTTCATGACATTAGTGAAAATGACAGATAAAAAGAACT---TTGTTTTTCCTTCTTGGATCCATGAAAAGGTATTTGTAGAGAC--TGAATACTATTTCAGCTAATGTGTATAGAAGCTCTGGCTTTTCCTACTAAAAACAG-----CA-CTTTTTTTTTTT----------CACAGTCTGACTTTTAACAATC--AGAGATTAAATGGAGCATGTGTTGAGACTCTCCATCTTTGGCATTCCAACTGTTTTTACATAAAAATGAAAA----ATAAAAAA---CA--C-AAAATGC--AAAAAACACTCTATCACATAAATAACAC-ATTA-GTTGCTATTTCTTCTGCTTGATGAGAC-TTTTTCTTGATTCAGTCAGCCCTATGTCTCT----GGCACAGAAAATTTGGGGGAAAGGGGAT-GAAAGGAT-AGCAAACATGAAATCAATTCTTGTTCTCATTAAGCGAATTCTTTCACATTAAGT----GA-AAGAAAAAGATAACAGATTAGTAATCCACCACCAAAGTGCCTGGATGGTAATGGACAG-AAAAAAATTGAAATAGCATAAAT-TGAT-ACGATT---------------------ATCAGTAGATTTGCATC----CAATTTCTGAGCTCTTGATGAGTGTGTAGCTAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28291729 660 +  82825804 ATTTAGAAACTAGGA-AACAAGAAAAGTAAAGGACAGAAT-AAGATAAAGGAGCACATGTAACCC--TTATATACTCAAGGTTCATGACATTAGTGAAAATGATAGATAAAAAGAACT---TTTTTTTTCCTTCTTGGATCCATTAAAAGGTATTTGTAGAGAC--TGAATACTATTTCAGCTAATGTGTATAGAAGCTCTGGCTTTTCCTACTAAAAACAG-----CA---CTTTTTTTTT----------CACAGTCTGACTTTTAACAATC--AGAGATTAAATGGAGCATGTGTTGAGACTCTCCATCTTTGGCATTCCAACTGTTTTTACATAAAAATGAAAA----ATAAAAAA---CA--C-AAAATGC--AAAAAACACTGTATCACATAAATAACAC-ATTA-GTTGCTATTTCTTCTGCTTGATGAGAC-TTTTTCTTGATTCAGTCAGCCCTATGTCTCC----GGCACAGAAAATTTGGGGGAAAGGGGAT-GAAAGGAT-AGCAAACATGAAATCAATTCTTGTTCTCATTAAGCGAATTCTTTCACATTAAGT----GA-AAGAAAAAGATAACAGATTAGTAATCCACCACCAAAGTGCCTGGAAGGTAATGGACAG-AAAAAAATTGAAATGGCATAAAT-TGAT-ATGATT---------------------ATCAGTAGATTTGCATC----CAATTTCTGAGCTCTTGATGAGTGTGTAGCTAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3955862 660 -   4237731 ATTTAGAAACTAGGA-AACAAGAAAAGTAAAGGACAGAAT-AAGATAAAGGAGCACATGTAACCC--TTATATACTCAAGGTTCATGACATTAGTGAAAATGACAGATAAAAAGAACT---TTTTTTTTCCTTCTTGGATCCATTAAAAGGTATTTGTAGAGAC--TGAATACTATTTCAGCTAATGTGTATAGAAGCTCTGGCTTTTCCTACTAAAAACAA-----CA---CTTTTTTTTT----------CACAGTCTGACTTTTAACAATC--AGAGATTAAATGGAGCATGTGTTGAGACTCTCCATCTTTGGCATTCCAACTGTTTTTACataaaaatgaaaa----ataaaaaa---ca--c-aaaatgc--aaaaaacaCTCTATCACATAAATAACAC-ATTA-GTTGCTATTTCTTCTGCTTGATGAGAC-TTTTTCTTGATTCAGTCAGCCCTATGTCTCT----GGCACAGAAAATTTGGGGGAAAGGGGAT-GAAAGGAT-AGCAAACATGAAATCAATTCTTGTTCTCATTAAGCGAATCCTTTCACATTAAGT----GA-AAGAAAAAGATAACAGATTAGTAATCCACCACCAAAGTGCCTGGATGGTAATGGACAG-AAAAAAATTGAAATGGCATAAAT-TGAT-ATGATT---------------------ATCAGTAGATTTGCATC----CAATTTCTGAGCTCTTGATGAGTGTGTAGCTAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      226064 657 -   1175262 ATTTAGAAACTAGGA-AACAAGAAAAGTAAAGGACAGAAT-AAGATAAAGGAGCACATGTAACCC--TTATATACTCAAAGTTCATGACATTAGTGAAAATGACAGATAAAAAGAACT---TTTATTTTCCTTCTTGGATCCATTAAAAGGTATTTGTAGAGAC--TGAATACTATTTCAGCTAATGTGTATAGAAGCTCTGGCTTTTCCTACTAAAAACAG-----CA---CTTTTTTTTT----------CACAGTCTGACTTTTAACAATC--AGAGATTAAATGGAGCATGTGTTGAGACTCTCCATCTTTGGCATTCCAACTGTTTTTacataaagatgaaaa----ataaaaaa---ca--t-aaaatgc--aaaaaacactgtatcacataaataacac-atTA-GTTGCTATTTCTTCTGTTTGATGAGAC-TTTTT-TTGATTCAGTCAGCCCTATGTCTCT----GGCACAGAAAATTTGGGGGAAAGGGCAT-GAAAGGAT-AGCAAACATGAAATCAATTCTGGTTTACATTAAGCGAATTCTTTCACATTAAGT----GA-AAGAAAAAGATAACAGATTAGTAATCCACCACCAAAGTGCCTGGATGGTAATGGACAG-AAAAAA--TTAAATGGCATAAAT-TGAT-ACGATT---------------------ATCAATAGATTTGCATC----CAATTTCTGAGCTCTTGATGAGTGTGTAGCTAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123560133 664 - 204313951 ATTTATAAACAAGGA-AACAAGAAGAGTAAAGGACAGAAT-AAGATAAAGAAACACATGTAACTC--TTATATACTCGAGGTTCATGGCATTAGTGAAAATGGCAGATAAAAAGAACGTTTTTTTTTTTCCTTCTTGGATCTATTGCAAGGTATTTGTATGGAC--TGAATACTATTTCAGCCAATTTGTATAGCAGCTCTGGATTTTCCTACTAAAAACAA-----CA---CTTATTTTTTTT--------AACAGTCTGACTTTTAACAATCAAAGAGATTAAATGGAGCATGTGTTGAGACTCTCCATCTTTGGCATTCCAACTGTTTCTTCATAAAAATAAAAA----AT-GAAAA---CA--C-AAAATGCAAAAAAAACACTGTATAACATAAATAACAC-ATTA-GTTGCTATTTCTTCTGCTTGATGAGAC-TTTTTCTTGATTCAGTCAGTTCTATGTTTCT----GGCATAGAAAATTTAGGGAAAAGAGGCT-GAAAGGAT-AGCAACCATGAGATCAGTTCTTCTTCTCATTAAGATA-------TACATTAAGTGAAAGA-AAGGAA-AGATAACAGATTAGTTATCTACCACCAAAGTGCCTGGACTGTAATGGATAG-AAAAAAAGTGAAGTGGTATAAAT-TGAT-ATGATT---------------------ATCAGTAAATTTGCATC----CAATTTCTTAGCTCTTGATGAGTGTATAGCCAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55613977 649 -  71252344 ATTTATAAACCAGAA-AACAAGAA----AAAGGACAGAAT-AAGATAAAGAAACACATGTAACTC--GTATATACTCGAGGCTCATGGCATTAGTGAAAATGGCAGATAAAAAGAAC----TTTTTTTTCCTTCTTGGATCTATTACAAGGTATTTGTAGAGAC--TGAATACTATTTCAGCTAATTTGTATAGCAGCTCTGGATTTTCCTACTAAAAACAA-----CA---CTTTTTTTTTTT---TTTTAAACAGTCTGACTTTTAACAATCAAAGAGACTAAATGAAACATGTGTTGAGACTTTCCATCTTTGGCATTCCAACTGTTTTTTCAT-------AAAA----AC-GAAAA---CA--C-AAAATGC-AAAAAACCACCGCATCACATAAATAACAC-ATTA-GTTGCTATTTCTTCTGCTTGATGAGAC-TTTTTCTTGATTCAGTCAGTCCTATGTCTCT----GGCATAGAAAATTTAGGGGAAAGGGGCT-GAAAGGAT-AGCAACCATGAAATCAGTTCTTGTTCTCATTAAGATA-------CACATTAAGTGAAAGA-AAGAAA-----AAGATATTAGTTATCCACCACCTAAGTGCCTGGATTGTAATGGATAG-AAAAAAAGTGAAGTGGCATAAAT-TGAT-ATGATT---------------------ATCAGTAAATTTGCATC----CAATTTTTTAGCTCTTGATGAGTGTGTAGCTAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1307295 660 -   1400280 ATTTATAAACAAGGA-AACaagaaaagtaaaggacagaat-aagataaagaaaCACATGTAACTC----ATATACTCGAGGTTCATGGCATTAGTGAAAATGACAGATAAGAAGAATG---TTTTTTTTTCTTCTTGGATCTATTACAAGGTATTTGTAGAGAC--TGAATACTATTTCAGCTGATTTGTATAGCAGCTCTAGATTTTCCTACTAAAAACAA-----CA---CTTATTTTTTTT--------AACAGTCTGACTTTTAACAATCAAAGAGATTAAATGGAGCATGTGTTGAGACTCTCCATCTTTGGCATTCCAACTCTTTTTTCATaaaaataaaaa----at-gaaaa---catgc-aaaaaaa-aaaaaaaCACCGTATCACATAAATAACAC-ATTA-GTTGCTATTTCTTCTGCTTGATGAGAC-TTTTTCTTGATTCAGTCAGTCCTATGTCTCT----GGCATAGAAAATTTAGGGGAAAGGGTCT-GAAAGGAT-AGCAACCATGAAATCAGTTCTTGTTCTCATTAAGATA-------TACATTAAGTGAAAGA-AAGAAAAAGATAACAGATTAGCTATCCACCACCAAAGTG-CTGGGCTGTAATGGATAG-AAAAAAAGTGAAGTGGCATAAAT-TGAT-ATGATT---------------------ATCAGTAAATTTGCATC----CAATTTCTTAGCTCTTGATGAGTGTGTAGCTAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13103151 658 -  42888418 ATTTATAAACAATGA-AACAAGAAAAATAAAGAACAGAAT-AAGATAAAGAA--ACATGTAAATC--TTATATACTAGAGGTTCATGGCATTAGTGAAAATGGCAGATAAAAAGAATG---TTTTTTTCCCTTCTTGGATCTATTACAAGGTATTTGTAGAGAC--TGAATACTATTTCAGCTAATTTGTATAGCAGCTCTGGATTTTCCTACTAAAAACA-------A---CTTATTTTTTTT--------AACAGTCTGACTTTTAACAATCAAAGAGATTAAATGGAGCATGTGTTGAGACTCTCCATCTTTGGCATTCCAACTGTTTTTTCataaaaataaaaa----at-gaaaa---ta--c-aaaatacaaaaaaaaCACCGTATCACATAAATAACAC-ATTA-GTTGCTACTTCTTCTGCTTGATGAGAC-TTTTTCTTGATTCAGTCAGTCCTATGTCTCT----GGCATAGAAAATTTGGGGGAAAGGGGCT-GAAAGGAT-AGCAACCATGAAATCAGTTCTTGTTCTCattaagata-------tacattaagtgaaaga-aagaaaaagataacagatCAGTTATCCACCACCAAAGTGCCTGGACTGTAATGGATAG-AAAAAAAGTGAAGTGGCATAAAT-TGAT-ATGATT---------------------ATCAGTAAATTTGCATC----CAATTTCTTAGCTCTTGATTAGTGTGTAGCTAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60466950 638 + 108143057 ATTTATGAATAAAGA-AACAAAAAGAGTAAAAGAC--AAT-AAG--AAAGGAGCACATGTGACTCATTTATATACTCAAGGTTCATGGCTTTAGTGAAACCAACAGATAAAAAGA--C---CTTTTGTTCCTTGTTGGATACATTACAAGCTATTTGTACAGAT--TGAATACTATTGCAGCTAATTTGTATAGAAGCTCCCGCTCTTCTTTCTAAAAAGGG-----AA----TTTTTTTT-----------TACACTGTGACTTTTAACAATCAAAGAGATTAAATGGAGCATGTGTTGAGACTCTCCATCTTTGGCATTCCAACTGTCTTTTCATAAAA--------------AAAAA---TC--C-AAAAA----CAAAAACACTGTATCACATACATAACAC-ATTCTGTTGCTATTTCTCCTGCTTGATATGAT-GGTTTCTTGGTCCAATCAGTCTTATCTCTCT----GGAATAGAAAATTTGGGTGAAAGGGGAT-GAAAGGAT-AGCAAACATTAAATCAATTATTATTCTCTTTAAGATA-------TACATTAAGTAAAGGA-AAGAAAAAGAGAACATATTAGTTAT---CCACAAAAGTGCCTGGACCATAATGGACAG-GAAAAGA-TAAAATGGAATAAAT-TGTT-GTTATT---------------------ATCAGTAAATTTGCATC----AAATTTCTTAGCTGTTGATGGGTGTGTAGCAAA
i micMur3.chr12            C 0 I 20
s proCoq1.NW_012155062v1     3504061 641 +  11683526 ATTTATGAACAAGGA-AAC--AAAGAGTAAAGGACAGAAT-GAGATAAAGGAGCACATGTGACTCATTTATATACTCTCGTTTCATGGCTTCAGTTAAAATGACAGATACAAAGA--C---CTTTTTGTCCTTCTTGGATGCATTACGAACTGTTTGTACAGAC--TGAATACTATTGCAGCTAATTTGTGTAGAAGCTCCTACTCTTCCTACTGAAAAGGG-----AA---TTTTTTTTT-----------TACACTGTGACTTTTAACAATCAAAGAGATTAAATGGAGCATGTGCTGAGACTCTCCATCGCTGGCTTTCCAACTGCCTTTTCATAAAA--------------AAAAA---TC--CAAAAAA----CAAAAACATTGTATCACATACATAACAC-ATTA-GTTGCTATTTCTCCTGCTTGATGAGAC-TTTTTCTTGGTCCAATCAGTCTTATCTCTCT----GGCATAGAAAATTTGGGGGAAAGGGGAT-GAAAGGAT-AGCAAACATTAAATCAATTATTATTCTCTTCAAGATA-------TACATTAAGTGAAGGA-AAGAAAAAGATAACAGATTAGTTAC---CCACAAAAGTATCTGGACCATAATGGACAG-GAAAGAA-TGAAATGGAATAACT-TGCT-GTTATT---------------------ATCAGTAAATTTGCATC----AAATTTCTTAGCTGTTGATGGGTGTGTAGCAAA
i proCoq1.NW_012155062v1   C 0 I 20
s otoGar3.GL873679           2987145 643 +   4132165 ATTTACAATCAAGGA-AAC-AGAGGAGTAAAAGAC--CAT-AAGATAAAGAAGCACATGTGACTCATTTATATACTCAGGATTCATGGCTGTAGTAAAAATTATAGATAAAAAGA--C---CTTTTGGTCCTTTTTGGTTGTATTATAAGCTATTTGTAGAGAC--TGAATACTATTGCCACTAATTCATATAGAAGCTCCTGTTCTTCCCACTAAGAAAGG-----AC---ATTTTTTTT-----------AATATTGTGACTTTTAATAATCAAAGAGATTAAATGGACCATGTGTGAAGACCCTTCATCTTTGACATTCCAACTGTCTTTTCATAAAA--------------AAAAAATCCC--C-CAAAC----AAAAAACACTGTATTATAGACATAATACGATTA-GCTGCTCTTTCTCCTGCTTGATAAGAC-TGTCTCTTGGTCCAATCAGTCCCATCTTTCT----GGCATAGAAAATGTGGGGGATACGGGATGGAAAAAAT-AGCAAACATGAAATCAATTCTTATTCTTTTTAAGATA-------TACATTAAGTGAAGGAGAGGAAAAAGATAACAGATTAGTTAC---CCACCGAAGTGCATGGACCATTATGGACAG-GAA--GA-TGAAATGGAATAAAT-TGTT-GTTATT---------------------ATCAGTGAATTTGCATC----AGATTTCTTAGCTGTTGATGGGTGTGTAGCAAA
i otoGar3.GL873679         C 0 I 5
s mm10.chr18                55448210 609 +  90702639 ATTTATAAACACTGA-AA-ATGAACTGTGTAGGACATAAT-AAG--AGAGTAACACCCGTGACTAATTTATATTCTCCAGGTTCATGGCTTTAATGACAGTGACTGTTAAAAATA--T--------TCCCCTTCTTGGTTGTATTACAGGCTGTTTGTAGAGAC--AAAGTTCTCTTTAACTTAATTTGTATGAAAGATCTCACTCTTCATACTAAAAATAA-----AG---ACATTTAAA-----------GAAAATGTGACTTTTGACAGTACAAGCAACTAAATGGAGCATGTGCTGAGCCTATTCATCTTTGACAGCCTGACTGCTCTC-----------AGAACCCCACCAAGAG---CA--T-TACAC-C--AAAAGATGCCATTTCACACAAACAGCAA-ATAG-ACTGTTAT---TCCTGCTCGCCAAGAC---TCTCTTGTTCCAAGCAGCTCTCTGCATCTCACAGGTAAAGAAAAATCCAAGGGAACGAGAA-AAGGGAATGAGAAAATATAAAACC-----------------------------CAC---AAGTGAAGGA-AAGAAAGATGTATGAGAATGGGGAAGC----TCAGAGTGCCTGTATCATCCTGAATAC-AAAACGACTCAA-TGATAGAGAT-TTAC----ATT---------------------TTCAGTTAATTTCCAAC----CAATTTCTTAGCTCTTCCTGGATGTGTAGCTCA
i mm10.chr18               I 186 I 2
s canFam3.chr11             14850653 617 +  74389097 ATTTATAAGCAAAGA-TA---AAAGAGCAAAGGACAGAATAAAGATAAAGAAGCACATGTGATTCATTTATATACTCAAGGTTCATGGCTTT-----TAATGACAGATGAAAGGAAAT---TATTTT---CTTCTTGGATATATAACAAGCTATTTGTAGAGAT--TGAATACTATTTCAGCTAATTTGTATAGAAGTTCCTACTCTTGCTACTAAAAAAAAGGCTTAA---tttttttttttttttttttttACAGCCTGGCTTTTAATAATCAAAGAGATTAAATGGAGCATATGTTGAGACTATCCATCTTTGGCATCCCAACTGTCTTCTCATCAAA--------------AAAAA---AT--C-A-------------------TATCACATAAATAACAC-ATTA-GTGGCTGTATCTCCTGCTTGATGAAACTTTTTTCTTGGTCCAAGGAACCCTATCTCTCT----GGCATAGAAAATCTGGGGCAAAGGGGAT-GAA----------------AAATCAATTCTT------TTTAAGGTA-------CACATACGGCGAAGGA-AAGAAAAAGATGGTAGATTAGGTA---ACCATCAAAATGCCTGAACCATAATGGATAG-TCAAAGA-TGAAATGGCATATATATAATAATTATC---------------------ATCAGTAAATCTGCATC----AAATTTCTTAGCTGTTAATAGATGTGTAACTAA
i canFam3.chr11            C 0 I 5
s dasNov3.JH567306           2543419 651 +   3667625 ATTTATAAACAAGGAGAAAAAGAAGAGTAAAGGATGGAAT-AAGATATATTAATACATATGACTCATTTATATACTCAGGGTTCATGACTTTAGTGAAAATGACAGATAAAAGGAA-C---TTTATTTTTCTTCTTGGACACATTACAAGCTATTTGTAGAGAC--TGAATATTATTTCAGTTCATTTGTATATAAAGGC-AAATCATCCTACTAAAAAAGG-----CA---CTTTT---------------TACAGTCTGAC-TTTAACAATCAAAGAGATTAAATGGAACATATGTTGGGATTATCCATCTTTGGCATTCCAACTGTCCTCTCATCAAA--GAAAA----AGAAAAAG---AA--A-AAAATAT------------ATAGCACATAAATAACAC-ATCA-GTGGCTATTTCTCTTGCTTGATGAGAC----TTCTTGGTGCAATCAGCCCTATCTCTCT----GGCATAGGAAATTTTGGAGA-------T-GAAAGGAG-AGCAAATACAAAATTAACTCCTGTTCTCTTTATGATA-------TAGATACAGTGA--GG-AAAGAAAAATTACCAGATACGTTAG---CCAAGAAAATGTCTGGAACATAATACCCAG-GAAATTA-TGAAACTGTGCTTat-tatt-attattatcatcatcatcatcataatcatcaGTAAATTTGCATCAGCTTAATTTCTTAGATGTTGATGGGTATGTGATTAA
i dasNov3.JH567306         C 0 C 0

a score=78069.000000
s hg38.chr5_KI270796v1_alt      1911 11 +    172708 -----CTTAGTATCAC
s panTro5.chr5             125111979 11 + 181907262 -----CTTAGTATCAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126448997 11 + 183735486 -----CTTAGTATCAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1640699 11 +   8933513 -----CTTAGTATCAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139771744 11 + 163208435 -----CTTAGTATCAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122757007 11 + 180051392 -----CTTAGCATCAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124180511 11 + 181584905 -----CTTAGCATCAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16178523 11 +  18395747 -----CTTAGCATCAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5182524 11 +  26952557 -----CTTAGTATCAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28292389 11 +  82825804 -----CTTAGTATCAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3956522 11 -   4237731 -----CTTAGTATCAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      226721 11 -   1175262 -----CTTAGTATCAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123560797  9 - 204313951 -----CT--GTATCAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55614626  9 -  71252344 -----CT--GTATCAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1307955  9 -   1400280 -----CT--GTATCAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13103809  9 -  42888418 -----CT--GTATCAT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2987793 11 +   4132165 -----GTTCCGATCAA
i otoGar3.GL873679         I 5 I 7
s mm10.chr18                55448821 11 +  90702639 -----GTTAGAGTCAG
i mm10.chr18               I 2 I 7
s canFam3.chr11             14851275 11 +  74389097 -----ATTAGGAGCAA
i canFam3.chr11            I 5 I 5
s dasNov3.JH567306           2544070 16 +   3667625 ATATCACTAGGATCAA
i dasNov3.JH567306         C 0 I 7
e micMur3.chr12             60467588 20 + 108143057 I
e proCoq1.NW_012155062v1     3504702 20 +  11683526 I

a score=8545721.000000
s hg38.chr5_KI270796v1_alt      1922 556 +    172708 GAAGCCATGGCAAAAC-TACTGCACATTATTTAC-----ATCAACAACAAGCCAGCACAAACTGAGGGCACAGATTCCAGTTGC-TGCTAA--AATTGCTCCATCCTTGA-CT-TGCAGGGCAGAGTTTCAGCTATGGAACAGCCAAGGAGGCTTTAAGGTCTGAGACAACATTG--TGCAAACATTTTATATCCTATAAAACAATACGGAAAGATCCTGTGTTCAGCAACAGAGAAATCTAGATCAAAAGAAACATTTAGAATGAGCAGTTTATGTTGAATTCGACTCACAATGAACAATGT----CTTGAGAGAGTTGTCATTCTTGTCACAAACTTTGCAAA----------------------------------TATGTGACTCTGCTGTCCATTATCCCAAAACCCACAT----ACTGTCCTTCATTTTCTAAAAGCAAGGAAAATTGCAGATGGCAACAAC----------CTGCAGAAAACTAAATAGCAACTTAGTAATGAGATGTTTGAAGGAATCATGTTG---AGA-CAAACCAGACTCTAGATAAATCAGCCTAAGTATTTT-TCACTTATTGTTGAGGAT--------CTCCATGACCACAG-T--TTTTGACA-TGGAAAGAA
s panTro5.chr5             125111990 554 + 181907262 GAAGCCATGGCAAAGC-TACTGCACATTATTTAC-----ATCAACAACAAACCAGCACAAACTGAGGGCACAGATTCCAGTTGC-TGCTAA--AATTGCTCCATCCTTGA-CT-TGCAGGGCAGAGTTTCAGCTATGGAACAGCCAAGGAGGCTTTAAGGTCAGAGACAACATTG--TGCAAACATTTTATATCCTATAAAACAATACGGAAAGATCCTGTGTTCAGCAACAGA--AATCTAGATCAAAAGAAACATTTAGAATGAGCAGGTTATGTTGAATTCGACTCACAATGAACAATGT----CTTGAGAGAGTTGTCATTCTTGTCACAAACTTTGCAAA----------------------------------TATGTGACTCTGCTGTCCATTATCCCAAAACCCACAT----ACTATCCTTCATGTTCTAAAAGCAAGGAAAACTGCAGACGGCAACAAC----------CTGCAGAAAACTAAATAGCAACTTAGTAATGAGATGTTTGAAGGAATCATGTTG---AGA-CAAACCAGACTCTAGATAAATCAGCCTACGTATTTT-TCACTTATTGTTGAGGAT--------CTCCATGACCACAG-T--TTTTGACA-TGGAAAGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126449008 554 + 183735486 GAAGCCATGGCAAAGC-TACTGCACATTATTTAC-----ATCAACAACAAACCAGCACAAACTGAGGGCACAGATTCCAGTTGC-TGCTAA--AATTGCTCCATCCTTGA-CT-TGCAGGGCAGAGTTTCAGCTATGGAACAGCCAAGGAGGCTTTAAGGTCAGAGACAACATTG--TGCAAACATTTTATATCCTATAAAACAATACGGAAAGATCCTGTGTTCAGCAACAGA--AATCTAGATCAAAAGAAACATTTAGAATGAGCAGGTTATGTTGAATTCGACTCACAATGAACAATGT----CTTGAGAGAGTTGTCATTCTTGTCACAAACTTTGCAAA----------------------------------TATGTGACTCTGCTGTCCATTATCCCAAAACCCACAT----ACTATCCTTCATGTTCTAAAAGCAAGGAAAACTGCAGACGGCAACAAC----------CTGCAGAAAACTAAATAGCAACTTAGTAATGAGATGTTTGAAGGAATCATGTTG---AGA-CAAACCAGACTCTAGATAAATCAGCCTACGTATTTT-TCACTTATTGTTGAGGAT--------CTCCATGACCACAG-T--TTTTGACA-TGGAAAGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1640710 554 +   8933513 GAAGCCATGGCAAAGC-TACTGCACATTATTTAC-----ATCAACAACAAACCAGCACAAACTGAGGGCACAGATTCCAGTTGC-TGCTAA--AATTGCTCCATCCTTGA-CT-TGCAGCGCAGAGTTTCAGCTATGGAATAGCCAAGGAGGCTTTAAGGTCAGAGACAACATT---TGCAAACATTTTATATCCTATAAAACAATATGGAAAGATCCTGTGTTCAGCAACAGAGAAATCTAGATCAAAA-AAACATTTAGAATGAGCAGTTTATGTTGAATTTGACTCACAATGAACAATGT----CTTGAGAGAGTTGTCATTCTTGTCACAAACTTTGCAAA----------------------------------TGTGTGACTCTGCTGTCCATTATCCCAAAACCCACAT----ACTGTCCTTCATTTTCTAAAAGCAATGAAAATTGCAGACGGCAACAAC----------CTGCAGAAAACTAAATAGCAACTTAGTAATGAGATGTTTGAAGGAATCATGTTG---AGA-CAAACCAGACTCTAGATAAATCAGCCTAAGTATTTT-TCACTTATTGTTGAGGAT--------CTTGATGACCACAG-T--TTTTGACA-TGGAAAGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139771755 534 + 163208435 GAAGCCATGGCAAAGC-AACTGCACATTATTTAC-----ATCAACAACAAACCAGTACAAACTGAGGGCACAGATTCCAGTTGC-TGCTAG--AATTGCTCCATCCATGA-CT-TGCAGGGCAGAGTTTCAGCTATGGAACAGCCAAGGAGTCTTTAAGGTCAGAGACAACGTTG--TGCAAACATTTTATATCCTGTAACACAATACGGAAAGATCCTGTATTCAGCAACAGAGAAACCTAGATCAAAAGAAACATTTAGAATGAGCAGTTTATGTTGAATTCGACTCACAATGAACAATGT----CTTGAGAGAGTTGTCATTCTTGT--------------------------------------------------------CTCTGCTGTCCGTTATCCCAAAGCCCACAT----ACTGTCCTTCATTTTCTAAAAGCAATGAAAATTGCAGACGGCAACAAC----------CTGCCGAAAACCGAATAGCAACTTAGTAATGAGATGTTTGAAGGAATCATGTTG---AGA-CAAACCAGACTCTAGATAAATCAGCCTAAGTATTTT-TCAGTTATTGTTGAGGAT--------CTCCATGATCACAG-T--TTTTGACA-TGGAAAGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122757018 555 + 180051392 GAAGTGATGGCAAAGC-AACTGCACA-TATTTAC-----ATCAACAACACACCAGCACAAACTGAGGGCACAGATTCGAGTTGC-TGCTAA--AATTGCTCCATCCTTGA-CT-TGCAGGGCAGAGTTGCAGCTATGGAACAGCCAAGGAGGCTTTAAGGTCAGAGACAACATTG--CAGAAACATTTTATATCCTATAACACAATATGGAAAGATCCTATGTTCAGCAACAGATAAATCTAGATCAAAAGAAACATTTAGAATGAGCAGTATATGTTGACTTCAACTCACAATGAACAATGT----CTTGAGAGAGTTGTCATTCTTGTCACAAACTTTGCAAA----------------------------------TACGTGACTCTGCTATCCGTCATCCCAAAGCCCACAT----ACTGGCCTTCATTTTCTAAAAGCAATGAAAATTGCAGATGCCAACAAC----------CTGCAGGAAACTAAATAGCAACTTAGTGATGAGATGTTTGAAGGAATCATGTTG---AGA-CAAACCAGACTCTAGATAAATCAGCCTAAGTATTTT-TCACTTATTGTAGAGGAT--------CCCCATGACCACAG-T--TTTTGACA-TAGAAAGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124180522 555 + 181584905 GAAGTGATGGCAAAGC-AACTGCACA-TATTTAC-----ATCAACAACACACCAGCACAAACTGAGGGCACAGATTCGAGTTGC-TGCTAA--AATTGCTCCATCCTTGA-CT-TGCAGGGCAGAGTTGCAGCTGTGGAACAGCCAAGGAGGCTTTAAGGTCAGAGACAACATTG--CAGAAACATTTTATATCCTATAACACAATATGGAAAGATCCTGTGTTCAGCAACAGATAAATCTAGATCAAAAGAAACATTTAGAATGAGCAGTATATGTTGACTTCAACTCACAATGAACAATGT----CTTGAGAGAGTTGTCATTCTTGTCACAAACTTTGCAAA----------------------------------TACGTGACTCTGCTATCCGTCATCCCAAAGCCCACAT----ACTGGCCTTCATTTTCTAAAAGCAATGAAAATTGCAGATGCCAACAAC----------CTGCAGGAAACTAAATAGCAACTTAGTGATGAGATGTTTGAAGGAATCATGTTG---AGA-CAAACCAGACTCTAGATAAATCAGCCTAAGTATTTT-TCACTTATTGTAGAGGAT--------CCCCATGACCACAG-T--TTTTGACA-TAGAAAGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16178534 555 +  18395747 GAAGTGATGGCAAAGC-AACTGCACA-TATTTAC-----ATCAACAACAAACCAGCACAAACTGAGGGCACAGATTCGAGTTGC-TGCTAC--AATTGCTCCATCCTTGA-CT-TGCAGGGCAGAGTTGCAGCTATGGAACAGCCAAGGAGGCTTTAAGGTCAGAGACAACATTG--CAGAAACATTTTATATCCTATAACACAATATGGAAAGATCCTGTGTTCAGCAACAGATAAATCTAGATCAAAAGAAACATTTAGAATGAGCAGTATATGTTGACTTCAACTCACAATGAACAATGT----CTTGAGAGAGTTGTCATTCTTGTCACAAACTTTGCAAA----------------------------------TACGTGACTCTGCTATCCGTCATCCCAAAGCCCACAT----ACTGGCCTTCATTTTCTAAAAGCAATGAAAATTGCAGATGCCAACAAC----------CTGCAGGAAACTAAATAGCAACTTAGTGATGAGATGTTTGAAGGAATCATGTTG---AGA-CAAACCAGACTCTAGATAAATCAGCCTAAGTATTTT-TCACTTATTGTAGAGGAT--------CCCCATGACCACAG-T--TTTTGACA-TGGAAAGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5182535 555 +  26952557 GAAGTGATGGCAAAGC-AACTGCACA-TATTTAC-----ATCAACAACAAACCAGCACAAACTGAGGGCACAGATTCGAGTTGC-TGCTAA--AATTGCTCCATCCTTGA-CT-TGCAGGGCAGAGTTGCAGCTATGGAACAGCCAAGGAGGCTTTAAGGTCAGAGACAACATTG--CAGAAACATTTTATATCCTATAATACAATATGGAAAGATCCTGTATTCAGCAACAGATAAATCTAGATCAAAAGAAACATTTAGAATGAGCAGTATATGTTGACTTCAACTCACAATGAACAATGT----CTTGAGAGAGTTGTCATTCTTGTCACAAACTTTGCAAA----------------------------------TATGTGACTCTGCTATCCGTCATCCCAAAGCCCACAT----ACTGGCCTTCATTTTCTAAAAGCAATGAAAATTGCCGATGCCAACAAC----------CTGCAGGAAACTAAATAGCAACTTAGTGATGAGATGTTTGAAGGAATCATGTTG---AGA-CAAACCAGACTCTAGATAAATCAGCCTAAGTATTTT-TTACTTATTGTTGAGGAT--------CCCCATGACCACAG-T--TTTTGACA-TAGAAAGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28292400 555 +  82825804 GAAGTCGTGGCAAAGC-AACTGCACA-TATTTAC-----ATCAACAACAAACCAGCACAAACTGAGGGCACAGATTCGAGTTGC-TGCTAA--AATTGCTCCATCCTTGA-CT-TGCAGGGCAGAGTTGCAGCTATGGAACAGCCAAGGAGGCTTTAAGGTCAGAGACAACATTG--CAGAAACATTTTATATCCTATAACACAATATGGAAAGATCCTGTATTCAGCAACCGATAAATCTAGATCAAAAGAAACAGTTAGAATGAGCAGTATATGTTGACTTCGACTCACAATGAACAATGT----CTTGAGAGAGTTGTCATTCTTGTCACAAACTTTGCAAA----------------------------------TATGTGACTCTGCTATCCGTCATCCCAAAGCCCACAT----ACTGGCCTTCATTTTCTAAAAGCAATGAAAATTACAGATGCCAACAAC----------CTGCAGGAAACTAAATAGCAACTTAGTGATGAGGTGTTTGAAGGAATCATGTTG---AGA-CAAACCAGACTCTAGATAAATCAGCCTAAGTATTTT-TCACTTATTGTTGAGGAT--------CCCCATGACCACAG-T--TTTTGACA-TAGAAAGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3956533 555 -   4237731 GAAGTGATGGCAAAGC-AACTGCACA-TATTTAC-----ATCAACAACAAACCAGCACAAACTGAGGGCACAGATTCGAGTTGC-TGCTAA--AATTGCTCCATCCTTGA-CT-TGCAGGGCAGAGTTGCAGCTATGGAACAGCCAAGGAGGCTTTAAGGTCAGAGACAACATTG--CAGAAACATTTTATATCCTATAACACAATATGGAAAGATCCTGTATTCAGCAACAGATAAATCTAGATCAAAAGAAACATTTAGAATGAGCAGTATATGTTGACTTCAACTCACAATGAACAATGT----CTTGAGAGAGTTGTCATTCTTGTCACAAACTTTGCAAA----------------------------------TATGTGACTCTGCTATCCGTCATCCCAAAGCCCACAT----ACTGGCCTTCATTTTCTAAAAGCAATGAAAATTGCAGATGCCAACAAC----------CTGCAGGAAACTAAATAGCAACTTAGTGATGAGATGTTTGAAGGAATCATGTTG---AGA-CAAACCAGACTCTAGATAAATCAGCCTAAGTATTTT-TTACTTATTGTTGAGGAT--------CCCCATGACCACAG-T--TTTTGACA-TAGAAAGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      226732 551 -   1175262 GAAGTCATGGCAAAGC-AACTGCATA-TATTTAC-----ATCAACAACAAACCAGCACAAACTGAGGGCACAGATTCGAGTTGC-TGCTAA--AATTGCTCCATCCTTGA-CT-TGCAGGGCAGAGTTGCAGCTATGGAACAGCCAAGGAGGCTTTAAGGTCAGAGACAACATTG--TGGAAACATTTTATATCCTATAACACAATATGGAAAGATCCTGTATTCAGCAACAGATAAATCTAGATCAAAAGAAACATTGAGAATAAGCAGTATATGTTGAATCTGACTCACAATGAACAATGT----CTTAAGAGAGTTGTCATTCTTGTCACAAACTTTGCAAA----------------------------------TATGTGACTCTGCTATCTGTCATCCCAAAGCCCACAT----ACAGGCCTTCATTTTCTAA----AATGAAAATTACAGATGCCAACAAC----------CTGCAGAAAACTAAATAGCAACTTAGTGATGAGATGTTTGAAGGAATCATGTTG---AGA-CAAACCAGACTCGAGATAAATCAGCCTAAGTATTTT-TCACTTATTGTTGAGGAT--------CCCCATGACCACAG-T--TTTTGACA-TAGAAAGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123560806 548 - 204313951 GAAGTCATGGCAAAGC-AACTGCACATTATTTACACTACATCAACAACAAACTAGCACAAACTGAGGGCAAAGATTCCAGTTGC-TGCTAA--AATTGCTCCATCCTTGA-CT-TGCAGGGCAGAGTTGCAGGTAGGGAGGAGCCAAGGAGGCTTTAAGGTCAGATACAACATTG--CACAAAGATTCC---------------ATATGGTAAGATCCTGTATTCAGCAACAGATAAATCTAGATCAAAGGAAACATTTAGAATGAGCAGTGTATGTTGAATTCGACCTACAGTGAACAATGT----CCTG----AGTTGTCACTCTTGTCACAAACTTTGCAAA----------------------------------TATGTGACTCTACTATCCATCAACCCAA---TCACGT----ACTGTCCTTTATTTTCTAAAAGCAATGAAAATTGCAGATGGCAACAAC----------CTACAGAAAACTAAACAGCAACTTAGTAATGAGATGTTTGAAAGAATCATGTTA---CGACCAAGCCAGACTCTAGATAAATCAGCCTAAGTATTTT-TCACTTATCATTGAGGATACCCATGACCCCATGACCATAC-T--TTTTGACA-TAGAAAGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55614635 561 -  71252344 GAAGTCATGGCAAAGC-AACTGCACATTATTTACACTACATCAACAACAAACCAGCACAAACTGAGGGCAAAGATTCCAGTTGC-TGCTAA--AATTGCTCCATCTTTGA-CT-TGCAGGGCAGAGTTGCAGGTAGGGAGGAGCCAAGGAGGCTTTAAGGTCAGATACAACATTG--CACAGAGATTCCATATTAT--------ATATGGTAAGATCCTGTATTCAGCAACAGATAAATCTAGAACAAAGGAAACATTTAGAATGAGCAGTGTATATTGAATTTGACCTACAATGAACAATGTGCTAGCTG----AGTTGTCACTCTTGTCGCAAACTTTGCAAA----------------------------------TATGTGACTCTACTATCCATCAACCCAAAGCTCACGT----ACTGTCCTTCATTTTCTAAAAGCAATGAAAATTGCAGATGGCAACAAC----------CTACAGAAAACTAAACAGCAACTTAGTAATGAGATGTTTGAAGGAATCATGTTA---AGA-CAAGCCAGACTCTAGATAAATCAGCCTAAGTATTTT-TCACTTATCGTTGAGGATACCCATGACCCCATGACCATAC-T--TTTTGACA-TAGAAAGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1307964 557 -   1400280 GAAGTCATGGCAAAGC-AACTGCACATTATTTACACTACATCAACAACAAACCAGCACAAACTGAGGGCAAAGATTCCAGTTGC-TGCTAA--AATTGCTCCATCCTTGA-CT-TGCAGGGTAGAGATGCAGGTAGGGAGGAGCCAAGGAGGCTTTAAGGTCAGATACAATATTG--CACAAAGATTCCATATTAT--------ATATGGTAAGATCCTATATTGAGCAACAGATAAATCTAGATCAAAGGAAACATTTAGAATGAGCAGTGTATGTTGAATTTGACCTACAATGAACAATGT----CCTG----AGTTGTCACTCTTGTCACAAACTTTGCAAA----------------------------------TATGTGACTCTACTATCCATCAACCCAAAGTTCACGT----ACTGTCCTTCATTTTCTAAAAGCAATGAAAATTGCAGATGGCAATAAC----------CTACAGAAAACTAAACAGCAACTTAGTAATAAGATGTTTGAAGGAATCATGTTA---AGA-CAAGCCAGACTCTAGATAAATCAGCCTAAGTATTTT-TCACTTATCGTTGAGGATACCCATGACCCCATGACCCTAC-T--TTTTGTCA-TAGAAAGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13103818 566 -  42888418 GAAGTCATGGCAAAGC-AACTGCACATTATTTACACTATATCAACAACGAACCAGCACAAACTGAGGGCAAAGATTCCAGTTGC-TGCTAA--AATTGCTCCATCCTTGA-CT-TGCAGGGCAGAGTTGCAAGTAGGGAGGAGCCAAGGAGGCTTTAAGGTCAGATACAACATTG--CACAAAGATTCCGTATTATATAACACAATATGGCAAGATCCTGTATTCAGCAACAGATAAATCTAGATCAAAGGAAACATTTAGAATGAGCAGTGTATGTAGAATTCGACTCACAATGAACAATGT----CCTGAGA-AGTTGTCACTTTTGTCACAAACTTTGCAAA----------------------------------TGTGTGA--CTACTATCCATCAACCCAAAGCTCACAT----ACTGTCCTTCATTTTCGAAAAGCAAAGAAAATTGCAGATGGCAACAAC----------CTACAGAAAACTAGACGGCAACTTGGTAATGAGATGTTTGAAGGAATCCTGTTA---AGA-CAAGCCAGACTCTAGATTAATCAGCCTAAGTATTTT-TCACTTGTCATTGAGGATACCCATGACCCCATGACCATAC-T--TTTTGACA-TAGAAAGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60467608 564 + 108143057 GAAGTTATGGCAAAGC-AATTGCACATTGTTTACATTCCATCAACAATAAATCAGCACAGACTGAGTTTACAGATTCCAGTTGC-TGCTGA--GACTGCTCTATTCTTGA-CT-TTGAGGGCAGAGTTGCAGCTATGGAGCAGCCAAGTAGGTTTTAAGGTCAGAGACAACATTG--CACAAAGATTTTATATTGTACAAGACAATATGGAAAGATCGTTTATTCAGCAACAGATAAATCTAGGTCAAAAGAAACATTTGGAAGGGGCAGTATATGTTGAATTTGACTCACAATGAACAGTGT----CTTGAAAGAGTTGTCATTCTTGTCACAAACTTTACAAA-----------------------------------ATGTGACTCTACTATCAATCATCCCAAAGCCCACATACGAACTGTCCTTT-TTTTCTAAAAGCGATGAAAATTGCAGATGGCAACAGC----------CCTCAGAAAACTAAATAGCAACTAAGTAATGAGGTGTTTGAAGGAATCATGTTG---AGA-CTAACCAGGCTCTAGATAAATCAGCATAAATGTTTT-TTACTTATTGCTGAGACT--------CCCCATGACCATAT-T--TTTTGACAGTGGAAAGAA
i micMur3.chr12            I 20 I 133
s proCoq1.NW_012155062v1     3504722 566 +  11683526 GAAGTTATGGCAAAGC-AATTGCACATCGTTTACACTCCATCAACAATAAACCAGCACAGACTGAGTTTACAGATTTCAGTTGC-TGCTAAATAACTGCTCTATTCTTGA-CT-TTCAGGGCAGAGTTGCAGCTATGGAGCCGCCAAGGAGGTTTTAAGGTCAGAGACAACATTG--CACGAAGATTTTATATTGTACAAGACAATATGGAAAGATCGTTTATTCAGCAACAGATAAATCTAGGTCAAAAGAAACATTTAGAAAGGGCAGTATATGTTGAATTTGACTCACAATGAACAGTGT----CTTGAAAGAGTTGTCATTCTTGTCACAAACTTTACAAA-----------------------------------ATGTGACTCTACTATCAATCATCCCAAAGCCCACATACGAACTGTCCTTCATTTTCTAAAAGCGATGAAAATTGCAGATGGCAACAGT----------CCTCAGAAAACTAAATAGCAACTAAGTAATGAGGTGTTTGAAGGAATCATGTTG---AGA-CAAACCAGGCTCTAGATAAATCACCATAAATGTTTT-TTACTTATTGCTGAGAAT---------CCCATGACCATAT-T--TTTTGACAGTGGAAAGAA
i proCoq1.NW_012155062v1   I 20 C 0
s otoGar3.GL873679           2987811 566 +   4132165 GAAGTTATGGCAAAGC-AATTGCACATTGCTTCCACTCCATCAACAATAAAGCAGCACAGACTGAGTTCACAGATGCCACTTAC-TGCTAA--AACTGCTCTATCCTTGA-CT-TGCAGGGCAGAGCTGCAGCTATGTAGCAGCCAAGGAGGTTTTGAGGTCAGAGACAACATTG--CACAAAGATTTTATATCATGCAAGACAATATGGAAAGATCGTTTATTCAGCAACAGATAAATCTAGGTCAAAAGAAACACTTAGAAGGGGCAGTCTATGTGGAATTTGACTCGCAATAAACAAGGT----CTTGAGAGAGTTGTCATTCTTGTCATAAACTTTGCAAA-----------------------------------ATGTGATTCTACTATCAATCAT-CCAAAGCCCACATACGAACTGTCCTTCATTTTCTAAAAGCGATGAAAATTACAGATGGCAAGAGC----------CTTCAGAAAACTAAATAGCGACTAAGTAATGAGGTGTTTGAAGGAATCATGTTG---AGA-CAAACCAGGCGCTAGATAAATCAGCATAAGTGTTTTCTTACTTATGGCCGAGAAT--------CCCCATGACCATATAT--TTTTGACAGTGGAACAAA
i otoGar3.GL873679         I 7 C 0
s mm10.chr18                55448839 573 +  90702639 GAGGTTACACCAAAGC-AAGTGGACA--GTTAATACCCCACCAAGAGGAAACTATGACAAACTGAGGGCATGTGTCCTTCTTGCATGCTAT--CA--ACTCTGCCTTTGA-CTCTACAAGACCAAGTTAAAACTG---------------------------ATTGGCAACATTAATTACCCTAATATTATATTGTGGAAGACAATATGGAAAGACAGCTTATTCAGCTGCAGTGAAACCCGAGAAGAAAGAAACATTTAGAATGGGCAAGGGGTGCTCAATTTGATTGACAAATAGCATTAT----CTTGAG--AGTTGTTATTTTCGTTGCAAGATTTGTGAAAAAAAAAACAAAACAAACAAACAACAACAATGAAAACATTGTTCTATGCTGCATCATTCTCCAA---ATAT----AAAGCCCTTCACTGCCTGAACTCTATGACTGTTACAGGTGTGGCCATCTATTGCTAGTCTCCAGGAGTCTAAACAGGAAGTTAGTAATGAAGTATTTGAAGGAATAGTGGTGTATAAA-CAAACCAGTCTTCAGATACAGCAAAGAAAGTAGTTT-T--ACTATTGCTCAAGAG--------CTTCTTCATCATAG-T-CTCTTGACA---GAGAGAA
i mm10.chr18               I 7 C 0
s canFam3.chr11             14851291 556 +  74389097 GAAATTATGGCAAAGCAAACTACATATTGTTTACATTCTGTCAGTAATAAACCAGTACAAACTGAGGGCACAGATTCCAGTTGC-TGCTTA--TACAGTTCTGTCCTTGACCT-TGCAGGTCAGGGTCAGAGCAATAAAATAGCCAGGGAAATTTAAAGGTTGGAGACA---CTA--CATAAAGATCTGACATTTTGTAAGACAGTATGGAAAGATCCTTCATTCAGCAACAGATAAATGTAGGTCAAAAGCAACATTGGGAAGGA------TATGTTGAATTTGGCTTACCATGAACAGTGT----CTTGAGAAAGTTGTCATTCTCATCACAAAC--TGCAAA----------------------------------AATGTGACTCTACTATCAATCATGCCACAGCCCACATATGGACTATCCTTCATTTTCTAAAAGCTATGAAAATTGCAGATGGCAACAAC----------CTTTAGGAAACTAAATAGCAACTTAGTAATGAGGTGTTTGAAGGAATCATGTTG---AGA-CAAACCAGGCTCCAGATAAATCAGTGTAT---TTTT-TTACTTATTGTTGAAAAG--------TCCCTTTACCAGAT-TTTTTTTAACAATAGAGAGAA
i canFam3.chr11            I 5 C 0
s dasNov3.JH567306           2544093 551 +   3667625 GAAATCATGGCAAACC-ACTTGTACATTGTTTTTACTCTATCAATAATAAACCAGTATAGTTTGAGGGCGCAGATTCCAGGAGT-GGCCAA--AATAGCTCCATCCTTGG-CC-TTGGG----------CAGCTATGGA-TAACTAAAGAGGTTTTAAGGTGGGAGACAACACTT--CACAAGGATCTTACATTATATAAAACAATGTGGAAAGATTGTTTATTCAGCAAAGTATAAATCTAGGTCAAAAGAAACATTTGGAAGGGACAGGATATGTTGAATTCAGCTCACGATGAACA--GT----CTTGAGGGAGTTGTCATTCTTGTCACAAACTTTGCAAA---------------------------------AAATGTGACTCTACTATCAATCATCCCACAGCCCACATGCA-GCCGTCCTTCATTTTCTAAAAGCTATGAAAATTACAGATGGCAGCCGC----------CTTCAGGAAACTAAATAGCAACTTAGTAATGAGGTGTTTGAAGAAATCATGTTG---AGA-CAAACCAGGCCCCAGATAATTCAGCATAAGTATTTT-T-ACTTATTGTTGAAAAG---------CCCTTGACCAGAT-T--TTCTGACAGTAGAGAGAA
i dasNov3.JH567306         I 7 C 0

a score=1461849.000000
s hg38.chr5_KI270796v1_alt      2478 134 +    172708 CCTG-TGAGAGTTCTGGATGACTGTTTCC-----AAGAGTAACTAAAAAGTTG------TTGTTTGTTTTTCCCCC---CCAGAAAGTCAAACACCATTTTTAGCTAAAAGCCAAA------------CAATAAGCATATTAGTAACCATTAGGTGATTTC
s panTro5.chr5             125112544 135 + 181907262 CCTG-TGAGAGTTCTGGATGACTGTTTCC-----AAGAGTAACTAAAAAGTTG------TTGTTTGTTTTTCCCCC--TCCAGAAAGTCAAACACCATTTTTAGCTAAAAGCCAAA------------CAATAAGCATATTAGTAACCATTAGGTGATTTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126449562 135 + 183735486 CCTG-TGAGAGTTCTGGATGACTGTTTCC-----AAGAGTAACTAAAAAGTTG------TTGTTTGTTTTTCCCCC--TCCAGAAAGTCAAACACCATTTTTAGCTAAAAGCCAAA------------CAATAAGCATATTAGTAACCATTAGGTGATTTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1641264 134 +   8933513 CCTG-TGAGAGTTCTGGATGACTGTTTCC-----AAGAGTAACTAAAAAGTTG------TTGTTTGTTTTTCCCCC---CAAGAAAGTCAAACACCATTTTTAGCTAAAAGCCAAA------------CAATAAGCATATTAGTAACCATTAGGTGATTTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139772289 128 + 163208435 CCTG-TGACAGTTCTGGATGATTGTTTCC----AAAGAGTAACTAAAAA---G------TTGTTTGTTTTTGCCCC--CCCAGAAAGTCAAACACCATTTTTAGCTAAAAACCAAA------------CAATAAAC-----AGTAACCATTAGGTGATTTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122757573 135 + 180051392 CTTG-TTAGAATTCTGGATGATTGTTTCC----AAAGAGTAACTAAAAAGTTG------TTGTTCGTTTCTTCCCC---CCAGAAAGTCAGACACCACTTTGAGCTAAAAACCAAA------------CAACAACCATATTAGTAACCATTAGGGGATTTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124181077 135 + 181584905 CTTG-TTAGAATTCTGGATGATTGTTTCC----AAAGAGTAACTAAAAAGTTG------TTGTTCGTTTCTTCCCC---CCAGAAAGTCAGACACCACTTTGAGCTAAAAACCAAA------------CAACAACCATATTAGTAACCATTAGGGGATTTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16179089 135 +  18395747 CTTG-TTAGAATTCTGGATGATTGTTTCC----AAAGAGTAACTAAAAAGTTG------TTGTTCGTTTCTTCCCC---CCAGAAAGTCAGACACCACTTTTAGCTAAAAACCAAA------------CAACCACCATATTAGTAACCATTAGGGGATTTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5183090 135 +  26952557 CTTG-TTAGAATTCTGGATGATTGTTTCC----AAAGAGTAACTAAAAAGTTG------TTGTTCGTTTCTTCCCC---CCAGAAAGTCAGACACCACTTTTATCTAAAAACCAAA------------CAACCACCATATTAGTAACCATTAGGGAATTTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28292955 135 +  82825804 CCTG-TTAGAATTCTGGATGATTATTTCC----AAAGAGTAACTAAAAAGTTG------TTGTTCGTTTCTTCCCC---CCAGAAAGTCAGACACCACTTTTAGCTAAAAACCAAA------------CAACAACCATATTAGTAACCATTAGGGGATTTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3957088 135 -   4237731 CCTG-TTAGAATTCTGGATGATTGTTTCC----AAAGAGTAACTAAAAAGTTG------TTGTTCGTTTCTTCCCC---CCAGAAAGTCAGACACCACTTTTAGCTAAAAACCAAA------------CAACAACCATATTAGTAACCATTAGGGGATTTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      227283 132 -   1175262 CCTG-TAAAAATTCTGGATGATTGTTTCC----AAAGAGTAACTAAAAA---G------TTGTTCGTTTCTTCCCC---CCAGAAAGTCAGACACCACTTTTAGCTAAAAACCAAA------------CAACAACCATATTAGTAACCATTAGGGGATTTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123561354 141 - 204313951 CCTG-TAAGATTTCTGGATGATTGTTTCC----AAAGAGTAACTAAAATGGTTTTTGGTTTGTTTTTTTTTTTTCC---CCAGAAAGTCAAGCATCATTTTTAGCTAAAAACCAAA------------CAATAAACGTATCAGTAACCATTAGAGGATTTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55615196 139 -  71252344 CTGG-TAAGATTTCTGGATGATTGTTTCC----AAAGAGTAACTAAAACATTTTTTG--TTTTTTGTTTTTTTTTC---CCAGAAAGTCAAACATCATTTTTAGCTAAAAACCAAA------------CAATAAACGTATTAGTAACCATTAGGAGATTTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1308521 129 -   1400280 CCTG-TAAGATTTCTGGATGATTGTTTCC----ACAAAGTAACTAAAAC------------TTTTTTTTTTTTTTC---CCAGAAAGTCAAACATCATTTTTAGCTAAAAATCAAG------------CAATAAACGTATTAGTAACCATTAGGGCATTTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13104384 137 -  42888418 CCTG-TAAGATTTCTGGATGATGGTTTCC----AAAGAGTAACTAAAAAGGtttt----tttttttttttttttCC---CCAGAAAGTCAAACACCATTTTTAGCTAAAAACCAAA------------TAATAAACATATTAGTAACCATTAGGGGATTTC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3505288 131 +  11683526 ACTGTTAAGATTTCTGGGTGGTTGTTCCCAAAGAAAGAGTGAATAAAAAGTAT------TTTTTTTT------------CCAGAAAGCCAAACATAAATTTTGCCTAAAATCCAAA------------AAATAAACTTATTGGGGACCATTAGAAGATTTG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2988377 116 +   4132165 ACTG-TAAGATTTCTGGATGATTTTTCCCAAAGAAAGAGTGAAGAAAAAGTCT------TTTTCTTT------------TC--------------CAATTTTACCTAAAAACTAAA------------CAATAAACATATTGAGAACAATTAGAATATTTG
i otoGar3.GL873679         C 0 I 10
s mm10.chr18                55449412 124 +  90702639 TCTG-TAAGATTTCTGAATGG--ACTTCC-TGAAGAAAGAGAATAGAAGACCC------T------------CTCC---CCTGCAGGCCAAACACAAATCTTGGTTAAATTCCAAA------------CACCAAGTTTATTATGAATAGCCAGTTGGCTTC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14851847 154 +  74389097 CCTG-TAACTTGTTTAGATGGTTCTTTTCTAGGAGAGGGTGAAGAGACAGTCT------TTTTTTTTTTTTTTTTCTTTCCAGGAAGCCAAACACCAATCTTTCCTaaaaaaaaaaaaaaaaaaaaaCCAAAAGACTTCTTTGTATGTAGTAGGAGATTTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2544644 134 +   3667625 CCTG-TAATATTTCTGGTTAGCTGTTATA-----AAGAATGAATAAAAGGTAT------TTTTCTTTTTCTTTTCT---TTCAAATGTAGATCACCAATCTTGGATAAAGACCAAA------------GAACAAACCTGTTAGGAACCATCAAGGGATTTC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60468172 133 + 108143057 I

a score=1555122.000000
s hg38.chr5_KI270796v1_alt      2612 125 +    172708 TAGAAC---TAAGAATGTTTTCATTTCTTTTTGGTTTCTAATTT--AAAA---------AAAT--------------------AACATCATCAGTT-AGTAGGG---------------------------------------------------------------------TGTACTTTA---------------------------------------------------AAATA------------------AAA--AATAAAAATCA--------AAGGATATGTTTGTATTGTATAGAAAAA
s panTro5.chr5             125112679 125 + 181907262 TAGAAC---TAAGAATATTTTCATTTCTTTTTGGTTTCTAATTT--AAAA---------AAAT--------------------AACATCATCAGTT-AGTAGGG---------------------------------------------------------------------TGTACTTTA---------------------------------------------------AAATA------------------AAA--AATAAAAATCA--------AAGGACATGTTTGTATTGTATAGAAAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126449697 125 + 183735486 TAGAAC---TAAGAATATTTTCATTTCTTTTTGGTTTCTAATTT--AAAA---------AAAT--------------------AACATCATCAGTT-AGTAAGG---------------------------------------------------------------------TGTACTTTA---------------------------------------------------AAATA------------------AAA--AATAAAAATCA--------AAGGACATGTTTGTATTGTATAGAAAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1641398 125 +   8933513 TAGAAC---TAAGAATGTTTTCATTTCTTTTTGGTTTCTAATTT--AAAA---------AAAT--------------------AACATCATCAGTT-AGTAGGG---------------------------------------------------------------------TGTACTTTA---------------------------------------------------AAATA------------------AAA--AATAAAAATCA--------AAGGACATGTTTGTATTGTATAGAAAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139772417 120 + 163208435 TAGAAC---TAAGAATGTTTTCATTTCTTTTTGGTTTCTAA-TT--AAAA---------AAAT--------------------AACATCATC-----AGTAGGG---------------------------------------------------------------------TGTACTTTA---------------------------------------------------AAATA------------------AAA--AATAAAAATCA--------AAGGACATGTTTGTATTGTATAGAAAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122757708 124 + 180051392 TAGAAC---TAAGAATGTTTTCATTTC-TTTTGGTTTCTAATTT--TAAA---------AAAT--------------------AAGATCATCAGTT-AGTAGGG---------------------------------------------------------------------TGTACTTTA---------------------------------------------------AAATA------------------AAA--AGTAAAAATGG--------AAGGACATGTTTGTGTTGTGTAGAAAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124181212 124 + 181584905 TAGAAC---TAAGAATGTTTTCATTTC-TTTTGGTTTCTAATTT--TAAA---------AAAT--------------------AAGATCATCAGTT-AGTAGGG---------------------------------------------------------------------TGTACTTTA---------------------------------------------------AAATA------------------AAA--AGTAAAAATGG--------AAGGACATGTTTGTGTTGTGTAGAAAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16179224 124 +  18395747 TAGAAC---TAAGAATGTTTTCATTTC-TTTTGGTTTCTAATTT--TAAA---------AAAT--------------------AAGATCATCAGTT-AGTAGGG---------------------------------------------------------------------TGTACTTTA---------------------------------------------------AAATA------------------AAA--AGTAAAAATGG--------AAGGACATGTTTGTGTTGTGTAGAAAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5183225 124 +  26952557 TAGAAC---TAAGAATGTTTTCATTTC-TTTTGGTTTCTAATTT--TAAA---------AAAT--------------------AAGATCATCAGTT-AGTAGGG---------------------------------------------------------------------TGTACTTTA---------------------------------------------------AAATA------------------AAA--AGTAAAAATCG--------AAGGACATGTTTGTGTTGTGTAGAAAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28293090 125 +  82825804 TAGAAC---TAAGAATGTTTTCATTTC-TTTTGGTTTCTAATTT--TAAA---------AAAT--------------------AAGATCATCAGTTCAGTAGGG---------------------------------------------------------------------TGTACTTTA---------------------------------------------------AAATA------------------AAA--AGTAAAAATCG--------AAGGACATGTTTGTGTTGTGTAGAAAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3957223 124 -   4237731 TAGAAC---TAAGAATGTTTTCATTTC-TTTTGGTTTCTAATTT--TAAA---------AAAT--------------------AAGATCATCAGTT-AGTAGGG---------------------------------------------------------------------TGTACTTTA---------------------------------------------------AAATA------------------AAA--AGTAAAAATCG--------AAGGACATGTTTGTGTTGTGTAGAAAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      227415 124 -   1175262 TAGAAC---TAAGAATGTTTTCGTTTC-TTTTGGTTTCTAATTT--TAAA---------AAAT--------------------AAGATCATCAGTT-AGTAGGG---------------------------------------------------------------------TGTACTTTA---------------------------------------------------AAATA------------------AAA--AGTAAAAATCG--------AAGGACATGTTTGTGTTGTGTAGAAAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123561495 124 - 204313951 TAGAAG---TAAGAATGTTTTCATTTCTTTTTGGTTTCAAGTTT--AAAA---------TAAT--------------------AACATCATCAGTT-AGTAGGG---------------------------------------------------------------------tataattt----------------------------------------------------aaata------------------aaa--aataaaaatCT--------AGGGACATGTTTGTATTGTGTGGATAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55615335 122 -  71252344 TAGAAC---TAAGAATGTTTTTGTTTGTTTTTGGTTTCTTGTTT--TAAA---------AAAT--------------------AACATCATCAGT----TAGGG---------------------------------------------------------------------TATAAGTTA---------------------------------------------------AAATA------------------AAA--AATAAAAATCT--------AGGGACATGTTTGTAGTGTGTGGATAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1308650 118 -   1400280 TAGTAC---TAAGAATGTTTTCATTCCTTTTTGGTTTCTAGTTT--AAAA---------AAAT--------------------AACATCATCAGTT-AGTAGGG---------------------------------------------------------------------TATAATTT----------------------------------------------------------------------------AA--AATAAAAATCT--------AGGGACATGTTTGTATTGTGTGGATAAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13104521 125 -  42888418 TAGAAC---TAAAAATGTTTTCATTTCTTTTTGGTTTCTAGTTT--AAAA---------AAAT--------------------AACATCATCAGTT-AGTAGGG---------------------------------------------------------------------TATAATTTA---------------------------------------------------AAATA------------------AAA--AATAAAAATCT--------AGGGACATGTTTGTATTATGTAGATAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60468305 127 + 108143057 TAGAAT---TAAGAATGTCTTTGCTTCTTTTTGGTTTCTAATTT--TAAA---------AATT--------------------AACATCATCACTT-AGTAGAG---------------------------------------------------------------------TGCACGTTA---------------------------------------------------AATTA------------------AAAATAAAAAACCTCT--------AAGGATATGTTTGTACTATGTAGAAAAA
i micMur3.chr12            I 133 I 1004
s proCoq1.NW_012155062v1     3505419 126 +  11683526 TAGAAT---TAAGAATGTCTTTGCTTCTTTTTGGTTTCTAATTTAAAAAA---------AATT--------------------AACATCATCACTT-GGTGGAG---------------------------------------------------------------------TGCACCTTA---------------------------------------------------AATTA------------------AA---AAAAAAACTCT--------AAGGATATGTTTGTAGTGTGTAGAAAAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2988503 125 +   4132165 TAAAATATGTAAAAATGTCT----TTCTGGTTTGTTTCTAATTT-AAAAA---------AATT--------------------AACATCATCCGTT-AGTGATA---------------------------------------------------------------------CGTACCTTA---------------------------------------------------AATTA------------------AAA--AAGAAAATCCT--------AAGGTTACATTAGTCCTGTGTAGAAAAA
i otoGar3.GL873679         I 10 C 0
s mm10.chr18                55449536 279 +  90702639 TGGAGC----AGAAATTCTTTCATTTCCTTTTGGTTTGTAATTA--TAAACAAACAAACAGAG--------------------AGTGTGGTtggat-aatagtgcttgttgtcacggctgtggacctgagtctggcctgccatggtggaaggagaaaggcaccaattccaagttgtactctgacctccacacatgagcaatgctaagtgtgcccacaacatgtatacaCAGGTAAATAATTGTAACTTACCATAGTAAT--AATAAAAATCATAAATTATAAGAATATCTTTACATTACATTGAGAGA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14852001 117 +  74389097 ATGAAC---TAAAAATGTTTTCATTTCTCTTTGGTTTCTAATTT--AGGA---------AAAC--------------------ATTAGCATCGGTT-AATGGAG---------------------------------------------------------------------TGTACTTT----------------------------------------------------AGGTA------------------GAA--AG-------CC--------TAGAATATGCTTGCATTACATAGGAAAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2544778 139 +   3667625 TGAAAC---CAAGAAAGTTTTCATTTCTTTTTGGTTTCTAATTG--Gaaa---------taataataataataaaaaataataaaCAGCACTAGTT-AGAAGGA---------------------------------------------------------------------TGCACTTT----------------------------------------------------AAATA------------------AAA--AAGA-----CT--------AGGGATATGTTTGTGTTGTGTAGAACAA
i dasNov3.JH567306         C 0 C 0

a score=4937204.000000
s hg38.chr5_KI270796v1_alt      2737 395 +    172708 TGACTTTCTGGAATTTTATTTAGCTCAGTAAGGCTCACAATGAAGATATACAC--GATAAGAAAC-----TCAGTATTC---CTCAGATGAATATTGAGACTTGAATGCTG--TTTTG---------------------------------------------------------------------------TG-ATGTCTTCATATA---TTTAAAT------------------------------------------------------------------------------------ATATAAAAT-GGCACATC-AGCAGACTAAGATTTCTTGAC--AAAATC---ACCATTAGA-TTATAGATATCTTTCTTTCAAGGTTGACCCTTCTCTCCTA--TTTTAAaaaat-tttgattatgaaaaatttcaaacatgccgcgaagttaaaatagtattgtagtgaacatctgtatactc-atcacctagattc---taccat--taacattttactgta-ttgctttattctctattcatttgtctgtccatcctcctaggtatcaatcaatccatcttat
s panTro5.chr5             125112804 395 + 181907262 TGACTTTCTGGAATTTTATTTAGCTCAGTAAGGCTCACAATGAAGACATACAC--GATAAGAAAC-----TCAGTATTC---CTCAGATGAATATTGAGACTTGAATGCTG--TTTTG---------------------------------------------------------------------------TG-ATGTCTTCATATA---TTTAAAT------------------------------------------------------------------------------------ATATAAAAT-GGCACATC-AGCAGACTAAGATTTCTTGAC--AAAATC---ACCATTAGA-TTATAGATATCTTTCTTTCAAGGTTGACCCTTCTCTCCTA--TTTTAAaaaat-tttgattatgaaaaatttcaaacatgccacgaagttaaaatagtattgtagtgaacatctgtatactc-atcacctagattc---taccat--taacattttactgta-ttgctttattctctgttcatttgtctgtccatccccctaggtatcaatcaatccatcttat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126449822 395 + 183735486 TGACTTTCTGGAATTTTATTTAGCTCAGTAAGGCTCACAATGAAGACATACAC--GATAAGAAAC-----TCAGTATTC---CTCAGATGAATATTGAGACTTGAATGCTG--TTTTG---------------------------------------------------------------------------TG-ATGTCTTCATATA---TTTAAAT------------------------------------------------------------------------------------ATATAAAAT-GGCACATC-AGCAGACTAAGATTTCTTGAC--AAAATC---ACCATTAGA-TTATAGATATCTTTCTTTCAAGGTTGACCCTTCTCTCCTA--TTTTAAaaaat-tttgattatgaaaaatttcaaacatgccacgaagttaaaatagtattgtagtgaacatctgtatactc-atcacctagattc---taccat--taacattttactgta-ttgctttattctctgttcatttgtctgtccatccccctaggtatcaatcaatccatcttat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1641523 395 +   8933513 TGACTTTCTGGAATTTTATTTAGCTCAGTAAGGCTCACAATGAAGACATACAC--GATAAGAAAC-----TCAGTATTC---CTCAGATGAATATTGAGACTTGAATGCTG--TTTTG---------------------------------------------------------------------------TG-ATGTCTTCATATA---TTTAAAT------------------------------------------------------------------------------------ATATAAAAT-GGCACATC-AGCAGACTAAGATTTCTTGAC--AAAATC---ACCATTAGA-TTATAGATATCTTTCTTTCAACGTTGACCCTTCTCTCCTA--TTTTAAaaaat-tttgattatgaaaaatttcaaacatgccacgaagttaaaatagtattgtagtgaacatctgtatactc-atcacctagattc---taccat--taacattttactgta-ttgctttattctctattcatttgtctgtccatccccctagatatcaatcaatccatcttat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139772537 394 + 163208435 TGACTTTCTGGAATTTTATTTAGCTCAGTAAGGCTCACAATGAAGACGTACAT--GATGAGAAAC-----TCAATATTC---CTCGGATCAATATTGATACTTGAATGCTG--TTTTG---------------------------------------------------------------------------TG-ATGTCTTCATATA---CTTAAAT------------------------------------------------------------------------------------ATATAAAAT-GGCACATC-AGCAGACTAAGATTTCTTGAC--AAAATC---ACCACTAGA-TTATAGATACGTTTCTTTCAAGGTTGACCCTTCTCTCCCA--TTTTAAaaaat-tttgattatgaaaaatttcaaacattccacaaagttaaaat-gtattgtagtgaacatctgtatgctc-atcacctagattc---taccat--taacattttactgta-ttgctttattctctattcatttgtctgtccatccccctaggtatcaatcaatccatcttat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122757832 377 + 180051392 TGACTTCCTGGAATTGTATTTAGCTCAGTAAGGTTCACAATGAAGACGTGCAT--GATAAGAAAC-----TCAGTGTTC---CTCAGATGAATATTGACACTTGAATGCTG--TTTTG---------------------------------------------------------------------------TG-ATGTCTTCATATA---TTTAAAT------------------------------------------------------------------------------------ATATAAAAT-GGCACATC-AGCAGACTAAGATTTCTTGAC--AA------------------TATAGATA----TCTTTCAAGGTTGACCCTTCTCTCCTA--TTTAAAAaaaa-tttgattgtgaaaaatttcaaacatgccacaaagttaaaatagtattgtagtgaacatctgtatactc-atcacctagattc---taccat--taacattttactata-ttgctttattctctattcatctgtctgtccatccccctaggtatcgatcaatccatcttat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124181336 391 + 181584905 TGACTTCCTGGAATTGTATTTAGCTCAGTAGGGTTCACAATGAAGACGTGCAT--GATAAGAAAC-----TCAGTGTTC---CTCAGATGAATATTGACACTTGAATGCTG--TTTTG---------------------------------------------------------------------------TG-ATGTCTTCATATA---TTTAAAT------------------------------------------------------------------------------------ATATAAAAT-GGCACATC-AGCAGACTAAGATTTCTTGAC--AAAATC---ACCATTAGA-TTATAGATA----TCTTTCAAGGTTGACCCTTCTCTCCTA--TTTAAAAaaaa-tttgattgtgaaaaatttcaaacatgccacaaagttaaaatagtattgtagtgaacatctgtatactc-atcacctagattc---taccat--taacattttactata-ttgctttattctctattcatctgtctgtccatccccctagatatcgatcaatccatcttat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16179348 395 +  18395747 TGACTTCCTGGAATTGTATTTAGCTCAGTAGGGTTCACAATGAAGACGTGCAT--GATAAGAAAC-----TCAGTGTTC---CTCAGATGAATATTGACACTTGAATGCTG--TTTTG---------------------------------------------------------------------------TG-ATGTCTTCATATA---TTTAAAT------------------------------------------------------------------------------------ATATAAAAT-GGCACATC-AGCAGACTAAGATTTCTTGAC--AAAATC---ACCATTAGA-TTATAGATATCTTTCTTTCAAGGTTGACCCTTCTCTCCTA--TTAAAAAaaaa-tttgattgtgaaaaatttcaaacatgccacaaagttaaaatagtattgtagtgaacatctgtatactc-atcacctagattc---taccat--taacattttactata-ttgctttattctctattcatctgtctatccatccccctagatatcgatcaatccatcttat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5183349 395 +  26952557 CGACTTCCTGGAATTTTATTTAGCTCAGTAGGGTTCACAATGAAGACGTGCAT--GATAAGAAAC-----TCAGTGTTC---CTCAGATGAATATTGACACTTGAATGCTG--TTTTG---------------------------------------------------------------------------TG-ATGTCTTCATGTA---TTTAAAC------------------------------------------------------------------------------------ATATAAAAT-GGCACATC-AGCAGACTAAGATTTCTTGAC--AAAATC---ACCATTAGA-TTATAGATATCTTTCTTTCAAGGTTGACCCTTCTCTCCCA--TTTAAAAaaaa-tttgattgtgaaaaatttcaaacatgccacaaagttaaaatagtattgtagtgaacatctgtatactc-atcacctagattc---taccat--taacattttactata-ttgctttattctctattcatctgtctgtccatccccctagatatcgatcgatccatcttat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28293215 396 +  82825804 TGACTTCCTGGAATTTTATTTAGCTCAGTAGGGTTCACAATGAAGACGTGCAT--GATAAGAAAC-----TCAGTGTTC---CTCAGATGAATATTGACTCTTGAATGCTG--TTTTG---------------------------------------------------------------------------TG-ATGTCTTCATGTA---TTTAAAT------------------------------------------------------------------------------------ATATATAAT-GGCACATC-AGCAGACTAAGATTTCTTGAC-AAAAATC---ACCATTAGA-TTATAGATATCTTTCTTTC-AGGTTGACCCTTCTCTCCCA--TTTAAAAAaaaatttgattgtgaaaaatttcaaacatgccacaaagttaaaatagtattgtagtgaacatctgtatactc-atcacctagattc---taccat--taacattttactata-ttgctttattctctattcatctgtctgtccatccccctagatatcgatcaatccatcttat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3957347 392 -   4237731 TGACTTCCTGGAATTTTATTTAGCTCAGTAGGGTTCACAATGAAGACGTGCAT--GATAAGAAAC-----TCAGTGTTC---CTCAGATGAATATTGACACTTGAATGCTG--TTTTG---------------------------------------------------------------------------TG-ATGTCTTCATATA---TTTAAAT------------------------------------------------------------------------------------ATATAAAAT-GGCACATT-AGCAGACTAAGATTTCTTGAC--AAAATC---ACCATTAGA-TTATAGATATCTTTCTTTCAAGGTTGACCCTTCTCTCCCA--TTTAAAAAAAA--ttgattgtgaaaaatttcaaacatgccacaaagttaaaatagtattgtagtgaacatctgtatactc-atcacctagattc---taccat--taacattttactata-ttgctttattctctattca--tgtctgtccatctccctagatatcgatcaatccatcttat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      227539 395 -   1175262 TGACTTCCTGGAATTTTATTTAGCTCAGTAGGGTTCACAATGAAGACGTGCAT--GATAAGAAAC-----TCAGTGTTC---CTCAGATGAATGTTGACACTTGAATGCTG--TTTTG---------------------------------------------------------------------------TG-ATGTCTTCATATA---TTTCAAT------------------------------------------------------------------------------------ATATAAAAT-GGCACATC-AGCAGACTAAGATTTCTTGAC--AAAATC---ACCATTAGA-TTATAGATATCTTTCTTTCAAGGTTGACCCTTCTCTCCCA--TTTAAAAaaaa-tttgattatgaaaaatttcaaacatgccacaaagttaaaatagtattgtagtgaactcctgtataccc-atcacctagattc---taccat--taacattttactata-ttgctttattctctattcatctgtctgtgcatccccctagatattgatcaatccatcttat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123561619 395 - 204313951 CGACTTTCTGGAATTTTGTTTAGCTCAGTAAGGGTCACAGTGAAGACATGCAT--GATAAGAAAT-----TCAGTGTTC---TTCAGATGAATATTGATACATGAATGCTG--TTTTG---------------------------------------------------------------------------TG-ATGTCTTCATATA---ATTAAAC------------------------------------------------------------------------------------ATATAAAAT-GGCACATC-AGCAGAGTAAGGTTTCTTGAT--GTAATC---ACCATTAGA-TTACATATATTTTTCTTTCAAGGTTGACTGTTTTCTCTCA--TTTAAAaaaat-tttgattataaaaaattttaaacatgccacaaagttaaaatagtattgtaatgaacatctatatactc-atcacctagattc---taccat--taacattttactgta-ttgctttattctctactcatctgtctgtccatccccctaaatattgattaatccatcttat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55615457 395 -  71252344 TGACTTCCTGGAATTTTACTTAGCTTAGTAAGGTTCACAATGAGGACATGTAT--GATAAGAAAT-----TCAGTGTTC---CTCAGACGAATATTGATACTTGAATGCTG--TTTTA---------------------------------------------------------------------------TG-ATGTCTTCatata---attaaat------------------------------------------------------------------------------------atataaaat-GGCACATC-AGCAGACTAAGATTTCTTGAC--ATAATC---ACCATTAGA-TTATAGACATTTTTCTGTCAGGGTTGACCCTTTTCTCCCA--TTGTTAaaaat-tttgattataaaaaattttaaacatgacacaaagttaaaacagtattataatgaacatctgtatactc-atcacctagattc---taccat--taacattttactgta-ctgctttattccctactcatctgtctgtccatccccctagatattgattaatccatcttat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1308768 395 -   1400280 TGACTTTGTGGAATTTTATTTAGCTCAGTAAGGTTCACAATGAAGACGTGCAT--GATGAGAAAT-----TCAGTGTTC---CTCAGATGAATATTAATACTTGAATGCTG--TTTTG---------------------------------------------------------------------------TG-ATGTCTTCATATA---ATTAAAT------------------------------------------------------------------------------------ATATAAAAT-GGCACATC-AGCAGACTAAGATTTCTTGAC--ATAATC---ACCATTAGA-TTATAGATCTTTTTCTTTCAAGATTGAGCTTTTTCTCCCA--TTTTAAaaaat-tttgattataaaaaattttaaacatgctgcaaagttaaaatagtattgtaatggacatctgtatactc-atcatctagattc---taccat--taacattttactgta-ttgctttatttcttactcatctgtctgcccattcccctagatattgattaatccatcttat
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13104646 392 -  42888418 TGACTTTCTGGAATTTTATTTAGCTCAGTAAGGTTCACAATGAACACATGCAT--GATAAGAAAT-----TCAGTGTTC---TTCACATGAATATTGATACTGGAATGCTG--TTTTG---------------------------------------------------------------------------TG-ATGTCTTCATATA---ATTAAAT------------------------------------------------------------------------------------ATATAAAAT-GGCACATC-AGCAGACTAAGATTTCTTGAT--GTAATC---ACCATTAGA-TTACAGATATTTTTCTTTCAAGGTTGACCCTTTTCTCCCA--TTTAAAaaaat-tttgattataaaaaattgtaaacatgccacaaagtt---atagtattgtaatgaacatctgtatactc-attacctagattc---taccat--taacattttactgta-ttgctttattctctactcatctgtctgtccatccccctagatattgattaatccatcttat
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3505545 365 +  11683526 AGACATTCTGGTGTT----TTAGCTCAGCAAGGTTCACAATTCAGACATGCAT--GATAAGGAACTGAACTCAGTCATT---CTCAGGCAAACATTGATACTTGAATGCTG--TTTCA-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ATACGAAAC-AGCACGTC-AGCAGGCT---ATTTCTTGAAAAAAAATC---ACCTTTAGA-TTATAGAC--TTTTTTTTCAAGATGGACTCTTGTCCTCCA--TTTAAAAAaatattttattatgaaaagtttcaaacatgccatgaagttgaaagac------agtgaacatctgaataggc-atcacctagatgcacattccat--tgacgttttcctata-ttgctttatct----tctatccgtctatccatctctctagccatcgatcaatccatcttat
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2988628 552 +   4132165 GGACATTCTGGTATT----TTAGCTCAGGAAAGTTCACAGTTCAGACACGTGT--GGTAAGGAACTAAAATCGATCATC---CTCAAGCAAACTCTGTTACTTCAATGTTG--TTTCAAATACTgtagaacctctgtaagttgactaacccaagggacaacatacagaggtggccaacataaggaacgagacctg-ctgtactgatatg---tacatgtggtgcatgtctagtctatgaaaattaggtcaacttaagggggcagtccatatagggaggtggtcaactagggaggtcctactTTATATGAAAT-AGCACATC-AATAAGCTAAGATTTCTTGAAAAAAAAAAAAGACCTTTAGA-GTACAGAC----TTCTTTCAAGACTGATTCTTCTCTCCCA---TTAAAAGaatgttttattatgaaaaatttcaaacatgccacaaagttgaaagactattataatgaacatctgaatatga-ataacagagaggcacatgccat--taacattttgctgta-ttgtgtta-------tccatctgtctatccatccctctacacatccatcaatccatcttgt
i otoGar3.GL873679         C 0 I 113
s mm10.chr18                55449815 384 +  90702639 -GACGTTCTG--ACCATTTTTAGCTAAATAAACATTCCAA---------GAAT--GAATTCAAAT-----CAATTGTTCTCACCCAGGCAACTATTAATACTTACATGTTA--TTTTG---------------------------------------------------------------------------TGAATTTGCTCATATA---GATCAAT-------------------------------------------------------------------------------------TATGAATG-AAGACACC-AGGAGGCTAAGGTTTCTCAG---AAAATC---ACTTATCCA-TTATACAGATACTTCCCGTGAGAGCACACCTTCTTTCCCGGtttttccagtgt-ttttattatgaagaacttcaaacgtgcatcaaagctcaaagactactacagcgaacatctgtgtcccc-atcacc------c---ttccatagtaacatttcactccacttgtttcatcctctctccatctgtctaagcatccctctagacatccatcaagcaatcttat
i mm10.chr18               C 0 I 1
s canFam3.chr11             14852118 388 +  74389097 --ACATCGTAGTGTT----TTACCTTAGTAGGGTTCACAATTCAGACATGCATAAGGTCCTAAAT-----TCAATCACC---CTCAGCCTA-TGTTGATACTCCAGCTCTGTATTTTG---------------------------------------------------------------------------TG-ACATCTCCATGTA---TTTCAAT------------------------------------------------------------------------------------ATATGAAAC-AGCATGTC-AACAGGCTAAAATTTCTTGAG-AAAAATC---ACCTATAGATTTACAGCAATTTTTTTCTCAAGACCGATTCTTCTCTCCAT--GTTTGcagcat-ttt-attacgaaaaatttc-aacatgcagcagagttcagagaagattacaaagaacatccatatacct-attacctagagtc---taccat--taatactttac-----ttgctttatcatatatccatgtgcctatccatccctctagatatcaatctatccatcttaa
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2544917 376 +   3667625 AGACTTTCTCGTGGT----TTCACTCAGTAAGATGCACACTTCAGACTTGCAT--AATAAATAACTAAAGTTAACTATT---TACAGTCTAACTTTGACACTTGATTACTA---TTTG---------------------------------------------------------------------------TG-ACATCTTCATATATATTTCAAAT------------------------------------------------------------------------------------ATACGAAATCAGAAGGTCAAGAAGGCTAAGATTTCTTGAG--AATACC---ACGTATAGA-TCATA-----TTTTTTCTCAAGACTGACCCT--TCCACTA--TTTcaaaa----ttttattatgaaaaattttaaacatgcagcaatattgaaagactattacagtgaatgtattaatggtaggttgtctagattc---taccat--taaca---------a-ttgttttatcatct----aactttctatccacccctctagacattgatcagtccatctt--
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60468432 1004 + 108143057 I

a score=731986.000000
s hg38.chr5_KI270796v1_alt      3132 48 +    172708 ttcttgatgcatttcaaagtacgttgcagacttcagtacatttccccc
s panTro5.chr5             125113199 48 + 181907262 ttcttgatgcatttcgaagtacgttgcagacttcagtacatttccccc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126450217 48 + 183735486 ttcttgatgcatttcaaagtacgttgcagacttcagtacatttccccc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1641918 48 +   8933513 ttcttgatgcatttcaaagtacgttgcagacttcagtacatttccccc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139772931 48 + 163208435 ttcttgatgcatttcaaagtacgttgcagacttcagtacatttccccc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122758209 48 + 180051392 ttcttgatgcatttcaaagtacattgcagacttcaatatattttcccc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124181727 48 + 181584905 ttcttgatacatttcaaagtacattgcagacttcaatatattttcccc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16179743 48 +  18395747 ttcttgatgcatttcaaagtacattgcagacttcaatatattttcccc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5183744 48 +  26952557 ttcttgatgcatttcaaagtacattgcagacttcaatacattttcccc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28293611 48 +  82825804 ttcttgatgcatttcaaagtacattgcagacttcagtacattttcccc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3957739 48 -   4237731 ttcttgatgcatttcaaagtacattgcagacttcagtacattttcccc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      227934 48 -   1175262 ttcttgatgcatttcaaagtacattgcagacttcagtacattttcccc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123562014 48 - 204313951 ttcttgatgcattttaaagtacattgcagatgttattacatttcccct
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55615852 48 -  71252344 ttctttatgcattttaaagtacattgccgatattattacatttccccc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1309163 48 -   1400280 ttcttgatgcattttaaagtacattgcaggtattattacatttccctc
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13105038 48 -  42888418 ttcttgatgcattttaaagtacattgcagatgttactacatttccccc
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3505910 48 +  11683526 tttttgatgcatttcaaagtgcattgcagacatcagtacatttccccc
i proCoq1.NW_012155062v1   C 0 I 22
s otoGar3.GL873679           2989293 48 +   4132165 tttttgatgcatttcaaagtacattgaggacatcagcacatttctccc
i otoGar3.GL873679         I 113 I 3
s mm10.chr18                55450200 48 +  90702639 tttctgatgcatttgaaactccattgcagatgtcagtacatttccccc
i mm10.chr18               I 1 I 2
s canFam3.chr11             14852506 48 +  74389097 cttctgatgcatttcaaagtgcgttgtagacatcagtgcactttccct
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2545293 45 +   3667625 --cttgatgtatttcaaattgaattgcatagat-agtacactttcccc
i dasNov3.JH567306         C 0 I 2
e micMur3.chr12             60468432 1004 + 108143057 I

a score=207626.000000
s hg38.chr5_KI270796v1_alt      3180 17 +    172708 aattctccattaggtgt
s panTro5.chr5             125113247 17 + 181907262 aattctccattaggtgt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126450265 17 + 183735486 aattctccattaggtgt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1641966 17 +   8933513 aattcttcattaggtgt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139772979 17 + 163208435 aattcctcattaggtgt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122758257 17 + 180051392 aattcttcattaggtgt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124181775 17 + 181584905 aattcttcattaggtgt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16179791 17 +  18395747 aattcttcattaggtgt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5183792 17 +  26952557 aattcttcattaggtgt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28293659 17 +  82825804 aattcttcattaggtgt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3957787 17 -   4237731 aattcttcattaggggt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      227982 17 -   1175262 aattcttcattaggtgt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123562062 17 - 204313951 aattcttcattagacat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55615900 17 -  71252344 aattctttgttaggcgt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1309211 17 -   1400280 aattcttcattaggcgt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13105086 17 -  42888418 aattcttcattaggcgt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2989344 17 +   4132165 aatacttcgttttgcat
i otoGar3.GL873679         I 3 I 3
s mm10.chr18                55450250 17 +  90702639 agcacttcatcatgcat
i mm10.chr18               I 2 I 3
s canFam3.chr11             14852556 17 +  74389097 aatatttcatcgcatgt
i canFam3.chr11            I 2 I 1
s dasNov3.JH567306           2545340 17 +   3667625 aattcgttagcatgtgt
i dasNov3.JH567306         I 2 C 0
e micMur3.chr12             60468432 1004 + 108143057 I
e proCoq1.NW_012155062v1     3505958 22 +  11683526 I

a score=1730455.000000
s hg38.chr5_KI270796v1_alt      3197 129 +    172708 ---attagctagaattcaacatttctttacagttttattcttatgat-taaaattgatgatcaataaaagacacatatcttaaatgtgaattctgtgttttgaaaaatgtatgcatcagtgttacc---aga--act---a
s panTro5.chr5             125113264 129 + 181907262 ---attagctagaattcaacatttctttacagttttattcttatgat-taaaattgatgatcaataaaagacacatatcttaaatgtgaattctgtgttttgaaaaatgtatgcatcagtgttacc---aga--act---a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126450282 129 + 183735486 ---attagctagaattcaacatttctttacagttttattcttatgat-taaaattgatgatcaataaaagacacatatcttaaatgtgaattctgtgttttgaaaaatgtatgcatcagtgttacc---aga--act---a
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1641983 129 +   8933513 ---attagctagaattcaacatttctttacagttttattcttatgat-taaaattgatgatcaataaaagacacatatcttaaatgtgaattctgtgttttgaaaaatgtatgcatcagtgttacc---aga--act---a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139772996 129 + 163208435 ---attatctagaattcaacatttctttacagttttattcttatgat-taaaattgataatcaataaaagacacatatcttaaatgtgaattctgtgttttgaaaaatgcatgcatcagtgttacc---aga--act---a
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122758274 129 + 180051392 ---attagctagaattcaacatttctttatagttttattcttatgat-taaaattgataatcaataaaagacacacatcttaaaagtgaattctgtgctttgaaaaaagcatgcatcaatgttacc---aga--act---a
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124181792 129 + 181584905 ---attagctagaattcaacatttctttatagttttattcttatgat-taaaattgataatcaataaaagacacacatcttaaatgtgaattctgtgctttgaaaaaagcatgcatcaatgttacc---aga--act---a
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16179808 129 +  18395747 ---attagctagaattcaacatttctttatagttttattcttatgat-taaaattgataatcaataaaagacacacatcttaaatgtgaattctgtgttttgaaaaaagcatgcatcaatgttacc---aga--act---a
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5183809 129 +  26952557 ---attagctagaattcaacatttctttatagttttattcttatgat-taaaattgataatcaataaaagacacacatcttaaatgtgaattctgtgttttgaaaaatgcatgcatcaatgttacc---aga--act---a
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28293676 129 +  82825804 ---attagctagaattcaacatttctttatagttttattcttatgat-taaaattgataatcaataaaagacacacatcttaaatgcgaattctgtgttttgaaaaatgcatgcaccaatgttacc---aga--act---a
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3957804 129 -   4237731 ---attacctagaattcaacatttctttatagttttattcttatgat-taacattgataatcaataaaagacacacatcttaaatgtgaattctgtgttttgaaaaatgcatgcatcaatgttacc---aga--act---a
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      227999 129 -   1175262 ---attagctagaattcaacatttctttatagttttattcttatgat-taaaattgataatcaataaaagacacacatcttaaatgtgaattctgtgttttgaaaaatgcatgcatcaatgttacc---aga--act---a
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123562079 125 - 204313951 ---attagcgagaattcaacatttctttacagttttattcttctgac-taaaattcat----aataaaaggcacataccttaaatgtgaactctctgttttgaaaagtatatgtgtccatgttacc---aga--act---a
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55615917 125 -  71252344 ---attagcgagaattcaacatttctttacacttttattcttgtgac-taaaattgat----aataaaaggcacatatcttaaatgtgaattctatgttttgaaaagtatatgcgtccatgttatc---aga--act---a
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1309228 125 -   1400280 ---attagcgagaattcaacatttctttacagttttattcttatgac-taaaattaat----aataaaaagcatatatcttaaatgtgaattctgtgttttgaaaagtttatgtgtccatgttacc---aga--act---a
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13105103 125 -  42888418 ---attagcaagaattcaacatttctttacagtcttattcttatgac-taaaattgat----aataaaaggcacatatcttaaatgtgaattctgtgttttgaaaagtgtatgtgtccatgttacc---aga--act---a
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3505980 133 +  11683526 ---attagctagaattcaatatttctttatagttctatttttatgatataaaattgacatttaatgaaaggcacacatcttaaatgtacatcccgtgttttcaaaaatgtatgtatctgtgttacc---aga--actccta
i proCoq1.NW_012155062v1   I 22 C 0
s otoGar3.GL873679           2989364 122 +   4132165 ---attagc---aaattatcattacttt-------tatctttg-gatatgaaattgacatataatgaaaggcatacatcttaaatgtctattctgtgttttgaaaaatatatgcatctgtgtcact---aga--actttga
i otoGar3.GL873679         I 3 C 0
s mm10.chr18                55450270 131 +  90702639 ---attagctggagatcagtgtgcatctccaatattgttcttatgatggaaaatggatacaacctgaaagtcacatatcttaactgcaccgtctgtgttttagaaaa--cctgcctctgtgttactcTGAGA--ACT---C
i mm10.chr18               I 3 I 164
s canFam3.chr11             14852574 126 +  74389097 ---attagctagagttcaatgtttgtttacagttttattcttttgatgtaaaattgac----aatgaaaacaacacagcttaaatgtgcattctaagttttgaaaaatgcatgcatctgtgttaca---act--cct---a
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2545357 132 +   3667625 atcattagttggaattcagtatttttta--agttttattctt-tgatgtaaaatttacatgtgctgtaaggcacaaaacttaaatgcgcgttctgagttttgaaagatgcatacatctgtgtgtcc---aaactcct---a
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60468432 1004 + 108143057 I

a score=712917.000000
s hg38.chr5_KI270796v1_alt      3326 57 +    172708 tcacaatattaaatattaccatcactccagaaagttccct-acaccccttcccagtc------a
s panTro5.chr5             125113393 57 + 181907262 tcacaatattaaatattaccatcactccagaaagttccct-acaccccttcccagtc------a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126450411 57 + 183735486 tcacaatattaaatattaccatcactccagaaagttccct-acaccccttcccagtc------a
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1642112 57 +   8933513 tcacaatattaaatattaccatcactccagaaagttccct-acaccccttcccagtc------a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139773125 57 + 163208435 tcacaatgttaaatattaccatcactccagaaagttctct-acaccccttcccagtc------a
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122758403 57 + 180051392 tcacaatattaaatattaccatcactccagaaaatttcct-acagcccttcccagtc------a
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124181921 57 + 181584905 tcacaatattaaatattaccatcactccagaaagtttcct-acagcccttcccagtc------a
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16179937 57 +  18395747 tcacaatattaaatattaccttcactccagaaagtttcct-acagcccttcccagtc------a
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5183938 57 +  26952557 tcacaatattaaatattaccatcactccagaaagttccct-acagcccttcccagtc------a
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28293805 57 +  82825804 tcacaatattaaatattaccatcactccagaaagttccct-acagcgcttcccagtc------a
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3957933 57 -   4237731 tcacaatattaaatattaccatcactccagaaagttccct-acagtccttcccagtc------a
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      228128 57 -   1175262 tcacaatattaaatattaccatcactccagaaagttccct-acaccccttcccagtc------a
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123562204 57 - 204313951 tcaaaatattaaatattaccatcactccagaaacttccca-acaccccttcctggtc------a
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55616042 57 -  71252344 tcaaaatgttaaatattaccgtcactccagaaacttccct-acaccccttcctagtc------a
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1309353 57 -   1400280 tcaaaatattaaatattaccatcactccagaaacttccct-acaccccttcctagtc------a
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13105228 56 -  42888418 tc-aaatattaaatattaccatcactccagaaacttccct-acacccctttctagtc------a
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3506113 57 +  11683526 gcaaggtattaaacataaccatcattccagaaagttcccc-atgccccatcccagtt------a
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2989486 62 +   4132165 gccagatattaaacattgctatcactccagaaagttccct-aggctcc-ttccagttcccctga
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14852700 58 +  74389097 gcaagacctcaaacatcaccattattgcagaaagtttcctaatacacctgctcagac------a
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2545489 53 +   3667625 acacaatacagaacatgattaccagcccagaaactcccta-atgccccttctca----------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60468432 1004 + 108143057 I
e mm10.chr18                55450401 164 +  90702639 I

a score=58091.000000
s hg38.chr5_KI270796v1_alt      3383 4 +    172708 gtac
s panTro5.chr5             125113450 4 + 181907262 gtcc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126450468 4 + 183735486 gtac
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1642169 4 +   8933513 gtac
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139773182 4 + 163208435 gtac
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122758460 4 + 180051392 gtac
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124181978 4 + 181584905 gtac
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16179994 4 +  18395747 gtac
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5183995 4 +  26952557 gtac
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28293862 4 +  82825804 gtac
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3957990 4 -   4237731 gtac
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      228185 4 -   1175262 gtac
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123562261 4 - 204313951 gtac
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55616099 4 -  71252344 gtat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1309410 4 -   1400280 gtac
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13105284 4 -  42888418 gtac
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3506170 4 +  11683526 gtac
i proCoq1.NW_012155062v1   C 0 I 104
s otoGar3.GL873679           2989548 4 +   4132165 gcat
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55450565 4 +  90702639 gccc
i mm10.chr18               I 164 C 0
s canFam3.chr11             14852758 4 +  74389097 atac
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2545542 4 +   3667625 gtat
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60468432 1004 + 108143057 I

a score=246381.000000
s hg38.chr5_KI270796v1_alt      3387 23 +    172708 ctactttctg-cccctcagaagca
s panTro5.chr5             125113454 23 + 181907262 ctactttctg-cccctcagaagca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126450472 23 + 183735486 ctactttctg-cccctcagaagca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1642173 23 +   8933513 ctactttctg-cccctcagaagca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139773186 23 + 163208435 ccactttctg-cccctcagaagca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122758464 23 + 180051392 ccactttctg-cccctcagaagca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124181982 23 + 181584905 ccactttctg-cccctcagaagca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16179998 23 +  18395747 ccactttctg-cccctcagaagca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5183999 24 +  26952557 ccactttctgccccctcagaagca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28293866 23 +  82825804 ccactttctg-cccctcagaagca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3957994 23 -   4237731 ccactttctg-cccctcagaagca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      228189 23 -   1175262 ccactttctg-cccctcagaagca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123562265 23 - 204313951 ccaccctcgg-cccctcagaagca
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55616103 23 -  71252344 ccaccctccg-cccctcagaagca
i saiBol1.JH378106         C 0 I 869
s cebCap1.NW_016107829v1     1309414 23 -   1400280 ccaccatcgg-cccctcagaagca
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13105288 23 -  42888418 ccacccttgg-cccctcagaagca
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2989552 14 +   4132165 ----------ctccctgagtaaca
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55450569 23 +  90702639 cttctttctc-actctggcttgaa
i mm10.chr18               C 0 C 0
s canFam3.chr11             14852762 23 +  74389097 ttgccttcag-cgttccagaaaca
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2545546 23 +   3667625 gtgcccttaa-cccccctgaagca
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60468432 1004 + 108143057 I
e proCoq1.NW_012155062v1     3506174 104 +  11683526 I

a score=681719.000000
s hg38.chr5_KI270796v1_alt      3410  71 +    172708 atca---ttgttctta-t-----------------------------ttttgtt-------------------------cccaccaaagattagttttctttagag---------------------catcctttgaatggaattata----ca
s panTro5.chr5             125113477  92 + 181907262 atca---ttgttctta-t-----------------------------ttttgtt-------------------------cccaccaaagattagttttctttagagtatcctttgaatggaattatacaTCCTTTGAATGGAATTATA----CA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126450495  71 + 183735486 atca---ttgttctta-t-----------------------------ttttgtt-------------------------cccaccaaagattagttttctttagag---------------------tatcctttgaatggaattata----ca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1642196  71 +   8933513 atca---ttgttctta-t-----------------------------ttttgtt-------------------------cccaccaaagattagttttctttagag---------------------catcctttgaatggaattata----ca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139773209  71 + 163208435 acca---ttcttctta-t-----------------------------ttttgtt-------------------------cccactatagattagttttcttcagaa---------------------catcctttgaatggaattata----ca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122758487  74 + 180051392 accattgttgttctta-t-----------------------------ttttgtt-------------------------cccaccatagattagttttatttagca---------------------catcttttgaatggaattata----ca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124182005  74 + 181584905 accattgttgttctta-t-----------------------------ttttgtt-------------------------cccaccatagattagttttatttagca---------------------catcttttgaatggaattata----ca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16180021  74 +  18395747 accattgttgttctta-t-----------------------------ttttgtt-------------------------cccaccatagattagttttatttagca---------------------catcttttgaatggaattata----ca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5184023  74 +  26952557 accattgttgttctta-t-----------------------------ttttgtt-------------------------cccaccatagattagttttatttagca---------------------catcttttgaatggaattata----ca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28293889  74 +  82825804 accattgttgttctta-t-----------------------------ttttgtt-------------------------cccaccatagattagttttatttagca---------------------catcttttgaatggaattata----ca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3958017  74 -   4237731 accattgttgttctta-t-----------------------------ttttgtt-------------------------cccaccacagattagttttatttagca---------------------catcttttgaatggaattata----ca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      228212  74 -   1175262 accattgttgttctta-t-----------------------------ttttgtt-------------------------cccaccatagattagttttatttagca---------------------catcttttgaatggaattata----cg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123562288  69 - 204313951 acca---ttgttctta-t-----------------------------ttttgtt-------------------------cccactgtagatcagttttcttcagga---------------------catcctttgaacagaattata------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55616995  69 -  71252344 acca---ttgttctta-t-----------------------------ttttgtt-------------------------cccactgtagatcagttttcattagga---------------------catcctttgaacagaacgata------
i saiBol1.JH378106         I 869 I 10
s cebCap1.NW_016107829v1     1309437  71 -   1400280 acca---ttgttctta-t-----------------------------ttttgtt-------------------------cccactgtagatcagttttctttagga---------------------catcctttgaacagaattataca----
i cebCap1.NW_016107829v1   C 0 I 24
s aotNan1.NW_018505940v1    13105311  71 -  42888418 gcca---ttgttctta-t-----------------------------ttttgtt-------------------------cccactgtagatcagttttctttagga---------------------catcctttgaacagaattata--ca--
i aotNan1.NW_018505940v1   C 0 I 7
s otoGar3.GL873679           2989566  71 +   4132165 acca---ctgttccta-c-----------------------------atttgtt-------------------------cccaccatacattggttttctctagaa---------------------cgtcatatagatgcggccata----ca
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55450592 120 +  90702639 atga---ttggcttta-tcatcctgcacgttacaccataacgttctatcttgccaaaggacaaaagccaacggggccaacccatcatggattgacaccttt--------------------------aaactcttgagtcaaaataca----ca
i mm10.chr18               C 0 I 2
s canFam3.chr11             14852785  71 +  74389097 acca---ttgctctta-t-----------------------------ctttgtt-------------------------cccaccatagatttgttttccctagaa---------------------aatcatgtaaatgaaatcaca----ca
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2545569  54 +   3667625 gcca---ttgttttcact-----------------------------ttttctt-------------------------ctgacagtggattagttttgtc--------------------------tgttctataa-----------------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60468432 1004 + 108143057 I
e proCoq1.NW_012155062v1     3506174 104 +  11683526 I

a score=-172.000000
s hg38.chr5_KI270796v1_alt      3481 2 +    172708 cc-
s panTro5.chr5             125113569 2 + 181907262 TC-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126450566 2 + 183735486 tc-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1642267 2 +   8933513 tc-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139773280 2 + 163208435 cc-
i nomLeu3.chr2             C 0 C 0
s otoGar3.GL873679           2989637 2 +   4132165 tc-
i otoGar3.GL873679         C 0 I 480
s mm10.chr18                55450714 1 +  90702639 -c-
i mm10.chr18               I 2 I 1
s dasNov3.JH567306           2545623 2 +   3667625 -ct
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60468432 1004 + 108143057 I
e canFam3.chr11             14852856 0 +  74389097 C
e proCoq1.NW_012155062v1     3506174 104 +  11683526 I
e manLeu1.NW_012103321v1     3958091 0 -   4237731 C
e chlSab2.chr23             28293963 0 +  82825804 C
e cerAty1.NW_012002512v1     5184097 0 +  26952557 C
e macNem1.NW_012012355v1    16180095 0 +  18395747 C
e macFas5.chr6             124182079 0 + 181584905 C
e rheMac8.chr6             122758561 0 + 180051392 C
e aotNan1.NW_018505940v1    13105382 7 -  42888418 I
e cebCap1.NW_016107829v1     1309508 24 -   1400280 I
e saiBol1.JH378106          55617064 10 -  71252344 I
e calJac3.chr2             123562357 0 - 204313951 C
e colAng1.NW_012119644v1      228286 0 -   1175262 C

a score=17978.000000
s hg38.chr5_KI270796v1_alt      3483 17 +    172708 ctttga-----atggaattata
s panTro5.chr5             125113571 17 + 181907262 CTTTGA-----ATGGAATTATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126450568 17 + 183735486 ctttga-----atggaattata
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1642269 17 +   8933513 ctttga-----atggaattata
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139773282 17 + 163208435 ctttga-----atggaattata
i nomLeu3.chr2             C 0 C 0
s mm10.chr18                55450716 15 +  90702639 ctctag-----ttgg--ttatc
i mm10.chr18               I 1 I 3
s dasNov3.JH567306           2545625 22 +   3667625 ccatgatgccgatggaatcaca
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60468432 1004 + 108143057 I
e canFam3.chr11             14852856  0 +  74389097 C
e proCoq1.NW_012155062v1     3506174 104 +  11683526 I
e manLeu1.NW_012103321v1     3958091  0 -   4237731 C
e chlSab2.chr23             28293963  0 +  82825804 C
e cerAty1.NW_012002512v1     5184097  0 +  26952557 C
e macNem1.NW_012012355v1    16180095  0 +  18395747 C
e macFas5.chr6             124182079  0 + 181584905 C
e rheMac8.chr6             122758561  0 + 180051392 C
e otoGar3.GL873679           2989639 480 +   4132165 I
e aotNan1.NW_018505940v1    13105382  7 -  42888418 I
e cebCap1.NW_016107829v1     1309508 24 -   1400280 I
e saiBol1.JH378106          55617064 10 -  71252344 I
e calJac3.chr2             123562357  0 - 204313951 C
e colAng1.NW_012119644v1      228286  0 -   1175262 C

a score=111236.000000
s hg38.chr5_KI270796v1_alt      3500 25 +    172708 -tgtattacctt---------------aactctgcctactg
s panTro5.chr5             125113588 25 + 181907262 -TGTATTACCTT---------------AACTCTGCCTACTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126450585 25 + 183735486 -tgtattacctt---------------aactctgcctactg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1642286 25 +   8933513 -tgtattacctt---------------aactctgcctactg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139773299 25 + 163208435 -tgtattacctt---------------aactctgcctactg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122758561 23 + 180051392 ---TATTACCTT---------------AGCTCTGCCTAGTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124182079 23 + 181584905 ---TATTACCTT---------------AGCTCTGCCTAGTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16180095 23 +  18395747 ---tattacctt---------------agctctgcctagtg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5184097 23 +  26952557 ---TATTACCTT---------------AGCTCTGCCTAGTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28293963 23 +  82825804 ---TATTACCTT---------------AGCTCTGCCTAGTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3958091 23 -   4237731 ---ttttacctt---------------agctctgcctagtg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      228286 23 -   1175262 ---tatTACCTT---------------AGCTCTGCCTAGTA
i colAng1.NW_012119644v1   C 0 C 0
s mm10.chr18                55450734 40 +  90702639 -ggtattacagcatgagaaagctagcaAACGTAGCCATGTA
i mm10.chr18               I 3 C 0
s dasNov3.JH567306           2545647 26 +   3667625 cagtagtacttt---------------cattcagtttattg
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60468432 1004 + 108143057 I
e canFam3.chr11             14852856  0 +  74389097 C
e proCoq1.NW_012155062v1     3506174 104 +  11683526 I
e otoGar3.GL873679           2989639 480 +   4132165 I
e aotNan1.NW_018505940v1    13105382  7 -  42888418 I
e cebCap1.NW_016107829v1     1309508 24 -   1400280 I
e saiBol1.JH378106          55617064 10 -  71252344 I
e calJac3.chr2             123562357  0 - 204313951 C

a score=312181.000000
s hg38.chr5_KI270796v1_alt      3525  73 +    172708 cccaagtcaacctgcattctgaaacttatctgagtttacatag------------------aaaacatgc-----------------------aattcattaattcta----attctg
s panTro5.chr5             125113613  73 + 181907262 CCCAAGTCAACCTGAATTCTGAAACTTATCTGAGTTTACATAG------------------AAAACATGC-----------------------AATTCATTAATTCTA----ATTCTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126450610  73 + 183735486 cccaagtcaacctgaattctgaaacttatctgagtttacatag------------------aaaacatgc-----------------------aattcattaattcta----attctg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1642311  73 +   8933513 cccaagtcaacctgcattctgaaacttatctgagtttacatag------------------aaagcatgc-----------------------aattcattaattcta----attctg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139773324  73 + 163208435 cccaggccaacctgcgttctgaaacttatctgagcttacatag------------------aaagcatgc-----------------------aattcattaattcta----attcta
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122758584  73 + 180051392 CCCAAGCCAACCCACATTCTGAATCTTATCTGAGTTTACGTAG------------------AAAGCATGC-----------------------Aattcattaattcta----attcta
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124182102  73 + 181584905 CCCAAGCCAACCCACATTCTGAATCTTATCTGAGTTTACGTAG------------------AAAGCATGC-----------------------Aattcattaattcta----attcta
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16180118  73 +  18395747 cccaagccaacccacattctgaatcttatctgagtttacgtag------------------aaagcatgc-----------------------aattcattaattcta----attcta
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5184120  73 +  26952557 CCCAAGCCAACCCACATTCTGAATCTTATCTGAGTTTACGTAG------------------AAAGCATGC-----------------------AATTCATTAACTCTA----ATTCTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28293986  73 +  82825804 TCCAAGCCAACCCACATTCTGAATCTTATCTGAGTTTACGTAG------------------AAAGCATGC-----------------------AGTTCATtaattcta----attcta
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3958114  73 -   4237731 cccaagccaacccacattctgaatcttatctgagtttacgtag------------------aaagcatgc-----------------------aattcattaattcta----attcta
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      228309  73 -   1175262 CCCAAGCCAACCCACATTCTGAATCTTATCTGAGTTTACATAG------------------AAAGCATGC-----------------------AATTCATTAATTCTA----GTTCTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123562357   9 - 204313951 --------------------------------------------------------------cagtatgt-----------------------a------------------------
i calJac3.chr2             C 0 C 0
s mm10.chr18                55450774 117 +  90702639 TCTAAGAT-ACTGTCATTCTAGAATTTTCCTGGACatacttgtcctcagtcctctagaagcaaaacctgttcttattttttgtcctcactacagattaaatgcctctggaacattctg
i mm10.chr18               C 0 C 0
s canFam3.chr11             14852856   7 +  74389097 --------------------------------------------------------------atatatg-------------------------------------------------
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60468432 1004 + 108143057 I
e proCoq1.NW_012155062v1     3506174 104 +  11683526 I
e otoGar3.GL873679           2989639 480 +   4132165 I
e aotNan1.NW_018505940v1    13105382   7 -  42888418 I
e cebCap1.NW_016107829v1     1309508  24 -   1400280 I
e dasNov3.JH567306           2545673   0 +   3667625 C
e saiBol1.JH378106          55617064  10 -  71252344 I

a score=50168.000000
s hg38.chr5_KI270796v1_alt      3598 17 +    172708 ctcttgc--------------------------------------ataagtcgtc
s panTro5.chr5             125113686 17 + 181907262 CTCTTGC--------------------------------------ATAAGTCGTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126450683 17 + 183735486 ctcttgc--------------------------------------ataagtcgtc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1642384 17 +   8933513 ctcttgc--------------------------------------ataagtcgtc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139773397 17 + 163208435 ctcttgc--------------------------------------ataagtcatc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122758657 44 + 180051392 ctcttgctgtattctactata---------tact--aattctactataactcttc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124182175 44 + 181584905 ctcttgctgtattctactata---------tact--aattctactataactcttc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16180191 44 +  18395747 ctcttgctgtattctactata---------tact--aattctactataactcttc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5184193 53 +  26952557 CTCTTGCTGTATTCTACTATATACTAATTCTACT--AATtctactataactcttc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28294059 49 +  82825804 ctcttgctgtattctactatat----aatctact--aattctaCTATAACTCTTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3958187 53 -   4237731 ctcttgctgtattctactatatgctaattctact--aattctactataactcttc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      228382 44 -   1175262 CTCTTGCTGTATTCTACTATA---------TACT--AATTCTACTATAACTCTTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123562366 17 - 204313951 ctcttgt--------------------------------------gtgagtcttc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55617074 17 -  71252344 ctcttgt--------------------------------------gtaagtctta
i saiBol1.JH378106         I 10 C 0
s aotNan1.NW_018505940v1    13105389 17 -  42888418 ctcttgt--------------------------------------gtaagtctta
i aotNan1.NW_018505940v1   I 7 C 0
s proCoq1.NW_012155062v1     3506278 17 +  11683526 ctcttgt--------------------------------------gtaagtcttc
i proCoq1.NW_012155062v1   I 104 C 0
s mm10.chr18                55450891 25 +  90702639 ------------------------------caccagaatggtacagtatatattc
i mm10.chr18               C 0 I 7
s canFam3.chr11             14852863 17 +  74389097 cttttgt--------------------------------------gtaaagcttc
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60468432 1004 + 108143057 I
e otoGar3.GL873679           2989639 480 +   4132165 I
e cebCap1.NW_016107829v1     1309508 24 -   1400280 I
e dasNov3.JH567306           2545673  0 +   3667625 C

a score=214887.000000
s hg38.chr5_KI270796v1_alt      3615 18 +    172708 tttcagttggcatgttgt
s panTro5.chr5             125113703 18 + 181907262 TTTCAGTTGGcatgttgt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126450700 18 + 183735486 tttcagttggcatgttgt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1642401 18 +   8933513 tttcaattggcatgttgt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139773414 18 + 163208435 tttcaattggcttgttgt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122758701 18 + 180051392 tttcaattGGcatgatgt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124182219 18 + 181584905 tttcaattGGcatgatgt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16180235 18 +  18395747 tttcaattggcatgatgt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5184246 18 +  26952557 tttcaattggcatgatgt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28294108 18 +  82825804 TTTCAATTGGcatgatgt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3958240 18 -   4237731 tttcaattggcatgatgt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      228426 18 -   1175262 TTTCAATTGGcatgatgt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123562383 18 - 204313951 tttcaattggcatgttgt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55617091 18 -  71252344 tttcaactggcatgttgt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1309532 18 -   1400280 tttcaattggcatgttgt
i cebCap1.NW_016107829v1   I 24 C 0
s aotNan1.NW_018505940v1    13105406 18 -  42888418 tttcaattggcatgttgt
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3506295 18 +  11683526 tttcagtgaacatgttgt
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55450923 18 +  90702639 ttttaatcaccataTATC
i mm10.chr18               I 7 C 0
s canFam3.chr11             14852880 18 +  74389097 ttccaatcaggatattgt
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60468432 1004 + 108143057 I
e otoGar3.GL873679           2989639 480 +   4132165 I
e dasNov3.JH567306           2545673  0 +   3667625 C

a score=56115.000000
s hg38.chr5_KI270796v1_alt      3633 7 +    172708 ttggtgt
s panTro5.chr5             125113721 7 + 181907262 ttggagt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126450718 7 + 183735486 ttggagt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1642419 7 +   8933513 ttggtgt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139773432 7 + 163208435 ttggtgt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122758719 6 + 180051392 ttgctg-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124182237 6 + 181584905 ttgctg-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16180253 6 +  18395747 ttgctg-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5184264 7 +  26952557 ttgctgt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28294126 7 +  82825804 ttgctgt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3958258 7 -   4237731 ttgctgt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      228444 7 -   1175262 ttgctgt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123562401 7 - 204313951 ttggtgt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55617109 7 -  71252344 ttggtgt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1309550 7 -   1400280 ttggtgt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13105424 7 -  42888418 ttggtgt
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3506313 7 +  11683526 ttggtgt
i proCoq1.NW_012155062v1   C 0 I 1
s mm10.chr18                55450941 7 +  90702639 TGGGTGC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14852898 7 +  74389097 tgggaat
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2545673 7 +   3667625 ttggtgt
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60468432 1004 + 108143057 I
e otoGar3.GL873679           2989639 480 +   4132165 I

a score=2326817.000000
s hg38.chr5_KI270796v1_alt      3640 179 +    172708 atcagtagtttga----tatt-ttttattgcagagg------gagattctgttatgattataccaaaatttgtttattcatt---ctatttatgaaca--ccagcactgtttc---caatttttggctattatggat-aatgttgctgtggacatttctatatag-atctttAGATCCTGCATCTT------AT-TT--------------------------------CAGG------------TTCCCA
s panTro5.chr5             125113728 179 + 181907262 atcagtagtttga----tatt-ttttattgcagagg------gagattctgttatgattataccaaaatttgtttattcatt---ctatttatgaaca--ccagcactgtttc---caatttttgactattatggat-aatgttgctgtggacatttctatatag-atctttAGATCCTGCATCTT------AT-TT--------------------------------CAGG------------TTCCCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126450725 179 + 183735486 atcagtagtttga----tatt-ttttattgcagagg------gagattctgttatgattataccaaaatttgtttattcatt---ctatttatgaaca--ccagcactgtttc---caatttttgactattatggat-aatgttgctgtggacatttctatatag-atctttAGATCCTGCATCTT------AT-TT--------------------------------CAGG------------TTCCCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1642426 180 +   8933513 atcagtagtttga----tatt-ttttattgcagagg------gagattctgttatgattataccaaaatttgtttattcatt---ctatttatgaaca--ccagcactgtttc---caatttttgactattatggat-aatgttgctgtggacatttctatatag-atctttagatcctgcatctt------atctt--------------------------------cagg------------ttccca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139773439 176 + 163208435 atcagtagtttga----tatt-ttttattgcagagg------gatattctgttatgattataccaaaatgtg----ttcatt---ctatttatgaaca--ccagtgctgtttc---cagtttttgactattatggat-aatgttgctgtggacatttctatatag-acctttAGATCCTGCATCTT------ATCTT--------------------------------CAGG------------TTCCCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122758725 176 + 180051392 atcagtagtttga----tatt-ttttattgcagagg------gatattctgttatgattataccaaaatttg----ttcatt---ctacttatgaaca--ccagtgctgcttc---caatttttgactattatggat-aatgttgctgtggacatttctatatag-atctttAGATCCTGCATCTT------ATCTT--------------------------------CAGG------------TTCCCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124182243 180 + 181584905 atcagtagtttga----tatt-ttttattgcagagg------gatattctgttatgattataccaaaatttgtttattcatt---ctacttatgaaca--ccagtgctgcttc---caatttttgactattatggat-aatgttgctgtggacatttctatatag-atctttAGATCCTACATCTT------ATCTT--------------------------------CAGG------------TTCCCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16180259 180 +  18395747 atcagtagtttga----tatt-ttttattgcagagg------gatattctgttatgattataccaaaatttgtttattcatt---ctacttatgaaca--ccagtgctgcttc---caatttttgactattatggat-aatgttgctgtggacatttctatatag-atctttAGATCCTGCATCTT------ATCTT--------------------------------CAGG------------TTCCCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5184271 180 +  26952557 atcagtagtttga----tatt-ttttattgcagagg------gatattctgttatgattataccaaaatttgtttattcatt---ctacttatgaaca--ccagtgctgcttc---caatttttgactattatggat-aatgttgctgtggacatttctatatag-atctttAGATCCTGCATCTT------ATCTT--------------------------------CAGG------------TTCCCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28294133 180 +  82825804 atcagtagtttga----tatt-ttttattgcagagg------gatattctgttatgattataccaaaatttgtgtattcatt---ctacttatgaaca--ccagtgctgcttt---caatttttgactattatggat-aatgttgctgtggacatttctatatag-atctttAGATCCTGCATCTT------ATCTT--------------------------------CATG------------TTCCCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3958265 180 -   4237731 atcagtagtttga----tatt-ttttattgcagagg------gatattctgttatgattataccaaaatttgtttattcatg---ctacttatgaaca--ccagtgctgcttc---caatttttgactattatggat-aatgttgctgtggacatttctatatag-atctttAGATCCTGCATCTT------ATCTT--------------------------------CAGG------------TTCCCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      228451 180 -   1175262 atcagtagtttga----tatt-ttttattgcagagg------gatattctgttatgattataccaaaatttgtttgttcttt---ctacttataaaca--tcagtgctgcttc---caatttttgactatcatggat-aatgttgctgtggacatttctatatag-atctttAGATCCTGCATCTT------ATCTT--------------------------------CAGG------------TTCCCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123562408 181 - 204313951 atcagtagtttga----tatttttttattgcagagg------gatattctgttatgattatatcaaaatttgtttattcatc---ctatttatgaaca--ctaggaatgtttc---caatttttaactattatggat-aatgttgctgtggacatttctatatag-atctttAGATCCTGCCTCTT------TTCTT--------------------------------CAGG------------TTCCCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55617116 185 -  71252344 atcagtagtttgatttttttttttttattgcagagg------aatattctgttatgattataccaaaatttgtttattcatt---ctatttatgaaca--ccaggaatgtttc---cagtttttaactattatggat-aatgctgctgtagacatttctatatag-atctttAGATCCTGCCTCTT------ATCTT--------------------------------CAGG------------TTCCCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1309557 180 -   1400280 atcagtagtttaa----tttttttttattgcagagg------gatattctgttatgattataccgaaatttgtttattcat-----tatttatgaaca--ccaggaatgtttc---caatttttaactattatggataaatgttgctgtggacatttctatatag-atctttAGATCCTGCCTCTT------ATCTT--------------------------------CAGG------------CTTCCA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13105431 181 -  42888418 atcagtagtttga----tattgttttattgcagatg------gatattctgttatgattataccaaaatttgtttattcatt---ctatttatgaaca--ccaggaatgtttc---caatttttaactattatggat-aatgttgctgtggacatttctatatag-atctttAGATCCTGCTTCTT------ATCTT--------------------------------CAGG------------TTTCCA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3506321 181 +  11683526 atctgtagttt--------gt-ttttattgcagaga------aattct---ttatgattataccacaatttatttattcattatcctatttatgaacaccccagagctgtttc---caacttttgactagtatgggt-aatgttgttatgaaaattcctattctatatctttagatcctgcatctt------atctt--------------------------------caggt----------cttctca
i proCoq1.NW_012155062v1   I 1 C 0
s otoGar3.GL873679           2990119 185 +   4132165 atctgtagtttct--tttctt-tttttttgctgagg------gattct---atttgatcataccacgatttatttattcattcttccatttatgaaca--tcagagctgtttt--acattttttgactattattgat-aatgtttctataaaaattcctatacTG-AGCTTTAGATAGTGCATCTT------ACTTT--------------------------------TAGGT----------ATTCTCA
i otoGar3.GL873679         I 480 C 0
s mm10.chr18                55450948 237 +  90702639 GTTGGCCATTTGT----TCTTGTTATTTTACAGCAGTATCCTGGTGTTCTTTCATGTTAATGCC--AGTTTGCTTAGTAGCTTTTATAATTTTGGATA--GCAGTGTTACTTCTTTTTTTTTTTTACTGTTGTGGAT-AATGTTT---TGAACATATCTATA-AG-AGACATAGGCTCTGAATTTTGGTATGATTTTGTtttgtttactttgaataggacacatgtgtgcaggctagctttgaacttccta
i mm10.chr18               C 0 I 107
s canFam3.chr11             14852905 181 +  74389097 attagcactttgc----tctttttttatcatagagg------gatattttgttatgattacactacaatttattaattc-tc---ctgcttatggact--tgaaagctgtttc---caatttttgactgttattaat-aacgctgctgtgaacattcctatgtat-gcctttAGAATCT-CACTCC------ATCTA--------------------------------CAGGCA----------TTCTCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2545680 186 +   3667625 atcagtagtttgc----ttcttttttattgctgaag------gatattctgttgtgactataccacagtttgtctattcattctcctattgctggata--tcaagattgtttc---tgtgttttaactgttatgaat-aaagttactgcaaatatttctgtacag-gtctttAGATCAGGGATCTT------ATCTA--------------------------------TCGGTA----------TTCTGA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60468432 1004 + 108143057 I

a score=443466.000000
s hg38.chr5_KI270796v1_alt      3819 32 +    172708 GTCTCTCCCCACAAAACTGACAGTCC--ATTGGG
s panTro5.chr5             125113907 32 + 181907262 GTCTCTCCCCACAAAACTGACAGTCC--ATTGGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126450904 32 + 183735486 GTCTCTCCCCACAAAACTGACAGTCC--ATTGGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1642606 12 +   8933513 gtctctc----------------------ttggg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139773615 32 + 163208435 GTCTCTCCCCACAAAACTGAGAGTCC--ATTGGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122758901 32 + 180051392 GTCTCTCCCCACAAAACTGAGAGTCC--ATTGGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124182423 32 + 181584905 GTCTCTCCCCACAAAACTGAGAGTCC--ATTGGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16180439 32 +  18395747 GTCTCTCCCCACAAAACTGAGAGTCC--ATTGGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5184451 32 +  26952557 GTCTCTCCCCACAAAACTGAGAGTCC--ATTGGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28294313 32 +  82825804 GTCTCTCCCCACAAAACTGAGAGTCC--ATTGGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3958445 32 -   4237731 GTCTCTCCCCACAAAACTGAGAGTCC--ATTGGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      228631 32 -   1175262 GTCTCTCCCCACAAAACTGAGAGTCC--ATTGGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123562589 32 - 204313951 GTCTCTCCCCACAAAACTGAGAGTCC--ACTGGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55617301 32 -  71252344 GTCTCTCCCCACAAAACTGAGAGTCC--ATTGGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1309737 32 -   1400280 GTCTGTCCCCACAAAACTGAGAGTCC--ATTGGG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13105612 32 -  42888418 GTCTCTCCCCACAAAACTGAGAGTCC--ATTGGG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3506502 34 +  11683526 gtctctatacccaaaactgagagtcctgACCGGG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2990304 32 +   4132165 GCCTGTAGCCCCAAAGTTAAGAGTCC--ACTGGG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55451292 32 +  90702639 GTCACTCTTTACAAAACCCAGAGACT--GTTGAG
i mm10.chr18               I 107 C 0
s canFam3.chr11             14853086 32 +  74389097 GTCTCTTCCCACACAACTAATGGCCC--ATTTTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2545866 32 +   3667625 GTCTCTCCCCACAAAACTGAGAGTCC--ATTAGG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60468432 1004 + 108143057 I

a score=10615851.000000
s hg38.chr5_KI270796v1_alt      3851 708 +    172708 TTTATGTA-----GACAACTGTGTACT--TCAGA---CTACCAAATAAGTTTCCATTTCAGGCCCTGCT-TGGGCTTGATAAAT--------TCAGTGTAGCACTT----TTTTTT-TTTT------------------------------------------TCATCAAGCA-TTTGAGCACAGATGGA-AAGAAT-AAAAAAAGAAGAAGTAATGACCTTAGGCATATTCTTGAAGTGTGAATGCACTGTTTTCGTCAAATAACTTCTATGTGAAATATCAGTTTGCAATTCTAGGAGGAAAA-AAAAATAAAAGAATTGTTGTATAATCTCTGTACTTCTTCCATAAAGATTGACTGTGACTTAAAATAGCCTGGAGTTATTAATGCTGTAAATCTTTCTGAAAGAGATTTCAGTGCTTGTTCTTCTTGCTCTCAAAAA----ACAAAACAAAACAAAAGT---------ATAGCTCTCATATAAGTGACACAATTTCGAACTCTATCAAGATTAGTCTGTTTCTAATGCCCAGGGCTAAAATAAATTGTGAAATTCTTAAATATTTATTTAAATAACTGAAAGTATTGTAACAAA-GTTTGCTGGTTTAGATAGACCGTTTCAAATGGGCCACCTGAATATTTGAAACTTTGACTTCTGTAAGACTAT-----ACAAGGATG--------ATGAC--CATATTATTGAATC-----A--------AATTCTTCAAAG-AAATTAGAAACAACTACTT--ATGTGTAATTATAAGTTGCAAG--GGGG-------TAGTTGGGTAGGAGT---AAACA--G-AAGGGTTTCTCCT
s panTro5.chr5             125113939 706 + 181907262 TTTATGTA-----GACAACTGTGTACT--TCAGA---CTACCAAATAAGTTTCCATTTCAGGCCCTGCT-TGGGCTTGATAAAT--------TCAGTGTAGCACTT----TTTTTT-TTTT-------------------------------------------CATCAAGCA-TTTGAGCACAGATGGA-AAGAAT-AAAAAAAGAAGAAGTAATGACCTTAGGCATATTCTTGAAGTGTGAATGCACTGTTTTCGTCAAATAACTTCTATATGAAATATCAGTTTGCAATTCTAGGAGGAAAA-AAAA-TAAAAGAATTTTTGTATAATCTCTGTACTTCTTCCATAAAGATTGACTGTGACTTAAAATAGCCTGGAGTTATTAATGCTGTAAATCTTTCTGAAAGAGATTTCAGTGCTTGTTCTTCTTGCTCTCAAAAA----ACAAAACAAAACAAAAGT---------ATAGCTCTCATATAAGTGACACAATTTCGAACTCTATCAAGATTAGTCTGTTTCTAATGCCCAGGGCTAAAATAAATTGTGAAATTCTTAAATATTTATTTAAATAACTGAAAGTTTTGTAACAAA-GTTTGCTGGTTTAGATAGACCGTTTCAAATGGGCCACCTGAATATTTGAAACTTTGACTTCTGTAAGACTAT-----ACAAGGATG--------ATGAC--CATATTATTGAATC-----A--------AATTCTTCAAAG-AAATTAGAAACAACTACTT--ATGTGTAATTATAAGTTGCAAG--GGGG-------TAGTTGGGTAGGAGT---AAACA--G-AAGAGTTTCTCCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126450936 706 + 183735486 TTTATGTA-----GACAACTGTGTACT--TCAGA---CTACCAAATAAGTTTCCATTTCAGGCCCTGCT-TGGGCTTGATAAAT--------TCAGTGTAGCACTT----TTTTTT-TTTT-------------------------------------------CATCAAGCA-TTTGAGCACAGATGGA-AAGAAT-AAAAAAAGAAGAAGTAATGACCTTAGGCATATTCTTGAAGTGTGAATGCACTGTTTTCGTCAAATAACTTCTATGTGAAATATCAGTTTGCAATTCTAGGAGGAAAA-AAAA-TAAAAGAATTTTTGTATAATCTCTGTACTTCTTCCATAAAGATTGACTGTGACTTAAAATAGCCTGGAGTTATTAATGCTGTAAATCTTTCTGAAAGAGATTTCAGTGCTTGTTCTTCTTGCTCTCAAAAA----ACAAAACAAAACAAAAGT---------ATAGCTCTCATATAAGTGACACAATTTCGAACTCTATCAAGATTAGTCTGTTTCTAATGCCCAGGGCTAAAATAAATTGTGAAATTCTTAAATATTTATTTAAATAACTGAAAGTTTTGTAACAAA-GTTTGCTGGTTTAGATAGACCGTTTCAAATGGGCCACCTGAATATTTGAAACTTTGACTTCTGTAAGACTAT-----ACAAGGATG--------ATGAC--CATATTATTGAATC-----A--------AATTCTTCAAAG-AAATTAGAAACAACTACTT--ATGTGTAATTATAAGTTGCAAG--GGGG-------TAGTTGGGTAGGAGT---AAACA--G-AAGAGTTTCTCCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1642618 710 +   8933513 tTTACGTA-----GACAACTGTGTACT--TCAGA---CTACCAAATAAGTTTCCATTTCAGGCCCTGCT-TGGGCTTGATAAAT--------TCAGTGTAGCACTT----TTTTTT-TTTT----------------------------------------TTTCATCAAGCA-TTTGAGCACAGATGGA-AAGAAT-AAAAAAAGAAGAAGTAATGACCTTAGGCATATTCTTGAAGTGTGAATGCACTGTTTTCGTCAAATAACTTCTATGTGAAATATCAGTTTGCAATTCTAGGAGGAAAA-AAAAATAAAAGAATTGTTGTATAATCTCTGTACTTCTTCCATAAAGATTGACTGTGACTTAAAATAGCCTGGAGTTATTAATGCTGTAAATCTTTCTGAAAGAGATTTCAGTGCTTGTTCTTCTTGCTCTCAAAAA----ACAAAACAAAACAAAAGT---------ATAGCTCTCATATAAGTGACACAATTTCAAACTCTATCAAGATTAGTCTGTTTCTAATGCCCAGGGCTAAAATAAATTGTGAAATTCTTAAATATTTATTTAAATAACTGAAAGTATTGTAACAAA-GTTTGCTGGTTTAGTTAGACCGTTTCAAATGGGCCACCTGAATATTTGAAACTTTGACTTCTGTAAGACTAT-----ACAAGGATG--------ATGAC--CATATTATTGAATC-----A--------AATTCTTCAAAG-AAATTAGAAACAACTATTT--ATGTGTAATTATAAGTTGCAAG--GGGG-------TAGTTGGGTAGGAGT---AAAAA--G-AAGGGTTTCTCCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139773647 700 + 163208435 TTTATGTA-----GACAACTGTGTACT--TCAGA---CTACCGAATAAGTTTCCATTTCAGGCCCTGCT-TGGCCTTGATAAAT--------TCAGTGTAGCACTT----TTTTTT-TTCT------------------------------------------CCATCAAGCA-TTTGAGCACAGATGGA-AAGAATAAAAAAAAGAGGAAGTAATGACCTTAGGCGTATTCTTGAAGTGTGAATGCACAGTTTTCGTCAAATAACTTCTATGTAAAATATCAGTTTGCAATTCTAGGAGGAAAA-AAAC-TAAAAGAATTGTTGTATAATCTCTGTACTTCTTCCATAAAGATTGACTGTGACTTAAAATAGCCTGGAGTTATTAGTGCTGTAAATCCTTCTGAAAGAGATTTCAGTGCTTGTTCTTCTTGCTCTCAAAAA----ACAAAATAAAA-AAAAGT---------GTAGCTCTCATATAAGTGACATAATTTCGAAATCTATCAAGATTAGTCTGTTTCTAATGCCCAGGGCTAAAATAAATTGTGAAATTCTTAGATATTTATTTAAATAACTAAAAGTATTGTAACAAA-GTTTGCTGGTTTAGATAGACCATTTCAAATGGGCCACCTGAATATTTGAAGCTTTGACTTCTGTAAGACTAT-----ACAAGGATG--------ATGAC--CATATTATTGAATC-----A--------AATTCTTCAAAG-AAATTAGAAACAACTGCTT--ATGTGTAA-------CTGTAAG--GGGG-------TAGTTGGGTAGGAGT---AAACA--G-AAGAGTTTCTCCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122758933 704 + 180051392 TTTATGTA-----GACAACCGTGTATT--TCAGA---CTACCAGATAAGTTTCCATTTCAGGCCCTGCT-TGGGCTTGATAAAT--------TCAGTGTAGCACTC----TTTTTC--TTTT---------------------------------------TTTCATTGAGCA-TTTGAGCACAGATGGA-AAGAATAAAAAAAAGAGGAAGTAATGACCTTAGGCATATTCTTGAAGTGTGAATGCCCTGTTTTTGTCAAATAACTTTTATATGAAATATAAGTTTGCAATTCTAGAAGGAAAA-AAAA-TAAGAGAATTGTTGTATAATCTCTGTACTTCTTCCATAAAGATTGACTGTGACTTAAAATAGCCTGGAGTTATTAATGCTGTAAATCTTTCTGAAAGAGATTTCAGTGCTTGTTCTTCTTGCTTTCaaa--------aaaaaaaaaaaaaaGT---------ATAGCTCTCATATAAGTGATACAATTTCAAATTTTATCAAAATTAGTCTGTTTCTAATGCCCAGGGCTAAAATAAATTGTGAAATTCTTAAATATTTATTTAAATAACTAAAACCGTTGTAACAAA-GTTTGCTGGTTTAGATAGACCATTTC-AATGGGCCACCTGAATATTTGAAGCTTTGACTTCTACAAGACTAT-----ATAAGGATG--------ATGAC--TATATTATTGAATC-----A--------AATTCTTCAAAG--AATTAGAAACAACTATTT--ATGTGTAATTATAAGTTGCAAA--GGGG-------TAGTTGGGTAGGAGT---AAACA--G-AAGGGTTTCTCCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124182455 705 + 181584905 TTTATGTA-----GACAACCGTGTATT--TCAGA---CTACCAGATAAGTTTCCATTTCAGGCCCTGCT-TGGGCTTGATAAAT--------TCAGTGTAGCACTC----TTTTTC-TTTTT---------------------------------------TTTCATTGAGCA-TTTGAGCACAGATGGA-AAGAATAAAAAAAAGAGGAAGTAATGACCTTAGGCATATTCTTGAAGTGTGAATGCCCTGTGTTTGTCAAATAACTTTTATATGAAATATAAGTTTGCAATTCTAGAAGGAAAA-AAAA-TAAGAGAATTGTTGTATAATCTCTGTACTTCTTCCATAAAGATTGACTGTGACTTAAAATAGCCTGGAGTTATTAATGCTGTAAATCTTTCTGAAAGAGATTTCAGTGCTTGTTCTTCTTGCTTTCaaa--------aaaaaaaaaaaaaaGT---------ATAGCTCTCATATAAGTGATACAATTTCAAATTTTATCAAGATTAGTCTGTTTCTAATGCCCAGGGCTAAAATAAATTGTGAAATTCTTAAATATTTATTTAAATAACTAAAACCGTTGTAACAAA-GTTTGCTGGTTTAGATAGACCATTTC-AATGGGCCACCTGAATATTTGAAGCTTTGACTTCTACAAGACTAT-----ATAAGGATG--------ATGAC--TATATTATTGAATC-----A--------AATTCTTCAAAG--AATTAGAAACAACTATTT--ATGTGTAATTATAAGTTGCAAA--GGGG-------TAGTTGGGTAGGAGT---AAACA--G-AAGGGTTTCTCCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16180471 704 +  18395747 TTTATGTA-----GACAACCGTGTATT--TCAGA---CTACCAGATAAGTTTCCATTTCAGGCCCTGCT-TGGGCTTGATAAAT--------TCAGTGTAGCACTC----TTTTTCTTTTTT---------------------------------------TTTCATTGAGCA-TTTGAGCACAGATGGA-AAGAATAAAAAAAAGAGGAAGT-ATGACCTTAGGCATATTCTTGAAGTGTGAATGCCCTGTTTTTGTCAAATAACTTTTATATGAAATATAAGTTTGCAATTCTAGAAGGAAAA-AAAA-TAAGAGAATTGTTGTATAATCTCTGTACTTCTTCCATAAAGATTGACTGTGACTTAAAATAGCCTGGAGTTATTAATGCTGTAAATCTTTCTGAAAGAGATTTCAGTGCTTGTTCTTCTTGCTTTC-AA--------AAAAAAAAAAAAAAGT---------ATAGCTCTCATATAAGTGATACAATTTCAAACTTTATCAAGATTAGTCTGTTTCTAATGCCCAGGGCTAAAATAAATTGTGAAATTCTTAAATATTTATTTAAATAACTAAAACCGTTGTAACAAA-GTTTGCTGGTTTAGATAGACCATTTC-AATGGGCCACCTGAATATTTGAAGCTTTGACTTCTACAAGACTAT-----ATAAGGATG--------ATGAC--TATATTATTGAATC-----A--------AATTCTTCAAAG--AATTAGAAACAACTATTT--ATGTGTAATTATAAGTTGCAAA--GGGG-------TAGTTGGGTAGGAGT---AAACA--G-AAGGGTTTCTCCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5184483 704 +  26952557 TTTATGTA-----GACAACTGTGTATT--TCAGA---CTACCAGATAAGTTTCCATTTCAGGCCCTGCT-TGGGCTTGATAAAT--------TCAGTGTAGCACTC----TTTTTC-TTTTT---------------------------------------TTTCATTGAACA-TTTGAGCACAGATGGA-AAGAATAAAAAAAAGAGGAAGTAATGACCTTAGGCATATTCTTGAAGTGTGAATGCCCTGTTTTTGTCAAATAACTTTTATATGAAATGTAAGTTTGCAATTCTAGAAGGAAAA-AAAA-TAAGAGAATTGTTGTATAATCTCTGTACTTCTTCCATAAAGATTGACTGTGACTTAAAATAGCCTGGAGTTATTAATGCTGTAAATCTTTCTGAAAGAGATTTCAGTGCTTGTTCTTCTTGCTTTC-AA--------AAAAAAGAAAAAAAGT---------ATAGCTCTCATATAAGTGATACAATTTCAAACTTGATCAAGATTAGTCTGTTTCTAATGCCCAGGGCTACAATAAATTGTGAAATTCTTAAATATTTATTTAAATAACTAAAAGCATTGTAACAAA-GTTTGCTAGTTTAGATAGACCATTTC-AATGGGCCACCTGAATATTTGAAGCTTTGACTTCTATAAGACTAT-----ATAAGGATG--------ATGAC--TATATCATTGAATC-----A--------AATTCTTCAAAG--AATTAGAAACAACTATTT--ATGTGTAATTATAAGTTGCAAA--GGGG-------TAGTTGGGGAGGAGT---AAACA--G-AAGGGTTTCTCCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28294345 703 +  82825804 TTTATGTA-----GACAACTGTGTATT--TCAGA---CTACCAGATAAGTTTCCATTTCAGGCCCTGCT-TGGGCTTGATAAAT--------TCAGTGTAGCACTC----TTTTTC-TTTTT---------------------------------------TTTCATTGAGCA-TTTGAGCACAGATGGA-AAGAATTAAAAAAAGAGGAAGTAATGACCTTAGGCATATTCTTGAAGTGTGAATGCCCTGTTTTTGTCAAATAACTTTTATATGAAATATAAGTTTGCAATTCTAAAAGGAAAA-AAAA-TAAGAGAATTGTTGTATAATCTCTGTACTTCTTCCATAAAGATTGACTGTAACTTAAAATAGCCTGGAGTTATTAATGCTGTAAATCTTTCTGAAAGAGATTTCAGTGCTTGTTCTTCTTGCTTTCAAA--------AAAA--AAAAAAAAGT---------ATAGCTCTCATATAAGTGATACAATTTCAAACTTTATCAAGATTAGTTTGTTTCTAATGCCCAGGGCTAAAATAAATGGTGAAATTCTTAAATATTTATTTAAATAACTAAAAGCATTGTAACAAA-GTTTGCTAGTTTAGATAGACCATTTC-AATGGGCCACCTGAATATTTGAAGCTTTGACTTCTACAAGACTAT-----ATAAGGATG--------ATGAC--TATATTATTGAATC-----A--------AATTCTTCGAAG--AATTAGAAACAACTATTT--ATGTGTAATTATAAGTTGCAAA--GGGG-------TAGTTGGGTATGAGT---AAACA--G-AAAGGTTTCTCCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3958477 705 -   4237731 TTTATGTA-----GACAACTGTGTATT--TCAGA---CTACCAGATAAGTTTCCATTTCAGGCCCTGCT-TGGGCTTGATAAAT--------TCAGTGTAGCACTC----TTTTTC-TTTTT---------------------------------------TTTCATTGAGCA-TTTGAGCACAGATGGA-AAGAATAAAAAAAAGAGGAAGTAATGACCTTAGGCATATTCTTGAAGTGTGAATGCCCTGTTTTTGTCAAATAACTTTTATATGAAATGTAAGTTTGCAATTCTAGAAGGAAAA-AAAA-TAAGAGAATTGTTGTATAATCTCTGTACTTCTTCCATAAAGATTGACTGTGACTTAAAATAGCCTGGAGTTATTAATGCTGTAAATCTTTCTGAAAGAGATTTCAGTGCTTGTTCTTCTTGCTTTCAAA--------AAAAAGAAAAAAAAGT---------ATAGCTCTCATATAAGTGATACAATTTCAAACTTTATCAAGATTAGTCTGTTTCTAATGCCCAGGGCTAAAATAAATTGTGAAATTCTTAAATATTTATTTAAATAACTAAAAGCGTTGTAACAAA-GTTTGCTAGTTTAGATAGACCATTTC-AATGGGCCACCTGAATATTTGAAGCTTTGACTTCTACAAGACTAT-----ATAAGGATG--------ATGAC--TATATTATTGAATC-----A--------AATTCTTCAAAG--AATTAGAAACAACTATTT--GTGTGTAATTATAAGTTGCAAA--GGGG-------TAGTTGGGTAGGAGT---AAACA--G-AAGGGTTTCTCCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      228663 701 -   1175262 TTTATGTA-----GACAACTGTGTATT--TCAGA---CTACCAGATAAGTTTCCATTTCGGGCCCTGCT-TGGGCTTGATAAAT--------TCAGTGTAGCGCTC----TTTTTC-TTTTT---------------------------------------TTTCATTGAGCA-TTTGAGCACAGATGGA-AAGAATAAAAAAAAGAGGAAGTAATGACCTTAGGCGTATTCTTGAAGTGTGAATGCACTGTTTTCGTCAAATAACTTTTATATGAAATATAAGTTTGCAATTCTAGAAGG-AAA-AAAA-TAAGGTAATTGTTGTATAATCTCTGTACTTCTTCCATAAAGATTGACTGTGACTTAAAATAGCCTGAAGTTATTAATGCTGTAAATCTTTCT-AAAGAGATTTCAGTGCTTGTTCTTCTTACTTTC-----------AAAAAAAAAAAAAAGT---------ATAGCTCTCATATAAGTGACACAATTTCAAACTTTATCAAGATTAGTCTGTTTCTAACGCCCAGGGCTAAAATAAATTGTGAAATTCTTAAATATTTATTTAAATAACTAAAAGCATTGTAACAAA-GTTTGCTGGTTTAGCTAGACCATTTC-AATGGGCCACCTGAATATTTGAAGCTTTGACTTCTATAAGACTAT-----ATAAGGATG--------ATGAC--TATATTATTGAATC-----A--------AATTCTTCAAAG-AAATTAGAAACAACTATTT--ATGTGTAATTATAAGTTGCAAA--GGGG-------CAGTTGGGTAGGAGT---AAACA--G-AAGGGTTTCTCCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123562621 707 - 204313951 TTTATGTA-----GACAACTGTGTACT--TCAGA---CTACCAAATAAGTTTCTATTTCAGGCCCTTCT-AGGACTTGAAAAATTTGGTGAATCAGTGAAGTACCT----TTTTTT-TTT--------------------------------------------CATTGGGCA-TTCAAGCACAGATGGA-AAGAGTAAAACAAAGAGAAAGTAATGACCTTAGGCATATTCTTGAAGTGTGAATGCACTGTTTTTGTCCAATAACTTCTATGTGAAATATCGGTTTACAATTCTAGGAGGAAAA-AAA--TAAAAGAATTGTTGTATAATCTCTTTACTTCTTCCATGAAGATTGACTGTGACTTAAAATAGCCTGGAGTTATTAATGCTGTAAATCTTTCTGAAAGAGATTTCAGTGCTTATTCTTCTTCTGCTC-----------AG----AAAAATAAGT---------ACAGATCTCATATAAGTGATACAATTTCAAATTCTATCAAGATTAGTCTATTTCTAATGCCCAGGGCTAAAATAAATTGTGTAATTCTTAAATATTTATCTAAATAACTAAAAACATTGTAACAAA-GTTTGCTGGTTTAGATAGACCATTTCAGATGGGCCACCTCAGTATTTGAAGCTTTGAGTTCTGTGACACTGT-----ACAAGGATG--------ATGAC--TATATTATTTGATCAATATA--------ATTTCTTCAAAG-AAATGATAAACAACTACTT--ACGTGTTATTATAAGTTGCAAT--GGGG-------TAGTTGGGTATGAGT---AAACT--G-AAGGGTCTCTCCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55617333 710 -  71252344 TTTATATA-----GACAACTGTGTACT--TCAGA---CTACCAAATAAGTTTCTATTTCAGGCCCTGCT-AGGGCTTGATAAAT--------TCAGTGAAGTACCT----TTTTTT-TTTCT---------------------------------------TTCCATTGAGCA-TTCAAGCACAGATGGA-AAGAGTAAAACAAAGAGAAAGTAATGACCTTAGGCATATTCTTGAAGTGTGAATGCACTGTTTTTGTCAGATAACTTCTATGTGAAATACCAGTTTGCAATTCTAGGAGGAAAA-AAA--TAAAAGAATTGTTGTATAATCTCTGTACTTCTTCCATGAAGATTGACTGTGACTTAAAATAGCCTGGAGTTATTAATGCTGTAAATCTTTCTGAAAGAGATTTCAGTGCTTATTCTTCTTGCTCTC-----------AGAAAAAAAAAAAAGT---------ACAGATCTC-TGTAAGTGATACAATTTCAAACGCTATCAAGATTAGTCTATTTCTAATGCCCAGGGCTAAAATAAA-TGTGTAATTCTTAAATATTTATCTAAATAACTAAAAGCATTGTAACAAA-GTTTGCCGGTTTAGATAGACCATTTCAGATGGGCCACCTGAATATTTGAAGCTTTGAGTTCTATAAGACTAT-----ACAAGGATG--------ATGACTATATATTATTTGATCAGTATA--------ATTTCTTCAAAG-AAATGAGAAACAACTACTT--ATGTGTAATTATAAGTTGTAAT--TATA-------CAGTTGGGTAGGAGT---AAACTGAG-AAGGGTTTCTCCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1309769 684 -   1400280 TTTATGTA-----GACAACTGTGTACT--TCAGA---CTACCAAATAAGTTTCTATTTCAGGCCCTGCT-AGGGCTTGATAAAT--------TAAATGAAGTACCTTTTATTTTAT-TTTTT---------------------------------------TTTCATTGAGCA-TTCAAGCACAGATGGA-AAGAGTAAAACTAAGAGAAAGTAATGACCTTAGGCATATTCTTGAAGTGTGAATGCACTGTTTTTGTCAAATAACTTCTATGTGAAATGTCAGTTTGCAATTCTAGGAGGAAAA-AAA--TAAAAGAATTGTTGTATAATCTCTGTACTTCTTCCATGAAGATTGACTGTGACTTAAAATAGCCTGGAGTTATTAATGCTGTAAATCTTTCTGAAAGAGATTTCAGTGCTTATTCTTCTTGCTCTC-----------AG----GAAAAAAAGT---------ACAGATCTCATATAAGTGATACAATTTCAAACTCCATCAAGATTAGCCTATTTCTAATGCCCAGGGCTAAAATAAATTGTGTAATTCTTAAATATTTATCTAAATAACTAAACGCATTGTAACAAA-GTTTGCTCGTTTAGATAGACCATTTCAGATGGGCCACCTGAATATTTGAAGCTTTGAGTTCTATAAGACTAT-----ACAA------------------------------------TATA--------ATTTCTTCAAAG-AAATGAGAAACAGCTACTT--ATGTGTAATTATAAGTTGCAAG--GGGG-------TAGTTGGGTAAGAGT---AAACTGAG-GAGGGTTTCTCCT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13105644 701 -  42888418 TTTATGTA-----GACAACTGTGTACT--TCAGA---CTACCAAGTAAGTTTCTATTTCAGGCCCTGCT-AGGGCTTGATAAAT--------TCAGTGAAGTACCT----TTTTTT-TTT-------------------------------------------TCATTGAGCA-TTCAAGCACAGCTAGA-AAGAGTAAAACAAAGAGAAAGTAATGACCTTAGGCATATTCTTGAAGTGTGAATGCACTGTTTTTGTCAAATAACTTCTATGTGAAATATCAGTTTGCAATTCTAGGAGGAAAA-AAA--TAAAAGAATTGTTGTATAATCTCTGTACTTCTTCCATGAAGATTGACTGTGACTTAAAATAGCCTGGAGTTATTAATGCTGTAAATCTTTCTGAAAGAGATTTCAGTGCTTATTCTTCTTGCTCTC-----------AG----AAGAAAAAGT---------ACAGATCTCATATAAGTGATACAGTTTCAAACTCTATCAAGATTAGTCTGTTTCTAATGCCCAGGGCTAAAATAAATTGTGTAATTCTTAAATATTTATCTAAATAGCTAAAAGCATTGTAACAAA-GTTTGCTGGTTTAGATAGACCATTTCAGATGGGCCCCCTGAATATTTGAAACTTTGAGTTCTATAAAACTAT-----ACACGGATG--------ATGAC--TATATTACTTGATCAATACA--------ATTTCTTCAAAG-AAATGAGAAACAACTACTT--ATGTGTAATTATAAGTTGCAAG--GGGG-------TAGTTGGGTAGGAAT---AAACTG-A-ATCGGTTTCTCCT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60469436 705 + 108143057 TTTATGTG-----GAAGACTGTGTACC--TTAGA---CTACCAAATAAGTTTCAATTTCAGGTCCTGCT-TGGACTTGATAAAT--------TCAGGGTAGCACTC----TTTTTT-----------------------------------------------ACATTGAGCA-TTTGAGCACAGATGGA-AAGAATTAAA--AAAAGAAAGTAATGACCTTAGGCATATTCTTGAAGTGTGAATACACTGTTTTCTTCAAATAACTCATATGTGAAATATCAGTTTGCAATTCTAGGAGGAAAA-AGAAATAAAAGAATTGCTGTATAATCTCTGTACTTCTTCCATAAAGATTGACTGTGACTTAAAATAGCCTGGAGTTATTAATGCTGTAAATCTTTCTGAAAGAGATTTCAGCGCTTGTTCTTCTTGCTCTCaaaaa--taataataataataatCAGT---------ATAGATCTCACGTAAGTGACACAATTTCAAACTCTATCAAGATTAGACTATTATTAATACCCAGGGCAAAAACGAATTGTGGAATTCTTAAAAGTTTCTCTAAATAACTAAAAACACTAAAACAAA-ATTTGCTAGTATAGATAGACCATTTC-AAT-GGCTACCTGAATATTTGAACCTTTGCCTTCTGTAAGAATA------ATAAGGATG--------ATGAC--TACATTATTGAATC-----A--------AATTCTTCAAGG-GACTTAAGATCAATTAATT--ATGCCTGATTATAAGTTTCAAG--GGAA-------TAGTAGGGTAGGTAGTAGGAAAA--A-TAGGGTTCCTTCT
i micMur3.chr12            I 1004 C 0
s proCoq1.NW_012155062v1     3506536 697 +  11683526 TTTATGTG-----GAAGACTGTGTACC--TTAGA---TTACCAAATAAGTTTCAATTTCAGGTCCTGCT-TGGACTTGATAAAT--------TCAGGGTAGCACTC----TTGTTT-----------------------------------------------TCACTGAGCA-TCTGAGCACAGATGGA-AAGAATTAAG--AAAAGAAAGTAATGACCTTAGGCATATTCTTGAAATGTGAATGCACTGTTTTCTACAAATAACTTATATGTGAAATATCAGTTTGCAATTCTAGGAGGAAAAGAAAAATAAAAGAATTGCTGTATAATCTCTGTACTTCCTCCATAAAGATTGACTGTGACTTAAAATAGCCTGGAGTTATTAATGCTGTAAATCTTTCTGAAAGACATTTCAGTGCTTGTTCTTCTTGCTCTCAAAAA------------AAAAATCAGT---------ATAGATCTCACATAAGTGACACAATTTCAAATTCTATCAAGATTAGACTATTATTAATGCCCAGGGCTAAAGTGAATTGTGGAATTCTTAAAAGTTTCTCTAAATAACTAAAAACATTAAAACAAA-ATTTGCTGGTATAGATAGACCATTTC-GGT-GGCTACCTGAATATTTGAAGCTTTGACTTCTGTAAGAATA------ATAAGGATG--------ATGAC--TACATTATTGAATC-----A--------ATTTCTTCAAGG-GACTTAGGATCAACTAATTACATGCCTGATTGTAAGTTTCCAG--GGAA-------TAGTGGGGTAGGTAATA-GAATA--A-TAGGGTTCCTTCT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2990336 701 +   4132165 TTTCTGTGGAACAGAAGACT-TGTACT--TTGGA---CTACCAAATAAGTTTTAATTCTGGGCCTTGCT-TAGACTTCATAAAT--------TCAGGGTAGCATTC----TTTTTT-----------------------------------------------TTATTGAGAA-TTTGAGCACAGATGGA-AAGAATTAA---AAAAGGAAGTATTGACCTTAGGCGTATTCTTGAAGTGTGAATCCACTGTTTTCTTCAAATAACTAATATGTGAAATATCAGTTTGCAATTCTAGGAGGAAAA-AAAAATAAAAGAATTGCGGTATAATCTCTGTACTTCTTCCATAAAGATTGACTGTGACTTAAAATAGCCTGGAGTTATTAATGCTGTAAATCTTTCTGAAAGAGATTTCAGTGCTTGTTCTTCTTGCTCTCAAAAA---AAAAAAAAAAAAATTCAGT---------CTAGATCTCACATAAGTGACACAATTTCAAACTCTATCAAGATTAGACTATTATTAATGCCCAGGGCTAAACTGAATCATGGAATGTTTAAAAGTTTCTCTAAATAACTAAAATCATTAAAACAAATTTTTGCGGGTATAGACAGACCATTTT-AAA-AGCTTTCTGAATATTTGAAG-TTTGGCTTCTCTAAGAATAC-----ATAAAGAGG--------GTAAT--TACATTATTAAGTC-----A--------AATTCTTCAAGG-GAGTTGTGATGAATTAGTT--ATATGTGACCGTAAGTTGCAAG--GAGG-------TATGTGTGTGG-------GGGGG--G-TAGGGTTCCTTCT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55451324 711 +  90702639 TTTATATG-----AAGATCTGTGAACC--TCTGAAACTTACCAAGGGAGTTTTAATTTCCAGACCTTTT-GTGGCTTAATAAAT--------TCTATGGAAAACTA----TTTTTG-TTC-------------------------------------------CCATTGAGCACTTCAGGCACAGATGGA-GAGAATTTTA--AAATGGAAATAGTGACCTTGGACATATTGTGGAAGTGTAAACATGTAGTTTCCTTCAACTAACGTATATGTAAAATATCAGCTTGCAGTTCTAGAAAGAAAA-A----GAGAAGCATTGCTG--AGATTTCTCCCCTTCATCTATAAAGATTGACTATGGCTTAAAATAGCCTGCAGTTGTCAATGCTGTAAATCGTTC---AGGGGATGCCAGAGCTTATTTTTCCTCCTCT----------GCAAAAGAAAATTGTATC---------ACAGGTCTCACACAAGTGACAGCATTTCAAACTCCATCAAGATTAGATTATTACTAATGCCCAGGGATAAAATGAATTGCGGATAATTTAAATGTTTCTCTAAAGAGCTGAATATGTTCAAATAAA-ACTTGCTGGTGTAAAT-----------AACGAACT--CTGAGCAGCTGAAGCATTGCCTTCTATGGAACTCTGAGGGAAAAGGaagtgtgcaaagtgtg--caaagtgtgcaaag-----ACAACAAGTATTCCTTCAAAGTAACTGGGAAAGAAGTACTT--ACACATGGTTTTGTGTTGTAGA--GCAGGCAGTTATAGCTGGGGAGGAGA---AAACA--G-AAAAATTCCTTTT
i mm10.chr18               C 0 I 1113
s canFam3.chr11             14853118 751 +  74389097 TTCATGGG-----GAAGACTGTGTACTTCTCTGA---TCACAAAGTAAGTTTAAATTTCAGGCCCTGCT-TGCACTTGATAAGC--------TCAGTAGAGTGTtt----ttgttt-tgttttgttttgttttgttttgttttgGGGTGTGTGTGTGTGTGTTTCATTGAACA-TTTGAGCACAGATGGA-AAGAATAAAG--AAAAGGAAGTAATGACCTTAGGCATACTCTTGAAGGGTGAACGCATTGTTTTCTTCTAATAACTTATACGTGAAATATCAGTTTGCAAATCTAGGAGAAAAA-AAA--TAAAAGCATTGCTGTATAATCTCTGTACTTTTTCCATAAAGATTGACTGTGACTTAAAATAGCCTAGGGTTATTAATGCTTTAAATCTCTCTGAAAGAGATTTCAGCGCTTGTTCTTCTTACTCTCAAGG-------AAAAAAAAAATGTAGT----GTATCATAGATCTCACATAAATGACACAATTTCAAACTCTATCAAGATTAGAATTTTACTAATGCCCAGGGCTAAAATGAATTATGGAATTCTTATATATTTCTCTAAATAACCAAATGTACTCAAACAAA-ATTTTCTACTGTAGAAAGACCATTTC-AAATGGCCACCTGAACACTTGAAGCATTAACGTCCATAAGACTAC-----ACAAGAATG--------AGGAT--TATATTATCAAATT--------------AGTTCTTCAAAG-GAATTAGAAACAACTAATT--AGGTGTGATTCTAAGTAGCAGGGTGGGG-------TGGGTAGAAAGGAGT---GAGTA--T-AAAGTTTCCATCT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2545898 667 +   3667625 ATTTCGTG-----GAGGGTTGTGAACT--TCAGA---TCACCAAATCAGTTTAAATTTTAG--CCTGTTGTAGACGTGGTAAAT--------TCAGTGGAGTGCTC----TTCTTT-T---------------------------------------------TCATTGTGCA-TTTGAGCACAGATGGATAAAAATTTTTGAAAAAGAAAGTAATGACCTTAGGCATATTCTTGAAGTGTGAATGTACTATTTTCTTCAAATAACTTATATGTGAAATATCAGTTTGCAATTCTGGAAGGAAAA-AAAA-TAAAAGAATTGTTGTATAATCTCTGTACTTCTTCCATGAAGATTGACTGTGACTTAAAATAGCCTGGGGTTATTAATGCTGTAAATCTTTCTGAAAGAGATTTCAGTGCTTGTTCTTCTTGCTCTaaaaaaaaaaaaaaaaaaaaaaaaaaaTCAATATATCATAGATCTCACATAAGTGACACAATTCCAAATGCTATCAAGTTTAAACTATTACTTATGCCCAGGGCTAAAATGATTAGGAAAATACTTAAATTTTTTTCTAAGTAACCAAATATATTGAAACAAA-ATATGCTGCTACAGACCGATTATTTC-AAATGGTTACCC-AATACTTGAGGCTTTGACTTCTGTAAG---------------------------ATGAA--T------TGGAAAC-----A--------AATAATTACATG-------------------T--ATCTGTAAT------------A--GTGG-------TGGTTGGGTAGGAAT---GAGCA--GCAAGGGTAACTTTT
i dasNov3.JH567306         C 0 C 0

a score=764979.000000
s hg38.chr5_KI270796v1_alt      4559 50 +    172708 AATTTATGCAGTTTTATGCCAAAGGTTATTAAAATGTCATCTAAA-TTC-TT-
s panTro5.chr5             125114645 50 + 181907262 AATTTATGCAGTTTTATGCCAAAGGTTATTATAATGTCATCTAAA-TTC-TT-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126451642 50 + 183735486 AATTTATGCAGTTTTATGCCAAAGGTTATTATAATGTCATCTAAA-TTC-TT-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1643328 50 +   8933513 AATTTATGCAGTTTTATGCCAAAGGTTATTATAATGTCATCTAAA-TTC-TT-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139774347 50 + 163208435 AATTTATGCAGTTTTATGCCAAAGGTTATTATAATGTCATCTAAA-TTC-TT-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122759637 50 + 180051392 AATTTATGCAGTTTTATGCCAAAGGTTATTATAATGTCATCTAAA-TTC-TT-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124183160 50 + 181584905 AATTTATGCAGTTTTATGCCAAAGGTTATTATAATGTCATCTAAA-TTC-TT-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16181175 50 +  18395747 AATTTATGCAGTTTTATGCCAAAGGTTATTATAATGTCATCTAAA-TTC-TT-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5185187 50 +  26952557 AATTTATGCAGTTTTATGCCAAAGGTTATTATAATGTCATCTAAA-TTC-TT-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295048 50 +  82825804 AATTTATGCAGTTTTATGCCAAAGGTTATTATAATGTCATCGAAA-TTC-TT-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3959182 50 -   4237731 AATTTATGCAGTTTTATGCCAAAGGTTATTATAATGTCATCTAAA-TTC-TT-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      229364 50 -   1175262 AATTTATGCAGTTTTATGCCAAAGGTTATTATAATGTCATCTATA-TTC-TT-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123563328 50 - 204313951 AATGTATGCAGTTTTATGCCAAAGGTTATTATAATGTTATCTAAA-TTC-TT-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55618043 51 -  71252344 AATTTATGCAGTTTTATGCCAAAGGTTATTACAATGTTATCTAAA-TTCTTT-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1310453 50 -   1400280 AATTTATGCAGTTTTATGCCAAAGGTTATTATAATGTTATCTAAG-TTC-TT-
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13106345 50 -  42888418 AATATATGCAGTTTTATGCCAAAGGTTATTATGATGTTATCTAAA-TTC-TT-
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60470141 50 + 108143057 AGCTCATGCGGTTTTATGTCAAAAGTTATTATGATGTCATTTAAA-TTT-TC-
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3507233 51 +  11683526 AGCTCATGAGGTTTTATGCCAAAGGTTATTATGATGTCATTTAAATTTT-TC-
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2991037 51 +   4132165 AGCTCATGTGGTTTTATGCCAAAAGTTATTATGGTGTTGTCTAAAATTT-TC-
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14853869 50 +  74389097 AACTTATGAAGTTTTATGTCAAGAGTTCTTATGATGCTATCAAAA-ATT-TT-
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2546565 48 +   3667625 AATTCATGCAGTTTTATGTCAAAAGTTAT---GATGACATCTACA-ACT-TCC
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55452035 1113 +  90702639 I

a score=1384937.000000
s hg38.chr5_KI270796v1_alt      4609 94 +    172708 TTT--TCTGGAAACCTATGACTATATGATCACACAATTGAAAATCCTGCATAAATGTCATAGAATGAGTCTTCTAAAATATGGAATAATTTTTAAA
s panTro5.chr5             125114695 93 + 181907262 TTT---CTGGAAACCTATGACTATATGATCACACAATTGAAAATCCTGCATAAATGTCATAGAATGAGTCTTCTAAAATATGGAATAATTTTTAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126451692 93 + 183735486 TTT---CTGGAAACCTATGACTATATGATCACACAATTGAAAATCCTGCATAAATGTCATAGAATGAGTCTTCTAAAATATGGAATAATTTTTAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1643378 94 +   8933513 TTT--TCTGGAAACCTATGACTATATGATCACACAATTGAAAATCCTGCATAAATGTCATAGAATGAGTCTTTTAAAATATGGAATAATTTTTAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139774397 94 + 163208435 TTT--TCTGGAAACCTATGACTATATGAACACACAATTGAAAATCCTGCATAAATGTCATAGAATGAGTCTTTTAAAATATGGAATAATTTTTACA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122759687 96 + 180051392 TTTTTTCTAGAAACCTATGACTATATGAAAACACAATTGAAAATCCTGCATAAATGTCATAGAATGAGTCTTTTTAAATATGGAATAGTTTTTAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124183210 96 + 181584905 TTTTTTCTAGAAACCTATGACTATATGAAAACACAATTGAAAATCCTGCATAAATGTCATAGAATGAGTCTTTTTAAATATGGAATAGTTTTTAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16181225 96 +  18395747 TTTTTTCTAGAAACCTATGACTATATGAAAACACAATTGAAAATCCTGCATAAATGTCATAGAATGAGTCTTTTTAAATATGGAATAGTTTTTAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5185237 96 +  26952557 TTTTTTCTAGAAACCTATAACTATATGAAAACACAATTGAAAATCCTGCATAAATGCCATAGAATGAGTCTTTTTAAATATGGAATAGTTTTTAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295098 96 +  82825804 TTTTTTCTAGAAACCTATGACTATATGAAAACACAATTGAAAATCCTGCATAAATGTCATAGAATGAGTCTTTTTAAATATGGAATAGTTTTTAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3959232 96 -   4237731 TTTTTTCTAGAAACCTATGACTATATGAAAATACAATTGAAAATCCTGCATAAATGTCATAGAATGAGTCTTTTTAAATATGGAATAGTTTTTAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      229414 96 -   1175262 TTTTTTCTGGAAACCTATGACTATATGAACACACAATTGAAAATCCTACATAAATGTCATAGAATGAGTCTTTTTAAATATGGAATAGTTTTTAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123563378 94 - 204313951 TTT--TCTGGAAGCCTATGACTATATGAACACACAATTGAAAATTCTTTATAAATATCATAGAATGAGTTCTTTTAAACATGaaataatttttaaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55618094 94 -  71252344 TTT--TCTGGAAGCCTATGACTATATGAACACACAATTGAAAATCCTTTATAAATATCATAGAATGAGTCCTTTTAAATATGAAATGATTTTTAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1310503 94 -   1400280 TTT--TCTGGAAGACGATGACTATATGAACACACAATTGAAAATCCTTTATAAATATCATAGAATGAGTCCTTTTAAATATGAAATTATTTTTAAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13106395 94 -  42888418 TTT--TCTGGAAGCCTATGACTATATGAACACACAATTGAAAATCCTTTATAAATATCATAGAATGAGTCCTTTTAAATATGAAATCATTTTTAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60470191 93 + 108143057 CTT--TTTGGAACCCTGTTACTACATGAACACATAATTAAAATTCCTGCATAAATGTCATAGAATGAGTC-TCTTAAATATGGAACAATTTTTCAG
i micMur3.chr12            C 0 I 30
s proCoq1.NW_012155062v1     3507284 93 +  11683526 TTT--TTTGGAAACCTATTACTACATGAACACACAATTAAAATTCCTGCATAAATGTCAAAGAATGAGCC-TCTTAAATATAGAACAATTTTTAAG
i proCoq1.NW_012155062v1   C 0 I 22
s otoGar3.GL873679           2991088 94 +   4132165 TTG--TCTGGAAACCTATTACTACATGAACACACAATTAAAATTCCTGTACAAATTTCATAAAATGAATCTTCTTAAATATGGAATAAGTTTTGAG
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55453148 93 +  90702639 TTC--CCTCGAAAGTTATCACTCAAGGAACCCATAGTTCAGAGTCCTTTGCACATGTTATAGAAAGATTATCCTTAAATATGGAACAAATTTTAA-
i mm10.chr18               I 1113 C 0
s canFam3.chr11             14853920 93 +  74389097 TTC--TCTGGAAACCCATTACTACACAAACACACAATTGGAAATTCTGTGTACATGATACA-AATGATTCCTCTTAAATATAGAATGATTTTTTAA
i canFam3.chr11            I 1 I 1
s dasNov3.JH567306           2546613 90 +   3667625 TTT--TTTGGAAATACATTACTACATGAACACACAAAT----ATTCCACATGTCTATTACAGAATGATACTTCTTAAATACAGAGGGAGTTTTTTT
i dasNov3.JH567306         C 0 C 0

a score=11849.000000
s hg38.chr5_KI270796v1_alt      4703 1 +    172708 T
s panTro5.chr5             125114788 1 + 181907262 T
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126451785 1 + 183735486 T
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1643472 1 +   8933513 T
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139774491 1 + 163208435 T
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122759783 1 + 180051392 T
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124183306 1 + 181584905 T
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16181321 1 +  18395747 T
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5185333 1 +  26952557 T
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295194 1 +  82825804 T
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3959328 1 -   4237731 T
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      229510 1 -   1175262 T
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123563472 1 - 204313951 t
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55618188 1 -  71252344 T
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1310597 1 -   1400280 T
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13106489 1 -  42888418 T
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55453241 1 +  90702639 C
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2546703 1 +   3667625 T
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60470284 30 + 108143057 I
e canFam3.chr11             14854013 1 +  74389097 I
e proCoq1.NW_012155062v1     3507377 22 +  11683526 I
e otoGar3.GL873679           2991182 1 +   4132165 I

a score=185414.000000
s hg38.chr5_KI270796v1_alt      4704 17 +    172708 TATGAA----ATGTCTAGAGA---
s panTro5.chr5             125114789 17 + 181907262 TATGAA----ATGTCTAGAGA---
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126451786 17 + 183735486 TATGAA----ATGTCTAGAGA---
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1643473 17 +   8933513 TATGAA----ATGTCTAGAGA---
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139774492 15 + 163208435 TATGAA----ATGTCT--AGA---
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122759784 17 + 180051392 TATAAA----ATGTCTAGAGA---
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124183307 17 + 181584905 TATAAA----ATGTCTAGAGA---
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16181322 17 +  18395747 TATAAA----ATGTCTAGAGA---
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5185334 17 +  26952557 TATAAA----ATGTCTAGAGA---
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295195 17 +  82825804 TATAAA----ATGTCTAGAGA---
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3959329 17 -   4237731 TATAAA----ATGTCTAGAGA---
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      229511 17 -   1175262 TATAAA----ATGTCTAGAGA---
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123563473 17 - 204313951 tataaa----atGTCTAGCGA---
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55618189 17 -  71252344 TATAAA----ATGTCTAGAGA---
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1310598 17 -   1400280 TATAAA----ATGTCTAGAGA---
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13106490 17 -  42888418 TATAAA----ATGTCTAGAGA---
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2991183 16 +   4132165 -TTCAT----ATATATAGAGA---
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55453242 21 +  90702639 AATAAAGTGCATATCCACAGA---
i mm10.chr18               C 0 C 0
s canFam3.chr11             14854014 17 +  74389097 AATAAA----ACATATAGAAA---
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2546704 14 +   3667625 ----------TTTTTTAAAGAATA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60470284 30 + 108143057 I
e proCoq1.NW_012155062v1     3507377 22 +  11683526 I

a score=212176.000000
s hg38.chr5_KI270796v1_alt      4721 18 +    172708 GATTACATATTTATTCCA
s panTro5.chr5             125114806 18 + 181907262 GATTACATATTTATTCCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126451803 18 + 183735486 GATTACATATTTATTCCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1643490 18 +   8933513 GATTACATATTTATTCCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139774507 18 + 163208435 GATTACATACTTATTCCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122759801 18 + 180051392 GAGTACATATTTATTCCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124183324 18 + 181584905 GAGTACATATTTATTCCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16181339 18 +  18395747 GAGTACATATTTATTCCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5185351 18 +  26952557 GAGTACATATTTATTTCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295212 18 +  82825804 GAGTACATATTTATTCCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3959346 18 -   4237731 GAGTACATATTTATTCCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      229528 18 -   1175262 GATTACATATTTATTCCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123563490 18 - 204313951 GATTACATACTTATTCCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55618206 18 -  71252344 GATTACATGCTTATTCCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1310615 18 -   1400280 GATTACATACTTATTCCT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13106507 18 -  42888418 GATTACATATTTATTCCT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3507399 15 +  11683526 GATTATATATTTATT---
i proCoq1.NW_012155062v1   I 22 C 0
s otoGar3.GL873679           2991199 14 +   4132165 GGttatatatgtat----
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55453263 12 +  90702639 ------ATATTCATTAAG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14854031 18 +  74389097 GAGGTTATGTTTACTCCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2546718 18 +   3667625 GCATATATATTTGTTCCA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60470284 30 + 108143057 I

a score=951577.000000
s hg38.chr5_KI270796v1_alt      4739 66 +    172708 --TGTATTTAAAAAATAAATGTAGTTATCTTTCTATTTTGTCTCT----ATCAATTCACCTACAATATTTCA
s panTro5.chr5             125114824 66 + 181907262 --TGTATTTAAAAAATAAATGTAGTTATCTTTCTATTTTGTCTCT----ATCAATTCACCTACAATATTTCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126451821 66 + 183735486 --TGTATTTAAAAAATAAATGTAGTTATCTTTCTATTTTGTCTCT----ATCAATTCACCTACAATATTTCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1643508 66 +   8933513 --TGTATTTAAAAAATAAATGTAGTTATCTTTCTATTTTGTCTCT----ATCAATTCACCTACAATATTTCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139774525 66 + 163208435 --TGTATTTAAAAAATAAATGTAGTTATCTTTCTATTTTGTCTCT----ATCAATTCACCTACAATAATTCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122759819 66 + 180051392 --TGTATTTAAAACATAAATGTAGTTATCTTTCTATTTTGTCTCT----GTCAATTCACCTACAATATTTCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124183342 66 + 181584905 --TGTATTTAAAACATAAATGTAGTTATCTTTCTATTTTGTCTCT----GTCAATTCACCTACAATATTTCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16181357 66 +  18395747 --TGTATTTAAAACATAAATGTAGTTATCTTTCTATTTTGTCTCT----GTCAATTCACCTACAATATTTCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5185369 66 +  26952557 --TGTATTTAAAACATAAATGTAGTTATCTTTCTATTTTGTCTCT----ATCAATTCGCCTACAATATTTCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295230 66 +  82825804 --TGTATTTAAAACATAAATGTAGTTATCTTTCTATTTTGTCTCT----ATCAATTCACCTACAATATTTCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3959364 66 -   4237731 --TGTATTTAAAGCATAAATGTAGTTATCTTTCTATTTTGTCTGT----ATCAATTCACCTACAATATTTCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      229546 66 -   1175262 --TGTATTTAAAACATAAATGTAGTTATCTTTCTATTTTGTCTCT----ATCAATTCACCTACAATATTTCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123563508 70 - 204313951 --TGTATATAAAAAATAAATGTAGTTATTTTTCTATTTTGTCTCTATCAATCAGTTCACCAACAATATTTCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55618224 66 -  71252344 --TGTATTTAAAAAATAAATGTAGTTATTTTTCTATTTTGTCTCT----ATCAGTTCACCAACAATATTTCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1310633 66 -   1400280 --TGTATTTAAAAAATAAATGTAGTTAATTTTCTATTTTGTCTCT----ATCAGTTCACCAACAATATTTCA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13106525 66 -  42888418 --TGTATTTAAAAAATAAATGTAGTTACTTTTCTATTTTGTCTCT----ATCAGTTCACTAACAATATTTCA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60470314 65 + 108143057 --tgta-tttaaaaatatatttaGTCATTTTTCTATTTCATTTCT----GCCAACTCACCTACAATATTGCA
i micMur3.chr12            I 30 I 14
s proCoq1.NW_012155062v1     3507414 65 +  11683526 ---GTATTTTAAAAATAAATGTAGTCATTTTTCTATTTCATTTCT----ATAAATTCACCTACAATGTTTCA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2991213 48 +   4132165 ----ta-tttaaaaataaatttaGCCAT------------TTTCT----GTCAATTTACCTACA---TTTCA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55453275 51 +  90702639 --TCCACTCA--------------CTGTCTTTCTTTGTCACCTTT----ATTAATTCAACC-CAGTGCTTGG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14854049 66 +  74389097 --TCCACTTTTTAAAAAAATTCAGCTATGCTGCTATTTCATCTTT----ATCCATTCACCCACAATATTTCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2546736 68 +   3667625 TTTATTTTTTAAAAAGAAATTTAGTTATCTTTCTATTTTGTCTCT----ATCAGCTCACCTACAATATTTCA
i dasNov3.JH567306         C 0 C 0

a score=346337.000000
s hg38.chr5_KI270796v1_alt      4805 24 +    172708 CTTCTAACACTT-C--TAT--TTTTCAGG
s panTro5.chr5             125114890 24 + 181907262 CTTCTAAGACTT-C--TAT--TTTTCAGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126451887 24 + 183735486 CTTCTAAGACTT-C--TAT--TTTTCAGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1643574 24 +   8933513 CTTCTAAGACTT-C--TAT--TTTTCAGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139774591 24 + 163208435 CTTCTAAGACTT-C--TGT--TTTTCAGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122759885 24 + 180051392 CTTCTAAGACTT-C--TGT--TTTTCAGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124183408 24 + 181584905 CTTCTAAGACTT-C--TGT--TTTTCAGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16181423 24 +  18395747 CTTCTAAGACTT-C--TGT--TTTTCAGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5185435 24 +  26952557 CTTCTAAGACTT-C--TGT--TTTCCAGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295296 24 +  82825804 CTTCTAAGACTT-C--TGT--TTTTCAGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3959430 24 -   4237731 CTTCTAAGACTT-C--TGT--TTTTCAGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      229612 24 -   1175262 TTTCTAAGACTT-C--TGT--TTTTCAGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123563578 24 - 204313951 CTTCTAAGACTT-C--TGC--TTTTCAGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55618290 24 -  71252344 CTTCTAAGACTT-C--TGT--TTTTCAGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1310699 24 -   1400280 CTTCTAAGACTT-C--TGT--TTTTCAGG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13106591 24 -  42888418 CTTCTAAGACTT-C--TGT--TTTTCAGG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3507479 23 +  11683526 -TCTTAAGACTT-C--CAT--TTTTCAGA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2991261 24 +   4132165 TCTCTAAGACTT-C--TAT--TTTTCATA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55453326 24 +  90702639 TTTATAGGGCCGAT--TGT--GTCTCAG-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14854115 26 +  74389097 TTTCTAAGACTT-CTGTGT--TTTTCAGG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2546804 26 +   3667625 TTTCTAAGATGC-C--CATGATTTTCAGA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60470379 14 + 108143057 I

a score=1034572.000000
s hg38.chr5_KI270796v1_alt      4829 73 +    172708 AAGAAAAATGGACGCTATAAGCTATTAC-----AAGCAAAAAGAGATAAAG----TTGT----TTCATTAGATTAATATCAAGAAA
s panTro5.chr5             125114914 73 + 181907262 AAGAAAAATGGATGCTATAAGCTATTAT-----AAGCAAAAAGAGATAAAG----TTGT----TTCATTAGATTAATATCAAGAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126451911 73 + 183735486 AAGAAAAATGGATGCTATAAGCTATTAT-----AAGCAAAAAGAGATAAAG----TTGT----TTCATTAGATTAATATCAAGAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1643598 73 +   8933513 AAGAAAAATGGATACTATAAGCTATTAT-----AAGCAAAAAGAGATAAAG----TTGT----TTCATTAGATTAATATCAAGAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139774615 70 + 163208435 AAGAAAAATGGACACTATAAGCTATTAC-----AAGCAAAAAGAGATAAAG----TTGT----TTCATTAGATTAAT---AAGAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122759909 73 + 180051392 AAGAAAAATGGACACTAGGAGCTTTTAC-----AAGCAAAAAGAGATTAAG----TTGT----TTCATTAGATTAGTATCAAGAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124183432 73 + 181584905 AAGAAAAATGGACACTAGGAGCTTTTAC-----AAGCAAAAAGAGATTAAG----TTGT----TTCATTAGATTAGTATCAAGAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16181447 73 +  18395747 AAGAAAAATGGACACTAGGAGCTTTTAC-----AAGCAAAAAGAGATTAAG----TTGT----TTCATTAGATTAGTATCAAGAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5185459 73 +  26952557 AAGAAAAATGGACACTATGAGCTTTTAC-----AAGCAAAAAGAGATTAAG----TTGT----TTCATTAGATTAGTATCAAGAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295320 73 +  82825804 AAGAAAAATGGGCACTATGAGCTTTTAC-----AAGCAAAAAGAGATTAAG----TTGT----TTCATTAGATTAGTATCAAGAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3959454 73 -   4237731 AAGAAAAGTGGACACTATGAGGTTTTGC-----AAGCAAAAAGGGATTAAG----TTGT----TTCATTAGATTGGTATCAAGAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      229636 73 -   1175262 AAGAAAAATGGACACTATGAGCTTTTAC-----AAGCAAAAAGAGATTAAG----TTGT----TTCATTAGATTAGTATCAAGAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123563602 73 - 204313951 AAGAAAAATGGACACTATAAGCTATTAC-----AAACAAAAAGAGATAAAG----TTCT----TTCATTAGATTAATATCAAGGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55618314 73 -  71252344 AAGAAAAATGGACACTATAGGCTATTAC-----AAACAAAAAGAGATAAAG----TTGT----TTCATTAGATTAATATCAAGGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1310723 73 -   1400280 AAGAAAAATGGACACTATAGGCTATTAC-----AAACAAAAAGAGATAAAG----TTCT----TTCATTAGATTAATATCAAGGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13106615 73 -  42888418 AAGAAAAATGGACACCATAAGCTATTAC-----AAACAAAAAGAGATAAAG----TTGT----TTCATTAGATTAATATCAAGGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60470393 75 + 108143057 AGAAAAAATGGACACTATAAGCTATTAC-----AAGCAAAAAGAGATAAAG----TTGTTAGATTTATTAGACTGATATC--AATA
i micMur3.chr12            I 14 C 0
s proCoq1.NW_012155062v1     3507502 69 +  11683526 --AAAAAATGGACACTATAAGCTATTAC-----AAACAAAAAGAGATAAAG----TTGT----TTTATTAGATTAATATT--GATA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2991285 50 +   4132165 -----AAAAAGACA-----------------------GAAAACAGATGAAA----TTAT----TTTGTTAGCTTAATATCAAGACA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55453350 70 +  90702639 -------ATAAACATTACAAGGTGTTAC-----AAACAGAAAGAGATAAAAGATTTTAT----TATTTAAGATTTGTATGATGaaa
i mm10.chr18               C 0 I 53
s canFam3.chr11             14854141 73 +  74389097 AAGTCAAATGTACACTCTAAGGTATTAC-----AAAGAAAAGGAGATAAAG----TAGC----TTTATTAGGTTAATATCAAAAAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2546830 78 +   3667625 AAGGAAAATGTATGCGTTAAGGTTTTACAAAAAAAAAAAAAAGAGATAAAG----TCAG----TTTAATAGGTTGATATCAAGAAA
i dasNov3.JH567306         C 0 C 0

a score=183238.000000
s hg38.chr5_KI270796v1_alt      4902 15 +    172708 GGGAAGTGCATGCAC
s panTro5.chr5             125114987 15 + 181907262 GGGAAGTGCATGCAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126451984 15 + 183735486 GGGAAGTGCATGCAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1643671 15 +   8933513 GGGAAGTGCATGCAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139774685 15 + 163208435 GTGAAGTGCATGCAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122759982 15 + 180051392 GTGAAGTGCATGCAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124183505 15 + 181584905 GTGAAGTGCATGCAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16181520 15 +  18395747 GTGAAGTGCATGCAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5185532 15 +  26952557 GTGAAATGCATGCAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295393 15 +  82825804 GTGAAGTGCATGCAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3959527 15 -   4237731 GTGAAGTGCATGCAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      229709 15 -   1175262 GTGAAGTGCATGCAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123563675 15 - 204313951 GTGAACTGCATGCAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55618387 15 -  71252344 GTGAAGTGCATAAAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1310796 15 -   1400280 GTGAAGTGCATGCAC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13106688 15 -  42888418 GTGAAGTACATGCAC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60470468 15 + 108143057 GTTAAGGATGAGTAC
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3507571 15 +  11683526 GTTAAGTATGAGTAC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2991335 15 +   4132165 GTTAAGTGCAAGTAC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14854214 15 +  74389097 GTTATATGTATGTGC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2546908 14 +   3667625 -GCCAATACACGTAC
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55453420 53 +  90702639 I

a score=1404023.000000
s hg38.chr5_KI270796v1_alt      4917 100 +    172708 AATGCATGAGATCTATAGAATGATACAAATTATTACTAAT--------CTTACTGAA--ATGAA--------------------TATTATATCAGCATTTGAAGTGACA-GTAATAGCAGATCCTTTAAAA
s panTro5.chr5             125115002 100 + 181907262 AATGCATGAGATCTATAGAATGATACAAATTATTACTAAT--------CTTACTGAA--ATGAA--------------------TATTATATCAGCATTTGAAGTGACA-GTAATAGCAGATCCTTTAAAa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126451999 100 + 183735486 AATGCATGAGATCTATAGAATGATACAAATTATTACTAAT--------CTTACTGAA--ATGAA--------------------TATTATATCAGCATTTGAAGTGACA-GTAATAGCAGATCCTTTAAAa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1643686 100 +   8933513 AATGCATGAGATCTATAGAATGATACAAATTATTACTAAT--------CTTACTGAA--ATGAA--------------------TATTATATCAGCGTTTGAAGTGACA-GCTATAGCAGATCCTTTAAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139774700 100 + 163208435 AATGCATGAGATCTATAGAATGATGCAGACTATTACTAAT--------CTTACTGAA--ATGAA--------------------TATTATGTCAGCATTTGAAGTGACA-GTAATAGCAGATCTTTTAAAa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122759997 100 + 180051392 AATGCATGAGATCTATAGAATGATACAAATTATTACTAAT--------CTTACTGAA--ATGAA--------------------TATTATATCAGCATTTGAAGTGATA-GTAATAGCAGATCCTTTAAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124183520 100 + 181584905 AATGCATGAGATCTATAGAATGATACAAATTATTACTAAT--------CTTACTGAA--ATGAA--------------------TATTATATCAGCATTTGAAGTGATA-GTAATAGCAGATCCTTTAAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16181535 100 +  18395747 AATGCATGAGATCTATAGAATGATACAAATTATTACTAAT--------CTTACTGAA--ATGAA--------------------TATTATATCAGCATTTGAAGTGATA-GTAATAGCAGATCCTTTAAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5185547 100 +  26952557 AATGCATGAGATCTATGGAATGATACAAATTATTACTAAT--------CTTACTGAA--ATGAA--------------------TATTATATCAGCATTTGAAGTGATA-GTAATAGCAGATCCTTTAAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295408 100 +  82825804 AATGCATGAGATCTATAGAATGATACAAATTATTACTAAT--------CTTACTGAA--ATGAA--------------------TATTATATCAGCATTTGAAGTGATA-GTAATAGCAGATCCTTTAAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3959542 100 -   4237731 AATGCATGAGATCTATAGAATGATACAAATTATTACTAAT--------CTTACTGAA--ATGAA--------------------TATTATATCAGCATTTGAAGTGATA-GTAATAGCAGATCCTTTAAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      229724 100 -   1175262 AATGCATGAGATCTATAGAATGATACAAATTATTACTAAT--------CTTACTGAA--ATGAA--------------------TATTATATCAGCATTTGAAGTGATA-GTAATAGCAGATCCTTTAAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123563690  97 - 204313951 AATGCATGAGATCTATAGAACGATAAAC---AATAATAAT--------CCTACTGAA--ATGAA--------------------TATTATATCAGAATTTGAAGTGACA-GTAATAGCAGATCCtttaaaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55618402  94 -  71252344 AATGCAGGAAAGCTATAGAACGATAGAC------AATAAT--------CGTACTGAA--ATGAA--------------------TATTATATCAGAATTTGAAGTGACA-GTAATAGCAGATCCtttaaaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1310811 100 -   1400280 AATGCATTAGAGCTATAGAACAATAAACATTAATAATAAT--------CCTACTGAA--ATGAA--------------------TATTATATCAGAATTTGAAGTGACA-GTAATAGCAGATCCTTTAAAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13106703  95 -  42888418 AATGCATGAGATCTATAGAATGATAAAC---ATTAATAAT--------C-TACTGAA--ATGAA--------------------TATTGTATCAGAATTTGAAGTGACA-GTAA-AGCAGATCCTTTAAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60470483  95 + 108143057 AATGCATGAGATCTATAGAATGATAAAAAT---TAATAAT--------TTTATTGAT--GTGAA--------------------TATCAT---AGCAATTGAAGTGACAAGTAATAGCAGATCCTATGAAA
i micMur3.chr12            C 0 I 12
s proCoq1.NW_012155062v1     3507586 100 +  11683526 AATGCATGAGATCTATAGAATGATAAAAATTAATAATAAT--------TTTACTGAA--GTGAA--------------------TATCATACCAGCAACTGAAG-GATCTGTAATAGCAGATCCTATCAAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2991350  99 +   4132165 AATGCAGGATATCTATAGAATGATACAAATTAATAATAAT--------TTCACTGCA--GTGAA--------------------AATCAT--CAGCCATTGAAGTGACCTTTAATAAAAGATGCTATCAGA
i otoGar3.GL873679         C 0 I 4
s mm10.chr18                55453473 126 +  90702639 ATTGCTTAATATTTATATCA--ATACATAAAAACACTAATACCCAGAGTCCACTGAACGATAAATCTCAATAATTCAACTAAGCTATCACACAAGCA-TTGAGATGACA-GTAGCAGGAAGTCTTTCAAA-
i mm10.chr18               I 53 C 0
s canFam3.chr11             14854229  97 +  74389097 AATGTACATAATTCATAGAATGATAAAA---ATCTATAAT--------CTTAATAAA--GCAGA--------------------TATCATATCAGCATTTGGCATGACA-ATAATAGCAGATCCTTTCAAA
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2546922  97 +   3667625 AAAGCATGGAATCTATAGAATGATAAAAATTAATAATAAT--------CTTCCTGAA--GTGAC--------------------TATCACACCAAC-TTTGGAATGATA-GTAATA--ATATTCTTTGAAA
i dasNov3.JH567306         C 0 C 0

a score=144112.000000
s hg38.chr5_KI270796v1_alt      5017 28 +    172708 tttttgttttta------ttattatt-tttttttA
s panTro5.chr5             125115102 29 + 181907262 tttttgttttta------ttattattattttttta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452099 29 + 183735486 tttttgttttta------ttattattattttttta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1643786 29 +   8933513 tttttgttttta------ttattattttttttttA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139774800 29 + 163208435 tttttgttttta------ttattattattctttta
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122760097 23 + 180051392 TTTTTGTTTTTA------T-----TTATTTTTTT-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124183620 23 + 181584905 TTTTTGTTTTTA------T-----TTATTTTTTT-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16181635 23 +  18395747 TTTTTGTTTTTA------T-----TTATTTTTTT-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5185647 23 +  26952557 TTTTTGTTTTTA------T-----TTATTTTTTT-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295508 23 +  82825804 TTTTTGTTTTTA------T-----TTGTTTTTTT-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3959642 23 -   4237731 TTTTTGTTTTTA------T-----TTATTTTTTT-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      229824 23 -   1175262 TTTGTGTTTTTA------T-----TTATTTTTTT-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123563787 16 - 204313951 ------ttttta------------ttattttttt-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55618496 19 -  71252344 ttt---ttttta------------ttattttttt-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1310911 22 -   1400280 TTTTTGTTTTAA------------TTATTTTTTT-
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13106798 22 -  42888418 TTTTTGTTTTTA------------TTATTTTTTT-
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3507686 12 +  11683526 TTTTTTTTTTT-------------T----------
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2991453 21 +   4132165 TGTTTTTCTTT-------------TCATTTTTTT-
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55453599 29 +  90702639 TTCTTCTTTTAAACCTGCT-----TCATTCTCAT-
i mm10.chr18               C 0 I 6
s canFam3.chr11             14854329 23 +  74389097 TTATTTTTCCTA------T-----TTTTTCTTTT-
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2547019 20 +   3667625 TTTTAATTGTTA------------TTGTTTTT---
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60470578 12 + 108143057 I

a score=4098187.000000
s hg38.chr5_KI270796v1_alt      5045 237 +    172708 AATAGATGAGAACAGAAAACAG-----------------------GGTATGGGTCAGGTGAGCCATCTGGCACTAATTTTAACCACCA---------T---------GGAGGAACCAATAAACCCTGTACTAA----TA-TTCCAATCTCTTCACTAATGGTGATAATCAGAACATCTGGTTAGGGTTTTCCTTTACTAGGGTCTCCTG--CAAAGATTGTATTAGGTAGAGAAGTTCCTGTTGAGCTGTGTTGACTATCAACAACAGCTTCCTCCACCCTGTCT
s panTro5.chr5             125115131 237 + 181907262 AATAGATGAGAACAGAAAACAG-----------------------GGTATGGGTCAGGTGAGCCATCTGGCACTAATTTTAACCACCA---------T---------GGAGGAACCAATAAACCCTGTACTAA----TA-TTCCAATCTCTTCACTAATGGTGATAATCAGAACATCTGGTTAGGGTTTTCCTTTACTAAGGTCTCCTG--CAAAGATTGTATTAGGTAGAGAAGTTCCTGTTGAGCTGTGTTGACTATCAACAACAGCTTCCTCCACCCTGTCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452128 237 + 183735486 AATAGATGAGAACAGAAAACAG-----------------------GGTATGGGTCAGGTGAGCCATCTGGCACTAATTTTAACCACCA---------T---------GGAGGAACCAATAAACCCTGTACTAA----TA-TTCCAATCTCTTCACTAATGGTGATAATCAGAACATCTGGTTAGGGTTTTCCTTTACTAAGGTCTCCTG--CAAAGATTGTATTAGGTAGAGAAGTTCCTGTTGAGCTGTGTTGACTATCAACAACAGCTTCCTCCACCCTGTCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1643815 237 +   8933513 AATAGATGAGAACAGAAAACAG-----------------------GGTATGGGTTAGGTGAGCCATCTGGCACTAATTTTAACCACCA---------T---------GGAGGAACCAATAAACCCTGTACTAA----CA-TTCCAATCTCTTCACTAATGGTGATAATCAGAACATCTGGTTAGGGTTTTCCTTTACTAGGGTCTCCTG--CAAAGATTGTATTAGGTAGAGAAGTTCCTGTTGAGCTGTGTTGACTATCAAAAACAGCTTCCTCCATCCTGTCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139774829 237 + 163208435 AATAGATGAGAACAGAAAACAG-----------------------GGTATGGGTCAGGTGAGCCATCTGGCACTAATTTTAACCACCA---------T---------GGAGGAACCAATAAACCCTGTACTAA----TA-TTCCAATCTCTTCACTAATGGTGATAATCAGAACATCTGGTTAGGGTTTCCCTTTACTAGGGTCTCCTG--CAAAGACTGTATTAGGTAGAGAAGTTCCTGTTGAGCTGTGTTGACTATCAACAACAGCTTCCTCCACCCTGTCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122760120 237 + 180051392 AATAGATGAGAACAGAAAACAG-----------------------GGTATGGGTCAGGTGAGCCATCTGGCACTAATTTTAACCACCA---------T---------GGAGGAACCAATAAGCTCTGTACTAA----TA-TTCCATTCTCTTCACTAATGGTGATAATCAGAACATCTGGTTAGGGTTTCCCTTTACTAGGGTCTCCTG--CAAAGATTGTATTAGGTAGAGAAGTTCCTGTTGAGCTGTGTTGACTATCAACAACAGCTTCCTCCACCCTGTCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124183643 237 + 181584905 AATAGATGAGAACAGAAAACAG-----------------------GGTATGGGTCAGGTGAGCCATCTGGCACTAATTTTAACCACCA---------T---------GGAGGAACCAATAAGCTCTGTACTAA----TA-TTCCATTCTCTTCACTAATGGTGATAATCAGAACATCTGGTTAGGGTTTCCCTTTACTAGGGTCTCCTG--CAAAGATTGTATTAGGTAGAGAAGTTCCTGTTGAGCTGTGTTGACTATCAACAACAGCTTCCTCCACCCTGTCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16181658 237 +  18395747 AATAGATGAGAACAGAAAACAG-----------------------GGTATGGGTCAGGTGAGCCATCTGGCACTAATTTTAACCACCA---------T---------GGAGGAACCAATAAGCCCTGTACTAA----TA-TTCCATTCTCTTCACTAATGGTGATATTCAGAACATCTGGTTAGGGTTTCCCTTTACTAGGGTCTCCTG--CAAAGATTGTATTAGGTAGAGAAGTTCCTGTTGAGCTGTGTTGACTATCAACAACAGCTTCCTCCACCCTGTCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5185670 237 +  26952557 AATAGATGAGAACAGAAAACAG-----------------------GGTATGGGTCAGGTGAGCCATCTGGCACTAATTTTAACCACCA---------T---------GGAGGAACCAATAAGCCCTGTACTAA----TA-TTCCATTCTCTTCACTAATGGTGATAATCAGAACATCTGGTTAGGGTTTCTCTTTACTAGGGTCTCCTG--CAAAGATTGTATTAGGTAGAGAAGTTCCTGTTGAGCTGTGTTGACTATCAACAACAGCTTCCTCCACCCTGTCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295531 237 +  82825804 AATAGATGAGAACAGAAAACAG-----------------------GGTATGGGTCAGGTGAGCCATCTGGCACTAATTTTAACCACCA---------T---------AGAGGAACCAATAAGCCCTGTACTAA----TA-TTCCATTCTCTTCACTAATGGTGATAATCAGAACATCTGGTTATGGTTTCCCTTTACTAGGGTCTCCTG--CAAAGATTGTATTAGGTAGAGAAGTTCCTGTTGAGCTGTGTTGACTATCAACAGCAGCTTCCTCCACCCTGTCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3959665 237 -   4237731 GATAGATGAGAACAGAAAACAG-----------------------GGTATGGGTCAGGTGAGCCATCTGGCACTAATTTTAACCACCA---------T---------GGAGGAACCTATAAGCCCTGTACTAA----TA-TTCCATTCTCTTCACTAATAGTGATAATCAGAACATCTGGTTAGGGTTTCCCCTTACTAGGGTCTCCTG--CAAAGATTGTATTAGGTAGAGAAGTTCTTGTTGAGCTGTGTTGACTATCAACAACAGCTTCCTCCACCCTGTCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      229847 237 -   1175262 AATAGATGAGAACAGAAAACAG-----------------------GGTATGGGTCAGGTGAGCCATCTGGCACTAATTTTAACCACCA---------T---------GGAGGAACCAATAAGCCCTGTACTAA----TA-TTCCAATCTCTTCACTAATGGTGATAATCAGAACATCTGGTTAGGGTTTCCCTTTACTAGGGTCTCCGG--CAAAGATTGTATTAGGTAGAGAAGTTCCTGTTGAGCTGTGTTGACTATCAACAACAGCTTCCTCCACCCTGTCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123563803 237 - 204313951 aataGATGAGAACAGAAAACAG-----------------------GGTATGGGTCAGGAGAGCCATCTGGCACTAATTTTAACCACCA---------C---------GGAGGAGCCAATAAACCCTGCACTAA----TA-TTCCAATCTATTCACTAATGGTGATAATCAGAACATCTGGTTAGGGTTTCCCTTTACTAGGGTCTCCTG--CAAGGATTGTATTAGGTAGAGAAGTTCCTGTTGAGCTGTGTTGACTATCAACAACAGCTTCCTCCACCCTGTCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55618515 237 -  71252344 aataGATGAGAACAGAACACAG-----------------------GGTATGGGTCAAGAGAGCCATCTGGCACTAATTTTAACCACCA---------T---------GGAGGAACCAATAAACCCTGTACTAA----TA-TTCCAATCTACTCACTAATGGTGATAATCAGAACATCTGGTTAGGGTTTCCCTTTACTAGGGGCTCCTG--CAAGGATTGTATTAGGTAGAGAAGTTCCTGTTGAGCTGTGTTGACTATCAACAACAGCTTTCTCCACCCTGTCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1310933 237 -   1400280 AATAGATGAGAACAGAAAACAG-----------------------GGTATGGGTCAGGAGAGCCATCTGGCACTAATTTTAACCACCA---------T---------GGAGGAACCAATAAACCCTGCACTAA----TA-TTCCAATCTATTCACTAATGGTGATAATCAGAACATCTGGTTAGGGTTTCCCTTTACTAGGGTCTCCTG--CAAGGACTGTATTAGGTAGAGAAGTTCCTGTTGAGCTGTGTTGACTATCAACAACAGCTTCCTCCACCCTGTCT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13106820 237 -  42888418 AATAGATGAGAACAGAAAACAG-----------------------GGTATGGGTCAGGAAAGCCATCTGGCACTAATTTTAACCACCA---------T---------GGAGGAACCAATAAACCCTGCACTAA----TA-TTCCAATCTATTCACTAATGGTGATAATCAGAACATCTGGTTAGGGTTTCCCTTTACTAGGGTCTCCTG--CAAGGGTTGTATTAGGTAGAGAAGTTCCTGTTGAGCTGTGTTGACTATCAACAACAGCTTCCTCCACCCTGTCT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60470590 234 + 108143057 AATAGTTGAAAACAAAAAAGAG-----------------------GCTCTGGGTCAGGAGAGCCATCTGGCACTAATTTTAACCACCA---------T---------GGAGGAACCAATAAACTCTGCACTAA----TA-TTCCAATCTACTCACTAATGGTGATAATCAGAACATCTGGTTAGGGTTTCCCTTTTTTAAGGTCTCCTG--CAAGGATTGCATTAGGTACTGAAGTTCCTACTGAGCTG---TGACTATGAACAACAGCTTCCTCTACTCTGTCT
i micMur3.chr12            I 12 I 152
s proCoq1.NW_012155062v1     3507698 234 +  11683526 AATAGTTGAGAACAGAAAAGAG-----------------------GCTCTGGGTCAGGAGAGCCATCTGGCACTAATTTTAACCACCG---------T---------GGAGGAATCAATAAACCCTGCACTAA----TA-TTCCAATCGACTCACTAATAGTGATAATCAGAACATCTGGTTAGGGTTTCCCTTTACTAGGGTCTCCTG--CAAGGATTGTATTAGGTACTGAATTTCCTACTGAGCTG---TGACTGTGAACAACAGCTTCCTCTACTCTATGT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2991474 240 +   4132165 -ATAGTCGAGAACAGGAAAGGG-----------------------GCTCTGGGTCAGGAGGGCCATCTGGCAGTAATTTTAACCACCA---------C---------GGAGGAACCAATAAACCCTGCACTAATATGTA-TTCCAATCTACTCACTAATGGAAATAATCAGAACATATGGTTGGGGTTTCCCTTTACTAGGGTCTCCTG--CAAGGATTGCATTAGGTATTGAAGTTCCTGTTGAGCTGTGTTGACTGTGAACACCAGGTTCCTCCACCCTCCGT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55453634 248 +  90702639 AATGGGGAAGAGGAGAGGCCAAC-----------ATTTCCTTAGCTGTCTGGGTTAGAAGAGCCATCTGGCACTCATTGTAACCACCA---------T---------GCGGGAACCAATAAACCCTGCGCTCA----TG-TTCCAATCTAGTCACTAATCGCAATAATCAGAACATCTGGTTAGGATTTCCCGTTGCTGGGGTGTCCC---CAAAGATTTTATTAGGCATCAATTTCCCTTTAGATCTATCTTGACTATCAACATTCGTTCACTTTAACCCACAT
i mm10.chr18               I 6 C 0
s canFam3.chr11             14854352 260 +  74389097 ---AGATAATAACAGAAAAGAGCCAATGGGCAATGTTTTCTTAGCTATCTAGGTCAGAAAAGCCATCTGGCACTCATTTTAATCTCCATGAGAGCATT---------GAAAGAACCAATAAACCCCGTACTAA----TA-TTCCAATCTATTCA-TAATGGTGATAATCAGAACATCTGGTTAGGGTTTCCCC-TACAAAGGTCTC-----CAAGGATTATATTTGGTATTGGAGCCCATCCTGAGCCGTGTTGACTCTCAACAACAGCTTCCCACACCC-ATCT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2547039 267 +   3667625 -ATGAATGAGAATAGAGGACGG--ACTGGGAAATGTTTCCTTA--TATCTGGGTCAGGAGAGCCATCTGGCACTCATTTCAAGCACTG---------TGAGAGAATAGGAGGAACCAATAAACCTTACACTCA----TATTTCCAATCTATTCGTTAATAGTGATAATCAAAACATCTGGTTAAGGTTTCCATCTACAAGGAGCTCCTGTCCCAGGATTGTATTAGGTATGGAAGTCACTCGTGAGCAGGGGCGACTGTCAGCAGTGGTTCTGCCCACCCTAGCT
i dasNov3.JH567306         C 0 C 0

a score=284378.000000
s hg38.chr5_KI270796v1_alt      5282 18 +    172708 CTGTCTAACTCTAGCCAG
s panTro5.chr5             125115368 18 + 181907262 CTGTCTAACTCTAGCCAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452365 18 + 183735486 CTGTCTAACTCTAGCCAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644052 18 +   8933513 CTGTCTAACTCTAGCCAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775066 18 + 163208435 CTGTCTAACTCTAGCCAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122760357 18 + 180051392 CTGTCTAAATCTAGCCAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124183880 18 + 181584905 CTGTCTAAATCTAGCCAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16181895 18 +  18395747 CTGTCTAAATCTAGCCAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5185907 18 +  26952557 CTGTCTAACTCTAGCCAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295768 18 +  82825804 CTGTCTAACTCTAGCCAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3959902 18 -   4237731 CTGTCTAACTCTAGCCAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230084 18 -   1175262 CTGTCTAACTCTAGCCAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564040 18 - 204313951 CTGTCTAACTCTAGCCAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55618752 18 -  71252344 CTGTCTAACTCTTGCCAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311170 18 -   1400280 CTGTCTAACTCTAGCCAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107057 18 -  42888418 CTGTCTAACTCTAGCCAG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3507932 18 +  11683526 CTGCCTAACTGTAACCAG
i proCoq1.NW_012155062v1   C 0 I 27
s otoGar3.GL873679           2991714 18 +   4132165 CCGTCTCACTGCAGCCAG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55453882 18 +  90702639 CTGTCTTCCTCGAGCCAG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14854612 18 +  74389097 TTGCCTGACTCAAGCCAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2547306 18 +   3667625 ATGCCTAGCTCTGGGCAG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60470824 152 + 108143057 I

a score=460696.000000
s hg38.chr5_KI270796v1_alt      5300 39 +    172708 ACATATTACCTTACCTCTGCCTACAGCCCAAACCAACCC
s panTro5.chr5             125115386 39 + 181907262 GCATATTACCTTACCTCTGCCTACAGCCCAAACCACCCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452383 39 + 183735486 GCATATTACCTTACCTCTGCCTACAGCCCAAACCACCCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644070 39 +   8933513 GCATATTACCTTACCTCTGCCTACAGCCCAAACCAACCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775084 39 + 163208435 GCATATTACCTTACCTCTGCCTACAGCCCAAGCCAACCC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122760375 39 + 180051392 GCATATTACCTTACCCCTGCCTACAGCCCAAACCAACCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124183898 39 + 181584905 GCATATTACCTTACCCCTGCCTACAGCCCAAACCAACCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16181913 39 +  18395747 GCATATTACCTTACCCCTGCCTACAGCCCAAACCAACCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5185925 39 +  26952557 GCATATTACCTTACCCCTGCCTACAGCCCAAACCAACCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295786 39 +  82825804 GCATATTACCTTACCCCTGCCTACAGCCCAAACCAACCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3959920 39 -   4237731 GCATATTACCTTACCCCTGCCTACAGCCCAAACCAACCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230102 39 -   1175262 GCATATTACCTTACCCCTGCCTACAGCCCAAACCAACTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564058 39 - 204313951 GCATATTACCTTAACTCTGCCTAAAACCCAAGCCAACCC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55618770 38 -  71252344 GCAT-TTACCTTAACTCTGCCTACAATCCAAGCCAACCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311188 39 -   1400280 GCATATTACCTTAACTCTGCCTACAACCCAAGCCAACCC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107075 39 -  42888418 GCATATTACCTTAACTCTGCCTACAACCAAAGCCAACCC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2991732 27 +   4132165 GCAAATCACCTTGCCTC------------AAGACGACCA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55453900 39 +  90702639 GCATACCATCTTGTCTCTGCTTATAGCCCAAGACAATCC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14854630 39 +  74389097 ATTGACCATCTTGTCTTTGCCTATGGCCCAAGCCGATCT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2547324 28 +   3667625 GTGTACCACCTTGCCTCCACCCATCACC-----------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60470824 152 + 108143057 I
e proCoq1.NW_012155062v1     3507950 27 +  11683526 I

a score=565701.000000
s hg38.chr5_KI270796v1_alt      5339 38 +    172708 ACATTCTGAATCTCATCTGAGCTTACATAGAAGGCATG
s panTro5.chr5             125115425 38 + 181907262 ACATTCTGAATCTCATCTGAGCTTACATAGAAGGCATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452422 38 + 183735486 ACATTCTGAATCTCATCTGAGCTTACATAGAAGGCATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644109 38 +   8933513 ACATTCTGAATCTTATCTGAGCTTACATAGAAGGCATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775123 38 + 163208435 ACATTCTGAATCTCATCTGAGCTTACATAGAAGGCTTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122760414 38 + 180051392 ACATTCTGAATCTCATCTGAGCTTACACAGAAAGCATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124183937 38 + 181584905 ACATTCTGAATCTCATCTGAGCTTACACAGAAAGCATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16181952 38 +  18395747 ACATTCTGAATCTCATCTGAGCTTACACAGAAAGCATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5185964 38 +  26952557 ACATTCTGAATCTCATCTGAGTTTACACAGAAAGCATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295825 38 +  82825804 ACATTCTGAATCTCATCTGAGCTTACACAGAAAGCATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3959959 38 -   4237731 ACATTCTGAATCTCATCTGAGCTTACACAGAAAGCATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230141 38 -   1175262 ACATTCTGAATCTCATCTGAGCTTACACAGAAAGCATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564097 38 - 204313951 ACATTCTCAATCTCAGCTGAGCTTACACAGAAAGCACA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55618808 38 -  71252344 ACATTCTGAATCTCAGCTGAGCTTATGCAGAAAGCACG
i saiBol1.JH378106         C 0 I 310
s cebCap1.NW_016107829v1     1311227 38 -   1400280 ACATTCTGAATCTCAGCTGAGCTTACAAAGAAAGCACG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107114 38 -  42888418 ACATTCTGAATCTCAGCTGAGCTTACACAGAAAGCACG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3507977 38 +  11683526 ACATTCTGAAGCTCACCTGAGCTTACAGAGAAAACATG
i proCoq1.NW_012155062v1   I 27 C 0
s otoGar3.GL873679           2991759 38 +   4132165 ACATTCCAAATCCCAGCTGAGCTTACAAAGAAAACATG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55453939 34 +  90702639 ATACTTTAAAAGTCA----GGCATACACAGGAAGCACA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14854669 38 +  74389097 ACATTCTAAATCTAATCTCAGTGTTTATAGGAAGCATG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2547352 38 +   3667625 ACATTCTGAATCACACCTGAGTGTACAGAGGAAGCAAG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60470824 152 + 108143057 I

a score=259151.000000
s hg38.chr5_KI270796v1_alt      5377 19 +    172708 CAATTCATTAATTCTAAGA
s panTro5.chr5             125115463 19 + 181907262 CAATTCATTAATTCTAAGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452460 19 + 183735486 CAATTCATTAATTCTAAGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644147 19 +   8933513 CAATTCATTAATTCTAAGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775161 19 + 163208435 TAATTCATTAATTCTAAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122760452 19 + 180051392 CAATTCATTAATTCTAAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124183975 19 + 181584905 CAATTCATTAATTCTAAGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16181990 19 +  18395747 CAATTCATTAATTCTAAGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5186002 19 +  26952557 CAATTCATTAATTCTAAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295863 19 +  82825804 CAACTCATTAATTCTAAGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3959997 19 -   4237731 CAGTTCATTAATTCTAAGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230179 19 -   1175262 CAATTCATTAATTCTAAGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564135 19 - 204313951 CAATTCATTAGTTCTAAGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619156 19 -  71252344 cAATTCATTAGTTCTAAGA
i saiBol1.JH378106         I 310 C 0
s cebCap1.NW_016107829v1     1311265 19 -   1400280 CAATTCATTAGGTCTAAGA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107152 19 -  42888418 CAATTCGTTAGTTCTAAGA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3508015 19 +  11683526 CCACTCACTAATTCTAAGA
i proCoq1.NW_012155062v1   C 0 I 51
s otoGar3.GL873679           2991797 19 +   4132165 TCATTTACTGATTCTAAGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55453973 11 +  90702639 --------CCACTCTAACG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14854707 19 +  74389097 TCATTCACAGATCCTAAGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2547390 19 +   3667625 TCACTGACTGATTCTCAGA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60470824 152 + 108143057 I

a score=146235.000000
s hg38.chr5_KI270796v1_alt      5396 17 +    172708 GCAAAACA---CAGTTTCTA
s panTro5.chr5             125115482 17 + 181907262 GCAAAACA---CAGTTTCTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452479 17 + 183735486 GCAAAACA---CAGTTTCTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644166 17 +   8933513 GCCAAACA---CAGTTTCTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775180 17 + 163208435 GCCAAACA---CAGTTTCTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122760471 17 + 180051392 GCCAAACA---CAGTTTCGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124183994 17 + 181584905 GCCAAACA---CAGTTTTGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182009 17 +  18395747 GCCAAACA---CAGTTTCGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5186021 17 +  26952557 GCCAAACA---CAGTTTCGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295882 17 +  82825804 GCCAAACA---CAGTTTCGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960016 17 -   4237731 GCCAAACA---CAGTTTCGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230198 17 -   1175262 GCCAAACA---CAGTTTCTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564154 16 - 204313951 GCCAAA-A---CAGTTTTTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619175 16 -  71252344 GCCAAA-A---CAGTTTCGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311284 16 -   1400280 GCCAAA-A---CAGTTTCTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107171 16 -  42888418 GCCAAA-A---GAGTTTCTA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2991816 17 +   4132165 TGCAACCC---CAGTGTCTA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55453984 17 +  90702639 ---AAAGATGTCAGATTCTA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14854726 17 +  74389097 AGCAACCT---TAGCTCCCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2547409 17 +   3667625 AGCAACCT---CGGTCTCTA
i dasNov3.JH567306         C 0 M 337
e micMur3.chr12             60470824 152 + 108143057 I
e proCoq1.NW_012155062v1     3508034 51 +  11683526 I

a score=215172.000000
s hg38.chr5_KI270796v1_alt      5413 23 +    172708 CTA-----------AT-TTTGTGCCTGTTCTTAAA
s panTro5.chr5             125115499 23 + 181907262 CTA-----------AT-TTTGTGCCTGTTCTTAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452496 23 + 183735486 CTA-----------AT-TTTGTGCCTGTTCTTAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644183 23 +   8933513 CTA-----------AT-TTTGTGCCTGTTCTTAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775197 23 + 163208435 CTA-----------AT-TTTGTGCCTGTTCTTAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122760488 23 + 180051392 CTA-----------AT-TTTGTACCTGTTCCTAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124184011 23 + 181584905 CTA-----------AT-TTTGTACCTGTTCCTAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182026 23 +  18395747 CTA-----------AT-TTTGTACCTGTTCCTAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5186038 23 +  26952557 CTA-----------AT-TTTGTACCTGTTCCTAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295899 23 +  82825804 CTA-----------AT-TTTGTACCTGTTCCTAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960033 23 -   4237731 CTA-----------AT-TTTGTACCTGTTCCTAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230215 23 -   1175262 CTA-----------AT-TTTGTACCTGTTCCTAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564170 34 - 204313951 CTATTGTTGCTGTAAT-TTTGTACCTGTTCCTAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619191 34 -  71252344 CTATCATTGCTCTAAT-TTTGTACCTGTTCTTAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311300 34 -   1400280 CTATCATTGCTGTGAT-TTTGTACCTGTTCCTAAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107187 34 -  42888418 CTATCATTGCTGTAAT-TTTGTACCTGTTCCTAAA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2991833 14 +   4132165 TTG---------------------TTATTGCTGCA
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55454001 35 +  90702639 CTGTTGTTACTGTAATCTCTGTGCCCATTCTCAAC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14854743 34 +  74389097 CTATTGTTGCTGTAAG-CTTGTGCCTGTTCCTCTG
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60470824 152 + 108143057 I
e proCoq1.NW_012155062v1     3508034 51 +  11683526 I
e dasNov3.JH567306           2547426 337 +   3667625 M

a score=87650.000000
s hg38.chr5_KI270796v1_alt      5436 8 +    172708 CTTTTTGT--
s panTro5.chr5             125115522 8 + 181907262 CTTTTTGT--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452519 8 + 183735486 CTTTTTGT--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644206 8 +   8933513 CTTTTTGT--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775220 8 + 163208435 CCTTTTGT--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122760511 8 + 180051392 CTTTTTGC--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124184034 8 + 181584905 CTTTTTGC--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182049 8 +  18395747 CTTTTTGC--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5186061 8 +  26952557 CTTTTTGC--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295922 8 +  82825804 CTTTTTGC--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960056 8 -   4237731 CTTTTTGC--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230238 8 -   1175262 CTTTTTGC--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564204 8 - 204313951 CTTTTTAT--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619225 8 -  71252344 CTTCTTGT--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311334 8 -   1400280 CTTTTTGT--
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107221 8 -  42888418 CTTTTTGT--
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3508085 8 +  11683526 CTTTTTGC--
i proCoq1.NW_012155062v1   I 51 C 0
s otoGar3.GL873679           2991848 6 +   4132165 --TTTTGC--
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55454036 8 +  90702639 CATTTGAT--
i mm10.chr18               C 0 C 0
s canFam3.chr11             14854777 8 +  74389097 --TGATGTGC
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60470824 152 + 108143057 I
e dasNov3.JH567306           2547426 337 +   3667625 M

a score=700667.000000
s hg38.chr5_KI270796v1_alt      5444 47 +    172708 CTAAACTCT-GATTTCTTGTTTTCTAGACTC-TATCTTGGGTTTCTGCT
s panTro5.chr5             125115530 47 + 181907262 CTAAACTCT-GATTTCTTGTTTTCTAGACTG-TATCTTGGGTTTCTGCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452527 47 + 183735486 CTAAACTCT-GATTTCTTGTTTTCTAGACTG-TATCTTGGGTTTCTGCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644214 47 +   8933513 CTAAACTCT-GATTTCTTGTTTTCTAGACTC-TATCTTGGGTTTCTGCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775228 47 + 163208435 CTAAACTCT-GATTTCTTGTTTTCTAGACTA-TATCTTGGGTTTCTGCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122760519 47 + 180051392 CTAAACTCT-GATTTCTTGTTTTCTAGACTC-TATCCTGGGTTTCTGCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124184042 47 + 181584905 CTAAACTCT-GATTTCTTGTTTTCTAGACTC-TATCCTGGGTTTCTGCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182057 47 +  18395747 CTAAACTCT-GATTTCTTGTTTTCTAGACTC-TATCCTGGGTTTCTGCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5186069 47 +  26952557 CTAAACACT-GATTTCTTGTTTTCTAGACTC-TATCCTGGGTTTCTGCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295930 47 +  82825804 CTAAACTCT-GATTTCTTGTTTTCTAGACTC-TATCCTGGGTTTCTGCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960064 47 -   4237731 CTAAACTCT-GATTTCTTGTTTTCTAGACTC-TATCCTGGGTTTCTGCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230246 47 -   1175262 CTAAACTCT-GATTTCTTGTTTTCTAGACTC-TATCCTGGGTTTCTGCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564212 46 - 204313951 CTAAACTCT-AATTTCTTGTATTCT-GACTC-TATCTTGAGTTTGTGCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619233 47 -  71252344 CTAAACTCT-GATTTCTTGTTTTCTAGACTC-TATCTTGGGTTTGTGCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311342 47 -   1400280 CTAAACTCT-GATTTCTTGTTTTCTAGACTC-TATCTTGGGTTTGTGCT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107229 47 -  42888418 CTAAACTCT-GATTTCTTGTTTTCTAGACTC-TATCTTGGGTTTGTGCT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60470976 47 + 108143057 CTAAACTCT-GATTTCTTTTTGTCTAAACTC-TATCTTGGGTTCCTGCT
i micMur3.chr12            I 152 C 0
s proCoq1.NW_012155062v1     3508093 47 +  11683526 CTAAGCTCT-GATTTCTTTTTGTCTAAACTC-TATCTTGGGTTCCTGCT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2991854 47 +   4132165 CTAAAGTCT-GACTTCTCTTTGTCTGAACTC-TATCTTGGGTTCCTGCT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55454044 45 +  90702639 CTAACCACG-GACttttttcttttttttttt-tttctt--ttttctttt
i mm10.chr18               C 0 I 2414
s canFam3.chr11             14854785 49 +  74389097 CTAGACTCTAAAGTTCTTTTAGTCTGGACTCTTGTCTTCGGTTCCTGCT
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2547426 337 +   3667625 M

a score=1008399.000000
s hg38.chr5_KI270796v1_alt      5491 69 +    172708 ------ACCATATTGCTCAGAATCTACTTTGGGAGCTGACCCTTGGTTCTTCACCCTCCTCAATATTTCTTCTCT
s panTro5.chr5             125115577 69 + 181907262 ------ACCATATTGCTCAGAATCTACTTTGGGAGCTGACCCTTGGTTCTTCACCCTCCTCAATATTTCTTCTCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452574 69 + 183735486 ------ACCATATTGCTCAGAATCTACTTTGGGAGCTGACCCTTGGTTCTTCACCCTCCTCAATATTTCTTCTCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644261 69 +   8933513 ------ACCATATTGCTCAGAATCTACTTTGGGAGCTGACCCTTGGTTCTTCACCCTCCTCAATATTTCTTCTCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775275 69 + 163208435 ------ACCATATTGTTCAGAATCTACTTTGGGAGCTGACCCTTGGTTCTTCACCCTCTTCAATATTTCTTCTCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122760566 69 + 180051392 ------ACCATGTTGTTCAGAATCTACTTGCGTAGCTGACCCTTGGTTCTTCACCCTCCTCAATATTTCTTCTCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124184089 69 + 181584905 ------ACCATGTTGTTCAGAATCTACTTGCGTAGCTGACCCTTGGTTCTTCACCCTCCTCAATATTTCTTCTCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182104 69 +  18395747 ------ACCATGTTGTTCAGAATCTACTTGCGTAGCTGACCCTTGGTTCTTCACCCTCCTCAATATTTCTTCTCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5186116 69 +  26952557 ------ACCATGTTGTTCAGAATCTACTTGCGTAGCTGACCCTTGGTTCTTCACCCTCCTCAATATTTCTTCTCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28295977 69 +  82825804 ------ACCATGTTGTTCAGAATCTACTTGCGTAGCTGACCCTTGGTTCTTCACCCTCCTCAATATTTCTTCTGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960111 69 -   4237731 ------ACCATGTTGTTCAGAATCTACTTGCGTAGCTGACCCTTGGTTCTTCACCCTCCTCAATATTTCTTCTCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230293 69 -   1175262 ------ACCATGTTGTTCAGAATCTACTTGCGTAGCTGACCCTTGGTTCTTCACCTTCCTTAATATTTCTTCTCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564258 69 - 204313951 ------ATCATACTGTTCAGAATCTACTTTGGTAGCTGACCCTTGGCTCTTCATCCTCCTCAATATTTCTTCTCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619280 69 -  71252344 ------ATCATACTGTTCAGATTCTACTTTGGTAGCTGACCCTTGGCTCTTCGTCCTCCTCAATATTTCTTCTCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311389 69 -   1400280 ------ATCATACTGTTTGGATTCTACTTTGGTAGCTGATCCTTGGCTCTTCTTCCTCCTCAATATTTCACCTCT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107276 69 -  42888418 ------ATCATACTGTTCAGATTCTACTTTGGTAGCTGACCCTTGGCTCTTCATCTTCCTCAATATTTCTGCTCT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60471023 69 + 108143057 ------CTCATATTGTTCAGAATCTACTTCGATAGCTGACCCTTGGTTCTTCACCCTCTTCAATTCTTCTTCTCT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3508140 69 +  11683526 ------CTCATGTTGTTCAGAATCTACTTTGATAGCTGACCCTTGGTTCTTCAACCCCTTCAATGTTTGTTCTCT
i proCoq1.NW_012155062v1   C 0 I 170
s otoGar3.GL873679           2991901 69 +   4132165 ------CTCAAATTGTTCAGAATCTGCTTTGCTAACTGACCCTTGGTTCTTCAACCTCCTCAATGCGTCTTCTCT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55456503 69 +  90702639 ------ATTATCTGGTTCAGAATCTATTTGTGTAGCTGACCTTGCATCCCTCAACCTCTTCAAGTCTGCTTCTCT
i mm10.chr18               I 2414 C 0
s canFam3.chr11             14854834 71 +  74389097 GTCCTAGTGTTATCGGTCACCATCCACTTTGGTAGCTCACCCTTAACTCTTTAACCTCCT----GTGTCTTTTCT
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2547426 337 +   3667625 M

a score=656323.000000
s hg38.chr5_KI270796v1_alt      5560 57 +    172708 GTGTTCTCAGACATTCTAGATTT-AGTTCTTGT---TTCTCTAGCGACCCTTGATTGCTTC
s panTro5.chr5             125115646 57 + 181907262 GTGTTCTCAGACATTCTAGATTT-AGTTCTTGT---TTCTCTAGCGACCCTTGATTGCTTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452643 57 + 183735486 GTGTTCTCAGACATTCTAGATTT-AGTTCTTGT---TTCTCTAGCGACCCTTGATTGCTTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644330 57 +   8933513 GTGTTCTCAGACATTCTAGATTT-AGTTCTTGT---TTCTCTAGCGACCCTTGATTGCTTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775344 57 + 163208435 GTGTTCTCAGACATTCTAGATTG-AGCTCTTGT---TTCTCTAGTGACCCTTGATTGCTTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122760635 57 + 180051392 CTGTTCTCAGACCTTCTAGATTT-AGCTTTTGT---TTCTCTAGAGACCCTTGATTGCTTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124184158 57 + 181584905 CTGTTCTCAGACCTTCTAGATTT-AGCTTTTGT---TTCTCTAGAGACCCTTGATTGCTTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182173 57 +  18395747 CTGTTCTCAGACCTTCTAGATTT-AGCTTTTGT---TTCTCTAGAGACCCTTGATTGCTTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5186185 57 +  26952557 CTGTTCTCAGACCTTCTAGATTT-AGCTTTTGT---TTCTCTAGAGACCCTTGATTGCTTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28296046 57 +  82825804 CTGTTCTCAGACCTTATAGATTT-AGCTTTTGT---TTCTCTAGAGACCCTTGATTGCTTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960180 57 -   4237731 CTGTTCTCAGACCTTCTAGATTT-AGCTTTTGC---TTCTCTAGAGACCCTTGATTGCTTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230362 57 -   1175262 CTGTTCTCAGACCTTCTAGATTT-AGCTCTTGT---TTCTCTAGAGACACTTGATTGCTTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564327 57 - 204313951 CTGTTCTCAGACATTCTAGATTT-AGCTCTTAT---TTCTCTAGAGACCTTTGGTTGCTTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619349 57 -  71252344 CTGTTCTCAGACGTTCCAGATTT-AGCTCTTAT---TTCTCTAGAGACCTTTGGCTGCTTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311458 54 -   1400280 CTGTTCTCAGAAAT---AGATTT-AGTTCTTAT---TTCTCTAGAGACCTTTGGTTGCTTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107345 57 -  42888418 CTGTTCTTAGATATTCTAGATTT-AGCTTTTAT---TTCTCTAGAGACCTTTGGTTGCTTC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60471092 58 + 108143057 TTGTTCTCTGACCTTCTCGACTTGAGCTCTTGT---TTCCCTAAAGCTCCTTGATTGCTTC
i micMur3.chr12            C 0 I 119
s otoGar3.GL873679           2991970 51 +   4132165 TTCTTCTCT---------GACTTGAGCCCTTGTTGCTTCCCCAGAG-TCCCCGGTTGCTTC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55456572 55 +  90702639 CTGTTCTTCCACATCTAATCTTG-GGCTCTTAT---TGCTC-AGAG-CCCTTGCTTGATtc
i mm10.chr18               C 0 I 2
s canFam3.chr11             14854905 53 +  74389097 CTGTTCTC-----CTCCAGTCTTGAGGTATTGT---TTCCCCAAAGTTCCTTGATTCCTTC
i canFam3.chr11            C 0 C 0
e proCoq1.NW_012155062v1     3508209 170 +  11683526 I
e dasNov3.JH567306           2547426 337 +   3667625 M

a score=191915.000000
s hg38.chr5_KI270796v1_alt      5617 16 +    172708 TTTTTCTCTACACCTC
s panTro5.chr5             125115703 16 + 181907262 TTTTTCTCTACACCTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452700 16 + 183735486 TTTTTCTCTACACCTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644387 16 +   8933513 TTTTTCTCTACACCTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775401 16 + 163208435 TTTTTCTCTATACCTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122760692 16 + 180051392 TTTTTCTCTACACCTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124184215 16 + 181584905 TTTTTCTCTACACCTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182230 16 +  18395747 TTTTTCTCTACACCTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5186242 16 +  26952557 TTTTTCTCTACACCTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28296103 16 +  82825804 TTTTTCTCTACACCTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960237 16 -   4237731 TTTTTCTCTACACCTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230419 16 -   1175262 TTTTTCTCTACACCTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564384 16 - 204313951 TTTTTCTCTATACCTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619406 16 -  71252344 TTTGTCTCTATACCTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311512 16 -   1400280 TTTTTCTCTATACCTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107402 16 -  42888418 TTTTTCTCTGTACCTC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2992021 15 +   4132165 CTCGTTTCTACACTT-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55456629 16 +  90702639 tcttcccctccccctc
i mm10.chr18               I 2 I 10
s canFam3.chr11             14854958 16 +  74389097 CTCGTCTGTACATCTC
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60471150 119 + 108143057 I
e proCoq1.NW_012155062v1     3508209 170 +  11683526 I
e dasNov3.JH567306           2547426 337 +   3667625 M

a score=1113460.000000
s hg38.chr5_KI270796v1_alt      5633 149 +    172708 TTAACCTGCTTGGATTGCACCCAAGAGTTTAAAatagatgatagatagatagata--------------------------------------------------------------------------------gatggatagatagacagacagacagatagatagataTCTCTCCTTTGGC-CAATCCAAATTATAAGTCTAATTAAGT-ATAGCAGAAT---TCTCAGAG
s panTro5.chr5             125115719 149 + 181907262 TTAACCTGCTTGGATTGCACCCAAGAGTTTAAAatagatgatagatagatagata--------------------------------------------------------------------------------gatggatagatagacagacagacagatagatagataTCTCTCCTTTGGC-CAATCCAAATTATAAGTCTAATTAAGT-ATAGCAGAAT---TCTCAGAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452716 133 + 183735486 TTAACCTGCTTGGATTGCACCCAAGAGTTTAAAatagatgata------------------------------------------------------------------------------------------------gatagatagacagacagacagatagatagataTCTCTCCTTTGGC-CAATCCAAATTATAAGTCTAATTAAGT-ATAGCAGAAT---TCTCAGAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644403 145 +   8933513 TTAACCTGCTTGGATTGGACCCAAGAGTTTAAAatagatgatagatagatagata------------------------------------------------------------------------------------gatggatagatagacagacagatagatagataTCTCTCCTTTGGC-CAATCCAAATTATAAGTCTAATTAAGT-ATAGCAGAAT---TCTCAGAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775417 141 + 163208435 TTAAGCTGCTTGGATTGCACCCAAGAGTTTAAAatagatgatagatagata----------------------------------------------------------------------------------------gatagatggatggacagatagatagatagataTCTCTCCTTTGGC-CAATCCAAATTATAAGTCTAATTAAGT-ATAGCAGAAT---TCTCAGAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122760708 185 + 180051392 TTAACTTGCCTGGAGTGCATCCAAGAGTTTAAAatagatgatagatagatggatagataggtaggtaca--------------------------------aagataga------------tagatagatagatagatagatagatagatagatagatagatagatagataTCTCCCCTTTGGT-CAATCCAAATTATAAGTCTAATTAAGT-ATAGCAGAAT---TCTCAAAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124184231 189 + 181584905 TTAACTTGCCTGGAGTGCATCCAAGAGTTTAAAatagatgatagatagatggatagataggtaggtaca--------------------------------aagataga--------tagatagatagatagatagatagatagatagatagatagatagatagatagataTCTCCCCTTTGGT-CAATCCAAATTATAAGTCTAATTAAGT-ATAGCAGAAT---TCTCAAAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182246 174 +  18395747 TTAACTTGCCTGGAGTGCATCCAAGAGTTTAAAatagatgatagatagatggatagataggtagg--------------------------------------------------------tagaaagatagatagatagatagatagatagatagatagatagatagataTCTCCCCTTTGGTCCAATCCAAATTATAAGTCTAATTAAGT-ATAGCAGAAT---TCTCAGAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5186258 193 +  26952557 TTAACTTGCCTGGAGTGCATCCAAGAGTTTAAAatagatgatagatagatggatagataggtaggtaga--------------------------------aagataga----tagatagatagatagatagatagatagatagatagatagatagatagatagatagataTCTCCCCTTTGGT-CAATCCAAATTATAAGTCTAATTAAGT-ATAGCAGAAT---TCTCAGAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28296119 221 +  82825804 TTAACTTGCCTGGAGTGTATCCAAGAGTTTAagatagatgatagatagatggatacataggtaggtagaaagatagataggtaggtaggtaggtacgtaggtagataga--------tagatagatagatagatagatagatagatagacagacagacagacagatagataTCTCCCCTTTGGT-CAATCCAAATTATAAGTCTAATTAAGT-ATAACAGAAT---TCTCAGAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960253 197 -   4237731 TTAACTTGCCTGGAGTGCATCCAAGAGTTTAAAatagatgatagatagatggatagatagctaggtaggtagaaaga------------------------tagataga--------tagatagatagatagatagatagatagatagatagatagatagatagatagataTCTCCCCTTTGGT-CAATCCAAATTATAAGTCTAATTAAGT-ATAGCAGAAT---TCTCAGAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230435 197 -   1175262 TTAACTTGCCTGGAGTGCATCCAAGAGTTTAAAATAAATgatagatagatggatagataggtaggtaga--------------------------------aagatagatagatagatagatagatagatagatagatagatagatagatagatagatagatagatagataTCTCCCCTTTGGT-CAATCCAAATTGTAAGTCTAATTAAGT-ATAGCAGAAT---TCTCAGAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564400 168 - 204313951 TTAACCTGCCTAGATTGCACCCAACAATTTAAAatagatgaatgataaatagatagat--------------------------------------------agatgat------------------gatagatagatagatagatagatagatagatagatagatagataTCTCCCCTTTGGC-CAATCAAAATTTTAAGTTTAATGAAG---TAATAAAATAAAAACTGGAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619422 160 -  71252344 TTAACCTGCCTAGATTGCACCCAACAATTTAAAatagatgaaagatagatagata---------------------------------------------------gat------------------gatagatagat-gataa--aaatagatagatagataaataggtaTATCCCCTTTAGC-CAATCaaaattttaattttaattaagt-ataatgaaataaaaaCTGGAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311528 153 -   1400280 TTAACCTGCCTAGATTACACCCAACAATTTAAAATAGATGAAAGAAGgatagata----------------------------------------------------------------------------gatagat-gatat--agatagatagatagataaatagataTCTCACCTTTGGC-CAATCAAAAATTTAAGTTTAATTAAGT-ATAATGAAATAAAAACTCGAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107418 180 -  42888418 TTAACCTGCCTAGATTGCACCCAACAATTTAAAatagatgaaagatagatagatagat-----gataga--------------------------------cagatgat---------------agagatagatagatagatagatagatagatagatagatagatagataTCTCCTCTTTGGC-CAATCAAAATTTTAAGTTTAATTAAGT-ATAATGAAATAAAAACTGGAG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2992036 102 +   4132165 ---ATCTCTCTGCATTGGACCCAGTAGTTT---------------------------------------------------------------------------------------------------------------TAAATATCTCTATCTATTTATGCATCTGTGTCTCCATTTTGCC-TAATCCAAATTATAA-TTGAATAAA-----AACTGAAC-----------
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14854974  89 +  74389097 TTGACCTCTCTATATTAGACCAAATGGCTTTAGATT-------------------------------------------------------------------------------------------------------------------------------------TATCTCCATTTTAGC-CAATGCAAATTCTATGTATAATAGAATAATAACTGGAC-----------
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60471150 119 + 108143057 I
e proCoq1.NW_012155062v1     3508209 170 +  11683526 I
e dasNov3.JH567306           2547426 337 +   3667625 M
e mm10.chr18                55456645  10 +  90702639 I

a score=562558.000000
s hg38.chr5_KI270796v1_alt      5782 37 +    172708 CAGAATTCTGAGGTATGTGGATTCTACTTTGGACTTA
s panTro5.chr5             125115868 37 + 181907262 CAGAATTCTGAGGTATGTGGATTCTACTTTGGACTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452849 37 + 183735486 CAGAATTCTGAGGTATGTGGATTCTACTTTGGACTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644548 37 +   8933513 CAGAATTCTGAGGTATGTGGATTCTACTTTGGACTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775558 37 + 163208435 CAGAATTCTGAGGTATGTGGATTCTACTTTGGACTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122760893 37 + 180051392 CAGAATTATGAGGTATGTGGATTCTACTTTGGTCTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124184420 37 + 181584905 CAGAATTATGAGGTATGTGGATTCTACTTTGGTCTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182420 37 +  18395747 CAGAATTATGAGGTATGTGGATTCTACTTTGGTCTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5186451 37 +  26952557 CAGAATTATGAGGTATGTGGATTCTACTTTGGTCTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28296340 37 +  82825804 CAGAATTATGAGGTATGTGGATTCTACTTTGGTCTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960450 37 -   4237731 CAGAATTATGAGGTATGTGGATTCTACTTTGGTCTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230632 37 -   1175262 CAGAATTATGAGGTATGTGGATTCTACTTTGGTCTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564568 37 - 204313951 AAGAATCCTGAGATATGTGAATTCTACTTTGGACTTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619582 37 -  71252344 CAGAATTCTGAGATATGCAGATTCTACTTTGGACTTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311681 37 -   1400280 CAGAATTCTGAGATATGTGGATTCTACTTTGGACTTG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107598 37 -  42888418 CAGAATTCTGAGATATGTGGATTTTACTTTGGACTTG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60471269 37 + 108143057 CAGAATTCTGAGGTATATGGATTCTACTTTGAACTTA
i micMur3.chr12            I 119 C 0
s proCoq1.NW_012155062v1     3508379 37 +  11683526 CAGAATTCTGAGGTATATGGATTCTACTTTGAACTTA
i proCoq1.NW_012155062v1   I 170 I 159
s otoGar3.GL873679           2992138 36 +   4132165 CATAATTCCGAGGCCTTTGGATACTACTTCTGGTCT-
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14855063 37 +  74389097 CAGAATTCTAAGATATCTGGATTCTAATTTGGACTTA
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2547774 36 +   3667625 CAGAATTCTGAGG-ATATAGATTCCAAGTTAGACTTA
i dasNov3.JH567306         M 337 C 0
e mm10.chr18                55456645 10 +  90702639 I

a score=22252.000000
s hg38.chr5_KI270796v1_alt      5819 3 +    172708 CCA
s panTro5.chr5             125115905 3 + 181907262 CCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452886 3 + 183735486 CCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644585 3 +   8933513 CCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775595 3 + 163208435 CCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122760930 3 + 180051392 CCG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124184457 3 + 181584905 CCG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182457 3 +  18395747 CCG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5186488 3 +  26952557 CTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28296377 3 +  82825804 CCG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960487 3 -   4237731 CCG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230669 3 -   1175262 CTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564605 3 - 204313951 CCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619619 3 -  71252344 CCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311718 3 -   1400280 CCA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107635 3 -  42888418 TCA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60471306 3 + 108143057 CCA
i micMur3.chr12            C 0 I 100
s canFam3.chr11             14855102 2 +  74389097 TC-
i canFam3.chr11            I 2 C 0
s dasNov3.JH567306           2547810 3 +   3667625 CCA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3508416 159 +  11683526 I
e otoGar3.GL873679           2992174 0 +   4132165 C
e mm10.chr18                55456645 10 +  90702639 I

a score=989244.000000
s hg38.chr5_KI270796v1_alt      5822 81 +    172708 TAATTAGAATTCTGA-------------TCTGGGATTTCTGTTCG-TCTATACAATGGGAAAGCCATATAGCCAATTTTGTTTCCAGTTATGGCA
s panTro5.chr5             125115908 81 + 181907262 TAATTAGAATTCTGA-------------TCTGGGATTTCTGTTCG-TCTATACAATGGAAAAGCCATATAGCCAATTTTGTTTCCAGTTATGGCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452889 81 + 183735486 TAATTAGAATTCTGA-------------TCTGGGATTTCTGTTCG-TCTATACAATGGAAAAGCCATATAGCCAATTTTGTTTCCAGTTATGGCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644588 81 +   8933513 TAATTAGCATTCTGA-------------TCTGGGATTTCTGTTCG-TCTATACAGTGGAAAAGCCATATAGCCAATTTTGTTTCCAGTTATGGCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775598 81 + 163208435 TAATTAGCATTCTGA-------------TCTGGGATTTCTGTTCA-TCTATACAATGGAAAAGCCATACAGCCAATTTTGTTTCCAGTTATGGCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122760933 81 + 180051392 TAATTAGCATTCTGA-------------TCTGGGATTTCTGTTAA-TCTATACAATGGAAAAGCCATATAGCCAATTTTGTTTCCAATTATGGCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124184460 81 + 181584905 TAATTAGCATTCTGA-------------TCTGGGATTTCTGTTAA-TCTATACAATGGAAAAGCCATATAGCCAATTTTGTTTCCAATTATGGCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182460 81 +  18395747 TAATTAGCATTCTGA-------------TCTGGGATTTCTGTTAA-TCTATACAATGGAAAAGCCATATAGCCAATTTTGTTTCCAATTATGGCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5186491 81 +  26952557 TAATTAGCATTCTGA-------------TCTGAGATTTCTGTTAA-TCTATACAATGGAAAAGCCATATAGCCAATTTTGTTTCCAATTATGGCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28296380 81 +  82825804 TAATTAGCATTCTGA-------------TCTGGGATTTCTGTTAA-TCTATACAATGGAAAAGCCATATAGCCAATTTTGTTTCCAATTATGGCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960490 81 -   4237731 TAATTAGCATTCTGA-------------TCTGGGATTTCTGTTAA-TCTATACAATGGAAAAGCCATATAGCCAATTTTGTTTCCAATTATGGCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230672 81 -   1175262 TAATTAGCATTCTGA-------------TCTGGGATTTCTGTTCA-TCTATAAAATGGAAAAGCCATATAGCCAATTTTGTTTCCAATTATGGCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564608 81 - 204313951 TAATTAGCATTCTGA-------------TCTGGGATTTCTGTTCA-TCTATACAGTGGAAAAGCCACATAGCCAATTTTGTTTCCCGTTATAGCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619622 81 -  71252344 TAATTAGCATTCCGT-------------TCTGGGATTTCTGTTCA-TCTATACAGTGGAAAAGCCACATAGCCAATTTTGTTTCCAGTTATAGCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311721 81 -   1400280 TAATTAGCATTCTGA-------------TCTGGGATTTCTGTTCA-TCTATACAGTGGAAAAGCCACATAGCCAATTTTGTTTCCAGTTATAGCA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107638 81 -  42888418 TAATTAGCATTCTGA-------------TCTGGGATTTCTGTTCA-TCTATACAGTGGAAAATCCACATGGCCAATTTTGTTTCCAGTTATAGCA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2992174 66 +   4132165 ----------------------------TCTGGGATTTCTATTTG-TGCACACTGTGGAGAAGCTTTATATCCAAATTTGCTTCCAGATCTAGCA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14855104 94 +  74389097 TAATTAGCATTGCAATCTTTTGGGACCTTCTGGGATTTCTATTCA-TTTATACCACGGAGAAGGCAGCACTCCAATTTTGCTTCTAGTTCGATCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2547813 82 +   3667625 ---CTAGAATTGCCATCT----------TCTGGGATTTCTGTTCATTTTATGCCATTGAGAAGCCTTGTATCCAAATTTGCTTCCAGCTCTAGTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60471309 100 + 108143057 I
e proCoq1.NW_012155062v1     3508416 159 +  11683526 I
e mm10.chr18                55456645 10 +  90702639 I

a score=219616.000000
s hg38.chr5_KI270796v1_alt      5903 19 +    172708 --TTCTGTAATAGTATATATA
s panTro5.chr5             125115989 19 + 181907262 --TTCTGTAATAGTATATATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452970 19 + 183735486 --TTCTGTAATAGTATATATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644669 19 +   8933513 --TTCTGTAATAGTATATATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775679 19 + 163208435 --TTCTGTAATAGTATATATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122761014 19 + 180051392 --TTCTATAATAGTATATACA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124184541 19 + 181584905 --TTCTATAATAGTATATACA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182541 19 +  18395747 --TTCTATAATAGTATATACA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5186572 19 +  26952557 --TTCTATAATAGTATATACA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28296461 19 +  82825804 --TTCTATAATAGTATATACA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960571 19 -   4237731 --TTCTATAATAGTATATACA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230753 19 -   1175262 --TTCTATAATAGTATATACA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564689 19 - 204313951 --TTCTATATTAATATATATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619703 19 -  71252344 --TTCTATATTAATGTATATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311802 19 -   1400280 --TTCTATATTAATATATATA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107719 19 -  42888418 --TTCTATATTAATATATATA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2992240 16 +   4132165 --TTCTA---TGGGACACATA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55456655 19 +  90702639 --tccTATTTTGATATATTTA
i mm10.chr18               I 10 I 6
s canFam3.chr11             14855198 19 +  74389097 --TCCTATAATTTTGTATGTA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2547895 21 +   3667625 GGATCTATAATTCTATACATA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60471309 100 + 108143057 I
e proCoq1.NW_012155062v1     3508416 159 +  11683526 I

a score=526387.000000
s hg38.chr5_KI270796v1_alt      5922 38 +    172708 TCTTTA--TGGGAATAACA-ATTATAACCCACTGTGTGCTA
s panTro5.chr5             125116008 38 + 181907262 TCTTTA--TGGGAATAACA-ATTATAACCCACCGTGTGCTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126452989 38 + 183735486 TCTTTA--TGGGAATAACA-ATTATAACCCACCGTGTGCTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644688 38 +   8933513 TCTTTA--TGGGAATAACA-ATTATAACCCACTGTGTGCTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775698 38 + 163208435 TCTTTA--TGGGAATAACA-ATTATAACCCACTGTGTGCTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122761033 38 + 180051392 TCTTTA--TGGTAATAATA-GTTATAACCCACTATGTGCTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124184560 38 + 181584905 TCTTTA--TGGTAATAATA-GTTATAACCCACTATGTGCTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182560 38 +  18395747 TCTTTA--TGGTAATAATA-GTTATAACCCACTATGTGCTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5186591 38 +  26952557 TCTTTA--TGGTAATAATA-GTTATAACCCACTATGTGCTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28296480 38 +  82825804 TCTTTA--TGGTAATAATA-GTTATAATCCACTATGTGCTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960590 38 -   4237731 TCTTTA--TGGTAATAATA-GTTATAACCCACTATGTGCTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230772 38 -   1175262 TCTTTA--TGGTAATAATA-GTTATAACCCACTAAGTGCTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564708 38 - 204313951 TCGTTA--GGGGAATAACA-ATTATATCCCGCTGTGTGCTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619722 38 -  71252344 TCTTTA--GGGGAATAACA-ATTATAACCCACTGTGTGCTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311821 38 -   1400280 TCTTTA--GGGGAATAACA-ATTATAACCCACTGTGTGCTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107738 38 -  42888418 TCTTTA--GGGGAATAACA-ATTATAACCCGCTGTGTGCTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60471409 38 + 108143057 TCTTTA--TGGTAATAATA-ATTATAATCCACTGTGTGCTA
i micMur3.chr12            I 100 I 18
s otoGar3.GL873679           2992256 38 +   4132165 CCTCTG--TAGTAATAATC-CTTATCATCCACTGTGTGCTA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55456680 39 +  90702639 TATATT--TGGTAATAATATATTATCAAAATTTGTTTCCTG
i mm10.chr18               I 6 I 1
s canFam3.chr11             14855217 38 +  74389097 TCTTTA--TGATGATAACA-ATTATGATCCACTGTCTGCTA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2547916 40 +   3667625 TCTTTATGTGGTGATAATA-AGTATAACTCAATGCCTGCTA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3508416 159 +  11683526 I

a score=390821.000000
s hg38.chr5_KI270796v1_alt      5960 39 +    172708 CTAAGTAGGTTCAAATATATTCAA-------AGTTCTCCAGTTACA
s panTro5.chr5             125116046 39 + 181907262 CTAAGTAGGTTCAAATATATTCAA-------AGTTCTCCAGTTACA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126453027 39 + 183735486 CTAAGTAGGTTCAAATATATTCAA-------AGTTCTCCAGTTACA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644726 39 +   8933513 CTAAGTAGGTTCAAATATATTCAA-------AGTTCTCCAGTTACA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775736 39 + 163208435 CTAAGTAGGTTCAAATATATTCAG-------AGTTCTCCAGTTACA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122761071 39 + 180051392 ATAAGTAGGTTCAAATATATTCAA-------AGTTGTCCAGTTACA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124184598 39 + 181584905 ATAAGTAGGTTCAAATATATTCAA-------AGTTGTCCAGTTACA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182598 39 +  18395747 ATAAGTAGGTTCAAATATATTCAA-------AGTTGTCCAGTTACA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5186629 39 +  26952557 ATAAGTAGGTTCAAATATATTCAA-------AGTTGTCCAGTTACA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28296518 39 +  82825804 ATAAGTAGGTTCAAATATATTCAA-------AGTTGTCCAGTTACA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960628 39 -   4237731 ATAAGTAGGTTCAAATATATTCAA-------AGTTGTCCAGTTACA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230810 39 -   1175262 ATAGGTAGGTTCAAGTATATTCAA-------AGTTTTCCAGTTACA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564746 39 - 204313951 ATAAGTAGGTTCAAGTATATTCAA-------AATTTTCCAGTTATG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619760 39 -  71252344 ATAAGTAGGTTTAAGTATATTCAA-------AATTTTCCAGTTATG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311859 39 -   1400280 ATAAGTAGGTTCAAGTATATTCAA-------AATTTTCTCGTTATG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107776 39 -  42888418 ATAAGTAGGTTCAAGTATATTCAA-------AATTTTCCAGTTATG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2992294 18 +   4132165 --------------GTAT--------------GTTTCTCAGTTATG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55456720 46 +  90702639 TCTAGCAATTTTATAAATATTTTATGTACTTAGCTTTCCAGTTATA
i mm10.chr18               I 1 C 0
s canFam3.chr11             14855255 39 +  74389097 GTAACTAGGTTCAGTTACTTTCAG-------AATTTCCCAGTTAGG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2547956 13 +   3667625 ATAACTAGGTTCA---------------------------------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60471447 18 + 108143057 I
e proCoq1.NW_012155062v1     3508416 159 +  11683526 I

a score=482941.000000
s hg38.chr5_KI270796v1_alt      5999 31 +    172708 ATGACTATCCCCAAATAAGTGAGAATATCTA
s panTro5.chr5             125116085 31 + 181907262 ATGACTATCCCCAAATAAGTGAGAATATCTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126453066 31 + 183735486 ATGACTATCCCCAAATAAGTGAGAATATCTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644765 31 +   8933513 ATGACTAGCCCCAAATAAGTGAGAATATCTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775775 31 + 163208435 ATGACTATCCCCAGATAAGTGAGAATATCTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122761110 31 + 180051392 ATAACTATCCCCAAATAAGTAAGAACATCTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124184637 31 + 181584905 ATAACTATCCCCAAATAAGTAAGAACATCTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182637 31 +  18395747 ATAACTATCCCCAAATAAGTAAGAACATCTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5186668 31 +  26952557 ATAACTATCCCCAAATAAGTAAGAATATCTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28296557 31 +  82825804 ATAACTATCCCCAAATAAGTAAGAATATCTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960667 31 -   4237731 ATAACTATCCCCAAATAAGTAAGAGTATCTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230849 31 -   1175262 ATGACTATCCCCAAATCAGTGAGAATATCTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564785 31 - 204313951 ATGACTATCCCCAAATAAGTAAGAGTATCTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619799 31 -  71252344 ATGACTATCCCCAAATAAGTGAGAATATCTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311898 31 -   1400280 ATGACTATCCCCAAATAAGTGAGAATATCTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107815 31 -  42888418 ATGACTATCCCCAAATAAGTTAGAATATCTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60471465 31 + 108143057 ATGACTATCCCCAAATAAATGAGAATACCTA
i micMur3.chr12            I 18 I 125
s proCoq1.NW_012155062v1     3508575 31 +  11683526 ATGACTATCCCCAAATAAATGAGAATACCTA
i proCoq1.NW_012155062v1   I 159 C 0
s otoGar3.GL873679           2992312 31 +   4132165 ATGATTATCCCCAAATAAGTGAGAAAATCTA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55456766 28 +  90702639 ---AATACTGTCAAAATAGGGCAAGTGTCCA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14855294 31 +  74389097 ATGACTATCCCCAAATAAATGAGATTATCTA
i canFam3.chr11            C 0 I 4
s dasNov3.JH567306           2547969 20 +   3667625 ----TTATTCTC-----ATTTAGATTATC--
i dasNov3.JH567306         C 0 C 0

a score=575616.000000
s hg38.chr5_KI270796v1_alt      6030 43 +    172708 GTCAATAGACATTTGcagtaa--tctcaacctggctgcacataag
s panTro5.chr5             125116116 43 + 181907262 GTCAATAGACATTTGcagtaa--tctcaacctggctgcacataag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126453097 43 + 183735486 GTCAATAGACATTTGcagtaa--tctcaacctggctgcacataag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644796 43 +   8933513 GTCAATAGACATTTGCATTAA--tctcaacctggctgcacataag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775806 43 + 163208435 GTCAATAGACATTTGcagtaa--tctcaacctggctgcacataag
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122761141 43 + 180051392 GTCAATAGACATTTGcagtaa--tcttaacttggctgcacataag
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124184668 43 + 181584905 GTCAATAGACATTTGCAGTAA--tcttaacttggctgcacataag
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182668 43 +  18395747 GTCAATAGACATTTGcagtaa--tcttaacttggctgcacataag
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5186699 43 +  26952557 GTCAATAGACATTTGcagtaa--tctcaacctggctgcacataag
i cerAty1.NW_012002512v1   C 0 I 2089
s chlSab2.chr23             28296588 43 +  82825804 GTCAATAGACATTTGCAGTAA--tctcaacttggctgcacataag
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960698 43 -   4237731 GTCAATAGACATTTGcagtaa--tcttaacttggctgcacataag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230880 43 -   1175262 GTCAATAGACATTTGcagtaa--tctcaacttggctgcacataag
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564816 43 - 204313951 GTCAATAGACATTTGcagtaa--tctcaacctgactgcacataag
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619830 43 -  71252344 GTCAATAGACATTTGcagtaa--tctcaacctgactgcacataag
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311929 43 -   1400280 GTCAATAGACATTTGcagtaa--tctcaacctgtctgcacataag
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107846 43 -  42888418 GTCAATAGACATTTGcagtaa--tctcaacctgactgcacataag
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3508606 44 +  11683526 GTCAACAGACACTTGTAAGAg-ttttcaatctggctacatataag
i proCoq1.NW_012155062v1   C 0 I 2
s otoGar3.GL873679           2992343 44 +   4132165 GTCAACAGACAATTGcaatgg-ttttctctctggctgcacacaag
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55456794 42 +  90702639 GTCAGTGGGAAGTT-CAATAG--TCTCCATGtggctgcacataga
i mm10.chr18               C 0 C 0
s canFam3.chr11             14855329 45 +  74389097 ATCGAGAGATTATCTGAGTCAgttctcaggacggttgcacataag
i canFam3.chr11            I 4 C 0
s dasNov3.JH567306           2547989 31 +   3667625 ----GTGgtcgttttca------tcttca----gctttgcataag
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60471496 125 + 108143057 I

a score=1138713.000000
s hg38.chr5_KI270796v1_alt      6073 79 +    172708 aaatatatggggaacttttacagaatgtattgcctgggttccattcaaaccagttaaatttagac-cctgggagca-gata-----
s panTro5.chr5             125116159 79 + 181907262 aaatatatggggaacttttacagaatgtattgcctgggttccattcaaaccaattaaatttagac-cctggaagca-gata-----
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126453140 79 + 183735486 aaatatatggggaacttttacagaatgtattgcctgggttccattcaaaccaattaaatttagac-cctggaagca-gata-----
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644839 79 +   8933513 aaatatatggggaacttttacagaatgtattgcctgggttccattcaaaccaattaaatttagac-cctggaagca-ggca-----
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775849 79 + 163208435 aaatatatggggaacttttacagaatgtattgcctgggttccattcaaaccagttaaatttagac-cctggaagca-ggca-----
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122761184 80 + 180051392 aaatatatgggaaacttttacagaatgtattgcctgggttccattcaaaccaattaaatttagac-cctggaagcagggca-----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124184711 80 + 181584905 aaatatatgggaaacttttacagaatgtattgcctgggttccattcaaaccaattaaatttagac-cctggaagcagggca-----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182711 80 +  18395747 aaatatatgggaaacttttacagaatgtattgcctgggttccattcaaaccaattaaatttagac-cctggaagcagggca-----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5188831 80 +  26952557 aaATATAtgggaaacttttacagaatgtattgcctgggttccattcaaacgaattaaatttagat-cctggaagcagggca-----
i cerAty1.NW_012002512v1   I 2089 C 0
s chlSab2.chr23             28296631 80 +  82825804 aaatatatgggaaacttttacagaatgtattgcctgggttccattcaaaccaattaaatttagac-cctggaagcagggca-----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960741 80 -   4237731 aaatatatgggaaacttttacagaatgtattgcctgggttccattcaaaccaattaaatttagac-cctggaagcagggca-----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      230923 80 -   1175262 aaatatatggggaacttttacagaatgtattgcctgggttccattcaaaccaattacatttagac-tctggaagcagggca-----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564859 80 - 204313951 aaatagatggggaacttttacaaaatgtattacctgagttctattcaaaccaattaaatgtagac-cctggaagcagggca-----
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619873 80 -  71252344 aaatatatggggaacttttacagaatgtattgcctgagttctattcaaaccaattaaatgtagac-cctggaagcagggca-----
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1311972 80 -   1400280 aaatatatggggaacttttacagaatgtattgcctgagttctattcaaaccaattaaatgtagac-cctggaagcagggca-----
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107889 80 -  42888418 aaatatatggggaacttttacagaatgtattgcctgagttctattcaaaccaattaaatgtagac-cctggaagcagggca-----
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3508652 79 +  11683526 aaatgtgtggaaatctttcacagattatatcacctgggtcccattcagaccaattaaatctaaac-cctgcaagtagggt------
i proCoq1.NW_012155062v1   I 2 I 1
s otoGar3.GL873679           2992387 79 +   4132165 aaatgtgtggagatcttttacagaatatattcccaggatcccctttagaccaataaaatccaaac-cctgcaagcagggt------
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55456836 79 +  90702639 aattttatgagtagtttttgcagaagaaattatctgggtcccatttgggc-aattacattgaaac-cctgaaaacagggca-----
i mm10.chr18               C 0 C 0
s canFam3.chr11             14855374 81 +  74389097 aaatatctgacaaacttttacagaatctattgcccagggcccattcagaccaatcaagtaaaaatgactaagaacagggca-----
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2548020 85 +   3667625 aaatatttggaaagcctctgcaaaatctattgccttggtcccactcagaccaattaaatcaaact-cctgggagcagagctggtca
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60471496 125 + 108143057 I

a score=6002126.000000
s hg38.chr5_KI270796v1_alt      6152 410 +    172708 tatatattttgtaaaatctcccacatgtgattctaatgtacagcaaagattgtgaactactgCAGCAGTCAACATGAGTCAGCTTATTGGACACAGATATTTTTTAAATGACCATTT-AAGGAGTAAATCAGACAACATATTTCCTGGAACAATATGGAATATTAATAAA----TGC----ATGAATTCATGAAGTAAAATGTCCTATCAGTGCGGACAAAGCTTACCTTTTAGAAAATATAAACATAATGATTTTTGGCCCTAAACTT-----------------TATTTGACTCT-TA-TATACATACTGGTTTATCTAAAAGATAATAACTCATCGATCTTTGAAATATGATAGAGATTCTAGTCTTTGGGAAA-TTTTTCCATTTCTCCTAATAATTTAGTTATATACATTATTTTTAGTCAATAAGTCAGTAGG
s panTro5.chr5             125116238 410 + 181907262 tatatattttgtaaaatctcccacatgtgattctaatgtacagcaaagattgtgaactactgCAACAGTCAACATGAGTCAGCTTATTGGACACAGATATTTTTTAAATGACCATTT-AAGGAGTAAATCAGACAACATATTTCCTGGAACAATATGGAATATTAATAAA----TGC----ATGAATTCATGAAGTAAAATGTCCTATCAGTGCGGACAAAGCTTACCTTTTAGAAAATATAAACATAATGATTTTTGGCCCTAAATTT-----------------TATTTGACTCT-TA-TATACATACTGGTTTATCTAAAAGATAATAACTCATCGATCTTTGAAATGTGATAGAGATTCTAGTCTTTGGGAAA-TTTTTCCATTTCTCCTAATAATTTACTTATATACATTATTTTTAGTCAATAAGTCAGTAGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126453219 410 + 183735486 tatatattttgtaaaatctcccacatgtgattctaatgtacagcaaagattgtgaactactgCAACAGTCAACATGAGTCAGCTTATTGGACACAGATATTTTTTAAATGACCATTT-AAGGAGTAAATCAGACAACATATTTCCTGGAACAATATGGAATATTAATAAA----TGC----ATGAATTCATGAAGTAAAATGTCCTATCAGTGCGGACAAAGCTTACCTTTTAGAAAATATAAACATAATGATTTTTGGCCCTAAACTT-----------------TATTTGACTCT-TA-TATACATACTGGTTTATCTAAAAGATAATAACTCATCGATCTTTGAAATATGATAGAGATTCTAGTCTTTGGGAAA-TTTTTCCATTTCTCCTAATAATTTACTTATATACATTATTTTTAGTCAATAAGTCAGTAGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1644918 410 +   8933513 tatatattttgtaaaatctcccacatgtgattctaatgtacagcaaagattgtgaactactgCAACAGTCAACATGAGTCAGCTTATTGGACACAGATATTTTTTAAATGACCGTTT-AAGGAGTAAATCAGACAACATATTTCCTGGAACAATATGGAATATTAATAAA----TGC----ATGAATTCATGAAGTAAAATGTCCTATCAGTGCAGACAAAGCTTACCTTTTAGAAAATATAAACATAATGATTTTTGGCCCTAAACTT-----------------TATTTGACTCT-TA-TATACATACTGGTTTATCTAAAAGATAATAACTCATCGATCTTTGAAATATGATAGAGATTCTAGTCTTTGGGAAA-TTTTTCCATTTCTCCTAATAATTTAGTTATATACATTATTTTTAGTCAATAAGTCAGTAGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139775928 408 + 163208435 tatatgttttgtaaagtctcccacatgtgattctaatgtacagcaaagattgtgaactactgCAACAGTCAACATGAGTCAGCTTATTGGACACAGATATCTTTTAAATGACCATTT-AAGGAGTAAATCAGACAACGTATTTCCTGGAACAATATGGAATATTAATAAA----TGC----ATGAATTCATGAAGTAAAATGTCCTGTCAGTGTAGACAAAGCTTACCTTTTAGAAAATATAAACATAATGATTTTTGGCCCTAAACTT-----------------TATTTGACTC---A-TATACATACTGGTTGATCTAAAAGATAATAACTCGTCAATCTTTGAAATATGATAGAGATGCTAGTCTTTGGGAAA-TTGTTCCGTTTCTCCTAATAATTTAGTTATATACATTATTTTTAGTCAATAAGTCAGTAGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122761264 408 + 180051392 tatatattctgtaaaatctcccacatgtgattctaatgtacagcaaagattgtgaactactgCAATAGTCAACATGAGTCAGCTTATTGGACACAGATATTTTTTAAATGACCATTT-AAGGAGGAAATCAGAC--CATATTTCCTGGAACAATATGGAATATTAATAAA----TGC----ATGAATTCATGAAGTAAAATGGCCTGTCAGTGCAGACAAAGCTTACCTTTTAGAAAATATAAATATAATGATTTTTGACCCTAAACTT-----------------TATTTGACTCC-TA-AATACATATTGGTTGATCTAAAAGATAATAACTTATCAATCTTTGAAATATGATAGAGATGCTAGTCTTTGGGAAA-TTGTTCCAGTTCTCCTAATAACTTAGTTATATACATTATTTTTAGTCAATAAGTCAGTAGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124184791 408 + 181584905 tatatattctgtaaaatctcccacatgtgattctaatgtacagcaaagattgtgaactactgCAATAGTCAACATGAGTCAGCTTATTGGACACAGATATTTTTTAAATGACCATTT-AAGGAGGAAATCAGAC--CATATTTCCTGGAACAATATGGAATATTAATAAA----TGC----ATGAATTCATGAAGTAAAATGGCCTGTCAGTGCAGACAAAGCTTACCTTTTAGAAAATATAAATATAATGATTTTTGACCCTAAACTT-----------------TATTTGACTCC-TA-AATACATATTGGTTGATCTAAAAGATAATAACTTATCAATCTTTGAAATATGATAGAGATGCTAGTCTTTGGGAAA-TTGTTCCAGTTCTCCTAATAACTTAGTTATATACATTATTTTTAGTCAATAAGTCAGTAGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16182791 408 +  18395747 tatatattttgtaaaatctcccacatgtgattctaatgtacagcaaagattgtgaactactgCAATAGTCAACATGAGTCAGCTTATTGGACACAGATATTTTTTAAATGACCATTT-AAGGAGGAAATCAGAC--CATATTTCCTGGAACAATATGGAATATTAATAAA----TGC----ATGAATTCATGAAGTAAAATGGCCTGTCAGTGCAGACAAAGCTTACCTTTTAGAAAATATAAATATAATGATTTTTGACCCTAAACTT-----------------TATTTGACTCC-TA-AATACATATTGGTTGATCTAAAAGATAATAACTTATCAATCTTTGAAATATGATAGAGATGCTAGTCTTTGGGAAA-TTGTTCCAGTTCTCCTAATAACTTAGTTATATACATTATTTTTAGTCAATAAGTCAGTAGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5188911 404 +  26952557 tatatattttgtaaaatctcccacatgtgattctaatgtacagcaaagattgtgaactactgCAATAGTCAACATGAGTCAGCTTATTGGACACAGATATTTTTTAAATGACCATTT-AAGGAGGAAATCAGAC--CATATTTCCTGGAGCAATATGGAATATTAATAAA----TGC----GTGAATTCATGAAGTAAAATGTCCTGTCAGGACAGACAAAGCTTACCTTTTAGAAAATATAAATATAATGATTTTTGACCCTAAAC---------------------TTTGACTCC-TA-AATACATATTGGTTGATCTAAAAGATAATAACTTATCAATCTTTGAAATATGATAGAGATGCTGGTCTTTGGGAAA-TTGTTCCAGTTCTCCTAATAACTTAGTTATATACATTATTTTTAGTCAATAAGTCAGTAGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28296711 408 +  82825804 tatatattttgtaaaatctcccacttgtgattctaatgtacagcaaagattgtgaactactgCAATAGTCAACATGAGTCAGCTTATTGGACACAGATATTTTTTAAATGACCATTT-AAGGAGGAAATCAGAC--CATATTTCCTGGAACAATATGGAATATTAATAAA----TGC----ATGAATTCATGAAGTAAAATGTCCTGTCAGTGAAGACAAAGTTTACCTTTTAGAAAATATAAATATAATGATTTTTGACCCTAAACTT-----------------TATTTGACTCC-TA-AATGCATATTGGTTGATCTAAAAGATAATAACTTATCAATCTTTGAAATATGATAGAGATGCTAGTCTTTGGGAAG-TTGTTCCAGTTCTCCTAATAACTTAGTTATATACATTATTTTTAGTCAATAAGTCAGTAGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3960821 408 -   4237731 tatatattttgtaaaatctcccacatatgattctaatgtacagcaaagattgtgaactactgCAATAGTCAACATGAGTCAGCTTATTGGACACAGATATTTTTTAAATGACCATTT-AAGGAGGAAATCAGAC--CATATTTCCTGGAACAATATGGAATATTAATAAA----TGC----ATGAATTCATGAAGTAAAATGGCCTGTCAGTGCAGACAAAGCTTACCTTTTAGAAAATATAAATATAATGATTTTTGACCCTAAACTT-----------------TATTTGACTCT-TA-AATACATATTGGTTGATCTAAAAGATAATAACTTATCAATCTTTGAAATATGATAGAGATGCTAGTCTTTGGAAAA-TTGTTCCAGTTCTCCTAATAACTTAGTTATATACATTATTTTTAGTCAATAAGTCAGTAGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      231003 410 -   1175262 tatatattttgtaaaatctcccacatgtgattctaatgtacagcaaagattgtgaactcctgTAATAGTCAACATGAGTCAGTTTATTGGACACAGATATTTTTTAAATGACCATTT-AAGGAGGAAATCAGATAACATATTTCCTGGAACAATATGGAATATTAATAAA----TGC----ATGAATTCATGAAGTAAAATGTCCTGTCAGTGCAGACAAAGCTTACCTTTTAGAAAATATAAACATAATGATTTTTGGCCTTAAACTT-----------------TATTTGACTCC-TA-AGTGCATATTGGTTGATCTAAAAGATAATAACTTATCAATCTTTGAAATATGATAGAGATGCTAGTCTTTGGGAAA-TTGTTCCAGTTCTCCTAATAACTTAGTTATATACATTATTTTTAGTCAATAAGTCAGTAGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123564939 409 - 204313951 tatgtgttctgtaaaatctcccacatgtgattctaatgtacagcaaagattgTCAACTAGTTCAACAGTCAACATGAGTCAGTTTATTGGGTCCAGATATTTTTAAAATGACCATTTCAAGGAGTAAATCAGATAAAATATTTCCTGGAACAATATGGAATATTAATAAA----TTC----ATGAATTCATGAAGTAAAATGTCCTGTCAGTGCAGACAAAGCTTCTGTTTTAGAAAATATAAACATAATGATTTTTGGCCCTGAACTT-----------------TATTTGACTC---A-TATGTACCCTGATTGGTCTAAAAGACAGTAATTCATCAATCTTTGAAATATGATAGAGAAGCTGGCCTTTGGGAAA-TTGTTCCCTTTCTTCATATAATTTAGTTACATACATTATTGTTAGTCACTAAGTCAGTAGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55619953 409 -  71252344 tatgtgttttgtaaaatctcccacatgtgattctaatgtgcagcaaagattatcaactactTCAAAAGTCAACACGAGTCAGCTTATTGGGTACAGATATTTTTTAAATGACCATTTCAAGGAGTAAATCAGACAAAACATTTCCTGGAACAATATGGAATATTAATAAA----TTC----ATGAATTCATAAAGTAAAATGTCCTGTCAGTGCAGACAAAGCTTCTGTTTTAGAAAATATAAACATAATGATTTTTGGCCCTAAACTT-----------------TATTTGACTC---A-TATATACATTGGTTGATCTAAAAGACAATAACTCATCAATCTTTGAAATATGATAGAGATGCTGGCCTTTGGGAAA-TTGTTCCATTTCTTCAAATAATTTAGTTACATACATTATTTTTAGTCAATAAGTCAGTAGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1312052 409 -   1400280 tatgtgttctgtaaaatctcccacatgtgattctaatgtacagcaaagattgtcaactactTCAATAATCAACACGAGTCAGCTTATTGGGTACAGATATTTTTTAAATGACCATTTCAAGGAGTAAATCAGACAAAATATTTCCTGGAACAATATGGAATattaataaa----tta----atgaattcatgaagtaaAATGTCCTGTCAGTGCAGATAAATCTTCTGTTTTAGAAAATATAAACATAATGATTTTTGGCCCTAAACTT-----------------TATTTGACTC---A-TATGTACATTGGTTGATCTAAAAGACAATAACTCATCAATCTTTGAAATATGATAGAGATGCTGGCCTTTGGGAAA-TTGTTCCATTTATTCAAATAATTTAGTTACACACATTATTTTTAGTCAATCAGTCAGTAGT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13107969 409 -  42888418 tatgtgttctgtaaaatatcccacatgtgattctgatgtacagcaaagattgtcaactactTCAACAGTCAACATGAGTCAGCTTATTGGGTATAGATATTTTTTAAATGGCCATTTCAAGGAGTAAATCAGACAAAATATTTCCTGGAACAATATGGAATGTTAATAAA----TTC----ATGAATTCATGAAGTATAATGTCCTGTCAGTGCAGACAGAGCTTCTGTTTTAGAAAATATAAACATAATGATTTTTGGCCCTAAACTT-----------------TATTTGACCC---A-TATGTACATTGGTTGAACTAAAAGACAATAACTCATCAATCTTTGAAATATGATAGAGATGCTGGCCTTTGGGAAA-TTGTTCCATTTCTTCAAATAATTTAGTTACATACATTATTTTTAGTCAATCAGTCAGTAGG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60471621 395 + 108143057 tatgtattttataaaatcttccacatgtgattctaatgtatacctaagattatgcactac---AATAGCCAATATGAGTCAGCTTATTGGACCCAG--ATTTTTTAAATGACACTTTCAAGAAGTAAATCAGACAAAATATTTCCTGAAACAACATAAAATATTAAGAAA----TAC----ACAAATTCACAAAGTAAACTGTC--------ACAGATAAAGCTTACCTTTCAGAAACTATAAATATAATGATTTTTGGCCCCAAAGTT-----------------TATTTGA-TC---A-TATACACATTGGTTGATCTAAAAGACAATAACTCATCAATCTTTTAAGTACGATAGAGATTCTGGTCTTTTGGAAA-TTGCTCCATTTCCCATAATAATCTGGTTATATATATTCTTGTAAATCAAGAAGTTAGCAGG
i micMur3.chr12            I 125 C 0
s proCoq1.NW_012155062v1     3508732 396 +  11683526 tatgtattttataaaatcttccacatgtgattctaatgtatagctaagattgtgcactact--ATTAGCCAATATGAGTCAGCTTATTGGACCCAG--ATTTTTTAAATGACACTTTGAAGAAGTAAATCAGACACAATATTTCCTGAAACAGCATAGAATATTAATGAA----TAC----ATAAATTTACAAAGTAAACTATC--------ACAGATAAAGATTACCTTTCAGAAAATATAAATATAATGATTTTTGGCCCCAAACTT-----------------TATTTGT-TC---A-TATACACATTGGTTGTTCTAAAAGACAAAGACTCATCAATCTTTTAAGTATGTTAGAGATGCTGGTCTTTTGGAAA-TTGCTCCATTTCCCATAATAATCTGGTTATATAGATTCTTGTGAATCAAGAAGCCAGCAGG
i proCoq1.NW_012155062v1   I 1 C 0
s otoGar3.GL873679           2992467 380 +   4132165 tatgtattttataaaatctt-cacatatgattctaatgtagagttaagactatgaactaT---------CAATATGAGTCAGCTTATTAGACCCAG--ATTTTTTAAATGACACTTTCAAGGAGTAAATCAGACAAAAAATGTCCTGAAACAATGTAGAATATTAACAAA----TACGTAAATGAATTCAAAAAGTAAA-TGT------------GACAAAGCTT-------AGAAAACACGAACACGATGATTTTGGGACTCAAACTT-----------------TATTTGACTC---A-TGTACGCATTGGTTGGTC-AAAAACTAATTGTTCATCAATGTTTTAAGTATAATAGAGATGCTGGTCTTTTAGAAA-TTGCTCCATTTCCCTTAACAATCTGGTTCTATATATTCTCCCAAACCAAGAATCCAGCAGG
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55456915 403 +  90702639 tacataacttttaaaatctgcaacatgtgactctaatatatagctaagactacgaaccactgTAACAGTCGCTAGGAATCAGTGCACTCCATAC---------TTTAGTG--CATTTTACAGAGTAAATTGAATACAATACATCTTGGAACAATATGGGATACTAATAAATAATTAC----ATCAGCTCATGAGGCAAAATGTTCTGTAATCACAGACAAA-TTTCGACTTTATAAAATATAAACA--ATGAATTTTGGCTTCAAGTTT-----------------TAATTGACTCT-TACCATATACAGTATTTGATCAGAAAGGCAATAATTTCTTGATCTTTTGAAGACAAAAAGGATTCATATCTTTGGAACGTTTGTTGGATTTGCTTCAATTATCTGGTGACACAGATTCTTGTAAATCAAAGAGTCATCAGg
i mm10.chr18               C 0 I 225
s canFam3.chr11             14855455 395 +  74389097 taggtattatataaaagctcacacatgtaattctaatgtacagctgagattatgaacTCCTATAATAACCAATATGAGTCAGTTTATTGGACACAG--GCTCTAAAAACAATCATTTCAAGGAGTGAATCAAAG----TATTTCCTGGAACAACACAG-ATATTAATAAATAAATAC----ATGAATTCAAGAAGCAAATTGTACTGTCAGCACAGACAAATCTTAACTTTTAGAAAATATAAAC---ATGATTTTTGGTCCCTAAC---------------------TCTGACTTT-TA-CATATATATTGGTTGATCTAAAAGAT------TCGAGAACCCTTTAACTATGCCAGATATGCTTCCTGTTTGGAAA-TGGTTGCATTTCCTTTAATAATCTGGTAACATACACTCTGCTGAATTAAGAGGTCAGTAGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2548105 417 +   3667625 tatgttttacgtaaaagc-cccacatgagactgtaatgcacatctaagattgtgaactaT---AAGACTCAATATAAAACAGCTTATTGGACACAG--ATTTTTTAAATGACCATTTTAAGGAGGGAACCAGATGAAATATTTCCTGAAAATACACGGGATATTGATAAATAAATAC----ATGAATGCATGAAGTAAAAGGGCCTGTCAGCACAGACAAATCTTGCCATTTAGAAAATATAA----------TGTCCCCCCCAAACTTTTATTCATATATATACCTATTATATTTTATA-TGTCTATATTGGTTGATCTAAAAGACAATAGCTCATTAACCCTGTAGTTATGATAGAAATGTTTCTCTTTTGGAAG-TCATTTTATTTCACTTATTAATCTGGTTACATATATTCTTCTCAGTCATGAAGTCAGAAGA
i dasNov3.JH567306         C 0 C 0

a score=12533660.000000
s hg38.chr5_KI270796v1_alt      6562 668 +    172708 GTTGTGAATGGGGTGCTAATATCACAGACCTGC-AAAGAGCGTTGATCAGGAAAATCACCTGGATTTACTTGATTGATAATGAATTGATCTCATTACCTTTCCACACTCTTGCTCT---TAATAAAATTTCACACATATTCACACAAGTATAAAATAATAAGAGCAGAGGACAAAGCCCATGAGTAAGATAAAATGCATAACAGAAGTAATCACTGTGTATTACTACTGCAAAAATCAATAAAGCAAATATGTTATTCTTTTTAAGTGTCATATTACAATAATGTTTTTCTGAAGACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGATTTAATGAATTATTTACAGGCATGCAATATGGCAACAATGTCATTATGAACTCTC-TTCTAAGGTCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCACG-AAATTGTAAAGCTATTCAGAGAAATGAGATTTTACCATCGGACTTACTAATGCACACAAACCCAGTAAGAAAGCCCCGGTGACAAGAATGGC-AAAACATTTATTCGGCATTAACAATGTGTAATGTGGAGTTTGAGTAAAGAAAGAACCATTAGAATTACATAAAGCTGAAAGCAGCGTTGAAAATGGGC-------
s panTro5.chr5             125116648 668 + 181907262 GTTGTGAATGGGGTGCTAATATCACAGACCTGC-AAAGAGCGTTGATCAGGAAAATCACCTGGATTTACTTGATTGATAATGAATTGATCTCATTACCTTTCCACACTCTTGCTCT---TAATAAAATTTCACACATATTCACACAAGTATAAAATAATAAGAGCAGAGGACAAAGCCCATGAGTAAGATAAAATGTATAACAGAAGTAATCACTGTGTATTACTACTGCAAAAATCAATAAAGCAAATATGTTGTTCTTTTTAAGTGTCATATTACAATAATGTTTTTCTGAAGACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGATTTAATGAATTATTTACAGGCATGCAATATGGCAACAATGTCATTATGAACTCTC-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCACG-AAATTGTAAAGCTATTCAGAGAAATGAGATTTTACCATCGGACTTACTAATGCACACAAACCCAGTAAGAAAGCCCCGGTGACAAGAATGGC-AAAACATTTATTCGGCATTAACAATGTGTAATGTGGAGTTTGAGTAAAGAAAGAACCATTAGAATTACATAAAGCTGAAAGCAGCGTTGAAAATGGGC-------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126453629 668 + 183735486 GTTGTGAATGGGGTGCTAATATCACAGACCTGC-AAAGAGCGTTGATCAGGAAAATCACCTGGATTTACTTGATTGATAATGAATTGATCTCATTACCTTTCCACACTCTTGCTCT---TAATAAAATTTCACACATATTCACACAAGTATAAAATAATAAGAGCAGAGGACAAAGCCCATGAGTAAGATAAAATGGATAACAGAAGTAATCACTGTGTATTACTACTGCAAAAATCAATAAAGCAAATATGTTGTTCTTTTTAAGTGTCATATTACAATAATGTTTTTCTGAAGACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGATTTAATGAATTATTTACAGGCATGCAATATGGCAACAATGTCATTATGAACTCTT-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCACG-AAATTGTAAAGCTATTCAGAGAAATGAGATTTTACCATCGGACTTACTAATGCACACAAACCCAGTAAGAAAGCCCCGGTGACAAGAATGGC-AAAACATTTATTCGGCATTAACAATGTGTAATGTGGAGTTTGAGTAAAGAAAGAACCATTAGAATTACATAAAGCTGAAAGCAGCGTTGAAAATGGGC-------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1645328 668 +   8933513 GTTGTGAATGGGGTGCTAATATCACAGACCTGC-AAAGAGCGTTGATCAGGAAAATCACCTGGATTTACTTGATTGATAATGAATTGATCTCATTACCTTTCCACACTCTTGCTCT---TAATAAAATTTCACACATATTCACACAAGTATAAAATAATAAGAGCAGAGGACAAAGCCCATGAGTAAGATAAAATGGATAACAGAAGTAATCACTGTGTATTACTACTTCAAAAATCAATAAAGCAAATATGTTATTCTTTTTAAGTGTCATATTACAATAATGTTTTTCTGAAGACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGATTTAATGAATTATTTACAGGCATGCAATATGGCAACAGTGTCATTATGAACTCTC-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCACG-AAACTGTAAAGCCATTCAGAGAAATGAGATTTTACCATTGGACTTACTAATGCACACAAACCCAGTAAGAAAGCCCCGGTGACAAGAATGGC-AAAACATTTATTCGGCATTAACAATGTGTAATGTGGAGTTTGAGTAAAGAAAGAACCATTAGAATTACATAAAGCTGAAAGCAGCGTTGAAAATAGGC-------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139776336 667 + 163208435 G-TGTGAATGTGGTGCTAATATCACAGACCTGC-AAATAGCGTTGATCAGGAAAATCACCTGGATTTACTTGATTGATAATGAATTGATCTCATTACCTTTCCACACTCTTGCTCT---TAATAAAATTTCACACATATTCACACAAGTATGAAATAATAAGAGCAGAAGACAAAGCCCATGAGTAAGATAAAATGGATAACAGAAGTAATCACTGTGTATTACTACTGCAAAAATCAATAAGGCAAATATGTTATTCTTTTTAAGTGTCATATTACAATAATGTTTTTCTGAAGACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGATTTAATGAATTATTTACAGGCATGCAATATGGCAACAGTGTCATTATGAACTCTC-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCACG-AAATTGTAAAGCTATTCAGAGAAATGAGATTTTACCATTGGACTTACTAATGCACAAAAACCCAGTAAGAAAGCCCTGGTGACAAGAATGGC-AAAACATTTATTTCGCATTAACAATGTGTAACGTGGAGTTTGAGTAAAGAAAGAACCATTAGAATTACATAAAGCTGAAAGCAGCATTGAAAATAGGC-------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122761672 671 + 180051392 GTTGTGAATGTGGTGCTAATATCACAGACCTGC-AAATAGCATTGATCAGGAAAGTCACCTGGATTTACTTGATTGATAATGAATTGATCTCATTACCTTTCCACACTCTTGCTCTTAATAATAAAATTTCACACATATTCACACAAGTATAAAATAGTAAGAGCAGAGGACAAAGCCCATGAGTAAGATAAAATGGATAACAGAAGTAATCACTGTGTATTAGTACTGCAAAAATCAATAAAGCAAATATGTTATTCTTTTTAAGTGTCATATTACAATAATGTTTTTCCGAAGACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTAGTTGACTTAATGAATTATTTACAGGCATGCAATATGGCAACAGTGTCATTATGAACTCTC-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCACG-AAATTGTAAAGCTATTCAGAGAAATGAGATTTTACCATTGGACTTACTAATGCACACAAACCCAGTAAGAAAGCCCTGGTGACAAGAATGGC-AAAACATTTATTTGGCATTAACAATGTGTAATGTGGAGTTCTAGTAAAGAAAGAACCATTAGAATTACATAAAGCTGAAAGCAGTGTTGAAAATAGGC-------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124185199 671 + 181584905 GTTGTGAATGTGGTGCTAATATCACAGACCTGC-AAATAGCATTGATCAGGAAAGTCACCTGGATTTACTTGATTGATAATGAATTGATCTCATTACCTTTCCACACTCTTGCTCTTAATAATAAAATTTCACACATATTCACACAAGTATAAAATAGTAAGAGCAGAGGACAAAGCCCATGAGTAAGATAAAATGGATAACAGAAGTAATCACTGTGTATTACTACTGCAAAAATCAATAAAGCAAATATGTTATTCTTTTTAAGTGTCATATTACAATAATGTTTTTCCGAAGACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTAGTTGACTTAATGAATTATTTACAGGCATGCAATATGGCAACAGTGTCATTATGAACTCTC-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCACG-AAATTGTAAAGCTATTCAGAGAAATGAGATTTTACCATTGGACTTACTAATGCACACAAACCCAGTAAGAAAGCCCTGGTGACAAGAATGGC-AAAACATTTATTTGGCATTAACAATGTGTAATGTGGAGTTCTAGTAAAGAAAGAACCATTAGAATTACATAAAGCTGAAAGCAGTGTTGAAAATAGGC-------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16183199 671 +  18395747 GTTGTGAATGTGGTGCTAATATCACAGACCTGC-AAATAGCATTGATCAGGAAAATCACCTGGATTTACTTGATTGATAATGAATTGATCTCATTACCTTTCCACACTCTTGCTCTTAATAATAAAATTTCACACATATTCACACAAGTATAAAATAGTAAGAGCAGAGGACAAAGCCCATGAGTAAGATAAAATGGATAACAGAAGTAATCACTGTGTATTACTACTGCAAAAATCAATAAAGCAAATATGTTATTCTTTTTAAGTGTCATATTACAATAATGTTTTTCCGAAGACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTAGTTGACTTAATGAATTATTTACAGGCATGCAATATGGCAACAGTGTCATTATGAACTCTC-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCACG-AAATTGTAAAGCTATTCAGAGAAATGAGATTTTACCATTGGACTTACTAATGCACACAAACCCAGTAAGAAAGCCCTGGTGACAAGAATGGC-AAAACATTTATTTGGCATTAACAATGTGTAATGTGGAGTTCTAGTAAAGAAAGAACCATTAGAATTACATAAAGCTGAAAGCAGTGTTGAAAATAGGC-------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5189315 670 +  26952557 GTTGTAAATGTGGTGC-AATATCACAGACCTGC-AAATAGCTTTGATCAGGAAAATCACCTGGATTTACTTGATTGATAATGAATTGATCTCATTACCTTTCCACACTCTTGCTCTTAATAATAAAATTTCACACATATTCACACAAGTATAAAATAGTAAGAGCAGAGGACAAAGCCCATGAGTAAGATAAAATGGATAACAGAAGTAATCACTGTGTATTACTACTGCAAAAATCAATAAAGCAAATATGTTATTCTTTTTAAGTGTCATATTACAATAATGTTTTTCCGAAGACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGACTTAATGAATTATTTACAAGCATGCAATATGGCAACAGTGTCATTATGAACTCTC-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCACG-AAATTGTAAAGCTATTCAGAGAAATGAGATTTTACCATTGGACTTACTAATGCACACAAACCCAGTAAGAAAGCCCCAGTGACAAGAATGGC-AAAACATTTATTTGGGATTAACAATGTGTAATGTGGAGTTCTAGTAAAGAAAGAACCATTAGAATTACATAAAGCTGAAAGCAGTGTTGAAAATAGGC-------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28297119 671 +  82825804 GTTGTGAATGTGGCGCTAATATCACAGACCTGC-AAATAGCATTGATCAGGAAAATCACCTGGATTTACTTGATTGATAATGAATTGATCTCCTTACCTTTCCACACTCTTGCTCTTAATAATAAAATTTCACACATATTCACACAAGTATAAAATAGTAAGAGCAGAGGACGAAGCCCATGAGTAAGATAAAATGGATAACAGAAGTAATCACTGTGTATTACTACTGCAAAAATCAATAAAGCAAATCTGTTATTCTTTTTAAGTGTCATATTACAATAATGTTTTTCCGAAGACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGACTTAATGAATTATTTACAGGCATGCAATATGGCAACAGTGTCATTATGAACTCTC-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCACG-AAATTGTAAAGCTATTCAGAGAAATGAGATTTTACCATTGGACTTACTAATGCACACAAACCCAGTAAGAAAGCCCCGGTGACAAGAATGGC-AAAACATTTATTTGGCATTAACAATGTGTAATGTGGAGTTCTAGTAAAGAAAGAACCATTAGAATTACATAAAGCTGAAAGCAGTGTTGAAAATAGGC-------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3961229 670 -   4237731 GGTGTGAATGTGGTAC-AATATCACAGACCTGC-AAATAGCATTGATCAGGAAAATCACCTGGATTTACTTGATTGATAATGAATTGATCTCATTACCTTTCCACACTCTTGCTCTTAATAATAAAATTTCACACATATTCACACAAGTATAAAATAGTAAGAGCAGAGGACAAAGCCCATGAGTAAGATAAAATGGGTAACAGAAGTAATCACTGTGTATTACTACTGCAAAAATCAATAAAGCAAATATGTTATTCTTTTTAAGTGTCATATTACAATAATGTTTTTCCGAAGACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGACTTAATGAATTATTTACAGGCATGCAATATGGCAACAGTGTCATTATGAACTCTC-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCACG-AAATTGTAAAGCTATTCAGAGAAATGAGATTTTACCATTGGACTTACTAATGCACACAAACCCAGTAAGAAAGCCCCGGTGACAAGAATGGC-AAAACATTTATTTGGCATTAACAATGTGTAATGTGGAGTTCTAGTAAAGAAAGAACCATTAGAATTACATAAAGCTGGAAGCAGTGTTGAAAACAGGC-------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      231413 671 -   1175262 GTTGTGAATGTGGTGCTAATATCACAGACCTGC-AAATAGCATTGATCAGGAAAATCACCTGGATTTACTTGATTGATAATGAATTGATCTCATTACGTTTCCACACTCTTGCTCTTAATAATAAAATTTCACACATATTCACACAAGTATAAAATAATAAGAGCAGAGGACAAAGCCCATGAGTAAGATAAAATGGATAACAGAAGTAATCACTGTGTATTACTACTGCAAAAATCAATAAAGCAAATATGTTGTTCTTTTTAAGTGTCATATTACAATAATGTTTTTCTGAAGACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGACTTAATGAATTATTTACAGGCGTGCAATATGGCAACAGTGTCATTATGAACTCTC-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGTTAGGTGCACG-AAATTGTAAAGCTATTCAGAGAAATGAGATTTTACCATTGGACTTACTAATGCACACAAACCCAGTAAGAAAGCCCCGGTGTCAAGAATGGC-AAAACATTTATTTGGCATTAACAATGTGTAATGTGGAGTTCTAGTAAAGAAAGAACTATTAGAATTACATAAAGCTGAAAGCAGTGTTGAAAATCGGC-------
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123565348 669 - 204313951 GCTGTGACTATGGTGCTAACATCACAGACCTGC-ACATAGCGTTGATCAGAAAAATCACCTGGATTTACTTCATCGATAATGAATTGATCTCATTACCTTTCCACACTCTTGTTCTTAATAATAAAATTTCACACATATTCACACAAGTATAAAATAATAAGAGCAGCGGACAAAGCCCATGAGTAAGATAAAATGGAAAACAGAAGTAATCACTGTGTATTACTACTGCAAAAATCAATAAAGCAAATATGTTATTCTTTTTAAGTGTCATATTACAATAATGTATTTCTGAAGACTGTTGTCTGCATCCAGTTT-AAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGACTTAATGAATTATTTACAGGCGTGCAATATGGCAACAGTGTCATTATGAAGTCTC-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCACG-AAATTGTAAAGCTATTCCGAGAAATGAGATTTTACCATTGGACTCACTAAGGCACACAAACCCAGTTCGAAAGCCCGGGTGACAAGAATGGC-AAAACATTTATTTGGCATTAACAGTGTGTAATGT-GAGTTCAAGTAAATAAAGAACCATTAGAATTACATAAAGCTGAAAGCAGTGTTGAAAATAGGC-------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55620362 672 -  71252344 GTCATGATTATGGTGCTAACATCACAGACCTGC-AAATAGTGTTGATCAGAAAAATCACCTGGATTTACTTCATCGATAATGAATTGATCTCATTACCTTTCCACACTCTTGTTCTTAATAATAAAATTTCACAAATATTCACACAAGTGTAAAATAATAAGAGCAGCGGACAAAGCCCATGAGTAAGATAAAATGGAAAACAGAAGTAATCACTGTGTATTACTACTGCAAAAATCAATAAAGCAAATATGTTATTCTTTTTAAGTGTCATATTACAATAATGTATTTCTGAAGACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGACTTAATGAATTATTTACAGGCGTGCAATATGGCAACAGTGTCATTATGAACTCTCTTTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCACG-AAATTGTAAAGCTATTCAGAGAAATGAGATTTTACCATTGGACTCACTAATGTACACAAACCCAGTTCGAAGGCCCGGGTGACAAGAATGGC-AAAACATTTATTTGGCATTAACAATGTGTAATGTGGAGTTCAAGTAAATCGAGAACCATTAGAATTACATAAAGCTGAAAGCAGTGTTGAAAATAGGC-------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1312461 671 -   1400280 GTCGTGATTATGGTGCTAACATCACAGACCTGC-AAATAGCGTTGATCAGAAAAATCACCTGGTTTTACTTCTTCGATAATGAA-TGATCTCATTACCTTTCCATACTCTTGTTCTTAATAATAAAATTTCACACATATTCACACAAGTATAAAATAATAAGAGCAGCAGACAAAGCCCATGAGTAAGATAAAATGGAAAACAGAAGTAATCACTGTGTATTACTACTGCAAAAATCAATAAAGCAAACATGTTATTCTTTTTAAGTGTCATATTACAATAATGTATTTCTGAAGACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGACTTAATGAATTATTTACAGGCGTGCAATATGGCAACAGTGTCATTATGAACTCTCTTTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCACG-AAATTGTAAAGCTATTCAGAGAAATGAGATTTTGCCATTGGACTCACTAATGCACACAAACCCAGTTCGAAAGCCCGGGTGACAAGAATGGC-AAAACATTTATTTGGCATTAACAACGTGTAATGCGGAGTTCAAGGAAATCAAGAACCATTAGAATTACATAAAGCTGAAAGCAGTGCTGAAAATAGGC-------
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13108378 671 -  42888418 GTGGTGACTATGGTGCTAACATCACAGACCTGC-AAATAGCATTGATCAGAAAAATCACCTGGATTTACTTCATCGATAATGAATTGATCTCATTAGCTTTCCACATGCTTGTTCTTAATAATAAAATTTCACTCATATTCACACAAGTATAAAATAATAAGAGCAGCAGACAAAGCCCATGAGTAAGATAAAATGGAAAACAGAAGTAATCACTGTGTATTACTACTGTAAAAATCAATAAAACAAATATGTTATTCTTTTTAAGTGTCATATTACAATAATGTATTTCTGAAGACTGTTGTCTGCATCCAGTTTTAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGACTTAATGAATTATTTACAGGCGTGCAATATGGCAACAGTGTCATTATGAACTCTC-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCACG-AAATTGTAAAGCTATTCAGAGAAATAAGATGTTACCATTGGACTCACTAATGCACACAAACCCAGTTCGAAAGCCCGGGTGACAAGAATGGC-AAAACATTTATTTGGCATTAACAATGTGTAATATGGAGTTCAAGTAAATAAAGAACCATTAGAATTACATAAAGCTGAAAGCAGTGTTGAAAATAGGC-------
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60472016 668 + 108143057 GTTCTGACTGTGGTGCTCACATCAGAGACCTGC-AGCTAGCATTGACCACGAAAATCACCTGGATTTACTTGATTGATTATGAATTGATCTCATTACCTTTCCACACTCTTGCTGTTAATAATGAAATTTCACACATATTCACAC-AGCATAAAATAATAAGAGCAGAGGACAAAGCCCATGAGTAAGATAAAATGGATAACAGAGGTAATCACTGTGTATTACTACTGCAAAAATCAATAAAGCAAATATGTTATTCTTTTTAAGTGTTGTATTACAATAATGTTTTTCTGAAGACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGATTTAATGAATTATTTACAGGCATGCAATATGGCAACAGTGTCATTATGAACTCTC-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCATG-AAATTGTGAAGCTATGCGAAGAAATGAGCTTCTA-CATTGGACTTGCTAATGCACACAGACTCAGTAAG-AAGCTATGGTGACGAAAATGACAAAAACATTTATTTGGCATTAACAATGTGTAATGTAGAGTTCAAGT-AAGAAGGAACCATGAGAATTACATAAAGCTGAAAGTGGCCTTGACAATGGGC-------
i micMur3.chr12            C 0 I 7155
s proCoq1.NW_012155062v1     3509128 671 +  11683526 GTTCTGACTGTGGTATTAACGTCACAGACCTGCAAGACAGCGTTGACCGGGAAAATCACCTGGATTTACTTGATTGATTATGAATTGATCTCATTACCTTTCCACACTCTTGCTGTTAATAATGAAATTTCACACATATTCACAC-AGTATAAAATAATAAGAGCAGAGGACAAAGCCCATGAGTAAGATAAAATGGATAACAGAGGTAATCACTGTGTATTACTACTACAAAAATCAATAAAGCAAATACGTTATTCTTTTTAAGTGTTGTATTACAATAATGTTTTTCTGAAGACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGATTTAATGAATTATTTACAGGCATGCAATATGGCAACAGTGTCGTTATGAACTCTC-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCACG-AAATTGTGAAGCTATTCAAAGAAATGAGATTCTA-CACTGGACTTACTAATGCACACAGACCCAGTAAGAAAGCTATGGTGACGAGAATGACAAAAACATTTATTTGGCATTAACAATGTGTAATGTGGAGTTCAAGTAAAGAAGGAACCATGAGAATTACATAAAGCTGAAAGTGGCCTTGACAATAGGC-------
i proCoq1.NW_012155062v1   C 0 I 7
s otoGar3.GL873679           2992847 670 +   4132165 GCTCTGACTGTGGCGCTAACAAGACCGACCTGC-AGATGGCTTTGACCAGGAAAATCACCTGCGTTTCCTTGATTGGTTATAAATTGATCTCATTACCTTTCCACACTCCTGCTGCTAATAATGAAATTTCACACATATTCACACAAGTATAAAATAATAAGAGCAGAGGACAAAGCCCATGAGTAAGATAAAGTGGGTAACAGAGGTAATCACTGTGTATTACTGCTGCAAAAATCAATAAAACAAACACGTTATTCTTTTTAAGTGTTGTATTACAGTAATG-TTTTCTGAAGACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGACTTAATGAATTATGTACAGGCGTGCAATATGGCAACATTGTCATTATGAACTCTC-TTCTAAGATCTCCCCTGGCTACGGCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCAAG-AAATTGTGAAGCTATTCAAAGAAATGAGCCTCTC-CATTGGCCTTCCTAATGCACACAGACCCAGTAAGAAAGCTATGGTGACAAGAATCACGAAAACATTTATTTGGCATTAACAACGTATAATGCGGAGTTCAAGCAAAGAAGGAACCATGAGAATTACATAAAGCTGAAAGCAGCCTTGGAAACAGGC-------
i otoGar3.GL873679         C 0 I 7
s mm10.chr18                55457543 643 +  90702639 GTTCTGACTGTGTTTCTAACATCACAGACCTAA-A---------------GAGAATCACCTGGATTTGCTTCGTTGGTTATGAATTGACGTCATAACTTTTCCACACTATTAATACTAACAATGAAATATCACACATATTCATGTAAGCATAAAACAATAAGTGCAGAGGACAAAGCCCATGAGAGAGATAAAATGAGTAACAAAAGTAATCGCGGTATATTACTGCTGCAAAAATCAATAAAGCAAATCTGTTATTCTTTTTAAGTGTCATATTACAATAATGTTTTCCTGAAGACTGTTGTCTGCATCCAATTTAGAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGACTTAATGAATTATTTACAGGCATGCAATATGGCAACAGTGTCATTATGAACTCTC-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCAAG-AAATTGTGAAGCTATTCGAAGAAATGAGAATCTACCATTAGACTTCTTAATGCACACAGACCCAGTAAGAGAGCCATGGCAACAGGAATGGCAAAAACATTCATTTGGCATTAACAATGTATGATGCAGAGTTCAAGCAGATAAG---CCATAGAAATTACAGAA-----------GCCTTGGAAATAGGC-------
i mm10.chr18               I 225 C 0
s canFam3.chr11             14855850 659 +  74389097 ATTCTGCTTGTGGTGCTAACATCACAGACCGGC-AGATAATGTTGACCAGGAAGATTGCCTGGGTTTACTTGATTGATTATGAATTG--CTCATTACCTTTCCACACTCTTGCTGTTAACAGTGAAATTTCACACATATTCACACAAGTATAAAATAATAAGAGCGAAGGACAAAGCCCATGAGTAAGACAAAATGGATAACAAAAGTAATCACTGTGTATTACCACTGTAAAAATCAATAAAGCAAACATG---TTCTTTTTAAGTGTCATATTACAATAATGTTTTTCTGAAAACTGTTGTCTGCATCCAGTTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGACTTAATGAATTATTTACAGGCATGCAATATGGCAACAGTGTCATTACGAAGTCTC-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTACACGAAAATTGTGAAGCTATTCAAAGAAATGAGATGCTGCCATTGCACTTATGGATGCACACAAACCCAGCAAGAAAGCCATAGTGACAAGAATGGC-AGAA-ACTTATTTGGCATTAA-AATGTGTAATGTAGAGTCCATGGAAAGAAGGAACTATTAGACTCACATATAGCGGAAAGCAGCCGAG------GGC-------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2548522 678 +   3667625 GTTCTAACTGTGATGTTAACATCATAGAACCGT-GTATAGCATTGACCAGGAAAATCACCTGGATTTACTTGTTTGATTATGAATTGATTTCATTAACTTTCCACACACTTGCTGTTAACCATGAAATTTCACATATATTTAGACAAATA-AAAATTATAAGAGCAGAGGACAAAACCCACGAGCAAGATAAAATGGATAACAGAAGTAATCACAGTGTATTATGATTATAAAAATCAATAAAGCAAATATGTTATTCTTTTTAAGTGTCTTATTATAATATTGTTTTTCTGAAAACTGTTGTCTGCATCCAATTTAAAAAGGCATCTGCTTGTGTTTGCTTAAAACAAAAGGGTGGTTGACTTAATGAATTATTTACAGGCATGCAATATGGCAACAGTGCCATTATGAACTCTC-TTCTAAGATCTCCTCTGGCTACTCCTGGCAGGGTGTCAATTTGCTTGTTTTTATGGTAGGTGCACG-AAATTGTGAAGCTATTCAAAGAAATGAGATTCTGCCATTGGACTTACTAATGCACACAAACTCAGTAAGAAAGCCACAGTGACAAGAATGGTGGAAACATTTATTTGGCATTAACAATGTGAAATGTGGAGTTCAAGTGAAGAAGGAGACATTAGAATTACATAAAGCTGAAAGCAGCCTTGAAAATAAGCCTGAGGC
i dasNov3.JH567306         C 0 C 0

a score=1999602.000000
s hg38.chr5_KI270796v1_alt      7230 163 +    172708 TTAA-------AAAAAATCAGGACAGACCTA-TGAGAGGAGCTGAAGAGGAA----------AAAAAAGTACAC--TCTGTGACCTCTTTCTTCTTCCTGCC--ATATATACTACCTA----TCAGTATCTATATGAT-AAGGAATTATTGGGAGTGTTTATGTATTTGCACC-CGGTGATGAAATATAAG
s panTro5.chr5             125117316 163 + 181907262 CTAA-------AAAAAATCAGGACACACCTA-TGAGAGGAGCTGAAGAGGAA----------AAAAAAGTACAC--TCTGTGACCTCTTTCTTCTTCCTGCC--ATATATACTACCTA----TCAGTATCTATATGAT-AAGGAATTATTGGGAGTGTTTATGTATTTGCACC-CAGTGATGAAATATAAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126454297 162 + 183735486 CTAA-------AAAAAATCAGGACACACCTA-TGAGAGGAGCTGAAGAGG-A----------AAAAAAGTACAC--TCTGTGACCTCTTTCTTCTTCCTGCC--ATATATACTACCTA----TCAGTATCTATATGAT-AAGGAATTATTGGGAGTGTTTATGTATTTGCACC-CAGTGATGAAATATAAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1645996 163 +   8933513 CTAA-------AAAAAATCAGGACAGACCTA-TGAGAGGAGCTGAAGAGGAA----------AAAAAAGTACAC--TCTGTGACCTCTTTCTTCTTCCTGCC--GTATATACTACCTA----TCAGTATCTATATGAT-AAGGAATTATTGGGAGTGTTTATGTATTTGCACC-CAGTGATGAAATACAAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139777003 158 + 163208435 CTAA-------AAGAAATCAGGACAGACCTA-TGAAAGGAGCTGAAGAGG-A----------AAGAAAGTACAC--TCTGTGACC----TCTTCTTCCTGCC--GTATATACTACCTA----TCAGTATCTACTTGAT-AAGGAATTATTGGGAGTGTTTATGTATTTGCACC-CAGTGATGAAGCATAAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122762343 163 + 180051392 CTAA-------AAGAAATCAGGACAGCCCTA-TAAGAGGAGCTGAAGAGGAA----------AAAAAAGTACAC--TCTGTGGCCTCTTTCTTCCTCCTGCC--GTATATACTACCTA----TCAGTATCTACTTGAT-AAGGAGTTATTGGGAGTATTTATGTATTTGCACC-CAGTCATGAAGTACAAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124185870 163 + 181584905 CTAA-------AAGAAATCAGGACAGCCCTA-TAAGAGGAGCTGAAGAGGAA----------AAAAAAGTACAC--TCTGTGGCCTCTTTCTTCCTCCTGCC--GTATATACTACCTA----TCAGTATCTACTTGAT-AAGGAGTTATTGGGAGTATTTATGTATTTGCACC-CAGTCATGAAGTACAAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16183870 163 +  18395747 CTAA-------AAGAAATCAGGACAGCCCTA-TAAGAGGAGCTGAAGAGGAA----------AAAAAAGTACAC--TCTGTGGCCTCTTTCTTCCTCCTGCC--GTATATACTACCTA----TCAGTATCTACTTGAT-AAGGAGTTATTGGGAGTATTTATGTATTTGCACC-CAGTCATGAAGTACAAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5189985 163 +  26952557 CTAA-------AAGAAATCAGGACAGCCCTA-TAAGAGGAGCTGAAGAGGAA----------AAAAAAGTACAC--TCTGTGGCCTCTTTCTTCCTCCTGCC--TTATATACTACCTA----TCAGTATCTACTTGAT-AAGGAGTTATTGGGAGTATTTATGTATTTGCACC-CAGTCCTGAAGTACAAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28297790 163 +  82825804 CTAA-------AAGAAATCAGGACAGCCCTA-TAAGAGGAGCTGAAGAGGAA----------AAAAAAGTACAC--TCTGTGGCGTCTTTCTTCCTCCTGCC--GTATATACTACCTA----TCAGTATCTACTTGAT-AAGGAGTTATTGGGAGTATTTATGTATTTGCACC-CAGTCATGAAGTACAAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3961899 163 -   4237731 CTAA-------AAGAAATCAGGACAGCCCTA-TAAGAGGAGCTGAAGAGGAA----------AAAAAAGTACAC--TCTGTGGCCTCTTTCTTCCTCCTGCT--GTATACACTACCTA----TCAGTATCTACTTGAT-AAGGAGTCATTGGGAGTATTTATGTATTTGCACC-CAGTCATGAAGTACAAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      232084 163 -   1175262 CTAA-------AAGAAATCAGAACAGCCCTA-TAAGAGGAGCTGAAGAGGGA----------AAAAAAGTACAC--TCTGTGGCCTCTTTCTTCTTCCTGCC--GTATATACTACCTA----TCAGTATCTACTTGAT-AAGGAATTATTGGGAGTATTTATGTATTTGCACC-CAGTCATGAAGTACAAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123566017 163 - 204313951 CTGA-------AAGAAATCGGGACAGGCCTA-TAAGAGAAGCTGAAGAGAGCA--------AAAAAAATTATAC--TCTGTGACCTCTTGCTTTTTCCTGCC--ATGTATACTACATT----TCAGTATCTACTTG---AAGGAAGTATTGGGAGTGTTTATGTATTTGCATC-CAGTGATGAAATACAAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55621034 164 -  71252344 CTGA-------AAGAAATCAGGACAGGCCTA-TAAGAGGAGCTGCAGAGAGAG--------AAAAAAAGGATAC--TCTGTGACTTCCTG-TTTTTCCTGCC--ATGTATACTACATT----TCAGTATCTACTTGGT-AAGGAAGTATTGGGAGTGTTTATGAATTTGCATC-CAGTGATGAAATACGAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1313132 166 -   1400280 CTGA-------AAGAAATCAGGACAGGCCTA-TAAGAGGAGCTGAAGAGAGAG---------AAAAAAGTATAC--TCTGTGACCTCTTGCTTTTTCCTGCAAGAGGTATACTACATT----TCAGTATCTACTTGGT-AAGGGAGTATTGGGAGTGTTTGTGTATTTGCATC-CAGTGATGAAATACAAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13109049 164 -  42888418 CTGA-------AAGAAATCAGGACAGGCCTA-TAAGAGGAGCTGAGGAGAGAG---------GAAAAAGTATAC--TCTGTGACCTCTTGCTTTTTCCTGCC--ATGTATACTACATT----TCAGCATCTACTTGGT-AAGGAAGTATTGGGAGTGTTTATGTATTTGCATC-CAATGATGAAATACAAT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3509806 165 +  11683526 AGAA-------AAGAAATCAGGACAGGCCTA-TAAGAGGAGCTAAAGAGAAA----------AAGAAAATGTGTAGTCTGTGACCTCTTTCTTCTCCCTGTC--ATGTGTGCTACCTG----CCAGTATCAGCTTGGT-AAGAAAATGTTGGGAGTGTTCATGTTTTTGGACC-ACAGGATAAAATAGAAG
i proCoq1.NW_012155062v1   I 7 C 0
s otoGar3.GL873679           2993524 154 +   4132165 TTAA-------AAGAAATCAGGACAGGCTTC-TATGAGGAAT--------GA----------AAGAAAATACGCAGCCTGTGACCTCTTTCTTCTCCCTGTT--GTGCGCGCTCCCTC----TCAGTAT---CTCAGT-AAGAAAAGGTTGGGGGTGGTAATGTTTCTGCACT-GCAGGGTAAAGCAGAAG
i otoGar3.GL873679         I 7 C 0
s mm10.chr18                55458186 174 +  90702639 -TAAAGATGTGAGGACGTCAAGACAGGGCTG-GAGGAGAAGCTGAGGAGAAAATTCTTTTTCAGCAAGGCCAAC-------GACTCCTTTCTCCTCCCTGGC--ACAGAAGCCACCTG----TCAGTGCCTGCTGAAGAAAGGAGATCCTGAGAA-GCTTAGAGTTCTGCACCAAAGTAATGAAGTAGAA-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14856509 174 +  74389097 CTAA-------AGAAAATCAGGACAGGCCTGTTAAAAGGAGCTGGTGAGGAAAAACAA----AAAAAAGTATCC--TCTGTGACTTCTTTCTTTTCCCTGTT--ATGTATACTACCTACATCTCAGTATCTGCTTGGC-AGGGGAGGAATGGGATTGCTTCTGCTTCTGTACC-ACCTGATGAAGTAGAAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2549200 163 +   3667625 CTAA-------AAGAAATCAGGACATGCCTA-TCAGAGGAGCTGAAGTGAAAA---------GAAAATGTATAC--TCTGTGACCTTTTTCTTTTTCCTCTT--ATGTCTGCTACTCA----TCTCACTCTGTTTAGTCAGGGAAGAATTTGCAGTGTTCCTGATTTTGCACC-TAGTAATGAAGTAGA--
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60472684 7155 + 108143057 I

a score=2491776.000000
s hg38.chr5_KI270796v1_alt      7393 181 +    172708 AAATTAAATGAACTTTGCTGTTCAT-AA------AAAATGAA-AC-AAAAGGCT-TACAAAGAAAAGTCATAAAT-------ACGAAGTAA-TTTGACAGATTTAAAATCTAATTATTTTATTTGGCATCA--------------------------TCCTACCAATCCCAAATTTTCTAAAACCGCCTTCTATTAAGCCAGTGTACCTAGAGTCTAAACAGACA
s panTro5.chr5             125117479 181 + 181907262 AAATTAAATGAACTTTGCTGTTCAT-AA------AAAATGAA-AC-AAAAGGCT-TACAAAGAAAAGTCATAAAT-------ACAAAGTAA-TTTGACAGATTTAAAATCTAATTATTTTATTTGGCATCA--------------------------TCCTACCAATCCCAAATTTTCTAAAACCACCTTCTATTAAGCCAGTGTACCTAGAGTCTAAACGGACA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126454459 181 + 183735486 AAATTAAATGAACTTTGCTGTTCAT-AA------AAAATGAA-AC-AAAAGGCT-TACAAAGAAAAGTCATAAAT-------ACGAAGTAA-TTTGACAGATTTAAAATTTAATTATTTTATTTGGCATCA--------------------------TCCTACCAATCCCAAATTTTCTAAAACCACCTTCTATTAAGCCAGTGTACCTAGAGTCTAAACAGACA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1646159 181 +   8933513 AAATTAAATGAACTTTGCAGTTCAT-AA------AAAATGAA-AC-AAAAGGCT-TACAAAGAAAAGTCATAAAT-------ACGAAGTAA-TTTGACAGATTTAAAATCTAATTATTTTATTTGGCATCA--------------------------TCCTACCAATCCCAAATTTTCTAAAACCGCCTTCTATTAAGCCAGTGTACCTAGAGTCTAAACAGACA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139777161 181 + 163208435 AAATTAAATGAACTTTGCTGTTTAT-AA------AAAATGAA-AC-AAAAGGCT-TACAAAGAAAAGTCATAAAT-------ACAAAGTAATTTTGACATATAT-AAATCTGATTATTTTATTTGGCATCA--------------------------TCCTACCAATCCCAAATTTTCTAAAACCACCTTCTATTAAGCCAGTGTACTTAGAGTCTAAACAGACA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122762506 182 + 180051392 AAATTAAATGAACTTTGCTGTTTATAAA------AAAATGAA-AC-AAAGTGCT-TACGAAGATAAGTCATAAAT-------ACAGAGTAA-TTTGACGGATTTAAAATCTAATTATTTTATTTGGCATCA--------------------------TCCTACCAATCCCAAATTTTCTAAAACCGCCCTCTATTAAGCCAGTGTATCTAGAGTCTAAACAGATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124186033 182 + 181584905 AAATTAAATGAACTTTGCTGTTTATAAA------AAAATGAA-AC-AAAGTGCT-TACGAAGATAAGTCATAAAT-------ACAGAGTAA-TTTGACGGATTTAAAATCTAATTATTTTATTTGGCATCA--------------------------TCCTACCAATCCCAAATTTTCTAAAACCGCCCTCTATTAAGCCAGTGTATCTAGAGTCTAAACAGATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16184033 182 +  18395747 AAATTAAATGAACTTTGCTGTTTATAAA------AAAATGAA-AC-AAAGTGCT-TACGAAGATAAGTCATAAAT-------ACAGAGTAA-TTTGACGGATTTAAAATCTAATTATTTTATTTGGCATCA--------------------------TCCTACCAATCCCAAATTTTCTAAAACCGCCCTCTATTAAGCCAGTGTATCTAGAGTCTAAACAGATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5190148 182 +  26952557 AAATTAAATGAACTTTGCTGTTTATAAA------AAAATGAA-AC-AAAGTGCT-TACCAAGATAAGTCATAAAT-------ACAGAGTAA-TTTGACGGATTTAAAATCTAATTATTTTATTTGGCATCA--------------------------TCCTACCAATCCCAAATTTTCTAAAACCGCCCTCTGTTAAGCCAGTGTATCTAGAGTCTAAACAGATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28297953 178 +  82825804 AAATTAAATGAACTTTGCTGTTTATAAA------AAAATG------AAAGTGCT-TACGAAGATAAGTCATAAAT-------ACAGAGTAA-TTTGTTGGATTTAAAATCTAATTATTTTATTTGGCATCA--------------------------TCCTACCAATCCCAAATTTTCTAAAACCGCCCTCTATTAAGCAAGTGTATCTAGAGTCTAAACAGATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3962062 182 -   4237731 AAATTAAATGAACTTTGCTGTTTATAAA------AAAATGAA-AC-AAAGTGCT-TACGAAGATAAGTCATAAAT-------ACAGAGTAA-TTTGACGGATTTAAAATCTAATTATTTTATTTGGCATCA--------------------------TCCTACCAATCCCAAATTTTCTAAAACCGCCCTCTATTAAGCCAGTGTATCTAGAGTCTAAACAGATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      232247 182 -   1175262 AAATTAAATGAACTTTGCTGTTTATAAA------AAAATGAA-AC-AAAATGCT-TACGAAGATAAGTCATAAAT-------ACAGAGTAA-TTTGACAGATTTAAAATCTAATTATTTTATTTGGCATCA--------------------------TCCTACCAATCCCAAATTTTCTAAAACCGCCCTCTATTAAGCCAGTGTATCTAGAGTCTAAACAGATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123566180 180 - 204313951 AAATTAAATGAACTTTGCTGTTTAT-AA------AAAATGAA-AC-ATAAGGCT-TATGAAGAAAAGTTATAAAT-------ACAAAGTAA-TTTGACAGAT-TAAAGTCTAATTATTTTCTTTGGCATCA--------------------------TCCTACCAATCCCAAATTTTCTAAAACTGCCTTCTATTAAGCCAGTGTATCTACAGTCTAAACATACA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55621198 180 -  71252344 AAATTAAATGAACTTTGCTGTTTAT-AA------AAAATGAA-AC-ACAAAGCT-TATGAAGAAAAGTTATAAAT-------ACAAAGTAA-TTTGACAGAT-TAAAGTCTAATTATTTTCTTTGGCATCA--------------------------TCCTACCAATCCCAAATTTTCTAAAACTGCCTTCTATTAAGCCAGTGTATCTAGAGTCTAAACAGATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1313298 180 -   1400280 AAATGAAATGAACTTTGCTGTTTAT-AA------AAAATGAA-AC-ACAAGGCT-TATGAAGAAAAGTTATAAAT-------ACAAAGTAA-TTTGACAGAT-TAAAGTCTAATTATTTTCTTTGGCATCA--------------------------TCCTACCAATCCCAAATTTTCTAAAACTGCCTTCTATTAAGCCAGTGTATCTAGAGTCTAAACAGATA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13109213 180 -  42888418 AAATTAAATGAACTTTGCTGTTTAT-AA------AAAATGAA-AC-ACAAGGCT-TATGAAGAAAAGTTATAAAT-------ACAAAGTAA-TTTGACAGAT-TAAAGTCTAATTATTTTCTTTGGCATCA--------------------------TCCTACCAATCCCAAATTTTCTAAAACTGCCTTCTATTAGGCCAGTGTATCTAGAGTCTAAACAGATA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60479839 172 + 108143057 AAATTAAATGAACTTTGGTGTTTATAAA------AAACCAAA-AC-AAAAGGCT-TAAGAAGAAAAATCATGAAT-------ACAAAGTAG-TTTGGCAGAT-TAAAATCCAGTTATTTTCTTTGGCATTA--------------------------TCCTACCAATCCCAAATTTTCTTAAACTTCCTTCTACTAAACCAGT---------CCCTAGACAGACA
i micMur3.chr12            I 7155 C 0
s proCoq1.NW_012155062v1     3509971 172 +  11683526 AAATTAACTAAGCTTTGGTGTTTACAAA------AAAACAAA-AC-AAAAGGCT-TGAAAAGAAAAATCATGGAT-------ACAAAGTAG-CTTGACAGAT-TAATATCCAGTTATTTTCTTTGGCATCA--------------------------TCCTACCAATCCCAAATTTGCTAAGACTTCCTTCTACTAAACCAGT---------CCCTAGACAGACA
i proCoq1.NW_012155062v1   C 0 I 5
s otoGar3.GL873679           2993678 181 +   4132165 AAATTAAATGAACCTCAGCGTTTGaaaacaaaacaaaacaaa-acaaaaAGGCT-GAAGAAGAAAAATCATGGGT-------ACAAAGCAG-CTTGACAGAG-TAAAATCCAGTTATTTCCTTTGGCATCA--------------------------TCGTACCTATTCCAAATTTGCTAACGCTTCCTTCTAGTAAACCTGTG-------GATCTAGACAGCCA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55458360 161 +  90702639 AAATTAAATTGACCTTGAAGTTTAT-AA------GAAATAAGCAG-AAAAGGCG-TGAGAAGAAAAATCATGGGTTTAAGTAGCAGGGTTA-T----------TAAAATCCAATGATTTTTTTTTCCTTAG--------------------------CATCATCAATCTGGCATTTTCTTGTAC-----------AAATCGGTGCAT------TACAGACAGAC-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14856683 197 +  74389097 AAATTCAATCAACTTTGGAATTTAT---------AAGCCAAA-AT-AAAAGGCT-TAAAAGGAGAAATTATGGAC-------ACAAAGTAG-TATGACA-ATGTAAAATCCAattattattattattattattattattattattatttttatAATCTCTCATCAATCCCAAATTTGCTAAAACTTTCTTCTATGAAACCAAAATAC-------CTAGACAGGCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2549363 155 +   3667625 -------------------GTTTAC-AC------AGAATCAA-AA-GTAAAGCTGTAAGAAGAAAAATCATGCTG-------ACAAAGTAG-CTTGCCAAAT-TTAAATCTAATTATTTTCCTTGGCATCC--------------------------TCCTACAACTCTCAAATTTGCTAAAACTTCTCTCCATTAAGCCAGTATAT-------TTAGGCAGAGA
i dasNov3.JH567306         C 0 C 0

a score=87747.000000
s hg38.chr5_KI270796v1_alt      7574 9 +    172708 ATGTATGAA
s panTro5.chr5             125117660 9 + 181907262 ATGTATGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126454640 9 + 183735486 ATGTATGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1646340 9 +   8933513 ATGTATGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139777342 9 + 163208435 ATGTATGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122762688 9 + 180051392 ATGTGTGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124186215 9 + 181584905 ATGTGTGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16184215 9 +  18395747 ATGTGTGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5190330 9 +  26952557 ATGTGTGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28298131 9 +  82825804 ATGTGTGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3962244 9 -   4237731 ATGTGTGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      232429 9 -   1175262 ATGTGTGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123566360 9 - 204313951 ACCTGTGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55621378 9 -  71252344 ACCTGTGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1313478 9 -   1400280 ACCTGTGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13109393 9 -  42888418 ACCTGTGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60480011 9 + 108143057 GCCTATGAG
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           2993859 9 +   4132165 GCCTATCAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55458521 8 +  90702639 -TCTGTGAA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14856880 5 +  74389097 GCCTA----
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2549518 9 +   3667625 GCTTGTTAA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3510143 5 +  11683526 I

a score=2610726.000000
s hg38.chr5_KI270796v1_alt      7583 193 +    172708 GGCAAGTGGCTGTTAGTCGGAAGCATGTCAGAATCCAGTGGAGGCCAAA----AAA--CCAAAATCCCATA---GAGAT----TTTAAACTACTTTCACATAAAAACCACATGTAATTTGGAACAATTTCTT-------TACTCTAATCAGTGATCAATGATATTGTCTGACAGAGTGATTTGATTGTACTAAAATTTCGTTTTTAT-AAAAAA---
s panTro5.chr5             125117669 193 + 181907262 GGCAAGTGGCTGTTAGTCGGAAGCATGTCAGAATCCAGTGGAGGCCAAA----AAA--CCAAAATCCCATA---GAGAT----TTTAAACTACTTTCACATAAAAACCACATGTAATTTGGAACAATTTCTT-------TACTCTAATCACTGGTCAATGATATTGTCTGACAGAGTGATTTGATTGTACTAAAATTTCGTTTTTAT-TTAAAA---
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126454649 193 + 183735486 GGCAAGTGGCTGTTAGTCGGAAGCATGTCAGAATCCAGTGGAGGCCAAA----AAA--CCAAAATCCCATA---GAGAT----TTTAAACTACTTTCACATAAAAACCACATGTAATTTGGAACAATTTCTT-------TACTCTAATCACTGATCAATGATATTGTCTGACAGAGTGATTTGATTGTACTAAAATTTCGTTTTTAT-TAAAAA---
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1646349 194 +   8933513 GGCAAGTGGCTGTTAGTCGGAAGCATGTCAGAATCCAGTGGAGGCCAAA----AAA--CCAAAATCCCATA---GAGAT----TTTAAACTACTTTCACATAAAAACCACATGTAATTTGGAACAATTTCTT-------TACTCTAATCACTGATCAATGATATTGTCTGACAGAGTCATTTGATTGAACTAAAATTTCGTTTTTATAAAAAAA---
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139777351 193 + 163208435 GGCAAGTGGCTGTTAGTCGGAAGCATGTCAGAATCCAGTGGAGGCCAAG----AAA--CCAAAATCCCGTA---GAGAT----TTTAAACTACTTTCACATAAAAACCACGTGTAATCTGGCAGAATTTCTT-------TACTCTAATCACTGATCAATGATATTGTCTGACAGAGTGATGTGAGTGAACTAAAATTTCATTTTTAT-AAAAAA---
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122762697 189 + 180051392 GGCAAGTGGCTGTTAGTCGGAAGCATGTCAGAATCCAATGGAGGCCAAA---TAAA--CCAAAATCCCATA---GAGAT----TTTAAACTACTTTCACATAAAAACCACATGTAATCTGGCACAATTTCTT------------TAATCACTGATCAATGATATTGCCTGACAGAGTAATGTGATTGAACTAAATTTTCATTTTTAT-AAAAAA---
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124186224 189 + 181584905 GGCAAGTGGCTGTTAGTCGGAAGCATGTCAGAATCCAATGGAGGCCAAA---TAAA--CCAAAATCCCATA---GAGAT----TTTAAACTACTTTCACATAAAAACCACATGTAATCTGGCACAATTTCTT------------TAATCACTGATCAATGATATTGCCTGACAGAGTAATGTGATTGAACTAAATTTTCATTTTTAT-AAAAAA---
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16184224 189 +  18395747 GGCAAGTGGCTGTTAGTCGGAAGCATGTCAGAATCCAATGGAGGCCAAA---TAAA--CCAAAATCCCATA---GAGAT----TTTAAACTACTTTCACATAAAAACCACATGTAATCTGGCACAATTTCTT------------TAATCACTGATCAATGATATTGCCTGACAGAGTAATGTGATTGAACTAAATTTTCATTTTTAT-AAAAAA---
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5190339 187 +  26952557 GGCAAGTGGCTGTTAGTCGGAAGCATGTCAGAATCCAATGGAGGCCAAA---TAAA--CCAAAATCCTAT-----AGAT----TTTAAACTACTTTCACATAAAAACCACATGTAATCTGGCACAATTTCTT------------TAATCACTGATCAATGATATTGCCTGACAGAGTAACGTGATTGAACTAAATTTTCATTTTTAT-AAAAAA---
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28298140 189 +  82825804 GGCAAGTGGCTGTTAGTCGGAAGCATGTCAGAATCCAATGGAGGCCAAA---TAAA--CCAAAATCCCGTA---GAGAT----TTTAAACTACTTTCACATGAAAACCACATGTAATCTGGCACAATTTCTT------------TAATCACTGATCAATGATATTGCCTGACAGAGTAATGTGATTGAACTAAATTTTCATTTTTAT-AAAAAA---
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3962253 189 -   4237731 GGCAAGTGGCTGTTAGTCGGAAGCATGTCAGAATCCAATGGAGGCCAAA---TAAA--CCAAAATCCCATA---GAGAT----TTTAAACTACTTTCACATAAAAACCACATGTAATCTGGCACAATTTCTT------------TAATCACTGATCAATGATATTGCCTGACAGCGTAATGTGATTGAACTAAATTTTCATTTTTAT-AAAAAA---
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      232438 189 -   1175262 GGCAAGTGGCTGTTAGTCGGAAGCATGTCAGAATCCACTGGAGGCCAAA---TACA--CCAAAATCCCATA---GAGAT----TTTAAACTACTTTCACATAAAAACCACATGTAATCTGGCACAATTTCTT------------TAATCACTGATCAATGATATTGCCTGACAGAGTCATGTGATTGAACTAAATTTTCATTTTTAT-AAAAAA---
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123566369 194 - 204313951 GGCAAGTGGCTATTAGTCGGAAGCATGTTAGAATCCAATGGAGGCCAAA----AAATGCCAAACTCCCATA---GAGACGTTAGTTAAACTGCTTTCACATAAAAACCACATGTAATCTGGCATAATTTCTT------------TAATCACTGATCAATGATATTGTCTCATAGAGTGATATGATTGAACTAAAATTTAACTTTTAT-AAAAAA---
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55621387 188 -  71252344 GGCAAGTAGCTGTTAGTCGGAAGCATGTTAGAATCCAATGGAGGCCAAA----AAATGCCAAACTCCCATA---GAGAT----GTTAAACTGCTTTCATATAAAAACCACATGGAATCTGGC--AGTTTCTT------------TAATCACTGATCAATGATATTGTCTCAGAGAGTGATATGATTGAACTAAAATTTAACTTTTAT-AAAAAA---
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1313487 190 -   1400280 GGCAAGTGGCTGTTAGTCAGAAGCATGTTAAAATCCAATGGAGGCCAAA----AAATGCCAAACTCCCATA---GAGAT----GTTAAACTGCTTTCACATAAAAACCACATGTAATCTGACACAATTTCTT------------TAATCACTGATCAATGATATTGTCTCATAGAGTGATATGATTGAACTAAAATTTAACTTTTAT-AAAAAA---
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13109402 190 -  42888418 GGCAAGTGGCTGTTAGTCAGAAGCGTGTTAGAATCCAATGGAGGCCAAA----AAATGCCAAACTCCCATA---GAGAT----GTTAAACTGCTTTCACATAAAAACCACATGTAATCTGGCACAATTTCTT------------TAATCACTGATCAATGATATTGTCTCATAGAGTGATATGACTGAACTAAAATTTAACTTTTAT-AAAAAA---
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60480020 195 + 108143057 GACAAGTGGCTGTTATCTGGAAGCATGTCAGAATCCAACAGAGGCCAAA----AAAGAACAAAACCCTATA---GAGAT----TATAAACTACTTTCAAGTAAGAACCATGTGTAACCTGGCACAATTCCTT-------GACTCTGATCACGGATCAATGATATTGGCTGTTGGAGTGAATTGATTGAACTAAAATTCCATTGTTTT-AAAAAA---
i micMur3.chr12            C 0 I 4
s proCoq1.NW_012155062v1     3510148 195 +  11683526 GGCAAGTGGCTATTAGTTGGAAGCATGTTAGAATCCAATGGAGGCCAAA----AAAGAACAAAACCCCACA---GAGAT----TGTAAACTACTTTCAAATAAGAACCACGTGTAACCTGGCACACTGCCTT-------GACTCTGATCACTGATCAATGATATTGGCTGATGGAGTGAATTGATTGAACTAAAGTTTCATTTTTGT-AAAAAA---
i proCoq1.NW_012155062v1   I 5 I 528
s otoGar3.GL873679           2993868 193 +   4132165 GGCAGGTGGCTGTTAGCTGGAAGCAGGTCAGAAG-CAATGGAGGCCAAA----AAAGAACAAAACTCCATC---AAGAC----TGTAAACTACTTTGAAATAAGAGCCGTGTGTAACCTGGCACCATGCCTC-------CACTCTAATCACTGATCAATGATATTGGCTGAT-GAGTGAATCGATTGAAATCAAATTTTGTTTCTAT-AAAAAA---
i otoGar3.GL873679         C 0 I 5
s mm10.chr18                55458529 197 +  90702639 GGCAGCTGGCTGGAGGCTGGAAGCAAGGCTGGAACCAAGACAGGGCAGA---AAGA--ACAACCCCCCACA---GAGAC----AGCCATTTTTCCTCAGGTCAGAACTACCTGTAACCTGGCATGGTGCCTGACTGCCTGACTTGAATCTCCAATTAGAGGGGCTGGCTGGTGGGGAAAGTTGAGGGGATCGATTTTTAA--TTTAT-AAAA-----
i mm10.chr18               C 0 I 5
s canFam3.chr11             14856885 174 +  74389097 ------------------GCAAGCAGGTCAAAGTCC-----AGGCCAAA---AAGAACACCAAACTTCATAGAGGAGAT----TATTACCTACCTTCAGGTAAGAGCCACGTGT-ACTTGGTGCAACGTTTT-------GACTATCATCACTCATCAATGAGACTGGTTGATGGAATCATTTGATCAAACTGAAATTTCAA-TTTAT-AAGAAT---
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2549527 202 +   3667625 GGATGATGACTCCTAGTTGGAAGCACATTAGAATCCAAAATAGGCCAAAAATTACA--ACAAAACCTCTAAGAGGAGAT----TGTAAGCTCCCTGTAAGTAAGAATCATGTGTAGCTTGGCATGACGCCTT-------GCCTATACACAGTGATCAATGGTACTGATTGATGGAGTGATTTGATTTAATTGAGATCTCAA-TTTAT-AAAAATGGC
i dasNov3.JH567306         C 0 C 0

a score=2003024.000000
s hg38.chr5_KI270796v1_alt      7776 160 +    172708 ATGAAGAGAAGATGTTTGTAAACTAAAACCAGATACTACTGGTAATTTCTTCTGCACGAGCCTACAATGCCAGTCCTAGAATACAGGGAAGGAGCTCTGAAGAGAGCGAGTAGGAG-TTGTAGCT--CTGTATTCATTCTTCCGAAACTATTTGGCGATCATC
s panTro5.chr5             125117862 160 + 181907262 ATGAAGAGAAGATGTTTGTAAACTAAAACCAGATACTACTGGTAATTTCTTCCGCACGAGCCTACAATGCCAGTCCTAGAATACAGGGAAGGAGCTCTGAAGACAGCGAGTAGGAG-TTGTAGCT--CTGTATTCATTCTTCTGAAACTATTTGGTGATCATC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126454842 160 + 183735486 ATGAAGAGAAGATGTTTGTAAACTAAAACCAGATACTACTGGTAATTTCTTCCGCCCGAGCCTACAATGCCAGTCCTAGAATACAGGGAAGGAGCTCTGAAGACAGCGAGTAGGAG-TTGTAGCT--CTGTATTCATTCTTCTGAAACTATTTGGTGATCATC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1646543 160 +   8933513 ATGAAGAGAAGATGTTTGTAAACTAAAACCAGATACAACTGGTAATTTCTTCCGCACGAGCTTACAATGCCAGTCCTAGAATACAGGGAAGGAGCTCTGAAGAGAGCGAGTAGGAG-TTGTAGCT--CTGTATTAATTCTTCCGAAACTATTCGGTGATCATC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139777544 157 + 163208435 ATGAA---AAGATGTTTGTAAACTAAAACCAGATACTGCTGGTAATTTCTTCTGCACGATCCTACAATGCCAGTCCTGGAATAGAGGGAAGGAGCTCTGAAGAGAGCGAGTAGGAG-TTGTAGCT--CTGTATTCATTCTTCCGAAACTATTTGGTAATCATC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122762886 160 + 180051392 ATGAAGAGAAGATGTTTGTAAACTAAAACCAGATACTGTTGGTAATTTCTTCTGCATGATCCTACAATGCGAGTCCTAGAATAGAGGGAAGGAGCTCTGAAGAGAGCGAGTAGGAG-TTGTAGCT--CTGTATTCATTCTTCCGAAACTATTTGGTGATCATC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124186413 160 + 181584905 ATGAAGAGAAGATGTTTGTAAACTAAAACCAGATACTGTTGGTAATTTCTTCTGCATGATCCTACAATGCGAGTCCTAGAATAGAGGGAAGGAGCTCTGAAGAGAGCGAGTAGGAG-TTGTAGCT--CTGTATTCATTCTTCCGAAACTATTTGGTGATCATC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16184413 160 +  18395747 ACGAAGAGAAGATGTTTGTAAACTAAAACCAGATACTGTTGGTAATTTCTTCTGCATGATCCTACAATGCGAGTCCTAGAATAGAGGGAAGGAGCTCTGAAGAGAGCGAGTAGGAG-TTGTAGCT--CTGTATTCATTCTTCCGAAACTATTTGGCGATCATC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5190526 159 +  26952557 ATGAAGAGAAGATGTTTGTAAACT-AAACCAGATACTATTGGTAATTTCTTCTGCATGATCCTACAATAGCAGTCCTAGAATAGAGGGAAGGAGCTCTGAAGAGAGCGAGTAGGAG-TTGTAGCT--CTGTATTCATTCTTCCGAAACTATTTGGTGATCATC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28298329 160 +  82825804 ATGAAGAGAAGATGTTTGTAAACTAAAACCAGATACTATTGGTAATTTTTTCTGCATGTTCCTACAATGCCAGTCCTAGAATAGAGGGAAGGAGCTCTGAAAACAGCGAGTAGGAG-TTGTAGCT--GTGTATTCATTCTTCCGAAACTATTTGGTAATCATC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3962442 160 -   4237731 ATGAAGAGAAGATGTTTGTAAACGAAAACCAGATACTGTTGGTAATTTCTTCTGCATGATCCTACAATGCCAGTCCTAGAATAGAGGGAAGGAGCTCTGAAGAGAGTGAGTAGGAG-TTGTAGCT--CTGTATTCATTCTTCCGAAACTATTTGGTGATCATC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      232627 158 -   1175262 ATGAAGAGAAGATGTTTGTAAACTAAAACCAGATACTACTGATAATTTCTTCTGCACGATCCTACAACGCCAGTCCTGGAATAGAGGGAAGGAGCTCTGAAG--AGCAAGCAGGAG-TTGTAACT--CTGTATTCATTCTTCCGAAACTATTTGGTGATTATC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123566563 151 - 204313951 ATC-----AAGATGTTTGTAAACTAAAACCAGATACTGCTGGTAATTTCTTCCACATGATCCGACAATGCCAGTTCAAGAATACAGGGAAGGAGCTATGAAGAGAGGGAGTTGGAG-TTATAGCT--CTGTATTCATTCTTCTGAAAC----TGGTGACCTTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55621575 155 -  71252344 ATC-----AATATGTTTGTAAACTAAAACCAGATACCCCTGGTAATTTCTTCCACATGATCCTACAATGCCGGTTCAAGAATACAGGGAAGGAGCTATGAAGAGAGGGAGTAGGAG-GTATAGCT--CTGTATTCATTCTTCTGAAACTGTTTGGTGACCATC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1313677 155 -   1400280 ATC-----AAGATGTTGGTAAACTAAAACCAGATACTACTGGTAATTTCTTCCACATGACCCTACACTGCCAGTTCAAGAATACAGCGAAAGAGCTCTGAAGAGAGGGAGTAGGAG-TTAGAGCT--CTGTATTCATTCTTCTGAAACTGTTTGGTGACCATC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13109592 155 -  42888418 ATC-----AAGATGTTTGTAAACTAAAACCAGATACTACTGGTAATTTCTTCCACATGATCCTACAATGCCAGTTCAAGAATACAGGGAAAGAGCCATGAAGAGAGGGAGTAGGAG-TTATAGCT--CTGTATTCATTCTTCTGAAACTGTTTGGTGACCATC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60480219 159 + 108143057 TTTGTGAGAAGAT-TTTATAAACTAAAATCAGTTCTTATTGGTAATTTATTTCACATGAGCCTACAATGTCAGTCCCAGAATATGAGAAAGGGGCTACGAGGAGAGCAAGCAGGAG-TTGTATCT--GTGTATTTATTCTTCCAACACTATCTGGGGGTCATC
i micMur3.chr12            I 4 I 276
s otoGar3.GL873679           2994066 159 +   4132165 CCGAGGATGCCAC-TTTATAAATCAAAGTCAGTTATTATTGGTGATTTCTTTCCCAAGAGCTCACAATGCCAGTCCTGAAATATAAGAAAGGGACTAAGGAGGGAGCAAGTAGGAG-TCGGAGCT--CTGTATTTACTCTTCTGAAACTACCTGGTGATCGTT
i otoGar3.GL873679         I 5 C 0
s mm10.chr18                55458731 156 +  90702639 CTCATGAGGTAAT-TTTGTAAACAAAAGCCAATTACAGTGGACAATGCCTCCCCCCATCACCTACAATGTAAATCTCAGAA----AGAAGGTGTCTATGGATAGA-CACCTATGAG-CTGTATGTAACAATGTTTAGTCTTCCCTTTTCCTGTGGTGATTGTC
i mm10.chr18               I 5 I 5
s canFam3.chr11             14857062 156 +  74389097 CCTGGGACAAGAT-TTTGTAAACTAAAATCAGTTACTG-TAGTAATTTCTTCCCCCTGAACCCACAATGCCAGTCTCAGAATTTGAGAAAGAGGCTATGAAGAGAATGAGTAGGAG-GTGTAGCT--GTGTATTTACATCCTcaaaac--tctggtgattgcc
i canFam3.chr11            I 3 I 17
s dasNov3.JH567306           2549729 158 +   3667625 ATTGTGAGAACAT-TTTATAAACTAGTGCCAGTCACTGTTAGTAGTTTCTTTCACATGAGCCTACAACTTTCAGTCCAGAATACGAGAGAGGC-CTATGAAGAGAGCAGGTAGGAGTTTGTAGCT--CTGTatttattcttctaagatgatttggtgat-atc
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3510343 528 +  11683526 I

a score=620668.000000
s hg38.chr5_KI270796v1_alt      7936  64 +    172708 -----TCTGCT------------AGGCCTGGGAAATGCAGTGGTGAAAGACATCAATATTTTCCTTG--TTCAAG-----------------------------------------------------------------AGCATTAT
s panTro5.chr5             125118022  64 + 181907262 -----TCTGCT------------AGGCCTGGGAAATGCAGTGGTGAAAGACGTCAATATTTTCCTTG--TTCAAG-----------------------------------------------------------------AGCATTAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126455002  64 + 183735486 -----TCTGCT------------AGGCCTGGGAAATGCAGTGGTGAAAGACGTCAATATTTTCCTTG--TTCAAG-----------------------------------------------------------------AGCATTAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1646703  64 +   8933513 -----TCTGCT------------AGGCCTGGGAAATGCAGTGGTGAAAGACGTCAATATTTTCCTTG--TTCAAG-----------------------------------------------------------------AGCATTAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139777701  64 + 163208435 -----TCTGCT------------AGGCCTGGGACATGCAGTGGTGAAAGGTGTCCATATTTTCCTTG--TTACAG-----------------------------------------------------------------AACATTAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122763046  64 + 180051392 -----TCTGCT------------AGACCTGGGAAATGCAGTGGTGAAAGATGTCAATGTTTTCCTTG--TTCAAG-----------------------------------------------------------------AACATTAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124186573  64 + 181584905 -----TCTGCT------------AGACCTGGGAAATGCAGTGGTGAAAGATGTCAATGTTTTCCTTG--TTCAAG-----------------------------------------------------------------AACATTAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16184573  64 +  18395747 -----TCTGCT------------AGACCTGGGAAATGCAGTGGTGAAAGATGTCAATGTTTTCCTTG--TTCAAG-----------------------------------------------------------------AACATTAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5190685  64 +  26952557 -----TCTGCT------------AGACCTGGGAAATGCAGTGGTGAAAGATGTCAATGTTTTCCTTG--TTCAAG-----------------------------------------------------------------AACGTTAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28298489  64 +  82825804 -----TCTGCT------------AGACCTGGGAAATGCAGTGGTGAAAGATGTCAGTGTTTTCCTTG--TTCAAG-----------------------------------------------------------------AACATTAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3962602  64 -   4237731 -----TCTGCT------------AGACCTGGGAAATGCAGTGGTGAAAGATGTCTGTGTTTTCCTTG--TTCAAG-----------------------------------------------------------------AACATTAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      232785  64 -   1175262 -----TCTGCT------------AGACCTGGGAAATGCAGACGTGAAAGATGTCAGTAGTTTCCTTG--TTCAAG-----------------------------------------------------------------AACATTAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123566714  64 - 204313951 -----TCTGCT------------AGGCCTGGGGGATGCAGTGGTGAAAGGCATCAATATTTTCCCTC--TTCAAG-----------------------------------------------------------------AACATTAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55621730  64 -  71252344 -----TCTGCT------------AGGCCTGGGGGATGCCATGGTGAAGGGCATCAATATTTTCCCTC--TTCAAG-----------------------------------------------------------------AACATTAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1313832  64 -   1400280 -----TCTACT------------AGGCCTGGGGGATGCAGTGGTGAAGGGCATCGATATTTTCCCTC--TTCAAG-----------------------------------------------------------------AACATTAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13109747  64 -  42888418 -----TCTGCT------------AGGCCTGGGGGATGCAGTGGTGAAGGGCATCAATATCTTCCCTC--TTCAAG-----------------------------------------------------------------AACATTAT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2994225 129 +   4132165 -----CATGCT------------CAGCCCGGAGGAGGCACAGGAGAAGGGGATCAAGATTTTCCCCT--TCCTGGATATTAAATTCCTCTTATAAGCCTGTCCTCTTTTGGGCCTCAGACCTGTTTACCAAGCTGCTTTCAGCTTTAT
i otoGar3.GL873679         C 0 I 119
s mm10.chr18                55458892  74 +  90702639 -----CCTGCTGTGGTCCTCGTGAGACCCTGATGTGGCAGAGTTGATAAGGG-CAGTACTGTTCCTGCCTTC--------------------------------------------------------------------AGCACTGC
i mm10.chr18               I 5 C 0
s canFam3.chr11             14857235  66 +  74389097 -----tgagct------------aagcctggagcatatgatggtgatccaggcctatgtcctccctgccttcata-----------------------------------------------------------------gaccttat
i canFam3.chr11            I 17 C 0
s dasNov3.JH567306           2549887  71 +   3667625 tgccacatgcc------------atgccttgaggaaatggtggtgaattaatccaaaatgatctctgccttcatg-----------------------------------------------------------------gagctttt
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60480378 276 + 108143057 I
e proCoq1.NW_012155062v1     3510343 528 +  11683526 I

a score=124680.000000
s hg38.chr5_KI270796v1_alt      8000 11 +    172708 AATATGATGGG
s panTro5.chr5             125118086 11 + 181907262 AATATGATGGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126455066 11 + 183735486 AATATGATGGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1646767 11 +   8933513 AATATGATGGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139777765 11 + 163208435 AATATGATGGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122763110 11 + 180051392 AATATGATGGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124186637 11 + 181584905 AATATGATGGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16184637 11 +  18395747 AATATGATGGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5190749 11 +  26952557 AATATGATGGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28298553 11 +  82825804 AATATGATGGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3962666 11 -   4237731 AATATGATGGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      232849 11 -   1175262 AATATGATGGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123566778 11 - 204313951 AATACGATGGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55621794 11 -  71252344 AATATGATGGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1313896 11 -   1400280 AATACGATGGG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13109811 11 -  42888418 AATATGATGGG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2994473 11 +   4132165 AGTCCACTGTA
i otoGar3.GL873679         I 119 C 0
s mm10.chr18                55458966 11 +  90702639 AGCATCATCTC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14857301 11 +  74389097 agtctagcagg
i canFam3.chr11            C 0 I 21
s dasNov3.JH567306           2549958 11 +   3667625 agtcttgtgga
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60480378 276 + 108143057 I
e proCoq1.NW_012155062v1     3510343 528 +  11683526 I

a score=131984.000000
s hg38.chr5_KI270796v1_alt      8011 8 +    172708 GAATTTTC
s panTro5.chr5             125118097 8 + 181907262 GAATTTTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126455077 8 + 183735486 GAATTTTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1646778 8 +   8933513 GAATTTTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139777776 8 + 163208435 GAATTTTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122763121 8 + 180051392 GAATTTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124186648 8 + 181584905 GAATTTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16184648 8 +  18395747 GAATTTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5190760 8 +  26952557 GAATTTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28298564 8 +  82825804 GAATTTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3962677 8 -   4237731 GAATTTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      232860 8 -   1175262 AAATTTTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123566789 8 - 204313951 GAATTTTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55621805 8 -  71252344 GAATTTTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1313907 8 -   1400280 GAATtttc
i cebCap1.NW_016107829v1   C 0 I 2684
s aotNan1.NW_018505940v1    13109822 8 -  42888418 GAATTTTC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60480654 8 + 108143057 GAATTTTC
i micMur3.chr12            I 276 C 0
s otoGar3.GL873679           2994484 8 +   4132165 GAATTTCC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55458977 8 +  90702639 GAATTTTC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14857333 8 +  74389097 GAATTTTT
i canFam3.chr11            I 21 C 0
s dasNov3.JH567306           2549969 8 +   3667625 gaaTTCAC
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3510343 528 +  11683526 I

a score=26490.000000
s hg38.chr5_KI270796v1_alt      8019 7 +    172708 ATTTG-AA-
s panTro5.chr5             125118105 7 + 181907262 ATTTG-AA-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126455085 7 + 183735486 ATTTG-AA-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1646786 7 +   8933513 ATTTG-AA-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139777784 7 + 163208435 ATTTG-AA-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122763129 5 + 180051392 A--TG-AA-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124186656 5 + 181584905 A--TG-AA-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16184656 5 +  18395747 A--TG-AA-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5190768 5 +  26952557 A--TG-AA-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28298572 6 +  82825804 A--TGAAA-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3962685 5 -   4237731 A--TG-AA-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      232868 5 -   1175262 A--TG-AA-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123566797 7 - 204313951 ATTTG-AA-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55621813 7 -  71252344 ATTTG-AA-
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13109830 7 -  42888418 ATTTG-AA-
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60480662 7 + 108143057 ATGTG-AA-
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           2994492 7 +   4132165 ACTTG-AA-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55458985 7 +  90702639 ATTTG-AA-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14857341 7 +  74389097 GCTTG-AA-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2549977 7 +   3667625 -CATA-GAG
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3510343 528 +  11683526 I
e cebCap1.NW_016107829v1     1313915 2684 -   1400280 I

a score=932797.000000
s hg38.chr5_KI270796v1_alt      8026 71 +    172708 GATTTGATGGGCTTTCTATGTTAGAGGTTTTGGTAGAGAACCAGTA-TTTTTAGCTTAAAATGTTTATT-ACA
s panTro5.chr5             125118112 71 + 181907262 GATTTGATGGGCTTTCTATGTTAGAGGTTCTGGTAGAGAACCAGTA-TTTTTAGCTTAAAATGTTTATT-ACA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126455092 71 + 183735486 GATTTGATGGGCTTTCTATGTTAGAGGTTCTGGTAGAGAACCAGTA-TTTTTAGCTTAAAATGTTTATT-ACA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1646793 71 +   8933513 GATTTGATGGGCTTTCTATGTTCGAGGTTCTGGTAGAGAACCAGTA-TTTTTAGCTTAAAATGTTTATT-ACA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139777791 71 + 163208435 GATTTGATGGGCTTTCTGTGTTAGAGGTTCTCGTAGAGAACCAGTA-TTTTTAGCTTAAAATGTTTATT-ACA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122763134 71 + 180051392 TGTTTGATGGGCTTTCTGTGTTAGAGGTTCCGGTAGAGAACCAGTA-TTTTTAGGTTAAAATGTTTATT-ATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124186661 71 + 181584905 TGTTTGATGGGCTTTCTGTGTTAGAGGTTCCGGTAGAGAACCAGTA-TTTTTAGGTTAAAATGTTTATT-ATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16184661 71 +  18395747 TGTTTGATGGGCTTTCTGTGTTAGAGGTTCCGGTAGAGAACCAGTA-TTTTTAGGTTAAAATGTTTATT-ATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5190773 71 +  26952557 TGTTTGATGGGTTTTCTGTGTTAGAGGTTCCAGTAGAGAACCAGTA-TTTTTAGGTTAAAATGTTTATT-ACA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28298578 71 +  82825804 TGTTTGATGGGCTTTCTGTGTTAGAGGTTCCGGTAGAGAACCAGTA-TTTTTAGGTTAAAATGTTTATT-ATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3962690 71 -   4237731 TGTTTGATGGGCTTTCTGTGTTAGAGGTTCCCGTAGAGAACCAGTA-TTTTTAGGTTAAAATGTTTATT-ATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      232873 71 -   1175262 TATTTGGTGGGCTTTCTGTGTTGGAGGTTCTGGTAGAGAACCAGTA-TTTTTAGGTTAAAATGTTTATT-ATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123566804 71 - 204313951 GATTTGATAGGCTTTATATGTTAGAGATTCTGGTAGAGAATCGGTA-TTTTTAGCTTAAAATGTTTATT-ACA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55621820 72 -  71252344 GATTTGATGGGCTTTATATGTTAGAGGTTCTGGTAGAGAACCAGTA-TTTTTAGCATAAAATGTTTATTAACA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1316599 72 -   1400280 gattTGATGGGCTTTATATGTTAGAGGTTCTGGTAGAGAACCAGTATTTTTTAGCTTAAAATGTTTATT-ACA
i cebCap1.NW_016107829v1   I 2684 C 0
s aotNan1.NW_018505940v1    13109837 70 -  42888418 GATTTGAT-GGCTTTATATGTTAGAGGTTCTAGTAGAGAACCAGTA-TTTTTAGCTTAAAATGTTTATT-ACA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60480669 71 + 108143057 AATTTGATGGGCTTTATATGCTAGAGATTCTGGTGGAAGATTAGCA-TTTTTGTCCTAAAATATCTACT-ACA
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           2994499 71 +   4132165 AATCTGATGGGCTTCGGATGTTAGAGATTTTGGAAGAGGATTAATA-CTTTTGTCCTAAAATGTTTGTT-ACA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55458992 59 +  90702639 ACCTTGATAAA--------GCCAGAGACCCTTGT---TAACTAGTA-CTGTCTGGC-AACATGTGTATT-ATA
i mm10.chr18               C 0 I 8
s canFam3.chr11             14857348 71 +  74389097 CTTCGGATGGCCTTTATATGCTAGGGATTCTAGTGGAGAGCTAATA-CATTTATCTTTAGATGCTTAGC-ATA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2549984 71 +   3667625 AATGTGATGGGCTTTATATGCTAGAGATTCTAGTGGAAAACAAGTA-TTTTTATTTTGAAAAGATTATT-TCA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3510343 528 +  11683526 I

a score=3680426.000000
s hg38.chr5_KI270796v1_alt      8097 255 +    172708 CTCTGAGGGTCATAATAGTTTAAAGCTATCATTTCATATTTGAATCAAAGACACCAAAAGATAATTATAGTAGATTTTCATATTAACTGTTTCAAAGACAAACTCTTAAATGCTAACGAGAA-GTGAACAAAGTGTAAA-AGAGTATGATTTATGCTTAATGCTTGAGCTACATACCCTCTCTTGATGGTCTGAATAACAGTGGTATGATTTTATTGTGA--AAATCATAGC-----CAAGGAAAAGGTGCCTCTGGTGAATTC
s panTro5.chr5             125118183 255 + 181907262 CTCTGAGGGTCATAATAGTTTAAAGCTATCATTTCATATTTGAATCAAAGACACCAAAAGATAATTATAGTAGATTTTCATATTAACTGTTTCAAAGACAAACTCTTAAATGCTAACGAGAA-GTGAACAAAGGGTAAA-AGAGTATGATTTATGCTTAATGCTTGAGCTACATACCCTCTCTTGATGGTCTGAATAACAGTGGTATGATTTTATTGTGA--AAATCATAGC-----CAAGGAAAAGGGGCCTCTGGTGAATTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126455163 255 + 183735486 CTCTGAGGGTCATAATAGTTTAAAGCTATCATTTCATATTTGAATCAAAGACACCAAAAGATAATTATAGTAGATTTTCATATTAACTGTTTCAAAGACAAACTCTTAAATGCTAACGAGAA-GTGAACAAAGGGTAAA-AGAGTATGATTTATGCTTAATGCTTGAGCTACATACCCTCTCTTGATGGTCTGAATAACAGTGGTATGATTTTATTGTGA--AAATCATAGC-----CAAGGAAAAGGGGCCTCTGGTGAATTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1646864 255 +   8933513 CTCTGAGGGTCATAATAGTTTAAAGCTATCATTTCATATTTGAATCAAAGACACCAAAAGATAATTATAGTAGATTTTCATATTAGCTGTTTCAAAGACAAACTCTTAAATGCTAACGAGAA-GTGAACAAAGTGTAAA-AGAGTATGATTTATGCTTAATGCTTGAGCTACATACCCTCTCTTGATGGTCTGAATAACAGTGGTATGATTTTATTGTGA--AAATCATAGC-----CAAGGAAAAGGGGCCTCTGGTGAATTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139777862 254 + 163208435 CTCTGAGGGTCATAATAGTTTAAAGCTATCATTTCATATTTGAATCAAAGACACCAAAATATAATTATAGTA-ATTTTCTTATTAACTCTTTCAAAGACAAACTCTTAAATGCTAACGAGAA-GTGAACAAAGTATAAA-AGAGTATGATTTATGCTTAACGCTTGAGCTACATACCCTCTCTTGATGGTCTGAATAACAGTGGTATGATTTTATTGTGA--AAATCATAGC-----CAAGGAAAACGGGCCTCTGGTGAATTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122763205 254 + 180051392 CTCTGAGGGTCATAATAGTTTAAAGCTATCATTTCATATTTGAATGAAAGACACCAAAAGATAATTATAGTAGATTTTCTTATTAACTCTTTCAAGGAC-AACTCTTAAATGCTAACAAGAA-GTGAACAAAGTGTAAA-AGAGTATAATTTACGCTTAATGCTTGATCTACATACCCTCTCTTGATGGTCTGAATCACAGTGGTATGATTTTATTGTGA--AAATCATAGC-----CAAGGAAAAGGAACCTCTGGTGAATTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124186732 254 + 181584905 CTCTGAGGGTCATAATAGTTTAAAGCTATCATTTCATATTTGAATGAAAGACACCAAAAGATAATTATAGTAGATTTTCTTATTAACTCTTTCAAGGAC-AACTCTTAAATGCTAACAAGAA-GTGAACAAAGTGTAAA-AGAGTATAATTTACGCTTAATGCTTGATCTACATACCCTCTCTTGATGGTCTGAATCACAGTGGTATGATTTTATTGTGA--AAATCGTAGC-----CAAGGAAAAGGAACCTCTGGTGAATTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16184732 254 +  18395747 CTCTGAGGGTCATAATAGTTTAAAGCTATCATTTCATATTTGAATGAAAGACACCAAAAGATAATTATAGTAGATTTTCTTATTAACTCTTTCAAGGAC-AACTCTTAAATGCTAACAAGAA-GTGAACAAAGTGTAAA-AGAGTATAATTTACGCTTAATGCTTGAGCTACATACCCTCTCTTGATGGTCTGAATCACAGTGGTATGATTTTATTGTGA--AAATCGTAGC-----CAAGGAAAAGGAACCTCTGGTGAATTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5190844 253 +  26952557 CTCTGAGAGTCATAATAGTTTAAAGCTATCATTTCATATTTGAATGAAAGACACCAAAAGATAATTATAGTAGATTTTCTTATTAACTCTTTCAAAGAC-AACTCTTAAATGCTAACAA-AA-GTGAACAAAGTGTAAA-AGAGTATAATTTACGCTTAATGCTTGAGCTACATACCCTCTCTTGATGGTCTGAATCACAGTGGTATGATTTTATTGTGA--AAATCGTAGC-----CAAGGAAAAGGAACCTCTGGTGAATTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28298649 254 +  82825804 CTCTGAGGGTCATAATAGTTTAAAGCTATCATTTCATATTTGAATGAAAGACACCAAAAGATAATTATAGTAGATTTTCTTATTAACTCTTTCAAAGAC-AACTCTTAAATGCTAACAAGAA-GTGAACAAAGTGTAAA-AGAGTATAATTTACGCTTAATGCTTGAGCTACATACCCTCTCTTGATGGTCTGAATCACAGTGGTATGATTTTATTGTGA--AAATCATAGC-----CAAGGAAAAGGAACCTATGGTGAATTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3962761 251 -   4237731 CTCTGAGGGTCATAATAGTTTAAAGCTATCATTTCATATTTGAATGAAAGACACCAAAAG---ATTATAGTAGATTTTTTTATTAACTCTTTCAAAGAC-AACTCTTAAATGCTAACAAGAA-GTGAACAAAGTGTAAA-AGAGTATAATTTACGCTTAATGCTTGAGCTACATACCCTCTCTTGATGGTCTGAATCACAGTGGTATGATTTTATTGTGA--AAATCGTAGC-----CAAGGAAAAGGAACCTCTGGTGAATTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      232944 254 -   1175262 CTCTGAGGGTCATAATAGTTTGAAGCTATCATTTCATATTTGAATCAAAGATACCAAAAGATAATTATAGTAGGTTTTCTTATTAACTCTTTCAAAGAC-AACTCTTAAATGCTAGCAAGAA-GTGAACAAAGTGTAAA-AGAGTATCATTTACGCTTAATGCTTGAGCTACATACCCTCTCTTGATGGTCTGAATCACGGTGGTATGATTTTATTGTGA--AAATCGTAGC-----CAAGGAAAAGGAACCTCTGGTGAATTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123566875 254 - 204313951 CTCTGAGGGTCATAATAGTTTAAAGCTATCATTTCATATTTAAATCAAAGACACCAAAAGATAATTA-AATAGATTTTCTTATTAACTCTTTCAAGGACAAACTCTTATATGCTAACGAGAA-GTGAGCAAAATGTGAA-AGAGCGTAATTTATGCTTAACGCTTAAGCTACATATTCTCTCTTGATGGCCTGAATCACAGTGGCATGATTTTATTGGGA--AATTTGTAGC-----CAAGGAAAAGGGGCCTCTGGTGAATTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55621892 255 -  71252344 CTCGGAGGGTCATAATAGTTTAAAGCTGTCATTTCATATTTAAATCAAAGACACCAAAAGATAATTATAGTAGATTTTCTTATTAACTCTTTCAAGGACAAACTCTTATATGCTAACGAGAA-GTGAGCAAAACGTGAA-AGAGCCTAATTTATGCTGAACGCTTAAGCTACGTATTCTCTCTTGATGGCCTGAATCACAGTGGCATGATTTTATTGGGA--AAATTGTAGC-----CAAGGAAAAGGGGCCTCTGGTGAGTGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1316671 255 -   1400280 CTCTGAGGGTCATAATAATTTAAAGCTCTCATTTCATATTTAAATCAAAGACACCAAAAGATAATTATAGTAGATTTTCTTATTAACTCTTTCAAGGACAAACTTTTATATGCTAATGAGAA-GTGAGCAAAATGTGAA-AGAGCGTAATTTATGCTTAATGCTTAAGCTACATATTCTCTCTTGGTGGCCTGAATCACAGTGGCATGATTTTATTGGGA--AAATTGTAGC-----CAAGGAAAAGGCGCCTCTGGTGAATTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13109907 255 -  42888418 CTCTGAGGGTCATAATAGTTTAAAGCTATCATTTCATATTTAAATCAAAGACACCAAAAGATAATTATAGTAGATTTTCTTATTAACTCTTTCAAGGACAAACTCTTGTATGCTAAAGAGAA-GTGAGCAAAATGTGAA-AGAGTATAATTTATGCTTAACACTTAAGCTACGTATTCTCTCTTGATGGCCTGAATCACAGTGGCATGATTTTATTGGGA--AAATTGTAGC-----CAAGGAAAAGGGGCCTCTGGTGAATTC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60480740 245 + 108143057 CTCTGAGGGTCATAATAGTTTAAAGCCATCATTTCATATGTGAAGCAA--ACACCAAAAGATAAATGTAGTAGATTTTCTTGTTAACTCTTTGAAAGACAAACTCTTAAATGCTAATGAGAATGTGGA-AAAGTGTGAA-TAAATGTAATTTATGCTTAATGCTTGAGCGACACATCCTCTTGTGATGGCATGAATA----------GATTTTACTGTGA--AAATCACAGC---TTTCAGGTGAAGAGGCCTCCGGTGGATTT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3510871 246 +  11683526 CTCTGAGGGTCATAATAGTTTAAAACCATCAATTCATGTGTGAAGCAA--ACACCAAAAGATAAATGTAGTAGATTTTCTTGTTAACTCTTTGAAAGACAAACTCTTAAATGCTAATGAGAATGTGAACAAAGTGTGAA-TAAGTGTAATTTATGCTTAATGCTTGAGCTACACATCCTCTCATGATGGCAGGAATA----------GATTTTACTGTGA--AAATCACAGC---TTCCAGGTGAAGAGGCCTGCAGTGGATTT
i proCoq1.NW_012155062v1   I 528 C 0
s otoGar3.GL873679           2994570 234 +   4132165 CTCTGAGGGTCTTAATAG-------CCATCATTTCATAAGTGAATCAG--ACACTAGAAGATGAATGTAGTCAATTTTCTTATTAACTCTTTAAAAGACGGTCTCTTAAATGCTAGTGAGAATGTGAACAGAGGGTGAA-TAAGTATAATATATGCTTAATGCTTGAG-----CATCCTCTCGTGATGGCATGAATA----------GATTTTACTGTGA--AAACTGTAGC---TTCCACGTAAAGAGGCCTCTGGTGGATTT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55459059 229 +  90702639 CTCTAAGGGTTTTAACAGCTTAAACCT----TTTCATCTTGCAGTTAA-GATAC--AAAGATGAGAGTAGTAGATTGTC-----AATTCTATGAAGGGGGAGCCATTGGAAACAA---AGAATGGGAAGAGTGTGTGAA-TAAATATGACCTATGTAGAATGCTTGGGCTGTGTGCTGTCTTGTGAAGGCATGCATG----------GATTCTATAGTGA--AAACAGCAGA-------GAGAAAAGAAGCCTGCAGGAGATTC
i mm10.chr18               I 8 I 541
s canFam3.chr11             14857419 253 +  74389097 -CATGAAGATCATAAATGTTTATAGTTATTTTTTCATATTTGAATCAAGGACATCAAAAGATAAAAGTAGTAGATTTTCTTAAGAACTCTTTGAAAGACTAACTTTTAAATGCTGATAAAAATGTGAACAGAGTATGACTAAGGTGTATGTTATATTGGATGCTTGAGCTACATGCCCTCTCCTGATGGTATGAACG----------TGTTCTATTGTAAACAAAACAAAACACTTGTGAGCTACAAAGACCTCTGGTAGAACC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2550055 247 +   3667625 CTTTAAGGGTCAGGAAAATTTAGAGCTATATTTTTATATTTGAATCAAGGTTACCAAAAGGTAAATGTGGTAAGTTTTCTTACTAAACTTTTGAAAGCCAAACTCATAAATGTTAATGGCAATATGAACAAAATGTGAA-CAAATGTAATTTATATTTAATGCTTGAGCTACACACCCTCTTGTAATGGTGTGGCTA-----------GTTTTATTATGA--AAATGGTAGC---TGTGAGGCAAAGAGGCCTCCGGTGCATTT
i dasNov3.JH567306         C 0 I 3

a score=930917.000000
s hg38.chr5_KI270796v1_alt      8352 62 +    172708 GCAGGGCCAGCATATAAATGCAAATTGTAGCTGCAGCAT---------TTTCCATTTTGAAGATGGAAGAA
s panTro5.chr5             125118438 62 + 181907262 GCAGGGCCAGCATATAAATGCAAATTGTAGCTGCAACAT---------TTTCCATTTTGAAGATGGAAGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126455418 62 + 183735486 GCAGGGCCAGCATATAAATGCAAATTGTAGCTGCAACAT---------TTTCCATTTTGAAGATGGAAGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1647119 62 +   8933513 GCAGGGCCAGCATATAAATGCAAATTGTAGCTGCAGCAT---------TTTCCATTTTGAAGATGGAAGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139778116 62 + 163208435 GCAGGGCCAGCATATAAATGCAAATTGTAGCTGTAGCAT---------TTTCCATTTTGAAGATGGAAGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122763459 62 + 180051392 ACAGGGCCAGCATATAAATGCAAATTGTGGCTGCAGCAT---------TTTGCATTTTGAAGATGGAAGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124186986 62 + 181584905 ACAGGGCCAGCATATAAATGCAAATTGTGGCTGCAGCAT---------TTTGCATTTTGAAGATGGAAGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16184986 62 +  18395747 ACAGGGCCAGCATATAAATGCAAATTGTGGCTGCAGCAT---------TTTGCATTTTGAAGATGGAAGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5191097 62 +  26952557 GCAGGGCCAGCATATAAATGCAAGTTGTGGCTGCAGCAT---------TTTGCATTTTGAAGCTGGAAGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28298903 62 +  82825804 GCAGGGCCAGCATATAAATGCAAATTGTGGCTGCAGCAT---------TTTGCATTTTGAAGATGGAAGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3963012 62 -   4237731 GCAGGGCCAGCATATAAATGCAAATTGTGGCTGCAGCAT---------TTTGCATTTTGAAGCTGGAAGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      233198 71 -   1175262 GCAGGGCCGGCATATAAATGCAAATTGTGACTGCAGCATCAGTCACAATTTGCATTTTGAAGATGGAAGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123567129 62 - 204313951 GCAGGGCCAGCATATAAATTCAAATTGTAGCTGCAGCAT---------TTTCCATTTTGAAGAAGGAAGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55622147 62 -  71252344 GCGGGGCCAGCATATAAATTCGAATTGTAGCTGAAGCAT---------TTTCCATTTTGAAGAAGGAAGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1316926 62 -   1400280 GCAGGGCCAGCATATAAATTCAAATTATAGATGCAGCAT---------TTTCCATTTTGAAGAAGGAAGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13110162 62 -  42888418 ACAGGGCCAGCATATAAATTCAAATTGTAGCTGCAGCAT---------TTTCCATTTTGAAGAAGGAAGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60480985 62 + 108143057 GCAGGGCCAGCACATAAAGTCAAATTGTAGCTGCAGCGT---------TTTCCATGCTCAAGGAGAGAGAA
i micMur3.chr12            C 0 I 1
s proCoq1.NW_012155062v1     3511117 62 +  11683526 GCAGGGCCAACACATAAATTCAAATTGTAGCTGCAGCAT---------TTTCCATTCTGCAGGAGGGAGAA
i proCoq1.NW_012155062v1   C 0 I 1
s otoGar3.GL873679           2994804 61 +   4132165 GCAGGGCCAGCGTGT-AATTCAAATTGTAGCTACAGCAC---------TTTCCATTCTGAAGGAGGGAGAA
i otoGar3.GL873679         C 0 I 1
s canFam3.chr11             14857672 56 +  74389097 GCAGGACCAGCATATA----CAGATTGTAGCTGGAGCAT---------TTTATAGTTTGAAGGATGAAG--
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2550305 62 +   3667625 GCAGGGCCAGCCTATAAATTCATTCTGTAACGGAACCAT---------TTTCCAGTCTAAAGGAGGGAGAA
i dasNov3.JH567306         I 3 I 1
e mm10.chr18                55459288 541 +  90702639 I

a score=4162114.000000
s hg38.chr5_KI270796v1_alt      8414 298 +    172708 AATCAGGAAAATCATCCCCTTTCCCACAGCGAGTAATGCCGTCTCTG-------ACTGACATGGCTTTGAGACTCTGATCAAAGAAAGTAAGAAATTAGCAACCATCAGACCACTGGGT--AGGACTGATTAATTTTCTCTGGCTCTAGTCACAGATCAAATTCACCAGAATATTGCCA-AA-------ATAC-ATTTGCCCTTCCTTAGTCCTAGATAAAAATTTGACACCGGGGTTGCCAAATCTAGTGGGC---TT----ATCTTT--TTATGG-TTCCTGT-----AGTCATGTTACTTTTGTACTCTGAgagcagcagggt-agaaa
s panTro5.chr5             125118500 298 + 181907262 AATCAGGAAAATCATCCCCTTTCCCACAGCGAGTAATGCCGTCTCTG-------ACTGACATGGCTTTGAGACTCTGATCAAAGAAAGTAAGAAATTAGCAACCATCAGACCACTGGGT--AGGACTGATTAATTTTCTCTGGCTCTAGTCACAGATCAAATTCACCAGAATATTGCCA-AA-------ATAC-ATTTGCCCTTCCTTAGTCCTAGATAAAAATTTGACACCGGGGTTGCCAAATCTAGTGGGC---TT----ATCTTT--TTATGG-TTCCTGT-----AGTCATGTTACTTTTGTACTCTGAgagcagcagggt-agaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126455480 298 + 183735486 AATCAGGAAAATCATCCCCTTTCCCACAGCGAGTAATGCCATCTCTG-------ACTGACATGGCTTTGAGACTCTGATCAAAGAAAGTAAGAAATTAGCAACCATCAGACCACTGGGT--AGGACTGATTAATTTTCTCTGGCTCTAGTCACAGATCAAATTCACCAGAATATTGCCA-AA-------ATAC-ATTTGCCCTTCCTTAGTCCTAGATAAAAATTTGACACCGGGGTTGCCAAATCTAGTGGGC---TT----ATCTTT--TTATGG-TTCCTGT-----AGTCATGTTACTTTTGTACTCTGagagcagcagggt-agaaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1647181 298 +   8933513 AATCAGGAAAATCATCCCCTTTCCCACAGCGAGTAATGCCGTCTCTG-------ACTGACATGGCTTTGAGACTCTGATCAAAGAAAGTAAGAAATTAGCAACCATCAGACCACTGGGT--AGGACTGATTAATTTTCTCTGGCTCTAGTCACAGATCAAATTCACCAGAATATTGCCA-AA-------ATAC-ATTTGCCCTTTGTTAGTCCTAGACAAAAATTTAACACTGGGATTGCCAAATCTAGTGGGC---TT----ATCTTT--TTATGG-TTCCTGT-----AGTCATGTTACTTTTGTACTCTGAgagcagcagggt-agaaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139778178 297 + 163208435 AATCAGGAAAATCATCCCCTTTCCCACAGCGAGTAACGCCATCTCTG-------ACTGACATGGCTTCGAGACTCTGATCAAAGAAAGTAAGAAATTAGCAACCATCAGACCACTGGGT--AGGACTGATTAATTTTCTCTAGCTCTAGTCACAGATCAAATTCACCAGAATATTGCCA-AA-------ATACAATTTGCCCGTTGTTAGTGCTAGATAAAAATTTAACACTGGGGTTGCCAAATCTAGTGGGC---TT----GTCTTT--TTATGG-TTCCTGT-----AGTCATGTTACTTTTATACTCTGAGAGCAGCAGGG---GAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122763521 298 + 180051392 TATCAGGAAAATCATCCCCTTTCCCACAAGGAGTAATGCCGTCTCTG-------ACTGACATACCTTTGAGATTCTGATCAAAGAAAGTAAGAAACTAGCAACCATCAGACCATTGGGT--AGGATTGATTAATTTTCTCTAGCTCTAGTCACAGATCAAATTCACCAGAATATTGCCA-AA-------ATAG-ATTTGCCCTTTGTTAGTCCTAGATAAAAATTTAACACTGGGGTTGCCAAATCTAGTGGAC---TT----ATTTTT--TTATGG-TTCCTTT-----AGTCATGTTACTTTTATACTCTGAgagcagcagggt-agaaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124187048 298 + 181584905 TATCAGGAAAATCATCCCCTTTCCCACAAGGAGTAATGCCGTCTCTG-------ACTGACATACCTTTGAGATTCTGATCAAAGAAAGTAAGAAACTAACAACCATCAGACCATTGGGT--AGGATTGATTAATTTTCTCTAGCTCTAGTCACAGATCAAATTCACCAGAATATTGCCA-AA-------ATAG-ATTTGCCCTTTGTTAGTCCTAGATAAAAATTTAACACTGGGGTTGCCAAATCTAGTGGAC---TT----ATTTTT--TTATGG-TTCCTTT-----AGTCATGTTACTTTTATACTCTGAgagcagcagggt-agaaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16185048 298 +  18395747 TATCAGGAAAATCATCCCCTTTCCCACAAGGAGTAATGCCGTCTCTG-------ACTGACATACCTTTGAGATTCTGATCAAAGAAAGTAAGAAACTAGCAACCATCAGACCATTGGGT--AGGATTGATTAATTTTCTCTAGCTCTAGTCACAGATCAAATTCACCAGAATATTGCCA-AA-------ATAG-ATTTGCCCTTTGTTAGTCCTAGATAAAAATTTAACACTGGGGTTGCCAAATCTAGTGCAC---TT----ATTTTT--TTATGG-TTCCTTT-----AGTCATGTTACTTTTATACTCTGAgagcagcagggt-agaaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5191159 298 +  26952557 TATCAGGAAGATCATCCCCTTTCCCATAAGGAGTAATGCCGTCTCTG-------ACTGACATGCCTTTGAGATTCTGATCAAAGAAAGTAAGAAACTATCAACCATCAGACCATTGGGT--AGGATTGATTAATTTTCTCTGGCTCTAGTCACAGATCAAATTCACCAGAATATTGCCA-AA-------ATAG-ATTTGCCCTTTGTTAGTCCTAGATAAAAATTTAACACTGGGGTTGCCAAATGTAGTGGAC---TT----ATCTTT--TTATGG-TTCCTTT-----AGTCATGTTACTTTTATACTCTGAgagcagcagggt-agaaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28298965 298 +  82825804 TATCAGGAAAATCATCCCCTTTCCCACAATCAGTAATGCCGTCTCTG-------ACTGACATGCCTTTGAGATTCTGATCAAAGAAAGTAAGAAACTAGCAACCATCAGACCATTGGGT--AGGATTGATTAATTTTCTCTGGCTCTAGTCACAGATCAAATTCACCAGAATATTGCCA-AA-------ATAG-ATTTGCCCTTTGTTAGTCCTAGATAAAAATTTAACACTGGGGTTGCCAAATCTAGTGGAC---TT----ATCTTT--TTATGG-TTCCTTT-----AGTCATGTTACTTTTATACTCTGAgagcagcagggt-agaaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3963074 298 -   4237731 TATCAGGAAAATCATCCCCTTTCCCACAAGGAGTAATGCCGTCTCTG-------ACTGACATGCCTTTGAGATTCTGATCAAAGAAAGTAAGAAACTAGCAACCATCAGACCATTGGGT--AGGATTGATTAATTTTCTCTGGCTCTAGTCACAGATCAAATTCACCAGAATATTGCCA-AA-------ATAG-ATTTGCCCTTTGTTAGTCCTAGATAAAAATTTAACACTGGGGTTGCCAAATATAGTGGAC---TT----ATCTTT--TTATGG-TTCCTTT-----AGTCATGTTACTTTTATACTCTGAgagcagcagggt-agaaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      233269 298 -   1175262 AATCAGGAAAATCATCCCCTTTCCCACAACGAGTAATGCCGACTCTG-------ACTGACATGCCTTTTGGATTCTGATCAAAGAAAGTAATAAACAAGCAACCATCAGACCATTGGGT--AGCATTGATTAATTTTCTCTGGCTCTAGTCACAGATCAAATTCGCCAGAATATTGCCA-AA-------ATAC-ATTTGCCCTTTGTTAGTCCTAGATAAAAATTTAAAACTGGGGTTGCCAAATCTAGTGGAC---TT----ATCTTT--TTATGG-TTCCTTT-----AGTCATGTTACTTTTATACTCTGAgagcagcagggt-agaaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123567191 288 - 204313951 AATT-GGAAAGTCATTCTGCTTCCCACCATGAGTAATGCCTTCT-----------CTGACACGGCATGGAGACACTGATGAACGAAAGCAAGAAATTAGCGACCATCAGGCCACTGGGT--AGGACTGATTA----TCTCT-GTTCTAGTCACAGATCAAATTCACCAAAATATTGCCA-AA-------ACAC-ATTTGCCCTTTGTTAGTCCTAGATACAAATTTAACATCGGGGATGCCAAATCTAATGAAC---TT----ATCTTT--TTATGG-TTCTTGT-----AGTCATGTTACTTTTACATTCTGACAgcagcagggt-agaaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55622209 289 -  71252344 AATCAGGAAAGTCATCCTACTTCCCACTATGAGTAACGCCTTCT-----------CTGACACAGCATGGAGACACTGATCAACGAAAGCAAGAAATTAGCAACCATCAGGCCACTGGGT--AGGACTGATGA----TCTCT-GTTCTAGTCACAGATGGAATTCACCAGAATATTGCCA-AA-------ACCC-ATTTGCCCTTTGTTAGTCCTAGATACAAATTTAACATTGGGGATGCCAAATCTAGTGAAC---TT----ATCTTT--TTATGG-TTCTTGT-----AGTCATGTTACTTTTATACCCTGAGAGCAGCAGGAT-AGAAA
i saiBol1.JH378106         C 0 I 200
s cebCap1.NW_016107829v1     1316988 289 -   1400280 AATTAGGAAAGTCATCCTGCTTCCCACTATGAGTAACGCCTTCT-----------CTGACATGGAATGGAGACACTGATCAACGAAAGCAAGAAATTAGCAACCATCAGGCCACTGGGT--AGGACTGATTA----TCTCT-GTTCTAGTCACAGATCAAATTCACCAGAATATTGCCA-AA-------ACGC-ATTTGCCCTTTGTTAACCCTAGATACAAATTTAACATCAGGGATGCCAAATCTAGTGAAC---TT----ATATTT--TTATGG-TTCTTGT-----AGTCATGTTACTTTTATACTCTGAgagcagcaggat-agaaa
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13110224 289 -  42888418 AATCAGGAAAATCATCCTGCTTCCCACTATGAGTAATGCCTTCT-----------CTGACATGGTATGGAGACACTGATTAACGAAAGCAAGAAATTAGCAACCATCAGGCCACTGGGT--AGGACTGATTA----TCTTT-GTTCTAGTCACAGATCAAATTCGCCAGAATATTGCCA-AA-------ACAC-ATTTGCCCTTTGTTAGTCCTAGATACAAATTTAACATCGGGGTTGCAAAATCTGGTGAAC---TT----ATCTTT--TTATGG-TTCTTGT-----AGTCATGTTACTTTTATACTCTGAGAGCAGCAGGAT-AGAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60481048 300 + 108143057 AATTAGGAGAATCACCCCTCTCCCTACTGGGAGTAATGCC-TCTCTG-------ACCAACACAGCTTTGAGACTCTGTTGAAAGGAAGTAAGAAATTAGCAATCATCAAGCCAGCGGGC--AGGACTGATTAATTTACTCTGGCTCTAGTCACAGATCAAATTCACTAGAAAATTGCCA-AA-------GTAC-ATTGGCCCTTTTGTAGTTCTAGGTATAAATTTAAAGTTGAGATTACCAAATCTAGTGAACTGTTT----ATCTTT--GTATGG-TTCCTGT-----AGCCAGGGCGCTTTTACACTCTGC-GGCAGcggtataagaaa
i micMur3.chr12            I 1 C 0
s proCoq1.NW_012155062v1     3511180 277 +  11683526 AATTAGGAAAATCATCTC------------------------CTCTG-------ACTGACACAGCTTTGAGACTCTGTTTAAAGGAAGTAAGAAATTAGCAAGCATCAAGCCAGCGGGT--AGGACTGATTAATTTACTCTGGCTCTAGTCACAGATCAAATGCACCAGAAAATTGCCA-AA-------GTGC-ATTTGCCCTTTTGTAGTTCTAGATATATATTTAAAGTTGGGATTACCAAATCTAGTGAACTGTTT----ATCTTT--TTGTGG-CTCCTGT-----AGCCAGGGCACTTGTACACTCTgagggcagcagcat-agaaa
i proCoq1.NW_012155062v1   I 1 C 0
s otoGar3.GL873679           2994866 300 +   4132165 AATGAGGAAAAT--TCCCAGCCCTAACTGGGAGTAAAGCCTTCTCTG-------ACTAACACGGCTTAGAGACTCTGCTTAAAGGAAGTCAGAAATTAGCAAGCATCAGGCCAGCGGGG--AGGACGGATTAATTTACCCTGGCTCTAGAAACAGATCAAATTCATCAGGAAGTTGCCACAA-------GTCC-ATTTGCTCTTTTGTGGTTCTAGATATACATTTAAAGTTGGGATTACCCACTCTAGTGAACTTTTT----ATCTCT--TTATGG-TTCCTGT-----AGCCACATTGCTTTGACACTCTGAGGGTGGCAATAG-AAAAA
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55459829 258 +  90702639 aattaGAAGTATCAGTCCCCACCCCACCACCAGTAATGTTTTCACTA-------ACT---------------------TCAAAAGAAGTAAACAACCAATAAGTAGCAAGCCCTCTGGTAGAGGACTGGCTAATTTACCCT-TCTTTGCCCATGGATGGGATTCACCAGAAAAGT-----GC-------ATAT-CTCTGCTCTTTGCTGGCTCTGGATACA-ACTGAACTATGATATTGCTAAGTCTCATGACT---TTTAAAATTGTT--TTATGGCTTCTTGT-----AGT--------------------GGTGCAGGTGTAT-GGTAA
i mm10.chr18               I 541 C 0
s canFam3.chr11             14857728 294 +  74389097 AATTGAGAAAATGA-CCCCCTTCCCACAAGAAGTGATGACTTCTCTA-------AC------AGCTTTGAGACACTGTTCAAAGGAAGTAAGAAATTAGGAATCATCAAGCCAGCAGGT--AGGACTGATTAATGTACTCCGGCTCTAGTCACAGATCAAATTCACCAGAAAATTGCCA-AA-------GTAC-TTTTGCTCTTTTGTAGTTTGAGATATAAATTTAAAGTTAAGATTAACAAATCTACTGGTCTTTTT----ATCTTT--TTAGGG-TTCCGAT-----AGCCATGTGATATTTATGCACAGAAAATAGcagtaa-agaca
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2550368 314 +   3667625 AATTAGGAAAATCACCCCCTCCCCAACCGGGAGTAATGCCTTCTCTGAGTGCAAACCAACATAGCTT----ATTCTATTCAAAGGAAATAGGAAATTAGCAATCAGCAAGCCAGCGGGT--AGGACTGATTAATT-TCTCTGACTCTAGTCACAGATCAAATTCACCAGAAAATTGCCA-AGTATGCTTGTAT-GCTTACCCTTTTGTAGTCTTAGACACAAATTCAAAGTTGGAATTACCAATTCTGGTGGCC---TT----TTTATTTGTTATGG-TTTCTATCCATAACAAATCTTACTTTTACACTCTAagagaggcagtgt-agaga
i dasNov3.JH567306         I 1 C 0

a score=3532628.000000
s hg38.chr5_KI270796v1_alt      8712 255 +    172708 gggctaagagcatgggctctgacttccagaagtccggggtgtgagtcttgacccttgccatgtatgaactatacagctttggacaagctgtttaatatt-tctgagctcctgtgttttcattaggaaatttggaaaatagcaa---ttactattataaaaatacctaaat-aatagattgacattaagtttaactaagataattaatgtaacaactcttagTCTAAAAAGTG----TAATACAAGCTCACAAATA-TTAGACTTT
s panTro5.chr5             125118798 255 + 181907262 gggctaagagcatgggctctgacttccagaagtccggggtgtgagtcttgacccttgccatgtatgaactatacagctttggacaagctatttaatatt-tctgagctcctgtgttttcattaggaaatttggaaaatagcaa---ttactattataaaaatacctaaat-aatagattgacattaagtttaactaagataattaatgtaacaactcttagTCTAAAAAGTG----TAATACAAGCTCACAAATA-TTAGACTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126455778 255 + 183735486 gtgctaagagcatgggctctgacttccagaagtccggggtgtgagtcttgacccttgccatgtatgaactatacagctttggacaagctatttaatatt-tctgagctcctgtgttttcattaggaaatttggaaaatagcaa---ttactattataaaaatacctaaat-aatagattgacattaagtttaactaagataattaatgtaacaactcttagTCTAAAAAGTG----TAATACAAGCTCACAAATA-TTAGACTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1647479 255 +   8933513 gggctaagagcatgggctctgacttccagaagtccggggtgtgagtcttgacccttgccatgtatgaactatacagctttggacaagcaatttagtatt-tctgagctcctgtgttttcattaggaaatttggaaaatagcaa---ttactattataaaaatacctaaat-aatagattgacattaagtttaactaagatagttaatgcaacaactcttagTCTAAAAAGTA----TAATACAAGATCACAAACA-TTAGATTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139778475 255 + 163208435 GATCTaagagcatgggctctgacttccagaaatccgggatgtgagtcttgacccttgccatgtatgaactatacagctttggacaagccgtttaatatt-actgagctcctgtgttttcattaggaaatttggaaaatagcaa---ttactattataataatacctaaat-aatagatttacattaaggttaactaagataattaatgtaatagctcttagTCTAAAAAGTA----TAATACAAGCTCACAAACA-TTAGACTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122763819 255 + 180051392 gggctaagaggatgggctccgacttccctaagtccggggtgtgagtcttgacccttgccatgtatgaaatatacagctttggacaagccatttaatatt-tctgagctcctgtgttttcattaggaaatttggaaaatagcaa---ttgctattataatcatacctaaat-aatagattgatattaaggttaactaagataattaatttaacagctctcagtctaaaaagta----taatacaagtTCACAAATA-TTAGACTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124187346 255 + 181584905 gggctaagaggatgggctccgacttccctaagtccggggtgtgagtcttgacccttgccgtgtatgaaatatacagctttggacaagccatttaatatt-tctgagctcctgtgttttcattaggaaatttggaaaatagcaa---ttgctattataatcgtacctaaat-aatagattgatattaaggttaactaagataattaatttaacagctctcagtctaaaaagta----taatacaagtTCACAAATA-TTAGACTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16185346 255 +  18395747 gggctaagaggatgggctccgacttccctaagtccggggtgtgagtcttgacccttgccgtgtatgaactatacagctttggacaagccatttaatatt-tctgagctcctgtgttttcattaggaaatttggaaaatagcaa---ttgccattataatcgtacctaaat-aatagattgagattaaggttaactaagataattaatttaacagctctcagtctaaaaagta----taatacaagtTCACAAATA-TTAGACTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5191457 254 +  26952557 gggctaagaggatgggctctgacttccctaagtcc-gggtgtgagtcttgacccttgccgtgtatgaactatacagctttggacaagtcatttaatatt-tctgagctcctgtgttttcattaggaaatttggaaaatagcaa---ttgctattataatcatacctaaat-aatagattgatattaaggttaactaagataattaatgtaacagctctcagTCTAAAAAGTA----TAATACAAGTTCACAGATA-TTAGACTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28299263 255 +  82825804 gggctaagaggatgggctctgacttccctaagtctggggtgtgagtcttgacccttgccgtgtatgaactatacagctttggacaagccatttaatatt-tctgagctcctgtgttttcattaggaaatttggaaaatagcaa---ttgctattataatcatacctaaat-aatagattgatattaaggttaactaagataattaatgtaacagctctcagTCTAAAAAGTA----TAATACAAGTTCACAGATA-TTAGACTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3963372 255 -   4237731 gggctaagaggatgggctctgacttccctaagtccgggatgtgagtcttgacccttgccgtgtatgaactatacagctttggacaagccatttaatatt-tctgagctcctgtgttttcattaggaaatttggaaaatagcaa---ttgctattataatcatacctaaat-aatagattgatattaaggttaactaagataattaatgtaacagctctcagTCTAAAAAGTA----TAATACAAGTTCACATATA-TTAGACTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      233567 255 -   1175262 gggctaagaagatgggctctgacttccctaagtccggagtgtgagtcttgacccttgccatgtatgaactatacagcttcggacaagccatttaatatt-tctgagctcctgtgttttcattaggaaatttggaaaatagcaa---ttgctattataataatacctaaat-aatagattgatattaacgttaactaagataaataatgtaacagctctcagTCTAAAAAGTA----TTATATAAGTTCACAAATA-TTAGACTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123567479 249 - 204313951 gggctaagagcatggactctgacttccagaagtcctgggtgtgagttttgacccttgttatgtctgaactatacaggtttggacaagccatttaacatt-tctgagcttctgcgttttcattaggaaagttggaaaatagcag---ttacTATTATAATAATATCAAAATAAATAGATTGACTTTAAGGTTAACTAAGA----TAATCTAACAACTCTTAGTCTAAAAAGTA----TAATACAAGCTCAGAAAC----AGACTGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55622698 252 -  71252344 GGGCTaagagcatggactctgacttctagaagtcctggttgtgagtcttgacccttgttatgtatgaactatacagctttggacaagccatttaatatt-tctgagcttctgtgttttcattaggaaatttggaaaatagcaa---ttactattataataatatcaaaataaatagattgacattaaggttagctaaga----taatgtaacagctcttagtctaaaaagta----taatacaaGCTCAGAAACA-TGAGACTAT
i saiBol1.JH378106         I 200 C 0
s cebCap1.NW_016107829v1     1317277 251 -   1400280 gggct-agagcatggactctgacttccagaagtcctgggtgtgagtcttgacctttgttatgtatgaactacacagctttggacaagtcatttaatatt-tctgagcttctgtgatttcattaggaaatttggaaaatagcaa---ttactattataataatatcaaaataaatagattgacattaaggttaactaaga----taatgtaacaactcttagtctaaaaagta----taatacaagctcagaaaca-ttagactat
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13110513 252 -  42888418 GGGCTaagagcatagactctgacttccagaagacctgggtgtgagtcttgacctttgttatgtatgaactatacagctttggattagccatttagtatt-tctgaacttctgtgttttcattaggaaatttggaaaatagcaa---ttactattataataatatcaaaataaatagattgacattaaggttaactaaga----taatgtaacaactcttagtctaaaaagta----taatacaaGCTCAGAAACA-TTAGACTAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60481348 249 + 108143057 ggacgaggagcgtggactctgagttccagcag-cctgggcatgagtcccgacgcttgtcatgtactgactgtgcagccttggacaagccggttagcagt-tctgagcttctattttctcatgaggaaatttggaa------aa---taattattataataacacctaagtccatagattgacatggaggttaaataaggtaattaatacaacagttcttagtctaataagta----taatacaagctcagaaata-ttagCCTTT
i micMur3.chr12            C 0 I 96
s proCoq1.NW_012155062v1     3511457 253 +  11683526 gggcaaagcatgtggactctgctttccagaagttccgggcaggagtcctgacgcttgtcatatacaaactatgcagctttgcacaagccatttagcagt-tctgagcttctattttctcatgaggaaatttgtaa---aataa---taattattataataacacctaaatccatagattgacatgaaggttaaataaggtaattaatgtaacagctcttagcctaataagta----taatacaagctcaaaaata-ttagccttt
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2995166 245 +   4132165 GGGCCGagagcatggactctgatttccagaaggcctgggcatcagccctgacg-------tgtatgagctatatagctttggacaagccatgtaacatt-tctgagcttctattttcttatgaagaaattaggaaaataataa---taattattatcataacaactaaatgaatagattgacatgaaagt----caagataattcatgtaatagctcttagTTTAATAAGTA----TAATACAAGTTCAAAAACA-TCAAACTTT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55460087 223 +  90702639 -------------GGACTCC----TGCACCAGTC-----------TCCTGATCCTTATCAGGCAAACATtgtacagctttagacaagacacttagccttatctgagccttcat-ttttcat--agaaaactggataataatga---tcgccGTAG--ATAATACCTAAATCAATAGATTGG---GAAGATT---CAAAATAACCAGTGTGATACCTCTTAGCCTAGTAAGTGCTACCAATATTAGTAAAAAAATAGTTAGACATT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14858022 258 +  74389097 gggttaagggtatggactttgatgcttacgaatcttgggcaaaagaatggaccctttccatgcatgagctgtgcagttttggataagccgcttaacctt-tctgagcttctattttatcactggaaaatttggaaaataataatactaattattatagtaatatctaaag-taatgattctcatgaaggt----taagatacttaatgtaatagttcttagtctaataagcaatagtagtacatgctcaaaaatg-ttagATTTA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2550682 214 +   3667625 gggttaagagcatggagtctgattt----------------------------tttgtcatgtaggaactgtgcagctttgaacaaaccacttaatttc-tctgagcttctattttctcactgggaaataatgataatagtaa---ttattattata-------ctatattaatggattaattagagaggtaaacaagataatgaat------AGTCTTGGTCTAATAAGGA----TAA-AAATGCTCAAAAATG-ttaaattta
i dasNov3.JH567306         C 0 C 0

a score=29570.000000
s hg38.chr5_KI270796v1_alt      8967 4 +    172708 TATT
s panTro5.chr5             125119053 4 + 181907262 TATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126456033 4 + 183735486 TATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1647734 4 +   8933513 TATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139778730 4 + 163208435 TATT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122764074 4 + 180051392 TATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124187601 4 + 181584905 TATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16185601 4 +  18395747 TATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5191711 4 +  26952557 TATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28299518 4 +  82825804 TATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3963627 4 -   4237731 TATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      233822 4 -   1175262 TATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123567728 3 - 204313951 TAT-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55622950 3 -  71252344 TAT-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1317528 3 -   1400280 tat-
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13110765 3 -  42888418 TAT-
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3511710 4 +  11683526 tatt
i proCoq1.NW_012155062v1   C 0 I 92
s otoGar3.GL873679           2995411 4 +   4132165 TATT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55460310 3 +  90702639 TTT-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14858280 4 +  74389097 TATT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2550896 4 +   3667625 tatt
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60481597 96 + 108143057 I

a score=922542.000000
s hg38.chr5_KI270796v1_alt      8971 81 +    172708 TTTATTTTAAATGT------TCTAGTTTCCCTACCAATATCCAACCCCTGGCAATCTTTTAATACTGAGTCACCATAGCAATTTGTA
s panTro5.chr5             125119057 81 + 181907262 TTTATTTTAAATGT------TCTAGTTTCCCTACCAATATCCAACCCCTGGCAATCTTTTAATACTGAGTCACCATAGCAATTTGTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126456037 81 + 183735486 TTTATTTTAAATGT------TCTAGTTTCCCTACCAATATCCAACCCCTGGCAATCTTTTAATACTGAGTCACCATAGCAATTTGTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1647738 81 +   8933513 TTTATTTTAAATGT------TTTAGTTTCCCTACCAATATCCAACCCCTGGCAATCTTTTAATACTGAGTCACCATAGCAATTTGTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139778734 81 + 163208435 TTTACTTTAAATGT------TTTAGTTTCCCTACCAATATCCAACCCCTGGCAATCTTTTAATGCTGAGTCACCGTAGCAATTTGTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122764078 81 + 180051392 TTTATTTTAAATGT------TTTAGTTTCCCTACCAATATCCAACCCCTGGCAATCCTTTAATACTGAGTCACCATAGCAATTTGTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124187605 81 + 181584905 TTTATTTTAAATGT------TTTAGTTTCCCTACCAATATCCAACCCCTGGCAATCCTTTAATACTGAGTCACCATAGCAATTTGTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16185605 81 +  18395747 TTTATTTTAAATGT------TTTAGTTTCCCTACCAATATCCAACCCCTGGCAATCCTTTAATACTGAGTCACCATAGCAATTTGTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5191715 81 +  26952557 TTTATTTTAAATGT------TTTAGTTTCCCTACCAATATCCAACCCCTGGCAATCCTTTAATACTGAGTCACCATAGCAGTTTGTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28299522 81 +  82825804 TTTATTTTAAATGT------TTTAGTTTCCCTACCAATATACAACCCCTGGCAATCCTTTAATACTGAGTTACCATAGCAATTTGTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3963631 81 -   4237731 TTTATTTTAAATGT------TTTAGTTTCCCTACCAATATCCAACCCCTGGCAATCCTTTAATACTGAGTCACCATAGCAATTTGTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      233826 81 -   1175262 TTTATTTTAAATGT------TTTAGTTTCCCTACCAATATCCAACCCCTGGCAATCCTTTAATACTGAGTCACCATAGCAATTTGTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123567731 76 - 204313951 -----TTTAAAGGT------TTTAATTTCCCTACCAATAACCAACACCTGGCAGTCCTTTAGTACTGAGTCACCATAGCAATTTGTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55622953 76 -  71252344 -----TTTAAATGT------TTTAATTTCCCTACCAATAACCAACACCTGGCAATCCTTTAGTACTGAGTCACCACAGCAATTTGTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1317531 76 -   1400280 -----tTTAAATGT------TTTAATTTCCCTACCAATAACCAACACCTGGCAATCCTTTAGTACTGAGTCACCATAGCAATTTGTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13110768 76 -  42888418 -----TTTAAATAT------TTTAATTTCCCTACCAATAGCCAACACCTGGCAATCCTTTAGTACTGAGTCACCATAGCAATTTGTA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2995415 77 +   4132165 TTTATTATCATTTT------TTTCATTTTTCTACCAAT----GACCCTGGGAAATTCTTTAATACTATGTCAACATGACAGTTTTTA
i otoGar3.GL873679         C 0 I 17
s mm10.chr18                55460313 58 +  90702639 ACTATTGTCATCAT------TTTAGTTCCCTC-------------------CAGTCCTTT-TTACCAAGTCA--ACAGCAAATCCC-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14858284 83 +  74389097 ---ATTATCATTGTTCTAACTTTAGTTTCCCTCTCAATAAAACTCCTCTGACAATCCTTTACTATTAAGCCAACA-AGCAATTTCTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2550900 66 +   3667625 ---attgttattat------tttaGTTTTCCTACTAATGAC---TCTCTGGCAATTCTATTATAACCAATCG---------TTTATA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60481597 96 + 108143057 I
e proCoq1.NW_012155062v1     3511714 92 +  11683526 I

a score=290401.000000
s hg38.chr5_KI270796v1_alt      9052 25 +    172708 AGTAAGCCATATGAGACCCCAAGTC
s panTro5.chr5             125119138 25 + 181907262 AGTAAGCCATATGAGACCCCAAGTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126456118 25 + 183735486 AGTAAGCCATATGAGACCCCAAGTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1647819 25 +   8933513 AGTAAGCCATATGAGACCCCAAGTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139778815 25 + 163208435 AGTAAGCCATATGAGACCCGAGGTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122764159 25 + 180051392 AATAAGCCATATGAGACCCCAGGTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124187686 25 + 181584905 AATAAGCCATATGAGACCCCAGGTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16185686 25 +  18395747 AATAAGCCATATGAGACCCCAGGTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5191796 25 +  26952557 AATAAGCCATATGAGACCCCAGGTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28299603 25 +  82825804 AATAAGCCATATGAGACCCCAGGTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3963712 25 -   4237731 AATAAGCCATATGAGACCCCAGGTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      233907 25 -   1175262 AATAAGCCATATGAGACCCCAGGTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123567807 25 - 204313951 AATAAGCCATATGAGATCCCAGGTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55623029 25 -  71252344 AATAAGCCATATGAGATCCCCGGCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1317607 25 -   1400280 AATAAGCCATATGAGATCCCAGGTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13110844 25 -  42888418 AATAAGCCATATGAGATCCCAGGTC
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55460371 25 +  90702639 TGTAAGTCACCTGTTACCTCATATC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14858367 24 +  74389097 -AGAAGTCGTATGTGACCCCAAGTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2550966 19 +   3667625 ------GGGTGTCAGAGAGCAGGTC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60481597 96 + 108143057 I
e proCoq1.NW_012155062v1     3511714 92 +  11683526 I
e otoGar3.GL873679           2995492 17 +   4132165 I

a score=690055.000000
s hg38.chr5_KI270796v1_alt      9077 48 +    172708 TACCAGTTGCATGCCTGGGAACCATCACACAAGAGAAAGGC---AGA---AGAA
s panTro5.chr5             125119163 48 + 181907262 TACCAGTTGCATGCCTGGGAACCATCACACAAGAGAAAGGC---AGA---AGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126456143 48 + 183735486 TACCAGTTGCATGCCTGGGAACCATCACACAAGAGAAAGGC---AGA---AGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1647844 48 +   8933513 TACCAGTTGCATGCCTGGGAACCATCACACAAGAGAAAGGC---AGA---AGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139778840 48 + 163208435 TACCAGTTGCATGGCTGGGAACCATCACACAAGAGAAAGGC---AGA---AGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122764184 48 + 180051392 TACCAGTTGCATGCCTGGGAACCATCACACAAGAGAAAGGC---AGA---AGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124187711 48 + 181584905 TACCAGTTGCATGCCTGGGAACCATCACACAAGAGAAAGGC---AGA---AGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16185711 48 +  18395747 TACCAGTTGCATGCCTGGGAACCATCACACAAGAGAAAGGC---AGA---AGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5191821 48 +  26952557 TACCAGTTGCATGCCTGGGAACCATCACACAAGAGAAAGGC---AGA---AGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28299628 48 +  82825804 TACCAGTTGCATGCCTGGGAACCATCACACAAGAGAAAGGC---AGA---AGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3963737 48 -   4237731 TACCAGTTGCGTGCCTGGGAACCATCACACAAGAGAAAGGC---AGA---AGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      233932 48 -   1175262 TACCAGTTGCATGCCTGGGAACCATCACACAAGAGAAAGGC---AGA---AGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123567832 51 - 204313951 TATCGGTTGCATGCCTGGGAATCATCACACAAGAGAAAGGC---AGAGGAAGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55623054 51 -  71252344 TGTCAGTTGCATGCCTGGGAATCATCACGCAAGAGAAAGGC---AGAGGAAGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1317632 51 -   1400280 TGTCAGTTGCATGCCTGGGAATCATCATACAAGAGAAAGGC---AGAGGAAGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13110869 51 -  42888418 TATCAGTTGCATGCCTGGGAATCATCACACAAGAGAAAGGC---AGAGGGAGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60481693 48 + 108143057 TACCAGTTGCATACCCAGGAGCCACCACACAAGAGGAAGGC---AGG---AGAA
i micMur3.chr12            I 96 I 270
s proCoq1.NW_012155062v1     3511806 48 +  11683526 TACCAGTTGCATACCCAGGAGCCATCACACAAGAGGAAGGC---AAG---AGGA
i proCoq1.NW_012155062v1   I 92 I 3
s mm10.chr18                55460396 50 +  90702639 TATTAACTGTACGAA-GGAAGTTACTTAACAGGAGGAAGAC---AGGGAAAGAA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14858391 47 +  74389097 TACCACTTGCATGCCTTG-AGCAGTTACATAAGAGGGAGGC---AGG---AAAA
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2550985 43 +   3667625 TACCAGCTGTCTGCC--------ATCATGGAAGAGGAAGGCTAGAAA---AGAA
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           2995492 17 +   4132165 I

a score=1014197.000000
s hg38.chr5_KI270796v1_alt      9125 81 +    172708 -TGGCATTTGAAAATTAAATC--AAATTTTCATGTGCTGACTATAAACTCTAACTTCTATGAAGAACTGAAGGA-TTTATCCCT-C
s panTro5.chr5             125119211 81 + 181907262 -TGGCATTTGAAAATTAAATC--AAATTTTCATGTGCTGACTATAAACTCTAACTTCTATGAAGAACTGAAGGA-TTTATCCCT-C
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126456191 81 + 183735486 -TGGCATTTGAAAATTAAATC--AAATTTTCATGTGCTGACTATAAACTCTAACTTCTATGAAGAACTGAAGGA-TTTATCCCT-C
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1647892 83 +   8933513 -TGGCATTTGAAAATTAAATCAGAAATTTTCATGTGCTAACTATAAACTCTAACTTCTATGAAGAACTGAAGGA-TTTATCCCT-C
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139778888 84 + 163208435 -TGGCATTTGAAAATTAAATCAGAAATTTTCATGTGCTGGCTATAAACTCTAACTTCTATGAAGAACTCAAAGA-TTTATCCCTCC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122764232 84 + 180051392 -TGGCATTTGAAAATTAAATCGGAAATTTTCATGTGCTGACTATAAACTCTAACTTCTATGAAGAACTCAAGGA-TTTATGCTTCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124187759 84 + 181584905 -TGGCATTTGAAAATTAAATCGGAAATTTTCATGTGCTGACTATAAACTCTAACTTCTATGAAGAACTCAAGGA-TTTATGCTTCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16185759 84 +  18395747 -TGGCATTTGAAAATTACATCGGAAATTTTCATGTGCTGACTATAAACTCTAACTTCTATGAAGAACTCAAGGA-TTTATCCTTCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5191869 84 +  26952557 -TGGCATTTGAAAATTAAATTGGAAATTTTCATGTGCTGACTATAAACTCTAACTTCTATGAAGAACTCAAGGA-TTTATCCTTCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28299676 84 +  82825804 -TGGCATTTGAAAATTAAATCGGAAATTTTCATGTGCTGACTATAAACTCTAACTTCTATGAAGAACTCAAGGA-TTTATCCTTCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3963785 84 -   4237731 -TGGCATTTGAAAATTAAATCGGAAATTTTCATGTGCTGACTATAAACTCTAACTTCTATGAAGAACTCAAGGA-TTTATCCTTCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      233980 84 -   1175262 -TGGCATTTGAAAATTAAATCAGAAATTTTCGTGTGCTGACTATAAACTCTAACTTCTATGAAGAACTCAAGGA-TTTATCCTTCC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123567883 84 - 204313951 -TGGCATTTGAAAGTTGAATCAGAAATTTTCATATGCTGACTATAAACTTTAACTTCTATAAAGAACCCTAGGA-TTTATCCCTCC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55623105 84 -  71252344 -TGGCATTTGAAAGTTTAATCAGAAATTTTCATGTGCTGACTATAAACTTTAACTTCTATAAAGAACTCTAGGA-TTTATCCCTCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1317683 84 -   1400280 -TGGCATTTGAAAGTTAAATCAGAAATTTTCATATGCTGACTATAAACTTTAACTTCTATAAAGAACTCTAGGA-TTTATCCCTCC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13110920 84 -  42888418 -TGGCATTTGAAAGTTAAATCAGAAATTTTCATATGCTGACTATAAACTTTAACTTCTATAAAGAACTCTAGGA-TTTATCCCTCC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3511857 83 +  11683526 -GGGAATTTCAAAATTAAATCACAAATTTACATTCACAGACTATAAACTCTAACCTCTCTGAAGGACTCAAGGA-TTTGTCTCTC-
i proCoq1.NW_012155062v1   I 3 I 392
s mm10.chr18                55460446 82 +  90702639 -GGATATTTTAAAAGTAAACCTGAAATTTAAATAAGCTGACCATGTAC--CAATTTCTACAAAGAACCAAAGGCTTTTGTCTCTC-
i mm10.chr18               C 0 I 1
s canFam3.chr11             14858441 80 +  74389097 -TACTATTTCAAAATC-AGTCAGAAATTTATGTATGTTG--TATGAACTCTAACTTCCCTGGAGAACTC-AGGC-TTTGTCTCTCC
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2551028 80 +   3667625 TGGATATTTGAAAATTAAACCAGAAAATG--ATACATTAGTTAT--ACTCTAACTTCTAAGAAGAATGCAAGGC-TTTGTCCCTC-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60481741 270 + 108143057 I
e otoGar3.GL873679           2995492 17 +   4132165 I

a score=1369539.000000
s hg38.chr5_KI270796v1_alt      9206 123 +    172708 --TATTTGC-ATTAATTCCACCCCCAACCAGTGAGAACTGTGAT-ATATGCATCAAGGGCAAGGGCAACAGGGCCACCCCACTCCAGGGCACCTCGCAAAG-AAAGAGGTCAAGGGCTCTTCC-TGCTG
s panTro5.chr5             125119292 123 + 181907262 --TATTTGC-ATTAATTCCACCCCCAACCAGTGAGAACTCTGAT-ATATGCATCAAGGGCAAGGGCAACAGGGCCACCCCACTCCAGGACACCTCGCAAAG-AAAGAGGTCAAGGGCTCTTCC-TGCTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126456272 123 + 183735486 --TATTTGC-ATTAATTCCACCCCCAACCAGTGAGAACTCTGAT-ATATGCATCAAGGGCAAGGGCAACAGGGCCACCCCACTCCAGGACACCTCGCAAAG-AAAGAGGTCAAGGGCTCTTCC-TGCTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1647975 123 +   8933513 --TATTTGC-ATTAATTCCACCCCCAACCAGTGAGAACTCTGAT-ATATGCATCAAGGGCAAGGGCAACAGGGCCACCTCACTCCAGGGCACCTCGCAAAG-AAAGAGGTCACGGGCTCTTCC-TGCTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139778972 123 + 163208435 --TATTTGC-ATTCATTCCACCCCCAACCAGGGAGAACTCTGAT-ACATGCATCAAGGGCAAGGGCAATAGGGCCACCCCACTCCAGGGCACCTCGTGAAG-AAAGAGGTCAAGGGCTCTTCC-TGCTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122764316 123 + 180051392 --TACTTGC-ATTCATTCCACCCCCAACCAGTGAGAACTCTGAT-ATGTGCATCAAGGGCAAGGGCAACAGGGCCACCCCACTCCCGGGCACCTCGTGAAG-AAAGAGGTCGAGGGCTCTTCC-TGCTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124187843 123 + 181584905 --TACTTGC-ATTCATTCCACCCCCAACCAGTGAGAACTCTGAT-ATGTGCATCAAGGGCAAGGGCAACAGGGCCACCCCACTCCCGGGCACCTCGTGAAG-AAAGAGGTCGAGGGCTCTTCC-TGCTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16185843 123 +  18395747 --TACTTGC-ATTCATTCCACCCCCAACCAGTGAGAACTCTGAT-ATGTGCATCAAGGGCAAGGGCAACAGGGCCACCCCACTCCCGGGCACCTCGTGAAG-AAAGAGGTCGAGGGCTCTTCC-TGCTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5191953 123 +  26952557 --TACTTGC-ATTCATTCCACCCCCAACCAGTGAGAACTCTGAT-ATGTGCATCAAGGGCAAGGGCAACAGGGCCACCCCACTGCCGGGCACCTCGTGGAG-AAAGAGGTCGAGGGCTCTTCC-TGCTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28299760 123 +  82825804 --TACTTGC-ATTCATTCCACCCCCAACCAGTGAGAACTCTGAT-ATGTGCATCAAGGGCAAGGGCAACAGGGCCACCCCACTCCCGGGCACCTCGTGAAG-AAAGAGGTCGAGGGCTCTTCC-TGCTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3963869 123 -   4237731 --TACTTGC-ATTCATTCCACCCCCAACCAGTGAGAACTCTGAT-ATGTGCATCAAGGGCAAGGGCAACAGGGCCACCCCACTGCCGGGCACCTCGTGAAG-AAAGAGTTCGAGGGCTCTGCC-TGCTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      234064 123 -   1175262 --TACTTGC-ATTCATTCCACCCCCAACCAGTGAGAACTCTGAT-ATATGCATCAAGGTCAAGGGCAACAGGGCCACCCCACTCCTGGGCACCTCGTGAAG-AAAGAGGTCAAGGGCTCTTTC-TGCTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123567967 124 - 204313951 --TACTTGC-ATTCATTCTACCCCCAGCCAGTGAGAACTCTGATAATGTGCATCAAAAGCAAAGGCAATAGGGACACCCCAGTCCAGGGCACCTCGCAAAG-AAAGAGGTCAAAGGCTCTTCC-TGCTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55623189 124 -  71252344 --TACTTGT-ATTCATTCCACCCCCAGCCAATGAGAACTCTGATAATGTGCATCAAAGGCAAAAGCAGCAGGGACACCCCACTCCAGAGCACCTCGCAAAG-ACAGAGGTCAAGGGCTTCTCC-TGCTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1317767 124 -   1400280 --TGCTTGC-ATTCATTCCACCCCCAGCCAGTGAGAACTCTGATAATGTGCATCAAAGGCAAAAGCAATAGGGACACCCCACTCCAGAGTACCTCGCGAAG-AAAGAAGTCAAGGGCTTTTCC-TGCTG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13111004 124 -  42888418 --TACTTGC-ATTCATTCCACCCCCAGCCAGTGAGAACTCTGATAATGTGCATCAAAGGCAAAGGCAGTAGGGACACCCCACTCCAGGGCACCTCTTGAAG-AAAGAGGTCAAGGGCTTTTCC-TGCTG
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55460529 108 +  90702639 --TATTTGT-GACCAGGCTGTTCTCAACCA-TGGGAAATCCAAT-ACACCCATCAAGAGCACACACACTATGACCACCACCCTGTAGGGC---------AG-GGAGAGGGC-----CTCTTCA-TGTTG
i mm10.chr18               I 1 I 524
s canFam3.chr11             14858521 122 +  74389097 --TATTTACAATTCTTTTCACCCCCAGCCGG-GGTACCTCTGGT-GTGTGCATCAA--GCAAAGACAATAAGGTCACTACAATA-AGGATAGTGGGAAAAGAAAAGAGGTTAAGGGCTCTTCCTTGCCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2551108 122 +   3667625 CCATCTAGC-A--CATTCTACCCCCAAGGAGGGAAACCTGTGAC-AAGCGTGTCAAGGGTGAGGGCAG-AGGGTCACCTCCCCAAAGGGCAGTAGGAGGAG-TAAAGGGTTAAGGGCTTTCCC-TGCCA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60481741 270 + 108143057 I
e proCoq1.NW_012155062v1     3511940 392 +  11683526 I
e otoGar3.GL873679           2995492  17 +   4132165 I

a score=709209.000000
s hg38.chr5_KI270796v1_alt      9329 59 +    172708 GAAGAGTACTCTTTAGACTGGTTTCCTT---CAGGATTTATTTTCTCTTTGGAATATGTGCA
s panTro5.chr5             125119415 59 + 181907262 GAAGAGTACTCTTTAGACTGGTTTCCTT---CAGGATTTATTTTCTCTTTGGAATATGTGCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126456395 59 + 183735486 GAAGAGTACTCTTTAGACTGGTTTCCTT---CAGGATTTATTTTCTCTTTGGAATATGTGCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1648098 59 +   8933513 GAAGAGTACTCTTTAGACTGGTTTCCTT---CAGGATTTATTTTCTCTTTGGAATATGTGCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139779095 59 + 163208435 GAAGAGTGCTCTTTAGACTGGTTTCCTT---CAGGATTTATTTTCTCTTTGGAATATGTGCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122764439 59 + 180051392 GAAGACTACTCTTTAGACTAGTTTCCTT---CAGGATTTATTTTCTCTTTGGAATATGTGCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124187966 59 + 181584905 GAAGACTACTCTTTAGACTAGTTTCCTT---CAGGATTTATTTTCTCTTTGGAATATGTGCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16185966 59 +  18395747 GAAGACTACTCTTTAGACTAGTTTCCTT---CAGGACTTATTTTCTCTTTGGAATATGTGCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5192076 59 +  26952557 GAAGAGTACTCTTTAGACTAGTTTCCTT---CAGGATTTATTTTCTCTTTGGAATATGTGCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28299883 59 +  82825804 GAAGAGTACTCTTTAGACTAATTTCCTT---CAGGATTTATTTTCTCTTTGGAATATGCGCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3963992 59 -   4237731 GAAGAGTACTCTTTAGACTAGTTTCCTT---CAGGATTTATTTTCTCTTTGGAATATGTGCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      234187 59 -   1175262 CAAGAGTACTCTTCAGACTGGTTTCCTT---CAGGATTTATTTTCTCTTTGGAATATGTGCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123568091 59 - 204313951 GAATAGTGCTCTTTAGGATGGTTTCCTT---CAGGATTTATTTTCTCTTTGGAATATGTGCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55623313 59 -  71252344 GAAGAGTGCTGTTTAGGATGGTTTCCTT---CAGGATTTATTTTCTCATTGGAATATGTGCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1317891 59 -   1400280 GAATAGTGCTCTTTAGGATGGTCTCCTT---CAGGATTTATTTTCTCTTTGGAATATGTGCA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13111128 59 -  42888418 GAAGAGTACTCTTTAGGATGGTTTCCTT---CAGGATTTATTTTCTCTTTGGAATATGTGCA
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55461161 54 +  90702639 GAAAGGCAC-CATTAGCTTTGCTTCCAT----AGGATTCA---GCTCTTTGGGAGACTTTCC
i mm10.chr18               I 524 C 0
s canFam3.chr11             14858643 59 +  74389097 GCAGAGTATTCTTTAAACTCGTTTCCTT---TAGGATTTATTTTCTCTTTGGAATttcttct
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2551230 60 +   3667625 GTGGAGTACTCTTTAGACCTGTTTCCTTTTTCAG--TTCTTTTCCTATTTGGAATATCTTCC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60481741 270 + 108143057 I
e proCoq1.NW_012155062v1     3511940 392 +  11683526 I
e otoGar3.GL873679           2995492 17 +   4132165 I

a score=87002.000000
s hg38.chr5_KI270796v1_alt      9388 7 +    172708 -TTTTCTT
s panTro5.chr5             125119474 7 + 181907262 -TTTTCTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126456454 7 + 183735486 -TTTTCTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1648157 7 +   8933513 -TTTTCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139779154 7 + 163208435 -TTTTCTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122764498 7 + 180051392 -TTTTCTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124188025 7 + 181584905 -TTTTCTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16186025 7 +  18395747 -TTTTCTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5192135 7 +  26952557 -TTTTCTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28299942 7 +  82825804 -TTTTCTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3964051 7 -   4237731 -TTTTCTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      234246 7 -   1175262 -TTTTCTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123568150 7 - 204313951 -TTTTCTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55623372 7 -  71252344 -TTTTCTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1317950 7 -   1400280 -TTTTCTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13111187 7 -  42888418 -TTTTCTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60482011 7 + 108143057 -TTTTTTT
i micMur3.chr12            I 270 C 0
s mm10.chr18                55461215 7 +  90702639 -CTTCTCT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14858703 6 +  74389097 -ctttct-
i canFam3.chr11            I 1 I 174
s dasNov3.JH567306           2551290 6 +   3667625 TTTTTC--
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3511940 392 +  11683526 I
e otoGar3.GL873679           2995492 17 +   4132165 I

a score=1128480.000000
s hg38.chr5_KI270796v1_alt      9395 86 +    172708 CTTCAAATTTCTTCATGTTAGTTTGTCCC---TCCTTCTCTCCTAAGCTACAAGTAAGGGACTTAACATTG-TCTCTTGTTTGGGAAGAG
s panTro5.chr5             125119481 86 + 181907262 CTTCAAATTTCTTCATGTTAGTTTGTCCC---TCCTTCTCTCCTAAGCTACAAGTAAGGGACTTAACATTG-TCTCTTGTTTGGGAAGAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126456461 86 + 183735486 CTTCAAATTTCTTCATGTTAGTTTGTCCC---TCCTTCTCTCCTAAGCTACAAGTAAGGGACTTAACATTG-TCTCTTGTTTGGGAAGAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1648164 86 +   8933513 CTTCAAATTTCTTCATGTTAGTTTGTCCC---TCCTTCTCTCCTAAGCTACAAGTAAGGGACTTAACATTG-TCTCTTGTTTGGGAAGAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139779161 86 + 163208435 CTTCAAATTTCTTCATGTTAGTTTGTCCC---TCCTTCTCTCCCAAGCTGCAAGTCAGGGACTTAACATTG-TCCCTTGTTTGGGAAGAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122764505 89 + 180051392 CTTCAAATTTCTTCATGTTAGTTTGTCCCTCCTCCTTCTCTCCCAAGCTACAAGTAAGGGACTTAACATTG-TATCTTGTTTGGAAAGAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124188032 89 + 181584905 CTTCAAATTTCTTCATGTTAGTTTGTCCCTCCTCCTTCTCTCCCAAGCTACAAGTAAGGGACTTAACATTG-TATCTTGTTTGGAAAGAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16186032 89 +  18395747 CTTCAAATTTCTTCATGTTAGTTTGTCCCTCCTCCTTCTCTCCCAAGCTACAAGTAAGGGACTTAACATTG-TAGCTTGTTTGGAAAGAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5192142 88 +  26952557 CTTCAAATTTCTTCATGTTAGTTTGTCCCTCTTCCTTCTCTCCCAAGCTACAAGTAAGGGACTTGACATTG-TATCTTGTTTGGAAAGA-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28299949 89 +  82825804 CTTCAAATATCTTCATGTTAGTTTGTCCCTCTTCCTTCTCTCCCAAGCTACAAGTAAGGGCCTTAACATTG-CATCTTGTTTGGAAAGAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3964058 88 -   4237731 CTTCAAATTTCTTCATGTTAGTTTGTCCCTCTTCCTTCTCTCCCAAGCTACAAGTAAGGGACTTGACATTG-TATCTTGTTTGGAAAGA-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      234253 89 -   1175262 CTTCAAATTTCTTCATGTTAGTTTGTCCCTCCTCCTTCTCTCCCAAGCTACAAGTAAGAGACTTAACATTG-TATCCTGTTTGGAAAGAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123568157 89 - 204313951 CTTCAAATTTCTTCCTATTAGTTTGTCCTTCCTTCTTCTCTCCCAAGCTACAAGTAAGGGACTTAACATTG-TCTCTTGTTTGGGAAGCG
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55623379 89 -  71252344 CCTCAAATTTCTTCATGTTAGTTTGTCCTTCCTTCTTCTCTCCCAAGCTGCAAGTAAGGGACTTAACATTG-TCTCTTGTTTGGGAAGAG
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107829v1     1317957 83 -   1400280 TCTCAAATTTCTTCATGTTAGTTTGTCCTTCCTTCTTCTCTCCCAAGCTGCAAGTAAGGGACTTAACAG-------TTGTTTGGGAAGAG
i cebCap1.NW_016107829v1   C 0 I 1
s aotNan1.NW_018505940v1    13111194 89 -  42888418 CTTCAAATTTCTTCATGTTAGTTTGTCCTTCCTTCTTCTCTCCCAAGCTTCAAGTAAGGGACTTAACATTG-TCTCTTGTTTGGGAAGAG
i aotNan1.NW_018505940v1   C 0 I 1
s micMur3.chr12             60482018 89 + 108143057 CCTCAAATTTCTTCATATTATTTTGTCCCTCCTTGTTCTCTTCCAAGCTATAGGTAAGGGTCTTAAAATTG-TCTCCTATTTGGGAAGAG
i micMur3.chr12            C 0 I 130
s mm10.chr18                55461222 90 +  90702639 CTTAAAATGTCTTCATAATCACCTTTCTGTCTCTTGTCTCTTTCAAGCTACAAGGAAGGGATCTGGAACTGCTGCCTGGTTTGGGAGGAG
i mm10.chr18               C 0 I 1
s canFam3.chr11             14858883 89 +  74389097 CTTCAAATTCCTCCCTATTACTTTGTTGCTCCATCTTCTCTCCCAAGCTACTGCTGAGAGACTTAAAGCTG-TCTCCTGTTTGGGCAGAG
i canFam3.chr11            I 174 I 1
s dasNov3.JH567306           2551296 82 +   3667625 CTTCAACTTGCTTTATATTACTCTT-------TGCTTCCCTCCCAAGCTACTGGTGAGGGACTTAAAGCTG-CAGTTTGTTTGAAAAGAG
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3511940 392 +  11683526 I
e otoGar3.GL873679           2995492 17 +   4132165 I

a score=1253010.000000
s hg38.chr5_KI270796v1_alt      9481 130 +    172708 -TTTCTGAAATGGG----AGATTCA--CAA--CTCAGATGGGATCCACGGGAAAGAAACAAGGGAAGCTGTGCTCTAGGGGGAAGGACTTTT---CCATGCATAGGATTTTCACTTTACTATGTGGTTATGGCTCAAGGACA
s panTro5.chr5             125119567 130 + 181907262 -TTTCTGAAATGGG----AGATTCA--CAA--CTCAGATGGGATCCATGGGAAAGAAACAAGGGAAGCTGTGCTCTAGGGGGAAGGACTTTT---CCATGCATAGGATTTTCACTTTACTATGTGGTTATGGCTCAAGGACA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126456547 130 + 183735486 -TTTCTGAAATGGG----AGATTCA--CAA--CTCAGATGGGATCCATGGGAAAGAAACAAGGGAAGCTGTGCTCTAGGGGGAAGGACTTTT---CCATGCATAGGATTTTCACTTTACTATGTGGTTATGGCTCAAGGACA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1648250 130 +   8933513 -TTTCTGAAATGGG----AGATTCA--CAA--CTCAGATGGGATCCATGGGAAAGAAGCAAGGGAAGCTGTGCTCTAGGGGGAAGGACTTTT---CCATGCATAGGATTTTCACTTTACTATGTGGTTATGGCTCAAGGACA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139779247 132 + 163208435 -TTTCTGAAATGGGGA--AGATTCA--CAA--CTCAGATGGGATCCATGGGAAAGAAACGAGGGAAGCTGTGCTCTAGGGGGAAGGACTTTT---CCTTGCATAGGATTTTCACTTTACTGTGTGGTTATGGCTCAAGGACA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122764594 116 + 180051392 -TTTCTGAAATGGGAA--AGCTTCA--CAA--CTCAGATGGGATCCATGGGAAAGAAACA----------------AGGGGGAAGGACTTTT---CCTTGTATAGGATTTTCACTTTACTGTGTGGTTATGGCTCAAGGACA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124188121 116 + 181584905 -TTTCTGAAATGGGAA--AGCTTCA--CAA--CTCAGATGGGATCCATGGGAAAGAAACA----------------AGGGGGAAGGACTTTT---CCTTGTATAGGATTTTCACTTTACTGTGTGGTTATGGCTCAAGGACA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16186121 116 +  18395747 -TTTCTGAAATGGGAA--AGCTTCA--CAA--CTCAGATGGGATCCATGGGAAAGAAACA----------------AGGGGGAAGGACTTTT---CCTTGTATAGGATTTTCACGTTACTGTGTGGTTATGGCTCAAGGACA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5192230 116 +  26952557 -TTTCTGAAATGGGAA--AGCTTCA--CAA--CGCAGATGGGATCCATGGGAAAGAAACA----------------AGGGGGAAGGACTTTT---CCTTGCATAGGATTTTCACTTTACTGTGTGGTTATGGCTCAAGGACA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28300038 116 +  82825804 -TTTCTGAAATGGGAA--AGCTTCA--CAA--CTCAGATGGGATCCATGGGAAAGAAACA----------------AGCAGGAAGGACTTTT---CCTTGCATAGGATTTTCACTTTACTGTGTGGTTATGGCTCAAGGACA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3964146 116 -   4237731 -TTTCTGAAATGGGAA--AGCTTCA--CAA--CTCAGATGGGATCCATGGGAAAGAAACA----------------AGGGGGAAGGACTTTT---CCTTGCATAGGATTTTCACTTTACTGTGTGGTTATGGCTCAAGGACA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      234342 116 -   1175262 -TTTCTGAAATGGGAA--AGCTTCA--CAA--CTCAGATGGGATCCGTGGGAAAGAAACA----------------AGGGGGAAGGACTTTT---CCTCGCATAGGATTTTCACTTTCCTGTGTGGTTATGGCTCAAGGACA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123568247 130 - 204313951 -TTTCTGAAATGGGAA--AGCCTCA--CAG--CTCAGATGGGATCCATGGGAAACAAACAAGGGAAGCTGTGCTCTGGGCAGAAGGACTTTT---CCTTGCACAGAATTT--ACTTTACTACGTCATTATGGCTCATGGACA
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55623469 130 -  71252344 -TTACTGAAATGGGAA--AGCCTCA--CAG--CTCAGATGGGATCCATGGGAAAGAAACAAGGGAAGCTGTGCTCTTGGGGGAAGGACTTTT---CCTTGCACAGGATTT--ACTTGACTGTGTCATTATGGCTCATGGACA
i saiBol1.JH378106         I 1 C 0
s cebCap1.NW_016107829v1     1318041 130 -   1400280 -TTTCTGAAATGGGAA--CGCCTCA--CGG--CTCAGATGGGATCCATGGGAAAGAAACAAGGGAAGCAGTGCTCTGGTGGGAAGGACTTTT---CCTTGCACGGGATTT--ACTTTATTGTGTCATTATGGCTTATGGACA
i cebCap1.NW_016107829v1   I 1 C 0
s aotNan1.NW_018505940v1    13111284 130 -  42888418 -TTTCTGAAATGGGAA--AGCCTCA--CAG--CTCAGATGGGATCCATGGGAAAGAAACAAGGGAAGCTGTGCTCTGGGCGGAAGGACTTTT---CCTTGCACAGGATTT--ACTTTACTGTGTCATTACGGCTCATGGACA
i aotNan1.NW_018505940v1   I 1 C 0
s mm10.chr18                55461313 125 +  90702639 -TTAGTGCCATGGGAG--GGATGGAGCTAA--CACAAACAAGACCCACCAGTGAGGAACC-AGGGTCTTCTACTCTGGGAAGGGGTCCTTTT---CTCTGTATTGGACGT--------CTCTGCTCTTGGGATTTAAGAATC
i mm10.chr18               I 1 C 0
s canFam3.chr11             14858973 137 +  74389097 -CTTCTGAAATGGAAAGGTGCTGAA--AGA--CTGGGATGAGATCTATTGGAAAGGAACAAAGGAAACTCTGCTCTAGAAAGAGAATCTTTTTTCCCTTGTGTAGGGCTTTCATTTCACTGTGTTGGTTTACCTCAAGGATC
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2551378 137 +   3667625 TCTTCTGAGCTGGGAA--GGCCTTG--AAAATTTGGGATGGGATTCACTGGAAAGTAACAAGGAAGTTCTTGCTTCACAGGGAAGGTTCTTTCT-CCCTGTGTTGGGTTTCCACTTCGTTGTGTTGTTATAGGTCAAGGACT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60482107 130 + 108143057 I
e proCoq1.NW_012155062v1     3511940 392 +  11683526 I
e otoGar3.GL873679           2995492  17 +   4132165 I

a score=3241555.000000
s hg38.chr5_KI270796v1_alt      9611 232 +    172708 AAAACCAAGGAAGAGAGGCCAATGGGATCTGTGTT-CCTTTAGCCAGCAAGGTAGGAGACCACAAAGGGTCCAGAGACTCTAGA-ATTAATTAAGAGTTCACTCACTGAGAGGATCTCTTCTGCAGTAGCTATTTTTCAGAAATATCTGGGTGTGGTATTCAGTGATGAAGGGTTCCAGGATTCTAATTCTTTTAACATACTCTGGAGTATGAGGGAACAGAATTGATGTTTAT
s panTro5.chr5             125119697 232 + 181907262 AAAACCAAGGAAGAGAGGCCAATGGGATCTGTGTT-CCTTTAGCCAGCAAGGTAGGAGACCACAAAGGGTCCAGAGACTCTAGA-ATTAATTAAGAGTTCACTCACTGAGAGGATCTCTTCTGCAGTAGCTATTCTTCAGAAATATCTGGGTGTGGTATTCAGTGATGAAGGGTTCCAGGATTCTAATTCTTTTAACATACTCTGGAGTATGAGGGAACAGAATTGATGTTTAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126456677 232 + 183735486 AAAACCAAGGAAGAGAGGCCAATGGGATCTGTGTT-CCTTTAGCCAGCAAGGTAGGAGACCACAAAGGGTCCAGAGACTCTAGA-ATTAATTAAGAGTTCACTCACTGAGAGGATCTCTTCTGCAGTAGCTATTCTTCAGAAATATCTGGGTGTGGTATTCAGTGATGAAGGGTTCCAGGATTCTAATTCTTTTAACATACTCTGGAGTATGAGGGAACAGAATTGATGTTTAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1648380 232 +   8933513 AAAACCAAGGAAGAGAGGCCAATGGGATCTGTGTT-CCTTTAGCCAGCAAGGTAGGAGACCACAAAAGGTCCAGAGACTCTAGA-ATTAATTAAGAGTTCACTCACTGAGAGGATCTCTTCTGCAGTAGCTATTCTTCAGAAATATCTGGGTGTGGTATTCAGTGATGAAGGGTTCCAGGATTCTAATTCTTTTAACATACTCTGGAGTATGAGGGAACAGAATTGATGTTTAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139779379 232 + 163208435 AAAACCAAGGAAGAGAGGCCAATGGGATCTGTTTT-CCTTTAGCCAGCAAGGTAGGAGACCACAAAGGGTCCAGAGACTCTAGA-ATTAATTAAGAGTTCACTCACTGAGAGGATCTCTTCTGCAGTAGCTATTCTTCAGAAATATCTGGGTGTGGTATTCAGTGATGAAGGGTTCCAGGATTCTAATTCTTTTAATATACTCTGGAGTATGAGGGAACAGAATTGATGTTTAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122764710 233 + 180051392 AAAACCAAGGAAGAGAGGCCAATGGGATCTGTCTT-CCTTTAGCCAGCAAGGGAGGAGACCACAAAGGGTCCAGCAATGCTGGAGATTAATTAAGGTTTCACTCACTGAGAGGATCTCTCCCGCAGTAGCTATTCCTCAAAAATATCTGGGTGTGGTTTTCAGTGATAAAGGATTCCAGGATTCTAATTCTTTTAATATACTCTGGAGTATGAGAGAACAGAATTGATGTTTAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124188237 232 + 181584905 AAAACCAAGGAAGAGAGGCCAATGGGATCTGTCTT-CCTTTAGCCAGCAAGGGAGGAGACCACAAAGGGTCCAGAGATTCTAGA-ATTAATTAAGGTTTCACTCACTGAGAGGATCTCTCCCGCAGTAGCTATTCCTCAAAAATATCTGGGTGTGGTTTTCAGTGATAAAGGATTCCAGGATTCTAATTCTTTTAATATACTCTGGAGTATGAGAGAACAGAATTGATGTTTAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16186237 232 +  18395747 AAAACCAAGGAAGAGAGGCCAATGGGATCTGTCTT-CCTTTAGCCAGCAAGGGAGGAGACCACAAAGGGTCCAGAGATTCTAGA-ATTAATTAAGGTTTCACTCACTGAGAGGATCTCTCCCGCAGTAGCTATTCCTCAAAAATATCTGGGTGTGGTTTTCAGTGATAAAGGATTCCAGGATTCTAATTCTTTTAATATACTCTGGAGTATGAGAGAACAGAATTGATGTTTAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5192346 232 +  26952557 AAAACCAAGGAAGAGAGGCCAATGGGATCTGTCTT-CCTTTAGCCAGCAAGGGAGGAGACCACAAAGGGTCCAGAGACTCTAGA-ATTAATTAAGGTTTCACTCACTGAGAGGATCTCTCCCGCAGTAGCTATTCCTCAAAAATATCTGAGTGTGGTTTTCAGTGATAAAGGATTCTAGGATTCTAATTCTTTTAATATACTCTGGAGTATGAGAGAACAGAATTGATGTTTAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28300154 230 +  82825804 AAAACCAAGGAAGAGAGGCCAATGGGATCTGTCCT-CCTTTAGCCAGCAAGGGAGGAGACCACAAAGGGTCCAGAGATTCTAGA-ATTAATTAAGGTTTCACTCACAGAGAGGATCTCTCCCGCAGTAGCTATTCCTCAAAAATATCTGGGTGTGGTTTTCAGTGATAAAGGATTCCAGGATTCTAATTCTTTTAATATACTCTGGAGTATGAGAGAACAGAATTGATGTTT--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3964262 232 -   4237731 AAAACCAAGGAAGAGAGGCCAATGGGATCTGTCTT-CCTTTAGCCAGCAAGGGAGGAGACCACAAAGGGTCCAGAGACTCTAGA-ATTAATTAAGGTTTCACTCACTGAGAGGATCTCTCCCACAGTAGCTTTTCCTCAAAAATATCTGGGTGTGGTTTTCAGTGATAAAGGATTCCAGGATTCTAATTCTTTTAATATACTCTGGAGTATGAGAGAACAGAATTGATGTTTAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      234458 232 -   1175262 AAAGACAAGGAAGAGAGGCCAATGGGATCTGTCTT-CCTTTAGCCAGCAAAGTAGGAGACCACAAAGGGTCCAGAGACTCTATA-ATTAATTAAGGTTTCACTCACTGAGAGGATCTTTCCCGCAGTAGCTATTCCTCAAAAATATCTGGGTATGGTTTTCAGTGATAAAGGATTCCAGGATTCTAATTCTTTTAATATACTCTGGAGTATGAGAGAACAGAATTGATGTTTAT
i colAng1.NW_012119644v1   C 0 I 334
s calJac3.chr2             123568377 231 - 204313951 AAAACCAAAGAAGAGAGGCCAGTGGGATTTATCTT-CCTTTAGCCAGCAAGGCATGAGACCACAAAGGGTCCAGAGACTCTAGA-ATTAATTAAG-GTTCACTTGCTGAGAGGGTCTTTTCTGCAGTAGCTATTCTTCAGAAAGATCTGGGTGCGGAACTCAGGGATGAAGGGTTCCAGGATTCTAATTCTTTTAACATACTCTGGAGAATGGGGGAACAGAATTAATGTTTAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55623599 232 -  71252344 CAAACCAAGGAAGAGGGGCCAGTGGGATCGGTCTT-CCTTTAGCCAGCGAGGGAGGAGACCACAAAGGGTCCAGAGACTCTAGA-ATTAATTAAGAGTTCACTTGCTGAGAGGATCTTTTCTGCAGTAGCTATTCTTCAGAAATATCTGGGTATGGTATTCAGGGATGAAGGGTTCCAGGATTCTAATTCTTTTAACATACTCTGGAGCATGGGGGAACAGAATGAATGTTTAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1318171 232 -   1400280 AAAACCAAGGAAGAGAGGCCAGTGGGATCTGTCTT-CCTTTAGCCAGCAAGGTAGGACACCACAAAGGGCCCAGAGACTCTAGA-ATTAATTAAGAGTTCACTTGCTGAGAGGATCTTTTCTGCAGTAGCTATTCTTCAGAAATATTTGGGTGTGGTATTCAGGGATGAAGGGTTCCAGGATTCTAATTCTTTTAGCATACTCTGGAGCACAGGGGAACAGAATTAATGCTTAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13111414 232 -  42888418 AAAACCAAGGAAGAGAGGCCAGTGAGATCTGTCTT-CCTTTAGCCAGCAAGGTGGGAGACCACAAAGGGTCCAGAGACTCAAGA-ATTAATTAAGAGTTCACTTGCTGAGAGGATCTTTTCTGCAGTAGCTATTCTTCAGAAATATCTGGGTGTGGTATCCAGGGGTGAAGGGTTCCAGGATTCTAATTCTTTTGACATACTCTGGAGCATGGAGGAACAGAATTAATGTTTAC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60482237 232 + 108143057 AAAACCAAGGAAAAGAGACCAGTGGGACCTGTCTT-CCTTTAGCCAGCAAGGTTGGATGCCACAAAGGGTCCCGAGACTCCAGA-ATTAGTGAAGAGTTCACTTGCTGAGAGGATCTTTTCTGCCGTAGCTGTTCTTCAAAATCATCTGGGTGTGGAATGCAGTAACTTGGGGTTTCAGGATTCTAATTCTTTTAGTATACTCAGGAGTATCGGGTAACAGAAATATTGTTTAT
i micMur3.chr12            I 130 C 0
s proCoq1.NW_012155062v1     3512332 231 +  11683526 AAAACCAAGGGAAAGAGACCAACGGGACCTGTCTT-CCTTTAGCCAGCAACGTAGGAGGCCACAAAGCAT-CAGAGACTCCAGA-ATCAGTGAAGAGTTCACTTGCTGAGAGGATTTTTTCTGCCGTTGCTGTTCTTCATAATTATCTGGGTGTGGAATCCAGTAATTCGGAGTTTTGGGATTCTAATTCTTTTAGTATACTCTGGAGTATCGGGGAACAGAAATATTGCTTAT
i proCoq1.NW_012155062v1   I 392 C 0
s mm10.chr18                55461438 197 +  90702639 AATACCAAGGACAAGAGACAGGTGGAATCTACCTT-TCTTTG-----------AAGAGACAAGAAAGGATCTGG--GTTCCTGA----AACTGAGAGTTCAGTCACTGAGAGG----------TAGCAAGAACCCTTCAGAATTGTCTAAGTACCGT-----GGAATGCAGGCTTCCAGAATTCCCCATCCTTTCTTACCCTC-GGAGTCCTGGGAAAT---GCTGATGCTTCT
i mm10.chr18               C 0 I 3
s canFam3.chr11             14859110 209 +  74389097 AAAACCAAGGAAGAGAGACCAATGGGATGGGTCTT-CC-TCAGTCACCAA-GTCGAAGGCCACAGAGGATCCAGAAGCTCCAGA-----ATTGGGAATGCACTGGCTGAGAGGATCTTTTCTGAAGTATCTATTCTTCAAAAG-ATCTG----------------CTGCCAGATTCCAGGATTGTAATTCTGTTCATATACTGCCGAGTATTGAGGAGCAGAAGTGATGTTTCT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2551515 221 +   3667625 GAAACCAAGGAAGAGGGACTAATGGGATCTGTCTTGTTTTTTATTATGAAAGTAAGTGAGCACAGAGGATTCAGAAACTCTGCA-ATTAATTCAGCATGCATTTGCTGAGAGGGTCTTTTCTGCAGTAGCTATCTC------ATATTTGGACCCAGC------TGATGCAGGATTCCAGGATTCTAATTTGGTTAGTATACTCTGGAGTATTGGAGAACAGAAGTGATGTTTCT
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           2995492  17 +   4132165 I

a score=61397.000000
s hg38.chr5_KI270796v1_alt      9843 7 +    172708 TATCAAT
s panTro5.chr5             125119929 7 + 181907262 CATCAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126456909 7 + 183735486 CATCAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1648612 7 +   8933513 CATCAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139779611 7 + 163208435 CATCAAT
i nomLeu3.chr2             C 0 I 1
s rheMac8.chr6             122764943 7 + 180051392 CAACATT
i rheMac8.chr6             C 0 I 3
s macFas5.chr6             124188469 7 + 181584905 CAACATT
i macFas5.chr6             C 0 I 3
s macNem1.NW_012012355v1    16186469 7 +  18395747 CAACATT
i macNem1.NW_012012355v1   C 0 I 3
s cerAty1.NW_012002512v1     5192578 7 +  26952557 CAACATT
i cerAty1.NW_012002512v1   C 0 I 3
s chlSab2.chr23             28300384 3 +  82825804 ----ATT
i chlSab2.chr23            C 0 I 3
s manLeu1.NW_012103321v1     3964494 7 -   4237731 CAACATT
i manLeu1.NW_012103321v1   C 0 I 3
s calJac3.chr2             123568608 7 - 204313951 CAACATT
i calJac3.chr2             C 0 I 3
s saiBol1.JH378106          55623831 7 -  71252344 CAAGATT
i saiBol1.JH378106         C 0 I 3
s cebCap1.NW_016107829v1     1318403 7 -   1400280 CAACATT
i cebCap1.NW_016107829v1   C 0 I 3
s aotNan1.NW_018505940v1    13111646 7 -  42888418 CAACATT
i aotNan1.NW_018505940v1   C 0 I 3
s micMur3.chr12             60482469 7 + 108143057 CAACATT
i micMur3.chr12            C 0 I 3
s proCoq1.NW_012155062v1     3512563 7 +  11683526 CAATATT
i proCoq1.NW_012155062v1   C 0 I 3
s mm10.chr18                55461638 4 +  90702639 ---TGTT
i mm10.chr18               I 3 I 3
s canFam3.chr11             14859319 7 +  74389097 CAATGTT
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2551736 7 +   3667625 CAACATT
i dasNov3.JH567306         C 0 I 3
e otoGar3.GL873679           2995492 17 +   4132165 I
e colAng1.NW_012119644v1      234690 334 -   1175262 I

a score=1748720.000000
s hg38.chr5_KI270796v1_alt      9850 117 +    172708 AGTAAGAAATGCCATTTAATTAAACTC-TTTTTGGAAAATCAAATTTGACTTATATCTTGCTCATTTAACTTCACTGTTTTTACTGGCTTGACAAAACAATGCTATTAATAATACCTG
s panTro5.chr5             125119936 117 + 181907262 GGTAAGAAATGCCATTTAAGTAAACAC-TTTTTGGAAAATCAAATTTGACTTATATCTTGCTCATTTAACTTCACTGTTTTTACTGGCTTGACAAAACAATGCTATTAATAATACCTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126456916 117 + 183735486 GGTAAGAAATGCCATTTAATTAAACAC-TTTTTGGAAAATCAAATTTGACTTATATCTTGCTCATTTAACTTCACTGTTTTTACTGGCTTGACAAAACAATGCTATTAATAATACCTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1648619 117 +   8933513 AGTAAGAAATGCCATTTAATTAAACAC-TTTTTGGAAAATCAAATTTGACTGAAATCTTGCTCATTTAACTTCACTGTTTTTACTGGCTTGACAAAACAATGCTATTAATAATACCTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139779619 105 + 163208435 AGTAAGAAATGCCATTTAATTAAACAC-TTCTTGGAAAATCAAATTTGACTGATATCTTGCTAATTTAACTTCACTATTTTTACTGGCTTGACA------------TAATAATACCTG
i nomLeu3.chr2             I 1 C 0
s rheMac8.chr6             122764953 117 + 180051392 AGTAAGAAATGCCATTTAATTAAACAC-TTTTTGGAAAATCAAATTTGACTGATATCTTGCTCATTTAACTTCACTGTTTTTACTGGCTTGACAAAGCAATGCTATTAATAATAGCTG
i rheMac8.chr6             I 3 C 0
s macFas5.chr6             124188479 117 + 181584905 AGTAAGAAATGCCATTTAATTAAACAC-TTTTTGGAAAATCAAATTTGACTGATATCTTGCTCATTTAACTTCACTGTTTTTACTGGCTTGACAAAGCAATGCTATTAATAATAGCTG
i macFas5.chr6             I 3 C 0
s macNem1.NW_012012355v1    16186479 117 +  18395747 AGTAAGAAATGCCATTTAATTAAACAC-TTTTTGGAAAATCAAATTTGACTGATATCTTGCTCATTTAACTTCACTGTTTTTACTGGCTTGACAAAGCAATGCTATTAATAATAGCTG
i macNem1.NW_012012355v1   I 3 C 0
s cerAty1.NW_012002512v1     5192588 117 +  26952557 AGTAAGAAATGCCATTTAATTAAACAC-TTTTTGGAAAATCAAATTTGACTGATATCTTGCTCATTTAACTTCACTGTTTTTACTGGCTTGACAAAGCAATGCTATTAATAATAGCTG
i cerAty1.NW_012002512v1   I 3 C 0
s chlSab2.chr23             28300390 112 +  82825804 AGTAAGAAATGCCATTTAGTTAAACAC-TTTTTGGAAAATCAAATTTGACTGATATCTTGCTCATTTAACTTCACTGTTTTTACTGGCTTGA-----CAATGCTATTAATAATAGCTG
i chlSab2.chr23            I 3 C 0
s manLeu1.NW_012103321v1     3964504 117 -   4237731 AGTAAGAAATGCCATTTAATTAAACAC-TTTTTGGAAAATCAAATTTGACTGATATCTTGCTCATTTAACTTCACTGTTTCTACTGGCTTGACAAAGCAATGCTATTAATAATAGCTG
i manLeu1.NW_012103321v1   I 3 C 0
s colAng1.NW_012119644v1      235024 117 -   1175262 AGTAAGAAATGCCATTTAATTAAACAC-TTTTTGGAAAATCAAATTTGACTGATATCTTGCTCATTTAACTTCACTGTTTTTACTGGCTTGACAAAACAATGCTATTAATAATAGCTG
i colAng1.NW_012119644v1   I 334 C 0
s calJac3.chr2             123568618 118 - 204313951 AGTAAGAAATGCCATTTAGTTAAACACTTTTTTAAAAAATCAACTTTGGCCAACATCTTGCTCAATTAACTTCACTATTTTTACTGGCTTGATGATATAATGCTATTAACAATACCTG
i calJac3.chr2             I 3 C 0
s saiBol1.JH378106          55623841 117 -  71252344 AGTAAGAAATGCCATTTAGTTAAACAC-TTTTTAGAAAATCAAATTTGACTAATATCTTGCTCATTTAACTTCACTATTTTTAGTGGCTTGACAATATAATGCTATTAATAATACCTG
i saiBol1.JH378106         I 3 C 0
s cebCap1.NW_016107829v1     1318413 117 -   1400280 AGTAAGAAATACCATTTAGTTAAACAC-TTTTTAGAAAATCAAATTTGACTAATATCTTGCTCATTTAACTTCACTATTTTTACTGGCTTAACAATATAATGCTATTAATAATACCTG
i cebCap1.NW_016107829v1   I 3 C 0
s aotNan1.NW_018505940v1    13111656 117 -  42888418 AGTAAGAAATGCCATTTAGTTAAATAC-TTTTTAGAAAATCAAATTTGACGAATATCTTGCTCATTTAACTTCACTGTTTTTACTGGCTTGACAATATAATGCTATTAATAATACCTG
i aotNan1.NW_018505940v1   I 3 C 0
s micMur3.chr12             60482479 117 + 108143057 TATGTCAAATGCCATTTAATTAAATAC-TCTCTGGAAAACCAAATTTAACTGATATATTGCTCATGTAATTTTACTATTTCTACTGAGTTGACAACACAATGCTATTCATGATACCTG
i micMur3.chr12            I 3 C 0
s proCoq1.NW_012155062v1     3512573 117 +  11683526 CATATCAAATGCCATTTAATTAAATAC-TCTTTGGAAAACCAAATTTGATTGATATATTGCTCGTTTAATTTTACTATTTCTACTGAGTTGACAACACAATGCTATTCATAATACCTG
i proCoq1.NW_012155062v1   I 3 I 2393
s mm10.chr18                55461645 115 +  90702639 TGTACTGAATGCCATTTAATTAACA---TTCTGGAAAAATCACATTTGACTGGTATCTTGCTCATTTAATTTTAATATTTCTACTGAATTGACAACACAATGTCATTAATAATGCCTG
i mm10.chr18               I 3 C 0
s canFam3.chr11             14859329 116 +  74389097 AGTACTAAATGCC-TTTACTTAAGCAC-TCCTTGGGAAACCACATTTGACTAATATTCTGCTCATTTAATTTTAGTATTTCTACTAAATTGACAACATAATACTACCAATAAGACCTG
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2551746 117 +   3667625 AATACTAACTGCCATTTAATTAAACAC-CGTTTGGAAAACCACATTTGACTGAAAGTGTGCTCATTTAATTTTAATATTTCTACTGAGTTTACAACACAATGCTATTAATAATATCTG
i dasNov3.JH567306         I 3 C 0
e otoGar3.GL873679           2995492  17 +   4132165 I

a score=296556.000000
s hg38.chr5_KI270796v1_alt      9967 25 +    172708 TCATATAAGGCCTATAATCAGC--AAA
s panTro5.chr5             125120053 25 + 181907262 TCATATAAGGCCTATAATCAGC--AAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126457033 25 + 183735486 TCATATAAGGCCTATAATCAGC--AAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1648736 25 +   8933513 TCATATAAGGCCTATAATCAGC--AAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139779724 24 + 163208435 TCATAT-AGGTCTATAATCAGC--CAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122765070 26 + 180051392 TCATATAAGACCTATAATCAGC-AAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124188596 26 + 181584905 TCATATAAGACCTATAATCAGC-AAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16186596 26 +  18395747 TCATATAAGACCTATAATCAGC-AAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5192705 27 +  26952557 TCATATAAGGGCTATAATCAGCAAAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28300502 27 +  82825804 TCATATAAGGCCTATAATCAGGAAAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3964621 23 -   4237731 TCATATAAGGCCTATAATC----AAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      235141 25 -   1175262 TCACATAAGGCCTATAATCAGC--AAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123568736 25 - 204313951 TCATGTAAGGCCTATATTCAGC--AAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55623958 25 -  71252344 TCATGTAAGGCCTATAATCAGC--AAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1318530 24 -   1400280 TCATGTAAGGCCTATAATCAGC---AA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13111773 25 -  42888418 CCATGTAAGGCCTATAATCAGC--AAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60482596 25 + 108143057 CTATGCAAAGCCTATAACCAGC--AAA
i micMur3.chr12            C 0 I 2558
s mm10.chr18                55461760 25 +  90702639 TCATGTAAGGCCTGCAATCAGC--AAA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14859445 25 +  74389097 TCATGTAAGGCCCATAATCAGT--AAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2551863 25 +   3667625 TCATCAAAGGCCTATAACGAGC--AAT
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3512690 2393 +  11683526 I
e otoGar3.GL873679           2995492 17 +   4132165 I

a score=7775388.000000
s hg38.chr5_KI270796v1_alt      9992 757 +    172708 AAAACAAGAA----GTGAGGAATCAAATATACA---------TTTTTT-CTGACTCCCttatagttaatctcaatttcatatttatt-----ttatatttTTGAAAGAAATAAAT-TTCAAAACAA-------CCTATTCAAAATGT-TTTATAAACCATTGTAATGCTTTTTATTTATATAGGTTATACATTATTATTTTTAAAGGATTATACTTTAAAGTATGAAGTAAAAACAAatatattattgtatacaattaaaacaataataat-cccaagt--tattattatttcaatttaacagataaatgagctgatacttggagaagttttagcttgtgtaagatcccaaagttaat-aagtgatagaattaggaaatgaacccaggtgccctgagacaaagttttcaa-----tattttttgattacactgcagttgactttttgCTATAGGATCCAGGTAGTGAGGAATATTGTATCCCAAAATAGAAAAATAAGTTTGTATCAACTAATTTTTAGCAGTAGAATGCAGTCCTCATGTG-------------AAATATCATGCATAAA-------------ATGAATAAAATTATGTGGGTGAGCATCTGCTTGAT-CCCC----------------------TC---------ATCTTGCAGAGG-------------------CTCTGAGATGCTTCAACTAAATCCAACGGGCTTCCT--GCAATGTGGTTTGAAGACATTTAGTGCCTAGCTCTATCTCATCACCTTTGTGCATACTCATGTGTGGGcagg-ctggctata-tagtttgtgaggtccactgtgaaatggaaatgtggggccccatgtttgaaattattaagaatttca
s panTro5.chr5             125120078 757 + 181907262 AAAACAAGAA----GTGAGGAATCAAATATACA---------TTTTTT-CTCACTCCCttatagttaatctcaatttcatatttatt-----ttatatttTTGAAAGAAATAAAT-TTCAAAACAA-------CCTATTCAAAATGT-TTTATAAACTATTGTAATGCTTTTTATTTATATAGGTtatatattattatttttaaaggattatactttaaagtataaagtaaaaaCAAatatattattgtatacaattaaaacaataataat-tccaagt--tattattatttcaatttaacagataaatgagctgatacttggagaagttttagcttgtgtaaggtcccaaagttaat-aagtgatagaattaggaaatgaacccaggtgctctgagacaaagttttcaa-----tattttttgattacactgcaGTTGACTTTTTGTTATAGGATCCAGGTAGTGAGGAATATTGTATCCCAAAATAGAAAAATAAGTTTGCATCAACTAATTTTTAGAAGTAGAATGCAGTCCTCATGTG-------------AAATATCATGCATAAA-------------ATGAATAAAATTATGTGGGTGAACATCTACTTGAT-CCCC----------------------TC---------ATCTTGCAGAGG-------------------CTCTGAGATGCTTCAACTAAATCCAACGGGCTTCCT--ACAGTGTGGTTTGAAGACATTTAGTGCCTAGTTCTATCTCATCACCTTTGTGCATACTCATGTGCGGGcagg-ctggctata-tagtttgtgaggtccactgtgaaatggaaatgtggggccccatgtttgaaattattaagaatttca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126457058 757 + 183735486 AAAACAAGAA----GTGAGGAATCAAATATACA---------TTTTTT-CTCACTCCCttatagttaatctcaatttcatatttatt-----ttatatttTTGAAAGAAATAAAT-TTCAAAACAA-------CCTATTCAAAATGT-TTTATAAACTATTGTAATGCTTTTTATTTATATAGGTtatatattattatttttaaaggattatactttaaagtataaagtaaaaaCAAatatattattgtatacaattaaaacaataataat-tccaagt--tattattatttcaatataacagataaatgagctgatacttggagaagttttagcttgtgtaaggtcccaaagttaat-aagtgatagaattaggaaatgaacccaggtgctctgagacaaagttttcaa-----tattttttgattacactgcaGTTGACTTTTTGTTATAGGATCCAGGTAGTGAGGAATATTGTATCCCAAAATAGAAAAATAAGTTTGCATCAACTAATTTTTAGCAGTAGAATGCAGTCCTCATGTG-------------AAATATCATGCATAAA-------------ATGAATAAAATTATGTGGGTGAACATCTACTTGAT-CCCC----------------------TC---------ATCTTGCAGAGG-------------------CTCTGAGATGCTTCAACTAAATCCAACGGGCTTCCT--ACAGTGTGGTTTGAAGACATTTAGTGCCTAGTTCTATCTCATCACCTTTGTGCATACTCATGTGCGGGcagg-ctggctata-tagtctgtgaggtccactgtgaaatggaaatgtggggccccatgtttgaaattattaagaatttca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1648761 758 +   8933513 ACAACAAGAA----GTGAGGAATCAAATATACA--------TTTTTTT-CTCACTCCCttatagttaatctcaatttcatatttatt-----ttatatttTTGAAAGAAATAAAT-TTCAAAACAA-------CCTATTCAAAATGT-TTTATAAACTATTGTAATGCTTTTTATTTATATAGGTTATGCACTATTATTTTTAAAGGATTATACTTTAAAGTATAAAGTAAAAACAAATATATTATTGTAGACAATTAAAACAATAATAAT-TCCAagt--tattattatttcaatttaacagataaatgagctgatacttggagaagttttagcttgtgtaagatcccaaagttaat-aagtgatagaattaggaaatgaacccaggtgctctgagacaaagttttcaa-----tattttttgattacactgcaGTTGACTTTTTGTTATAAGATCCAGGTAGTGAGGAATATTGTATCCCAAAATAGAAAAATAAGTTTGTATCAACTAATTTTTAGCAATAGAATGCAGTCCTCATGTG-------------AAATATCATGCATAAA-------------ATGAATAAAATTATGTGGGCGAGCATCTACTTGAT-CCCC----------------------TC---------ATCTTGCAGAGG-------------------CTCTGAGATGCTTCAACTAAATCCAACGGGCTTCCT--ACAGTGTGGTTTGAAGACATTTAGTGCCTAGCTCTATCTCATCACCTTTGTGCATACTCATGTGTGGGcagg-ctggctata-tagtttgtgaggtccactgtgaaatggaaatgtggggccctatgtttgaaattattaagaatttca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139779748 754 + 163208435 AAAACAAGAA----GTGAGGAATCAAATATACA---------TTTTTT-CTCACACCCttatagttaatctcaatttcatatttatt-----ttatatttttaAAAGAAATAAAT-TTCACAACAA-------CCTGTTTAAAATAT-TTTATCAACTATTGTAATGCTTTCTATTTATATAGCTTATACATTATTATCTTAAAA-----ATATTTTAAAGTATAAAGTAAAAACAAATATATTATTGTATATAATTAAAA-AATAATAAT-TCCAagt--tattattatttcaatttaacagataaatgacctgatacctggagaagttttagcttgtgtaagatcccaaagttaat-aagtgatagaattaggaaatgaacccaggtgctctgagacaaagttttcaa-----tatttttttattacactgcaGTTGACTTTTTGTTATAGGATCCAGGTAGTGAGGAATATTGTATCCCAAAATAAAAAAATAAGTTTGTATCAACTAATTTTTCGCAGTAGAATGTAGTCCTCATGTG-------------AAATATCATGCATGAA-------------ATGAATACAATTGTGTGGGTGAGCATCTGCTTGAT-CCCC----------------------TC---------ATCTTGCAGAGG-------------------CTCTGAGATGCTTCAGCTAAATCCAAGGGGCTTCCTACACAATGTGGTTTGAAGACGTTTAGTGTCTAGCTCTATCTCATCACCTTTGGGCATACTCATGTGTGGGcaggactggctata-tagtttgtgaggtccactgtgaaatggaaatgtggggccccatgttcgaaattattaagaatttca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122765096 762 + 180051392 AAAACAAGAA----GTGAGGACTCAACTACACA---------TTTTTT-CTTACATGCTTATAG------TTAATTTCACATTTATC-----TTATATTTTTAAAAGAAATAAAT-TTCAAAACAA-------CCTATTCAAAATAT-TTTATAAACTATTGTAATGCTTTTTATTTATATAGGTTATACATTATTatttttaaa-----gtattttaaagtataaagtaaaagcaaatatattattgtatacaattaaaac---aacaat-tccaagt--tattattatttcaatgtaacagataaatgagctgatactcggagaag-tttagcatgtgtaagttcccaaagttaat-aagtgatagaattaggaaatgaacccaggtgctttgagacaaagttttcaa-----tattttttgattacactgcaGTTGACTTTTTGTTATAGGATCAAGGTAGTGAGGAATATTGTATCCCAAAATAAAAAAATAAGTTTCTGTCAACTAATTTTTAGCAGCAGAATGCAGTCCTCATGTG-------------AAGTATCATGCACGAA-------------ATGAATAAAATTGTGTGGGCGAGCATCGACTTGAT-CCCC----------------------TC---------ATCTTGCAGAGATCCCCTCATCTCATCTTCACTCTGAGAAACTTCGACTAAATCCAAAGGGCTTCCT--AGAATGTGGTTTGAAGACATATAGTGTCTAGCTCTATCTCGTCACCTTTGGGCATACTCATGTGTGGGcaggactgcctata-tagtttgtgaggtccactgtgaagtggaaaagtgggtccccatgttcgaaattattaagaatttca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124188622 762 + 181584905 AAAACAAGAA----GTGAGGACTCAACTACACA---------TTTTTT-CTTACACGCTTATAG------TTAATTTCACATTTATC-----TTATATTTTTAAAAGAAATAAAT-TTCAAAACAA-------CCTATTCAAAATAT-TTTATAAACTATTGTAATGCTTTTTATTTATATAGGTTATACATTATTatttttaaa-----gtattttaaagtataaagtaaaagcaaatatattattgtatacaattaaaac---aacaat-tccaagt--tattattatttcaatgtaacagataaatgagctgatactcggagaag-tttagcgtgtgtaagttcccaaagttaat-aagtgatagaattaggaaatgaacccaggtgctttgagacaaagttttcaa-----tattttttgattacactgcaGTTGACTTTTTGTTATAGGATCAAGGTAGTGAGGAATATTGTATCCCAAAATAAAAAAATAAGTTTCTGTCAACTAATTTTTAGCAGCAGAATGCAGTCCTCATGTG-------------AAGTATCATGCACGAA-------------ATGAATAAAATTGTGTGGGCGAGCATCGACTTGAT-CCCC----------------------TC---------ATCTTGCAGAGATCCCCTCATCTCATCTTCACTCTGAGAAACTTCGACTAAATCCAAAGGGCTTCCT--AGAATGTGGTTTGAAGACATATAGTGTCCAGCTCTATCTCGTCACCTTTGGGCATACTCATGTGTGGGcaggactgcctata-tagtttgtgaggtccactgtgaagtggaaaagtgggtccccatgttcgaaattattaagaatttca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16186622 762 +  18395747 AAAACAAGAA----GTGAGGACTCAACTACACA---------TTTTTT-CTTACACGCTTATAG------TTAATTTCACATTTATC-----TTATATTTTTAAAAGAAATAAAT-TTCAAAACAA-------CCTATTCAAAATAT-TTTATAAACTATTGTAATGCTTTTTATTTATATAGGTTATACATTATTatttttaaa-----gtattttaaagtataaagtaaaagcaaatatgttattgtatacaattaaaac---aacaat-tccaagt--tattattatttcaatgtaacagataaatgagctgatactcggagaag-tttagcgtgtgtaagttcccaaagttaag-aagtgatagaattaggaaatgaacccaggtgctttgagacaaagttttcaa-----tatttttttattacactgcagttgactttttgTTATAGGATCAAGGTAGTGAGGAATATTGTATCCCAAAATAAAAAAATAAGTTTCTGTCAACTAATTTTTAGCAGCAGAATGCAGTCCTCATGTG-------------AAGTATCATGCACGAA-------------ATGAATAAAATTGTGTGGGCGAGCATCGACTTGAT-CCCC----------------------TC---------ATCTTGCAGAGATCCCCTCATCTCATCTTCACTCTGAGGAACTTCGACTAAATCCAAAGGGCTTCCT--AGAATGCGGTTTGAAGACATATAGTGTCTAGCTCTATGTCGTCACCTTTGGGCATACTCATGTGTGGGcaggactgcctata-tagtttgtgaggtccactgtgaagtggaaaagtgggtccccatgttcgaaattattaagaatttca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5192732 768 +  26952557 AAAACAAGAA----GTGAGGACTCAACTACACA---------TTTTTT-CTTACACGCTTATAGTTAATCTTAATTTCACATTTATC-----TTATATTTTTAAAAGAAATAAAT-TTCAAAACAA-------CCTATTCAAAATAT-TTTATAAACTATTGTAATGCTTTTTATTTATATAGGTTATACATTATTatttttaaa-----gtattttaaagtataaagtaaaagcaaatatattattgtatacaattaaaac---aataat-tccaagt--tattattatttcaatgtaacagataaatgagctgatactcggagaag-tttagcgtgtgtaagttctcaaagttaat-aagtgatagaattgggaaatgaacccaggtgctttgagacaaagttttcaa-----tattttttGATTATACTGCAGTTGACTTTTTGTTACAGGATCAAGGTAGTGAGGAATATTGTATCCCAAAATAAAAAAATAAGTTTCTATCAACTAATTTTTAGCAGTAGAATGCAGTCCTCATGTG-------------AAGTATCATGCACGAA-------------ATGAATAAAATTGTGTGGGCGAGCATCGACTTGAT-CCCC----------------------TC---------ATCTTGAAGAGATCCCCTCATCTCATCTTCACTCTGAGAAACTTCGACTAAATCCAAAGGGCTTCCT--AGAATGTGGTTTGAAGACATTTAGTGTCTAGCTCTATCTCATCACCTTTGGGCATACTCATGTGTGGGcaggactgcctata-tagtttgtgaggtccactgtgaagtggaaatgtgggtccccatgttcgaaattattaagaatttca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28300529 768 +  82825804 AAAACAAGAA----GTGAGGACTCAACTACACA---------TTTTTC-CTTACATGCTTATAGTTAATCTCAATTTCACATTTATC-----TTATATTTTTAAAAGAAATAAAT-TTCAAAACAA-------CCTATTCAAAATAT-TTTATAAACTATTGTAATGCTTTTTATTTATATAGGTTATACATTATTatttttaaa-----gtattttaaagtataaagtaaaagcaaatatattattatatacaattaaaac---aacaat-tccaagt--tattattttttcaatgtagcagataaatgagctgatactcggagaag-tttagcgtgtgtcagttctcaaagttaat-aagtgatagaattaggaaatgaacccaggtgctttgagacaaagttttcaa-----tattttttgattacactgcaGTTGACTTTTTGTTTTAGGATCAAGGTAGTGAGGAATATTGTATCCCAAAATAAAAAAATAAGTTTCTATCAACTAATTTTTAGCAGTAGAATGCAGTCCTCATGTG-------------AAGTGTCATGCACGAA-------------ATGAATAAAATTGTGTGGGCAAGCATTCACTTGAT-GCCC----------------------TC---------ATCTTGCAGAGATCCCCTCATCTCATCTTCACTCTGAGAAACTTCGACTAAATCCAAAGGGCTTCCT--AGAATGTGGTTTGAAGACATTTAGTGTCTAGCTCTATCTCGTCACCTTTGGGCATACTCATGTGTGGGcaggactgcctata-tagtttgtgaggtccactgtgaagtggaaatgtgggtccccatgtttgaaattattaagaatttca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3964644 765 -   4237731 AAAACAAGAA----GTGAGGACTCAACTACACA---------TTTTTT-CTTACACGCTTATAGTTAATCTCAATTTCACATTTATC-----TTATATTTTTAAAAGAAATAAAT-TTCAAAACAA-------CCTATTCAAAATAT-TTTATAAACTATTGTAATGCTTTTTATTTATATAGGTTATACATTATTatttttaaa-----gtattttaaagtataaagtaaaagcaaatatattattgtatacaattaaaac---aataat-tccaagt--tattagtatttcaatgtaacagataaatgagctgatactcggagaag-tttagcgtgtgtaagttctcaaagttaat-aagtgatagaattgggaaatgaacccaggtgctttgagacaaagttttcaa-----tattttttgattacactgcaGTTGACTTTTTGTTATAGGATCAAGGTAGTGAGGAATATTGTATCCCAAAATAAAAAAATAAGTTTCTATCAACTAATTTTTAGCAGTAGAATGCAGTCCTCATGTG-------------AAGTATCATGCACGAA-------------ATGAATAAAATTGTGTGGGCGAGCATCGACTTGAT-CCCC----------------------TC---------ATCTTGAAGAGATCCCCTCATCTCATCTTCACTCTGAGAAACTTCGACTAAATCCAAAGGGCTTCCT--AGAATGTGGTTTGAAGACATTTAGTGTCTAGCTCTATCTCGTCACCTTTGGGCATACTCATGTGTGGGcagga---cctata-tagtttgtgaggtccactgtgaagtggaaatgtgggtccccatgttcgaaattattaagaatttca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      235166 751 -   1175262 AAAACAAGAA----GTGAGGACTCAAATACACA---------TTTTTTCCTCACACTCTTACAGTTAATCTCAATTTCACATTTATT-----TTATATTTTTAAAAGAAATAAAT-TTCAAAACAA-------CCTATTCAAAATAT-TTTATAAACTATTGTAATGCTTTTTATTTATATAGGTTATACATTATTatttttaaa-----gtattttaaagtatgaagtaaaagcaaatatattattgcatacaattaaaac---aataat-tccaagt--tattattatttcaatgtaacagataaatgagctgatactcggagagg-tttagcttgtgtaagttctcaaagttagt-aagtgatggaattaggaaatgaacccaggtgctctgagacaaagttttcaa-----tattttttGATTACTCTGCAGTTGACTTTTTGTTATAGGATCAAGGTAGTGAGGAATATTATATCCCAAAATAAAAAATTAAGTTTCTATCAACTAATTTTTAGCAGTAGAATGCAGTCCTCATGTG-------------AAGTATCATGCACGAA-------------ATGAATAAAATTGTGTGGGCGAGCATCGACTTGAT-CCCC----------------------TC---------ATCTTGCAGAGGC------------------CTCTGAGAAACTTCGACTAAATCCAAAGGGCTTCCT--AGAATGTGGTTTGAAGACATTTAGTGTCTAGCTCTATCTCGTCACCTTTGGGCATACTCATGTGTGGGcaggactgcctata-tagtttgtgaggtccactgtgaagtggaaatgtggggccccatgttcgaaagtattaagaatttca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123568761 756 - 204313951 AAACCAGGAG----GCGAAGCGTCAAATATACA----------TTTTT-TTCACACCCTTATAGTGAATCTCAA--TCatatttatt-----ttatgtttttaaaagaaacaaat-ttcaaaa-aa-------tctatttaaaatat-tttatGAACTATGGTAATGCtttttatttatataggttatacattattatttttaaagtattatat-ttaaaGTGTAAAGTAAAAG-atatacattattttatacaattaaaacaatagtaat-tccaagt--tctcattatttcaatttaacagataaatgacctgatactcagagaaa-tttagc-tatgtaaggtcccagagttagt-aagtaatagaattaagaaatgaacccaggtgttctgagacaaagttttaggttttttttttttttattacactgcAGTTGACTTTTTCTGATAGTATCAAGGTAGTGAGGAATTTTGTATCCCAAAATAAAAAAATACGTTTGTATCAACTAATTTTTAGCAGTAGAATGCAGTCCTCAAGTG-------------AAATATCATGCATGAA-------------ATGAATAAAACTGTGTGGCCGAGCATCTACTTGAT-CCCC----------------------TC---------ATCTTGCAGAGAC------------------CTCTGAGAAACTTTGACTAAATCCAAAGGGCTTCCT--ACAATGTGGTATGAAGATATTTAGTGTCTAGCTCTATCTCATCACCTTTGGGCATACTCATGTATGGGcaggactggctata-ttgtttgtgaggtccactgtgaaatggaaatttggggccccatgtttgaaattattcagaatttta
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55623983 754 -  71252344 AAACCAAGAG----GCAAGGAATCAAATATTCA----------TTTTT-TTCACACCCTTATAGTTAATCTCAA--ACATATTTATT-----TTATGTTTTTAAAAGAAACAAAT-TTCAAAACAA-------CCTATTTAAAATAT-TTTATGAACTATGGTAATGCTTTTTATTTATATAGGTTATACATTATTATTTTTGAAGTATTACATGCTAAAGTATAAAGTAAAAG-atatacattattttatacaattaaaacaatagtaat-tccaagt--tctcattatttcaatttaacagataaatgagctgatattcagagaaa-tttagcttatgtaaggtcccagagttagt-aagtaatagaattaagaaataaacccag--gttctgagacaaagttttaga----tattttttttattacattgcagttgactttttgTGATAGGATCAAGGCAGTGAGGAATTTTGTATCCCAAAATAAAAAAATAGGTTTGTAGCAACTAATTTTTAGCAGTAGAATGCAGTCCTCAAGTG-------------AAATACCATGCGTGAA-------------ATGAATACAACTGTGTAGCTGAGCATCTACTTGATCCCCC----------------------TC---------ATCTTGCAGAGGC------------------CTCTGGGAAACTTTGACTAAATCCAAAGGGCTTCCT--ACAATGTGGTGTGGAGACATTTAGTGTCTAGCTCTATCTCATCCCCTTTGGGCATACTCATGTGTGGGcaggactggctata-ttgtttgtgaggtccactgtgaaacggaaatctggggccccatgtttgaaattattcagaatttta
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1318554 755 -   1400280 AAACCAAGAG----GCAAGGAATCAAATATACA---------TTTTTT-TTCACACCCTTATAGTTAATCTCAA--ACATATTTATT-----TTATGTTTTTAAAAGAAGCAAAT-TTCAAAACAA-------CCTATTTAAAATAG-TTTATGAACTACTGTAATGCTTTTTATTTATATAGGTTGTAC----TTTTTTTTGAAGTATTATATTTTAAAGTATAAATTAAAAG-atatacattattttatacaattaaaacaatagtaat-tccaagt--tctcattatttcagtttaacagataaatgagctgatactcagagaaa-tttagcgtatgtaaggtccaagagttagt-aagtaatagaattaagaaatgaacccaggtgttctgagacaaagttttaga-tattctttttttaatcacactacagttgactttttgTGATAGGATCAAGGTAGTGAGGGATTTTGTATCCCAAAATAAAAAAATAGGTTTGTATCAACTAATTTTTAGCAGTAGAATGCAGTCCTCAAGTG-------------AAATATCATGCATGAA-------------ATGAATAAAACTGTGTGGCCGAGCATCTACTTGAT-CCCC----------------------TC---------ATCTTGCAGAGAA------------------CTCTGAGAAACTTTGACTAAATCCAAAGGGCTTCCT--ACAATGTGGTGTGAAGACATTTAGTGTCTAGCTCTATCTCATCACCTTTGGGCATACTCATGCGTGGGcaggactggctata-ttgtttgtgaggtccactgtgaaatggaaatttggggtcccatgtttgaaattattaagaatttta
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13111798 734 -  42888418 AAACCAAGAG----GCAAGGAATCAAATACACA------------TTT-TTTATACCCTTATAGTTAATCTCAA--TCATATTTATT-----TTATGTTTTTAAAAGAAAC--AT-TTCAAAACAA-------CCTACTTAAAATAT-TTTATGAACTATTGTAATGCTTTTTATTTATGTAGGTTATACATTATTATTTTTGAAGTATTATATTTTAAAGTATAAAGTAAAAG-atatacattattttatgcaattaaaacagtagtaat-ttcaagt--tctcattatttcaatttaacagataaatgagctgatactcagagaaa-tttagcttatgtaaggtcccaaagttagt-aagtaatagaattaagaaatgaacccaggtgttctgagacaaagttttaga------ttttttttattacactgcagttgattttttgTGATAGGATCAAGGTAGTGAGGAATTTTGTATCCAAAAATAAAAAAATAGGTTTGTATCAACTAATTTTTAGCAGTAGAATGCAGTCCTCAAGTG-------------AAATATCATGCATGAA-------------ATGAATAAAACTGTGTGGCCGAGCATCTACTTGAT-CCCC----------------------TC---------ATCTTGCAGAGAC------------------CTCTGAGAAACTTTGACTAAATCCAAAGGGCTTCCT--ACAATGTGGTGTGAAGGCGTTTAGTGTCTAGCTCTAGCTCATCACCTTTGGGCATA---------------ggctggctata-tcgtttgtgaggtccactgtgaaatggaaatttggggccccatgtttgaaattattcagaatttta
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55461785 613 +  90702639 TAGCTCAGAA----GGGTGGAATAAAATATGCACCATTG-TTTCTTTG-TTTGCAC-CATATAGTTGATCTCAATTTCATGTTCAATTACaattat-tttttaaaaagtata----tttaaaaCAAAGAATGTCCTGT--AAAATAGATTTATGAACTGATACCCTGTCCTATATTTATATA-----------AAGAATTTCAAAGA---GGATTTTTAGGT-------------------ATTGTTTAATACAAGTAAAAT--------------GTT--TATGATTATCTCAATAGGACAGATCAGT------ATGCTTCAAGAAG-TT------------------ACATTTTGT-TAATAGTAGAGT--------------------------------------------ATTCCCTTCACCACACTGCAGATCGCTTTTTACTGCAGTATCAAGGTGCTGAAGAACTTTGTATTCTAG-------------------------CCACTTTCAACAGTTTA--------------------------------------GCATTTG-------------GTGATAAGAAGTGGGCGGCAGAGCATCTACTTAAT-TCCC----------------CTGTTTTC---------ATCTTGCAGGGC-------------------CTTGAAGGAACT---GCTGGATCTGATAGGCTTTTC--TCAGTAGATTTTAAAGTCACTTTGAATGCAGACTTATCTCACCATCTATGGATATGACCATGT--GGCcaagacaggatacagtagtttgtggagcccagtgcaaaa-gtaaatgtagagtactatgtttaaaattattatagacttga
i mm10.chr18               C 0 C 0
s canFam3.chr11             14859470 749 +  74389097 TAGCCAAGGA----ATGTAGAATCAAATAGGCACAATTGTTTCTTTTT-TTCACTTTTTTATAGTTAGTAGCTATTTTGTGTTCatt-----ttaagttttaaaaattaatatat-ttaaaaataaaGAAA--CCTATTTAAAATAC------AGTTTATTATAATGTCTTTTACTTATACAAGAGCTA----ATTACTTTTAAA-----GTAttt-----------------acatacatattatgg-----aattaagacaataatcatacccagtt--tattattatctcaatcttacagataaataaactgaca----gagaat-ttgtatttgtgtaagtccccaaagttaaa-aaggaacagaagtgggaaataaaaccagatgccctgaaacagagttttaga----tctttttttcacctcatggcagttgactttctgTTATGTTATCAAAGCAGAGAGGAATTTTGTATCCca--------------gtggctttcaacttatttttagcact-gatttcattcctcaaatg-------------aaatatcatgcatacaccggatgcatgtgatgaataaaagtgggtggtagaccatctgcttgat-ttccaaccattccccctcccccacctcc---------accttggagaggt------------------ctctgaggaacttccactaaatccaaagggcttctc--agaatacagcttggagacACTTAGT--CTAGATGTATCTCATCACCTCTGGGCATAATCACAAATGGGcaggacttgttaca-cagtttgtggaatccagtgcaaaatggaaacacggg-tgccatgttaaaaa--attaagaatttta
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2551888 723 +   3667625 -AGCCAAGGAGTGTGTGTGGAAGCAAATCTGTG-CTCTTGTCTCCTTT-ATCACACCCTTAAAGTTTACCTCCATTTTGAGTTCATT-----TTAGATTTTTAAGAGaaatatatatttaaattaa-------taCATTTCAAACATATTCATGTACTATCAAAATGACTT-Tatttatataga----actttattatttttaaa-----gtact--------------------------gacattacatgtaattaaaaccatagccaa-accaaatagtgttgttatctcaactgaacagataaa----ctgaggctcagaaaagtcatatcttgtttaaggtcctaaagttaataaagtgccagaattagg-aataagcccaagcgttctaagatcaagttctaga-----tctctttttaccacaTTGAAGTTGACTTT-TGTTATTGTACGAAGACAGAGAGGAATTTTGTATCCTG--------------GTGGTTTTCCAATGATTTTTACCAGTCAAATTCATCTCCCAAATACTAACTCATGGATAAACCCTTTGCATAAG-------------AGGAATAAAG-TGGGCGGTGGAGCATCCACTTGTT-CCCC----------------------TTCCACGGTCAGTTTTGTAGAGGA------------------CTC--AGGAACTT-GATTAAATC---------------TGAGTGTGGTTTGAA-ACAATTAGTTTCTAGATCCATCTCATCAAACCTGGGCATAACCAGATGTGGATaggattgtctgta-tactttgtggggcccatagaaaaatgaaaatgtggggttcttgttatgaaattggtaagaatttca
i dasNov3.JH567306         C 0 I 645
e micMur3.chr12             60482621 2558 + 108143057 I
e proCoq1.NW_012155062v1     3512690 2393 +  11683526 I
e otoGar3.GL873679           2995492  17 +   4132165 I

a score=2679125.000000
s hg38.chr5_KI270796v1_alt     10749 251 +    172708 agatgatgacaacagaaccaagcgt-gggcctttgtgagcgcaaggctctgtgcaattggatcggtcacatgcctgtgaagctggacctg------TTTGTGGACCAGGATTTACCTTCAAACCCCTTTGCTAAATAGTGCCTAGACCAGGATCTTCATCTTTTATCAGTGATCCTTACCTTT-CCC-T-AATTCATTCTCCTATTCATATGTATATTGGGGAAAAGTCACTGAAACAGTTAAAATTATATTGTGATAGAG
s panTro5.chr5             125120835 251 + 181907262 agatgatgacaacagaaccaagcat-gggcctttgtgagtgcaaggctctgtgcaattggatcggtcacatccctgtgaagctggacctg------TGTGTGGACCATGATTTAGCTTCAAACCCCTTTGCTAAATAGTGTCTAGACCAGGATCTTCATCTTTTATCAGTGATCCTTACCTTT-CTC-T-AATTCATTCTCCTATTCATATGTATATTGGGGAAAAGTCACTGAAACAGTTAAAATTATATTGTGATAGAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126457815 251 + 183735486 agatgatgacaacagaaccaagcat-gggcctttgtgagtgcaaggctctgtgcaattggatcggtcacatccctgtgaagctggacctg------TGTGTGGACCATGATTTAGCTTCAAACCCCTTTGCTAAATAGTGTCTAGACCAGGATCTTCATCTTTTATCAGTGATCCTTACCTTT-CTC-T-AATTCATTCTCCTATTCATATGTATATTGGGGAAAAGTCACTGAAACAGTTAAAATTATATTGTGATAGAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1649519 251 +   8933513 agatggtgacaacagaaccaagcat-gggcctttgtgtgtgcaaggctctgtgcaattggatcggtcacatgcctgtgaagctggacctg------TGTGTGGACCAGGATTTAGCTTCAAACCCCTTTGCTAAATAGTGTCTAGACCAGGATCTTCATCTTTTATCAGTGATCCTTACCTTT-CTC-T-AATTCATTCTCCTATTCATATGTATATTGGGGAAAAGTCACTGAAACAGTTAAAATTATATTGTGATAGAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139780502 251 + 163208435 agatgatgacaacagaaccaagcat-gggcctttgtgagtgcagggctctgtgcaattggatcggtcacatgcctgtgaagctggccctg------TGTGTGGACCAGGATTTAGCTTCAAACCCCTTTGCTAAATAGTCTCTAGACCAGGATCTTCATCTTTTATCAGTGATCCTTGCCTAT-CTC-T-AATTCATTCTCCTATTCATATGTATATTGGGGAAGAGTCACTGAAACAGTTAAAATTATATTGTGATAGAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122765858 251 + 180051392 agatgatgacaacagaaccaggcac-gggtccttgtgaatgcagggctctgtgcaattggataggtcacatgcctgtgaagctggccctg------TGTGTAGACCAGGATTTCGCTTCAAACCCCTTTGCTAAATAGTCTCTAGACCAGGATCTTCATCTTTTCTCAGTGATCCTTGCCTGT-CTC-T-AATTCATTCTCCTATTCATATGTATATTGGGGAAAAGTTATTGAAAAAGTTTATATTATATTGTGATAGAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124189384 251 + 181584905 agatgatgacaacagaaccaggcac-gggtccttgtgaatgcagggctctgtgcaattggataggtcacatgcctgtgaagctggccctg------TGTGTGGACCAGGATTTCGCTTCAAACCCCTTTGCTAAATAGTCTCTAGACCAGGATCTTCATCTTTTCTCAGTGATCCTTGCCTGT-CTC-T-AATTCATTCTCCTATTCATATGTATATTGGGGAAAAGTTATTGAAAAAGTTTATATTATATTGTGATAGAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16187384 251 +  18395747 agatgatgacaacagaaccaggcac-gggtccttgtgaatgcagggctctgtgcaattggataggtcacatgcctgtgaagctggccctg------TGTGTGGACCAGGATTTCGCTTCAAACCCCTTTGCTAAATAGTCTCTAGACCAGGATCTTCATCTTTTCTCAGTGATCCTTGCCTGT-CTC-T-AATTCATTCTCCTATTCATATGTATATTGGGGAAAAGTTATTGAAAAAGTTTATATTATATTGTGATAGAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5193500 251 +  26952557 ggatgatgacaacagaaccaggcat-gggtccttgtgaatgcagggctctgtgcaattggataggtcacatgcctgtgaagctggccctg------TGTGTGGACCAGGATTTAGCTTCAAACCCCTTTGCTAAATAGTCTCTAGACCAGGATCTTCATCTTTTCTCAGTGTTCCTTGCCTGT-CTC-T-AATTCATTCTCCTATTCATATGTATATTGGGGAAAAGTTATTGAAAAAGTTTATATTATATTGTGATAGAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28301297 251 +  82825804 agatgatgacaacagaaccaggcac-gggtccttgtgaatgcagagctctgtgcaattggataggtcacatgcctgtgaagctggccctg------TGTGTGGACCAGGATTTAGCTTCAAACCCCTTTGCTAAATAGTCTCTAGACCAGGATCTTCATCTTTTCTCAGTGATCCTTGCCTGT-CTC-T-AATTCATTCTCCTATTCATATGTATATTGGGGAAAAGTTATTGAAAAAGTTTATATTATATTGTGATAGAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3965409 251 -   4237731 agatgatgacaacagaaccaggcac-gggtccttgtgaatgcagggctctgtgtaattggataggtcacatgcctgtgaagctggccctg------TGTGTGGACCAGGATTTAGCTTCAAACCCCTTTGCTAAATAGTCTCTAGACCAGGATCTTCATCTTTTCTCAGTGATCCTTGCCTGT-CTC-T-AATTCATTCTCCTATTCATATGTATATTGGGGAAAAGTTATTGAAAAAGTTTATATGATATTGTGATAGAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      235917 252 -   1175262 agatgatgacaacagaaccaggcac-gggtccttgtgaatgcagggctctgtgcaattggacaggtcacatgcctgtgaagctggccctg------TGTGTGGACCAGGATTTAGCTTCAAACCCCTTTGCTAAATAGTCTCTAGACCAGGATCTTCATCTTTTCTCAGTGATCCTTGCCTGT-CTC-TAAATTCATTCTCCTATTCATATGTATATCGGGGAAAAGTTATTGAAAAAGTTAATATTATGTTGTGATAGAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123569517 248 - 204313951 agatggtggcagcagaaccaagcat-gggcccttgtgagttcagggctctaggcaattggataggtcacatgcctgtgaggctggccctg------TGTGTGGACCAGGATTTATCTTCAAGCCCCTTTGCTAAATATTCTCTGGATCAGGATCTTCATCTTTTCTCAGTGACCCTTGCCTAT-CTC-T-AATTCATT---CTATTCATATGTCTACTGGGAAAAAGTCATCAAAACAGTTAAAATTATATTGTGATGGGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55624737 248 -  71252344 agatggtgacagcagaaccaagcat-gggcccttgtgagtgcagggctctatgcagttggataggtcacatgcctgtgaggctggccctg------TGTGTGGACCGGGATTTGTCTTCAAGCCCCTTTGCTAAATATTCTCTAGACCAGGATCTTCATCTTTTCTCAGTGACCCTTGCCTAT-CTC-T-AATTCATT---CTATTCATATGTCTACTGGGAAAAAGTCATTGAAACGGTTAAAATTATATTGTGATAGAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1319309 248 -   1400280 agatagtgacagcagaaccaagcat-gggcccttgtgagtgcagggctctatgcaattggataggtcacatgcctgtgaggctggccctA------TGTGTGGACCAGGATTTATCTTCAAGCCCCTTTGCTAAATATTCTCTAGACCAGGATCTTCATCTTTTCTCAGTGACCCTTGCCTAT-CTCTT-AATTCATT---CTATTCAGATGTCTACTAGGAAAAAGTCATCGAAACAGTT-AAATTATATTGTGATAGAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13112532 245 -  42888418 agatggtgacagcagagccaagcat-gggcccttgtgagtgcagggctctatgcaattggataggtcacatgcctgtgaggctggccccg------CGTGTGGACCAGGATTTATCTTCAAGCCCCTTTGCTAAATATTCTCTAGACCAGGATCTTTATCTTTTCTCAGTGACCCTTGCCTAT-----T-GATTCATT---CTATTCATGTGTCTACTGGGAAAAAGTCATTGAAACAGTTAAAATTATATTGTGATAGAG
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55462398 246 +  90702639 agatggagtaggcagagccaagtacagggcccgtctgaggacatggctctatgtcactgcacaggtcacatgctattcaagccttccctgTATCAATATGTAGACCATAA-TTAACTTCAAAAACC----CTCAGTGGTGTTC---CTAGGGTATTCACCTTTCCACAATGACACTACACT-----C-T-TACTCATTTTCAAAATTATAATTGTGTTGGGTAAAGGTTTCTAAAGTTGTTAACATTACATTGCAAATTAG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14860219 246 +  74389097 ggatggcaatggcagaaccaatg---aggctaacatgagtg-agagttctaggtgattccacaagctgcatgtctgtgacccctgctctg------TGTGTGGATCAGAATTTATCT---AACTCTTTTACTAAATGGTCTCTAGACCAGCATGTTTATCTTTTCTCAATGACCCTTGTCTACACTC-T-AGTTAATTCTCATATTTATATTTCTATTGGGGAAGGGCTACTAAAGCTATTCAAAGTATATTATAATGGGG
i canFam3.chr11            C 0 I 1150
e micMur3.chr12             60482621 2558 + 108143057 I
e proCoq1.NW_012155062v1     3512690 2393 +  11683526 I
e otoGar3.GL873679           2995492  17 +   4132165 I
e dasNov3.JH567306           2552611 645 +   3667625 I

a score=29146.000000
s hg38.chr5_KI270796v1_alt     11000 3 +    172708 GCG
s panTro5.chr5             125121086 3 + 181907262 GGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126458066 3 + 183735486 GGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1649770 3 +   8933513 GGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139780753 3 + 163208435 GTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122766109 3 + 180051392 GGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124189635 3 + 181584905 GGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16187635 3 +  18395747 GGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5193751 3 +  26952557 GGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28301548 3 +  82825804 GGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3965660 3 -   4237731 GGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      236169 3 -   1175262 GGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123569765 3 - 204313951 GGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55624985 3 -  71252344 GGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1319557 3 -   1400280 GGG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13112777 3 -  42888418 GGG
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55462644 3 +  90702639 GCA
i mm10.chr18               C 0 C 0
e micMur3.chr12             60482621 2558 + 108143057 I
e canFam3.chr11             14860465 1150 +  74389097 I
e proCoq1.NW_012155062v1     3512690 2393 +  11683526 I
e otoGar3.GL873679           2995492 17 +   4132165 I
e dasNov3.JH567306           2552611 645 +   3667625 I

a score=51674.000000
s hg38.chr5_KI270796v1_alt     11003 4 +    172708 GCAG
s panTro5.chr5             125121089 4 + 181907262 GCAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126458069 4 + 183735486 GCAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1649773 4 +   8933513 GCAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139780756 4 + 163208435 GCAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122766112 4 + 180051392 GCAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124189638 4 + 181584905 GCAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16187638 4 +  18395747 GCAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5193754 4 +  26952557 GCAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28301551 4 +  82825804 GCAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3965663 4 -   4237731 GCAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      236172 4 -   1175262 GCAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123569768 4 - 204313951 GCAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55624988 4 -  71252344 GCAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1319560 4 -   1400280 GCAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13112780 4 -  42888418 GTAG
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55462647 4 +  90702639 ATAG
i mm10.chr18               C 0 I 2610
s dasNov3.JH567306           2553256 4 +   3667625 GTAG
i dasNov3.JH567306         I 645 C 0
e micMur3.chr12             60482621 2558 + 108143057 I
e canFam3.chr11             14860465 1150 +  74389097 I
e proCoq1.NW_012155062v1     3512690 2393 +  11683526 I
e otoGar3.GL873679           2995492 17 +   4132165 I

a score=121328.000000
s hg38.chr5_KI270796v1_alt     11007 10 +    172708 AAAGGAGAGT
s panTro5.chr5             125121093 10 + 181907262 AAAGGAGAGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126458073 10 + 183735486 AAAGGAGAGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1649777 10 +   8933513 AAAGGAGAGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139780760 10 + 163208435 AAAGGAGAGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122766116 10 + 180051392 AAAGGAGAGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124189642 10 + 181584905 AAAGGAGAGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16187642 10 +  18395747 AAAGGAGAGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5193758 10 +  26952557 AAAGGAGAGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28301555 10 +  82825804 AAAGGAGAGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3965667 10 -   4237731 AAAGGAGAGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      236176 10 -   1175262 AAAGGAGAGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123569772 10 - 204313951 AAAGGAGAGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55624992 10 -  71252344 AAGGGAGAGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1319564 10 -   1400280 AAAGGAGAGT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13112784 10 -  42888418 AAAGGAGAGT
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2553260 10 +   3667625 AAAGGAGTGC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60482621 2558 + 108143057 I
e canFam3.chr11             14860465 1150 +  74389097 I
e proCoq1.NW_012155062v1     3512690 2393 +  11683526 I
e otoGar3.GL873679           2995492 17 +   4132165 I
e mm10.chr18                55462651 2610 +  90702639 I

a score=1166644.000000
s hg38.chr5_KI270796v1_alt     11017 110 +    172708 TATATGTGTTCATATCCATGTCTTCTGAGTTTCATTCTCTGGGGGTCATTTTG-GAGAAGAGGAGTAACTTTAAATAACTTGAAAGGACTGTTGCAGGTAGTCATTTCTTC
s panTro5.chr5             125121103 108 + 181907262 --TATGTGTTCATATCCATGTCTTCTGAGTTTCATTCTCTGGGGGTCATTTTG-GAGAAGAGGAGTAACTTTAAATAACTTGAAAGAACTGTTGCAGGTAGTCATTTCTTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126458083 108 + 183735486 --TATGTGTTCATATCCATGTCTTCTGAGTTTCATTCTCTGGGGGTCATTTTG-GAGAAGAGGAGTAACTTTAAATAACTTGAAAGAACTGTTGCAGGTAGTCATTTCTTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1649787 108 +   8933513 --TATGTGTTCATATCCATGTCTTCTGAGTTTCATTCTCTGGGGGTCATTTTG-GAGAAGAGGAGTAACTTTAAATAACTTGAAAGGACTGTTGCAGGTAGTCATTTCTTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139780770 108 + 163208435 --TACGTGTTCATATCCTTGTCTTCTGAGTTTCATTCTCTGGGGGTCATTTTG-GAGAAGAGGAGTAACTTTAAATACCTTGAAAGGACTGTTGCAGGTAATCATTTCTTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122766126 108 + 180051392 --TATGTGTTCATATGCATGTCTTCTGAGTTTTCTTCTCTGGGGGTCATTTTG-GAGAAGAGGAGTAACTTTAAATACCTTGAAAGGACTGTGGCAGGTAGTCATTTTTTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124189652 108 + 181584905 --TATGTGTTCATATGCATGTCTTCTGAGTTTTCTTCTCTGGGGGTCATTTTG-GAGAAGAGGAGTAACTTTAAATACCTTGAAAGGACTGTGGCAGGTAGTCATTTTTTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16187652 108 +  18395747 --TATGTGTTCATATGCATGTCTTCTGAGTTTTCTTCTCTGGGGGTCATTTTG-GAGAAGAGGAGTAACTTTAAATACCTTGAAAGGACTGTGGCAGGTAGTCATTTTTTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5193768 108 +  26952557 --TATGTGTTCATATGCATGTCTTCTGAGTTTTCTTCTCTGGTGGTCATTTTG-GAGAAGAGGAGTAACTTTAAATACCTTGAAAGGACTGTGGCAGGTAGTCATTTTTTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28301565 108 +  82825804 --TATGTGTTCATATGCATGTCTTCTGAGTTTTCTTCTCTGGGGGTCATTTTG-GAGAAGAGGAGTAACTTTAAATACCTTGAAAGGACTGTGGCAGGTAGTCATTTTTTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3965677 108 -   4237731 --TATGTGTTCATATGCATGTCTTCTGAGTTTTCTTCTCTGGGGGTCATTTTG-GAGAAGAGGAGTAACTTTAAATACCTTGAAAGGACTGTGGCAGGTAGTCATTTTTTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      236186 108 -   1175262 --TATGTGTTCATGTGCTTGTCTTCTGAGTTTTCTTCTCTGGGGGTCATTTTG-GAGAAGAGGGGTAACTGTAAATACCTTGAAAGGACTGTGGCAGGTAGTCATTTTTCC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123569782 103 - 204313951 --TATGTGTTCATA----TATCTTCTGAGTTTTCTTCTCTAGGGGTCATTTT--GAGAAGAGGAGTAACTTTAAATACCTTGAAAGGACTGTTGCAGGTAGTCATTTTTTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55625002 104 -  71252344 --TATGTGTTCATA----TATCTTCTGAGTTTTCTTCTGTAGGAGTCATTTTG-GAGAAGAGGAGTAACCTTAAATACCTTGAAAGGACTGTTGCAGGTAGTCATTTTTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1319574 104 -   1400280 --TATATGTTCATA----TATCTTCTGAGTTTTCTTCTCTAGGGGTCATTTTG-GAGAAGAGGAGTAACTCTAAATGTCTTTGAAGGACTGTTGCAGGTAGTCATTTTTTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13112794 104 -  42888418 --TATGCATTCATA----TATCTTCTGAGTTTTCTTCTCTAGGAGTCATTTTG-GAGAAGAGGAGTAACTTTAAATACCTTGAAAGGACTGTTGCAGGTAGTCATTTTTTC
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14861615 107 +  74389097 --tataaatataaatatatatatCTTGAGTTTTCCTTTTTGGGTATCATTTTG-GAGAAAAGAAGGCATGTTAAGTAAATTGACAGGACTGTTGAGGGTA-TCATTTCTTG
i canFam3.chr11            I 1150 C 0
s dasNov3.JH567306           2553270 106 +   3667625 --TATATGATCATATATGTACCTTCTGAGTTTCTCTCTTTAGATATCAACTTGTTGGAAAAGGAGGCCCACTGAATATATGGA---GACTACTAAGGGTAGTAATTTCTTG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60482621 2558 + 108143057 I
e proCoq1.NW_012155062v1     3512690 2393 +  11683526 I
e otoGar3.GL873679           2995492  17 +   4132165 I
e mm10.chr18                55462651 2610 +  90702639 I

a score=333924.000000
s hg38.chr5_KI270796v1_alt     11127 23 +    172708 CCTTTATTTGTATTTGGGATTCT
s panTro5.chr5             125121211 23 + 181907262 CCTTTATTTGTATTTGGGATTCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126458191 23 + 183735486 CCTTTATTTGTATTTGGGATTCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1649895 23 +   8933513 CCTTTGTTTGTATTTGGGATTCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139780878 23 + 163208435 CCTTTATTTGCATTTGGGATTCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122766234 23 + 180051392 CCTTTATTTGCATTTGTGACTCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124189760 23 + 181584905 CCTTTATTTGCATTTGTGACTCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16187760 23 +  18395747 CCTTTATTTGCATTTGTGACTCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5193876 23 +  26952557 CCTTTATTTGCATTTGTGACTCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28301673 23 +  82825804 CCTTTATTTGCATTTGTGACTCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3965785 23 -   4237731 CCTTTATTTGCATTTGTGACTCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      236294 23 -   1175262 CCTTTATTTGCATTTGTGACTCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123569885 23 - 204313951 CCTTTATTTGCATTTGGGATTCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55625106 23 -  71252344 CCTTTATTTGCTTTTGGGATTCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1319678 23 -   1400280 CCTTTATTTGCACTTGGGACTCT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13112898 23 -  42888418 CCTTTATTTGCATTTGGGACTCT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60485179 23 + 108143057 CCTTTATTTGCATTTGGGACCCT
i micMur3.chr12            I 2558 C 0
s proCoq1.NW_012155062v1     3515083 23 +  11683526 CCTTTATTTGCATTTGGGACTCC
i proCoq1.NW_012155062v1   I 2393 C 0
s canFam3.chr11             14861722 23 +  74389097 CCCTTATCTACATTTGTGACTTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2553376 23 +   3667625 CCCTTATTTCTGTTTAGAACTCT
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           2995492 17 +   4132165 I
e mm10.chr18                55462651 2610 +  90702639 I

a score=1097405.000000
s hg38.chr5_KI270796v1_alt     11150 74 +    172708 AGGAGGACACTTTCTTATTTCATTCAAGGATAGATCACATCAACCCGGTGCTGCACCAAGTCCAGGCAGGGGG-A
s panTro5.chr5             125121234 74 + 181907262 AGGAGGAGACTTTCTTATTTCATTCAAGGATAGATCACATCAACCCGGTGCTGCACCAAGTCCAGGCAGGGGG-A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126458214 74 + 183735486 AGGAGGAGACTTTCTTATTTCATTCAAGGATAGATCACATCAACCCGGTGCTGCACCAAGTCCAGGCAGGGGG-A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1649918 74 +   8933513 AGGAGGAGACTTTCTTATTTCATTCAAGGGTAGATCACATCAACCCGGTGCTGCACCAAGTCCAGGCAGGGGG-A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139780901 74 + 163208435 AGGAGGAGACTTTCTTATTTCATTCAAGGATAGATCACATCAACCCGGTGCTGCACCAAGTCCAGGCAGGGGG-A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122766257 75 + 180051392 GGGAGGAGACTTTCTTATTTCATTAAAGGATAGATCACATCAACCCGGTGCTGCACCAAGTCCAGGCAGGGGGTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124189783 75 + 181584905 GGGAGGAGACTTTCTTATTTCATTAAAGGATAGATCACATCAACCCGGTGCTGCACCAAGTCCAGGCAGGGGGTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16187783 75 +  18395747 GGGAGGAGACTTTTTTATTTCATTAAAGGATAGATCACATCAACCCGGTGCTGCACCAAGTCCAGGCAGGGGGTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5193899 75 +  26952557 GGGAGGAGACTTTCTTATTTCATTCAAGGATAGATCACATCAACCCGCTGCTACACCAAGTCCAGGCAGGGGGTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28301696 75 +  82825804 GGGAGGAGATTTTCTTATTTCATTCAAGGATAGATCACATCAACCCGGTGCTGCACCAAGTCCAGGCAGGGGGTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3965808 75 -   4237731 GGGAGGAGACTTTCTTATTTCATTCAAGGATAGATCACATCAACCCGGTGCTGCACCAAGTCCAGGCAGGGGGTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      236317 75 -   1175262 GGGAAGAGACTTTCTTATTTCATTCAAGGATAGATCACATCAACCCCGTGCTGCACCAAGTCCAGGCAGGGGGTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123569908 74 - 204313951 GGGAGGAGACTTTCATATTTCATTCAAGGATAGATCACATCAACCTGGTGATTCACCAAGTCTAGGCAGGGGA-A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55625129 74 -  71252344 GGGAGAAGACTTTCTTATTTCATTCAAGGATAGATCACATCAACCTGGTGATACACCAAGTCCAGGCAGGGGG-A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1319701 74 -   1400280 GGGAGGAGACTTTCTTATTTCATTCAAGGATAGATCACATCAGTCTGGTGATTCACCAAGTCCAGGCAGGGGA-A
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13112921 74 -  42888418 GGGAGGAGACTTTCTTATTTCATTCAAGGAGAGATCACATCAACATGGTGATTCACCAAGTCCAGGCAGGGGG-A
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60485202 74 + 108143057 GGGAGGAGACTTCCTTACCTCAGTTAAGAATAGATCACATCAGCCCGGAGGTGCACCACGTCCAGGCAGAGGG-A
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3515106 74 +  11683526 AGGAGGAGACTTCCTTACCTCAGTTAAGAATAGAGCACGTCAACCCGGGGGTGCACCCAGTCCGGGCAGAGGG-A
i proCoq1.NW_012155062v1   C 0 I 111
s otoGar3.GL873679           2995509 74 +   4132165 AGGGGAAGTCTTCCTCACTCTAGTTAAGAATAGAGCGTAGCAGCCCAAAGGGGCACCAAGTCCAGGCAGATGT-G
i otoGar3.GL873679         I 17 C 0
s canFam3.chr11             14861745 74 +  74389097 CAGAGAGGACTTTCTTACCCCAATAAAGGATAAATCACATCAACCCAGTGATGCACCAGGTCCAGGCAGAGGA-A
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2553399 62 +   3667625 ------------TCTTATACCAGCCAAGGATAGATCACATCATCCTGGTGGTACACCCAGCCCAGGCAAAGGG-A
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55462651 2610 +  90702639 I

a score=69792.000000
s hg38.chr5_KI270796v1_alt     11224 6 +    172708 -GTCCTT
s panTro5.chr5             125121308 6 + 181907262 -ATCCTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126458288 6 + 183735486 -ATCCTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1649992 6 +   8933513 -ATCCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139780975 6 + 163208435 -GTCCTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122766332 6 + 180051392 -ATCCTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124189858 6 + 181584905 -ATCCTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16187858 6 +  18395747 -ATCCTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5193974 6 +  26952557 -ATCCTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28301771 6 +  82825804 -ATCCTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3965883 6 -   4237731 -ATCCTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      236392 6 -   1175262 -ATCCTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123569982 6 - 204313951 -ATCCTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55625203 6 -  71252344 -ATCCTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1319775 6 -   1400280 -ATCCTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13112995 6 -  42888418 -ATCCTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60485276 6 + 108143057 -GCCCTT
i micMur3.chr12            C 0 I 107
s otoGar3.GL873679           2995583 6 +   4132165 -ACACTC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14861819 6 +  74389097 -ACCCCT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2553461 6 +   3667625 GCTTCT-
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3515180 111 +  11683526 I
e mm10.chr18                55462651 2610 +  90702639 I

a score=1127276.000000
s hg38.chr5_KI270796v1_alt     11230 110 +    172708 AACATTTAGTTTTCCGCTGCTTCTCTTGGTTTCTAAGTTGTGTAGACAGAACATATAGTAGCAGAGAGA--GAGAGTTTGATTGAAGAAGGGGCTAGAGGGATTGCTGGTGT
s panTro5.chr5             125121314 110 + 181907262 AACATTTAGTTTTCCACTGCTTCTCTTGGTTTCTAAGTTGTGTAGACAGAACATATAGTAGCAGAGAGA--GAGAGTTTGATTGAAGAAGGGGCTAGAGGGATTGCTGGTGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126458294 110 + 183735486 AACATTTAGTTTTCCACTGCTTCTCTTGGTTTCTAAGTTGTGTAGACAGAACATGTAGTAGCAGAGAGA--GAGAGTTTGATTGAAGAAGGGGCTAGAGGGATTGCTGGTGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1649998 110 +   8933513 AACATTTAGTTTTCCGCTGCTTCTCTTGGTTTCTAAGTTGCGTAGACAGAACATATAGTAGCAGAGAGA--GAGAGTTTGATTGAAGAAGGGGCTGGAGGGATTGCTGGTGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139780981 110 + 163208435 AACATTTACTTTTCCGTTGCTTCTCCTGCTTTCTAAGTTGTGTAGACAGAACATATAGTAGCAGAGAGA--GAGAGTTTGATTGAAGAAGGGGCTAGGGGGATTGCTGGTGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122766338 112 + 180051392 AACATTTGGTTTTCTCCTGCTTCTCCTGGTTTCTAAGTTGTGTAGACAGACCATGTAGTAGCAGAGAGAGGGAGAGTTTGATTGAAGAAGGGGCTAGAGGGATTGCTAGTGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124189864 112 + 181584905 AACATTTGGTTTTCTCCTGCTTCTCCTGGTTTCTAAGTTGTGTAGACAGACCATGTAGTAGCAGAGAGAGGGAGAGTTTGATTGAAGAAGGGGCTAGAGGGATTGCTAGTGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16187864 112 +  18395747 AACATTTGGTTTTCTCCTGCTTCTCCTGGTTTCTAAGTTGTGTAGACAGACCATGTAGTAGCAGAGAGAGGGAGAGTTTGATTGAAGAAGGGGCTAGAGGGATTGCTAGTGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5193980 112 +  26952557 AACATTTGGTTTTCTCCTGCTTCTCCTGGTTTCTAAGTTGTGTAGACAGACCATGTAGTAGCAGAGAGAGGGAGAGTTTGATTGAAGAAGGGGCTAGAGGGATTGCTAGTGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28301777 112 +  82825804 AACATTTGGTTTTCTCCTGCTTCTCCTGGTTTCTAAGTTGTGTAGACAGACCATGTAGTAGCAGGGAGAGGGAGAGTTTGATTGAAGAAGGGGCTAGAGGGATTGCTAGTGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3965889 112 -   4237731 AACATTTGGTTTTCTCCTGCTTCTCCTGGTTTCTAAGTTGTGTAGACAGACCATGTAGTAGCAGAGAGAGGGAGAGTTTGATTGAAGTAGGGGCTAGAGGGATTGCTAGTGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      236398 108 -   1175262 AACATTTAGTTTTCCCCTGCTTCTCCTGGTTTCTGAGTTGTGTAAACAGACCATATAGTAGCAGAGAGAGGGAGAGT----TTGAAGAAGGGGCTAGAGGGATTGCTGGTGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123569988 106 - 204313951 AACATTTAATTTTCCCCTGCTTCCCCTGACTTCTATGTTTTATAGACAGAACAGATAGTAGCAGA------GAGAGTTTGATGGAAGAAGAGGCTAGAGGGATGGCTGGTGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55625209 106 -  71252344 AACATTTAATTTTCCCCTGCTTCCCCTGAATTCTATGTTGTATAGACAGCACAGATAGTAGCAGA------GAGAGTTTGATGGAAGAAGGGGCTAGAGGGATGGCTGGTGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1319781 106 -   1400280 AACATTTAATTTTCCTCTGCTTCCCCTGAATTCTATGTTGTATAGACAGAACAGATAGTGGCAGA------GGGAGTTTGATTGAAGCAAGGGCTAGAGGGATGGCTGGTGT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13113001 106 -  42888418 AACATTTAATTTTCCCCTGCTTCCCCTGACTTCTGTATTTTATAGACAGAACAGATAGTAGCAGA------GAGAGTTTGATCGAAGGAGGGGCTAGAGGGTTGGCTGGTGT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2995589 101 +   4132165 AACATTTAGCTTTCCCAAGCATGTCCTAGTTTCTCAGTCATGTGGACAGAATGTGCAGGAACAGA----------GTTAGGCTGGTGAAGAGGCTGTAGGGATTG-TGATAT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14861825  97 +  74389097 -GGTATCAGCTTTTGCAAGCAGCCCCTGGTTCCTAAGTGGTGCAGACAGAATATATG--------------TAGAGCCTCATTGGAGAAGAGGCTAGAGGAATTACTTCAGT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2553467  86 +   3667625 GAAACGTAGCTTTCCTCTGTATCCCCTGGCTCCCAAGTGGTGTAGAGAGGGCGTGCAAGAGCA--------GAGGGTCTGGCTGGAGAAGAAGG------------------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60485282 107 + 108143057 I
e proCoq1.NW_012155062v1     3515180 111 +  11683526 I
e mm10.chr18                55462651 2610 +  90702639 I

a score=525860.000000
s hg38.chr5_KI270796v1_alt     11340 41 +    172708 GGGGTAAGATGGCTCTCTGGCAAGGGCAACTGTGGGAATAA
s panTro5.chr5             125121424 41 + 181907262 GGGGTAAGATGGCTCTCTGGCAAGGGCAACTGTGGGAATAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126458404 41 + 183735486 GGGGTAAGATGGCTCTCTGGCAAGGGCAACTGTGGGAATAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1650108 41 +   8933513 GGGGTAAGATGGCTCTCTGGCAAGGGCAACTGTGGGAATAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139781091 41 + 163208435 GGGGTAAGATGGCTCTCTGGCAAGGGCAGCTGAGGGAATAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122766450 40 + 180051392 -GGGTAAGAAGGCTCTCTGGCAAGGGCAACTGAGGGAATAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124189976 40 + 181584905 -GGGTAAGAAGGCTCTCTGGCAAGGGCAACTGAGGGAATAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16187976 40 +  18395747 -GGGTAAGAAGGCTCTCTGGCAAGGGCAACTGAGGGAATAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5194092 40 +  26952557 -GGGTAAGAAGGCTCTCTGTCAAGGGCAACTGAGGGAATAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28301889 41 +  82825804 GGGGTAAGAAGGCTCTCTGGCAAGGGCAACTGAGGGAATAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3966001 40 -   4237731 -GGGTAAGAAGACTCTCTGGCAAGGGCAACTGAGGGAATAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      236506 41 -   1175262 GGGGTAAGAAGGTTCTCTGGCTAGGGCAACTGAGGAAATAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123570094 41 - 204313951 GCGGTAAGCTGATTTTCTGGCAAGGACAATTGAGGGAATAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55625315 41 -  71252344 GGAGTAAGATGGTTTTCTGGCAAGGACAGCTGAGGGAATAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1319887 41 -   1400280 GGGGTAAGATGGTTTTCTGGCAAGGACAATTGAGGGAATAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13113107 41 -  42888418 GGGGTAAGATGGTTTTCTGGCAAGGACAATTGAGGGAATAA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3515291 41 +  11683526 GGGGTGAGATGGCTCTCTGACGTGGGCAGCTGAGCAAATAA
i proCoq1.NW_012155062v1   I 111 C 0
s otoGar3.GL873679           2995690 41 +   4132165 GGGGTGAGACAGCTGGCTGGCACTGTCAGCTAAAGGAATAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14861922 35 +  74389097 GAGGAAACATGGATGCCTGGCATGGGCAGCTGAGG------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2553553 41 +   3667625 GGGGTCAGATGGCACTCTGGCACAGGCAAATGAGGGAATAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60485282 107 + 108143057 I
e mm10.chr18                55462651 2610 +  90702639 I

a score=734874.000000
s hg38.chr5_KI270796v1_alt     11381 52 +    172708 CCAAGACTGGGCTGAATAGAAGTCATAGCCACACCTTACAGAAGTCTGTGGA
s panTro5.chr5             125121465 52 + 181907262 CCAAGACTGGGCTGAATAGAAGTCATAGCCACACCTTACAGAAGTCTGTGGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126458445 52 + 183735486 CCAAGACTGGGCTGAATAGAAGTCATAGCCACACCTCACAGAAGTCTGTGGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1650149 52 +   8933513 CCAAGACTGGGCTGAATAGAAGTCATAGCCACACCTTACAGAAGTCTATGGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139781132 52 + 163208435 CCAAGACAGTGCTGAATAGAAATCATAGCCACACCTTACAGAAGTATGTGGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122766490 52 + 180051392 CCAAGATAGGGCTGAATAGAACTCATAGCCATGCCTTACAGAAGTCTGTGGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124190016 52 + 181584905 CCAAGATAGGGCTGAATAGAACTCATAGCCATGCCTTACAGAAGTCTGTGGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16188016 52 +  18395747 CCAAGATAGGGCTGAATAGAACTCATAGCCATGCCTTACAGAAGTCTGTGGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5194132 52 +  26952557 CCAAGATAGGGCTGAATAGAACTCATAGCCATGCCTTACAGAAGTCTGTGGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28301930 52 +  82825804 CCAAGATAGGGCCGAATAGAACTCATAGCCATGCCTTACAGAAGTCTGTGGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3966041 52 -   4237731 CCAAGATAGGGCTGAATAGAACTCATAGCCATGCCTTACAGAAGTCTGTGGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      236547 52 -   1175262 CCAATATAGGGCTGAATAGAAGTCATAGCCATGCCTTACAGAAGTCTGTGGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123570135 52 - 204313951 CCAAGACAGGGGTGAGTAGAAGTCATAGCCACACCTTACAAAAGTCTGTGGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55625356 52 -  71252344 CCAAGACAGGGGTGAGTAGAAGTCATAGCCACACCTTACAAAAGTCTGTGGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1319928 52 -   1400280 CCAAGACAGGGGTGAGTAGAAGTCATAGCCACACCTTACAAAAGTCTGTGGG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13113148 52 -  42888418 CCAAGACAGGGGTGAATAGAAGTCATAGCCACACCTTACAAAAGTCTTTGGG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60485389 52 + 108143057 CCAAGACAGGGCTGAGTGGCAGTCAGAGCCACACCTTACAGACGTCTGTAGA
i micMur3.chr12            I 107 C 0
s proCoq1.NW_012155062v1     3515332 51 +  11683526 CCAAGACAGGGCTGAGTGGCAGTCGGAGCCGCACC-TACAGACGTCTGTAGA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2995731 52 +   4132165 CCAAGACAGGGCTGAATGGCAGTTGGAGCCACACCTTACAGACATCTGGAGA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14861957 49 +  74389097 ---AGATGGGGCTAAATGGAAGTCAGAGCCATGTCTCACAGAACTCAACAGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2553594 52 +   3667625 CTAATCTTCAGCCAAATGGGAGTCACAACCAAACCTCAGAGAAGTCTCTAAA
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55462651 2610 +  90702639 I

a score=21021.000000
s hg38.chr5_KI270796v1_alt     11433 1 +    172708 A
s panTro5.chr5             125121517 1 + 181907262 A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126458497 1 + 183735486 A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1650201 1 +   8933513 A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139781184 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122766542 1 + 180051392 A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124190068 1 + 181584905 A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16188068 1 +  18395747 A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5194184 1 +  26952557 A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28301982 1 +  82825804 A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3966093 1 -   4237731 A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      236599 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123570187 1 - 204313951 A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55625408 1 -  71252344 A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1319980 1 -   1400280 A
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13113200 1 -  42888418 A
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60485441 1 + 108143057 A
i micMur3.chr12            C 0 I 284
s proCoq1.NW_012155062v1     3515383 1 +  11683526 A
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2995783 1 +   4132165 A
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55465261 1 +  90702639 A
i mm10.chr18               I 2610 C 0
s canFam3.chr11             14862006 1 +  74389097 A
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2553646 1 +   3667625 A
i dasNov3.JH567306         C 0 C 0

a score=1800680.000000
s hg38.chr5_KI270796v1_alt     11434 140 +    172708 AATGCACAAACCCAAATAAGATCAAAACCACCAGAGAGTGGTAATA-----GGCCCCGACTGAACTAAGTCAAGGTGGTAAGTTACCCCAGCCACAGAAT-----TCAGCTGTGAACACCTTCAGGACCAGCAGC-----ACATGGATGCACAAG
s panTro5.chr5             125121518 140 + 181907262 AATGCACAAACCCAAATAAGATCAAAACCACCAGAGAGTGGTAATA-----GGCCCCGACTGAACTAAGTCAAGGTGGTAAGTTACCCCAGCCACAGAAT-----TCAGCTGTGAACACCTTCAGGACCAGCAGC-----ACATGGATGCACAAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126458498 140 + 183735486 AATGCACAAACCCAAATAAGATCAAAACCACCAGAGAGTGGTAATA-----GGCCCCGAATGAACTAAGTCAAGGTGGTAAGTTACCCCAGCCACAGAAT-----TCAGCTGTGAACACCTTCAGGACCAGCAGC-----ACATGGATGCACAAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1650202 140 +   8933513 AATGCACAAACTCAAATAAGATCAAAACCACCAGAGAGTGGTAATA-----GGCCCCGACTGAACTAAGTCAAGGTAGTAAGTTACCCCAGCCACAGAAT-----TCAGCTGTGAACACCTTCAGGACCAGCAGC-----ACATGGATGCACAAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139781185 132 + 163208435 AAAGTGCAAACTCAAATGAGATCAAAATCACCAGAGAGTGGTAATA-----GGCCCCGACTGAACTAAGTCAAGGTGGTA--------CAGCCACAGAAT-----TCAGCTGTGAACACCTTCAGGACCAGCAGC-----ACATGGATGCACAAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122766543 140 + 180051392 AAAGCACAAACCCAAATGAGATCAAAACCAGAAGAAAGTGCTAATA-----GGCCCCAACTGAACTAAGTCAAGGAGGTAAGTTACCCCAGCCACAGAAT-----TCAGCTGTGAACACCTTCAGGACCAGCAGT-----ACATGGATGCACGAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124190069 140 + 181584905 AAAGCACAAACCCAAATGAGATCAAAACCAGAAGAAAGTGCTAATA-----GGCCCCAACTGAACTAAGTCAAGGAGGTAAGTTACCCCAGCCACAGAAT-----TCAGCTGTGAACACCTTCAGGACCAGCAGT-----ACATGGATGCACGAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16188069 140 +  18395747 AAAGCACAAACCCAAATGAGATCAAAACCAGAAGAGAGTGCTAATA-----GGCCCTGACTGAACTAAGTCAAGGAGGTAAGTTACCCCAGCCACAGAAT-----TCAGCTGTGAACACCTTCAGGACCAGCAGT-----ACATGGATGCACGAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5194185 135 +  26952557 AAAGCACAAACCCAAATGAGATCAAAACCACCAGAGAGTGCTAATA-----GGCCCCGACTGAACTAAGTCAAGGAGG-----TACCCCAGCCACAGAAT-----TCAGCTATGAACACCTTCAGGACCAGCAGT-----ACATGGATGCACGAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28301983 140 +  82825804 AAAGCACAAACCCAAATGAGATCAAAACCACCAGAGAGTGCTAATA-----GGCCCCGACTGAACTAAGTCAAGGAGGTAAGTTACCCCAGCCACAGAAT-----TCAACTGTGAACACCTTCAGGACCAGCAGT-----ACATGGATGCACGAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3966094 140 -   4237731 AAAGCACAAACCCAAATGAGATCAAAACCACCAGAGAGTGCTAATA-----GGCCCCGACTGAACTAAGTCAAGGAGGTAAGTTACCCCAGCCACAGAAT-----TCAACTGTGAACACCTTCAGGACCAGCAGT-----ACATGGATGCACGAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      236600 140 -   1175262 AAAGCACAAACCCAAATGAGATCAAAACCACCAGAGAGTGCTAATA-----GGCCCCGACTGAACTAAGTCAAGGAGGTAAGTTACCCCAGCCACAGAAT-----TCAGCTGTGAACACCTTCAGGACCAGCAGT-----ACATGGATGCATGAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123570188 145 - 204313951 AAAGCACAAACCCAAACGAGATCAAAACCACCAGAGAGTGCCAATA-----AGCCCTGATTGAACTAAGTCAAGGTGGTAAGTTACCCCAGCCACAGTAT-----TCAGCTGTAAACACCTTCAAGACCAGCAGCACAGGACATGGATGCACAAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55625409 145 -  71252344 AAAGCAGAAACCCATATGAGATCAAAACCACCAGAGAGTGCCAGTA-----GGCCCCGACTGAACTAAGTCAAGGTGGTAAGTTACCCCAGCCGCAGTAT-----TCAGGCGTGAACACCTTCAAGACCAGCAACACAGGACATGGATGCACAAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1319981 145 -   1400280 AAAGCACAAACCCAAATGAGATCAAAACCACCAGAGAGTGCCAATA-----GGTCCTGACTGAACTAAGTCAAGGTGGTAAGTTACCCCAGCCGCAGAAT-----TCAGCTGTGAATACCTTCGAGACCAGCAGCACAGGACATGGATGCACAAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13113201 145 -  42888418 AAAGCACAAACGCAAATGAGATCAAAACCACCAGAGAGTGCCAATA-----GGCCCCGATTGAACTAAGTCACGGTGGTAAGTTACCCCAGCCGCAGTAT-----TCAGCTGTGAACACCTTCAAGACCAGCAGCACAGGACATGGATGCACAAG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3515384 140 +  11683526 AGAGCACAAACCCGAGTGAGGTCGAAGCCACCAGGGAGTGCTCGTG-----AGCCCTGACCGAACTGAGTCAAGGTCATAAGTTACCCCAGACACAAAAT-----TCAGCTGTGAACGCCGTCAGCACCGGCAGT-----GCATGGATGGACAAG
i proCoq1.NW_012155062v1   C 0 I 147
s otoGar3.GL873679           2995784 134 +   4132165 AAGGCACA----------------GAACCAGCAGGAAATCCTGGTGAATGCAGCCCTGACTGAATGGAGGCAAGGCCATAAGTTACCCCAGACTGAAACCAGCTGTGAGCCATGAACGCTTCCAGCACCAGCAGG-----ACATGGATGGACAAG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55465262 127 +  90702639 AAAGCATAAACA-AAACTTGATACAAACCTCTAG------TTGGTG-----GGACTGTACTGTACTTGG----GATACTAAGTTATCCCAACTGCAGAAT-----CTGTTTGGAAAAGTCT--GGAACTAGCTGT-----GTAAGAATAAGCAAC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14862007 138 +  74389097 AGAGGACAAACCCAAATGAGGTCAAAACCACCAGAGAGTGCTAATG-----GGTCCTGACTGAAGTAGATCAACATCACAAGTGACC-CAGCCACAGAGT-----TTAGCTGGGAACTCCTTCAGAGCAAGCAAC-----ACGTGGATG-ATAAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2553647 130 +   3667625 AGAACCCAAGTCAAAACAAGGTAAAGACTGCCAGAGAG-------------TGCCCCAAATGGATTGAATCAAGAT--CACGTTACCACAACCACAGAAC-----TTAGTTGTGAAAGTCTTCAGGGAAAGCAGT-----GCACAGACGTACCAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60485442 284 + 108143057 I

a score=986752.000000
s hg38.chr5_KI270796v1_alt     11574 136 +    172708 TGACAAATTGCTTGGGGACAAGGGCTCTGCTTCTTTCCCACTCACTCCTGGAAGCTCTCAGAGG-----------CTGTACCTGTCAGCGAA-GGGC------------------------------GGGGGTTGGGGTGGTG------GTGG-AA---ACAACCTCTGAG-CAAA-ACATGCTGACTCC
s panTro5.chr5             125121658 142 + 181907262 TGACAAATTGCTTGGGGACAAGGGCTCTGCTTCTTTCCCACTCACTCCTGGAAGCTCTCAGAGG-----------CTGTACCTGTCAGCGAA-GTGCG-GCG------------------------GGGGGGTTGGGGGGGGG------GCGGAAA---AAAACCTCTGAG-CAAA-ACATGCTGACTCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126458638 141 + 183735486 TGACAAATTGCTTGGGGACAAGGGCTCTGCTTCTTTCCCACTCACTCCTGGAAGCTCTCAGAGG-----------CTGTACCTGTCAGCGAA-GTGCA-GCG-------------------------GGGGGTTGGGGGCGGG------GTGGAAA---AAAACCTCTGAG-CAAA-ACATGCTGACTCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1650342 141 +   8933513 TGACAAATTGCTTGGGGACAAGGGCTCTGCTTCTTTCCCACTCACTCCTGGAAGCTCTCAGAGG-----------CTGTACCTGTCAGCGAA-GGGC------------------------------GGGGGTTGGGGGGTGGGGT-GTGTGG-AA---ACAACCTCTGAG-CAAA-ACATGCTGACTCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139781317 142 + 163208435 TGACAAATTGCTTGGGGACAGGGGCCCTGCTTCTTTCCCACTCACTCCTGGAAGCTCTCAGAGG-----------CGGTACCTGTCAGCCAA-gggc------------------------------gggggttgggggtgggggtggggtgg-gA---ACAACCTCTGAG-CAAA-ACATGCATACTCC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122766683 118 + 180051392 TGACACATTGCTTGGGGACAAGGGCTCTGCTTCTTTCC----CACTCCT-GAAGCTCTCAGAGG-----------CCATACCTGTCAGCCAA-GGTC------------------------------GGG-------------------GTGG-GA---ACAATCTCTGAG-CAAA-ACATGCTTACTCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124190209 118 + 181584905 TGACACATTGCTTGGGGACAAGGGCTCTGCTTCTTTCC----CACTCCT-GAAGCTCTCAGAGG-----------CCATACCTGTCAGCCAA-GGTC------------------------------GGG-------------------GTGG-GA---ACAATCTCTGAG-CAAA-ACATGCTTACTCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16188209 118 +  18395747 TGACACATTGCTTGGGGACAAGGGCTCTGCTTCTTTCC----CACTCCT-GAAGCTCTCAGAGG-----------CCATACCTGTCAGCCAA-GGTG------------------------------GGG-------------------GTGG-GA---ACAATCTCTGAG-CAAA-ACATGCTTACTCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5194320 119 +  26952557 TGACACATTGCTTGGGGACAAGGGCTCTGCTTCTTTCC----CACTCCTGGAAGCTCTCAGAGG-----------CCATACCTGTCAGCCAA-GGCG------------------------------GGG-------------------GTGG-GA---ACAATCTCTGAG-CAAA-ACATGCTTACTCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28302123 119 +  82825804 TGACACATTGCTTGGGGACATGGGCTCTGCTTCTTTCC----CACTCCTGGAAGCTCTCAGAGG-----------CCATACCTGTCAGCCAA-GGCA------------------------------GGG-------------------GTGG-GA---ACAATCTCTGAG-CAAA-ACATCCTTACTCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3966234 119 -   4237731 TGACACATTGCTTGGGGACAAGGGCTCTGCTTCTTTCC----CACTCCTGGAAGCTCTCAGAGG-----------CCATACCTGTCAGCCAA-GGCG------------------------------GCG-------------------GTGG-GA---ATAACCTCTGAG-CAAA-ACATGCTTATTCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      236740 119 -   1175262 TGACACATTGCTTGGGGACAAGGGCTCTGCTTCTTTCC----CACTCCTGGAAGCTCTCAGAGG-----------TCATACCTGTCAGCCAA-GGCG------------------------------GGG-------------------GTGG-GA---ATAAGCTCTGAG-CAAA-ACATGCTTACTGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123570333 117 - 204313951 AGACAAAAAGTTTGGGGACAAGGGCTCTAGTTCCTTCC----CAGTCCTTGAAGCTCTCAGAGG-----------CCGCACCCATCAGCCAA-GG--------------------------------AGG-------------------GTGG-GA---GCAACCTCTGAG-CAAA-ACATTCTTACTCC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55625554 118 -  71252344 AGGGAAAACGTTTGGGGACACGCGCTCTAGTTCTTTCC----CAGTCCTGGAAGCTCTCAGAGG-----------CCGCACCCATCAGCCAGTGG--------------------------------GGG-------------------GTGG-GA---GCAACCTCTGAG-CAAA-ACATTCTTACTCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1320126 117 -   1400280 AGACAGAAAGTTTGGGGACACGCGCTCTAGTTCTTTCC----CAGTCCTGGAAGCTCTCAGAGG-----------CCACACCCATCAGCCAA-TG--------------------------------GGG-------------------GTGG-GA---GCAACCTCTGAG-CGAA-ACATTCTTACTCC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13113346 117 -  42888418 AGACAAAAAGCTTGGGGACAAGCGCTCTAGTTCTTTCT----CAGTCCTGGAAGCTCTCAGAGG-----------CCGCACCCGTCACCCAA-GG--------------------------------AGG-------------------GTGG-GA---GCAACCTCTGAG-CAGA-ACATTCTTACTCC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2995918 148 +   4132165 AGACAGAAAGTTTGAACACAAGGATGCTAACTCTTCCC----TACTCCTGGAATGTCTCCCACA-----------CCACACCTTTCAACCAA-TATGC-CCAAAAACATCACAAAGAAAGA-AATCAGGG-------------------GTGG-CA---GGTACCTCGGAGAAAAA-ACATACTTGCTCA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55465389 154 +  90702639 TGAGAGATTA---GGAGATAGTGCCCCTAACCCTTCCA----ACTTCCtaaaaaaattaataaaaaataaatttCACGTACCTTTTAACCAG-TGTCATGCAATGACTTCAGCAAGAAAGGCCGTAGTGA-------------------ATAG-AG---TCAACCTTAAAG-AAAAGACATCCTAG----
i mm10.chr18               C 0 C 0
s canFam3.chr11             14862145 148 +  74389097 AGGCAGGAAGCGTGGGTAGAAGGGCCCTGACTATTTTC----TACTCCTGGAAAGTTTCATAAG-----------TCACCTCGTTCAACCAA-TGTACCCAGATAATGCTGCAAGGAAAGAAAGAG-GAA-------------------ATGG-GT---ACTACCTCAGAG-AAAA-ACGTGCTTTGTCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2553777 148 +   3667625 AAGCAGAT---TTGGCTACAAGGGTCTTAACTCTTTCA----CATTCCTGGAAGTTGTCAAAAG-----------CCATGCTTTTCAACCAA-TATGCCCAGACGGGATGAAAAGGAAAGAAACAA-GGG-------------------ATGA-GAGCTGCTACCTCAGGG-AAAA-ACATGATTATACA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60485442 284 + 108143057 I
e proCoq1.NW_012155062v1     3515524 147 +  11683526 I

a score=72720.000000
s hg38.chr5_KI270796v1_alt     11710 5 +    172708 AAAGA
s panTro5.chr5             125121800 5 + 181907262 AAAGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126458779 5 + 183735486 AAAGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1650483 5 +   8933513 AAAGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139781459 5 + 163208435 AAAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122766801 5 + 180051392 AAAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124190327 5 + 181584905 AAAGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16188327 5 +  18395747 AAAGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5194439 5 +  26952557 AAAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28302242 5 +  82825804 AAAGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3966353 5 -   4237731 AAAGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      236859 5 -   1175262 GAAGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123570450 5 - 204313951 AAACA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55625672 5 -  71252344 AAACA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1320243 5 -   1400280 AAACA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13113463 5 -  42888418 AAACA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3515671 5 +  11683526 AAAGA
i proCoq1.NW_012155062v1   I 147 C 0
s otoGar3.GL873679           2996066 5 +   4132165 AAAGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55465543 5 +  90702639 AAACA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14862293 5 +  74389097 AAAGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2553925 5 +   3667625 AAAGA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60485442 284 + 108143057 I

a score=506575.000000
s hg38.chr5_KI270796v1_alt     11715 37 +    172708 CTAAACTCTGTGCAAATGGGCTGTTTAAATGATCAGA
s panTro5.chr5             125121805 37 + 181907262 CTAAACTCTGTGCAAATGGGCTGTTTAAATGATCAGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126458784 37 + 183735486 CTAAACTCTGTGCAAATGGGCTGTTTAAATGATCAGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1650488 37 +   8933513 CTAAACTCTGTGCAAATGGGCTGTTTAAATGATCAGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139781464 37 + 163208435 CCGAACTCTGTGCAAATGGGCTGTTTAAATGATCAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122766806 32 + 180051392 CTG-----TGTGCAAATGGGCTGTTTAAATGATCAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124190332 32 + 181584905 CTG-----TGTGCAAATGGGCTGTTTAAATGATCAGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16188332 32 +  18395747 CTG-----TGTGCAAATGGGCTGTTTAAATGATCAGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5194444 32 +  26952557 CTA-----TGTGCAAATGGGCTGTTTAAATGATCAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28302247 32 +  82825804 CTG-----TGTGCAAATGGACTGTTTAAATGATCAGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3966358 32 -   4237731 CTA-----TGTGCGAATGGGCTGTTTAAATGATCAGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      236864 32 -   1175262 CTA-----TGTGCAAATGGGCTGTTTAAATGATCAGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123570455 37 - 204313951 CTAAACTCTGTGCAAATGGGCTGTTTAAATGATCAGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55625677 37 -  71252344 CTAAACTCTGTGCAAATGGGCTGTTTAAATGGTCAGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1320248 37 -   1400280 CTAAACTCTGTGCAAATGGGCTGTTTAAATGATCAGA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13113468 37 -  42888418 CTAAACTCTGTGCAAATGGGCTGTTTAAATGATCAGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60485726 37 + 108143057 CTAAACTCTGTGTAACTGGGCTGTCTAAATGATCAGA
i micMur3.chr12            I 284 I 115
s proCoq1.NW_012155062v1     3515676 37 +  11683526 CTAAACTCTGTGTAAACGGGCTGTTTAAATGATCAGA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2996071 35 +   4132165 CTAAACTC--TGTAAATGGGCTGTTTAAACCATCAGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55465548 32 +  90702639 ----CTTTCCTTGGCATGTGTAGCTCAAGTGATGGG-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14862298 35 +  74389097 CTAAACACTGT--AACTGGGCTGTTTAAATTATCTGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2553930 37 +   3667625 CTAAATACTAAGTAAATGGGCTGTTGAAATTATCAGA
i dasNov3.JH567306         C 0 C 0

a score=1208373.000000
s hg38.chr5_KI270796v1_alt     11752 118 +    172708 ATAGATTGTACTTTAGACAGGATTTGACGTTCAGCAAGTTTT-TTTCCTGTTGAACATTAGGCTGGAGTTGG-----GAAGTTG---------------GTGAGCAGA---GTGTGCATAGTGACAGGGCCgaaag--------------------------------------------cttaaa
s panTro5.chr5             125121842 118 + 181907262 ATAGATTGTACTTTAGACAGGATTTGACATTCAGCAAGTTTT-TTTCCTGTTGAACATTAGGCTGGAGTTGG-----GAAGTTG---------------GTGAGCAGA---GTGTGCATAGTGACAGGGCCgaaag--------------------------------------------cttaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126458821 118 + 183735486 ATAGATTGTACTTTAGACAGGATTTGACATTCAGCAAGTTTT-TTTCCTGTTGAACATTAGGCTGGAGTTGG-----GAAGTTG---------------GTGAGCAGA---GTGTGCATAGTGACAGGGCCgaaag--------------------------------------------cttaaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1650525 118 +   8933513 ATAGATTGTACTTTAGACAGGATTTGACATTCAGCAAGTTTT-TTTCCTGTTGAACATTAGGCTGGAGTTGG-----GAAGTTG---------------GTGAGCAGA---GTGTGCACAGTGACAGGGCCgaaag--------------------------------------------cttaaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139781501 118 + 163208435 ATAGATTGTACTTTAGACAGGATTCGAGATTCAGCAAGTTTT-TTTCCTGTTGGACGTTAGACTGGAGTTGG-----GAAGTTG---------------GTGAGCAGA---GTGTGTATAGTGACAGGGTCAAAAG--------------------------------------------CTTAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122766838 115 + 180051392 ATAGATTGTACTTTAGACAGGATTCAACATTCAGCAAG--GT-TTTCCTGTTGAACATGAG-CTGGAGTTAG-----GAAGTTG---------------GTGAGTAGA---GTGTGCATAGTGACAGGATTGAAAG--------------------------------------------CTTAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124190364 115 + 181584905 ATAGATTGTACTTTAGACAGGATTCAACATTCAGCAAG--GT-TTTCCTGTTGAACATGAG-CTGGAGTTAG-----GAAGTTG---------------GTGAGTAGA---GTGTGCATAGTGACAGGATTGAAAG--------------------------------------------CTTAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16188364 115 +  18395747 ATAGATTGTACTTTAGACAGGATTCAACATTCAGCAAG--GT-TTTCCTGTTGAACATGAG-CTGGAGTTAG-----GAAGTTG---------------GTGAGTAGA---GTGTGCATAGTGACAGGATTGAAAG--------------------------------------------CTTAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5194476 115 +  26952557 ATAGATTGTACTTTACACAGGATTTGACATTCAGCAAG--GT-TTTCCTGTTGAACATGAG-CTGGAGTTAG-----GAAGTTG---------------GTGAGTAGA---GTGTGCATAGTGACAGGATTGAAAG--------------------------------------------CTTAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28302279 115 +  82825804 ATAGATTGTACTTTAGACAGGATTCAACATTCAGCAAG--GT-TTTCCTGTTGAACATGAG-CTGGAGTTAG-----GAAGTTG---------------GTGAGTAGA---GTGTGCATAGTGACAGGGTTGAAAC--------------------------------------------CTTAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3966390 115 -   4237731 ATAGATTGTACTTTACACAGGATTCGACATTCAGCAAG--GT-TTTCCTGTTGAACATGAG-CTGGAGTTAG-----GAAGTTG---------------GTGAGTAGA---GTGTGCATAGTGACAGGATTGAAAG--------------------------------------------CTTAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      236896 115 -   1175262 GTAGATTGTACTTTAGACAGGATTCAACATTCAGTAAG--GT-TTTCCTGTTGAACATGAG-CTGGCATTAG-----GAAGTTG---------------GTGAGTAGA---GTGTGCATAGTGACAGGGTTGAAAG--------------------------------------------CTTAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123570492 116 - 204313951 ATAGATTGTACTTCAGACAGGATTCAATATTCAGCAAG-TTT-TTTCCTGCTGAACATTAGGTGGGAGATGG-----GAAGCTG---------------GTGAGTAGA---GAGTAGACAGTGACA-GAAAAAAAT--------------------------------------------CTTAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55625714 117 -  71252344 ATAGACTGTACTTTAGACAGGATTCAACATTCAGCAAG-TTT-TTGCCTGCTGAACATTAGGTGGGAGATGG-----GAAGCTG---------------GTGAGTAGA---GAGTAGATTGTGACAGGAAAAAAAG--------------------------------------------CTTAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1320285 116 -   1400280 ATAGATTGTACTTTAGACAGGATTGGACATTCGGCAAG-TTT-TTTCCTGCTGAACATTAGGTGGGAGATGG-----GAAGCTG---------------GTGAGTAGA---GAGTAGATAGTGACA-GAAaaaaag--------------------------------------------cttaaa
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13113505 118 -  42888418 AGAGATTGTACTTTAGACAGGATTCGACATTGAGCAAG-TTT-TTTCCTACTGAACATTAGGTTGGAGATGG-----GAAGCTG---------------GTGAGTAGA-GGGAGAGGATAGTGACA-GAAAAAAAG--------------------------------------------CTTAAA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3515713 116 +  11683526 CTAGATCACAC-TTAAATAGGATTGGACATTTAGCAAG--TTGTTTCCTGTTGATCATGAGGTGGGAGATGG-----GGATTTG---------------GTGAGT-GAGGGGTGTGGACAGTGACAGGGCTGAGAA--------------------------------------------TTTA--
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2996106 159 +   4132165 CTGGATCACACTTTAAACAGGATTGGACATTTAGTAAC--TT-TTTCCTATTGAGCATCAGGTGGGAAAGAA-----GGACTTA---------------GGGAAT-GA---GTGTGGATAGTGACAGGCTTGAAAGCAAAGTGCTTATGttttcttttcttttccttttttttttttttttttaag
i otoGar3.GL873679         C 0 I 2
s mm10.chr18                55465580  91 +  90702639 GTGGATTGCATTTAAGAAAGGATTGGACCCTTCTATAT--TT-GTTCCTGTTGAATGC-----------------------TCA---------------GTAAGATGA---GATAAAATA-------TATTGAAAT--------------------------------------------ATTAAA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14862333 131 +  74389097 ATGTTTTATACTTTAAACAGGATTGGACACTTACCATT-TTT-TTTCCTATTAATCACTAAGTAGGGGATGG-----GGAGTAGGCAGGGGATGGAGGTGTGGGT-GT---GTGTGGATAGTGACAGGGTTggaag--------------------------------------------ctcaga
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2553967 111 +   3667625 TCAAATTACACTTTAAATAGGATTTGACATTTAGGGAA-GGT-TTTCCTTTCAGACGTTGG-TGATAGTTGGGGGTTGGAGCTG---------------GTG----GG---G------TAGTGACAGGGTTGGACT--------------------------------------------CTCAGA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60485763 115 + 108143057 I

a score=10276672.000000
s hg38.chr5_KI270796v1_alt     11870 644 +    172708 -tagtttaagacaa----------------------------------------------------------------------------------------aatgaagtattt--atg-ttttctttgcatatc-tgagttttgctat---gagttaaatttggtgagtcggctacaTGTGA------TTAAAAGAAAAATAAAGCAAACAATTTCAAACTGTCTGCTAAAATTCCATACACCCCAGGAC-----------TCTCTCATGTGGG-AAAATCTGGCGAGGAAAGATTTTTCAAGATTTGATATTA--------------------------------CTCCCTATATTTA-----------------------------------------------------------------------------------------------------------TCCAGTGGC--------------------------------ACC---CTG--------------TTTTTTCA--AAGTATAATTTTC-CCACCTCTCTTCTTGCGAAATATAACACATAAGACAGCAAAGTGCATTAAACAGTGCCAGGTTTTTCGTGTTTTCTTCCC--AGCAGTGCCCTGGAAAACTGAGCCTGCCAAGAACAATGTCAGAAACATCAATTGACTACAGTGACAACAACATACCCAGAAGGCAGGTTGTCTGACAATAAAGTTGCCAAAAAAGAAATTGCTGTACCTGTGGAGACTTTTAGTAGTTCCACGGAGGTGGTCCATAACCAATAATAAAGGCAGCA-----CAGAGCAGCCAGGCATTC-TT--TTTTAACCCATTGGGAGCTTCCTGAGGATTCTCAGACATTT-GGCTTTGCTGGGTCA--TCAGGAAAGATACAAGTCTTACCTA-TAGAACAATGAACATT-TTACTGAGAAAA
s panTro5.chr5             125121960 644 + 181907262 -tagtttaagacaa----------------------------------------------------------------------------------------aatgaagtattt--atg-ttttctttgcatatc-tgagttttgctat---gagttaaatttggtgagtcggctacaTGTGA------TTAAAAGAAAAATAAAGCAAACAATTTCAAACTGTCTGCTAAAATTCCATACACCCCAGGAC-----------TCTCTCATGTGGG-AAAATCTGGCGAGGAAAGATTTTTCAAGATTTGATATTA--------------------------------CTCCCTATATTTA-----------------------------------------------------------------------------------------------------------TCCAGTGGC--------------------------------ACC---CTG--------------TTTTTTCA--AAGTATAATTTTC-CCACCTCTCTTCTTGCGAAATATAACACATAAGACAGCAAAGTGCATTAAACAGTGCCAGGTTTTTCGTGTTTTCTTCCT--AGCAGTGCCCTGGAAAACTGAGCCTGCCAAGAACAATGTCAGAAACATCAATTGACTACAGTGATAACAACATACCCAGAAGGCAGGTTGTCTGACAATAAAGTTGCCAAAAAAGAAATTGCTGTACCTGTGGAGACTTTTAGTAGTTCCACGGTGGTGGTCCATAACCCATAATAAAGGCAGCA-----CAGAGCAGCCAGACATTC-TT--TTTTAACCCATTGGGAGCTTCCTGAGGATTCTCAGCCATTT-GGCTTTGCTGGGTCA--TCAGGAGAGATACAAGTCTTACCTA-TAGAACAATGAACATT-TTACTGAGAAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126458939 644 + 183735486 -tagtttaagacaa----------------------------------------------------------------------------------------aatgaagtattt--atg-ttttctttgcatatc-tgagttttgctat---gagttaaatttggtgagtcggctacaTGTGA------TTAAAAGAAAAATAAAGCAAACAATTTCAAACTGTCTGCTAAAATTCCATACACCCCAGGAC-----------TCTCTCATGTGGG-AAAATCTGGCGAGGAAAGATTTTTCAAGATTTGATATTA--------------------------------CTCCCTATATTTA-----------------------------------------------------------------------------------------------------------TCCAGTGGC--------------------------------ACC---CTG--------------TTTTTTCA--AAGTATAATTTTC-CCACCTCTCTTCTTGCGAAATATAACACATAAGACAGCAAAGTGCATTAAACAGTGCCAGGTTTTTCGTGTTTTCTTCCT--AGCAGTGCCCTGGAAAACTGAGCCTGCCAAGAACAATGTCAGAAACATCAATTGACTACAGTGATAACAACATACCCAGAAGGCAGGTTGTCTGACAATAAAGTTGCCAAAAAAGAAATTGCTGTACCTGTGGAGACTTTTAGTAGTTCCACGGTGGTGGTCCATAACCAATAATAAAGGCAGCA-----CAGAGCAGCCAGACATTC-TT--TTTTAACCCATTGGGAGCTTCCTGAGGATTCTCAGCCATTT-GGCTTTGCTGGGTCA--TCAGGAGAGATACAAGTCTTACCTA-TAGAACAATGAACATT-TTACTGAGAAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1650643 644 +   8933513 -tagtttaagacaa----------------------------------------------------------------------------------------aatgaagtattt--atg-ttttctttgcatatc-tgagttttgctat---gagttaaatttggtgagtcggctacaTGTGA------TTAAAAGAAAAATAAAGCAAACAATTTCAAACTGTCTGCTAAAATTCCATACACCCCAGGAC-----------TCTCTCATGTGGG-AAAATCTGGCGAGGAAAGATTTTTCAAGATTTGATATTA--------------------------------CTCCCTATATTTA-----------------------------------------------------------------------------------------------------------TCCAGTGGC--------------------------------ACC---CTG--------------TTTTTTCA--AAGTATAATTTTC-CCACCTCTCTTCTTGCGAAATATAACACATAAGACAGCAAAGTGCATTAAACAGTGCCAGGTTTTTCGTGTTTTCTTCCT--AGCAGTGCCCTGGAAAACTGAGCCTGCCAAGAACAATGTCAGAAACATCAATTGACTACAGTGATAACAACATACCCAGAAGGCAGGTTGTCTGACAATAAAGTTGCCAAAAAAGAAATTGCTGTACCTGTGGAGACTTTTAGTAGTTCCACGGAGGTGGTCCATAACCAATAATAAAGGCAGCA-----CAGAGCAGCCAGACATTC-TT--TTTTAACCCATTGGGAGCTTCCTGAGGATTCTCAGCCATTT-GGCTTTGCTAGGTCA--TCAGGAAAGATACAAGTCTTACCTA-TAGAACAATGAACATT-TTACTGAGAAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139781619 644 + 163208435 -TAGTTTAAGACAA----------------------------------------------------------------------------------------AATGAAGTATTT--ATG-TTTTCTTTGCATATC-TGAGTTTTGCTAT---GAGTTAAATTTGGTGAGTTGGCTACATATGA------TTAAAAGAAAAATAAATCAAACAATTTCAAACTGTCTGCTAAAATTCCATACTCCCCAGAAC-----------TCTCTCATATGGG-AAAATCTGGTGAGGAAAGATTTTTCAAGATTTGATATTA--------------------------------CTCCCTATATTTA-----------------------------------------------------------------------------------------------------------TCCAGTGGC--------------------------------ACC---CTG--------------TATTTTCA--AAGTATAATTTTC-CCACCTCTCTTCTTGCAAAATATAACACATAAGACAGCAAAGTGCATAAAACAGTGCCAGGTTTTTCATGTTTTCTTCCT--AGCAGTGCCCTGGAAAACCGAGCCTGCCAAGAACAATGTCAGAAACATCAATTGACTACAGTGATAACAACATACCCAGAAGGCAGGTTGTCTGACGATAAAGTTGCCAAAAAAGAAATTGCTGTACCTGTGGAGACCTTTAGTAGTTCCACAGAGGTGGCCCATAACCAATAATAAAGGCAGCA-----CGGAGCAGCCAGACATTC-TT--TTTTAACCCATTGGGAGCTTCCTGAGGATTCTCAGCCATTT-GGCTTTGCTGGGTCA--TCAGGAAAGATACAAGTCTTACCTA-TAGAACAATGAACATT-TTACTGAGAAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122766953 644 + 180051392 -CAGTTTAAGACAA----------------------------------------------------------------------------------------AATGAAGTATTT--ATG-TTTTCTTAGCATATC-TGAGTTTTGCTAT---GAGTTCAATTTGGTGGGTCGGCTACATATGA------TTAAAAGAAAAATAAAGCAAACAATTTCAAACTGTCTGCTAAAATTCCATGCACCCCAGGAC-----------TCTCTCATGTGGG-AAAATCTGGCAAGGAAAGATTTTTCAAGATTTGATATTA--------------------------------CTCCCTTTATTTA-----------------------------------------------------------------------------------------------------------TCCAGTGGC--------------------------------ACC---CTG--------------TTTTTTCA--AAGTATAATTTTC-CAACCTCTCTTCTTTCAAAATATAACACATAAGACAGCAAAGTGCATAAAACAGTGCCAGGTTTTTCATGTTTTCTTCCT--AGCAGTGCCCTGGAAAACTGAGCCTGCCAAGAACAATGTCAGAAACATCAATTGACTACAGTGATAACAACATACCCAGAAGGCAGGTTGTCTGACAATAAAGTTGCCAAAAAAGAAATTGCTGTACCTGTGGAGACCTTTAGTAGTTCCACGGAGGTGGTCCATAACCAGTAATAAAGGCAGCA-----CAGAGCAGCCAGACGTTC-TT--TTTTAACCCGTTGGGAGCTTCCTGAGGATTCTCAGCCATTC-GGCTTTGCTGGGTCA--TCAGGAAAGATACAAGTCTTATCTA-TAGAACAATGAACACT-TTAGTGAGAAAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124190479 644 + 181584905 -CAGTTTAAGACAA----------------------------------------------------------------------------------------AATGAAGTTTTT--ATG-TTTTCTTAGCATATC-TGAGTTTTGCTAT---GAGTTCAATTTGGTGGGTCAGCTACATATGA------TTAAAAGAAAAATAAAGCAAACAATTTCAAACTGTCTGCTAAAATTCCATGCACCCCAGGAC-----------TCTCTCATGTGGG-AAAATCTGGCAAGGAAAGATTTTTCAAGATTTGATATTA--------------------------------CTCCCTTTATTTA-----------------------------------------------------------------------------------------------------------TCCAGTGGC--------------------------------ACC---CTG--------------TTTTTTCA--AAGTATAATTTTC-CAACCTCTCTTCTTGCAAAATATAACACATAAGACAGCAAAGTGCATAAAACAGTGCCAGGTTTTTCATGTTTTCTTCCT--AGCAGTGCCCTGGAAAACTGAGCCTGCCAAGAACAATGTCAGAAACATCAATTGACTACAGTGATAACAACATACCCAGAAGGCAGGTTGTCTGACAATAAAGTTGCCAAAAAAGAAATTGCTGTACCTGTGGAGACCTTTAGTAGTTCCACGGAGGTGGTCCATAACCAGTAATAAAGGCAGCA-----CAGAGCAGCCAGACGTTC-TT--TTTTAACCCGTTGGGAGCTTCCTGAGGATTCTCAGCCATTC-GGCTTTGCTGGGTCA--TCAGGAAAGATACAAGTCTTATCTA-TAGAACAATGAACACT-TTAGTGAGAAAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16188479 644 +  18395747 -CAGTTTAAGACAA----------------------------------------------------------------------------------------AATGAAGTATTT--ATG-TTTTCTTAGCGTATC-TGAGTTTTGCTAT---GAGTTCAATTTGGTGGGTCGGCTACATATGA------TTAAAAGAAAAATAAAGCAAACAATTTCAAACTGTCTGCTAAAATTCCATGCACCCCAGGAC-----------TCTCTCATGTGGG-AAAATCTGGCAAGGAAAGATTTTTCAAGATTTGATATTA--------------------------------CTCCCTTTATTTA-----------------------------------------------------------------------------------------------------------TCCAGTGGC--------------------------------ACC---CTG--------------TTTTTTCA--AAGTATAATTTTC-CAACCTCTCTTCTTGCAAAATATAACACATAAGACCGCAAAGTGCATAAAACAGTGCCAGGTTTTTCATGTTTTCTTCCT--AGCAGTGCCCTGGAAAACTGAGCCTGCCAAGAACAATGTCAGAAACATCAATTGACTACAGTGATAACAACATACCCAGAAGGCAGGTTGTCTGACAATAAAGTTGCCAAAAAAGAAATTGCTGTACCTGTGGAGACCTTTAGTAATTCCACGGAGGTGGTCCATAACCAGTAATAAAGGCAGCA-----CAGAGCAGCCAGACGTTC-TT--TTTTAACCCGTTGGGAGCTTCCTGAGGATTCTCAGCCATTC-GGCTTTGCTGGGTCA--TCAGGAAAGATACAAGTCTTATCTA-TAGAACAATGAACACT-TTAGTGAGAAAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5194591 644 +  26952557 -CAGTTTAAGACAA----------------------------------------------------------------------------------------AATGAAGTATTT--ATG-TTTTCTTTGCATATC-TGAGTTTTGCTAT---GAGTTCAATTTGGTGGGTCGGCTACATATGA------TTAAAAGAAAAATAAAGCAAACAATTTCAAACTGTCTGCTAAAATTCCATGCACCCCAGGAC-----------TCTCTCATGTGGG-AAAATCTGGCGAGGAAAGATTTTTCAAGATTTGATATTA--------------------------------CTCCCTTTATTTA-----------------------------------------------------------------------------------------------------------TCCAGTGGC--------------------------------ACC---CTG--------------TTTTTTCA--AAGTATAATTTTC-CGACCTCTCTTCTTGCAAAATATAACACATAAGACAGCAAAGTGCATAAAACAGTGCCAGGTTTTTCATGTTTTCTTCCT--AGCAGTGCCCTGGAAAACTGAGCCTGCCAAGAACAATGTCAGAAACATCAATTGACTACAGTGATAACAACATACCCAGAAGGCAGGTTGTCTGACAATAAAGTTGCCAAAAAAGAAATTGCTGTACCTGTGGAGACCTTTAGTAGTTCCACGGAGGTGGTCCATAACCAGTAATAAAGGCAGCA-----CAGAGCAGCCAGACGTTC-TT--TTTTAACCCGTTGGGAGCTTCCTGAGGATTCTCAGCCATTC-GGCTTTGCTGGGTCA--TCAGGAAAGATACACGTCTTATCTA-TAGAACAATGAACACT-TTAGTGAGAAAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28302394 644 +  82825804 -GAGTTTAAGACAA----------------------------------------------------------------------------------------AATGAAGTATTT--ATG-TTTTCTTTGCATATC-TGAGTTTTGCTAT---GAGTTCAATTTGGTGGGTCGGCTACATATGA------TTAAAAGAAAAATAAAGCAAACAATTTCAAACTGTCTGCTAAAATTCCATGCACCCCAGGAC-----------TCTCTCATGTGGG-AAAATCTGGCGAGGAAAGATTTTTCAAGATTTGATATTA--------------------------------CTCCCTATATTTA-----------------------------------------------------------------------------------------------------------TCCAGTGGC--------------------------------ACC---CTG--------------TTTTTTCA--AAGTATAGTTTTC-CAACCTCTCTTCTTGCAAAATATAACACATAAGACAGCAAAGTGCATAAAACAGTGCCAGGTTTTTCATGTTTTCTTCCT--AGCAGTGCCCTGGAAAACTGAGCCTGCCAAGAACAATGTCAGAAACATCAATTGACTACAGTGATAACAACATACCCAGAAGGCAGGTTGTCTGACAATAAAGTTGCCAAAAAAGAAATTGCTGTACCTGTGGAGACCTTTAGTAGTTCCACGGAGGTGGTCCATAACCAGTAATAAAGGCAGCA-----CAGAGCAGCCAGACGTTC-TT--TTTTAACCCGTTGGGAGCTTCCTGAGGATTCTCAGCCATTC-GGCTTTGCTGGGTCA--TCAGGAAAGATACAAGTCTTATCTA-TAGAACAATGAACACT-TTAGTGAGAAAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3966505 644 -   4237731 -CAGTTTAAGACAA----------------------------------------------------------------------------------------AATGAAGTATTT--ATG-TTTTCTTTGCATATC-TGAGTTTTGCTAT---GAGTTCAATTTGGTGGGTCGGCTACATATGA------TTAAAAGAAAAATAAAGCAAACAATTTCAAACTGTCTGCTAAAATTCCATGCACCCCAGGAC-----------TCTCTCATGTGGG-AAAATCTGGCAAGGAAAGATTTTTCAAGATTTGATATTA--------------------------------CTCCCTTTATTTA-----------------------------------------------------------------------------------------------------------TCCAGTGGC--------------------------------ACC---CTG--------------TTTTTTCA--AAGTATAATTTTC-CGACCTCTCTTCTTGCAAAATATAACACATAAGACAGCAAAGTGCATAAAACAGTGCCAGGTTTTTCATGTTTTCTTCCT--AGCAGTGCCCTGGAAAACTGAGCCTGCCAAGAACAATGTCAGAAACATCAATTGACTACAGTGATAACAACATACCCAGAAGGCAGGTTGTCTGACAATAAAGTTGCCAAAAAAGAAATTGCTGTACCTGTGGAGACCTTTAGTAGTTCCACGGAGGTGGTCCATAACCAGTAATAAAGGCAGCA-----CAGAGTAGCCAGACGTTC-TT--TTTTAACCCGTTGGGAGCTTCCTGAGAATTCTCAGCCATTC-GGCTTTGCTGGGTCA--TCAGGAAAGATACAAGTCTTATCTA-TAgaacaatgaacact-ttagtgagaaag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      237011 644 -   1175262 -TAGTTTAAGACAA----------------------------------------------------------------------------------------AATGAAGTATTT--ATGTTTTTTTTTGCATATC-TGAGTTTTGCCAT---GAGTTCAATTTGGTGAGTCGGCTACGTATGA------TTAAGAGAAAAATAAAGCAAACAATTTCAAACTGTCTGCTAAAATTCCATGCACCCCAGGAC-----------TCTCTCATGTGGG-AAAATCTGGCAAGGAAAGATTTTTCAAGATTTGATATTA--------------------------------CTCCCTATATTTA-----------------------------------------------------------------------------------------------------------TCCGGTGGC--------------------------------ACC---CTG---------------GTTTTCA--AAGTATAATTTTC-TGACCTCTCTTCTTGCGAAATATAACACATAAGACAGCAAAGTGCGTAAAACAGTGCCAGGTTTTTCATGTTTTCTTCCT--AGCAGTGCCCTAGAAAACTGAGCCTGCCAAGAACAATGTCAGAAACATCAATTGACTACAGTGATAACAACATACCCAGAAGGCAGGTTGTCTGACAATAAAGTTGCCAAAAAAGAAATTGCTGTACCTGTGGAGACCTTTAGTAGTTCCACGGAGGTGGTCCATAACCAGTAATAAAGGCAGCA-----CAGAGCAGCCAGATGTTC-TT--TTTTAACCCGTTGGGAGCTTCCTGAGGATTCTCAGCCATTT-GGCTTTGCTGGGTCA--TCAGGAAAGATACAAGTCTTATCTA-TAGAACAATGAACATT-TTAGTAAGAAAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123570608 641 - 204313951 -TAGTTTAAGACAA----------------------------------------------------------------------------------------AATGAAGTATTT--ATG-TTTTCTTTGCATATCTTGAGTTTTGCTAT---GAGTTAAATTTGGTGAGTCAGCTACATATGA------TTAAAAGGAAAATAAACCAAACGATTTCAAA----CTGCTAAAATTCCATACACGCCAGGAT-----------TCTCTCATGTGGG-AAAATCTGGCAAGGAAAGATTTTTCAAAA-TTGCTGTTA--------------------------------CTCCCTAGATTTA-----------------------------------------------------------------------------------------------------------TCCAGTGGC--------------------------------ACC---CTG--------------TTATTTCA--AAGAATAATTTT--CCACCTCTCTTCTTGTGAAATATAACACATAAGACAGCAAAATGCATAAAACAGTGCCAGGTTTTTCATGTTTTCTTCCC-AAGCAGTGCCCTGGAAAACTGAGCCTGCCAAGAACAATGTCAGAAACATCAATTGACTACAGTGATAACAACATATCCAGAAGGCAGGTTGTCTGACAATAAAGTTGCCAAAAATGAAATTGCTGTACCTGTGGAGACCTTGCGTAGTTCCACGGAGGTGGTCCATAACGAATAATAAAGGCAGCA-----CAGAGCAGCCAGACGTTCTTT--TTTGAACCCAGTGGGAACTTCCGGGGGATTCTCAGCCAGCT-GGCTTTGCTGGGTCA--TCAGGAAAGATACAAGTCTTACCTG-TAGAACAATGAACATG-TTATTGAGAAAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55625831 634 -  71252344 -TAGTTTAAGACAA----------------------------------------------------------------------------------------AATGAAGTATTT--ATG-TTTTCCTTGCATATC-TGAATTTTGCTAT---GAGTTAAATTTGGTGAGTCAGCTACATATGA------TTAAAA-GAAAATAAACCAAACAATTTCAAA----CTGCTAAAATTCTATACACGCCAGGAT-----------TCTCTCATGTGGG-AAAATCTGGCGAGGAAAGATTTTTCAAAA-TTGCTATTA--------------------------------CTCCCAAGATTTA-----------------------------------------------------------------------------------------------------------TCCAGTGGC--------------------------------ACC---CTG--------------TTTTTTCA--AAGAATAATTTTC-CCACCTCTCTTCTTGTGAGATATAACACATAAGACAGCAAAGTGCATAAAACAGTGCCAGGTTTTTCATG-TTTCTTCCC-AAGCAGTGCCCTGGAAAACTGAGCCTGCCAAGAACAATGTCAGAAACATCAATTGACTACAGTGATAACAACATACCCAGAAGGCAGGTTGTCTGACAATAAAGTTGCCAAAAAAGAAATTGCTGTACCTGTGGAGACCTTGAGTAGTTCCACGGAGGTGGTCCATAACGAATAATAAAGGCAGCC-----CAGAGCAGCCAGACGTTC-TT--TTTGAACCCAGTGGGAGCTTCCTGGGGATTGTCAGCCATTT-GGCTTTGCTGGGTCA--TCAGGAAAGAT---AGTCTTA-CTG-TAGAACAATGAACATT-TAATTGAGAAAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1320401 639 -   1400280 -tagtttaagacaa----------------------------------------------------------------------------------------aatgaagtattt--atg-ttttccttgcatatc-tgagttttgctat---gagttaaatttggagagtcagctacaTATGA------TTAAAAGAAAAATAAACCAAACAATTTCAAA----CTGCTAAAATTCCATTCACGCCAGGAT-----------TCTCTCATGTGGG-AAAATCTGGCGAGGAAAGATTTTTCAAAA-TTGCTATTG--------------------------------CTCCCTAGATTTA-----------------------------------------------------------------------------------------------------------TCCAGTGGC--------------------------------ACC---CTG--------------TTTTTTCA--AAGAATAATTTTC-CCACCTCTCTTCTTGTGAAATATAACACATAAGACAGCAAAGTGCATAAAACAGTGCCAGGTTTTTCATA-TTTCTTCCC-AAGCAGTGCCCTGGAAAACTGAGCCTGCCAAGAACAATGTCAGAAACATCAATTGACTACAGTGATAACAACATACCCAGAAGGCAGGTTGTCTGACAATAAAGTTGCCAAAAAAGAAATTGCTGTACCTGTGGAGACCTTGAGTAGTTCCACGGAGGTGGTCCATAACGAATAATAAAGGCAGCA-----CAGAGCAGCCAGACGTTC-TT--TTTGAACCCAGTGGGAACTTCCTGGGGATTCTCATCCATTT-GGCTTTGCTGGGTCA--TCAGGAAAGATACAAATCTTACGTG-TAGAACAATGAACACT-TTATTGAGAAAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13113623 638 -  42888418 -TAGTTTAAGACAA----------------------------------------------------------------------------------------AATGAAGTATTT--ATG-TCTTCTTTGCATATC-TG--TTTCGCTAT---GAGTTAAATTTGGTGAGTCAGCTACATATGA------TTAAAAGAAAAATAAACCAAACAATTTCAAA----CTGCTAAAATTCCATACACGCCAGGAT-----------TCTCTCATGTGGG-AAAATCTGGCAAGGAAAGATTTTTCAAAA-CTGCTATTA--------------------------------CTCCCTAGATTTA-----------------------------------------------------------------------------------------------------------TTCAGTGGC--------------------------------ACC---CTG--------------TTTTTTCA--AGGAATAATTTCC-CCACCTCTCTTCTTGTGAAATATAACACATAAGACAGCAAAGTGCATAAAACAGTGCCAGGTTTTTCATGTTTTCTTCCC-AAGCAGTGCCCTGGAAAACTGAGCCTGCCAAGAACAATGTCAGAAACATCAATTGACTACAGTGATAACAACATACCCAGAAGGCAGGTTGTCTGACAATAAAGTTGCCAAAAAAGAAATTGCTGTACCTGTGGAGACCTTGAGTAGTTCCACGGAGGTGGTCCATAACGAATAATAAAGGCAGCA-----CAGAGCAGCCAGACGTTC-TT--TTTGAACCCAGTGGGAGCTTCCTGGGGCTTCTCAGCCATTT-GGCTTCGCTGGGTCA--TCAGGAGAGATAGGAGTCTTACCTG-TAGAACAATGAACATT-TTATTGAGAAAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60485878 643 + 108143057 -TAGTTTAAGACAA----------------------------------------------------------------------------------------GAGGAAGTGCTC--ATG-CTTTATTTGTACATC-TGAGTTTT--TAT---GAGTTAAATTCGGTGAATCTGCTACATATGA------TTAAAA--AAATTAAAGGAAACAATTTCAAAGTGCATGCTAAAACTCCATACCCTGCAGGAC-----------TTTTTCTTGTGGA-AATCTCTGGCAATGACAGATTTCTGCAGA-TTGGTATCT--------------------------------CTCCCTATCTTTA-----------------------------------------------------------------------------------------------------------TTCAGTGGT--------------------------------GCC---CTG--------------TTTGTTAA--AAGTATAATTTTT-CCAACTCTCTTCTTGTGAAATATAACATACAAGACAGAAAGGTGTGCAAAACAGTGCCAGGTTTTTCATGTTTTCTTTCT-AATCAGTGCTCTGGAAAACCAAGCCTGCCAAGAACAATGTCAGCAACATCAACTGACTACAGTGATAACAACATACCCAGAAGGCAGGTTGTCTGACAGTAAAGTTGCC-AAAAAGAAATTGCTGTACCTGTGGAGAAGTCGAGCAGTTCCATGAAGGTGGTCTATAACCAATAATAAAGGCAGCA-----CAGTGCAGCTAGAAGTTC-TTC-TTTTAACCCAGTGGGAGCTTCTGGAGGATTCTGAGTCATTT-GGCTTTGCCGGGTCACGCCAGGAGAGATACAAGGCTTACATATTAGGACAATGAAAATT-TTATTGAGAAAG
i micMur3.chr12            I 115 I 35
s proCoq1.NW_012155062v1     3515829 643 +  11683526 ---GTTTAAGACAA----------------------------------------------------------------------------------------AATGAAGTACTC--ATG-CTTTATTCGTACATCTTGAGTTTT--TAT---GAGTTAAATTTGGTGAATCTGCTACACATGA------TTAAAA--AAATTAAAGGAAACAATTTCAAAGTGTATGCTAAAACTCCATACCCCTCAGGAC-----------TTTTTCTTGTGGG-AAACTCTGGCAATGACAGATTTCTGCAGA-TTGCTATCT--------------------------------CTCCATATCTTTA-----------------------------------------------------------------------------------------------------------TTCGGTGGT--------------------------------GCC---CTG--------------TTTGTTAA--AAGTATAATTTTT-CCAACTCTCTTCTTATGAAATATAACACACAAGGTAGAAAAGTGAACAAAACAGTGCCAGATTTTTCATGTTTTCTTTCT-AATCAGTGCTCTGGAAAACCGAGCCTGCCAAGAACAATGTCAGAAACATCAACTTACTACAGTGATAACAACATACCCAGAAAGCAGGTTGTCTGGCAATAAAGTTGCCAAAAAAGAAATTGCTGTACCTGTGGAGAAGTCGAGTACTTCCATGAAGGTGGTCTATAACCAATAATAAAGGCAGCA-----CAGTGCAGCTAGAAGTTC-TTC-TTTTAACCCATTGAGAGCTTCTGGAAGATTCTGAGCCATTT-GGCTTTGCTGGGTCACTCCAGGAGAGATACAAGTCTTACGTACTAAAACAATGAAAATT-TTATTGAGAAAG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2996267 727 +   4132165 -aagcttgaaacaaagtttattgaggaaaagagaggtaggcttacagagtaagaAAACTTACAAAGAAAACAGGCCTCCATGGCCAGGAAGGCCCTAATGGCAAAGAGGCCCTT--GTG-CTTTCTTTGAACATC-TGAGTTTT--TATATGAAGTTAAGTTTGGTGAATCTGCTATATATGATTTTTTTTAAA--------AAAGGAAATAGTTTCAAG----CTGCTAAAACTGCATACCCCTCAGGAC-----------TCTTCCTTGTGGGAAAAATCGGGCAATGACAGATTTCTGCAGG-TTGCCATCA--------------------------------CCCCCTACCTTTA-----------------------------------------------------------------------------------------------------------TTCAACGGT--------------------------------GCC---CTG--------------TTTGTTAA--AAGTATACTGTTT-CTACCTCAATGCTTGTGAAATATAACACAGAAGACAGACAAGTGCGCACAACAGTGCCAGGCTTTTCATGTTTTCTTCCC-AATCAGTGCCCTGGAAAACTGAGCCTGCCAAGAACAATGTCAGAAACATCAAGCGACTACCGTGATAACAACACACCCC-AAGGCAGCTTGTCTGACAACAAAGTTGCA-AAAAAGAAATTCCTGTACCTGTAGAGCGGCTGAGTAGTTCCAGGAAGGTGGTCCATAAACAATAATAAGGGCCGCA-----CAGAGCAGCTGAAAGGTC-TTC-TTTTAACCCAGTGGGAACTTCCAGAAGATTCTGAGCCACTT-GGCTTTACCCAGTCACTCCAGGAGAGATACGTGTCTTGC----TAAAACGTTGCAAGTTATTATTGAGAAAT
i otoGar3.GL873679         I 2 C 0
s mm10.chr18                55465671 831 +  90702639 -TCATTTTGGGTAA----------------------------------------------------------------------------------------AATGAGCCACAT--GTG-TTTTTCTCACAGATC-TGAGTATTATT-----GAGTTAAGTTTGACAAGTCTGGGGCATATTA------TTGAGAGAAAAATAGGTGGAAAAAACCCA--TTATCTTGTAAAATTCCACCCAGTTTTAGGC-----------AGTTCCTCATTGG-ATAGTTTGGCAGTAATGGAGCTGTGCAGA-TCGGTATGACAACTGATTTTTCTTTAGAAGAACCATGCTCTCTTCCTAGATTAATTAATTAAtttggcttcttgacacagggtctcatgtggaccaggctggcctggtttttactgagtagctgaggctggcttaggactcctaccctcccagtcccatctttcagtagcttagagggttatagctatgacgaccacactcaacC---CAGTCCATTTTTTTTTTTTTTTTGACTAAGCGTAACTTTC-CTTTCTGTACTATTTTGAAATATAACACACAGGCTAGAAAAGTATGTGAAACAGTGTCAGGCTTTTCATGATTTCTCCCCCAAGCAGTGTCTCAGAGAACCAAGCCTGCCAAGAACAATGTCAGAAACATCACTTGGCTGTAGTGATAACAGCATACCCAGAAGGCACTTGGTCTGACAATAGCGGTGCCAAAAAGGAAATTGCACTGCCTGTGGAGACTCTGAGTAGTT-CACAAAGGTGGTCCATAACCAACAATAATGGCAGCATTGAGCAGAGCAACTAGA------AC--TTTTAACACTGTGGGAGCTTCCAGAGGCTTCTGAGCCATTTGGGCCTGGCTGGGTCACTCCAGGAAGGATACAAGTCTCACACAGGAGAACAATGGGATTT-CAACTGTGCCAG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14862465 645 +  74389097 -cagcttaagacaa----------------------------------------------------------------------------------------aataaagcattc--atg-ttttctttgcacatc-ggagtgtTGACAG---GAGTTAAACTTGGTCAATCTTCTATCTAAGA-------TAAAAGAATAGTGAACTAAACTATCTCAAACT--CTGCTAAAACTCCATACACCTCAGAGC-----------TCTTTCTCATGGG-AAAGCCTGGCAATGACAGAGTTTTCTAGA-TGGATGTCA--------------------------------CTCTTTTTCTCCA-----------------------------------------------------------------------------------------------------------TTCAGTGGT--------------------------------GCTGCATTA--------------TTTTTTAA--AAGTCCACTTTTC-CCACCTCCATTCTTGTGCAATATAATACACAGGGAGGAAAAGGGTATAAAATAGTGCCAGGTTTTTCGTGGTTTTTCCTC-AAGCAGTGCCCTGGAAAACCAAGCCTGCCAGGAACAATGTCAG-AACATCAATTGACTACAGCGATAACAACATACCCAGAAGGCAGATTGTCTGACAATAAAGTTGCCAAAAAAGAAATTGCTGTACCTGTGGAGACCTCGAGTCGCTCCACGAAGGTGGTCCATAACCAGTAATAAAGGCAGCA-----CAGAGCAGCTGTGAGGTT-TC--TTTTAACCCAGTAGGCACTTCCTGAGGATTGTGCGCCAGTT-GGCTTTGCTGAGTCACTCCAGGAGAGACACACGTCCTTCATC-CTGAGCAATGAAAGTT-TTATTTAGAAGA
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2554078 660 +   3667625 TTAGTTTGTGACAA----------------------------------------------------------------------------------------AATAAAGTACTTTAATG-TTTTCTCTGCA-ATC-TGAGTTTTGATAT---GAGTTAAATTGGATGAATCTGCTACATATGA------TTAAAGGAAAAGTA----AAATAATTTCCAACTGTCTGCTAAAGCTCCATACACCTCAGGATTCAGGCTCCTGTCTTTCTTATGGG-AAAATCTGGCAATGGTGGATTTTTATAGA-TTGATATCA--------------------------------CTTCCAATCTTTA-----------------------------------------------------------------------------------------------------------TCCAGTGGT--------------------------------GCC---ATG-------------GTTTTTTAA--AAGTAAAGTTTTCTTCACTTCTATTCTTGTGAAAGATAACATACAAGGTAGAAAATTGCATTAAAAAGTGCTAGGTATTTCATGTTTTCTTCCC-AAGCAGTGCCCTGGCAAGCTGAGCCTACCAAGAACAATGCCAGAAACATCAATTGACTGCAGTGATAACAACATACCCAAAAGGCAGGTTGTCTAACAGTAAAGTTGCCAAGAAAGAAATTGTCGTGCCTGTGGAGACCTCGAGCAGTTCCACGAAGGTGGTCCATAACCAATAATAAAGACAGCA-----CAGCGGAGTTACAAGTTT-TTCTTTTAAACCCAGTGGGAGCTTCCTGAGGATTCTGGGTCACTG-GGCCTTGGTGAATTATTCCAGGAAAGACATACACCCTTCATACGAGAAAAATGAAAGTT-TTGTTGAGAAAA
i dasNov3.JH567306         C 0 C 0

a score=55120.000000
s hg38.chr5_KI270796v1_alt     12514 3 +    172708 CAA
s panTro5.chr5             125122604 3 + 181907262 CAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126459583 3 + 183735486 CAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1651287 3 +   8933513 CAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139782263 3 + 163208435 CAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122767597 3 + 180051392 CAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124191123 3 + 181584905 CAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16189123 3 +  18395747 CAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5195235 3 +  26952557 CAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28303038 3 +  82825804 CAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3967149 3 -   4237731 caa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      237655 3 -   1175262 CAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123571249 3 - 204313951 CAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55626465 3 -  71252344 CAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1321040 3 -   1400280 CAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13114261 3 -  42888418 CAA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3516472 3 +  11683526 CAA
i proCoq1.NW_012155062v1   C 0 I 32
s otoGar3.GL873679           2996994 3 +   4132165 CAA
i otoGar3.GL873679         C 0 I 2
s mm10.chr18                55466502 3 +  90702639 CAC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14863110 3 +  74389097 CAA
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2554738 3 +   3667625 CAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60486521 35 + 108143057 I

a score=358924.000000
s hg38.chr5_KI270796v1_alt     12517 28 +    172708 ----------CGATAGCCATGAAGCAC-TTCCTTCCTCA
s panTro5.chr5             125122607 28 + 181907262 ----------CGACAGCCATGAAGCAC-TTCCTTCCTCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126459586 28 + 183735486 ----------CGACAGCCATGAAGCAC-TTCCTTCCTCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1651290 28 +   8933513 ----------CAATAGCCATGAAGCAC-TTCCTTCCTCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139782266 28 + 163208435 ----------CGACAGCCATGAAGCAC-TTCCTTCCTCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122767600 28 + 180051392 ----------CGACAGCCATGAAGCAC-TTCCTTCCTCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124191126 28 + 181584905 ----------CGACAGCCATGAAGCAC-TTCCTTCCTCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16189126 28 +  18395747 ----------CGACAGCCATGAAGCAC-TTCCTTCCTCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5195238 28 +  26952557 ----------CAACAGCCATGAAGCAC-TTCCTTCCTCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28303041 28 +  82825804 ----------CGACAGCCATGAAGCAC-TTCCTTCCTCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3967152 28 -   4237731 ----------tgacagccatgaagcaC-TTCCTTCCTCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      237658 28 -   1175262 ----------CGACAGCCATGAAGCAC-TTCCTTCCTCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123571252 24 - 204313951 ----------CAACAGCCATGAAGTAC-TTCCTT----A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55626468 28 -  71252344 ----------CAACAGCCATGAAGCAC-TTCCTTCCTCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1321043 28 -   1400280 ----------CAATAGCCGTGAAGCAC-TTCCTTCCTCA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13114264 28 -  42888418 ----------CAATAGCCATGAAGCAC-TTCCTTCCTCA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2996999 29 +   4132165 ----------CCCCAGGCATGGAGCACAGTCTTTCCTCA
i otoGar3.GL873679         I 2 I 1
s mm10.chr18                55466505 29 +  90702639 ----------CAACAGCAATGTGGCACTTTCCCTGTTTA
i mm10.chr18               C 0 I 1
s canFam3.chr11             14863116 28 +  74389097 ----------CCACCACCACTAAACAT-TTCCCTCATCA
i canFam3.chr11            I 3 I 1
s dasNov3.JH567306           2554741 38 +   3667625 CTGCAACAAAATACAACCATATAGCAC-TTCCCTCCTCA
i dasNov3.JH567306         C 0 I 1
e micMur3.chr12             60486521 35 + 108143057 I
e proCoq1.NW_012155062v1     3516475 32 +  11683526 I

a score=706400.000000
s hg38.chr5_KI270796v1_alt     12545 46 +    172708 GCCCATCTTTAAATTTCATTTTGGCCAATGATTGCAACTCAATCTT
s panTro5.chr5             125122635 46 + 181907262 GCCCATCTTTAAATTTCATTTTGGCCAATGATTGCAACTCAATCTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126459614 46 + 183735486 GCCCATCTTTAAATTTCATTTTGGCCAATGATTGCAACTCAATCTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1651318 46 +   8933513 GCCCATCTTTAAATTTCATTTTGGCCAATGATTGCAACTCAATCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139782294 46 + 163208435 GCCCATCTTTAAATTTCATTTTGGCCAATGATTGCAACTCCATCTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122767628 46 + 180051392 GCCCATCTTTAAATTTCATGTTGGTCAATGGTTGCAACTCAATCTT
i rheMac8.chr6             C 0 I 3
s macFas5.chr6             124191154 46 + 181584905 GCCCATCTTTAAATTTCATGTTGGTCAATGGTTGCAACTCAATCTT
i macFas5.chr6             C 0 I 3
s macNem1.NW_012012355v1    16189154 46 +  18395747 GCCCATCTTTAAATTTCATGTTGGTCAATGGTTGCAACTCAATCTT
i macNem1.NW_012012355v1   C 0 I 3
s cerAty1.NW_012002512v1     5195266 46 +  26952557 GCCCATCTTTAAATTTCATGTTGGTCAATGGTTGCAACTCAATCTT
i cerAty1.NW_012002512v1   C 0 I 3
s chlSab2.chr23             28303069 46 +  82825804 GCCCATCTTTAATTTTCATGTTGGTCAATGGTTGCAACTCAATCTT
i chlSab2.chr23            C 0 I 3
s manLeu1.NW_012103321v1     3967180 46 -   4237731 GCCCATCTTTAAATTTCATGTTGGTCAATGGTTGCAACTCAATCTT
i manLeu1.NW_012103321v1   C 0 I 3
s colAng1.NW_012119644v1      237686 46 -   1175262 GCCCATCTTTAAATTTCATGTTGGTCAATGATTGCAACTCAATCTT
i colAng1.NW_012119644v1   C 0 I 3
s calJac3.chr2             123571276 46 - 204313951 GCCCATCTCTAAATTTCATTTTAGTCAATGATTGCAACTCAGTCTT
i calJac3.chr2             C 0 I 3
s saiBol1.JH378106          55626496 46 -  71252344 GCCCATCTCTAAATTTCATTTTAGTCAGTGATTGCAACTCAATCTT
i saiBol1.JH378106         C 0 I 3
s cebCap1.NW_016107829v1     1321071 46 -   1400280 GCGCATCTCTAAATTTCATTTTAGTCAATGATTGCAACTCAATCTT
i cebCap1.NW_016107829v1   C 0 I 3
s aotNan1.NW_018505940v1    13114292 46 -  42888418 GCCCATCTCTAAATTTCATTTTAGTCAATGATTGCAACTCAATCTT
i aotNan1.NW_018505940v1   C 0 I 3
s micMur3.chr12             60486556 46 + 108143057 ATCCATCTTTAAATTTCATCTTGTTTAATGATTGAAACTAAATCTT
i micMur3.chr12            I 35 I 3
s proCoq1.NW_012155062v1     3516507 46 +  11683526 ACCCATCTTTAAATTTCATTTTGTTTAATGATTGAAACTAAATCTT
i proCoq1.NW_012155062v1   I 32 I 3
s otoGar3.GL873679           2997029 42 +   4132165 ACCTCTCTTTAAATTTCAC----TTTAAGGAATCAAACTAAATCTT
i otoGar3.GL873679         I 1 I 3
s mm10.chr18                55466535 44 +  90702639 ATCAATCTTTGAATTTCATTTTGATTAATCATTGGAACCGATTC--
i mm10.chr18               I 1 C 0
s canFam3.chr11             14863145 46 +  74389097 GCTATTCTTTACATTTCACTTTGCTTAATGATTGAGACCAAATCTC
i canFam3.chr11            I 1 I 3
s dasNov3.JH567306           2554780 46 +   3667625 AACCATCTTTAAATTTCATTCTTGTTAATCTTTGAAACCAAATCCT
i dasNov3.JH567306         I 1 I 154

a score=1520786.000000
s hg38.chr5_KI270796v1_alt     12591 119 +    172708 TTCCGGT------------------------------AAATTGGCTA-CCAGATATAATTGCATAAGTAGAAAACAGCTAAGCATAAGTAG--------GAGAGCTGTCGGTGGCTCTCCCTTCGTGTAGTAGTTTTGCATTTATGCTAGATTGCTTT
s panTro5.chr5             125122681 119 + 181907262 TTCTGGT------------------------------AAATTGGCTA-CCAGATATAATTGCATAAGTAGAAAACAGCTAAGCATAAGTAG--------GAGAGCTGCTGGTGGCTCTCCCTTCGTGTAGTAGTTTTGCATTTATGCTAGATTGTTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126459660 119 + 183735486 TTCTGGT------------------------------AAATTGGCTA-CCAGATATAATTGCATAAGTAGAAAACAGCTAAGCATAAGTAG--------GAGAGCTGCTGGTGGCTCTCCCTTCGTGTAGTAGTTTTGCATTTATGCTAGATTGTTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1651364 119 +   8933513 TTCTGGT------------------------------AAATTGGCTA-CCAGATATAATTGCATAAGTAGAAAACAGCTAAGCATAAGTAG--------GAGAGCTGTTGGTGGCTCTCCCTTCGTGTAGTAGTTTTGCACTTATGCTAGATTGCTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139782340 119 + 163208435 TTCTGGT------------------------------TAATTGGCTA-CCAGATATAATTGCATAAGTGGAAAACAGCTAAGCATAAGTAG--------GAGAGCAGTTGGTGGCTCTCCCTTCGTGTGGTGGTTTCGCATTTATGCTAGGTTGCTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122767677 119 + 180051392 TTCTGGT------------------------------TAATTAGCTA-CCAGATATAATTGCATAAGTAGAAAACAGCTAAGCATAATTAG--------GAGAGCAGTTGGGGGCTCTCCCTTCGTGTAGTAGTTTTGCATTTATGCTAGGTCGCTTT
i rheMac8.chr6             I 3 I 331
s macFas5.chr6             124191203 119 + 181584905 TTCTGGT------------------------------TAATTAGCTG-CCAGATATAATTGCATAAGTAGAAAACAGCTAAGCATAATTAG--------GAGAGCAGTTGGGGGCTCTCCCTTCGTGTAGTAGTTTTGCATTTATGCTAGGTCGCTTT
i macFas5.chr6             I 3 I 476
s macNem1.NW_012012355v1    16189203 119 +  18395747 TTCTGGT------------------------------TAATTAGCTG-CCAGATATAATTGCATAAGTAGAAAACAGCTAAGCATAATTAG--------GAGAGCAGTTGGGGGCTCTCCCTTCGTGTAGTAGTTTTGCATTTATGCTAGGTCGCTTT
i macNem1.NW_012012355v1   I 3 I 3
s cerAty1.NW_012002512v1     5195315 119 +  26952557 TTCTGGT------------------------------TAATTAGCTG-CCAGATATAATTGCATAAGTAGAAAACAGCTAAGCATAATTAG--------GAGAGCAGTTGGTGGCTCTCCCTTCGTGTAGTAGTTTTGCATTTATGCTAGGTCGCTTT
i cerAty1.NW_012002512v1   I 3 I 3
s chlSab2.chr23             28303118 119 +  82825804 TTCTGGT------------------------------TAATTAGCTG-CCAGATATAATTGCATAAGTAGAAAACAGCTAAGCATAAGTAG--------GAGAGCAGTTGGTGGCTCTCCCTTTGTGTAGTAGTTTTGCATTTATGCTAGGTCGCTTT
i chlSab2.chr23            I 3 I 3
s manLeu1.NW_012103321v1     3967229 119 -   4237731 TTCTGGT------------------------------TAATTAGCTG-CCAGATATAATTGCATAAGTAGAAAACAGCTAAGCATAATTAG--------GAGAGCAGTTGGTGGCTCTCCCTTCGTGTAGTAGTTTTGCATTTATGCTAGGTCGCTTT
i manLeu1.NW_012103321v1   I 3 I 3
s colAng1.NW_012119644v1      237735 119 -   1175262 TTCTGGT------------------------------TAATTGGCTA-CCACATATAATTGCATAAGTAGAAAACAGCTAAGCATAAGTAG--------GAGAGCAGTTGGTGGGTCTCCCTTCGTGTAGTAGTTTTGCATTTATGCTAGGTCGCTTT
i colAng1.NW_012119644v1   I 3 I 3
s calJac3.chr2             123571325 119 - 204313951 TTCTGGT------------------------------TAATTGGCTA-CCGGATGTAACTGCATACGTAGAAAACTGCTAAGCATAAGTAG--------GAGACCAGTTGGTTGCTCTCTCTTTGTGTAGTTATTTTGCATTTATGCTAGATTGCTTT
i calJac3.chr2             I 3 C 0
s saiBol1.JH378106          55626545 119 -  71252344 TTCTGGT------------------------------TAATTGTCTA-CCGGATGTAATGGCATACGTAGAAAACTGCTAAGCCTAAATAG--------GAGAGCAGTTGGTTGCTCTCTCTTTGTGTAGTTGTTTTGTATTTATGCTAGGTTGCTTT
i saiBol1.JH378106         I 3 I 316
s cebCap1.NW_016107829v1     1321120 115 -   1400280 TTCTGGT------------------------------TAATTGTCTA-CCAGATGTAATTGCAGACGTAGAAAATTGCTAAGCGTAAGTAG--------GAGAGCAGTTGGTTG----CTCTTTGTGTAGTTGTTTTGCATTTATGCTAGGTTGCTTT
i cebCap1.NW_016107829v1   I 3 C 0
s aotNan1.NW_018505940v1    13114341 119 -  42888418 TTCTGGT------------------------------TAATGGTCTA-CCGGATGTAATTGCATACGTAGAAAACTGCTAAGCATAAATAG--------GAGGGCAGTTGGTTGCTGTCTCTTGGTGTAGTTGTTTTGCATTTATTCTAGGTTGCTTT
i aotNan1.NW_018505940v1   I 3 C 0
s micMur3.chr12             60486605 119 + 108143057 TCCTGGT------------------------------TAATTGGCTA-CGAGACGTGATTGCATAAGTAGAAAATGACTAAAGGTAAGTAG--------GAGAGCAGTTGGTTGCCCTCACTTTGTTTTGTAGTTTTGCATTTATGCTAGTTTGCTTT
i micMur3.chr12            I 3 C 0
s proCoq1.NW_012155062v1     3516556 114 +  11683526 TCCTGGT------------------------------TAATTGGCTA-CCAGAGGTGATAGCATGAGTAGAAAATGACTAAAGATAAGTAG--------GAGAGCAGTTGGTTGCTCTCAC-----TTTGTAGTTTTGCATTTATGCTAGTTTGCTTT
i proCoq1.NW_012155062v1   I 3 C 0
s otoGar3.GL873679           2997074 103 +   4132165 TCCTGAT------------------------------TAACTGGTTA-CCAGATGTGATTGCACGAGTACAAAATGACTAAAGGTACAAAG--------GTACGTGG------GCTAGCAT----------AGCTTTGCATGAACGATAGGTTGCTTT
i otoGar3.GL873679         I 3 C 0
s mm10.chr18                55466579 102 +  90702639 ---------------------------------------------CA-TCAGAGTGAATC---TGTGTGGAAAATGGGAAAAGATAAGTCGCTGGGAGAAAGAGCAGCAG---GCCCTCACTTTGTACAAT--TTTTGCATTGGTTCTAATTCTTT--
i mm10.chr18               C 0 C 0
s canFam3.chr11             14863194  97 +  74389097 CCCTGAT-------------------------------AACGAGCTG-CCAGATACAATTGCATGAATA---------------TAAATGT--------G------GTTATTTATTCTCATTTTGTGTGAAACTTCTGCATCTAGCCTAAGTTGCTTT
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2554980 137 +   3667625 TTCTTGTAATCTTTGAAACCCAAATCCTATCCTCTGATAATTGGCTATTCAGATGTAATTGCATGAGTAGAAAATAGCTA-------------------AAGAGTAGTTGATTGCTTTCCCTTTGGGTAATA--TTTGCATTTATGCTCTGTGGCTTT
i dasNov3.JH567306         I 154 C 0

a score=14745.000000
s hg38.chr5_KI270796v1_alt     12710 2 +    172708 AA
s panTro5.chr5             125122800 2 + 181907262 AA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126459779 2 + 183735486 AA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1651483 2 +   8933513 AA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139782459 2 + 163208435 AA
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123571444 2 - 204313951 AA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55626980 2 -  71252344 AA
i saiBol1.JH378106         I 316 C 0
s cebCap1.NW_016107829v1     1321235 2 -   1400280 AA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13114460 2 -  42888418 AA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60486724 2 + 108143057 AG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3516670 2 +  11683526 AA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2997177 2 +   4132165 AA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55466681 2 +  90702639 AG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14863291 2 +  74389097 AG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2555117 2 +   3667625 AA
i dasNov3.JH567306         C 0 C 0
e manLeu1.NW_012103321v1     3967348 3 -   4237731 I
e chlSab2.chr23             28303237 3 +  82825804 I
e cerAty1.NW_012002512v1     5195434 3 +  26952557 I
e macNem1.NW_012012355v1    16189322 3 +  18395747 I
e macFas5.chr6             124191322 476 + 181584905 I
e rheMac8.chr6             122767796 331 + 180051392 I
e colAng1.NW_012119644v1      237854 3 -   1175262 I

a score=1423849.000000
s hg38.chr5_KI270796v1_alt     12712 95 +    172708 CCATCTTTTCTAACCAATGCTTGAGTGCAGCAAAATGGCCA--A----CCATGTA-AGCAGTAGTAAGAGGGTCTAAGCTTGAATATTTCAGAGCTTAACTG
s panTro5.chr5             125122802 95 + 181907262 CCATCTTTTCTAACCAATGCTTGAGTGCAGCAAAATGGCCA--A----CCATGTA-AGCAGTAGTAAGAGGGTCTAAGCTTGAATATTTCAGAGCTTAACTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126459781 95 + 183735486 CCATCTTTTCTAACCAATGCTTGAGTGCAGCAAAATGGCCA--A----CCATGTA-AGCAGTAATAAGAGGGTCTAAGCTTGAATATTTCAGAGCTTAACTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1651485 95 +   8933513 CCATCTTTTCTAACCAATGCTTGAGTGCAGCAAAATGGCCA--A----CCATGTA-AGCAGTAGTAAGAGGGTCTAAGCTTGAATATTTCAGAGCTTAACTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139782461 95 + 163208435 CCATCTTTTCTAACCAATGCTTGAGTGCAGCAAAATGGCCA--A----CCATGTA-AGCAGTAGTAGGAGAGTCTAAGCTTGAATATTTCAGAGCTTAACTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122768127 92 + 180051392 CCATCTTTTCTAACCAGCGCTTGAGTGCAGCAAAATGGCCA--A----CCACATA-AGC---AGTAGGAGAGTCTAAGCTTGAATATTTCAGAGCTTAACTG
i rheMac8.chr6             I 331 C 0
s macFas5.chr6             124191798 92 + 181584905 CCATCTTTTCTAACCAGCGCTTGAGTGCAGCAAAATGGCCA--A----CCACATA-AGC---AGTAGGAGAGTCTAAGCTTGAATATTTCAGAGCTTAACTG
i macFas5.chr6             I 476 C 0
s macNem1.NW_012012355v1    16189325 92 +  18395747 CCATCTTTTCTAACCAGCGCTTGAGTGCAGCAAAATGGCCA--A----CCACATA-AGC---AGTAGGAGAGTCTAAGCTTGAATATTTCAGAGCTTAACTG
i macNem1.NW_012012355v1   I 3 C 0
s cerAty1.NW_012002512v1     5195437 92 +  26952557 CCATCTTTTCTAACCAGCGCTTGAGTGCAGCAAAATGGCCA--A----CCACATA-AGC---AGTAGGAGAGTCTAAGCTTGAATATTTCAGAGCTTAACTG
i cerAty1.NW_012002512v1   I 3 C 0
s chlSab2.chr23             28303240 92 +  82825804 CCATCTTTTCTAACCAGCGCTTGAGTGCAGCAAAATGGCCA--A----CCACATA-AGC---AGTAGGAGAGTCTAAGCTTGAATATTTCAGAGCTTAACTG
i chlSab2.chr23            I 3 C 0
s manLeu1.NW_012103321v1     3967351 92 -   4237731 CCATCTTTTCTAACCAGCGCTTGAGTGCAGCAAAATGGCCA--A----CCACATA-AGC---AGTAGGAGAGTCTAAGCTTGAATATTTCAGAGCTTAACTG
i manLeu1.NW_012103321v1   I 3 C 0
s colAng1.NW_012119644v1      237857 95 -   1175262 CCATCTTTTCTAACCAACGCTTGAGTGCAGCAAAATGGCCA--A----CCACATA-AGCAGTAGTAGGAGAGTCTAAGCTTGAATATTTCAGAGCTTAACTG
i colAng1.NW_012119644v1   I 3 C 0
s calJac3.chr2             123571446 95 - 204313951 CCATCTTTTCTAACTAGTGCTTGAGTGCAGCAAAGTGGCCA--A----CCATGTA-AGCAGTAGTGGGAGAGTCTACGCTTGAATATTTCAGAGCTTAACTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55626982 95 -  71252344 CCATCTTTTCTAACCAGTGCTTGAGTGCAGCAGAGTGGTCA--A----CCATGTA-AGCAGTAGTGGGAGAGTCTACACTTGAGTATTTCAGAGCTTAACTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1321237 95 -   1400280 CCATCTTTCCTAACCAGTGCTTGAGTGCAGCAAAGTGGCCA--A----CCATGTA-AACAATAGTGGGAGAGTCTACGCTTGAATATTTCAGAGCTTAACTG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13114462 95 -  42888418 CCATCTTTTCTCACCAGTGCTTGAGTGCAGCAAGGCGGCCA--A----CCACGTA-AGCAGTAGTGGGAGAGCCTACGCTTGAATATTTCAGAGCTTAACTG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60486726 94 + 108143057 CCAACTCTTCTAACCAATGCTTGAGTGCACC-AAATGGCCC--A----CTATCTA-CTCAGTCGTAGGAGAGTCTAAGTTTGAATATTTCAGAGCTTAGCTG
i micMur3.chr12            C 0 I 209
s proCoq1.NW_012155062v1     3516672 95 +  11683526 CCAACTCTTCTAACCAATGCTTGGGTGCACCAAAATGGCCA--A----CTATCTA-AGCAGTAGTAGGAGAGTCTAAGCTTGAGTATTTCAGAGCTTAACTG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2997179 94 +   4132165 CCAAGTCTTTCAACCAGTGTTTGAGTGCACTGAAATGGCCA--C----CTATCTA-AGCAGTAGGAGGAG-GTCTAAGCTTGGATAGTGGAGAGCTTATTTG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55466683 99 +  90702639 CTAATTTGTATGAGCATTGTGTGAGTGGACCAGAGTGGCCA--AGTGCATATTTA-GGCTGCACGAAGATAGCCTAACCATGAATATCTCAGACCTGAACCA
i mm10.chr18               C 0 I 1
s canFam3.chr11             14863293 96 +  74389097 TCAACCCTTTAGACCAATTCTTAAGTGCACCAGAATGACCA--A----CTAGTTACAGCCACAGTAGGAGAGTCTAAACTTGAATATTTCTGAGTTCCACAG
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2555119 96 +   3667625 CTAACTCTTCTAACCTATGCTCAAGTGGACTAAAATGGCTAGTA----CTTGAAA-AGCAGTAGCAAGAGAATTTG-GCTTGCAGATTTCTGACCTTATCTG
i dasNov3.JH567306         C 0 C 0

a score=13365.000000
s hg38.chr5_KI270796v1_alt     12807 1 +    172708 T
s panTro5.chr5             125122897 1 + 181907262 T
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126459876 1 + 183735486 T
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1651580 1 +   8933513 T
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139782556 1 + 163208435 C
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122768219 1 + 180051392 T
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124191890 1 + 181584905 T
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16189417 1 +  18395747 T
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5195529 1 +  26952557 T
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28303332 1 +  82825804 T
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3967443 1 -   4237731 T
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      237952 1 -   1175262 T
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123571541 1 - 204313951 T
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55627077 1 -  71252344 T
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1321332 1 -   1400280 T
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13114557 1 -  42888418 T
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3516767 1 +  11683526 T
i proCoq1.NW_012155062v1   C 0 I 216
s otoGar3.GL873679           2997273 1 +   4132165 T
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2555215 1 +   3667625 T
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60486820 209 + 108143057 I
e canFam3.chr11             14863389 1 +  74389097 I
e mm10.chr18                55466782 1 +  90702639 I

a score=1084554.000000
s hg38.chr5_KI270796v1_alt     12808 84 +    172708 AAAATGAGTGT-GTAGTTTCTGGATGGGCTAGAAAATTT-AAGTCAT---A---GATTACATCT-GTGTCCAGGGGACTTGCCA----AAGTATTCT
s panTro5.chr5             125122898 85 + 181907262 AAAATGAGTGT-ATAGTTTCTGGATGTGCTAGAACATTTCAAGTCAT---A---GATTACATCT-GTGTCCAGGGGACTTGCCA----AAGTATTCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126459877 85 + 183735486 AAAATGAGTGT-ATAGTTTCTGGATGGGCTAGAACATTTCAAGTCAT---A---GATTACATCT-GTGTCCAGGGGACTTGTCA----AAGTATTCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1651581 85 +   8933513 AAAATGAGTAT-ATAGTTTCTGGATGGGCTAGAACATTTCAAGTCAT---A---GATTACATCT-GTGTCCAGGGGACTTGCCA----AAGTATTCT
i gorGor5.CYUI01015135v1   C 0 I 10
s nomLeu3.chr2             139782557 85 + 163208435 AAACTGAGTGT-ATAGTTTCTGCATGGGCTAGAACATTTCAAGTCAT---A---GATTACATCT-GTGTCCGGGGGACTTGCCA----AAGTGTTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122768220 85 + 180051392 AAAATGAGTGT-ATAATTTCTGCATGGGCTAGAACATTTCAAATCAT---A---GATTACATCT-GTGTCCAGGGGACTTGCCA----AAGTATTCT
i rheMac8.chr6             C 0 I 10
s macFas5.chr6             124191891 85 + 181584905 AAAATGAGTGT-ATAATTTCTGCATGGGCTAGAACATTTCAAATCAT---A---GATTACATCT-GTGTCCAGGGGACTTGCCA----AAGTATTCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16189418 85 +  18395747 AAAATGAGTGT-ATAATTTCTGCATGGGCTAGAACATTTCAAATCAT---A---GATTACATCT-GTGTCCAGGGGACTTGCCA----AAGTATTCT
i macNem1.NW_012012355v1   C 0 I 10
s cerAty1.NW_012002512v1     5195530 85 +  26952557 AAAATGAGTGT-ATAATTTCTGCATGGGCTAGAACATTTCAAATCAT---A---GATTACATCT-GTGTCCAGGGGACTTGCCA----AAGTATTCT
i cerAty1.NW_012002512v1   C 0 I 10
s chlSab2.chr23             28303333 85 +  82825804 AAAATGAGTGT-ATAATTTCTGCATGGGCTAGAACATTTCAAATCAT---A---GATTACATCT-GTGTCCAGGGGACTTGCCA----AAGTATTCT
i chlSab2.chr23            C 0 I 10
s manLeu1.NW_012103321v1     3967444 85 -   4237731 AAAATGAGTGT-ATAATTTCTGCATGGGCTAGAACATTTCAAATCAT---A---GATTACATCT-GTGTCCAGGGGACTTGCCA----AAGTATTCT
i manLeu1.NW_012103321v1   C 0 I 10
s colAng1.NW_012119644v1      237953 85 -   1175262 AAAATGAGTGT-ATAGTTTCTGCATGGGCTAGGACATTTCAAGTCAT---A---GATTACATCT-GTGTCCAGGGGACTTGCCA----AAGTATTCT
i colAng1.NW_012119644v1   C 0 I 10
s calJac3.chr2             123571542 85 - 204313951 AAAATGGGTGT-ATAGTTTCTGCATGGGCTAGAACATTTCAAGTCAT---A---GATTATATCT-GTGTCCAGGGGACTTGCCA----AAGTATTCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55627078 85 -  71252344 AAAATGGGTGT-ATAGTTTCTGCATGGGCTAGAACATTTCAAGTCAT---A---GATTACATCT-GTGTCCAGGGCACTTGCCA----GAGTATTCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1321333 85 -   1400280 AAAATGGGTGT-ATAGTTTCTGCATGGGCTAGAACATTTCAAGTCAT---A---GATTACGTCT-GTGTCCAGGGGACTTGCCA----AAGTATTCT
i cebCap1.NW_016107829v1   C 0 I 10
s aotNan1.NW_018505940v1    13114558 85 -  42888418 AAAATGGGTGT-ATAGTTTCTGCATGGGCTAGAATATTTCAAGTCAT---A---GATTGCATCT-GTGTCCAGGGAACTTGCAG----AAGTATTCT
i aotNan1.NW_018505940v1   C 0 I 10
s otoGar3.GL873679           2997274 82 +   4132165 GAAATGAGTGT-GTAGTTTCTGCATGGGTCGGAACATTTGGGTCTAT--CA---GTTTGTATCT-GTGTCCGGGGGACATGGCC----AGGTA----
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55466783 81 +  90702639 AGAATGAGGAC-AGAATGTTCCCAAGGAGCAGAGCATGTCAGGTCAT---ATCCAATGGCATCT-GTGTCCTGGGTACTTGC-----------TTCT
i mm10.chr18               I 1 C 0
s canFam3.chr11             14863390 93 +  74389097 AAAATGGATGT-ATAGTTTTTGTATGAACCAGAACATTTTGGGCCAT---AGCAGATTTTCTCTCCTGCCTGGAGGACTTACCAGACCAAGTATCCT
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2555216 90 +   3667625 AAAATGGATGTAATAGTTTCTGCATGAATCAGAAAATTTTGGGTCACCTCA---GATGGTACCT-ATGTCCAGAGGACTTGCCAAAGAAAGTAT---
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60486820 209 + 108143057 I
e proCoq1.NW_012155062v1     3516768 216 +  11683526 I

a score=2076.000000
s hg38.chr5_KI270796v1_alt     12892 3 +    172708 TTG
s panTro5.chr5             125122983 3 + 181907262 TTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126459962 3 + 183735486 TTG
i panPan2.chr5             C 0 C 0
s mm10.chr18                55466864 3 +  90702639 TCG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14863483 2 +  74389097 -TG
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2555306 3 +   3667625 TAG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60486820 209 + 108143057 I
e proCoq1.NW_012155062v1     3516768 216 +  11683526 I
e gorGor5.CYUI01015135v1     1651666 10 +   8933513 I
e manLeu1.NW_012103321v1     3967529 10 -   4237731 I
e chlSab2.chr23             28303418 10 +  82825804 I
e cerAty1.NW_012002512v1     5195615 10 +  26952557 I
e macNem1.NW_012012355v1    16189503 10 +  18395747 I
e macFas5.chr6             124191976 0 + 181584905 C
e rheMac8.chr6             122768305 10 + 180051392 I
e otoGar3.GL873679           2997356 0 +   4132165 C
e aotNan1.NW_018505940v1    13114643 10 -  42888418 I
e cebCap1.NW_016107829v1     1321418 10 -   1400280 I
e saiBol1.JH378106          55627163 0 -  71252344 C
e calJac3.chr2             123571627 0 - 204313951 C
e colAng1.NW_012119644v1      238038 10 -   1175262 I
e nomLeu3.chr2             139782642 0 + 163208435 C

a score=4767.000000
s hg38.chr5_KI270796v1_alt     12895 3 +    172708 TAT
s panTro5.chr5             125122986 3 + 181907262 TAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126459965 3 + 183735486 TAT
i panPan2.chr5             C 0 C 0
s nomLeu3.chr2             139782642 3 + 163208435 CAT
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124191976 3 + 181584905 CAT
i macFas5.chr6             C 0 C 0
s calJac3.chr2             123571627 3 - 204313951 CAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55627163 3 -  71252344 CAT
i saiBol1.JH378106         C 0 C 0
s mm10.chr18                55466867 3 +  90702639 TGT
i mm10.chr18               C 0 I 834
s dasNov3.JH567306           2555309 3 +   3667625 TGC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60486820 209 + 108143057 I
e canFam3.chr11             14863485 1 +  74389097 I
e proCoq1.NW_012155062v1     3516768 216 +  11683526 I
e gorGor5.CYUI01015135v1     1651666 10 +   8933513 I
e manLeu1.NW_012103321v1     3967529 10 -   4237731 I
e chlSab2.chr23             28303418 10 +  82825804 I
e cerAty1.NW_012002512v1     5195615 10 +  26952557 I
e macNem1.NW_012012355v1    16189503 10 +  18395747 I
e rheMac8.chr6             122768305 10 + 180051392 I
e otoGar3.GL873679           2997356 0 +   4132165 C
e aotNan1.NW_018505940v1    13114643 10 -  42888418 I
e cebCap1.NW_016107829v1     1321418 10 -   1400280 I
e colAng1.NW_012119644v1      238038 10 -   1175262 I

a score=16946.000000
s hg38.chr5_KI270796v1_alt     12898 7 +    172708 TAGGCTG
s panTro5.chr5             125122989 7 + 181907262 TAGGCTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126459968 7 + 183735486 TAGGCTG
i panPan2.chr5             C 0 C 0
s nomLeu3.chr2             139782645 7 + 163208435 CAGGCTG
i nomLeu3.chr2             C 0 T 1086
s macFas5.chr6             124191979 7 + 181584905 CAGGCTG
i macFas5.chr6             C 0 T 1560
s calJac3.chr2             123571630 7 - 204313951 CAGGCTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55627166 7 -  71252344 CAGGCTG
i saiBol1.JH378106         C 0 C 0
s dasNov3.JH567306           2555312 7 +   3667625 TAGGCTG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60486820 209 + 108143057 I
e canFam3.chr11             14863485 1 +  74389097 I
e proCoq1.NW_012155062v1     3516768 216 +  11683526 I
e gorGor5.CYUI01015135v1     1651666 10 +   8933513 I
e manLeu1.NW_012103321v1     3967529 10 -   4237731 I
e chlSab2.chr23             28303418 10 +  82825804 I
e cerAty1.NW_012002512v1     5195615 10 +  26952557 I
e macNem1.NW_012012355v1    16189503 10 +  18395747 I
e rheMac8.chr6             122768305 10 + 180051392 I
e otoGar3.GL873679           2997356 0 +   4132165 C
e aotNan1.NW_018505940v1    13114643 10 -  42888418 I
e cebCap1.NW_016107829v1     1321418 10 -   1400280 I
e mm10.chr18                55466870 834 +  90702639 I
e colAng1.NW_012119644v1      238038 10 -   1175262 I

a score=6725.000000
s hg38.chr5_KI270796v1_alt     12905 6 +    172708 AGTTGG
s panTro5.chr5             125122996 6 + 181907262 AGTTGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126459975 6 + 183735486 AGTTGG
i panPan2.chr5             C 0 C 0
s nomLeu3.chr2             139781566 6 + 163208435 AGTTGG
i nomLeu3.chr2             T 1086 C 0
s macFas5.chr6             124190426 6 + 181584905 AGTTAG
i macFas5.chr6             T 1560 C 0
s calJac3.chr2             123571637 5 - 204313951 -GCTGG
i calJac3.chr2             C 0 C 0
e micMur3.chr12             60486820 209 + 108143057 I
e canFam3.chr11             14863485 1 +  74389097 I
e proCoq1.NW_012155062v1     3516768 216 +  11683526 I
e gorGor5.CYUI01015135v1     1651666 10 +   8933513 I
e manLeu1.NW_012103321v1     3967529 10 -   4237731 I
e chlSab2.chr23             28303418 10 +  82825804 I
e cerAty1.NW_012002512v1     5195615 10 +  26952557 I
e macNem1.NW_012012355v1    16189503 10 +  18395747 I
e rheMac8.chr6             122768305 10 + 180051392 I
e otoGar3.GL873679           2997356 0 +   4132165 C
e aotNan1.NW_018505940v1    13114643 10 -  42888418 I
e cebCap1.NW_016107829v1     1321418 10 -   1400280 I
e dasNov3.JH567306           2555319 0 +   3667625 C
e mm10.chr18                55466870 834 +  90702639 I
e saiBol1.JH378106          55627173 0 -  71252344 C
e colAng1.NW_012119644v1      238038 10 -   1175262 I

a score=111869.000000
s hg38.chr5_KI270796v1_alt     12911 152 +    172708 GAAGTTGGTGAGCAGAGTGTGCATAGTGACAGGGCCgaaagcttaaatagtttaagacaaaatgaagtatttatgttttctttgcatatctgagttttgctatgagttaaatttggtgagtcggctacTTGTGATTAAAAGAAAAATAAAGC
s panTro5.chr5             125123002 152 + 181907262 GAAGTTGGTGAGCAGAGTGTGCATAGTGACAGGGCCgaaagcttaaatagtttaagacaaaatgaagtatttatgttttctttgcatatctgagttttgctatgagttaaatttggtgagtcggctacaTGTGATCAAAAGAAAAATACAGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126459981 152 + 183735486 GAAGTTGGTGAGCAGAGTGTGCATAGTGACAGGGCCgaaagcttaaatagtttaagacaaaatgaagtatttatgttttctttgcatatctgagttttgctatgagttaaatttggtgagtcggctacaTGTGATCAAAAGAAAAATAAAGC
i panPan2.chr5             C 0 C 0
s nomLeu3.chr2             139781572 152 + 163208435 GAAGTTGGTGAGCAGAGTGTGTATAGTGACAGGGTCAAAAGCTTAAATAGTTTAAGACAAAATGAAGTATTTATGTTTTCTTTGCATATCTGAGTTTTGCTATGAGTTAAATTTGGTGAGTTGGCTACATATGATTAAAAGAAAAATAAATC
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124190432 152 + 181584905 GAAGTTGGTGAGTAGAGTGTGCATAGTGACAGGATTGAAAGCTTAAACAGTTTAAGACAAAATGAAGTTTTTATGTTTTCTTAGCATATCTGAGTTTTGCTATGAGTTCAATTTGGTGGGTCAGCTACATATGATTAAAAGAAAAATAAAGC
i macFas5.chr6             C 0 C 0
s otoGar3.GL873679           2997356  20 +   4132165 ---------------AGTGTG--------------------------------------------------------TTCTT-----------------------GTTAA----GATG----------------------------------
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60486820 209 + 108143057 I
e canFam3.chr11             14863485   1 +  74389097 I
e proCoq1.NW_012155062v1     3516768 216 +  11683526 I
e gorGor5.CYUI01015135v1     1651666  10 +   8933513 I
e manLeu1.NW_012103321v1     3967529  10 -   4237731 I
e chlSab2.chr23             28303418  10 +  82825804 I
e cerAty1.NW_012002512v1     5195615  10 +  26952557 I
e macNem1.NW_012012355v1    16189503  10 +  18395747 I
e rheMac8.chr6             122768305  10 + 180051392 I
e aotNan1.NW_018505940v1    13114643  10 -  42888418 I
e cebCap1.NW_016107829v1     1321418  10 -   1400280 I
e dasNov3.JH567306           2555319   0 +   3667625 C
e mm10.chr18                55466870 834 +  90702639 I
e saiBol1.JH378106          55627173   0 -  71252344 C
e calJac3.chr2             123571642   0 - 204313951 C
e colAng1.NW_012119644v1      238038  10 -   1175262 I

a score=3485.000000
s hg38.chr5_KI270796v1_alt     13063 3 +    172708 AAA
s panTro5.chr5             125123154 3 + 181907262 AAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126460133 3 + 183735486 AAA
i panPan2.chr5             C 0 C 0
s nomLeu3.chr2             139781724 3 + 163208435 AAA
i nomLeu3.chr2             C 0 I 925
s macFas5.chr6             124190584 3 + 181584905 AAA
i macFas5.chr6             C 0 I 1399
s canFam3.chr11             14863486 3 +  74389097 GAA
i canFam3.chr11            I 1 C 0
e micMur3.chr12             60486820 209 + 108143057 I
e proCoq1.NW_012155062v1     3516768 216 +  11683526 I
e gorGor5.CYUI01015135v1     1651666 10 +   8933513 I
e manLeu1.NW_012103321v1     3967529 10 -   4237731 I
e chlSab2.chr23             28303418 10 +  82825804 I
e cerAty1.NW_012002512v1     5195615 10 +  26952557 I
e macNem1.NW_012012355v1    16189503 10 +  18395747 I
e rheMac8.chr6             122768305 10 + 180051392 I
e otoGar3.GL873679           2997376 0 +   4132165 C
e aotNan1.NW_018505940v1    13114643 10 -  42888418 I
e cebCap1.NW_016107829v1     1321418 10 -   1400280 I
e dasNov3.JH567306           2555319 0 +   3667625 C
e mm10.chr18                55466870 834 +  90702639 I
e saiBol1.JH378106          55627173 0 -  71252344 C
e calJac3.chr2             123571642 0 - 204313951 C
e colAng1.NW_012119644v1      238038 10 -   1175262 I

a score=553384.000000
s hg38.chr5_KI270796v1_alt     13066 46 +    172708 GCTGGGGAAAGGCTGAAAGCATGGAAGGCAAGAATAGAGATGAGAT
s panTro5.chr5             125123157 46 + 181907262 GCTGGGGAAAGGCTGAAAGCATGGAAGGCAAGAATAGAGATGAGAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126460136 46 + 183735486 GCTGGGGAAAGGCTGAAAGCATGGAAGGCAAGAATAGAGATGAGAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1651676 46 +   8933513 GCTGGGGAAAGGCTGAAAGCATGGAAGGCAAGAATAGAGATGAGAT
i gorGor5.CYUI01015135v1   I 10 C 0
s nomLeu3.chr2             139782652 46 + 163208435 GCTGGGGAAAGGCTGAAAGCGTGGAAAGTAAGAGTAGAGATGAGAT
i nomLeu3.chr2             I 925 C 0
s rheMac8.chr6             122768315 46 + 180051392 GCTGGAGAAAGGCTGAAAGCATGGAAGGCAAGAATAGAGATGAGAT
i rheMac8.chr6             I 10 C 0
s macFas5.chr6             124191986 46 + 181584905 GCTGGAGAAAGGCTGAAAGCATGGAAGGCAAGAATAGAGATGAGAT
i macFas5.chr6             I 1399 C 0
s macNem1.NW_012012355v1    16189513 46 +  18395747 GCTGGAGAAAGGCTGAAAGCATGGAAGGCAAGAATAGAGATGAGAT
i macNem1.NW_012012355v1   I 10 C 0
s cerAty1.NW_012002512v1     5195625 46 +  26952557 GCTGGAGAAAGGCTGAAAGCATGGAAGGCAAGAATAGAGATGAGAT
i cerAty1.NW_012002512v1   I 10 C 0
s chlSab2.chr23             28303428 46 +  82825804 GCTGGAGAAAGGCTGAAAGCATGGAAGGCAAGAATAGAGATGAGAT
i chlSab2.chr23            I 10 C 0
s manLeu1.NW_012103321v1     3967539 46 -   4237731 GCTGGAGAAAGGCTGAAAGCATGGAAGGCAAGAATAGAGATGAGAT
i manLeu1.NW_012103321v1   I 10 C 0
s colAng1.NW_012119644v1      238048 46 -   1175262 GCTGGAGAAAGGCTGAAAGCATGGAAGGCAAGAATAGAGATGAGAT
i colAng1.NW_012119644v1   I 10 C 0
s saiBol1.JH378106          55627173 46 -  71252344 GCTGGGGGAAGGCTGAAAGCATGGAAAGCAAGAATAGAGATGAGAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1321428 46 -   1400280 GCTGGGGGAAGGCTGAAAGCATGGAAAGCAAGAATAGAGACGAGAT
i cebCap1.NW_016107829v1   I 10 C 0
s aotNan1.NW_018505940v1    13114653 46 -  42888418 GCTGGGGGAAGGCTGAAAGCGTGGAAAGCAAGAATAGAGATGAGAT
i aotNan1.NW_018505940v1   I 10 C 0
s otoGar3.GL873679           2997376 46 +   4132165 GCTGGGGAAAGGCTGAGAGTACAGAATGCAAGAATGGAGATGGGGT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14863489 46 +  74389097 TCTGAGAAAAGGCTGAGAGCATGGAGAACAAGAGTGGAGATGTGTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2555319 40 +   3667625 GCTGAGGAAAGGCTGA------GGATAGCAAGAGTGGAGTTGTGCT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60486820 209 + 108143057 I
e proCoq1.NW_012155062v1     3516768 216 +  11683526 I
e mm10.chr18                55466870 834 +  90702639 I
e calJac3.chr2             123571642  0 - 204313951 C

a score=1394349.000000
s hg38.chr5_KI270796v1_alt     13112 138 +    172708 GTAAAGGTCCTGAGATAGATGATAAAAGTTTGG-----GTGAGACCCTGTCCAGCTCTTGAG-GTGATGCTGACTTGCAGA--TTTTTTTTCTTTTTCTTTATCTTTGAAGTCT--ACTTGTACAAGAGAGGAAATGAGGAGAAAATG
s panTro5.chr5             125123203 139 + 181907262 GTAAGGGTCCTGAGATAGATGATAAAAGTTTGG-----GTGAGACCCTGTCCAGCTCTTGAGAGTGATGCTGACTTGTAGA--TTTTTTTTCTTTTCCTTTATCTTTGAAGTCT--ACTTGTACAAGAGAGGGAATGAGGAGAAAATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126460182 139 + 183735486 GTAAGGGTCCTGAGATAGATGATAAAAGTTTGG-----GTGAGACCCTGTCCAGCTCTTGAGAGTGATGCTGACTTGTAGA--TTTTTTTTCTTTTCCTTTATCTTTGAAGTCT--ACTTGTACAAGAGAGGGAATGAGGAGAAAATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1651722 138 +   8933513 GTAAAGGTCCTGAGATAGATGATAAAAGTTTGG-----GTGAGACCCTGTCCAGCTCTTGAGAGTGATGCTGACTTGTAGA---TTTTTTTCTTTTCCTTTATCTTTGAAGTCT--ACTTGTACAAGAGAGGGAATGAGGAGAAAATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139782698 140 + 163208435 GTAAACGTCCCGAGATAGATGATAAAAGTCTGG-----GTGAGACCCTGTCCAGCTCTTGAGAGTGATGCTGACTTGTAGA-TTTTTTTTTCTTTTCCTTTATCTTTGAAGTCT--ACTTGTACAAGAGAGGGAATGAGGAGAAAATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122768361 146 + 180051392 GTAAAGGCCCTGAGATAGATGATAAATGTGAGATAGATGTGAGACCCTGTCCAGCTCTTCAGAGTGATGCTGACTTGTAGATTTTTTTTTTCTTGTCCTTTATCTTTGAAGTCT--ACTTGTATAAGAGAGGGAATGCGGAGAAAATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124192032 146 + 181584905 GTAAAGGCCCTGAGATAGATGATAAATGTGAGATAGATGTGAGACCCTGTCCAGCTCTTCAGAGTGATGCTGACTTGTAGATTTTTTTTTTCTTGTCCTTTATCTTTGAAGTCT--ACTTGTATAAGAGAGGGAATGCGGAGAAAATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16189559 146 +  18395747 GTAAAGGCCCTGAGATAGATGATAAATGTGAGATAGATGTGAGACCCTGTCCAGCTCTTCAGAGTGATGCTGACTTGTAGATTTTTTTTTTCTTGTCCTTTATCTTTGAAGTCT--ACTTGTATAAGAGAGGGAATGCGGAGAAAATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5195671 146 +  26952557 GTAAAGGCCCTGAGATAGATGATAAATGTGAGATAGATGTGAGACCCTGTCCAGCTCTTCAGAGTGATGCTGACTTGTAGATTTTTTTTTTCTTTTCCTTTTTCTTTGAAGTCT--ACTTGTATAAGAGAGGGAATGCGGAGAAAATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28303474 145 +  82825804 GTAAAGGCCCTGAGATAGATGATAAATGTGAGATAGATGTGAGACCCTGTCCAGCTCTTCAGAGTGATGCTGACTTGTAGA-TTTTTTTTTCTTTTCCTTTATCTTTGAAGTCT--ACTTGTATAAGAGAGGGAATGCGGAGAAAATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3967585 146 -   4237731 GTAAAGGCCCTGAGATAGATGATAAACGTGAGATAGATGTGAGACCCTGTCCAGCTCTTCAGAGTGATGCTGACTTGTAGATTTTTTTTTTCTTTTCCTTTATCTTTGAAGTCT--ACTTGTATAAGAGAGGGAATGCGGAGAAAATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      238094 145 -   1175262 GTAAAGGCCCTGAGACAGAGGATAAATGTGAGATAGATGTGAGACCCTGTCCAGATCTTCAGAGTGATGCTGACTTGTAGA-GTTTTTTTTCTTTTCCTTTATCTTTGAAGTCT--ACTTGTATAAGAGAGGGAATGCGGAGAAAATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123571642 140 - 204313951 GTAAAGGCCTTGAGATAGACGACAAAAGTTTGT-----GCGAGGTCATGTCCGACTCTTGGGAGTGTTGCGGACTTGTAGA-TTTTTTTCTCTTTTTTGTTATCTTTGAAGTCT--GCTTGTACAAGAAAGGGAATTAGGAGAAAATG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55627219 139 -  71252344 ATAAAGGCCTTGAGATAGACGATAAAAGTTTGT-----GCGAGACTGTGTCCAACTCTTGAGAGTGATGCGGACTTGTAGA--TTTTTTCCCTTTTTCATTGTCTTTGAAGTCT--ACTTGTACAAGAAAGGGAATTAGTAGAAAATG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1321474 140 -   1400280 GCAAAGGCCTTGAGATAGATGATAAAAGTTTGT-----GCGAGACCATGTCCAACTCTTGAGAGTGATGTGGACTTGTAGA-TTTTTTTCTCTTTTTCGTTATCTTTGAAGTCT--ACTTGTACAAGAAAGGGAATTAGGAGAAAATG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13114699 140 -  42888418 GTAAAGGCCTTGAGATAGATGATAAAAGTTTGT-----GCGAGACCATGTCCAACTCTTGAGAGTGATGCGGACTTGTAGA-TGTTTTTCTCTTTTTCATTATCTTTGAAGTCT--ACTTATACAAGAAAGGGAATTAGGAGAAAATG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2997422  76 +   4132165 GTAAAGCCCCTGAGGTCGATGAAGAAGGTTTGC-----ATGAGACCCTGTGTAACTCTTGAGACGG--------CCGTAAG-----------------------------------------------------------AGAAAACA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14863535 136 +  74389097 ATAAAGTCCTTGGGATTGATGGGAAACGTTTAT-----AAAAGACTATGTTCAACTCTTCAAAGTGAGGCTGACTTCTAGC---TTTTTTGCTTTCC----ATTTTCAAAGTGTACACTAGGAAAGTAGAAGGAGCTAGGAGAAAAAA
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2555359 138 +   3667625 CTAAGTCCTCTGGGACAGATGAGAAA-GTTTGT-----GTAAGACCGTGTTCAAACCCTGAGAGTGAAACCTACAGCCAGG--TTTCTTCCTTTTCCTTTTATCTTCAGGGTAT--ACTCCTCAGACAGAGGGAAATGGGAGAAAATG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60486820 209 + 108143057 I
e proCoq1.NW_012155062v1     3516768 216 +  11683526 I
e mm10.chr18                55466870 834 +  90702639 I

a score=705657.000000
s hg38.chr5_KI270796v1_alt     13250 51 +    172708 GCATAGACTTCATGATCTTATCACCTGGTGAAGTATCAAGATCTGTGTGTG
s panTro5.chr5             125123342 51 + 181907262 GCATAGACTTCATGATCTTATCACCTGGTGAAGTATCAAGATCTGTGTGTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126460321 51 + 183735486 GCATAGACTTCATGATCTTATCACCTGGTGAAGTATCAAGATCTGTGTGTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1651860 51 +   8933513 GCATAGACTTCATGATCTTATCACCTGGTGAAGTATCAAGATCTGTGTGTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139782838 51 + 163208435 GCCTAGACTTCATGATCTTATCACGTGGTGAAGTATCAAGATCTGTGTGTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122768507 51 + 180051392 GCATAGACTTCATGATCTTATCACCTGGTGAAGTATCAAGATCTGTGTGTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124192178 51 + 181584905 GCATAGACTTCATGATCTTATCACCTGGTGAAGTATCAAGATCTGTGTGTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16189705 51 +  18395747 GCATAGACTTCATGATCTTATCACCTGGTGAAGTATCAAGATCTGTGTGTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5195817 51 +  26952557 GCATAGACTTCATGATCTTATCACCTGGTGAAGTATCAAGATCTGTGTGTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28303619 51 +  82825804 GCATAGACTTAATTATCTTATCACCTGGTGAAGTATCAAGATCTGTGTGTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3967731 51 -   4237731 GCATAGACTTCATGATCTTATCACCTGGTGAAGTATCAAGATCTGTGTGTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      238239 51 -   1175262 GCATAGACTTCATGATCTTATCACCTAGTAAAGTATCAAGATCTGTGTGTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123571782 51 - 204313951 GCATAGACTTCATGATCTCATCAGGTGGTGAAATATCAACATCTGTGTGGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55627358 51 -  71252344 GCATAGACTTCATGATTTCATCAGGTGGTGAAGTATCAAGATCTGTGTGCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1321614 51 -   1400280 GCATAGACTTCAGGATCTCATCAGGTGGTGAAGTATCAAGATCCGTGTGGG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13114839 51 -  42888418 GCATAGACTTCGTGATCTCATCAGGTGGTGAAGTATCAAGATCTGTGTGGG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3516984 51 +  11683526 GCATAGACGTCATGATCTCAACACCTGGTAAAATATCAAGATGTGTGTGGA
i proCoq1.NW_012155062v1   I 216 C 0
s otoGar3.GL873679           2997498 51 +   4132165 GCATAGAGTTCGTGATCTCATCACCTGGTAAAATTCCAAGATCTGTGTACA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14863672 51 +  74389097 ACATGGACTTTGTGAACTCGTTTCCTGGTAAAGTATCAAGGTCTGCATGAG
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2555497 51 +   3667625 ATGTAGACTTCATGACCTCGTCACCTAGCAAAGCCCGGAGGATTGTGTGGG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60486820 209 + 108143057 I
e mm10.chr18                55466870 834 +  90702639 I

a score=639052.000000
s hg38.chr5_KI270796v1_alt     13301 44 +    172708 TTCAAGTGTGCTACACACTTGCA-AATAACCCAGGGCTTGATCTG
s panTro5.chr5             125123393 44 + 181907262 TTCAAGTGTGCTACGCACTTGCA-AATAACCCAGGGCTTGATCTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126460372 44 + 183735486 TTCAAGTGTGCTACGCACTTGCA-AATAACCCAGGGCTTGATCTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1651911 44 +   8933513 TTCAAGTGTGCTACGCACTTGCA-AATAACCCAGGGCTTGATCTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139782889 44 + 163208435 TTCAAGTGTGCTACACACTTGCA-AATAACCCAGGGCTTGATCTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122768558 44 + 180051392 TTCAAGTGTGCTATGCATTTGCA-AATAACCCAGGGCTTGATCTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124192229 44 + 181584905 TTCAAGTGTGCTATGCATTTGCA-AATAACCCAGGGCTTGATCTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16189756 44 +  18395747 TTCAAGTGTGCTATGCATTTGCA-AATAACCCAGGGCTTGATCTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5195868 44 +  26952557 TTCAAGTGTGCTATGCATTTGCA-AATAACCCAGGGCTTGATCTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28303670 44 +  82825804 TTCAAGTGTGTTATGCATTTGCA-AATAACCCAGGGCTTGATCTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3967782 44 -   4237731 TTCAAGTGTGCTATGCATTTGCA-AATAACCCAGGGCTTGATCTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      238290 44 -   1175262 TTCAAGTGTGCTATGCATTTGCA-AATAACCCAGGGCTTGATCTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123571833 44 - 204313951 TTCAAGAGTGTCATGCACTTGCA-AATAACCCAGGGCTTGGTCTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55627409 44 -  71252344 TTCAAGAGTGTTATGCACTTGCA-AATAACCCAGGGCTTTGTCTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1321665 44 -   1400280 TTCAAGAGTGTTATGCGCTTGCA-AATAACCCAGGGCTTGGTCTG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13114890 44 -  42888418 TTCAAGAGTGTTATGCACTTGCA-AATAACCCAGGGCTTGGTCTG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60487029 44 + 108143057 TTCAGGTGTGCTACTCATCTGCA-AATAACCCAGGTCTTGATCTG
i micMur3.chr12            I 209 C 0
s proCoq1.NW_012155062v1     3517035 44 +  11683526 TTCGGGTGTGCTACTCATCTGCA-AATAACCCAGGTTTTGATCTG
i proCoq1.NW_012155062v1   C 0 I 608
s otoGar3.GL873679           2997549 44 +   4132165 TTCAAGTTCGCTACTCATTTGCA-CGTAACTGGGATCTTGATCTG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14863723 34 +  74389097 TTGGGGTGTGTTACACATTTGCAGAATAATCCTG-----------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2555548 41 +   3667625 TTCAGGTGTGCTACTCAC---AA-ATTGACCTAGGATTTGTTCTG
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55466870 834 +  90702639 I

a score=40077.000000
s hg38.chr5_KI270796v1_alt     13345 4 +    172708 --CTAT
s panTro5.chr5             125123437 4 + 181907262 --CTAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126460416 4 + 183735486 --CTAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1651955 4 +   8933513 --CTAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139782933 4 + 163208435 --TTAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122768602 4 + 180051392 --TTAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124192273 4 + 181584905 --TTAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16189800 4 +  18395747 --TTAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5195912 4 +  26952557 --TTAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28303714 4 +  82825804 --TTAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3967826 4 -   4237731 --TTAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      238334 4 -   1175262 --TTAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123571877 4 - 204313951 --TTAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55627453 4 -  71252344 --TTAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1321709 4 -   1400280 --TTAC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13114934 4 -  42888418 --TTAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60487073 4 + 108143057 --TTAT
i micMur3.chr12            C 0 I 569
s otoGar3.GL873679           2997593 4 +   4132165 --TTAC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14863757 4 +  74389097 --TTTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2555589 4 +   3667625 TCTT--
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3517079 608 +  11683526 I
e mm10.chr18                55466870 834 +  90702639 I

a score=403308.000000
s hg38.chr5_KI270796v1_alt     13349 43 +    172708 TATACTGATGATGCAG---TAGTTTTTCCT----ACCAGACAACCTATAT
s panTro5.chr5             125123441 43 + 181907262 TATACTGATGATGCAG---TAGCTTTTCCT----ACCAGACAACCTATAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126460420 43 + 183735486 TATACTGATGATGCAG---TAGCTTTTCCT----ACCAGACAACCTATAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1651959 43 +   8933513 TATACTGATGATGCAG---TAGCTTTTCCT----ACCAGACAACCTATAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139782937 43 + 163208435 TATACTGATGATGCAG---TAGTTTTTCCT----ATCAGACAACCTATAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122768606 43 + 180051392 TGTACTGATGATGCAG---TAGTTTTTCCT----ACCAGACAGCCTATAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124192277 43 + 181584905 TGTACTGATGATGCAG---TAGTTTTTCCT----ACCAGACAGCCTATAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16189804 43 +  18395747 TGTACTGATGATGCAG---TAGTTTTTCCT----ACCAGACAGCCTATAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5195916 43 +  26952557 TGTACTGATGATGCAG---TAGTTTTTCCT----ACCAGACAGCCTATAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28303718 43 +  82825804 TGTACTGATGATGCAG---TAGTTTTTCCT----ACCAGACAGCCTATAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3967830 43 -   4237731 TGTACTGATGATGCAG---TAGTTTTTCCT----ACCAGACAGCCTATAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      238338 43 -   1175262 TGTACTGATGATGCAG---TAGTTTTTCCT----ACCAGACAGCCTGTAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123571881 41 - 204313951 TATACTAATGATGTAG---TAGTTTTTCCC----ATCAGACAGCCTA--T
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55627457 41 -  71252344 TATACTGACGATGTAG---TAGTTTTTCCC----ACCAGACAGCCTG--T
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1321713 41 -   1400280 TATACTGATGATGTAG---TAGTTTTTCCC----ACCAGACAGCCTG--T
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13114938 41 -  42888418 TATACTGATGATGCAG---TAGTTTCTCCC----ACCAAACAGCCTA--T
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2997597 34 +   4132165 -TTCTGGATCATGCAG---TGTTATG----------CACGGAGACTT--T
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14863761 46 +  74389097 CTGGCCAATTATGCAG---TGTCTCTTGCTGTTCACCAAGGAGCCTGCG-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2555593 46 +   3667625 CTTACTCTTTATATAATATTAATTTTCCTT----ACCAGAGAGCATGCAC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60487077 569 + 108143057 I
e proCoq1.NW_012155062v1     3517079 608 +  11683526 I
e mm10.chr18                55466870 834 +  90702639 I

a score=6419322.000000
s hg38.chr5_KI270796v1_alt     13392 547 +    172708 AAGCTCATTTTAGGCAGAAATATGGTTTAagttaggg-ccctaacaggatggcacatgcaaactaggattgttcaaggagggtcaaataaaggaagtgtacagaaaagggcaggcaaggtgaaagaagactggagggg----gtggtgcagcaccccggg-ata--aatagaggg--gctgtt-accaccc-taagctcgaagaaagcctgaggaggaaAATCCTGCAGAGA-GGCTTAGTGGCCCC----TCACAGACACT-AGACAGAGGAGGGTGGGCCAAAGAAGGAGAGACAGTTctcttttcccttccttggctct---tctgccaggcgtcccc------atgggcagagttcaat-aggaagccagagggctcaggagtcctgagtgcctcgctgagctgagagcagggttgagaa-gggctgagagtgga---------------tctaggagtagcaaactgaggattcctagcataGATATGTCACACTTTTTCTTTTAAATCCATAGCACCTGGCTTGATGGGTATCAGCAACCAGCTGTTTGATTAAGAGAATGCTCTTGGCA--GCTCAGTGTCCCTTC
s panTro5.chr5             125123484 547 + 181907262 AAGCTCATTTTAGGCAGAAATATGgtgtcagttaggg-ccctcacaggatggcacatgcaaactaggattgttcaaggagggtcaaataaaggaagtgttcagaaaagggcaggcaatgtgaaagaagactggagggg----gtggtgcagcaccccggg-ata--aatagaggg--gctgtt-accaccc-taagctcaaagaaagcctgaggaggaaaatcctgcagaga-ggcttagtggcccc----tcacagccacc-agacagaggagggtgggccaaagaaggagagacagttctcttttcccttccttggctct---tctgccaggcgtcccc------atgggcagagttcatt-aggaagccagagggctcaggagtcctgagtgcctcgctgagctgagagcagggttgagaa-gggctgagagtgga---------------tctaggagtagcaaactgaggattcctagcataGATATGTCACACTTTTTCTTTTAAATCCATAGCACCTGGCTTGATGGGTATCAGCAACCAGCTGTTTGATTAAGAGAATGCTCTTGGCA--GCTCAGTGTCCCTTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126460463 547 + 183735486 AAGCTCATTTTAGGCAGAAATATGgtgtcagttaggg-ccctcacaggatggcacatgcaaactaggattgttcaaggagggtcaaataaaggaagtgttcagaaaagggcaggcaaggtgaaagaagactggagggg----gtggtgcagcaccccggg-ata--aatagaggg--gctgtt-accaccc-taagctcaaagaaagcctgaggaggaaaatcctgcagaga-ggcttagtggcccc----tcacagccacc-agacagaggagggtgggccaaagaaggagagacagttctcttttcccttccttggctct---tctgccaggcgtcccc------atgggcagagttcaat-aggaagccagagggctcaggagtcctgagtgcctcgctgagctgagagcagggttgagaa-gggctgagagtgga---------------tctaggagtagcaaactgaggattcctagcataGATATGTCACACTTTTTCTTTTAAATCCATAGCACCTGGCTTGATGGGTATCAGCAACCAGCTGTTTGATTAAGAGAATGCTCTTGGCA--GCTCAGTGTCCCTTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1652002 545 +   8933513 AAGCTCATTTTAGGCAGAAATATGgtgtcagttaggg-ccctaacaggatggcacatgcaaactaggattgttcaaggagggtcaaataaaggaagtgttcagaaaagggcaggcaaggtgaaagaagactggagggg----gtggtgcagcaacctgggaata--aatagaggg--gctgtt-accaccc-taagctcaaagaaagcctgaggaggagaatcctgcagaga-ggcttagtggcccc----tcacagacacc-agacagaggagggtgggcca---aaggagagacagttctcttttcccttccttggctct---tctgccaggcgtcccc------atgggcagagttcaat-aggaagccagagggctcaggagtcctgagtgcctcgctgagctgagagcagggttgagaa-gggctgagagtgga---------------tctaggagtagcaaactgaggattcctagcataGATATGTCACACTTTTTCTTTTAAATCCATAGCACCTGGCTTGATGGGTATCAGCAACCAGCTGTTTGATTAAGAGAATGCTCTTGGCA--GCTCAGTGTCCCTTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139782980 546 + 163208435 AAACTCATTTTAGGCAAAAATATGATGtcagttaggg-ccctaacaggatggcacatgcaaactaggattgttcaaggagggccaaataaaggtagtgttcagaaaagggcaggcaaagtgaaagaagactggagggg----gtggtgcagcaccccggg-ata--aatagaggg--gctg-t-accaccc-taagctcaaagaaagcctgaggaggagaatcctgcagaga-ggcttagtggcccc----tcacagacacc-agacagaggagggtgggccaaagagggagagacagttctcttttcccttccttggctct---tctgccaggcgtcccc------atgggcagagttcaat-aggaagccagagggctcaggagtcccgagtgcctcgctgagctgagagcagggttgagaa-gggctgagagtgga---------------tctgggagtagcaaactgaggattcctagcataGACATGTCACACTTTTTCTTTTAAATCCATAGCACCTGGCTTGATGGGCGTCAGCAACCAGCTGTTTGATTAAGAGCATGCTCTTGGCA--GCTCAGGGTCCCTTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122768649 547 + 180051392 AAGCTCATTTTAGGCAGAAATGTGAtgtcagttaggg-cattaacaggatggcacatgcaaactaggattgttcaaggagggtcaaataaaggaaatgttcagaaaaaggcgggcaaggtaaaagaagaatggagggg----gtggtgcagcatcctggg-ata--aatagagga--gcttgt-accaccc-taagctcaaagaaagcctgaggaggACAGTCCTGCAGAGG-GGCTTAGTGAGCCC----TCACAGACACC-AGACAGAGGAGGGTGGGCCAAAGGGGGAGACACAGTGCTCTTTTCCCTTCTTTGGCTCT---TCTGCCAGGTGTCCCC------ATGGGCAGAGTTCAAT-AGGAAACCAGAGGGCTCAGGAGTCCCGAGTgcctcactgagctaagagcagggtcgagaa-gggctgagagtgga---------------tctaggagtagcaaactgaggattcctagGATAGATATGTCACACTTTTTCTTTTAAATCCATAGCACCTGGCTTGATGGGTGTCAGCAACCAGCTGTCTGATTAGGAGAATGCTCTTGGCA--GCTCGGTGTCCCTTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124192320 547 + 181584905 AAGCTCATTTTAGGCAGAAATGTGAtgtcagttaggg-cattaacaagatggcacatgcaaactaggattgttcaaggagggtcaaataaaggaaatgttcagaaaaaggcgggcaaggtaaaagaagaatggagggg----gtggtgcagcatcctggg-ata--aatagagga--gcttgt-accaccc-taagctcaaagaaagcctgaggaggACAGTCCTGCAGAGG-GGCTTAGTGAGCCC----TCACAGACACC-AGACAGAGGAGGGTGGGCCAAAGGGGGAGACACAGTGctcttttcccttctttggctct---tctgccaggtgtcccc------atgggcagagttcaat-aggaaaccagagggctcaggagtcccgagtgcctcactgagctaagagcagggtcgagaa-gggctgagagtgga---------------tctaggagtagcaaactgaggattcctagGATAGATATGTCACACTTTTTCTTTTAAATCCATAGCACCTGGCTTGATGGGTGTCAGCAACCAGCTGTCTGATTAGGAGAATGCTCTTGGCA--GCTCGGTGTCCCTTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16189847 547 +  18395747 AAGCTCATTTTAGGCAGAAATGTGAtgtcagttaggg-cattaacaggatggcacatgcaaactaggattgttcaaggagggtcaaataaaggaaatgttcagaaaaaggtgggcaaggtaaaagaagaatggagggg----gtggtgcagcatcctggg-ata--aatagagga--gcttgt-accaccc-taagctcaaagaaagcctgaggaggACAGTCCTGCAGAGG-GGCTTAGTGAGCCC----TCACAGACACC-AGACAGAGGAGGGTGGGCCAAAGCGGGAGACACAGTGctcttttcccttctttggctct---tctgccaggtgtcccc------atgggcagagttcaat-aggaaaccagagggctcaggagtcccgagtgcctcactgagctaagaccagggtcgagaa-gggctgagagtgga---------------tctaggagtagcaaactgaggattcctagGATAGATATGTCACACTTTTTCTTTTAAATCCATAGCACCTGGCTTGATGGGTGTCAGCAACCAGCTGTCTGATTAGGAAAATGCTCTTGGCA--GCTCGGTGTCCCTTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5195959 547 +  26952557 AAGCTCATTTTAGGCAGAAATGTGAtgtcagttaggg-cattaacaggatggcacatgcaaactaggattgttcaaggagggtcaaataaaggaaatgttcagaaaagggcgggcaaggtaaaagaagaatggagggg----gtggtgcagcatcctggg-ata--aatagagga--gctttt-accaccc-taagctcaaagaaagcctgaggaggACAGTCCTGCAGAGG-GGCTTAGTGAGCCC----TCACagacacc-agacagaggagggtgggccaaagggggagacacagtgctcttttcccttctttggctct---tctgccaggtgtcccc------atgggcagagttcaat-aggaaaccagagggcttaggagtcccgagtgcctcactgagctaagagcagggtcgagaa-gggctgagagtgga---------------tctaggagtagcaaactgaggattcctagcataGATATGTCACACTTTTTCTTTTAAATCCATAGCACCTGGCTTGATGGGCGTCAGCAACCAGCTGTCTGATTAGGAGAATGCTCTTGGCA--TCTCGGTGTCCCTTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28303761 547 +  82825804 AAGCTCATTTTAGGCAGAAATGTGAtgtcagttaggg-cattaacaggatggcacatgcaaactaggattgttcaaggagggtcaaataaaggaaatgttcagaaaagggtgggcaaggtaaaagaagactggagggg----gtggtacagcatcctggg-ata--aatagagga--gctttt-accaccc-taagctcaaagaaagcctgaggaggACAGTCCTGCAGAGG-GGCTTAGTGACCCC----TCACAGACACC-AGACAGAGGAGGGTGGGCCAAAGGGGGAGACACAGTGctcttttcccttctttggctct---tctgccaggtgtcccc------atgggcagagttcaat-aggaaaccagagggctcaggagtcccgagtgcctcactgagctgagagcagggtcgagaa-gggctgagagtgga---------------tctaggagtagcaaactgaggattcctagcataGATATGTCACCCATTTTCTTTTAAATCCATAGCACCTGGCTTGATGGGCGTCAGCAACCAGCTGTTTGATTAGGAGAATGCTCTTGGCA--GCTCGGTGTCCCTTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3967873 548 -   4237731 AAGCTCATTTTAGGCAGAAATGTGAtgtcagttaggg-cattaacaggatggcacatgcaaactaggattgttcaaggagggtcaaataaaggaaatgttcagaaaagggcggacaaggtaaaagaagaatggagggg----gtggtgcagcatcctggg-ata--aatagagga--gtttttaaccaccc-taagctcaaagaaagcctgaggaggACAGTCCTGCAGAGG-GGCTTAGTGAGCCC----TCACAGACACC-AGACAGAGGAGGGTGGGCCAAAGAGGGAGACACAGTGctcttttcccttctttggctct---tctgccaggtgtcccc------atgggcagagttcaat-agaaaaccagagggctcaggagtcccgagtgcctcactgagctaagagcagggtcgagaa-gggctgagagtgga---------------tctaggagtagcaaactgaggattcctagcataGATATGTCACACTTTTTCTTTTAAATCCATAGCACCTGGCTTGATGGGCGTCAGCAACCAGCTGTCTGATTAGGAGAATGCTCTTGGCA--GCTCGGTGTCCCTTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      238381 547 -   1175262 AAGCTCATTTTAGGCAGAAATGTGAtgtcagttaggg-cactaacaggatggcacgtgcaaactaggattgttcaaggagggtcaaataaaggaaatgttcagaaaagggcgggcaaggtgaaagaagactggagggg----gtggtgtagcatcctggg-ata--aatagaggg--gctttt-accaccc-tgagctcaaagAAAGCCTGAGGAAGAGAATCCTGCAGAGG-GGCTTAGTGACCCC----TCACAGACACC-AGACAGAGGAGGGTGGGCCAAAGCGGGAGACACAGTGCTCTTTTCCCTTCTTTGGCTCT---TCTGCCAGGTGTCTCC------ATGGGCAGAGTTCAAT-AGGAACCCAGAGGGCTCAGGAGTCCCGAGTAcctcactgagctaagagcagggtcgagaa-gggctgagagtgga---------------tctaggagtagcaaactgaggattcctagcataGCTATGTCACACTTTTTCTTTTAAATCCATAGCACCTGGCTTGATGGGCATCAGCAACCAGCTGTTTGATTAAGAGAATGCTCTTGGCA--GCTCAGGGTCCCTTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123571922 532 - 204313951 AAGCTCATTTTAGGCAGAAATACGAtgtcagttagcg-ccctaacaggatggcacatgcaaact-----------aggagggttaa--aaaggaagtgttcagaaaagggcaggcagggtgaaagaaggctgcagggg----atggtgcaaaactcccag-ata--aatagaggg--gctgtt-aacaccc-taggctcaaagaaagcatgatgaggagagtcctggagaga-gccttagTGGCCCC----TCACAGACACC-AGATAGAGGAGGGTGGGCCAAAGAGGGAGAGACAGTGctcttttcccttctttggctct---cctgccaggcgtcccc------atgggcagagttcatc-aggaagccagatgactcagaagtcctgcgtgcctcaatgagctgagagcaggattgagaa-gggctgagagtgga---------------tctgggagtagcaaactgaggattcctagcataGATATGTCACACTTTTTCTTTTAAATCCATAGCACCTTGCTTGATGGACGTCAGCAACCAGCTGTTTGATT--GAGAATGCTCTTGGCA--GCTCAGTGTCTCTTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55627498 531 -  71252344 AAGCTCATTTTAGGCAGAAATATGAtgtcagttaggg-ctctaacaggacggcacgtgcaaact-----------aggagggttaa--aaaggaaatgttcagaaaagggcaggcagggtgaaagaaggctgcagggg----atggtgcaaaactcccag-gta--aatagaggg--gctgtt-aacaccc-taggctcaaagAAAGCCTGATGAGGAGAGTCCTGGAGAGA-GCCTTAGTGGCCCC----TCGCAGACGCC-AGATAGAGGAGAGTGGGCCAAAGAGGGAGAGACAGTGctctcttcc---ctttggctct---cctggcaggcatcccc------gtgggcagagttcaat-aggaagccagaggactcaggactcctgagtgcctctctgagctgagagcaggattgagaa-gggctgagagtgga---------------tctgggagtagcaaactgaggattcctagcataGATATGTCACACTTTTTCTTTTAAATCCATAGCACCTGGCTTGATGGGTGTTAGCAACTAGCTGTTTGATTAAGAGAATGCTCTTGGCA--GCTCAGTGTCTCTTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1321754 534 -   1400280 AAGCTCGTTTTAGGCAGAAATACAgtgtcagttaggg-ccctaacaggatggcacatgcaaact-----------aggagggttaa--aaaggaagtgttcagaaaagggcaggcagggcaaaagaaggctgcagggg----atggtgcaaaactcccag-ata--aatagaggg--gctgtt-aacaccc-taggctcaaagaaagcctgacgaggagagTCCTGGAGAGA-GCCTTAGTGGCCCC----TCACAGACGCC-AGATAGAGGAGGGTGGGCCAAAGAGGGAGAGACAGTGTtctcttcccttctttggctct---cctgccaggcatgccc------gtgggcagagttcaat-aggaagccagaggactcaggagtcccgagtgcctcgctgagctgagagcaggattgagaa-gggctgagagtgga---------------tctgggagtagcaaactgaggattcctagcataGATATGTCACACTTTTTCCTTTAAATCCATAGCACCTGGCTTGATGGATGTCAGCAACCAGCTGTTTGATTAAGAGAGTGCTCTTGGCA--GCTCAGTGTCTCTTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13114979 534 -  42888418 AAGCTCATTTTAGGCAGAAATATGAtgtcagttaggg-ccctaacaggatggcacatgcaaact-----------aggagggttaa--aaaggaagtgttcagaaaagggcagtcagggtgaaagaaggctgcaggag----atggtgcaaaactcccag-ata--aatagaggg--gctttt-aacaccc-taggctcaaggAAAGCCTGAAGAAGAGAGTCCTGGAGAGA-GCCTTAGTGGCCCC----TCACAGATGCC-AGATAGAAGAGGATGGGCcaaagagggagagacagtgctctcttcccttctttggctct---cctgccaggcatcccc------ttgggcagagttcaat-aggaagccagaggactcaggagtcctgagtgcctcgctgagcagagagcagggttgagaa-gggctgagagtgga---------------tctgggagcagcatactgaggattcctagcataGATATGTCACACTTTTTCTTTTAAATCCATAGCACCTGGCTTGATGGACATAAGCAACCAGCTGTTTGATTAAGAGGATGCTCTTGGCA--GCTCGGTGTCTCTTC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           2997631 537 +   4132165 AAGCTGATTTTGGGCAGGGGTATtatgtcaggcaggg-ccccagcagaatggcaccttcaaaccaggagaattcaagaactgttttat-aaggaatggttcagaaaggtgtgggcaggttggaaggagaccacaaggg----gtggtagagcaccctggg-ata--aatagaggg--gctatt-gccaccc-taggctcaaagaaagccagaggtcgggagtcccagaggga-gGCTCAGTGCCACCTGCATCACAGAGGCC-AGACAGAG--GTGCAGGCTGAGGAG--------AGTTCTCTCTACCCTTCCATGGCCCT---TCCCTCAGGCCTTCCCCTCCCTGTAGGCTGAGTCCACT-GCAAAGCCAGAGAGGTCAGGAGTCTGGGGAGCCCC-TTGAACTGAG-GCAGGATGGAAAA-GGGCTAAGAGTGGG---------------TTAGAG------AAACTGAGGCCCCCCAGCAGAGGTGTGTTACCCTTTCTCTTTTATATCCTCAGCCCCTGGCCTAAAAGGCCTCAGTAACCAGCTATTTGATTAAGAGGCTGCTCGTGGCA--TCTCCTTGGCCCTG-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55467704 535 +  90702639 AAGCTCATTTGGGTCAGGGAGACTTTGTCAATCAGGA-TCCTTATAGG-CATCACACATTAAATAGGAGGGTTCAAGAATGTTTTGATAGAGGAA--GTTTAGAAAGGTGTGGACAGAAGGCTGTGAAGGCAAAGGGGACATATGGTGCTG---CCTAAT-ATG--AACAGAGG---GTTGTT-ACTAACC------------GGATCCAGAGAAAGAGAAGCCTGAACAAG----CTAGTGACCTT----TCACAG--GAt-aaatgctggacgggctgctgggagggaagttctggaactttcttctcCTTTTTTGTTCTTTGTCCTCCTTGCTGCCTT------ATCAAATGATTTGATTGATCTTTCCAGCAGACTGAGGATCCTGGAAAACCTCA-TGGGCCGAGGACAGAGCTTAGAA-GGCCTGAGGTTAGAAGGCCTGAGGTTAGGTCTGGGAGATGTGCCCTTAGGATCTCCAGCTCAAACACAGCGC----CTTCTCTTAGATCCATAGCACCTGGCT------GTCTGAGTAAGTAGCTCTGTGATGAAGAATGTCCTC-TGACA--TCTCCATAGCTTTTT
i mm10.chr18               I 834 C 0
s canFam3.chr11             14863807 514 +  74389097 -AGCTCATTTTTG-CAGGGATATCATGTCCACcgggg-tcttaacaagacgccgcactcaaactgggatagttcaaagaagctttaaagaaga--------agaaagatgtgggcaaggtgtaaggagatcacaggga----atggtagagtg-cccagg-ata--attagagagctactgtc-accacct-taggctccaggaaagctgcaaga--agagtcctggagcCTCTGCTCTGTGACCTT----TC-----CACCTGGTCAGTTGAAAATGGGCCAGAGAGGGGGAGAGAG---TTTTATTACTTTGCTGTCCTt---cctgccctggaactcc------acgggctgagcccaagggggaagccagagggctcccaa-tccccagaggctctcagagcagagagcagggttgtgaa-gggc--agagtgga----------------ccgggagaggcaaacagaagaccctcagcaGAGACACATTACCTTTCCTCTCTTAAATCCATAGCACCTGGCC---------TCAGCAACAAGCTGTTTGA----GAGGTTGCTCTTGGCA--TCTCAGTGACTCTTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2555639 514 +   3667625 ---ACTATTTTTGGAAATATTATGG-Gtcagtgagggttcctaatggtatgacacactcaaattaggattgttcaagacgggtttaataaaagaggtcttgacaaagctgtgggcaaagcataaggaaaccacacggg----gttgtgcagcatccaggg-acagtaactgaggg--gctatt-atcaccctttggctcaaaggaagccagagtaagagagTCCTGTGGGCA-GGCTTTGTGACCTT----GCCTAGAGGCC-AGCCCAATGGGAATTGG--------GAGTAAATATCCCCATCTTCCTCTCT-----TCT---CTTTCTTGGGTTCTCC---------------------T-A-----TCAGAGGGCTCTGGGGCCCC-CGAGTCTCCCTGTACAGAGAAAAGGGTTGAGAAGGGGCTGAGAGCAGA---------------CCTGGGAGTGACAAACTGAGGCTCTCCAGCTCAGATGCATAACCC--TTTGCTTTCACTCCACAGCACCTGGCTCAATAGGCCTCACCAACCAGCTATTTGATTAACAGACTGCTCTTGGTGTCTCTCGGTGGCTCTTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60487077 569 + 108143057 I
e proCoq1.NW_012155062v1     3517079 608 +  11683526 I

a score=416381.000000
s hg38.chr5_KI270796v1_alt     13939 29 +    172708 TTCCTTATATGTATAGTAGTGATGCACTG
s panTro5.chr5             125124031 29 + 181907262 TTCCTTATCTGTATAGTAGTGATGCACTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126461010 29 + 183735486 TTCCTTATCTGTATAGTAGTGATGCACTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1652547 29 +   8933513 TTCCTTATCCGTATAGTAGTGATGCACTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139783526 29 + 163208435 TTCCTTATCCGTATAGTAGTGATGCACTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122769196 29 + 180051392 TTCCTTATCTGTATAGTAGTGATGCACTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124192867 29 + 181584905 TTCCTTATCTGTATAGTAGTGATGCACTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16190394 29 +  18395747 TTCCTTATCTGTATAGTAGTGATGCACTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5196506 29 +  26952557 TTCCTTATCTGTATAGTAGTGATGCACTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28304308 29 +  82825804 TTCCTTATCTATATAGTAGTGATGCACTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3968421 29 -   4237731 TTCCTTATCTGTATAGTAGTGATGCACTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      238928 29 -   1175262 TTCCTTATCTGTATAGTAGTGATGCACTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123572454 29 - 204313951 TTCCTTATCTGTATAGTAGTAATGCACTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55628029 29 -  71252344 TTCCTTATCTGCATAGTAGTATTGCACTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1322288 29 -   1400280 TTCCTTATCTGTGTAGTAGTAATGCGCTG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13115513 29 -  42888418 TTCCTTATCTGTATAGTAGTAATGCACTG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60487646 29 + 108143057 TTCCTTATCTGTGTGGCAGTGATGCACCT
i micMur3.chr12            I 569 C 0
s otoGar3.GL873679           2998168 29 +   4132165 TTCCTTATCTGTATGGGTGTGATGCACCT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55468239 24 +  90702639 ---CTTCCCAGTGTAGTAATGGTACCC--
i mm10.chr18               C 0 C 0
s canFam3.chr11             14864321 29 +  74389097 TTCCTTATCTGTATAGTAGCACTGCACCT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2556153 28 +   3667625 GCCTTTATCTGTGTACTAA-AATACTCCT
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3517079 608 +  11683526 I

a score=20256751.000000
s hg38.chr5_KI270796v1_alt     13968 1210 +    172708 GCCTACTTCCAGTCCCCACAGGAAGGGAG-TGGTTTATATCTGTTTGAGG------------TGCCCTAAAAGTACCTGACTACAGGAATGATTTTAAAATATAATTTAAACTGAAGCAATAATAGATCCCTAAAAGCTCTGATCAAGAGTCCTAAATAAATTCACCTTCTGTAATTGCCAGT--ACATGTCTATGTCCTAAACTTTATGGACCAACTCCAGCATCCTGGAGTTTACATCCCTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCTAATAACATACTTCTCAACATCAGGCAGGTCCCGGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGTATCTGATGGTAGTAAACACAGATGTGCCTGCCAGGACATTAACTGCTTAGCAGGTTGACGTAACTGACTTCCCTATGTTCAACAAAGCTTTGTAGTCCCTGAGATGCTACTGCCTGGGTTTAATGATTGCCATGTTCCCCATCCACTCTTTGGCGAAGGAGTTTCTGCAGCATTTGATGCAGTGCTTCAGCTCAGTGTTAATTATGAGATCAGCTCAATGCCTGTGATTTAGAGGCTAGACTCAGAACC-CTTTCAGTAATTCAGTTCCCGTAAGTC-TGTGTTATTGGCTCCTGAATGCACTTGCTTAAGCTAATT-A-AAAAATAAGCTGAAGAAATTCATTTCTTATGCAAAATTAAATCTGGTGTACACGCTGAATATTGCACCTTGTCATGTTCATTTCTA-GCTCAATTCTGCCTTTTACTGCACACTTTGCAGCTTGAGAATTACCATTTAAAGCAAATGTTTGGATT-TTGAAGAAACAGATTTGGC------CCTTTTGAA---------------AATGTTTGGCTGTAAAACAACTTTGATATAAAGTATCAAAATAA--AAAAATA------------T-TCTTAATGTTTCTTTTGTGGCATTATCAGTCAACCGACATCATCATGAGGCTGAC-ATATTGATAGTCTAATGGTGAAATGGGAATCATCCTTCAAA-----TAACATGTCCTTTGCATT-AGAAAATAGCATTGGTGGACCTGA-TAGGCA----TGAGATATCAGCATTGATAACTTGATGAATGGGGACTGTGATCTCTACCCTGTCCTCCCCAGTCTACCT-AATACCAACGTCATGGATATATTTGCAG--TGCAGGTTGATAAAAT-TAAGAGCAGGCTTTTGCAAGAAAC-AAAG-CTTTGTTAGCTTTT--------TAATCCGATCAAAC-AAATACATAAA
s panTro5.chr5             125124060 1210 + 181907262 GCCTGCTTCCAGTCCCCACAGGAAGGTAG-TGGTTTATATCTGTTTGAGG------------TGCCCTAAAAGTACCTGACTACAGGAATGATTTTAAAATATAATTTAAACTGAAGCAATAATAGATCCCTAAAAGCTCTGATCAAGAGTCCTAAATAAATTCACCTTCTGTAATTGCCAGT--ACATGTCTATGTCCTAAACTTTATGGACCAACTCCAGCATCCTGGAGTTTACATCCCTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCTAATAACATACTTCTCAACATCAGGCAGGTCCCAGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGTATCTGATGGTAGTAAACACAGATGTGCCTGCCAGGACATTAACTGCTTAGCAGGTTGACGTAACTGACTTCCCTATGTTCAACAAAGCTTTGTAGTCCCTGAGATGCTACTGCCTGGGTTTAATGATTGCCATGTTCCCCATCCACTCTTTGGCGAAGGAGTTTCTGCAGCATTTGATGCAGTGCTTCAGCTCAGTGTTAATTATGAGATCAGCTCAATGCCTGTGATTTAGAGGCTAGACTCAGAACC-CTTTCAGTAATTCAGTTCCCGTAAGTC-TGTGTTATTGGCTCCTGAATGCACTTGCTTAAGCTAATT-A-AAAAATAAGCTGAAGAAATTCATTTCTTATGCAAAATTAAATCTGGTATACACGCTGAATATTGCACCTCGTCATGTTCGTTTCTA-GCTCAATTCTGCCTTTTACTGAACAGTTTGCAGCTTGAGAATTACCATTTAAAGCAAATGTTTGGATT-TTGAAGAAACAGATTTGGC------CCTTTTGAA---------------AATGTTTGGCTGTAAAACAACTTTGATATAAAGTATCAAAATAA--AAAAATA------------T-TCTCAATGTTTCTTTTGTGGCATTATCAGTCAACCGACATCATCATGAGGCTGAC-ATATTGATAGTCTAATGGTGAAATGGGAATCATCCTTCAAA-----TAACATGTCCTTTGCATT-AGAAAATAGCATTGGTGGACCTGA-TAGGCA----TGAGATATCAGCATTGATAACTTGATGAATGGGGACTGTGATCTCTACCCTGTCCTCCCCAGTCTACCT-AATACCAGTGTCATGGATATATTTGCAG--TGCAGGTTGATAAAAT-TAAGAGCAGCCTTTTGCAGAAAAC-AAAG-CTTTGTTAGCTTTT--------TAATACGATcaaac-aaatacataaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126461039 1210 + 183735486 GCCTGCTTCCAGTCCCCACAGGAAGGTAG-TGGTTTATATCTGTTTGAGG------------TGCCCTAAAAGTACCTGACTACAGGAATGATTTTAAAATATAATTTAAACTGAAGCAATAATAGATCCCTAAAAGCTCTGATCAAGAGTCCTAAATAAATTCACCTTCTGTAATTGCCAGT--ACATGTCTATGTCCTAAACTTTATGGACCAACTCCAGCATCCTGGAGTTTACATCCCTCCTTGATCAGTCTTCAGTAAGGAATTTACTTCTCTAATAACATACTTCTCAACATCAGGCAGGTCCCAGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGTATCTGATGGTAGTAAACACAGATGTGCCTGCCAGGACATTAACTGCTTAGCAGGTTGACGTAACTGACTTCCCTATGTTCAACAAAGCTTTGTAGTCCCTGAGATGCTACTGCCTGGGTTTAATGATTGCCATGTTCCCCATCCACTCTTTGGCGAAGGAGTTTCTGCAGCATTTGATGCAGTGCTTCAGCTCAGTGTTAATTATGAGATCAGCTCAATGCCTGTGATTTAGAGGCTAGACTCAGAACC-CTTTCAGTAATTCAGTTCCCGTAAGTC-TGTGTTATTGGCTCCTGAATGCACTTGCTTAAGCTAATT-A-AAAAATAAGCTGAAGAAATTCATTTCTTATGCAAAATTAAATCTGGTATACACGCTGAATATTGCACCTCGTCATGTTCGTTTCTA-GCTCAATTCTGCCTTTTACTGAACAGTTTGCAGCTTGAGAATTACCATTTAAAGCAAATGTTTGGATT-TTGAAGAAACAGATTTGGC------CCTTTTGAA---------------AATGTTTGGCTGTAAAACAACTTTGATATAAAGTATCAAAATAA--AAAAATA------------T-TCTCAATGTTTCTTTTGTGGCATTATCAGTCAACCGACATCATCATGAGGCTGAC-ATATTGATAGTCTAATGGTGAAATGGGAATCATCCTTCAAA-----TAACATGTCCTTTGCATT-AGAAAATAGCATTGGTGGACCTGA-TAGGCA----TGAGATATCAGCATTGATAACTTGATGAATGGGGACTGTGATCTCTACCCTGTCCTCCCCAGTCTACCT-AATACCAGTGTCATGGATATATTTGCAG--TGCAGGTTGATAAAAT-TAAGAGCAGCCTTTTGCAGAAAAC-AAAG-CTTTGTTAGCTTTT--------TAATACGATCAAAC-AAATACATAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1652576 1207 +   8933513 GCCTACTTCCAGTCCCCACAGGAAGGGAG-TGGTTTATATCTGTTTGAGG------------TGCCCTAAAAGTACCTGACTACAGGAATGATTTTAAAATATAATTTAAACTGAAGCAATAATAGATCCCTAAAAGCTCTGATCAAGAGTCCTAAATAAATTCACCTTCTGTAATTGCCAGT--ACATGTCTATGTCCTAAACTTTATGGACCAACTCCAGCATCCTGGAGTTTACATCCCTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCTAATAACATACTTCTCAACATCAGGCAGGTCCCAGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGTATCTGATGGTAGTAAACACAGATGTGCCTGCCAGGACATTAACTGCTTAGCAGGTTGACGTAACTGACTTCCCTATGTTCAACAAAGCTTTGTAGTCCCTGAGATGCTACTGCCTGGGTTTAATGATTGCCATGTTCCCCATCCACTCTTTGGCGAAGGAGTTTCTGCAGCATTTGATGCAGTGCTTCAGCTCAGTGTTAATTATGAGATCAGCTCAATGCCTGTGATTTAGAGGCTAGACTCAGAACC-CTTTCAGTAATTCAGTTCCCGTAAGTC-TGTGTTATTGGCTCCTGAATGCACTTGCTTAAGCTAATT-A-AAAAATAAGCTGAAGAAATTCATTTCTTATGCAAAATTAAATCTGGTATACACGCTGAATATTGCACCTTGTCATGTTCATTTCTA-GCTCAATTCTGCCTTTTACTGCACACTTTGCAGCTTGAGAATTACGATTTAAAGCAAATGTTTGGATT-TTGAAGAAACAGATTTGGC------CCTTTTGAA---------------AATGTTTGGCTGTAAAACAACTTTGATATAAAGTATCAAAATAA--AAAAATA------------T-TCTTAATGTTTCTTTTGTGGCATTATCAGTCAACGGACATCATCATGAGGCTGAC-ATATTGATAGTCTAATGGTGAAATGGGAATCATCCTTCAAA-----TAACATGTCCTTTGCATT-AGAAAATAGCATTGGTGGACCTGA-TAGGCA----TGAGATATCAGCACTGATAACTTGATGAATGGGAACTGTGATCTCTACCCTGTCCTCCCCAGTCTACCT-AATACCAATGTCATGGATATATTTGCAG--TGCAGGTTGATAAAAT-TAAGAGCAGCCTTTTGCAAGAAAC-AAAG-CTTTGTTAGCTTTT--------TAATACGATcaaac-aaatacat---
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139783555 1210 + 163208435 GCCTGCTTCCAGTCCCCACAGGAAAGGAG-TGGTTTATATCTGTTTGAGG------------TGCCCTAAAAGTACCTGACTACGGGAATAATTTTAAAATATAATTTAAACCGAACCAATAATAGATCCCTAAAAGCTCTGATCAAGAGTCCTAAATAAATTCACCTTCTGTAATTGCCAGT--ACATGTCTATGTCCTAAATTTTATGGACCAACTCCAGGATCCTGGAGTTTACATCCCTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCCAATAACATACTTCCCAACATCAGGCAGGTCCCAGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGTATCTGATGGTAGTAAACACAGATGTGCCTGCCAGGACATTAACTGCTTAGCAGGTTGATGTAACTGACTTCCCTACCTTCAACAAAGCTTTCTAGTCCCTGAGATGCTACTGCTTGGGTTTAATGATTGCCGTGTTCCCCATCCACTCTTTGGCGAAGGTGTTTCTGCAGCATTTGATGCAGTGCTTCAGCTCAGTGTTAATTATGAGATCAGCTCAATGCCTGTGATTTAGAGGCTAGGCTCAGAAAC-CTTTCAGTAATTCAGTTCCCGTAAGTC-TGTGTTATTGGCTCCTGAATGCACTTGCTTAAGCTAATT-A-AAAAATAAACTGAAGAAATTCATTTCTTATGCAAAATTAAATCTGGTATACACGCTGAATATTGCACCTTGTCATGTTCATTTCTA-GCTCAATTCTGCCTTTTACTGCACACTTTGCAGCTTGAGAATTACCATTTAAAGCAAATGTTTGGATT-CTGAAGAAACAGATTTGGC------CCTTTTGAA---------------AATGTTTGGCTGTAAAACAACTTTGATATAAAGTATCAAAATAA--AAAAATA------------T-TCTTAATGTTTCTTTTGTGGCATTATCAGTCAACCGACATCATCATGAGGCTGAC-ATGTTGATAGTCCAATGGTGAAATGGGAATCATCCTTCAAA-----TAACATGTCCTTTGCCTT-AGAAAATGGCATTGGTGGACCTGA-TAGGCA----TGAGATATCAGCATTGATAACTTGATGAATGGGTACTGTGATCTCTACCCTGTCCTCCCCAGTCTACCT-AATACCAATGTCACGGATATATGTGCAG--TGCAGGTTGATAAAAT-TAAGAGCAGGCTTTTGCAAGAAAC-AAAG-CTTTGTTAGCTTTT--------TAATGCAATCGAAC-AAATACATAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122769225 1194 + 180051392 GCCTGCTTCCAGTCCCCACAGGAAAGGAG-TGGTTTATATCTGTTTGAGG------------TGCCCTAAAAGAACCTGACTGCAGGAATGATTTTAAAAC-TAATTTAAATCAAAGCAATAATAGATCCCTAAAAGCTCTGATCAAGAGTCCTAAATAAATTCACCTTCTGTAATTGCCAGT--ACATGTCTATGTCCTAAACTTTATGGACCAACTCCAGCATCCCGGAGTTTACATCCTTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCTAAT---ATACTTCCCAACATCAGGCAAGTCCCAGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGTATCTGATGGTAGTAAACACAGATGTGTCTGCCAGGACATTAACTGCTTAGCAGGTTGATGTAACTGACTTCCTCACGTTCAACGAAGCTTTGTAGTCCCTGAGATGCTACTGCCCGGGTATAATGATTGCCGTGTTCCCCATCCACTCTTTGGCGAAGGTGTTTCTACAGCATTTGATGCAGTACTTCAGCTCAGTGTTAATTATGAGATCAGCTCAAGGCCTGTGATTTAGAGGCTGGGCTCCGAATC-CTTTCAGTAATTCAGTTCCCGTAAGTC-TGTGTTATTGGCTCCTGAATGCACTTGCTTAAACTAATT-A-AAAAATAAGCTAAAGAAATTCATTTCTTATGCAAAATTAAATCTGGTATACATGCTGAATATTGCACCTTGTCATGTTCATTTCTA-GCTCAATTCTGCCTTTTACTGCACACTTTGCAGCTTGAGAATTCCCATTTAAAGCAAATGTTTGGATT-TTGAAGAAACAGATTTGGC------CCTTTTGAA---------------AATGTCTGGCTATGAAACAACTTTGATATAAAGTATCAAAGTAA--AAAAATA------------T-TCTTAATGTTTCTTTTGTGGCATTATCAGTCAACTGACATCATTATGTGGCTGAT-ATATTGATAGTCTAATGGTGAAACGGGAATCATCCTTCAAA-----TAACGTGTCCTTTGCCTT-AGAAAATGGCACTGGTGGACCTGA-TAGGCA----TGAGATATCAGCATTGATAACTTGATGAATGAGGACTGTGATCTCTACCCT----------GTCTGCCT-AATACCAATGTCATGGATATATCTGCAG--TGCAGGTTGATAAAAT-TAAGAGCAGGCTTTTGCAAGAAAC-AAAG-CTTCATTAGCTTTC--------TAATacaatcaaac-aaatacatg--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124192896 1194 + 181584905 GCCTGCTTCCAGTCCCCACAGGAAAGGAG-TGGTTTATATCTGTTTGAGG------------TGCCCTAAAAGAACCTGACTACAGGAATGATTTTAAAAC-TAATTTAAATCAAAGCAATAATAGATCCCTAAAAGCTCTGATCAAGAGTCCTAAATAAATTCACCTTCTGTAATTGCCAGT--ACATGTCTATGTCCTAAACTTTATGGACCAACTCCAGCATCCCGGAGTTTACATCCTTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCTAAT---ATACTTCCCAACATCAGGCAAGTCCCAGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGTATCTGATGGTAGTAAACACAGATGTGTCTGCCAGGACATTAACTGCTTAGCAGGTTGATGTAACTGACTTCCTCACGTTCAACGAAGCTTTGTAGTCCCTGAGATGCTACTGCCCGGGTATAATGATTGCCGTGTTCCCCATCCACTCTTTGGCGAAGGTGTTTCTACAGCATTTGATGCAGTACTTCAGCTCAGTGTTAATTATGAGATCAGCTCAAGGCCTGTGATTTAGAGGCTGGGCTCCGAATC-CTTTCAGTAATTCAGTTCCCGTAAGTC-TGTGTTATTGGCTCCTGAATGCACTTGCTTAAACTAATT-A-AAAAATAAGCTAAAGAAATTCATTTCTTATGCAAAATTAAATCTGGTATACATGCTGAATATTGCACCTTGTCATGTTCATTTCTA-GCTCAATTCTGCCTTTTACTGCACACTTTGCAGCTTGAGAATTCCCATTTAAAGCAAATGTTTGGATT-TTGAAGAAACAGATTTGGC------CCTTTTGAA---------------AATGTCTGACTATGAAACAACTTTGATATAAAGTATCAAAGTAA--AAAAATA------------T-TCTTAATGTTTCTTTTGTGGCATTATCAGTCAACTGACATCATTATGTGGCTGAT-ATATTGATAGTCTAATGGTGAAACGGGAATCATCCTTCAAA-----TAACGTGTCCTTTGCCTT-AGAAAATGGCACTGGTGGACCTGA-TAGGCA----TGAGATATCAGCATTGATAACTTGATGAATGAGGACTGTGATCTCTACCCT----------GTCTGCCT-AATACCAATGTCATGGATATATCTGCAG--TGCAGGTTGATAAAAT-TAAGAGCAGGCTTTTGCAAGAAAC-AAAG-CTTCATTAGCTTTC--------TAATacaatcaaac-aaatacatg--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16190423 1193 +  18395747 GCCTGCTTCCAGTCCCCACAGGAAAGGAG-TGGTTTATATCTGTTTGAGG------------TGCCCTAAAAGAACCTGACTACAGGAATGATTTTAAAAC-TAATTTAAATCAAAGCAATAATAGATCCCTAAAAGCTCTGATCAAGAGTCCTAAATAAATTCACCTTCTGTAATTGCCAGT--ACATGTCTATGTCCTAAACTTTATGGACCAACTCCAGCATCCCGGAGTTTACATCCTTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCTAAT---ATACTTCCCAACATCAGGCAAGTCCCAGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGTATCTGATGGTAGTAAACACAGATGTGTCTGCCAGGACATTAACTGGTTAGCAGGTTGATGTAACTGACTTCCTCACGTTCAACGAAGCTTTGTAGTCCCTGAGATGCTACTGCCCGGGTATAATGATTGCCGTGTTCCCCATCCACTCTTTGGCGAAGGTGTTTCTACAGCATTTGATGCAGTACTTCAGCTCAGTGTTAATTATGAGATCAGCTCAAGGCCTGTGATTTAGAGGCTGGGCTCCGAATC-CTTTCAGTAATTCAGTTCCCGTAAGTC-TGTGTTATTGGCTCCTGAATGCACTTGCTTAAGCTAATT-A-AAAAATAAGCTAAAGAAATTCATTTCTTATGCAAAATTAAATCTGGTATACATGCTGAATATTGCACCTTGTCATGTTCATTTCTA-GCTCAATTCTGCCTTTTACTGCACACTTTGCAGCTTGAGAATTCCCATTTAAAGCAAATGTTTGGATT-TTGAAGAAACAGATTTGGC------CCTTTTGAA---------------AATGTCTGACTATGAAACAACTTTGATATAAAGTATCAAAGTAA--AAAAA-A------------T-TCTTAATGTTTCTTTTGTGGCATTATCAGTCAACTGACATCATTATGTGGCTGAT-ATATTGATAGTCTAATGGTGAAACGGGAATCATCCTTCAAA-----TAACGTGTCCTTTGCCTT-AGAAAATGGTACTGGTGGACCTGA-TAGGCA----TGAGATATCAGCATTGATAACTTGATGAATGAGGACTGTGATCTCTACCCT----------GTCTACCT-AATACCAATGTCATGGATATATCTGCAG--TGCAGGTTGATAAAAT-TAAGAGCAGGCTTTTGCAAGAAAC-AAAG-CTTCATTAGCTTTC--------TAATacaatcaaac-aaatacatg--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5196535 1191 +  26952557 GCCTGCTTCCAGTCCCCACAGGAAAGGAG-TGGTTTATATCTGTTTGAGG------------TGCCCTAAAAGAACCTGACTACAGGAATGATTTTAAAAC-TAATTTAAATCAAAGCAATAATAGATCCCTAAAAGCTCTGATCAAGAGTCCTAAATAAATTCAC---CTGTAATTGCCAGT--ACATGTCTATGTCCTAAACTTTATGGACCAACTCCAGCATCCCGGAGTTTACATCCCTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCTAAT---ATACTTCCCAACATCAGGCAAGTCCCAGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGTATCTGATGGTAGTAAACACAGATGTGTCTGCCAGGACATTAACTGCTTAGCAGGTTGATGTAACTGACTTCCTCACGTTCAGCGAAGCTTTGTAGTCCCTGAGATGCTACTGCCCGGGTATAATGATTGCCGTGTTCCCCATCCACTCTTTGGCGAAGGTGTTTCTACAGCATTTGATGCAGTACTTCAGCTCAGTGTTAATTATGAGATCAGCTCAAGGCCTGTGATTTAGAGGCTGGGCTCCGAATC-CTTTCAGTAATTCAGTTCCCGTAAGTC-TGTGTTATTGGCTCCTGAATGCATTTGCTTAAGCTAATT-A-AAAAATAAGCTAAAGAAATTCATTTCCTATGCAAAATTAAATCTGGTATACATGCTGAATATTGCACCTTGTCATGTTCATTTCTA-GCTCAATTCTGCCTTTTACTGCACACTTTGCAGCTTGAGAATTCCCATTTAAAGCAAATGTTTGGATT-TTGAAGAAACAGATTTGGC------CCTTTTGAA---------------AATGTTTGACTATGAAACAACTTTGATATAAAGTGTCAAAGTAA--AAAAATA------------T-TCTTAGTGTTTCTTTTGTGGCATTATCAGTCAACTGACATCATTATGTGGCTGAT-ATATTGATAGTCTAATGGTGAAACGGGAATCATCCTTCAAA-----TAACGTGTCCTTTGCCTT-AGAAAATGGCACTGGTGGACCTGA-TAGGCA----TGAGATATCAGCATTGATAACTTGATGAATGAGGACTGTGATCTCTACCCT----------GTCTACCT-AATACCAATGTCATGGATATATCTGCAG--TGCAGGTTGATAAAAT-TAAGAGCAGGCTTTTGCAAGAAAC-AAAG-CTTCATTAGCTTTC--------TAATacaatcaaac-aaatacatg--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28304337 1200 +  82825804 GCCTGCTTCCAGTCCCCACAGGAAAGGAG-TGGTTTATATCTGTTTGAGG------------TACCCTAAAAGAACGTGACTACAGGAATGATTTTAAAAC-TAATTTAAATCAAAGCAATAATAGATCCCTAAAAGCTCTGATCAAGAGTCCTAAATAAATTCACCTTCTGTAATTGCCAAT--ACATGTCTATGTCCTAAACTTTATGGACCAACTCCAGCATCCCGGAGTTTACATCCCTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCTAAT---ATACTTCCCAACATCAGGCAAGTCCCAGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGTATCTGATGGTAGTAAACACAGATGTGTCTGCCAGGACATTAACTGCTTAGCAGGTTGATGTAACTGACTTCCTCACATTCAACGAAGCTTTGTAGTCCCTGAGATGCTATTGCCCGGGTATAATGATTGCCGTGTTCCCCATCCACTCTTTGGCGAAGGTGTTTCTACAGCATTTGATGCAGTACTTCAGCTCAGTGTTAATTATGAGATCAGCTCAAGGCCTGTGATTTAGAGGCTGGGCTCCGAATC-CTTTCAGTAATTCAGTTCCCGTAAGTC-TGTGTTATTGGCTCCTGAATGCACTTGCTTAAGCTAATT-A-AAAAATAAGCTAAAGAAATTCATTTCTTATGCAAAATTAAATCTGGTATACATGCTGAATATTGCACCTTGTCATGTTCATTTCTA-GCTCAATTCTGCCTTTTACTGCACACTTTGCAGCTTGAGAATTCCCATTTAAAGCAAATGTTTGGATT-TTGAAGAAACAGATTTGGC------CCTTTTGAA---------------AATGTTTGACTGTGAAACAACTTTGATATAAAGTATCAAAGTAA--AAAAACA------------T-TCTTAATGTTTCTTTTGTGGCATTATCAGTCAACTGACATCATTATGAGGCTGAT-ATATTGATGGTCTAATGGTGAAACGGGAATCATCCTTCAAA-----TAACGTGTCCTTTGCCTT-AGAAAATGGCACTGGTGGACCTGA-TAGGCA----TGAGATTGCAGCATTGATAACTTGATGAATGAGGACTGTGATCTCTACCCTGTCCTCCCCAGTCTACCT-AATACCAATGTCATGGATATATCTGCAG--TGCAGGTTGATAAAAT-TAAGAGCAGGTTTTTGCAAGAAAC-AAAG-CTTCATTAGCTTTC--------TAATACAAT----C-AAATATATA--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3968450 1190 -   4237731 GCCTGCTTCCAGTCCCCACAGGAAAGGAG-TGGTTTATATCTGTTTGAGG------------TGCCCTAAAAGAATCTGACTACAGGAATGATTTTAAAAC-TAATTTAAATCAAAGCAATAATAGATCCCTAAAAGCTCTGATCAAGAGTCCTAAATAAATTCACCTTCTGTAATTGCCAGT--ACATGTCTATGTCCTAAACTTTATGGACCAACTCCAGCATCCCGGAGATTACATCCCTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCTAAT---ATACTTCCCAACATCAGGCAAGTCCCAGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGTATCTGATGGTAGTAAACACAGATGTGTCTGCCAGGACATTAACTGCTTAGCAGGTTGATGTAACTGACTTCCTCACGTTCAACGAAGCTTTGTAGTCCCTGAGATGCTACTGCCCGGGTATAATGATTGCCGTGTTCCCCATCCACTCTTTGGCGAAGGTGTTTCTACAGCATTTGATGCAGTACTTCAGCTCAGTGTTAATTATGAGATCAGCTCAAGGCCTGTGATTTAGAGGCTGGGCTCCGAATC-CTTTCAGTAATTCAGTTCCCGTAAGTC-TGTGTTATTGGCTCCTGAATGCACTTGCTTAAGCTAATT-A-AAAAATAAGCTAAAGAAATCCATTTCTTATGCAAAATTAAATCTGGTATACATGCTGAATATTGCACCTTGTCATGTTCATTTCTA-GCTCAATTCTGCCTTTTACTGCACACTTTGCAGCTTGAGAATTCCCATTTAAAGCAAATGTTTGGATT-TTGAAGAAACAGATTTGGC------CCTTTTGAA---------------AATGTTTGACTATGAAACAACTTTGATATAAAGTGTC----TAA--AAAAATA------------T-TCTTAATGTTTCTTTTGTGGCATTATCAGTCAACTGACATCATTATGTGGCTGAT-ATATTGATAGTCTAATGGTGAAATGGGAATCATCCTTCAAA-----TAACGTGTCCTTTGCCTT-AGAAAATGGCACTGGTGGACCTGA-TAGGCA----TGAGATATCAGCATTGATAACTTGATGAATGAGGACTGTGATCTCTACCCT----------GTCTACCT-AATACCAATGTCACGGATATATCTGCAG--TGCAGGTTGATAAAAT-TAAGAGCAGGCTTTTGCAAGAAAC-AAAG-CTTCATTAGCTTTC--------TAATacaatcaaac-aaatacatg--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      238957 1204 -   1175262 GCCTGCTTCTAGTCCCCACGAGAAAGGAG-TGGTTTATATCTGTTTGAGG------------TGCCCTAAAAGAACCTGACTACAGGAATGATTTTAAAAC-TAATTTAAATCAAAGCAATAATAGATTCCTGAAAGCTCTGATCAAGAGTCCTAAATAAATTCACCTTCTGTATTTGCCAGT--ACATGTCTATGTCCTAAACTTTATGGACCAACTCCAGCATCCCGGAGTTTACATCCCTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCTAAT---ATACTTCCCAACATCAGGCAGGTCCCAGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGTATCTGATGGTAGTAAACACAGATGTATCTGCCAGGACATTAACTGCTTAGCAGGTTGATGTAACTGACTTCCTCATGTTCAACAAAGCTTTGTAGTCCCTGAGATGCTACTGCCTGGGTATAATGGTTGCCGTGTTCCCCATCCACTCTTTGGAGAAAGTGTTTCTACAGCATTTGATGCAGTACTTCAGCTCAGTGTTAATTATGAGATCAGCTCAAGGCCTGTGATTTAGAGGCTGGGCTCCGAATC-CTTTCAGTAATTCAGTTCCCATAAGTC-TGTGTTATTGGCTCCTGAATGCACTTGCTTAAGCTAATT-A-AAAAATAAGCTAAAGAAATTCATTTCTTATGCAAAATTAAATCTGGTATACATACTGAATATTGCACCTTGTCATGTTCATTTCTA-GCTCAATTCTGCCTTTTACTGCACACTTTGCAGCTTGAGAATTCCCATTTAAAGCAAATGTTTGGATT-TTGAAGAAACAGATTTGGC------CCTTTTGAA---------------AATGTTTGACTATGAAACAACTTTGATATAAAGTATCAAAGTAA--AAAAATA------------C-TCTTAATGTTTCTTTTGTGGCATTATCAGTCAACCGACATCATTATGAGGCTGAT-GTATTGATAGTCTCATGGTGAAATGGAAATCATCCTTCAAA-----TAACGTGTCCTTTGCCTT-AGAAAATGGCACTGGTGGACCTGA-TAGGCA----TGAGATATCAGCATTGATAACTTGATGAATGAGGACTGTGATCTCTAACCTGTCCTCCCCAGTCTACCT-AATACCAATGTCATGGATATATCTGCAG--TGCAGGTTGATAAAAT-TAAGAGCAGGCTTTTGCAAGAAAC-AAAG-CTTCATTAGCTTTT--------TAATACAATCAAAC-AAATACGTA--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123572483 1206 - 204313951 GCCT-CTTCCAGTCCCCACAGGAAAGGAG-TCGTTTATATCTGTTTGAGG------------TGCCCTAAAAGAATCTGACCACAGGAATGATTTTAAAACATAATTTAAACCGAAGCAGTAATAGACCCCTAAAAGCTCTGATCAAGAGTCCTAAATAAATTCACCCTGTGTAATTGCCAGT--ACATGTCTATGTCCTAAACTTTATGGACCAACTCCAGCATCGTGGAGTTTACATCCCTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCTAATAACACACTTCCTAACATCAGGCAGGTCCCAGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGTATCTGATGGTAGTAAACACAGATGTGCCTGCCAGGACATTAACTGCTTAGCAGGTTGACGTAACTGACTTCCCCACGTTTGACAAAGCTTTGTAGTCCCTGAGATGCTGCTGCCTGGGTATAATGATTGCTGTGTTCCCCATGTACTCTTTGGAGAAGGTGTTTCTGCAGCATTTAATGCAGTGCTTCAGCTCAGTGTTAATTATGAGATGAGCTCAAGGCCTGTGATTTAGAGACTGGGCTCAGAACC-C-TTCAGTAATTCAGTTCCCGTAAGTC-TGTGTTATTGGCTCCTGAATGCACTTGCTTAAGCTAATT-A-AAGAATAAGCTGAAGAAATTCATTTCTTATGCAAAATTAAATCTGGTATACATACTGAATAGTGCACCTTATCTTGTTCATTTCTA-GCTCAATTCTGCCTTTTATGGCACACTTTGCAGCTTGAGAATTCCCATTTAAAGCAAATGTTTGGATT-TTGAAGAAACAGAATTGGC------CCTTTTGAA---------------AATGTTTGCCTATAAAACAACTTTG--ATAAAGTATGAAAGTAT-AAAAAAGA------------T-GTTTAATGTTTCTTTTGTGACATTATCAGTCAGCCGACATCATCATGAGGCTGAC-AAATTGATAATCTAATGGTGAAATGGGAATCATCCTTCAAA-----TAACTTGTCCTTTGTGTT-AGAAAATGGCATTGGTGGATCTGA-TAGGCA----TGAGATATCAGCATCGATAACTTGATGAACAGGGACTGCGATCTCTACCCTGTCC-CACCAGTCTACCT-AATACCAATGTGATGGATATATTGGCAT--TACAGGTTGATAAAAT-TAAGAGCAGGTTTTTGCAAGAAAC-AAAG-CTTCGTTAGCTTTT--------TAATACAAGCAAAC-AAATACGTAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55628058 1206 -  71252344 GCCT-CTTCCAGTCCCCACAGGAAAGGAG-TGGTTTATATCTGTTTGAGG------------TCCCCTAAAAGAATCTGACCACAGGAATGATTTTAAAACATAATTTAAACCGGAGCAATAATAGACCCCTAAAAGCTCTGATCAAGAGTCCTAAATAAATTCACCTTGTGTAATTGCCAGT--ACATGTCTATGTCCTAAACTTTATGGACCAACTCCAGCATCCCGGAGTTTACATCCCTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCCAATAACACACTTCCCAACATCAGGCAGGTCCCAGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGTATCTGATGGTAGTAAACACAGATGTGCCTGCCAGGACATTAACTGCTTAGCAGGTTGATGTAACTGATTTCCCCACGTTCAACAAAGCTTTGTAGTCCCAGGGATGCTACTGCCTGGGTATAATGATTGCTGTGTTCCCCATCTCCTCTTTGGAGAAGGTGTTTCTGCAGCATTTGATACAGTGCTTCAGCTCAGTGTTAATTATGAGATCAGCTCAAGGCCTGTGATTTAGAGGCTGGGCTCAGAACC-C-TTCAGTAATTCAGTTCCCGCAAGTC-TGTGTTATTGGCTCCTGAATGCACTTGCTTAAGCTAATT-A-AAAAATAAGCTGAAGAAATTCATTTCTTATGCAAAATTAAATCTGCTATACACACTGAATAGTGCACCTTGTCATGTTCATTTCTA-GCTCAATTCTGCCTTTTATGGCCCACTTTCCAGCTTGAGAATTCCCATTTAAAGCAAATGTTTGGATT-TTGAAGAAACAGAATTGGC------CCTTTTGAA---------------AATGTTTGGCTATAAAACAACTTTG--ATAAAGTATCAAAGTAT-TAAAAAGA------------C-GTTTAATGTTTCTTTTGCGGCATTATCAGTCAGCCGACATCATCATGAGGCTGAC-AAATTGATAATCTAATGGTGAAATGGGAATCATCCTTCAAA-----TAACTTGTCCTTTGTGTT-AGAAAATGGCGTTGGTGGGTCTGA-TAGGCA----TGGGATATCAGCGTTGA-AAGTTGGTGAACAGGGACGGTGATCTCTACCCTGTCCTCCCCAGTCTACCT-AATAACAATGTGATGGATACATTGGCAG--TACAGGTTGATAAAAT-TAAGAGCAGGTTTTTGCAAAAAAC-AAAG-CTTCGTTAGCTTTT--------TAATGCAAGCAAAC-AAATACATAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1322317 1205 -   1400280 GCCT-CTTCCAGTCCCCACAGGAAAGGAG-TGGTTTATATCTGTTTGAGG------------TGCCCTAAAAGAACCTGACCACAGGAATGATTTTAAAACATAATTTAAACCGGAGCAATAATAGACCCCTAAAAGCTCTGATCAAGAGTCCTAAATAAATTCACCTTGTGTAATTGCCAGT--ACATGTCTATGTCCTAAACTTTATGGACCAACTCCAGCATCCCGGAGTTTACATCCCTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCTAATAACACACTTCCCAACATCAGGCAGGTCCCAGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGGATCTGATGGTAGTAAACACAGATGTGCCTGCCAGGACATTAACTGCTTAGCAGGTTGACGTAGCTGACTTCCCCACGTTCAACAAAGCTTTGTAGTCCCTGAGATGCTACTGGCTGGGTATAATGATTGCTGTGTTCCCCATCTACTCTTTGGAGAAGGTGTTTCTGCAGCATTTGATGCAGTGCTTCAGCTCAGTGTTAATTATGAGATCAGCTCAAGGCCTGTGATTTAGAGGCTGGGCTCAGAACC-C-TTCAGTAATTCAGTTCCCGTAAGTC-TGTGTTATTGGCTCCTGAATGCACTTGCTTAAACTAATT-A-AAAAATAAGCTGAAGAAATTCATTTCTTATGCAAAATTAAATCTGCTATACACACTGAATAGTGCACCTTGTCATGTTCATTTCTA-GCTCAATTCTGCCTTTTATGGCACGCTTTGCAGCTTGAGAATTCCCATTTAAAGCAAATGTTTGGATT-TTGAAGAAACAGAATTGGC------CCTTTTGAA---------------AATGTTTGGCTATAAAACAACTTTG--ATAAAATATCAAAGTAT--AAAAAGA------------T-GCTTAATGTTTCTTTTGTGGCATTATCAGTCAGCCGACATCATCATGAGACTGAC-AAATTGATAATCTAATGGTGAAATGGGAATCATCCTTCAAA-----TAACTTGTCCTTTGTGTT-AGAAAATGGCATTGGTGGGTCTGA-TAGGCA----TGAGATATCAGCATTGA-AACTTGATGAACAGGGACGGCGATCTCTACCCTGTCCTCCACAGACTACTT-AATACCAATGTGACAGATATATTGGCAG--TACAGGTTGATAAAAT-TAAGAGCAGATTTTTGCAAGAAAC-AAAG-CTTCCTTAGCTTTT--------TAATacaagcaaac-aaatatataaa
i cebCap1.NW_016107829v1   C 0 I 37
s aotNan1.NW_018505940v1    13115542 1211 -  42888418 GCCT-CTTCCAGTCCCCACAGGAAAGGAG-TGGTTTATATCTGTTTGAGG------------TGCCCTAAAAGAATCTGACCACAGGAATGATTTTAAAACATAAATTAAACCGAAGCAATAATAGACCCCTAAAAGCTCTGATCAAGAGTCCTAAATAAATTCACCTTGTGTAATTGCCAGT--ACATGTCTATGTCCTAAAGTTTATGGACCAACTCCAGCATCCCGGAGTTTACATCCCTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCTAATAACACACTTCCCAACATCACGCAGGTCCCAGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGTATCTGATGGTAGTAAACACAGATGTGCCTGCCAGGACATTAACTGCTTAGCAGGTTGACGTAACTGACTTCCCCACGTTCAACAAAGCTTTGTAGTCCCTGAGATGCTACTGCCGGGGTATAATGATTGCTGTGTTCCCCATCTACTCTTTGGAGAAGGTGTTTCTGCAGCATTTGATGCAGTGCTTCAGCTCAGTGTTAATTATGAGATCAGCTCAAGGCCTGTGATTTAGAGGCTGGGCTCAGAACC-C-TTCAGTAATTCAGTTCCCGTAAGTC-TGTGTTATTGGCTCCTGAATGCACTTGCTTAAGCTAATT-A-AAAAATAAGCTGAAGAAATTCATTTCTTATGCAAAATTAAATCTGGTATACACACTGAATAGTGCACCTTGTCATGTTCATTTCTA-GCTCAATTCTGCCTTTTATGGCACACTTTGCAGCTTGAGAATTCCCATTTAAAGCAAATGTTTGAATT-TTGAAGAAACAGAATTGGC------CCTTTTGAA---------------AATGTTTGGCTATAAAACAACTTTG--ATGAAGTATCAAAGTAT-AAAAAAGA------------T-GTTTAATTTTTCTTTTGTGGCATTATCAGTCAGCCGACATCATCATGAGGCTGAC-AAATTGGTAATCTAATGGTGAAATGGGAATCATCCTTCAAA-----TAACTTGTCCTTTGTGTT-AGAAAATGGCATTGGTGGATCTGA-TAGATATCAGTGATATATCAGCATTGATAACTTGATGAACAGGGACTGCGATCTCTACCCTGTCCTCCCCAGTCTACCT-AATACCAATGTGATGGATATATGGGCAG--TACAGGTTGATAAAAT-TAAGAGCAGGTTTTTGCAAGAAAC-AAAG-CTTCGTTAGCTTTT--------TAATACGAGCAAAC-AAATATATAAA
i aotNan1.NW_018505940v1   C 0 I 37
s micMur3.chr12             60487675 1206 + 108143057 GCCCACTT-CAGTCCCCGCGGGAAAGGGG-TGGTTTATATCTATT-----------------TGTCCTAACAGAACCTGACTACGGAAGTGATTTTAAAGCATAATTTAAACCAAAGCAATAACAGACTCCTAAAAGCCCTGATCAAGAGCCCCAAATAAATTCACCTTCTGTAATTGCCAGTGCACACGTCTATGTCTTCAACTTTATGAACCAACTCCAGCATCCAGGAGTTTATATCTCTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCTAATAACACACTTCCCAACATCAGGCAGGTCCCAGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGTATGTGATGGCAGTAAACACAGATGTGCCCGACAGGACATTAACTGCTTAGCAGGTTGATGTAACTGACTTCCCCACATTCAGCGAAGCTTTGTAGTCCCTGAGACGCTACTG-CTGGGTATAATGATCGTCGTGTTCCCCATCCGCTCTTTGGTGAAGGTGTTTCTGCAGCAGTTGATGCAGTGCTTCAGCTCGGTGTTAATTATGAGATCAGCTCCAGGCCTGTGATTTAGAGGCTGGGCTCGGAACC-CTCTCAGTAATTCAGTTCCCGTAAGTC-TGTCTTATTGGCTCCTGAATGCACTTGCTTAAGCTAATTAA-AAAAATAAGCTGAAGAAATTCATTTCTTATGCAAAATTAAATCTGGTATACACTCTGAATATTGCACCTTGTCATGTTCATTTTTA-GCTCAATTCTGCCTTTTACTGCTTACTTT-CAGCTTGAGAATTCCCATTTAAAGCAAATGTTTGGATTCTTGAGGAGACCAAATTGGC------CTTTTTGAA---------------AATGTTTGGTTATACACCAACTTTA--ATAAAGAATTAAAGTAT-AGAAAATA------------TAGTTTAATGTTTCCTTTGTAGCATTACTAGTCAACCACTGTCATCATAAGGCTGAT-GAATTGATAGTCTTATGGTGAAATGGGAATCATCCTTTGAA-----TAATGTGTCGTTTGCCTT-AAAAAATGGCCGTGGTGGGCCTGA-CAGGCA----TGTGATGTCAGCTCTGATCACTTGATGAATGGGGCCTGCAATCTCTGCCTTGTCCTATGCAGTCTACCT--ATATCAGTGTCATAGATGTATTTTCAG--TGTAGGCTGAGGAAAT-TAAGAGCAGGCATTTGCAAGACATGAAAG-CTCCGTTAGC-TTC--------TAATACAAGCAAACAAAAGGCATAAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3517687 1206 +  11683526 GCCTGCTTCCAGTCCCCACGAGAAAGGGA-TGGTTTGTGTCTATTTGAGG------------TGCCCTAACAGAACCT-------GAAGTGATTTTAAAGCATAATTTAAACCAAAGCAATAACAGGCCCCTAAAAGCCCTCATCAAGAGCCCTGAATAAATTCACCTTCTGTAATTGTCAGT--ACACGTCTATGTCTTCAACTTTATGAACCAACTCCAGCATTCGGAAGTTTATATCTCTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCTAATAACACACTTCCCTGCATCAGGCAGGTCCCAGAATGACCATCAAACAGAGGCGATGTGAACAGCTGGGAGTATCTGATGGTAGTAAACACAGATGTGCCTGACAGGACATTAACTGCTTAGCAGGTTGATGTAACTGACTTCCCCACATTCAACGAAGCTTTGTAGTCCCTGAGACGCTACTGCCTGGGTGTAATGATTGTTGTGTTCCCCATCCGCTCTTTGGCGAAGGTGTTTCTGCAGCATTTGATGCAGGGCTTCAGCTCAGTGTTAATTATGAGATCAGCTCCAGGCCTGTGATTTAGAGGCTGGGCTCAGAACC-CTCTCAGTAATTCAGTTCCCGTAAGTC-TGTGTTATTGGCTCCTGAATGCACTTGCTTAAGCTAATT-A-AAAAATAAGCTGAAGAAATTCATTTCTTATGCAAAATTAAATCTGGTATACACTCTAAATGTTGCACATTGTCATGTTCATTTCTA-GCTCAGTTCTGCCTTTTACTGCTTACTTTGCAGCTTGAGAATTCCCATTTAAAGCAAATGTTTGGGTTCTTGAGGAGACCGAATTGGC------CTTTTTGAA---------------AATGTTTGGTTATAAACCAACTTTA--GTAAAGTATTAAAGTAT-AGAAAATA------------TTTTTTAATGTTTCTTTTGTAGCATTACTAGTCAACCAATGTCATCATAAGGCTGAT-GGATTGATAGCCTAATGGTGGAATGGGAATCATCCTTTAAA-----TAACGTGTCCTTTGCCTTAAAAAAATGGCCTTGGTGGGCCTGA-CAGGCA----TGTGATATCAGCATTGATCACTTGATGAATGGGGACTGTAATCTCTACCTTGTCCTACGCAGTCTACCT-AATATCAGTGTCACAGATGTATTTTCAG--TGTAGGCTGATGAAAT-TAAGAGCAGGCTTTTGCAAGACACGAAAG-CTCCATTAGCTTTT--------TAATACAAGCAAAC-AAAGGCATAAA
i proCoq1.NW_012155062v1   I 608 C 0
s otoGar3.GL873679           2998197 1179 +   4132165 -GCTGCTTCCAGTCCCCACAGGAAAGGGGATGGTTTATATCTATTTGAGG------------TGCCCTAAAAGAACCTGACTACAGAAGTGATTTTCAAGCATAATTTAAACCAAAGCAATAACAGACCCCGTAAAGCCCTGACCAAGAGCTCTAAATAAATTCACCTTCTGTAATTGCCAAT--ACACATCTATGTCCTCAATTTTATGAACCAACTCCAACATCCCAGAGTTTACATCCCTCCTTGATCAATCTTCAGTAAGGAATTTACTTCTCTAATAACACACTTCCCAACATCAGGCAGGTCCCAGAATGACCATCAAACAGAGGCAATGTGAACAGCTGGGAGTATCTGATAGTAGTAAACACAGATGTGCCTGACAGGACATTAACTGCTTAGCAGGTGGATGTAACTGACTTTCCCACGTCCAACAAAGCTTTGTGGTCCCTGAGACGCTCCGGCCTGGGTACAGCCATTGCTGTGTTCCC--TCTGCTGTCCGGTGAAGGTGTTTCTGAA---------GCAGTGCTGC-GCTCAGTGTGAATTACGAGATCAGCTCCAGGCCTGTGATTTAGAGGCTGGGCTCAGAACCTTTCTCAGTAATTCAGTTCCCGTAAGTC-TGTGTTATTGGCTCCTGAATGCACTTGCTTAAGCTAATT-A-AAAAATGAGCTCAAGAAATCCATTTCTTATGCAAAATTAAATCTGGTTTACACGCTGAATGTTGCACCTTGTCGTGTTCATTTCTA-GCTCAATTCTCCCTTTCACAGCCCGCTTTGAAGCTTGAGAATCCCCACTTAAAGCAAATGTTTGGATTCTTGAAGAGACTGAATTGGC------CTTCTTGAA---------------AATGTTT-GTTATAAA-TGACTTTG--A--------TAAAGCAT-AAGGAAAA------------TTTTTTAATGTTTCTTTTGTAGCATCACCAGTCAACCAATGTCATCATAAGGCTGAC-AAATTGATAGTCTAATGGTGAAACGGGAACCATCCTTCAAA-----TAACCTGTCCTTTGCATC-AGAAAATGGCATGGGTAGACCTGA-TAGGCG----TGTGGTATCAGCATCGATAACTTGAAGAATGGGAACTGTCATCTCTCCCTTGTCCTATGCAGCCTACCT--A-ATCAGTGTTATGGATATATTTGCAG--TGTAGGCTGATGAAAT-TCAGAGC------------------ACAG-CTCCATTAGCTTTCTTAATCTGTAGTATGAGAAAAT-AAATGCATAGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55468263 1186 +  90702639 -----CTACCTGTCCTC---TGAGAAGAA-CAGTTTATATAGACTTGAGGCCACCACCCCCCCCCCAAAAAAAAACCTGACTGCAGGAATGATTTTAAAGCATAATTTAACCCAGAGAAATATTGAAACTCTAAAGAAC----TCAAAAGGCCTCCATAAATCTACCT-GTATAATTGCCAGT--ACATGGTCAGGTCTTCAATTTTATGAACCAACTCCAGCATCCCAGAGTTTACATCCTTCCTTGATCCATCTTCAGGATGGGATTTACTTCTCTAATAACATGCTTCTCGACACCAGGCTGGTCCCGGGATGACCATCCAACAGAGGCAATACAAACAGCTGGGAGGATCTGACAGTAGTGAACACAGAGGTGTCTGGCATGG---TAAGCGCTTAGCAGGTTGATTTACCTAACTTGCCTGAGTTCAGTGAGGCTCTGTGCTCTCTGAGTTGTGACTGCCTGGG--------------AGCTCCCCATCCATTCTATGGTGCAGGTATCTCTGCACCAAAACATACAGCGCTTT-GCTGGGTGTTAATCATGGCATCAACTCAAGGTCTGTGATTTATAGGCCAGGCTCAGAACC-GTTTAGATGATTCAGTTCCCGTAAGTCTTGTGTGGTTAGCCCCTGAATGCACTTGCTTAAGCTAATT-ACAAACAGAAGCCAAAGGAATTCATTTCTGACACAAAATGAGATCTGATGTGCACACTGAGCAGTGTACCTTCCCATGATC-----------CCATTTTGCTCTTCACAGCTCACGTGACAGCTTGAGAAGTCTCACTTAAAGCAAATGCTTAGATTTCTAGAGAGACCGGTCGGGTTGGATACTTCTCCAACCCCCCAACTTCCTTACTTTCTGGGTATACAACAACAGTG--ACAAAGTATTAAAG-AG--AGAAGTA------------T--TTTCCTGTTTCTTTGGCTATACCAT-------CCAATGTTCTAAGGGGTGTGAT----TAAAGAGTCTTACAGTGACATGGGCAGCATCCTTCAGGGACCCGAATCCACACCCGGTATC-AGGATTTAGCACTGCAG--TCTCC-CAAGCA----CGGCAGGTGAGCATGGCTAACTT------CTGGTTATGGAATCTGCATTCT-TCCGTCCCAGTCT-TGT-AATGCTCATGTTTTGCATATGTATATATGCTGTAGGCTGATAAAACACAAACGTCAGGCTTCGTAAGAAGA-AAAG----TGCTGGCCTTA--------TGACACAAGTAGAC-AGACAACTCTA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14864350 1189 +  74389097 GCCTGCTTCCAGTGCCCACAGGAAAGAAA-TGCTTTATATCTATTTGAGG------------TGCCCTAAAAGAACCTGACTACAGGAGTGATTCGAAAGCATAATTTAAACCAAAGCAATAACAGACCCCTAAAATCCCTGATTAAGAGTCCTAAATAAATTCGC-TTCTGTAATTGCCAGT--ACACGTCTGTGTCCTCAACTTTATGAACCAACTCTGGCATCCCAGAGTTTACCTCCCTCCTTGATCAATTCTCAGTAAGGAATTTACTTCTCTAATAACATGCTTCTCAACATCACGCAGGTCCCAGAATGACCATCAAACAGAGACAACGTGAACAGCTGGGACTATCTGATGGTAGTAAACACAGATGTGCCTGACAGGACATTAACTGCTTAGCACGTTGATGTAACTGACTTCCCAATGTTTGGCGAGGCCCTGCAGTCCCTGAGATGCTGCTGCCTGGGTTTAACGATCGCTGCGTTCCCCACCCGCTCTTTGGCAAAGGTGTTTCTGGAGCATTTGATGCAGTGCCTCAGCTTGGTGTTAATTATGGGATCGGCTCAAGGCCTGTGATTTAGAGCCTGGGCTCCGAACC-CTTTCAGTAATTCAGTTCCCGTAAGTC-TGTGTTATTGGCTCCTGAAAGCACTTGCTTAAGCTAATT-A-AAAAATAAGCTGAAGAAATTCATTTCTTATGCAAAATTAAATCTGATATACACACTGAATATTGCACCTTGTCATGTTCATTTCTAGGCTCAATTCTACCTTTTACTGTTTGCTTCGCAGCTTGAGATTTCCCTTTTAAAACAAATGTTTGTATTCTTGAAAAGACAGCTTGG--------CCTTTTGAA---------------AATATTTGGTTATGAAGTAACTTTGATA-AAAGGATTAAAGGAC--AAAAAAAAAAAAAACAACCT-TGTCAATGT----TCTGTGGTGTGATCAGTCAACCAACACCATCGTGCCACTGAC-AAATTGATAGTCTCTTGATGAAACGGGAATGATTCTTCAAA-----TAATCTGTCCTTTGCACA-GGAAAATGGCATTGGTGGACCTGA-TAGGCA----TTAGGTATCAGCAATGATAACTTGATGAGTGGGGACTGTAATCTCTACCCTGTCCTACCCAATCTACCT-AATA--------------------GCAG--TAGAGGTTGATGAAAT-TAAGGGCAGGCTTTCCCAAGAAAC-AAAATCTCCTTTCACTTTT--------CAATGGAAACACAT-GAA--------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2556181 1140 +   3667625 GCTTCCTTGCAGCCCTCACAGGAAAGAAA-TGGTTTCTACCTGTTTGAGG------------TGCCCTCTAAGAACCCAATTGTAGGAA-GATCTTAAAGC------------------ATAACAAACCTCTAAAAAGCCTGACCAAGAATCCTAAA-AAATTCACCTTCTGTAATTGACAGT--ACACATCTATGTACTTAATATTTTGAACCAACTCCAGCATCAGGGAGTTTACATCTCTCCTTGATCAATCTTCAGTAAAGAATTTACTTCTCTAATAATATGCTTCTCAACATCAGGCAGGTCCCAGAATGACCATCAAACAGAGGCAATGAGAACAGCTGGGAGTATCTGATGGAAGTAAACACAGATGTGCCTGACAGGACATTAACTGCTTAACAGGTTGATGTAACTGACTTCCCAACATTCAGCAAGGCTCTGTAGGCCCTGAGATGTTACTGCCTGGGTGTAATGATTGCTGAGTTCCCCATTCACTCTTTGGCAAAGGTGTTCCTGCAGCATTTGATGCACTGCTTCAGCTTGGTGTTAATTATGAGATCAGCTCAATGTCTGTGATTTAGAGGCTGGGCTCAGAACC-CTTTCAGTAATTCAGTTCCCGCAAGTC-TGTGTTATTGGCTCTGGAATGCACTTGCTTAAGCTAATT-A-AAAAATAAGCTGAAGAAATTCATTTCTTATGCAAAATTAAATCTGATATACACTCTGAATATTGCACCTTGTCATGTTCATTTCTA-GCTCAATTCTGCCTTTTACTGCTCACTTTGCAGCTTGAGAATTCTCACTTAAAGCAAATGTTTGGATTTTTGAAGAGACAGAATTGGC------TGTTTTGAA---------------AATGTTTAGTTATAAAACAACTTTG--ATAAGGTAGTAAGGTACAAAAAAGGA------------T-TTTTAATGTTTCTTTTGTGGCAGTACCAGTCAGTCAACATCATCATAAGACTGACAAAATTGATAGTCTGGCAGGGAAATAGGAATAATCCTTTGAA------------------------------TGGCTTTGATGGATCTTATTGGGCA----TGAGAT------------------------------TGTAATATTTACCTTGTCCTACTCAATTTATCTTAGTACCAGTCTCATGGATATAAATGCAG--AATAAGATGATGTAAT-TAAGTGCATGCTTTGGTAAGAAGCAAAAG-TTTCATTAGCTTTT--------TAACCcaaacaaac-aagtaaacaa-
i dasNov3.JH567306         C 0 C 0

a score=240234.000000
s hg38.chr5_KI270796v1_alt     15178 35 +    172708 ACAAATAAACAAAAAAGCCACCCAGTTTCAGACT-A
s panTro5.chr5             125125270 34 + 181907262 acaaacaaacaaaaaaGCCACCCAGTTTCAGAC--A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126462249 34 + 183735486 ACAAACAGACAAAAAAGCCACCCAGTTTCAGAC--A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1653783 33 +   8933513 --aaacaaacaaaaaaGCCACCCAGTTTCAGACT-A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139784765 35 + 163208435 GCAAACAAACAAGAAAGCCACCCAGTTTCAGACT-A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122770419 34 + 180051392 --aaacaaacaaaaaaGCCATCCAGTTTCAGACTAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124194090 34 + 181584905 --aaacaaacaaaaaaGCCATCCAGTTTCAGACTAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16191616 34 +  18395747 --aaacaaacaaaaaaGCCATCCAGTTTCAGACTAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5197726 34 +  26952557 --aaacaaacaaaaaaGCCATCCAGTTTCAGACTAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28305537 34 +  82825804 --AAACAAACAAAAAAGCCATCCAGTTTCAGACTAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3969640 34 -   4237731 --aaacaaacaaaaaaGCCATCCAGTTTCAGACTAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      240161 34 -   1175262 --AAACAAACAAAAAAGCCATCCAGTTTCAGCCTAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123573689 29 - 204313951 ------CAACCAAAAAATTGCCCAATTTCCGATTA-
i calJac3.chr2             C 0 I 8
s saiBol1.JH378106          55629264 29 -  71252344 ------CAACCAAAAAATCGCTCAATTTTCAATTA-
i saiBol1.JH378106         C 0 I 8
s micMur3.chr12             60488881 28 + 108143057 -------ACTAAAAAAGCCACCCAGTTTCAGGCCA-
i micMur3.chr12            C 0 I 6
s proCoq1.NW_012155062v1     3518893 28 +  11683526 -------ACTGAAAAAGCCACCCAGTTTCAGACCA-
i proCoq1.NW_012155062v1   C 0 I 6
s otoGar3.GL873679           2999376 28 +   4132165 -------ACTAAAAACTGCACCCAGGTTTAGACCA-
i otoGar3.GL873679         C 0 I 6
s mm10.chr18                55469449 35 +  90702639 TTAAACAGACAAGGAAGCCACCTACTTGTGGATCA-
i mm10.chr18               C 0 I 6
s canFam3.chr11             14865539 25 +  74389097 ----------ACAAAAGCCACCCAGCTGCAGACCA-
i canFam3.chr11            C 0 I 6
s dasNov3.JH567306           2557321 33 +   3667625 acaaacaaac-aaaAAGCCATCCAGTT-CAGTCCA-
i dasNov3.JH567306         C 0 I 6
e aotNan1.NW_018505940v1    13116753 37 -  42888418 I
e cebCap1.NW_016107829v1     1323522 37 -   1400280 I

a score=1378355.000000
s hg38.chr5_KI270796v1_alt     15213 109 +    172708 TATGT-----GTCTGTTTATATGTAGGAT---TCCAGATTTGATGA--AGAAAAATCTTAGGGCGTGGTCTATCACTAAcatctgtaatctgcaccaactgtcttgcaaatgcattctt
s panTro5.chr5             125125304 109 + 181907262 TATGT-----GTCTGTTTATATGTAGGAT---TCCAGATCTGATGA--AGAAAAATCTGAGGGTGTGGTCTATCACTAAcatctataatctgcaccacctgtcttgcaaatgcattctt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126462283 109 + 183735486 TATGT-----GTCTGTTTATATGTAGGAT---TCCAGATGTGATGA--AGAAAAATCTGAGGGCGTGGTCTATCACTAAcatctataatctgcaccacctgtcttgcaaatgcattctt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1653816 109 +   8933513 TATGT-----GTCTGTTTATATGTAGGAT---TCCAGATCTGATGA--AGAAAAATCTTAGGGCGTGGTCTATCACTAACATCTGTAATCTGCACCAACTGTCTTGCAAATGCATTCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139784800 109 + 163208435 CATGT-----GTCTGTTTATATGTAGGAT---TCCAGATCTGATGA--AGAAAAATCTGAGGGTGTGGTCTATCACTAATGTCTGTAATCTGCACCAACTGTCTTGCAAATGTATTCTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122770453 114 + 180051392 TATGCCTTGCGTCTGTTTATATGTAGGAT---TCCAGATCTGATGA--AGAAAAATCTTAGGGCATGGTCTATCCCTAACATCTGTAATCTGAACCAACTGTCTTGTGAATGCATTCTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124194124 114 + 181584905 TATGCCTTGCGTCTGTTTATATGTAGGAT---TCCAGATCTGATGA--AGAAAAATCTTAGGGCATGGTCTATCCCTAACATCTGTAATCTGAACCAACTGTCTTGTGAATGCATTCTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16191650 114 +  18395747 TATGCCTTGCGTCTGTTTATATGTAGGAT---TCCAGATCTGATGA--AGAAAAATCTTAGGGCATGGTCTATCCCTAACATCTGTAATCTGAACCAACTGTCTTGTGAATGCATTCTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5197760 114 +  26952557 TATGCCTTGCGTCTGTTTATATGTAGGAT---TCCAGATCTGATGA--AGAAAAATCTTAGGGCATGGTCTATCCCTAACATCTGTAATCTGAACCAACTGTCTTGTGAATGCATTCTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28305571 114 +  82825804 TATGCCTTGCGTCTGTTTATATGTAGGAT---TCCAGATCTGATGA--AGAAAAATCTTAGGGCATGGTCTATCCCTAACATCTGTAATCTGAACCAACTGTCTTGTGAATGCATTCTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3969674 114 -   4237731 TATGTCTTGCGTCTGTTTATATGTAGGAT---TCCAGATCTGATGA--AGAAAAATCTTAGAGCATCGTCTATCCCTAACATCTGTAATCTGAACTAACTGTCTTGTGAATGCATTCTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      240195 114 -   1175262 TATGCCTTGCGTCTGTTTATATGTAGGAT---TCCAGATCTGATGA--AGAAAAATCTTAGGGCATGGTCTATCCCTAACATCTGTAATCTGAACCAACTGTCTTGTGAATACATTCTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123573726 109 - 204313951 TGCGT-----CTCTGTTCATATGTAGGAT---TCCAGATCTGATGG--AAAAAAATCTTAGGTTGTGGTCTACCACTAACATCTCTAATCTGCTCCAACTGTCTTGCAAATGCATTCTT
i calJac3.chr2             I 8 C 0
s saiBol1.JH378106          55629301 108 -  71252344 TACGT-----CTCTGTTCATATGTAGGTT---TCCAGGTCTGATGG---AAAAAATCTTGGGGTGTGGTCTACCACTAACATCTCTAATCTGCTCCAACTGTCTTGCAAATGCATTCTT
i saiBol1.JH378106         I 8 C 0
s cebCap1.NW_016107829v1     1323559 108 -   1400280 TACGT-----CTCTGTATATATGTAGGAT---TCCAGATCTGATGG---AAAACATCTTAGCGTGTGGTCTACCACTAACATCTCTAATCTGCTCCAACTATCTTGCAAATGCATTCTT
i cebCap1.NW_016107829v1   I 37 C 0
s aotNan1.NW_018505940v1    13116790 106 -  42888418 TACAT-----CTCTGTTCATATGTAGGAT---TCCAGATCTGATGG---AAAAAATCTAAGGGTGTGGTCTACCACTAACATCTCTAATCTGCTCCAACTG--TTGCAAATGCATTCTT
i aotNan1.NW_018505940v1   I 37 C 0
s micMur3.chr12             60488915  99 + 108143057 TCTGT-----GTCTGTTCTCATGTAGGAT---TCTATATTGGGT-G--CGAAAAATCTTAGGGCGTGGTCATTTGCT---------AACTTGCACCAACTGTCTTGCAAATGCATTCTT
i micMur3.chr12            I 6 C 0
s proCoq1.NW_012155062v1     3518927 100 +  11683526 TCTGT-----GTCTGTTCTTACGTAGGAT---TCTAGATTGCCTGG--TGAAAAATCTTAGGGCACGGTCACTTGCT---------AACTTGCACCAATTGTCTTGCAAATGCATTTTT
i proCoq1.NW_012155062v1   I 6 C 0
s otoGar3.GL873679           2999410 108 +   4132165 TCTAG-----GTCTGTCCTCATGCAGAAT---TTTAGAGCGGGTGG--AAAGAAATCGTAGGGCCTAGTCACTTGCTAACA-CTCAAACTTGCACCAACTCTCTTGCAAATATATTTTT
i otoGar3.GL873679         I 6 C 0
s mm10.chr18                55469490  94 +  90702639 -----CCCATACCTGTTGACATCTAGGCT---TCC-----------------AAAGTGTAGGGTGTGGTCACTTCCAACTACCTGGAACCCATGTCAACTGTTTTGCAGACAAGTTCTT
i mm10.chr18               I 6 C 0
s canFam3.chr11             14865570 108 +  74389097 TGGGT-----GTCTGTTCATGGCTAGGCT---TTCAGAGGTAAGGG--AGAAAAATCTCAGGGCAGAGTCCTTC-CTAACACCTCTAACCTGAGCCAACTCTCTTGGAAATGCATTCTT
i canFam3.chr11            I 6 C 0
s dasNov3.JH567306           2557360 113 +   3667625 TCTGT-----GTCTGTACAGATCTAGACTTTCTCCATCTCTTCTGATTGGGGAAACCTCAG-GCATGGTCACTTGCTAACATCACTAACCTTAGCCAAATGTCTTGCAAATGCATTCTT
i dasNov3.JH567306         I 6 I 538

a score=1990954.000000
s hg38.chr5_KI270796v1_alt     15322 137 +    172708 caaacagggg--gtatgctgatcagtgaaatatatcactgctccagaaaattttctgaata-gcctcaagtgactgttggtggg----tgaa--gagtgccactgccatataAAGCACTTGGCAAAGACCTTGAACAACTTGAGCA
s panTro5.chr5             125125413 137 + 181907262 caaacagggg--gtatgctgatcagtgaaatatatcactgctccagaaaattttctgaata-gcctaaagtgactgttggtggg----tgaa--gagtgccactgccatataAAGCACTTGGCAAAGACCTTGAACAACTTGAGCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126462392 137 + 183735486 caaacagggg--gtatgctgatcagtgaaatatatcactgctccagaaaattttctgaata-gcctaaagtgactgttggtggg----tgaa--gagtgccactgccatataAAGCACTTGGCAAAGACCTTGAACAACTTGAGCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1653925 137 +   8933513 CAAACAGGGG--GTATGCTCATCAGTGAAATATATCACTGCTCCAGAAAATTTTCTGAATA-GCCTCAAGTGACTGTTGGTGGG----TGAA--GAGTGCCACTGCCATATAAAGCACTTGGCAAAGACCTTGAACAACTTGAGCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139784909 137 + 163208435 CAAACAGGGG--GTATGCTGATCAGTGAAATATATCACTGCTCCAGAAAATTTTCTGAATA-GCCTCAAGTGACTGTTGGTGGG----TGAA--GAGTGCCACTGCCATATAAAGCACTTGGCAAAGACCTTGAACAACTTGAGCA
i nomLeu3.chr2             C 0 I 7
s rheMac8.chr6             122770567 137 + 180051392 CAAACGGGGG--GTATGCTGATCAGTGAAATACATCACTGCTCCAGAAAATTTTCTGAATA-GCTTCAAGTGACTGTTGGTGGG----TGAA--GAGTGCCACTGCCATATAAAGCACTTGGCAAAGACCTTGAACAACTTGAGCA
i rheMac8.chr6             C 0 I 7
s macFas5.chr6             124194238 137 + 181584905 CAAACGGGGG--GTATGCTGATCAGTGAAATACATCACTGCTCCAGAAAATTTTCTGAATA-GCTTCAAGTGACTGTTGGTGGG----TGAA--GAGTGCCACTGCCATATAAAGCACTTGGCAAAGACCTTGAACAACTTGAGCA
i macFas5.chr6             C 0 I 7
s macNem1.NW_012012355v1    16191764 137 +  18395747 CAAACGGGGG--GTATGCTGATGAGTGAAATACATCACTGCTCCAGAAAATTTTCTGAATA-GCTTCAAGTGACTGTTGGTGGG----TGAA--GAGTGCCACTGCCATATAAAGCACTTGGCAAAGACCTTGAACAACTTGAGCA
i macNem1.NW_012012355v1   C 0 I 7
s cerAty1.NW_012002512v1     5197874 136 +  26952557 CAAACGGGGG--GTATGCTGATCAGTGAAATACATCACTGCTCCA-AAAATTTTCTGAATA-GCTTCAAGTGACTGTTGGTGGG----TGAA--GAGTGCCACTGCCATATAAAGCACTTGGCAAAGACCTTGAACAACTTGAGCA
i cerAty1.NW_012002512v1   C 0 I 7
s chlSab2.chr23             28305685 123 +  82825804 CAGATGGGGG----------------GAAATACATCACTGCTCCAGAAAATTTTCTGAATA-GCTTCAAGTGACTGTTGGTGGG----TGGA--GAGTGCCACTGCCATATAAAGCACTTGGCAAAGACCTTGAACAACTTGAGCA
i chlSab2.chr23            C 0 I 7
s manLeu1.NW_012103321v1     3969788 137 -   4237731 CAAACGGGGG--GTATGCTGATCAGTGAAATACATCACTGCTCCAGAAAATTTTCTGAATA-GCTTCAAGTGACTGTTGGTGGG----TGAA--GAGTGCCACTGCCATATAAAGCACTTGGCAAAGACCTTGAACAACTTGAGCA
i manLeu1.NW_012103321v1   C 0 I 7
s colAng1.NW_012119644v1      240309 139 -   1175262 CAGACGGGGGGGGTAGGCTGATCAGTGAAATACATCACTGCTCCAGAAAATTTTCTGAATA-GCTTCAAGTGACTGTTGGTGGG----TGAA--GAGTGCCACTGCCATATAAAGCACTTGGCAAAGACCTTGAACAACTTGAGCA
i colAng1.NW_012119644v1   C 0 I 7
s calJac3.chr2             123573835 136 - 204313951 CAAACA-GGG--GTATGCTGATCAGTGAAATGCATCACTGCTCCAGAAAATTTTCTGAGTA-ATCTCAAGTGACTGTTGGTGGG----TGAA--GAGTGCCACTGCCACATAGGGCACTTGGCAAAGACCTTGAACAACTTGAGCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55629409 137 -  71252344 CAAATAGGGG--GTATGCTGATCAGTGAAATGCATCACTGTTCCAGAAAATTTTCTGAATA-ATCTCAAGTGACTGTTGGTGGG----TGAA--GAGTGCCACTGCCACGTAAGGCACTTGGCAAAGACCTTGAACAACTTGAGCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1323667 135 -   1400280 CAAAT--GGG--GTATGCTGATCAGTGAAATGCATCACTGCTTCAGAAAATTTTGTGAATA-ATCTCAAGTGACTGTTGGTGGG----TGAA--GAATGCCACTGCCACATAAGGCACTTGGCAAAGACCTTGAACAACTTGAGCA
i cebCap1.NW_016107829v1   C 0 I 321
s aotNan1.NW_018505940v1    13116896 136 -  42888418 CAAACG-GGG--GTATGCTGATCAGTGAAATGCATCACTGCTCCAGAAAATTTTCTGAATA-ATCTCAAGTGACTGTTGGTGGG----TGAA--GAGTGCCACTGCCACATAAGGCACTTGGCAAAGACCTTGAACAACTTGAGCA
i aotNan1.NW_018505940v1   C 0 I 7
s micMur3.chr12             60489014 137 + 108143057 CTGACACAGG--TTATGCTGATTGGTGAAAAACATCACTGCTCCAGAAAGTTTTCTGAATA-GTCCCGAATGATTCTTGGTGGG----TGAA--GAGTGCTACCGTCACATAAAGCACTTGGTAAAGACCTTGAACAACTTCAGTG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3519027 137 +  11683526 CTGACACAGG--TTATGCCGATTAGTGAAAAATATCACTGCTCCAGAAAATTTTCCGAATA-GCCCCGAATGATTCTTGGTGAG----CAAA--GAGTGCTACTGTCACATGAAGCACTTGGTAAAGACCTTGAACAACTTCAGTA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2999518 136 +   4132165 CAGACACAGA--TTATGTTAGTCAGTGACACA-ATTACTGCTCCAGAAAATTTTCTGAACACCCCCCAAATGACTCTTAGTGGT----TGAA--GAGTGCTACCGTCACATAAAGCACTTGGTAAAGAACTTCAAC-ACTTGAGTA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55469584 137 +  90702639 GAGACACAGG--ATAAAGGGGTCAGTAAAAGTGACCACTTCTCC--AACTTTTTCTGAATA-ATATTGACTGATATTTGTTGGGGGTATGAATGTAGTTGTTCTGCCATA----GTAGTTGACAAAACCCTTGagaaacctaagta
i mm10.chr18               C 0 C 0
s canFam3.chr11             14865678 137 +  74389097 CACACACAGG--CCATACTGACCTATGAAATACATCACTGCTCCTGAAAATCTTCTCAATA-GCCTCAGCCTATTGTGGAGAGG----CAAA--GAATGTCACTGTCCCATAAAGCACTTGGCACACACTTGGAAAAACTAGAGTA
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2557473 538 +   3667625 I

a score=29035.000000
s hg38.chr5_KI270796v1_alt     15459  3 +    172708 CTA-------
s panTro5.chr5             125125550  3 + 181907262 CTA-------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126462529  3 + 183735486 CTA-------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1654062  3 +   8933513 CTA-------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139785053  3 + 163208435 CTA-------
i nomLeu3.chr2             I 7 C 0
s rheMac8.chr6             122770711  3 + 180051392 CTA-------
i rheMac8.chr6             I 7 C 0
s macFas5.chr6             124194382  3 + 181584905 CTA-------
i macFas5.chr6             I 7 C 0
s macNem1.NW_012012355v1    16191908  3 +  18395747 CTA-------
i macNem1.NW_012012355v1   I 7 C 0
s cerAty1.NW_012002512v1     5198017  3 +  26952557 CTA-------
i cerAty1.NW_012002512v1   I 7 C 0
s chlSab2.chr23             28305815  3 +  82825804 CTA-------
i chlSab2.chr23            I 7 C 0
s manLeu1.NW_012103321v1     3969932  3 -   4237731 CTA-------
i manLeu1.NW_012103321v1   I 7 C 0
s colAng1.NW_012119644v1      240455  3 -   1175262 CTA-------
i colAng1.NW_012119644v1   I 7 C 0
s calJac3.chr2             123573971  3 - 204313951 CTA-------
i calJac3.chr2             C 0 I 7
s saiBol1.JH378106          55629546  3 -  71252344 CTA-------
i saiBol1.JH378106         C 0 I 339
s cebCap1.NW_016107829v1     1324123  3 -   1400280 CTA-------
i cebCap1.NW_016107829v1   I 321 C 0
s aotNan1.NW_018505940v1    13117039  3 -  42888418 CTA-------
i aotNan1.NW_018505940v1   I 7 C 0
s micMur3.chr12             60489151  3 + 108143057 CAA-------
i micMur3.chr12            C 0 I 4
s proCoq1.NW_012155062v1     3519164  3 +  11683526 CAA-------
i proCoq1.NW_012155062v1   C 0 I 4
s otoGar3.GL873679           2999654  3 +   4132165 CAA-------
i otoGar3.GL873679         C 0 I 4
s mm10.chr18                55469721  3 +  90702639 ctg-------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14865815 10 +  74389097 CTCTTCCCGC
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2557473 538 +   3667625 I

a score=43928.000000
s hg38.chr5_KI270796v1_alt     15462 5 +    172708 CTA---GA
s panTro5.chr5             125125553 5 + 181907262 CTA---GA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126462532 5 + 183735486 CTA---GA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1654065 5 +   8933513 CTA---GA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139785056 5 + 163208435 CTA---CA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122770714 5 + 180051392 CTG---GA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124194385 5 + 181584905 CTG---GA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16191911 5 +  18395747 CTG---GA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5198020 5 +  26952557 CTG---GA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28305818 5 +  82825804 CTG---GA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3969935 5 -   4237731 CTG---GA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      240458 5 -   1175262 CTG---GA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123573981 5 - 204313951 CTA---GA
i calJac3.chr2             I 7 C 0
s saiBol1.JH378106          55629888 5 -  71252344 CTA---GA
i saiBol1.JH378106         I 339 C 0
s cebCap1.NW_016107829v1     1324126 5 -   1400280 CTA---GA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13117042 5 -  42888418 CTA---GA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60489158 3 + 108143057 CTA-----
i micMur3.chr12            I 4 C 0
s proCoq1.NW_012155062v1     3519171 3 +  11683526 CTA-----
i proCoq1.NW_012155062v1   I 4 C 0
s otoGar3.GL873679           2999661 8 +   4132165 CTATTAGA
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55469724 5 +  90702639 ttg---ga
i mm10.chr18               C 0 I 675
s canFam3.chr11             14865825 5 +  74389097 TTA---GA
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2557473 538 +   3667625 I

a score=2058582.000000
s hg38.chr5_KI270796v1_alt     15467 150 +    172708 GAATTGCTACAGTCAGGAAGGCAAGTTGGTTTTATCTCTTGGCTATTCTGAT---------TATTCAAAGCAGTTA--TCTGGAGCAATGTTCTGACAAGGACTGTCAGATAAGCCCCAGGTTCA-TGGAAAGAGGG---AGGGTTGGCTTGGTGATGCTGGAGG
s panTro5.chr5             125125558 159 + 181907262 GAATTGCTACAGTCAGGAAGGCAAGTTGGTTTTATCTCTTGGCTATTCTGATTATTCTGAGTATTCAAAGCAGTTA--TCTGGAGCAATGTTCTGACAAGGACTCTCAGATAAGCCCCAGGTTCA-TGGAAAGAGGG---AGGGTTGGCTTGGTGATGCTGGAGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126462537 159 + 183735486 GAATTGCTACAGTCAGGAAGGCAAGTTGGTTTTATCTCTTGGCTATTCTGATTATTCTGAGTATTCAAAGCAGTTA--TCTGGAGCAATGTTCTGACAAGGACTCTCAGATAAGCCCCAGGTTCA-TGGAAAGAGGG---AGGGTTGGCTTGGTGATGCTGGAGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1654070 159 +   8933513 GAATTGCTACAGTCAGGAAGGCAAGTTGGTTTTATCTCTTGGCTATTCTGATTATTCTGATTATTCAAAGCAGTTA--TCTGGAGCAATGTTCTGACAAGGACTCTCAGATAAGCCCCAGGTTCA-TGGAAAGAGGG---AGGGTTGGCTTGGTGATGCTGGAGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139785061 149 + 163208435 GAATTGCTACAGTcaggaaggcaagttggttttatctcttggccattctgat---------tattcaaagcagtta--tctggagcagtgttctgaccaggactctcagataagccccaggttca-tggaaagagGG---AGGGTTGGCTTGGTGATGCTGGAG-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122770719 150 + 180051392 GAATTTCTACAGTCgggaaggcaagttggttttatctcttggccattctgat---------tattcaaagcagtta--tctggagcaatgttctgacaaggattctcagataagccccaggttca-tggaaagagGG---AGGGTTGGCTTGGTGGTGCTGAAGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124194390 150 + 181584905 GAATTGCTACAGTCgggaaggcaggttggttttatctcttggccattctgct---------tattcaaagcagtta--tctggagcaatgttctgacaaggattctcagataagccccaggttca-tggaaagagGG---AGGGTTGGCTTGGTGGTGCTGAAGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16191916 150 +  18395747 GAATTGCTACAGTCgggaaggcaagttggttttatctcttggccattctgat---------tattcaaagcagtta--tctggagcaatgttctgacaaggattctcagataagccccaggttca-tggaaagagGG---AGGGTTGGCTTGGTGGTGCTGAAGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5198025 150 +  26952557 GAATTGCTACAGTCgggaaggcaagttggttttatctcttggccattctgat---------tattcaaagcagtta--tctggagcaatgttctgacaaggattctcagataagccccaggttca-tggaaagagAG---AGGGTTGGCTTGGTGGTGCTGAAGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28305823 150 +  82825804 GAATTGCTACAGTCgggaaggcaagttggttttatctcttggccattctgat---------tattcaaagcagtta--tctggagcaatgttctgacaaggattctcagataagccccaggttca-tggaaagagGG---AGGGTTGGCTTGGTGGTGCTGAAGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3969940 150 -   4237731 GAATTGCTACAGTCgggaaggcaagttggttttatctcttggccattctgat---------tattcaaagcagtta--tctggagcaatgttctgacaaggattctcagataagccccaggttca-tggaaagagGG---AGGGTTGGCTTGGTGGTGCTGAAGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      240463 150 -   1175262 GAATTGCTACAGTTgggaaggcaagttggttttatctcttggccattctgat---------tattcaaagcagtta--tctggagcaatgttctgacaaggattctcagataagccccaggttca-tggaaagagGG---AGAGTTGGCTTGGTGGCGCTGAAGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123573986 150 - 204313951 GAATTGCTACAGAcaggaacgcaagttggttttatctcttggccattctgat---------tgttcaaagcagtta--tctggagcaatgctctgacaaggactctcagataagccccaggttca-tggaacgagGG---AGGGTCAGCTTAGTGGTGCTGGAGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55629893 150 -  71252344 GAATTGCTACAGAcagggaggcaagttggttttatctcttggccattgtgat---------ttttcaaagcagtta--tctggagcaatgttctgacaaggactctcagataagccccaggttca-tggaaagagGG---AGGGTCAGCTTAGTGGTGCTGGAGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1324131 150 -   1400280 GAATTGCTACAGACAGGAAGGCAAGTTGGTTTTCTCTGTTGGCCATTCTGAT---------TGTTCAAAGCAGTTA--TCTGGAGTGATGTTCTGACAAGGACTCTCAGATAAGCCTCAGGTCCA-TGGAAAGAGGG---AGGGTCAGCTTAGCAGTGCTGGAGG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13117047 150 -  42888418 GAATTGCTACAGAcaggaaggcaagttggttttatctcttggccattctgat---------tgttcaaagcagtta--tctggagcaatgttctgacaaggactctcagataagccccaggttca-tggaaagagGG---AGGGTCAGCTTAGTGGTGTTGGAGG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60489161 149 + 108143057 -AATTGCTAAAGTCAggatggcaactaggtttcatctcttggccattctgat---------tattcagagcagtta--tctggagcgatgttttggggagggctgtcaggtgagccccagg-tcagtagaaagagGG---AGGGTTGGCTTGCTGGTCCTGGAGG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3519174 150 +  11683526 -AATTGCTAAAGTCAggatggcaactaggtttcatctcttggccattccgat---------tattcagagcaggta--tccggagcaatgttttgaggagggctgtcaggtgagcccctggttcagtgggaaGAGGG---AGGATTGGCTTGCTGGTGCTGGACG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           2999669 153 +   4132165 GAATTACTAACGTCTGGATGGAAACTAGGTCAGGCCTATTGGCAGTTCTGAT---------TATTTAGAAAAGTAGATTCTAGAGCAATGCATTGAGGAGGGCTCTCAGGTGAGCCCTAGGTTCAACAGAAAGAGGG---CGGGTTGGCTTGGTACTGAGGGAGG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14865830 129 +  74389097 GAAATACTGAAG----------------------TCTCTTGGCAGTTTTGAT---------TATTTAAAACAGTTA--TACGAAGCAATGATCTAA--GGCACTGTCAGGTGAATCCCAGGTTCA-GGGGAAAAGAGGGTAGGATCAGCTGCGAGCTGTTGGAGG
i canFam3.chr11            C 0 I 26
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=58675.000000
s hg38.chr5_KI270796v1_alt     15617 6 +    172708 TTGGAA
s panTro5.chr5             125125717 6 + 181907262 TTGGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126462696 6 + 183735486 TTGGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1654229 6 +   8933513 TTGGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139785210 4 + 163208435 --GGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122770869 6 + 180051392 TTGGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124194540 6 + 181584905 TTGGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16192066 6 +  18395747 TTGGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5198175 6 +  26952557 TTGGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28305973 6 +  82825804 TTGGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3970090 6 -   4237731 TTGGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      240613 6 -   1175262 TTGGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123574136 6 - 204313951 TTGGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55630043 6 -  71252344 TTGGAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1324281 6 -   1400280 CTGGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13117197 6 -  42888418 TTGGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60489310 6 + 108143057 TGTGAG
i micMur3.chr12            C 0 I 28
s proCoq1.NW_012155062v1     3519324 6 +  11683526 TGTGAG
i proCoq1.NW_012155062v1   C 0 I 6
s otoGar3.GL873679           2999822 6 +   4132165 CATAAG
i otoGar3.GL873679         C 0 I 7
e canFam3.chr11             14865959 26 +  74389097 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=264328.000000
s hg38.chr5_KI270796v1_alt     15623 23 +    172708 TATTGTGTCATCCTTTCATCTGT
s panTro5.chr5             125125723 23 + 181907262 TATTGTGTCCTCCTTTCATCTGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126462702 23 + 183735486 TATTGTGTCCTCCTTTCATCTGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1654235 23 +   8933513 TATTGTGTCATCCTTTCATCTGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139785214 23 + 163208435 TATTGCATCATATTTTCATCTGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122770875 23 + 180051392 TATTACATCATCCTTTCATCTGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124194546 23 + 181584905 TATTACATCATCCTTTCATCTGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16192072 23 +  18395747 TATTACATCATCCTTTCATCTGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5198181 23 +  26952557 TATTACATCATCCTTTCATCTGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28305979 23 +  82825804 TATTACATCATCCTTTCATCTGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3970096 23 -   4237731 TATTACATCATCCTTTCATCTGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      240619 23 -   1175262 TATTCCATCATCCTTTCATCTGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123574142 23 - 204313951 TATTGCGTCATCCTTTCATCTGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55630049 23 -  71252344 TATTGCATCATCCTTTCATCTGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1324287 23 -   1400280 TATTGCATCATCCTTTCATCTGT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13117203 23 -  42888418 TATTGCATCATCCTTTCATCTGT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3519336 23 +  11683526 TGTTACATCACCCCTTCATCTGA
i proCoq1.NW_012155062v1   I 6 C 0
s otoGar3.GL873679           2999835 23 +   4132165 CATTACATGAGCCATTCATCTGA
i otoGar3.GL873679         I 7 C 0
e micMur3.chr12             60489316 28 + 108143057 I
e canFam3.chr11             14865959 26 +  74389097 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=3792968.000000
s hg38.chr5_KI270796v1_alt     15646 295 +    172708 CAGCCTTTACTCTGCTTTCCAGGCACCGAGGTGAGCcagtgtatcttaaagtgtaattgtgtgcctcacagattgcatatgtgatgattttattacaatgattgtttacgtata--atatatgtgtctatataattgatttatacagagtaaaatttaacaagcacacaaaattctgaaggaattcacaggatttggctaagtacaataaacaatttaacttaatgtctatttaaagaaaaatatctaagttcataggagagatgataaataac--tggcaaaaatcctacagttagaa
s panTro5.chr5             125125746 295 + 181907262 TAGCCTTTACTCTGCTTTCCAGGCACCGAGGTGAGCCAGTGTATCTTAAAGTGTAATTGTATGCCTCACAGATTGCATATGTGATGATTTTATTACAATGATTGTTTATGTATA--ATGTATGTGTCTATATAATTGATTTATACAGAGTAAAATTTAACAAGCACATAAAATTCTGAAGGAATTCACAGGATTTGGCTAAGTACAATAAACAATTTAACTTAATGTCTATTTAAGGAAAAATATCTAACTTCATAGGAGAGATGATAAATAAC--TGGGAAAAATCCTACAGTTAGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126462725 295 + 183735486 TAGCCTTTACTCTGCTTTCCAGGCACCGAGGTGAGCCAGTGTATCTTAAAGTGTAATTGTATGCCTCACAGATTGCATATGTGATGATTTTATTACAATGATTGTTTACGTATA--ATGTATGTGTCTATATAATTGATTTATACAGAGTAAAATTTAACAAGCACATAAAATTCTGAAGGAATTCACAGGATTTGGCTAAGTACAATAAACAATTTAACTTAATGTCTATTTAAAGAAAAATATCTAAGTTCATAGGAGAGATGATAAATAAC--TGGGAAAAATCCTACAGTTAGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1654258 295 +   8933513 CAGCCTTTACTCTGCTTTCCAGGCACCGAGGTGAGCCAGTATATCTTAAAGTGTAATTGTGTGCCTCACAGATTGCATATGTGATGATTTTATTACAATGATTGTTTACGTATA--ATGTATGTGTCTATATAATTGATTTATACAGAGTAAAATTTAACAAGCACATAAAATTCTGAAGGAATTCACAGGATTTGGCTAAGTACAATAAACAATTTAACTTAATGTCTATTTAAAGAAAAATATCTAAGTTCATAGGAGAGATGATAAATAAC--TGGCAAAAATCCTACAGTTAGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139785237 297 + 163208435 CAACCTTTACTCTGCTTTCCAGGCACTGAGGTGAGCcagtgtatcttaaagtgtaattgtgtgcctcacagattgcatatgtgatgattttattgcaatgattgtttacatata--atgtatgtgtctatataattgatttatacagagtaaaatttaacaagcacataaaattctgaaggaattcacaggatttggctaagtacaataaacaatttaacttaatgtctatttaaagaaaaatatctaagttcataggagaggtgataaataactgtggcaaaaatcCTACAGTTAGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122770898 297 + 180051392 CAGCCTTTACTCTGCTTTCCAGGCACTGAGGTGAGCcagtgtgtcttaaaatgtaactgtgtgcttcacagattgcatacgtgatgattttattacaatgattgtttatgtata--atgtatgtgtctatgcaattgatttatacagagttaaatttaacaagcacataaaaatctgaaggaattcacaggatttggctaagtacaataaacgatttaacttaatgtctatttaaagaaaagtatctaagttcataggagaggtgataaataactgtggcaaaaatcctacagttggaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124194569 297 + 181584905 CAGCCTTTACTCTGCTTTCCAGGCACTGAGGTGAGCcagtgtgtcttaaaatgtaactgtgtgcttcacagattgcatacgtgatgattttattacaatgattgtttatgtata--atgtatgtgtctatgcaattgatttatacagagttaaatttaacaagcacataaaaatctgaaggaattcacaggatttggctaagtacaataaacgatttaacttaatgtctatttaaagaaaagtatctaagttcataggagaggtgataaataactgtggcaaaaatcctacagttggaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16192095 297 +  18395747 CAGCCTTTACTCTGCTTTCCAGGCACTGAGGTGAGCCAGTGTGTCTTAAAATGTAACTGTGTGCTTCACAGATTGCATACATGATGATTTTATTACAATGATTGTTTATGTATA--ATGTATGTGTCTATGCAATTGATTTATACAGAGTTTAATTTAACAAGCACATAAAAATCTGAAGGAATTCATAGGATTTGGCTAAGTACAATAAACGATTTAACTTAATgtctatttaaagaaaagtatctaagttcataggagaggtgataaataactgtggcaaaaatcctacagttggaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5198204 297 +  26952557 CAGCCTTTACTCTGCTTTCCAGGCACTGAGGTGAGCCAGTGTGTCTTAAAATGTAACTGTGTGCTTCACAGATTGCATATGTGATGATTTTATTACAATGATTGTTTATGTATA--ATGTATGTTTCTATGCAATTGATTTATACAGAGTTAAATTTAACAAGCACATAAAAATCTGAAGGAATTCACAGGATTTGGCTAAGTACAATAAACGATTTAACTTAATGTCTATTTAAAGAGAAGTATCTAAGTTCATAGGAGAGGTGATAAATAACTGTGGCAAAAATCCTACAGTTAGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28306002 297 +  82825804 CAGGCTTTACTCTGCTTTCCAGGCACTGAGGTGAGCcagtgtgtcttaaaatgtaactgtgtgcttcacagattgcatatgtgatgattttattacaatgattgtttatgtata--atgtatgtgtctatgtaattgatttatacagagttaaatttaacaagcacataaaaatctgaagaaattcacaggatttggctaagtacaataaacgatttcacttaatgtctatttaaagaaaaatatctaagttcataggagaggtgataaataactgtggcaaaaatcctacagttagaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3970119 297 -   4237731 CAGCCTTTACTCTGCTTCCCAGGCACTGAGGTGAGCCAGTGTGTCTTAAAATGTAACTGTGTGCTTCACAGATtgcatatgtgatgattttattacaatgattgtttatgtata--atgtatgtgtctatgCAATTGATTTATACAGAGTTAAATTTAACAAGCACATAAAAATCTGAAGGAATTCACAGGATTTGGCTAAGTACAATAAACGATTTAACTTAATGTCTATTTAAAGAAAAGTATCTAAGTTCATAGGAGAGGTGATAAATAACTGTGGCAAAAATCCTACAGTTAGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      240642 290 -   1175262 CAGCCTTTACTCTGCTTTCCAGGCACTGAGGTGAGCCAGTGTGTCTTAAAATGTAACTGTGTGCTTCACAGACTGCGTATGTGATGATTTTATTACAATGATTGTTTATGTATA--ATGTATGTGTCTATGTAATTGATTTATAC--AGTTAAATTTAACAAGCACATAAAAATCTGAAGGAATTCACAGGATTTGGCTAAGTACAGTAAACG-----ACTTAATGTCTATTTAAAGAAAAATATCTAAGTTCATAGGAGAGGTGATAAATAACTGTGGCAAAAATCCTACAGTTAGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123574165 297 - 204313951 CAGCCTTTACTCTGCTTTCCAGGCATTGAGGTGAGCcaatgtgttttaaagtgtaattgtgtgcctcacagattgcgtatgtgatgctcttattacaatgattgtgtatgtata--atgtatgtgtctatataattgatttatacagagcaaaatttaacaagcacataaaattctgagggaattcacaggatttggctaagtaaaataaatgatttaacttgatgcctattcaaagaaaaatatcaaagttcataggacaggtgataaataactgtggcaaaaatcCTACAGTTAGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55630072 296 -  71252344 CAGTCTTTACTCTGCTTTCCAGGCACCGAGGTGAGCCAATGTGTCTTAAAGTGTAATTGTATGCCTCACAGATTGGGTATGTGATGATCTTATTACAATGATTGTGTATGTATA--ATGTATGTGTCTATATAATTGATTTATACAGAGCAAAATTTAACAAGCACATAAAATTCTGAGGGAATTCACAGGATTTGGCTAAGTAAAAT-AACAATTTAACTTGATGCGTATTCAAAGAAAAATATCAAAGTTCATAGAAGACGTGATAAATAACTGTGGCAACAATATGACAGTTAGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1324310 297 -   1400280 CAGCCTTTACTCTGCTTTCCAGGCACTGAGGTGAGCCAATGTGTCTTAAAGTGTAATTGTGTGCCTCACAGATTGAGTATGTGATGATCTTATTACAATGATTGTTCATGTATA--GTGTATGTGTCTATATAATTGATTTATACAGAGCAAAATTTAACACGCACATAAAATTCTGAGGGAATTCACAGGATTTGGCTAAGTAAAATAAACAATTTAACTTGATGCCTATTCAAAGAAAAATATCAAAGTTCATAGAAGAGGTGATAAATAACTGTGGCAAAAATCCTACAGCTAGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13117226 292 -  42888418 CAGCCTTTACTCTGCTTTCCAGGCACTGAGGTGAGCCAATGTGTCTTAAAGTGTAATTGTGTGCCTCACAGATTGCGTACATGATGATCTTATTACAATGGTTGTGTAAGTATAATATGTATGTGTCTACATAATTGATTTATACAGAGCAAAATTTAACAAGCACATAAAATTCTGAGGGAATTCACAGGATTTGGCTAAGTAAAATAAACAAGTTAACTTGATGCCTATTCAAAGAA-------AAAGTTCATAGGAGAGGTGATAAATAACTGCAGCAAAAATCCTACAGTTAGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60489344 287 + 108143057 CAGCCTCTACTCTGCTTTCCAGGCACTCAGAAAAACC-----TTCTTAAAGTGTAATTGTGTGTCTCATGGATCATGTATGTGATGATTATATTACAAGGATTGTATAGGTATC--ATGTATATGTCTATATAATTGATGTGCGTAGAGAAAAATAAAATTAGCACATAAAATTCTGAAAGAATTCACAGGATTTGGCTAAGTAAAATGAATG-----ACTTAATGTCTGTGTACAGAAAAATACCTAAGTTCATAGGAGAGGTGAAAAATAAAAGTGGCAAAAATTCTACAGCTAGAA
i micMur3.chr12            I 28 I 144
s proCoq1.NW_012155062v1     3519359 287 +  11683526 CAGCCTCTGCTCTGCTTCCCAGGCACTCAGATAAACC-----TTCTTAAAGTGTAATTGTGCGTCTCATGGATCATGTATGTGATGATTGTATTACAAGGATTGTATAGGTATA--ATGTATATGTCTATATAATTGATGTGTACAGAGAAAAATAAAACTAGCACATAAAATTCTGAAGGAATTCACAGGATTTGGCTAAGTAAAATGAATG-----ACTTAATGTCTATTTAAAGAAAAATACCTAAATTCATAGGAGAGGTGATAAATAAATGTGGCAAAAATTCTACAGTTAGAA
i proCoq1.NW_012155062v1   C 0 I 48
s otoGar3.GL873679           2999858 284 +   4132165 CTGC-----CTCTGCTTTCCAGGCACTGAGATAAACCAGCGTTTCTTAGGGTTCACTTGTGTGACTCGGGGATCATATATGTGATGATTGTATTATCAGAGCTGCATAGGTATA--ATCTATATGTGTAGATCATTGATTTATATGGAGAAAAAGAAAACTAGCCCATAGAACTATGAAGGAATCCACACGATTTGGCTAAGTGAAATGAATG-----ACTTA---TCTACATAAAGAAAAATATCTAAGTTCGTAGGAGAGTTGAGAAATAAATGTGGCAAAAATCATATAGTTTGAA
i otoGar3.GL873679         C 0 C 0
e canFam3.chr11             14865959  26 +  74389097 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=869211.000000
s hg38.chr5_KI270796v1_alt     15941 113 +    172708 cgta------------------------------------------------------------------------------------------ggttggtgcaaaagcaattgtggtttttgctattgcttttgatggcaaaaaccgcaattaattttgcaccaacctaataaatta-----gtttaggaaaATtatgttaaattat
s panTro5.chr5             125126041 113 + 181907262 AGta------------------------------------------------------------------------------------------ggttggtgcaaaagcaattgtggtttttgctattgctgttgatggcaaaaaccgcaattaattttgcaccaacctaaTAAATTA-----GTTTAGGAAAATTATGTTAAATTAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126463020 113 + 183735486 AGta------------------------------------------------------------------------------------------ggttggtgcaaaagcaattgtggtttttgctattgctgttgatggcaaaaaccgcaattaattttgcaccaacctaaTAAATTA-----GTTTAGGAAAATTATGTTAAATTAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1654553 113 +   8933513 AGta------------------------------------------------------------------------------------------ggttggtgcaaaagcaattgtggtttttgctattgcttttgatggcaaaaaccgcaattaattttgcaccaacctaaTAAATTA-----GTTTAGGAAAATTATGTTAAATTAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139785534 113 + 163208435 AGta------------------------------------------------------------------------------------------ggtcggtgcaaaagcaattgtggtttttgctattgctttcaatggcaaaaaccgcaattaattttgcaccaccctaaTAAATTA-----CTCTAGGAAAATTATGTTAAATTAT
i nomLeu3.chr2             C 0 I 156
s rheMac8.chr6             122771195 117 + 180051392 agta------------------------------------------------------------------------------------------ggttggtgcaaaagcaattgcggtttttgctgttactttcgatagc-aaaaccacaattaattttgcaccaacctaataagttactctagtttaggaaaATtatgttaaattat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124194866 117 + 181584905 agta------------------------------------------------------------------------------------------ggttggtgcaaaagcaattgcggtttttgctgttactttcgatagc-aaaaccacaattaattttgcaccaacctaataagttactctagtttaggaaaATTATGTTAAATTAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16192392 117 +  18395747 agta------------------------------------------------------------------------------------------ggttggtgcaaaagcaattgcggtttttgctgttactttcgatagc-aaaaccacaattaattttgcaccaacctaataagttactctagtttaggaaaATTATGTTAAATTAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5198501 117 +  26952557 AGta------------------------------------------------------------------------------------------ggttggtgcaaaagcaattgcggtttttgctgttactttcgatagc-aaaaccgcaattaattttgcaccaacctaaTAAGTTACTCTAGTTTAGGAAAATtatgttaaattat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28306299 117 +  82825804 agta------------------------------------------------------------------------------------------ggttggtgcaaaagcaattgcggtttttgctattactttcgatagc-aaaactgcaattaattttgcaccaacctaataagttactctagtttaggaaaATTATGTTAAATTAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3970416 117 -   4237731 AGta------------------------------------------------------------------------------------------ggttggtgcaaaagcaattgcggtttttgctgttattttcgatagc-aaaaccgcaattaattttgcaccaacctaaTAAGTTACTCTAGTTTAGGAAAATtatgttaaattat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      240932 111 -   1175262 AGTA-------------------------------------------------------------------------------------------GTTCTAgcaaaagcaattgcggtttttgctattactttcgatggc-aaaaccgcaattaattttgcaccaacctaaTAAGTTACTC-----TAGGAAAATTATGTTAAATTAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123574462 174 - 204313951 AGTAGGTTGGTATTGAAgggccagtg-------gtgcaatggataatgtgtc----------------------tgactacggatcagaaAGCaggttggtgcaaaagcaattgcggtttttgccgttactttcaatggc-aaaaacac----aattttgcaccaacctGATAAATTACTCTAGTTCGGGAAAATTATTTTAAATTTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55630368 173 -  71252344 AGTAGGTTGGTGTTGAAgggccagtg-------gtgcaatg-----------gataatgcatt-----------tgagtacggatcagaaAGtaggttggtgtaaaaacagttgcgggttttgccattactttcaatggc-aaaaccgcaattaattttgcaccaacctGATAGAT-----TAGTTTGGGAAAATTATTTTAAATTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1324607 179 -   1400280 AGTAGGTTGGTGTTGAAgggccagtg-------gtgcaatg----------------------gataatgcgtctgactgcagatcagaaAGtaggttggtgtaaaagcaattgtgttttttgccattactttcaatggcaaaaaccgcaattaattttgcaccaacctGATAAATTACTCTAGTTTGGGAAAATTATTTTAAATATT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13117518 178 -  42888418 AGTAGGTTGGTGTTGAAgggccagtggtacaatggataatg-----------------------------cctctgactacggatcggaaAGtaggttggtgtaaaagcaattgtggtttttgccattactttcaatggc-aaaaacacaattaattttgcaccaacctGATAAATTACTCTAGTTTGGGAAAATTATTTTAAATTTT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3000142  39 +   4132165 -------------------------------------------------------------------------------------------------------------------------------------------------------------------------AATAAATTGCTATAGTTTGGAAAAATTAGGATAGATAAT
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60489631 144 + 108143057 I
e canFam3.chr11             14865959  26 +  74389097 I
e proCoq1.NW_012155062v1     3519646  48 +  11683526 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=31243.000000
s hg38.chr5_KI270796v1_alt     16054 3 +    172708 agg
s panTro5.chr5             125126154 3 + 181907262 AGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126463133 3 + 183735486 AGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1654666 3 +   8933513 AGG
i gorGor5.CYUI01015135v1   C 0 C 0
s rheMac8.chr6             122771312 3 + 180051392 agg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124194983 3 + 181584905 AGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16192509 3 +  18395747 AGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5198618 3 +  26952557 agg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28306416 3 +  82825804 AGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3970533 3 -   4237731 agg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      241043 3 -   1175262 AGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123574636 3 - 204313951 AGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55630541 3 -  71252344 AGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1324786 3 -   1400280 AGG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13117696 3 -  42888418 AGG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3000181 3 +   4132165 AGA
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60489631 144 + 108143057 I
e canFam3.chr11             14865959 26 +  74389097 I
e proCoq1.NW_012155062v1     3519646 48 +  11683526 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I
e nomLeu3.chr2             139785647 156 + 163208435 I

a score=4187.000000
s hg38.chr5_KI270796v1_alt     16057 1 +    172708 g
s panTro5.chr5             125126157 1 + 181907262 T
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126463136 1 + 183735486 T
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1654669 1 +   8933513 G
i gorGor5.CYUI01015135v1   C 0 C 0
s rheMac8.chr6             122771315 1 + 180051392 c
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124194986 1 + 181584905 G
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16192512 1 +  18395747 G
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5198621 1 +  26952557 g
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28306419 1 +  82825804 G
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3970536 1 -   4237731 g
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      241046 1 -   1175262 G
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123574639 1 - 204313951 G
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55630544 1 -  71252344 G
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1324789 1 -   1400280 G
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13117699 1 -  42888418 G
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3519694 1 +  11683526 g
i proCoq1.NW_012155062v1   I 48 C 0
s otoGar3.GL873679           3000184 1 +   4132165 G
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60489631 144 + 108143057 I
e canFam3.chr11             14865959 26 +  74389097 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I
e nomLeu3.chr2             139785647 156 + 163208435 I

a score=1059942.000000
s hg38.chr5_KI270796v1_alt     16058 97 +    172708 atgcagagataaatat-atactggtctctacccttgaaaaaacttgcattctTTTTCTTGTTCTTCTTGGATTCCATCCAAGTTTCACTCTTACATTA
s panTro5.chr5             125126158 97 + 181907262 ATGCAGAGATAAATAT-ATACTGGTCTCTACCCTTGAAAAAACTTGCATTCTTTTTCTTATTCTTCTTGGATTTCATCCAAGTTTCACTCTCACATTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126463137 97 + 183735486 ATGCAGAGATAAATAT-ATACTGGTCTCTACCCTTGAAAAAACTTGCATTCTTTTTCTTATTCTTCTTGGATTTCATCCAAGTTTCACTCTCACATTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1654670 97 +   8933513 ATGCAGAGATAAATAT-ATACTAGTCTCTACCCTTGAAAAAACTTGCATTCTTTTTCTTGTTCTTCTTGGATTTCATCCAAGTTTCACTCTCACATTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139785803 96 + 163208435 atatagagataaatat-ataCTGGTCTCTGCCTTTG-AAAAACTTGCATTCTTTTTCTTGTTCTTCTGGGATTTCATCCAAGTTTCACTCTCACATTA
i nomLeu3.chr2             I 156 C 0
s rheMac8.chr6             122771316 96 + 180051392 atgcagagataaatat-acactggtctctacccttg-aaaaatctgcattctTTTTCTTGTTCTTCTTGGATTTCATCCAAGTTTCATTCTCACATTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124194987 96 + 181584905 ATGCAGAGATAAATAT-ACACTGGTCTCTACCCTTG-AAAAATCTGCATTCTTTTTCTTGTTCTTCTTGGATTTCATCCAAGTTTCATTCTCACATTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16192513 96 +  18395747 ATGCAGAGATAAATAT-ACACTGGTCTCTACCCTTG-AAAAATCTGCATTCTTTTTCTTGTTCTTCTTGGATTTCATCCAAGTTTCATTCTCACATTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5198622 96 +  26952557 atgcagagataaatat-acactggtctctacccttg-aaaaatctgcattctTTTTCTTGTTCTTCTTGGATTTCATCCAAGTTTCATTCTCACATTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28306420 96 +  82825804 ATGCAGAGATAAATAT-ACACTGGTCTCTACCCTTG-AAAAACCTGCATTCTTTTTCTTGTTCTTCTTGGATTTCATCCAAGTTTCATTCTCACATTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3970537 96 -   4237731 atgcagagataaatat-acactggtctctacccttg-aaaaacctgcattctTTTTCTCGTTCTTCTTGGATTTCATCCAAGTTTCGTTCTCACATTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      241047 96 -   1175262 ATGCAGAGATAAATAT-ACACTGGTCTCTACCGTTG-AAAAACCTGCATTCTTTTTCTTGTTCTTCTTGGATTTCATCCAAGTTTCATTCTCACATTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123574640 90 - 204313951 ATGCAGAGATAAATAT-ACACTGGTTTCTAACTTTG-AAAAACTTGCATTCTTT------TTCTTCTTGGGTTTCATCCAATTTTCACTCTCATGTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55630545 90 -  71252344 ATGCAGAGATAAATAT-ACACTGGTTTCTAACTTTG-AAAAACTTGCATTCTTT------TTCTTCTTGGATTTCATCCAATTTTCACTCTCACATTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1324790 90 -   1400280 ATGCAGAGATAAATAT-ACACTGGTTTCTAACTTTG-AAAAACTTGCATTCTTT------TTCTTCTTGGATTTCATCCAATTTTCACTCTCACGTTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13117700 90 -  42888418 ATGCAGAGATAAATAT-ACACTGGTTTCTAACTTTG-AAAAACTTGCATTCTTT------TTCTTCTTGGATTTCATCCAATTTTCACTCTCACGTTA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3519695 95 +  11683526 atgcaaagataaatat-acactggtccctacccttg-agaaacttgcagtttTT-TCTTTTTCTCCTTTAATTTCAACCAATTTTCACTCTCACATGC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3000185 92 +   4132165 ATGCAGAGACAAACATAAAATTGGTTCCTACCCCTA-AAGAACTTACCATTTTT-TCTTTTTCTTCTTAAATTT----CTGTTTTCACTCTCACATGC
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60489631 144 + 108143057 I
e canFam3.chr11             14865959 26 +  74389097 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=1143079.000000
s hg38.chr5_KI270796v1_alt     16155 90 +    172708 ATGTCAGCTATAGTTTTGAGATGAGTCAGCTTAATCAACTACTGGCTTTCTTTGGATG-TGAATGATATGGTAGCTCTTTAAAT-CCTGAAT
s panTro5.chr5             125126255 90 + 181907262 ATGTCAGCTATAGTTTTGAGATGAGTCAGCTTAATCAACTACTGGCTTTCTTTGGATG-TGAATGATATGGTAGCTCTTTAAAT-CCTGAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126463234 90 + 183735486 ATGTCAGCTATAGTTTTGAGATGAGTCAGCTTAATCAACTACTGACTTTCTTTGGATG-TGAATGATATGGTAGCTCTTTAAAT-CCTGAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1654767 90 +   8933513 ATGTCAGCTATAGTTTTGAGATGAGTCAGCTTAATCAACTACTGGCTTTCTTTGGATG-TGAATGATATGGTAGCTCTTTAAAT-CCTGAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139785899 90 + 163208435 ATGTCAGCTATAGTTTTGAGATGAGTCACCTTAATCAAGTACTGGCTTTCTTTGGATG-TGAATGATATGGTAGCTCTTTAAAT-CCTGAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122771412 90 + 180051392 GTGTCAGCTATGGTTTTGAGATGAGTCAGCTTAATCAACGACTAGTTTTCTTTGGATG-TGAATGATATGCTCGCTCTTTAAAT-CCTGAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124195083 90 + 181584905 GTGTCAGCTATGGTTTTGAGATGAGTCAGCTTAATCAACGACTGGTTTTCTTTGGATG-TGAATGATATGCTCGCTCTTTAAAT-CCTGAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16192609 90 +  18395747 GTGTCAGCTATGGTTTTGAGATGAGTCAGCTTAATCAACGACTGGTTTTCTTTGGATG-TGAATGATATGCTCGCTCTTTAAAT-CCTGAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5198718 90 +  26952557 GTGTCAGCTATGGTTTTGAGATGAGTCAGCTTAATCAACGACTGGTTTTCTTTGGATG-TGAATGATATGCTAGCTCTTTAAAT-CCTGAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28306516 90 +  82825804 GTGTCAGCTATGGTTTTGAGATGAGTCAGCTTAATCAACGACTGGTTTTCTTTGGATG-TGAATGATATGCTAGCTCTTTAAAT-CCTGAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3970633 90 -   4237731 GTGTCAGCTATGGTTTTAAGATGAGTCAGCTTAATCAACGACTGGTTTTCTTTGGATG-TGAATGATATGCTAGCTCTTTAAAT-CCTGAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      241143 90 -   1175262 GTGTCAGCTATGGTTTTGAGATGAGTCAGCTTAATCAACGACTGATTTTCTTTGGATG-TGAATGATATGCTAGCTCTTTAAAT-CCTGAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123574730 91 - 204313951 GTGTCAGCTATGGTTTTGAGATGAGTCAGCTTAATCAACTACTGGTTTTCTTTGGATG-TGAGTGATATGGTAGCACTTTGAATCCCTCAAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55630635 91 -  71252344 GTGTCAGCTATGGTTTTGAGACGAGTCAGCTTAATCAACTGCTGGTTTTCTTTGGTTA-TGAATTATATGGTAGCTCTTTGAATCCCTGAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1324880 91 -   1400280 GTGTCAGCTATGGTTTTGAGATGAGTCAGCTTAATCAACTGCTGGTTTTCTTTGGATG-TGGATGATACGGTAGCTCTTTGAATACCTGAAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13117790 92 -  42888418 GTGTCAGCTATGGTTTTGAAACGAGTCAGCTTAATCAGCTGCTGGTTTTCTTTGGATGTTGAGTGATATGGTAGCTCTTTGAATCCCTGAAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60489775 90 + 108143057 ATGTCAGCGATGGTTTTAAGATGAGTCAGCTTCATCAACTACTGGTTTTCTTTGGTTC-TGAATGAATTGGCAGCTTTTGAATC-CCTAAAT
i micMur3.chr12            I 144 C 0
s proCoq1.NW_012155062v1     3519790 90 +  11683526 ATGTCAGCGATAGTTTTGAGATGAGTCAGCTTAATCAGCTACTAATTTTCATTGCGTC-TGAATGATGTGGCAGCTTTTGAATC-CCTAAAT
i proCoq1.NW_012155062v1   C 0 I 65
s otoGar3.GL873679           3000277 90 +   4132165 AGGTCAGCTGTAGATTAGAAATGAATCAGCTTCATCAACTACTAACTTTCTTGGGGTC-TGAATGATATAGGAGCTTTTGAATT-TCTAAAT
i otoGar3.GL873679         C 0 C 0
e canFam3.chr11             14865959 26 +  74389097 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=427826.000000
s hg38.chr5_KI270796v1_alt     16245 37 +    172708 GTTGTGAGTACCTTGGAAGAGAAGCAAGGTAACTTCT
s panTro5.chr5             125126345 37 + 181907262 GTTGTGAGTACCTTGAAAGAGAAGCAAGGTAACTTCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126463324 37 + 183735486 GTTGTGAGTACCTTGAAAGAGAAGCAAGGTAACTTCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1654857 37 +   8933513 GTTGTGAGTACCTTGGAAGAGAAGCAAGGTAACTTCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139785989 37 + 163208435 GTTGTGAGTACCTTGGAAGAGAAGCAAGGTAACTTCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122771502 37 + 180051392 GTTGTGAGTACCTTGGAAGAGAAGCAAGATAACTTCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124195173 37 + 181584905 GTTGTGAGTACCTTGGAAGAGAAGCAAGATAACTTCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16192699 37 +  18395747 GTTGTGAGTACCTTGGAAGAGAAGCAAGATAACTTCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5198808 37 +  26952557 GTTGTGAGTACCTTGGAAGAGAAGCAAGATAACTTCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28306606 37 +  82825804 GTTGTGAGTACCTTGGAAGAGAAGCAAGATAACTTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3970723 37 -   4237731 GTTGTGAGTACCTTGGAAGAGAAGCAAGATAACTTCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      241233 37 -   1175262 GTTGTGAGTACCTTGGAAGAGAAGCAAGATAACTTCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123574821 37 - 204313951 GTTGTGAGTACCTTGAAAGAGAAGCAATGTAACTTCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55630726 37 -  71252344 GTTGTGAGTACCTTGGAAAAGAAGCAATGTAACTTCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1324971 37 -   1400280 GTTGTGAGTACCTTGGAAGAGAAGCAATGTAACTTCT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13117882 37 -  42888418 GTTGTGAGTACCTTGGAAGAGAAGCAATGTAACTTCT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60489865 29 + 108143057 -------GTGCCTTGG-AGAGTAGCAGGGTATCTCCT
i micMur3.chr12            C 0 I 36
s otoGar3.GL873679           3000367 29 +   4132165 -------GTGCCTTAG-AGAGAAGTGAAGTAATACCT
i otoGar3.GL873679         C 0 C 0
e canFam3.chr11             14865959 26 +  74389097 I
e proCoq1.NW_012155062v1     3519880 65 +  11683526 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=406909.000000
s hg38.chr5_KI270796v1_alt     16282 40 +    172708 GCACCTCGTCCAATAATCAGTTTACTTGGGGGATTTGTCA
s panTro5.chr5             125126382 40 + 181907262 GCACCTCGTCCAATAATCAGTTTACTTGGGGGATTTGTCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126463361 40 + 183735486 GCACCTCGTCCAATAATCAGTTTACTTGGGGGATTTGTCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1654894 40 +   8933513 GCACCTCGTCCAATAATCAGTTTACTTGGGGGATTTGTCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139786026 40 + 163208435 GCACCTCGTCCAATAATCAGTTTACTTGGGGGATTTGTCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122771539 40 + 180051392 GCACCTCATCCAAGAATCAGTTTACTTGGGAGATTTGTCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124195210 40 + 181584905 GCACCTCATCCAAGAATCAGTTTACTTGGGAGATTTGTCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16192736 40 +  18395747 GCACCTCATCCAAGAATCAGTTTACTTGGGAGATTTGTCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5198845 40 +  26952557 GCACCTCATCCAAGAATCAGTTTACTTGGGAGATTTGTCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28306643 40 +  82825804 GCACCTCATCCAAGAATCAGTTTACTTGGGAGATGTGTCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3970760 40 -   4237731 GCACCTCATCCAAGAATCAGTTTACTTGGGAGATTTGTCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      241270 40 -   1175262 GCACCTCATCCAAGAATCAATTTACTTGGGGGATTTGTCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123574858 40 - 204313951 GCACCTTGTCCAGTGATTGGTTTACTTGGAGGATTTGTCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55630763 40 -  71252344 GCACCTTGTCCAGTGATTGGTCTACTTGGAGGATTTGTCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1325008 40 -   1400280 GCACCTTGTCCAGTGATTGGTTTACTTGGGGGATTTGTCA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13117919 40 -  42888418 GCACCTTGTCCAGTGATTGGTTTACTTGGAGGATTTGTCA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3000396 39 +   4132165 -TACCTTGTCCAATGATTGGCCTAGCTCAGGGATTGGCTG
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60489894 36 + 108143057 I
e canFam3.chr11             14865959 26 +  74389097 I
e proCoq1.NW_012155062v1     3519880 65 +  11683526 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=1108293.000000
s hg38.chr5_KI270796v1_alt     16322  96 +    172708 TCAGTCCTCAGAGAAGTGAGTCACAGCAGTTACCATCTTCGGGCACTTTCAGCAGGCCACAGCAATAAGTTACTGATACACACTGGAAATTTTAA--------C
s panTro5.chr5             125126422  96 + 181907262 TCAGTCCCCAGAGAAGTGAGTCACAGCAGTTACCGTCTTAGGGCACTTTCAGCAGGCCACAGCAATAAGTTACTGATATACACTGGAAATTTTAG--------C
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126463401  96 + 183735486 TCAGTCCCCAGAGAAGTGAGTCACAGCAGTTACCGTCTTAGGGCACTTTCAGCAGGCCACAGCAATAAGTTACTGATATACACTGGAAATTTTAG--------C
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1654934  96 +   8933513 TCAGTCCCCAGAGAAGTGAGTCACAGCAGTTACCATCTTAGGGCACTTTCAGCAGGCCGCAGCAATAAGTTACTGATATACACTGGAAATTTTAG--------C
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139786066  96 + 163208435 TCAGTCCCCAGAGAAGTGAGTCACAGCAGTTACCATCTTAGGGCACTTTCAGCAGGCCACAGTGATAAATTACTAATATACACTGGAAATTTTAG--------C
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122771579 104 + 180051392 TCAGTCCCCAGAGAAGTGAGTCACAGCAGTTACCATCTTAGGGCACTTTAAGCAGGCCACAGTAATAAGTTACTAATATACACTGGACATTTTAGCTATTTACC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124195250 104 + 181584905 TCAGTCCCCAGAGAAGTGAGTCACAGCAGTTACCATCTTAGGGCACTTTAAGCAGGCCACAGTAATAAGTTACTAATATACACTGGACATTTTAGCTATTTACC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16192776 104 +  18395747 TCAGTCCCCAGAGAAGTGAGTCACAGCAGTTACCATCTTAGGGCACTTTAAGCAGGCCACAGTAATAAGTTACTAATATACACTGGACATTTTAGCTATTTACC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5198885 104 +  26952557 TCAGTCCCCAGAGAAGTGAGTCACAGCAGTTACCATCTTAGGGCACTTTAAGCAGGCCACAGTAATAAGTTACTAATATACACTGGACATTTTAGCTATTTACC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28306683 104 +  82825804 TCAGTCCCCAGAGAAGTGAGTCACAGCAGTTACCATCTTAGGGCACTTTAAGCAGGCCACAGTAATAAGTTACTAATATACACTGGACATTTTAGCTATTTACC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3970800 104 -   4237731 TCAGTCCCCAGAGAAGTGAGTCACAGCAGTTACCATCTTAGGGCACTTTAAGCAGGCCACAGTAATAAGTTACTAATATACACTGGACATTTTAGCTATTTACC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      241310 104 -   1175262 TCAGTCCCCAGAGAAGTGAGTCACAGCAGCTACAGTCTTAGGGCACTTTAAGCAGGCCACAGTGATAAGTTACTAATATACACTGGACATTTTAGCTATTTACC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123574898  88 - 204313951 TCAGTCCCTAG-GAAGTGAGTCACAGTAGTTACCA-------GCACTTTCAGCAGGCCACAGTGATAAGTTACTCATGTATGCTGGAAATTCTAG--------C
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55630803  78 -  71252344 TCGGTCCCCAGAAAAGTGAGTCACAGTACTTACCA-------GCTCTTTCAGC-----------ATAAGTTACTCATGTACACTGGAAATTCTag--------c
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1325048  89 -   1400280 TCAGTCCCCAGAGAAGTGAGTCACAGTAGTTACCA-------GCACTTTCAGCAGGCCACAGTGATAAGTTACTCATGTACACTGGAAATTCTAG--------C
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13117959  89 -  42888418 TCAGTCCCCAGAGAAGTGAGTCACAGTAGTTACCA-------GCACTTTCAGCAGGCCACAGTGATAAGTTACTCATGTACACTGGAAATTCTAG--------C
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60489930  95 + 108143057 ACAGTCCCTAGAGAAGAGAGTCACAACAGTTACCAT-CTAGGGCACTCTCAGCAGGCCACAGCAATAAGTTATCAATTGACACTGGAAATTCTAA--------C
i micMur3.chr12            I 36 C 0
s proCoq1.NW_012155062v1     3519945  96 +  11683526 TCAGTCCCTAGAGAAGGGAGTCACAACAGTTATCATACTAGGGCACTTTCAGTAGGCCACAGCGATAAGTTATCAATTGACACTGGAAATTCTAA--------C
i proCoq1.NW_012155062v1   I 65 C 0
s otoGar3.GL873679           3000435  86 +   4132165 ----------GCTTAGAGTGTCCCATCAATTATCATCCTACGTCATTCTCAGGAGGCCACAATAATAAGTTATTGATTTATGCTGGAAATTCTAA--------C
i otoGar3.GL873679         C 0 C 0
e canFam3.chr11             14865959  26 +  74389097 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=841885.000000
s hg38.chr5_KI270796v1_alt     16418 76 +    172708 TATTTACTAG-TTTGGAATACTTCAGTCAACCCATCAAGTTACTCCTCCCATTGGGGAAAGTAAATTAAGATCAGAA
s panTro5.chr5             125126518 76 + 181907262 TATTTACTAG-TTTGGAATACTTCAGTCAACCCATCAAGGTACTCCTCCCATTGGGGAAAGTAAATTAAGATCAGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126463497 76 + 183735486 TATTTACTAG-TTTGGAATACTTCAGTCAACCCATCAAGGTACTCCTCCCATTGGGGAAAGTAAATTAAGATCAGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655030 76 +   8933513 TATTTACTAG-TTTGGAATACTTCAGTCAACCCATCAAGGTACTCCTCCCATTGGGGAAAGTAAATTAAGATCAGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139786162 76 + 163208435 TATTTACTAG-TTTGGAATACTTCAGTCAACCCATCAAGGCACTCCTCCCATTGGGGAAAGTAAATTAAGACCAGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122771683 77 + 180051392 TATTTACTAGTTTTGGAATACTTAGGTTAACCCATCAAGGTACTCCTCCCATTGGGGAAAGTAAATTAAGATCAGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124195354 77 + 181584905 TATTTACTAGTTTTGGAATACTTAAGTTAACCCATCAAGGTACTCCTCCCATTGGGGAAAGTAAATTAAGATCAGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16192880 77 +  18395747 TATTTACTAGTTTTGGAATACTTAAGTTAACCCATCAAGGTACTCCTCCCATTGGGGAAAGTAAATTAAGATCAGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5198989 77 +  26952557 TATTTACTAGTTTTGGAATACTTAAGTTAACCCATCAACGTACTCCTCCCATTGGGGAAAGTAAATTAAGATCAGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28306787 77 +  82825804 TATTTACTAGTTTTGGAATACTTAAGTTAACCCATCAAGGTACTCCTCCCATTGGGGAAAGTAAATTAAGATCAGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3970904 77 -   4237731 TATTTACTAGTTTTGGAATACTTAAGTTAACCCATCAAGGTACTCCTCCCATTGGGGAAAGTAAATTAAGATCAGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      241414 77 -   1175262 TATTTACTAGTTTTGGAATACTTAAGTTAACCCATCAAGGTACTCCTCCCATTGGGGAAAGTAAATTAAGATCAGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123574986 71 - 204313951 TATTTACTAG-TTTGGGATATTTGAGTCAGCCCATCAAGGTACTCCTCCCACTGTGGAAAGTAAATTA-----AGAA
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1325137 76 -   1400280 TATTTACTAG-TTTGGGATATTTGAGTCGGCCCATCAAGGTACTCCTCCCATTGGGGAAGGTAAATTAAGATGAGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13118048 71 -  42888418 TATTTACTAG-TTGGGGATATTTGAGTCAGCCTATCAAGGTACTCCTCCCATTGGGGAAAGTAAATTA-----AGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60490025 76 + 108143057 TATTAACCAG-TTTGAAATACTTGAGTCAATCCAATAGGGTACCCCTTCCATTGGGGAAAGTAAATTAAGACCAGAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3520041 76 +  11683526 TATTAACCAG-TTTGAAATACTTGAGTCCACCCATCAGGGTACTCCTCCCATTGGTTaaggtaaattaagatcagaa
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3000521 63 +   4132165 TATTAACCAG-TTGTA-------------ACCTGTTGGGTTACTCCTCCCATTGGGAAAAATAAATTAAGATCGGAT
i otoGar3.GL873679         C 0 C 0
e canFam3.chr11             14865959 26 +  74389097 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I
e saiBol1.JH378106          55630881  0 -  71252344 C

a score=13600.000000
s hg38.chr5_KI270796v1_alt     16494 1 +    172708 G
s panTro5.chr5             125126594 1 + 181907262 G
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126463573 1 + 183735486 G
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655106 1 +   8933513 G
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139786238 1 + 163208435 G
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122771760 1 + 180051392 G
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124195431 1 + 181584905 G
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16192957 1 +  18395747 G
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5199066 1 +  26952557 G
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28306864 1 +  82825804 G
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3970981 1 -   4237731 G
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      241491 1 -   1175262 G
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575057 1 - 204313951 G
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1325213 1 -   1400280 G
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13118119 1 -  42888418 G
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60490101 1 + 108143057 G
i micMur3.chr12            C 0 I 85
s otoGar3.GL873679           3000584 1 +   4132165 G
i otoGar3.GL873679         C 0 C 0
e canFam3.chr11             14865959 26 +  74389097 I
e proCoq1.NW_012155062v1     3520117 0 +  11683526 C
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I
e saiBol1.JH378106          55630881 0 -  71252344 C

a score=32760.000000
s hg38.chr5_KI270796v1_alt     16495 3 +    172708 TTT
s panTro5.chr5             125126595 3 + 181907262 TTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126463574 3 + 183735486 TTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655107 3 +   8933513 TTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139786239 3 + 163208435 TTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122771761 3 + 180051392 TTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124195432 3 + 181584905 TTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16192958 3 +  18395747 TTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5199067 3 +  26952557 TTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28306865 3 +  82825804 TTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3970982 3 -   4237731 TTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      241492 3 -   1175262 TTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575058 3 - 204313951 TTT
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1325214 3 -   1400280 TTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13118120 3 -  42888418 TTT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3000585 3 +   4132165 TTT
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60490102 85 + 108143057 I
e canFam3.chr11             14865959 26 +  74389097 I
e proCoq1.NW_012155062v1     3520117 0 +  11683526 C
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I
e saiBol1.JH378106          55630881 0 -  71252344 C

a score=388336.000000
s hg38.chr5_KI270796v1_alt     16498 46 +    172708 GGGACGAAATTgtggcttatgcctgtaattctagcactttgggatg
s panTro5.chr5             125126598 46 + 181907262 GGGACGAAGTTgtggcttatgcctgtaattctagcactttgggatg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126463577 46 + 183735486 GGGACGAAGTTgtggcttatgcctgtaattctagcactttgggatg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655110 46 +   8933513 GGGACGAAGTTgtggcttatgcctgtaattctagcactttgggatg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139786242 46 + 163208435 GGGATGAAgtggtggcttatgtctgtaattctagcactttgggatg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122771764 46 + 180051392 GGGACGAAgtggtggcttatgcctgtaatcctagcactatgggatg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124195435 46 + 181584905 GGGACGAAgtggtggcttatgcctgtaatcctagcactatgggatg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16192961 46 +  18395747 GGGACGAAgtggtggcttatgcctgtaatcctagcactatgggatg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5199070 46 +  26952557 GGGACGAAgtggtggcttatgcctgtaatcctagcactatgggatg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28306868 46 +  82825804 GGGACGAAgtggtggcttatgcctgtaatcctagcactttgggatg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3970985 46 -   4237731 GGGACGAAgtggtggcttatgcctgtaatcctagcactatgggatg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      241495 46 -   1175262 GGGACGAAgtggtggcttatgcctgtaatcctaccactttgggatg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575061 46 - 204313951 AGAATGAAgcggtggcttatgtctgtaatcccagcactttgggaat
i calJac3.chr2             C 0 I 4
s cebCap1.NW_016107829v1     1325217 46 -   1400280 GGAGTGAAGTAgtggcttatgcctgtaatcccggcactttgggaat
i cebCap1.NW_016107829v1   C 0 I 4
s aotNan1.NW_018505940v1    13118123 46 -  42888418 GGAATGAAgtggtggcttatgcctgtaatcccagcactttgggaat
i aotNan1.NW_018505940v1   C 0 I 4
e micMur3.chr12             60490102 85 + 108143057 I
e canFam3.chr11             14865959 26 +  74389097 I
e proCoq1.NW_012155062v1     3520117  0 +  11683526 C
e otoGar3.GL873679           3000588  0 +   4132165 C
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I
e saiBol1.JH378106          55630881  0 -  71252344 C

a score=2487889.000000
s hg38.chr5_KI270796v1_alt     16544 267 +    172708 ccgaggcaggaggattacttgagtccaggaattcaaagccagcctaggcaacgtagcaagaccctgtctctaaaaaataaaaataaaaaa-gttagccaggcatagtgg--tatatgcttgtagtcccagctactcagcaggctgaggtgggaggtggaacctgggaggtggacgttgcagtgagccgtgatagcactgctacacttcagcctaagtgatagagtgagatcctgtctctg-------aaaaaagaa--------------aaaaaaaa---aaaaCAGA---TAGGT
s panTro5.chr5             125126644 262 + 181907262 ccgaggcaggaggattacttgagtccaggaattcaaagccagcctaggcaacgtagcaagaccctgtctctaaaaagtaaaaataaaaaa-attagccaggcatggtgg--tatatgcttgtagtcccagctactcagcaggctgaggtgggaggtggaacctgggaggtggacgttgcagtgagccgtgatagcactgctacacttcagcctaagtgatagagtgagatcctgtctctg-------aaaaaagaa--------------aaaaaaaa--------aGA---TAGGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126463623 262 + 183735486 ccgaggcaggaggattacttgagtccaggaattcaaagccagcctaggcaacgtagcaagaccctgtctctaaaaagtaaaaataaaaaa-attagccaggcatggtgg--tatatgcttgtagtcccagctactcagcaggctgaggtgggaggtggaacctgggaggtggacgttgcagtgagccgtgatagcactgctacacttcagcctaagtgatagagtgagatcctgtctctg-------aaaaaagaa--------------aaaaaaaa--------aGA---TAGGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655156 268 +   8933513 ccgaggcaggaggattacttgagtccaggaattcaaagccagcctaggcaacgtagcaagaccctgtctctaaaaaataaaaataaaaaa-attagccaggcatggtgg--tatatgcttgtagtcccagctactcagcaggctgaggtgggaggtggaacctgggaggtggacgttgcagtgagctgtgatagcactgctacacttcagcctaagtgatagagtgagatcctgtctctg-------aaaaaagaa--------------aaaaaaaa--aaaaaaaGA---TAGGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139786288 261 + 163208435 ccgaggcaggaggattacttgagtccaggaattcaaagccagcctaggcaacgtagcaagaccctgtctctaaaaaata-----aaaaaa-attagccaggcatggtgg--tacatgcttgtagtcccatctactcagcaggctgaggtgggaggcggaacctgggaggtggaggttgcagtgagctgtgatagcactgctacacttcagcctgagtgatagagtgagatcctgtctctg-------aaaaaagga--------------aaaaaaaa----gaaaaGA---TAGGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122771810 275 + 180051392 ctgaggcaggagaatcacttgagttcaggaattcaaggccagcctaggcaacagagcaagaccctgtctctaaaaaataaaaataaaaaa-attagccggccatggtggtatatatgcttgtagtcccagcttctcagcaggctgaggtgggaggtggaacctgggaggtggaggttgcagtgagccgtgatagcactgctacacttcagcctgagtgatagagtgagatcctatctctg-------aaaaaagga--------------aaaaaaaaaaaaaaaaaaaAGATAGGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124195481 272 + 181584905 ctgaggcaggagaatcacttgagttcaggaattcaaggccagcctaggcaacagagcaagaccctgtctctaaaaaataaaaataaaaaa-attagccggccatggtggtatatatgcttgtagtcccagcttctcagcaggctgaggtgggaggtggaacctgggaggtggaggttgcagtgagccgtgatagcactgctacacttcagcctgagtgatagagtgagatcctatctctg-------aaaaaagga--------------aaaaaaaaaaaaaaaaaGA---TAGGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16193007 275 +  18395747 ctgaggcaggagaatcacttgagttcaggaattcaaggccagcctaggcaacagagcaagaccctgtctctaaaaaataaaaataaaaaa-attagccggccatggtggtatatatgcttgtagtcccagcttctcagcaggctgaggtgggaggtggaacctgggaggtggaggttgcagtgagccgtgatagcactgctacacttcagcctgagtgatagagtgagatcctatctctg-------aaaaaagga--------------aaaaaaaaaaaaaaaaaaaaaGAAGGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5199116 272 +  26952557 ccgaggcaggagaatcacttgagtccaggaattcaaggccagcctaggcaacagagcaagaccctgtctctaaaaaataaaaataaaaaa-attagccggccatggtggtatatatgcttgtagtcccagcttctcagcaggctgaggtgggaggtggaacctgggaggtggaggttgcagtgagccgtgatagcactgctacacttcagcctgagtgatagagtgagatcctatctctg-------aaaaaagag--------------agaaaaaaaaaaaaaaaGA---TAGGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28306914 279 +  82825804 ccgaggcaggagaatcacttgagtccaggaattcaaggccagcctaggcaacagagcaagaccctgtctctaaaaaataaaaataaaaaa-attagctggccatggtggtatatatgcttgtagtcccagcttctcagcaggctgaggtgggaggtggaacctgggaggtggaggttgcagagagccgtgatagcactgctacacttcagcctgagtgatagagtgagatcctgtctctgaaaaaaaaaaaaaaaa--------------aaaaaaaaaaaaaaaaaGA---TAGGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3971031 271 -   4237731 ccgaggcaggagaatcacttgagttcaggaattcaaggccagcctaggcaacagagcaagaccctgtctctaaaaaataaaaataaaaaa-attagccggccatggtggtatatatgcttgtagtcccagcttctcagcaggctgaggtgggaggtggaacctgggaggtggaggttgcagtgagccgtgatagcactgctacacttcagcctgagtaatagagtgagatcctatctctg--------aaaaaagg--------------aaaaaaaaaaaaaaaaaGA---TAGGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      241541 269 -   1175262 ccgaggcaggagaattacttgagtccaggaactcaaggccagcctaggcaacagagcaagaccctgtctctaaaaaataaaaataaaaaa-attagccggccatggtggtatatatgcttgtagtcccagctactcagcaggctgaggtgggaggtggaacctgggaggtggaggttgcagtgagccgtgatagcactgctacacttcagcctgagtgatagagtgagatcctgtctctg-------aaaaaagg-----------------aaaaaaagaaaaaaaGA---TAGGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575111 264 - 204313951 ctgaggcaggaggattacctgagtccaggatttcaaagccagcctaggcaatgtagcaagaccctgtctctaaaaagtaaaaataaaaaagattagcctggcatggtga--tatgtgctagtagtcccagctactgggcaggctgaagtaggaggtggagcctgggaggtggagg-tacagtgagccacgataacactgctacacttcagcctgagtgatagagtgaaaccctgtctctt-------gaaaaaaga--------------aaaaataa------aaaGA---TAGGT
i calJac3.chr2             I 4 C 0
s saiBol1.JH378106          55630881 279 -  71252344 ctgaggcaggaggattacttgagtccgggagttcaaagccagcctaggcaacatagcaagaccctgtctctaaaaagtaaaaataaaaaaaagtagcccggcatggtga--tatgtgcttgtagtcccagctactgggcaggctgaagtaggaagtagagcctgggaggtggaggttgcagtgagccccgataacactgctacacttcagcctgagtgatagagtgagaccctgtctctt-------gacagaagaagaagaagaagaagaaaaaaaa------aaAGA---TAGGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1325267 258 -   1400280 ctgaggcaggaggattacttgagtccaggagttcaaagccagcctaggcaatgtagcaagaccctgtctctaaaaaataaaaataaaaaa-attagttcgacatggtgg--tatgtgcttgtagtcccagctactgggcaggctgaggtaggaggtggagcctgggaagtggaggttgcagtgagccatgataacgctgctacacttcagcctgagtgatagagtgagaccctgtctctt-------gaaaaaaga--------------aaaaaaaa---------------aGGT
i cebCap1.NW_016107829v1   I 4 C 0
s aotNan1.NW_018505940v1    13118173 258 -  42888418 ctgaggcaggatgattacttgagtccaggagttcaaagccagcctaggcaatgtagcaagaccctgtctctaaaaaggaaaaataaaaaaaattagccctgcatggtgt--tatgtgcttgtagtcccagctactgggcaagctgaagtaggaggtggagcctgggaggtggaggttgcagtgagccacgataacactgctacacttcagcctgagtgatagagtgagtccctgtctctt-------ga---------------------aaaaaaaa------aaaGA---TAGGT
i aotNan1.NW_018505940v1   I 4 C 0
e micMur3.chr12             60490102  85 + 108143057 I
e canFam3.chr11             14865959  26 +  74389097 I
e proCoq1.NW_012155062v1     3520117   0 +  11683526 C
e otoGar3.GL873679           3000588   0 +   4132165 C
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=29406.000000
s hg38.chr5_KI270796v1_alt     16811 4 +    172708 GCCC
s panTro5.chr5             125126906 4 + 181907262 GCCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126463885 4 + 183735486 GCCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655424 4 +   8933513 GCCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139786549 4 + 163208435 GCCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122772085 4 + 180051392 GGCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124195753 4 + 181584905 GGCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16193282 4 +  18395747 GGCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5199388 4 +  26952557 GGCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28307193 4 +  82825804 GGCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3971302 4 -   4237731 GACT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      241810 4 -   1175262 GCTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575375 4 - 204313951 GCCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55631160 4 -  71252344 GCCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1325525 4 -   1400280 GCCT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13118431 4 -  42888418 GCCT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3520117 4 +  11683526 gcct
i proCoq1.NW_012155062v1   C 0 C 0
e micMur3.chr12             60490102 85 + 108143057 I
e canFam3.chr11             14865959 26 +  74389097 I
e otoGar3.GL873679           3000588 0 +   4132165 C
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=596408.000000
s hg38.chr5_KI270796v1_alt     16815 54 +    172708 GCTTGGTGATTAATGTATCAAACCCAAAGGAGATGAATGATTTACAAGTTTGGT
s panTro5.chr5             125126910 54 + 181907262 GCTTGGTGATTAATGTATCAAAACCAAAGGAACTGAATGATTTACAAGTTTGGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126463889 54 + 183735486 GCTTGGTGATTAATGTATCAAAACCAAAGGAACTGAATGATTTACAAGTTTGGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655428 54 +   8933513 TCTTGGTGATTAATGTGTCAAACCCAAAGGAACTGAATGATTTACAAGTTTGGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139786553 54 + 163208435 GCTTGGTGATTAATGTATCAAAACCAAAGGAACTGAGTGATTTACAAGTTTGGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122772089 54 + 180051392 GCTTGGTGATTAATGTGTCAAAACCAAAGGAACTGAATGATTTTCAAGTTTGGT
i rheMac8.chr6             C 0 I 770
s macFas5.chr6             124195757 54 + 181584905 GCTTGGTGATTAATGTGTCAAAACCAAAGGAACTGAATGATTTTCAAGTTTGGT
i macFas5.chr6             C 0 I 770
s macNem1.NW_012012355v1    16193286 51 +  18395747 GCTTGGTGATTAATGTGTCAAAACCAA--GAACTG-ATGATTTTCAAGTTTGGT
i macNem1.NW_012012355v1   C 0 I 763
s cerAty1.NW_012002512v1     5199392 54 +  26952557 GCTTGGTGATTAATGTGTCAAAACCAAAGGAACTGAATGATTTTCTAGTTTGGT
i cerAty1.NW_012002512v1   C 0 I 742
s chlSab2.chr23             28307197 54 +  82825804 GCTTGGTGATTAATGTGTCAAAACCAAAGGAACTGAATGATTTTCAAGTTTGGT
i chlSab2.chr23            C 0 I 770
s manLeu1.NW_012103321v1     3971306 54 -   4237731 GCTTGTTGATTAATGTGTCAAAACCAAAGGAACTGAATGATTTTCAAGTTTGGT
i manLeu1.NW_012103321v1   C 0 I 770
s colAng1.NW_012119644v1      241814 54 -   1175262 CCTTGGTGATTAATGTGTCAAAACCAAAGGAATGGAATGATTTTCAAGTTTGGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575379 54 - 204313951 GCTTGGTGATTAATGTATCAAAACAAAAGGAACTAAATGATTTATAAGTCTGGT
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55631164 54 -  71252344 GCTTGGTGTTTAATGTATCAAAACAAAAGGAACTAAATGATTTATAAATCTGGT
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107829v1     1325529 54 -   1400280 GCTTGGTGATTAATGTATCAAAACAAAAGGAACTAAATGATTTATAAATCTGGT
i cebCap1.NW_016107829v1   C 0 I 1
s aotNan1.NW_018505940v1    13118435 54 -  42888418 GCTTGATGATTAATGTATCAAAACAAAAGGAACTAAATGATTTATAAATCTGGT
i aotNan1.NW_018505940v1   C 0 I 1
s proCoq1.NW_012155062v1     3520121 54 +  11683526 gcttggtgattaatgaatcaaaacaaaaggaactgaattgtttaaaggTTTGGT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3000588 51 +   4132165 GCT---TGATTAATGAATCAAAACAAAGGGAACTGAACTGTTTATCAGTTTTGG
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60490102 85 + 108143057 I
e canFam3.chr11             14865959 26 +  74389097 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=339005.000000
s hg38.chr5_KI270796v1_alt     16869 30 +    172708 TCCAAAACCTCTTTTAGAAGTCAATCAGTT
s panTro5.chr5             125126964 30 + 181907262 TCCAAAACCTCTTTTAGAAGTCAATCAGTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126463943 30 + 183735486 TCCAAAACCTCTTTTAGAAGTCAATCAGTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655482 30 +   8933513 TCCAAAACCTCTTTTAGAAGTCAATCAGTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139786607 30 + 163208435 TCCAAAACCTCTTTTAGAAGTCAATCAGTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122772913 30 + 180051392 tCCAAAACCTCTTTTAGAAGTCATTCAGTT
i rheMac8.chr6             I 770 C 0
s macFas5.chr6             124196581 30 + 181584905 tCCAAAACCTCTTTTAGAAGTCATTCAGTT
i macFas5.chr6             I 770 C 0
s macNem1.NW_012012355v1    16194100 30 +  18395747 tCCAAAACCTCTTTTAGAAGTCATTCAGTT
i macNem1.NW_012012355v1   I 763 C 0
s cerAty1.NW_012002512v1     5200188 30 +  26952557 tCCAAAACCTCTTTTAGAAGTCAATCAGTT
i cerAty1.NW_012002512v1   I 742 C 0
s chlSab2.chr23             28308021 30 +  82825804 tCCAAAACCTCTTTTAGAAGTCAATTAGTT
i chlSab2.chr23            I 770 C 0
s manLeu1.NW_012103321v1     3972130 30 -   4237731 tCCAAAACCTCTTTTAGAAGTCAATCAGTT
i manLeu1.NW_012103321v1   I 770 C 0
s colAng1.NW_012119644v1      241868 30 -   1175262 TCCAAAACCTCTTTTAGAAGTCAATCAGTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575434 30 - 204313951 CCCAGAACCTGTTTTAGAAGTCAATCAGTT
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55631219 30 -  71252344 CCCAGAACCTGTTTTAGAAGTCAATCAGTT
i saiBol1.JH378106         I 1 C 0
s cebCap1.NW_016107829v1     1325584 30 -   1400280 CCCAGAACCTGTTTTAGAAGTCAATCAGTT
i cebCap1.NW_016107829v1   I 1 C 0
s aotNan1.NW_018505940v1    13118490 30 -  42888418 CCCAGAACCTGTTTTAGAAGTCAATCAGTT
i aotNan1.NW_018505940v1   I 1 C 0
s proCoq1.NW_012155062v1     3520175 30 +  11683526 TCCAAGAGATCTTTTAGAACTTAATCAGTT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3000639 26 +   4132165 GCTAAGAGATATTTTCAA----GATCAGTT
i otoGar3.GL873679         C 0 I 4
e micMur3.chr12             60490102 85 + 108143057 I
e canFam3.chr11             14865959 26 +  74389097 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=1497179.000000
s hg38.chr5_KI270796v1_alt     16899 138 +    172708 GTTTAATTTGAAATTCTCATTCTCTCTCTTTATATATATATATATAC-TTTTTTCTCTCCTACCAACTGGAGTTTATGATATAGTTA-TTTACTCAGGTTAAACTAAAAAATAATTCC--TTC-TTTTTGGGAAAGAAATATA
s panTro5.chr5             125126994 136 + 181907262 GTTTAATTTGAAATTCTCATTCTCTCTCTT--TATATATATATATAA-TTTTTTCTCTCCTACCAACTGGAGTTTATGATATAGTTA-TTTACTCAGGTTAAACTAAAAAATAATTCC--TTC-TTTTTGGGGAAGAAATATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126463973 134 + 183735486 GTTTAATTTGAAATTCTCATTCTCTCTCTT----TATATATATATAA-TTTTTTCTCTCCTACCAACTGGAGTTTATGATATAGTTA-TTTACTCAGGTTAAACTAAAAAATAATTCC--TTC-TTTTTGGGGAAGAAATATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655512 134 +   8933513 GTTTAATTTGAAATTCTCATTCTCTCTCTT----TATATATATATAA-TTTTTTCTCTCCTACCAACTGGAGTTTATGATATAGTTA-TTTACTCAGGTTAAACTAAAAAATAATTCC--TTC-TTTTTGGGAAAGAAATATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139786637 134 + 163208435 GCTTCATTTGAAATTCTCATTCTCTCTCTT--TATATATATATATAA-TTTTTTCTCTCCTACCAACTGGAGTTTATG--ACAGTTA-TTTACTCAGGTTAAACTGAAAAATAATTCC--TTC-TTTTTGGGAAGGAAATATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122772943 135 + 180051392 GTTTAATTTGAAATTTGCATTCTCTCTCTT----TATATATAAGTAA-TTTTTTCTCTCTTACAAACTGGAGTTTATGATATACTTA-TTTACTCAGGTTAAACTAAAAAATAATTCC--TTCTTTTTTGGGAAGGAAATATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124196611 135 + 181584905 GTTTAATTTGAAATTTGCATTCTCTCTCTT----TATATATAAGTAA-TTTTTTCTCTCCTACAAACTGGAGTTTATGATATACTTA-TTTACTCAGGTTAAACTAAAAAATAATTCC--TTCTTTTTTGGGAAGGAAATATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16194130 135 +  18395747 GTTTAATTTGAAATTTGCATTCTCTCTCTT----TATATATAAGTAA-TTTTTTCTCTCCTACAAACTGGAGTTTATGATATACTTA-TTTACTCAGGTTAAACTAAAAAATAATTCC--TTCTTTTTTGGGAAGGAAATACA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5200218 135 +  26952557 GTTTAATTTGAAATTTGCATTCTCTCTCTT----TATATATAAGTAA-TTTTTTCTCTCCTACAAACTGGAGTTTATGATATACTTA-TTTACTCAGGTTAAACTAAAAAATAATTCC--TTCTTTTTTGGGAAGGAAATATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308051 135 +  82825804 GTTTAATTTGAAATTTGCATTCTCTCTCTT----TATATATAAGTAA-TTTTTTCTCTCCTACAAACTGGAGTTTATGATATACTTA-TTTACTCAGGTTAAACTAAAAAATAATTCC--TTCTTTTTTGAGAAGGAAATATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3972160 135 -   4237731 GTTTAATTTGAAATTTGCATTCTCTCTCTT----TATATATAAGTAA-TTTTTTCTCTCCTACAAACTAGAGTTTATGATATACTTA-TTTACTCAGGTTAAACTAAAAAATAATTCC--TTCTTTTTTGGGAAGGAAATATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      241898 136 -   1175262 GTTTAATTTGAAATTCGCATTCTCTCTCTT----TATATATAAGTAATTTTTTTCTCTCCTACCAACTGGAGTTTATGATATACTTA-TTTACTCAAGTTAAACTAAAAACTAATTCC--TTCTTTTTTGGGAAGGAAATATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575464 116 - 204313951 GTTTAATTTGAAATTTTCATTCTCTC-----------------------TATTTCTCTCCTAGAAACTGGAGTTTATAAGATAGTTA-TTTACTCAGGTTAAACTAAAAAATAACTCC--TCC-TTTTTGGGAAGGAAATATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55631249 120 -  71252344 GTTTAATTTGAAATTTTCATTCTCTCTCTT-------------------TGTTTCTCTACTACAAACTGGAGTTTATAATATAGTTA-TTTACTCAGGTTAAACTAAAAAATAATTCC--TCC-TTTTTGGGAAGGAAATATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1325614 123 -   1400280 GTTTAATTTGAAATTTTCATTCTCTCTCTT----TA------------CTTTTTCTCTCCTAGAAACTGGAGTGTATAATACAGTTA-TTTACTCAGGTTAAACTAAAAAATAATTCC--TCC-TTTTTGGGAAGGAAATATA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13118520 120 -  42888418 GTTTAATTTGAAATTTTCATTCTCTCTCTT-------------------TATTTCTCTCCTAGAAACTGGAGTTTATAATATAGTTA-TTTACTCAGGTTAAACTAAAAAATAATTCC--TCC-TTTTTGGGAAGGAAATATA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60490187 140 + 108143057 GTTTGATTTGAAATTCTCATTCTCTCTCTG--TTTACATATATGTAATTTTTTTCTCTTTTAGAAATTGGAGTTTGTGATATGAATATTTTATTCAGGTTAAACTAAAAAATAATTCCCCTTC-TTTTTGGGAAGGAAGTATA
i micMur3.chr12            I 85 I 1630
s proCoq1.NW_012155062v1     3520205 135 +  11683526 ---TGATTTGAAATTCTCATTCTCTCTCTG--TTTACATATATGTAA-TTTTTTCTCTTTTAGCAATTGGAGTTTATGATATAAATA-TTTATTCAGGTAAAACTAAAAAATAACTCCCTTTC-TTTTTGGGAAGGAAATATA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3000669 115 +   4132165 TTGAAATTTGAAATTCTC--TCTCTCTTTC--TTTATGTATATGTAATTTTTTTTTTTTTTACTAAGTGGAGTTTATGTTA-----------------------TAAAAAATAATTCCCTTTC-TTTTGGGGAATGAAATACA
i otoGar3.GL873679         I 4 C 0
e canFam3.chr11             14865959  26 +  74389097 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=13073.000000
s hg38.chr5_KI270796v1_alt     17037 1 +    172708 G
s panTro5.chr5             125127130 1 + 181907262 G
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464107 1 + 183735486 G
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655646 1 +   8933513 G
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139786771 1 + 163208435 G
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122773078 1 + 180051392 G
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124196746 1 + 181584905 G
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16194265 1 +  18395747 G
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5200353 1 +  26952557 G
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308186 1 +  82825804 G
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3972295 1 -   4237731 G
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242034 1 -   1175262 G
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575580 1 - 204313951 A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55631369 1 -  71252344 G
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1325737 1 -   1400280 G
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13118640 1 -  42888418 G
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3520340 1 +  11683526 G
i proCoq1.NW_012155062v1   C 0 I 1571
s otoGar3.GL873679           3000784 1 +   4132165 G
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60490327 1630 + 108143057 I
e canFam3.chr11             14865959 26 +  74389097 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=161698.000000
s hg38.chr5_KI270796v1_alt     17038 16 +    172708 TTGTACATAGAGAGTT
s panTro5.chr5             125127131 16 + 181907262 TTGTACATAGAGATTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464108 16 + 183735486 TTGTACATAGAGATTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655647 16 +   8933513 TTGTACATAGAGATTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139786772 16 + 163208435 TTGTACACAGAGATTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122773079 16 + 180051392 TTGTACATAGAGATTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124196747 16 + 181584905 TTGTACATAGAGATTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16194266 16 +  18395747 TTGTACATAGAGATTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5200354 16 +  26952557 TTGTACATAGAGATTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308187 16 +  82825804 TTGTACATAGAGATTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3972296 16 -   4237731 TTGTACATAGAGATTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242035 16 -   1175262 TTGTACATAGAGATTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575581 16 - 204313951 TTGTACATAGAAATTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55631370 16 -  71252344 TTGTACAGAGAAATTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1325738 16 -   1400280 TTGTAAATAGAAATTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13118641 16 -  42888418 TTTTATATAAATATTT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3000785 16 +   4132165 TTTTACATAGGGATTT
i otoGar3.GL873679         C 0 I 355
e micMur3.chr12             60490327 1630 + 108143057 I
e canFam3.chr11             14865959 26 +  74389097 I
e proCoq1.NW_012155062v1     3520341 1571 +  11683526 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=92828.000000
s hg38.chr5_KI270796v1_alt     17054 35 +    172708 TAACCTCTGTTGTTTAT-TCTACCAAAGTAATTCTT
s panTro5.chr5             125127147 35 + 181907262 TAACCTCTGTTGTTTAT-TCTACCAAAGTAATTCTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464124 35 + 183735486 TAACCTCTGTTGTTTAT-TCTACCAAAGTAATTCTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655663 35 +   8933513 TAACCTCTGTTGTTTAT-TCTACCAAAGTAATTCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139786788 30 + 163208435 TAACCTCTGTTTTTTAT------CAAAGTAATTCTT
i nomLeu3.chr2             C 0 I 1177
s rheMac8.chr6             122773095 35 + 180051392 TAACCTCTATTGTTTAC-TCTATCAAAGTAATTCTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124196763 35 + 181584905 TAACCTCTATTGTTTAC-TCTATCAAAGTAATTCTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16194282 35 +  18395747 TAACCTCTATTGTTTAC-TCTATCAAAGTAATTCTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5200370 35 +  26952557 TAACCTCTATTGTTTAC-TCTATCAAAGTAATTCTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308203 35 +  82825804 TAACCTCTATTGTTTAC-TCTATCAAAGTAATTCTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3972312 35 -   4237731 TAACCTCTATTGTTTAC-TCTATCAAAGTAATTCTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242051 35 -   1175262 TAACCTCTATTGTTTAC-TCTGTCAAAGTAATTCTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575597  4 - 204313951 T---------------------TCA-----------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55631386  4 -  71252344 T---------------------CCA-----------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1325754  4 -   1400280 T---------------------CCA-----------
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13118657  4 -  42888418 T---------------------CCA-----------
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3001156 28 +   4132165 tatcctccgacatttctttttagcagtg--------
i otoGar3.GL873679         I 355 C 0
e micMur3.chr12             60490327 1630 + 108143057 I
e canFam3.chr11             14865959 26 +  74389097 I
e proCoq1.NW_012155062v1     3520341 1571 +  11683526 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=41202.000000
s hg38.chr5_KI270796v1_alt     17089 4 +    172708 TAAA
s panTro5.chr5             125127182 4 + 181907262 TAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464159 4 + 183735486 TAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655698 4 +   8933513 TAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139787995 4 + 163208435 taaa
i nomLeu3.chr2             I 1177 C 0
s rheMac8.chr6             122773130 4 + 180051392 TAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124196798 4 + 181584905 TAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16194317 4 +  18395747 TAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5200405 4 +  26952557 TAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308238 4 +  82825804 TAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3972347 4 -   4237731 TAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242086 4 -   1175262 TAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575601 3 - 204313951 -AAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55631390 3 -  71252344 -AAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1325758 3 -   1400280 -AAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13118661 3 -  42888418 -AAA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3001184 4 +   4132165 caaa
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60490327 1630 + 108143057 I
e canFam3.chr11             14865959 26 +  74389097 I
e proCoq1.NW_012155062v1     3520341 1571 +  11683526 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=360976.000000
s hg38.chr5_KI270796v1_alt     17093 35 +    172708 A-----------ATAATAGTAGTTAGTAATGGTGATGTGCTTAAAT
s panTro5.chr5             125127186 35 + 181907262 A-----------ATAATAGTAGTTAGTAATGGCGATGTGCTTAAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464163 35 + 183735486 A-----------ATAATAGTAGTTAGTAATGGCGATGTGCTTAAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655702 35 +   8933513 A-----------ATAATAGTAGTTAGTAATGGTGATGTGCTTAAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139787999 35 + 163208435 a-----------ataaTAGTAGTTAGTAATGGTAATGTGCTTAAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122773134 35 + 180051392 A-----------TTAATAGTAGTTAGCAATGGTGATGTGCTTAAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124196802 35 + 181584905 A-----------TTAATAGTAGTTAGCAATGGTGATGTGCTTAAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16194321 35 +  18395747 A-----------TTAATAGTAGTTAGCAATGGTGATGTGCTTAAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5200409 35 +  26952557 A-----------TTAATAGTAGTTAGCAATGGTGGTGTGCTTAAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308242 35 +  82825804 A-----------TTAATAGTAGTTAGCAATGGTGATATGCTTAAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3972351 35 -   4237731 A-----------TTAATAGTAGTTAGCAATGGTGATGTGCTTAAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242090 35 -   1175262 A-----------ATAATAGTAGTTAGCAATGGTGATGTGCTTAAAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575604 35 - 204313951 A-----------ATAATAGTATTTAGTAATGGTGATGTGGTTAAAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55631393 35 -  71252344 A-----------ATAATAGTATTTCATAATGGTGATGTGGTTAAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1325761 35 -   1400280 A-----------ATAATAGTATTTAGTAATGGTTATGTGGTTAAAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13118664 35 -  42888418 A-----------ATAATAGTATTTAGTAATGGTGATGTGGTTAAAT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3001188 46 +   4132165 atggactaCTGCATAATACTATTTCACAATGATAATGTGGGATAAT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14865985 35 +  74389097 A-----------ACAGTAGCATTTAATAATGGTACTGTGGGATAAC
i canFam3.chr11            I 26 C 0
e micMur3.chr12             60490327 1630 + 108143057 I
e proCoq1.NW_012155062v1     3520341 1571 +  11683526 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=687797.000000
s hg38.chr5_KI270796v1_alt     17128 60 +    172708 GATAAGAGTTAACTCAATTTCAGCTGCTCCTCCAGACCTTGGCTATTGTGGGTATGCTGG
s panTro5.chr5             125127221 60 + 181907262 GATAAGATTTAACTCAATTTCAGCTGCTCCTCCAGACCTTGGCTATTGTGGGTATGCTGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464198 60 + 183735486 GATAAGATTTAACTCAATTTCAGCTGCTCCTCCAGACCTTGGCTATTGTGGGTATGCTGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655737 60 +   8933513 GATAAGATTTAACTCAATTTCAGCTGCTCCTCCAGACCTTGGCTATTGTGGGTATGCTGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139788034 60 + 163208435 GATAAGATTTAACTCAATTTCAGCTGCTTCTCCAGACCTTGGCTATTGTGGGCATTCTGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122773169 60 + 180051392 GATAAGATTTAACTCAATTTCAGCTGCTCCTCCAGACCTTGGCTATTGTGGGTGTTCTGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124196837 60 + 181584905 GATAAGATTTAACTCAATTTCAGCTGCTCCTCCAGACCTTGGCTATTGTGGGTGTTCTGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16194356 60 +  18395747 GATAAGATTTAACTCAATTTCAGCTGCTCCTCCAGACCTGGGCTATTGTGGGTGTTCTGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5200444 60 +  26952557 GATAAGATTTAACTCAATTTCAGCTGCTCCTCCAGACCTTGGCTATTGTGGGTGTTCTGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308277 60 +  82825804 GATAAGATTTAACTCAATTTCAGCTGCTCCTCCAGACCTTGGCTATTGTGGGTGTTCTGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3972386 60 -   4237731 GATAAGATTTAACTCAATTTCAGCTGCTCCTCCAGACCTTGGCTATAGTGGGTGTTCTGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242125 60 -   1175262 GATAAGATTTAAGTCAATTTCAGCTGCTCCTCCAGACCTTGGCTATTGTGGGTGTTCTGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575639 48 - 204313951 GACAAGATTTAACTCAATTTT------------AGACCTTGGCTACTGTGGGCATTCTGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55631428 60 -  71252344 GACAAGATTTAACTCAATTTTAAGTGCTCCTCCAGACCTTGGCTACTGTGGGCATTCTGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1325796 60 -   1400280 GACAAGATTTAACTCAATTTTAGGTGCTCCTCCAGACCTTGGCTACTGTGGGCATTCTGC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13118699 60 -  42888418 GACAAGATTTAAGTCAATTTTAGGTGCTCCTCCAGAGCTTGGCTACTGCGGGCATTCTGC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3521912 60 +  11683526 GATAAGATTTAACTCAATCCCAGGAGCTTCTCCTGACCCTGGCTGTCTTGGGCGTTCTGT
i proCoq1.NW_012155062v1   I 1571 C 0
s otoGar3.GL873679           3001234 60 +   4132165 GATAAGATTTAACTCAGTTGCTGGAGCTTCTCCAGACCCTGCCTGTCTTTGACATTCTAT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14866020 56 +  74389097 CATAAGTTCTACTTCAATTTTAAGAAATCCTCAAGAC--TGGCCATGTGGGATGTTGT--
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60490327 1630 + 108143057 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=953592.000000
s hg38.chr5_KI270796v1_alt     17188 75 +    172708 TCCAAAAGGGAAGGTATGTGGTCCATAGGTAGAGGTTGGTGAAAAGATGGGCTGGGATGCTACTAATGAGACCAG
s panTro5.chr5             125127281 75 + 181907262 TACAAAAGGGAAGGTATGTGGTCCATAGGTAGAGGTTGGTGAAAAGATGGGCTGGGATGCTACTAATGAGACCAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464258 75 + 183735486 TACAAAAGGGAAGGTATGTGGTCCATAGGTAGAGGTTGGTGAAAAGATGGGCTGGGATGCTACTAATGAGACCAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655797 75 +   8933513 TACAAAAGGGAAGGTATGTGGTCCATAGGTAGAGGTTGGTGAAAAGATGGGCTGGGATGCTACTAATGAGACCAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139788094 75 + 163208435 TAGAAAAGGGAAGGTATGTGGTCCATAGGTAGAGGTTGGTGAAAAGATGGGCTGGGATGCTACTAATGAGACCAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122773229 75 + 180051392 TACAAAAGGGAAGGTATGTGGTCCATAGGTAGAGGTTAGTGAAAAGATGGGCTGGGATGCTACTAATCAGACTAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124196897 75 + 181584905 TACAAAAGGGAAGGTATGTGGTCCATAGGTAGAGGTTAGTGAAAAGATGGGCTGGGATGCTACTAATTAGACTAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16194416 75 +  18395747 TACAAAAGGGAAGGTATGTGGTCCATAGGTAGAGGTTAGTGAAAAGATGGGCTGGGATGCTACTAATTAGACTAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5200504 75 +  26952557 TACAAAAGGGAAGGTATGTGGTCCATAGGTAGAGGTTAGTGAAAAGATGGGCTGGGATGCTACTAATTAGACCAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308337 75 +  82825804 TACAAAAGGGAAGGTATGTGGTCCATAGGTAGAGGTTAGTGAAAAGATGGGCTGGGATGCTACTAATTAGACCAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3972446 75 -   4237731 TACAAAAGGGAAGGTATGTGGTCCATAGGTAGAGGTTAGTGAAAAGATGGGCTGGGATGCTACTAATTAGACCAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242185 75 -   1175262 TACAAAAGGGAAGGTATGTGGTCCATAGGTAGAGGCTGGTGAAAAGATGGGCTGGGATGCTACTAATGAGACCAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575687 72 - 204313951 TACAAAAAGGAAGATCTGTGCTCCATAGGTAGAGGTTGGTGAAAAGATAGGCCGGGATGCTAC---TGAGACCAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55631488 58 -  71252344 TACAAAAAGGCAGGTATGTGCTCCACAGGT--------------AGATGGGCTGGGATGCTAC---TGAGACCAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1325856 72 -   1400280 TACAAAAAGGAAGGTTAGTGCTCCATCGGTAGAGGTTGGTGAAAAGATAGGCTGGGATGCTAC---TGAGACCAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13118759 72 -  42888418 TACAAAAAGGAAGATATGTGCTCCATAGGAAGAGGTCGGTGAAAAGATAGGCTGGGTGGCTAC---TGAGACCAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60491957 75 + 108143057 TCCAGAAGGAAAGGTGTGTGACCTATAGGGAGAGCTTGGTGAAGAGGCAGGCTGGGATGCTACCACTGAGACCAG
i micMur3.chr12            I 1630 I 68
s proCoq1.NW_012155062v1     3521972 75 +  11683526 TCCAGAAGGGAAGGTGTTTGACCCACAGGTAGAGCCGGGTGAAGAGATAGGCTGGGATGCTACTGCTGAGACCAG
i proCoq1.NW_012155062v1   C 0 I 413
s otoGar3.GL873679           3001294 66 +   4132165 TCCAGAA---------TATGACTCCCGGGTAGAGCTTGATAAAGAGATAGGCTGGGCTGCTACTAATGAGAGCAT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14866076 74 +  74389097 TACAGGAGGGCAAGCATGTATTTTACAGGCAGAGGTTGATGAGGAGATAGGCT-GGACGCTATTAATGAGACCAC
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=656696.000000
s hg38.chr5_KI270796v1_alt     17263 71 +    172708 TGTGGA---------GGAGGGGATG---GAGGGGCAGTTATAGTGCAGTTATAGTGCTGAAGGTCCAAGCCCTAACCCTTCTT
s panTro5.chr5             125127356 71 + 181907262 TGTGGA---------GGAGGGGATG---GAGGGGCAGTTATAGTGCAGTTATAGTGCTGAAGGTCCAAGCCCTAACCCTTCTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464333 71 + 183735486 TGTGGA---------GGAGGGGATG---GAGGGGCAGTTATAGTGCAGTTATAGTGCTGAAGGTCCAAGCCCTAACCCTTCTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655872 80 +   8933513 TGTGGAggaggggatggaggggatg---gaggggCAGTTATAGTACAGTTATAGTGCTGAAGGTCCAAGCCCTAACCCTTCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139788169 71 + 163208435 TGTGGA---------GGAGGGGATG---GAGGGGCAGTTATAGTGCATGGACAGTACTGAAGGTCCAAGCCCTCACCCTTCTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122773304 71 + 180051392 TGTGGG---------GGAGGGGATG---GAGGGACAGTTTTAGTGCAGTGACAGTGCTGAAGGTCCAAGCCCTAACCCTTCTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124196972 71 + 181584905 TGTGGG---------GGAGGGGATG---GAGGGACAGTTTTAGTGCAGTGACAGTGCTGAAGGTCCAAGCCCTAACCCTTCTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16194491 71 +  18395747 TGTGGG---------GGAGGGGATG---GAGGGACAGTTTTAGTGCAGTGACAGTGCTGAAGGTCCAAGCCCTAACCCTTCTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5200579 71 +  26952557 TGTGGA---------GGAGGGGATG---CAGGGACAGTTTTAGTGCAGCGACAGTGCTGAAGGTCCAAGCCCTAACCCTTCTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308412 71 +  82825804 TGTGGA---------GGAGGGGATG---GAGGGGCAGTTTTAGTGCAGTGACAGTGCTGAAGGTCCAAGCCCTAACCCTTCTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3972521 71 -   4237731 TGTGGA---------GGAGGGGATG---CAGGGACAGTTTTAGTGCAGCGACAGTGCTGAAGGTCCAAGCCCTAACCCTTCTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242260 71 -   1175262 TGTGGA---------GGAGGGGATG---GAGGGGCAGTTTTAGTGCAGGGACAGTGCTGAAGGTCCAAGCCCCAACCCTTCTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575759 64 - 204313951 T----------------AGGTGGTG---GAGGAGCAGTGATAGTGCAGGGACAGTGCAGAAGGTCTAAGCCCTAACCCTTCTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55631546 71 -  71252344 TATGGG---------GGAGGTGGTG---GAGAAGCAGTTATAGTCCAGGGACAGTGCGGAAGGTCCAAGCCCTAACCCTTCTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1325928 71 -   1400280 TATGGG---------GGAGGTGGTG---GCGGAGCAGTTATAGTCCAGGGACAGTGCGGAAGGTCCAAGCCCTAACCCTTCTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13118831 71 -  42888418 TAAGGG---------GGAGGTGGTA---GAGGAGCAGTTATAGTCCAGGGACTGTGCGGAAGGTCCAAGCCCTAACCCTTGTC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3001360 70 +   4132165 TACAAC---------AGAAAGAGTGTAAGAGGAGCAGCAATAGTGCAGGGGCAGTGGTGGAGGCCCAGACAGCTGCCTC----
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14866150 37 +  74389097 AGTGGT---------GGAGGTAATG---GAGGAATAG----------------------------------CTGACCCTTCTC
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60492032 68 + 108143057 I
e proCoq1.NW_012155062v1     3522047 413 +  11683526 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=588324.000000
s hg38.chr5_KI270796v1_alt     17334 44 +    172708 TGATCTCTTAGAAGCCAGCAATTGGGTGGGAG----ATAAGGATGCAA
s panTro5.chr5             125127427 44 + 181907262 TGATCTCTTAGAAGCCAGCAATTGGGTGGGAG----ATAAGGATGCAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464404 44 + 183735486 TGATCTCTTAGAAGCCAGCAATTGGGTGGGAG----ATAAGGATGCAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655952 44 +   8933513 TGATCTCTTAGAAGCCAGCAGTTGGGTGGGAG----ATAAGGATGCAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139788240 44 + 163208435 TGATCTCTTAGAAGCCAGCAATTGGGTGGGAG----ATAAGGATGCAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122773375 44 + 180051392 TGATCTCTTAGAAGCCAGCAATTGGGTGGGAG----ATAAGGATGCAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124197043 44 + 181584905 TGATCTCTTAGAAGCCAGCAATTGGGTGGGAG----ATAAGGATGCAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16194562 44 +  18395747 TGATCTCTTAGAAGCCAGCAATTGGGTGGGAG----ATAAGGATGCAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5200650 44 +  26952557 TGATCTCTTAGAAGCCAGCAATTGGGTGGGAG----ATAAGGATGCAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308483 44 +  82825804 TGATCTCTTAGAAGCCAGCAATTGGGTGGGAG----ATAAGGATGCAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3972592 44 -   4237731 TGATCTCTTAGAAGCCAGCAATTGGGTGGGAG----ATAAGGATGCAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242331 44 -   1175262 TGATCTCTTAGAAGCCAGCAATTGGGTGGGAG----ATAAGGATGCAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575823 48 - 204313951 TGATCTCTTTGAAGCCAGCAATTGGGTGGGAGGGAGATAAGGATGCAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55631617 48 -  71252344 TGATCTCTTTGAAGCCAGCAATTGGGTGGGAGGGAGATAAGGATGCAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1325999 47 -   1400280 TGATCTCTTT-AAGCCAGCAATTGGGTGGGAGGGAAATAAGGATGCAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13118902 48 -  42888418 TGATCTCTTTGAAGCCAGCAATTGGGTGGGAGGGAGATAAGGATGCAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60492100 44 + 108143057 TGATCTCTTAGAGGCCAGTGATTTGGTGGGAG----ATAAGGGTGCAA
i micMur3.chr12            I 68 I 51
s otoGar3.GL873679           3001430 43 +   4132165 TGATCTTTTAGAGGCCAGTGA-TAGGTGGGAG----GTAAGCATGCAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14866187 43 +  74389097 TGATCTCTT-GAAGACTACTACTGGGTAGGAG----ATAAGGAAGCAT
i canFam3.chr11            C 0 C 0
e proCoq1.NW_012155062v1     3522047 413 +  11683526 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=517022.000000
s hg38.chr5_KI270796v1_alt     17378 51 +    172708 AGGATGCTGACCTAGGCATTAAGAGGTCATTTTGAAAGGAAAAACAAACAG--
s panTro5.chr5             125127471 51 + 181907262 AGGATGCTGACCTAGGCATTAAGAGGTCATTTTGAAAGGAAAAACAAACAG--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464448 51 + 183735486 AGGATGCTGACCTAGGCATTAAGAGGTCATTTTGAAAGGAAAAACAAACAG--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1655996 51 +   8933513 AGGATGCTGACCTAGGCATTAAGAGGTCATTTTGAAAGGAAAAACAAAGAG--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139788284 51 + 163208435 AGGATGCTGACCTAGGCATTAAGAGGTCATCTTGAAAGGCAAAACAAAGAG--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122773419 51 + 180051392 AGGATGCCGACCTAGGCATTAAGAGGTCATCTTGAAAGGAAAAACAAAGAG--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124197087 51 + 181584905 AGGATGCCGATCTAGGCATTAAGAGGTCATCTTGAAAGGAAAAACAAAGAG--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16194606 51 +  18395747 AGGATGCCAACCTAGGCATTAAGAGGTCATCTTGAAAGGAAAAACAAAGAG--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5200694 51 +  26952557 AGGATGCCGACCTAGGCATTAAGAGGTCATCTTGAAAGGAAAAACAAAGAG--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308527 51 +  82825804 AGGATGCTGACCTAGGCATTAAGAGGTCATCTTGAAAGGAAAAACAAAGAG--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3972636 51 -   4237731 AGGATGCCGACCTAGGCATTAAGAGGTCATCTTGAAAGGAAAAACAAAGAG--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242375 51 -   1175262 AAGATGCTGACCTAGGCATTAAGAGGTCATCTTGAAAGGAAAAACAAAGAG--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575871 51 - 204313951 AGGATGCTGCCCTAGACAATAAGAGATCATCTCAAAAGAAAAAACAGAGTG--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55631665 51 -  71252344 AGGATGCTGCCCTAGACATTAAGAGGTCATCTTGAAAGAAAAAACAGAGTA--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1326046 49 -   1400280 AGGATGCTGCCCTAGACGTTAAGAGGTCATCTTGAAAGAAAAAAC--AGTG--
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13118950 51 -  42888418 AGGATGCTGCCCTAGACATTAAAAAGTCATCTTGAAAGAAAAAACAGAGAG--
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3001473 47 +   4132165 TGGGTGTTATCCCAGGCATCAGGCAACCA----AAGAGAAAAGACAGAGAG--
i otoGar3.GL873679         C 0 I 4
s canFam3.chr11             14866230 49 +  74389097 CTACTGCTTTCCTAGGCAGCAGGAGGCCA----AAGACAATGAATAGAGAGTG
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60492144 51 + 108143057 I
e proCoq1.NW_012155062v1     3522047 413 +  11683526 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=606322.000000
s hg38.chr5_KI270796v1_alt     17429 47 +    172708 GCAGGATATCCTAGTGAAGGAAATCTGGGCCAAGACGTCAGTTCCTG
s panTro5.chr5             125127522 47 + 181907262 GCAGGATATCCTAGTGAAGGAAATCTGGGCCAAGACTTCAGTTCCTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464499 47 + 183735486 GCAGGATATCCTAGTGAAGGAAATCTGGGCCAAGACTTCAGTTCCTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1656047 47 +   8933513 GCAGGATATCCTAGTGAAGGAAATCTGGGCCAAGACGTCAGTTCCTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139788335 47 + 163208435 GCAGGATATCTTAGTGAAGGAAATCTGGGCCAAGACGTCAGTTCCTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122773470 47 + 180051392 GCAGGATATCCTAGTGAAGGAAATCTGGGCCAAGACATCAGTTCCTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124197138 47 + 181584905 GCAGGATATCCTAGTGAAGGAAATCTGGGCCAAGACATCAGTTCCTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16194657 47 +  18395747 GCAGGATATCCTAGTGAAGGAAATCTGGGCCAAGACATCAGTTCCTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5200745 47 +  26952557 GCAAGATATCCTAGTGAAGGAAATCTGGGCCAAGACATCAGTTCCTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308578 47 +  82825804 GCAGGATATCCTAGTGAAGGAAATCTGGGCCAAGACATCAGTTCCTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3972687 47 -   4237731 GCAGGATATCCTAGTGAAGGAAATCTGGGCCAAGATATCAGTTCCTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242426 47 -   1175262 GCAGGATATCCTAGTGAAGGAAATCTGGGCCAAGACATCAGTTCCTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575922 47 - 204313951 GCAGGGTACCCCGGTGAAGGAAATCGGGGCCAAGATGTCATTTCCTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55631716 47 -  71252344 GCAGGATACCCCAGTGAAGGAAATCTGGGCCAAGACATCATTTGCTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1326095 47 -   1400280 GCAGGATACCCAAGTGAAGGAAATCTGGGCCAAGACATCATTTCCTG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13119001 47 -  42888418 GCAGGGTACCCCAGTGAAGGAAATCAGGGCCAAGACATAATTTCCTG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60492195 47 + 108143057 GCAGGAAATGCTATTGAAGGAAGTTTGGGCCAAGATGTCAGTTCCTG
i micMur3.chr12            I 51 I 196
s otoGar3.GL873679           3001524 47 +   4132165 GCAGGAAATGCAAGTGAAGGAAGTTTGGGCCAGGATATCAGTTCTTG
i otoGar3.GL873679         I 4 C 0
s canFam3.chr11             14866279 39 +  74389097 ACAAGAAATTCTGATGAAGGAGGTTTGAG--------TCAGTTCTTG
i canFam3.chr11            C 0 C 0
e proCoq1.NW_012155062v1     3522047 413 +  11683526 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=1234780.000000
s hg38.chr5_KI270796v1_alt     17476 127 +    172708 GGGCTAGATAAAGATATTCTGAGTCTTTAAACACAAAAGTAAGCACTTGCCCCTTCACTCCGAAACATACGATGTGTTCTTCAACATAAGGGCAAGAGTAATGTGTACAACATATTATttaggttgg
s panTro5.chr5             125127569 127 + 181907262 GGGCTAGATAAAGATATTCTGAGTCTTTAAACACAAAAGTAAGCACTTGCCCCTTCACTCCGAAACATACGATGTGTTCTTCAACATAAGGGCAAGAGTAATGTGTACAACATATTATttaggttgg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464546 127 + 183735486 GGGCTAGATAAAGATATTCTGAGTCTTTAAACACAAAAGTAAGCACTTGCCCCTTCACTCCGAAACATACGATGTGTTCTTCAACATAAGGGCAAGAGTAATGTGTACAACATATTATttaggttgg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1656094 127 +   8933513 GGGCTAGATAAAGATATTCTGAGTCTTTAAACACAAAAGTAAGCACTTGCCCCTTCACTCCAAAACATACGATGTGTTCTTCAACATAAGGGCAAGAGTAATGTGTACAACATATTATttaggttgg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139788382 127 + 163208435 GGGCTAGATAAAGATATTCTGAGTCTTTAAACACAAAAGTAAGTACTCGCCCCTTCACTCCAAAACGTACAATGTGTTCTTCAACACAAGGGCAAGAGTAATGTGTACAGCATATTATTTAGGTTGg
i nomLeu3.chr2             C 0 I 146
s rheMac8.chr6             122773517 123 + 180051392 GGGC----TAAAGATATTCTCAGTGTTTAAACACAAAAGTAAGTACTTTCCCCTTCACTCCAAAATGTACGATGTGTTCTTCAACATAAGGGCAAGAGTAATGTGTATAACACATTATttaggttgg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124197185 123 + 181584905 GGGC----TAAAGATATTCTCAGTGTTTAAACACAAAAGTAAGTACTTTCCCCTTCACTCCAAAACGTACGATGTGTTCTTCAACATAAGGGCAAGAGTAATGTGTATAACACATTATttaggttgg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16194704 123 +  18395747 GGGC----TAAAGATATTCTCAGTGTTTAAACACAAAAGTAAGTACTTTCCCCTTCACTCCAAAACGTACGATGAGTTCTTCAACATAAGGGCAAGAGTAATGTGTATAACACATTATttaggttgg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5200792 123 +  26952557 GGGC----TAAAGATATTCTCAGTGTTTAAACACAAAAGTTAGTACTTTCCCCTTCACTCCAAAACGTACGATATGTTCTTCAACATAAGGACAAGAGTAATATGTATAACACATTACttaggttgg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308625 123 +  82825804 GGGC----TAAAGATATTCTCAGTGTTTAAACACAAAAGTAAGTACTTTCCCCTTCACTCCAAAACGTACGATGTGTTCTTCAACATAAGGGCAAGAGTAATGTGTATAACACATTATttaggttag
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3972734 123 -   4237731 GGGC----TAAAGATATTCTCAGTGTTTAAACACAAAAGTAAGTACTTTCCCCTTCACTCCAAAAAGTATGATGTGTTCTTCAACATAAGGACAAGAGTAATGTGTATAACACATTACttaggttgg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242473 123 -   1175262 GGGC----TAAAGATATGCTCAGTCTTTAAACACAAAAGTAAGTACTTTCCCCTTCACTCCAAAACGTACGACATATTCTTCAACATAAGGGCAAGAGTAATGTGTATAACACATTAGttaggttgg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123575969 124 - 204313951 GGGCTGGATAAAGATATTCTGAGTCCTTAAACACAAAAATAAGTACTTGCCTTTGTGCTCCATAACATACAATGTGTTCTTGAACATAAGGACAAGAGTAACGTGTACAACA---TATGtaggttgg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55631763 124 -  71252344 GGGCTGGATAAAGATATTCTGAGTCCTTAAACACAAAAGTCAGTACTTGCCCCTGTGCTCCATAACATCCAATGTGTTCTTGAACATAAGGACAAGAGTAACGTGTACAACA---TATGtaggttgg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1326142 124 -   1400280 GGGCTGGATAAAGTTATTCTGAGTCCTTAGACACAAAAGTAAGTACTTGCCCCTGTGCTCTACAACATACAATGTGTTCTTGAACATAAAGACCAGAGTACCGTGTACAACA---TATGtaggttgg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13119048 124 -  42888418 GGGCTGGATAAAGATATTCTGAGTCCTTAAACACAAAAGTAAGTACTTGCCCCTGTGCTTCATAACATACAATGTGTTCTTGAACATAAGGACAAGAGTAACATGTACAACA---TATGtaggttgg
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3001571 109 +   4132165 -GGGAGGATAAAGATA--CTGAGTTCTTACACACAAAAATAAATAATTGCCCTTCCAAACTGTGCCACACATTGTGTTCTTAAACATAAACACAAGAGTAATATGTAAAATA---------------
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14866318 119 +  74389097 GAGCTGGAAAAATATACTCCAAGTCTTTGACCACAAAAACACATGCTTGACCATCCACACCCTGACCTACAGTGTGTTCTTAAATATAAAAATGAGAGTGGGATGTAAAACa--------aggatgc
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60492242 196 + 108143057 I
e proCoq1.NW_012155062v1     3522047 413 +  11683526 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=655252.000000
s hg38.chr5_KI270796v1_alt     17603 83 +    172708 tgcgaaagtaattgtggtctttgccattaaaagtaatggc-aaaaaatgcaattacttttgcaccaacccaaTACATACTACAG
s panTro5.chr5             125127696 83 + 181907262 tgcgaaagtaattgtggtctttgccactaaaagtaatggc-aaaaaatgcaattacttttgcaccaacccaaTACATACTACAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464673 83 + 183735486 tgcgaaagtaattgtggtctttgccattaaaagtaatggc-aaaaaatgcaattacttttgcaccaacccaaTACATACTACAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1656221 83 +   8933513 tgcgaaagtaattctggtctttgccattaaaagtaatggc-aaaaaatgcaattacttttgcaccaaccCGATACATACTACAG
i gorGor5.CYUI01015135v1   C 0 C 0
s rheMac8.chr6             122773640 83 + 180051392 tacaaaagtaattgtggtctttgccattaaaagtaatggc-aaaaaatacaattacttttgcaccaacccaaTACATATTACAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124197308 83 + 181584905 tacaaaagtaattgtggtctttgccattaaaagtaatggc-aaaaaatacaattacttttgcaccaacccaaTACATATTACAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16194827 83 +  18395747 tacaaaagtaattgtggtctttgccattaaaagtaatggc-aaaaaatacaattacttttgcaccaacccaaTACATATTACAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5200915 83 +  26952557 tacaaaagtaattgtggtctttgccattaaaagtaatggc-aaaaaatacaattacttttgcaccaacccaaTACATATTACAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308748 83 +  82825804 tacaaaagtaattgtggtctttgccattaaaagtaatgcc-aaaaaatacaattacttttgcaccaacccaaTGCATATTACAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3972857 83 -   4237731 tacaaaagtaattgtggtctttgcctttaaaagtaatggc-aaaaaatacaattacttttgcaccaacccaaTACATATTACAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242596 83 -   1175262 tacaaaagtaattgtggtctttgccattaaaagtaatggc-aaaaaatacaattacttttgcaccaacccaaTACATATTAGAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123576093 83 - 204313951 tggaaaagtaattgtggcctttgccattaaaagtaatgac-aaaaaatgcaattacttttgtaccaacccaaTACATATTATAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55631887 83 -  71252344 tggaaaagtaattgtggcctttgccattacaagtaatggc-aaaaaatgcagctacttttgtaccaacccaaAACATATTATAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1326266 83 -   1400280 tggaaaagtaattgtggcatttgccattaaaagtaatggc-aaaaaatacaattacttctgtaccaaactaaAATATATTATAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13119172 84 -  42888418 tggaaaagtaactgtggcctttgccattaaaagtaatggcaaaaaaatgcaattacttttgtaccaacccaaTACATAATACAG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3001680 12 +   4132165 -------------------------------------AGT-AAAGGATGC----------------------------------
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14866437 20 +  74389097 --ctaaagaaattatggtttta--------------------------------------------------------------
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60492242 196 + 108143057 I
e proCoq1.NW_012155062v1     3522047 413 +  11683526 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I
e nomLeu3.chr2             139788509 146 + 163208435 I

a score=484755.000000
s hg38.chr5_KI270796v1_alt     17686 72 +    172708 TTCCCAAAAAGTTGT----TTTTTTTATGATTACTACATCAA---TTTTTAAAAA------------TATATA--------GATATATAAATGATTTTC
s panTro5.chr5             125127779 72 + 181907262 TTCCCAAAAAGTTGT----TTTTTTTATGATTACTACATCAA---TTTTTAAAAA------------TATATA--------GATATATAAATGATTTTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464756 71 + 183735486 TTCCCAAAAAGTTG-----TTTTTTTATGATTACTACATCAA---TTTTTAAAAA------------TATATA--------GATATATAAATGATTTTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1656304 72 +   8933513 TTCCCAAAAAGTTG-----TTTTTTTATGATTACTACATCAA---TTTTAAAAAA------------TATATA-------TGATATATAAATGATTTTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139788655 77 + 163208435 TTCCCAAAAAGTTGTTTTCTTTTTTTATGATTACTACATCAA---TTTTTAAAAA------------TATGTA-------TAATATATAAATGATTTTC
i nomLeu3.chr2             I 146 C 0
s rheMac8.chr6             122773723 81 + 180051392 TTCCCAAAAAGTTGTTTTC-TTTTTTATTATTAC-ACATCAA------TTAAAAA---atatatatatatata-------aaatatataaatGATTTTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124197391 85 + 181584905 TTCCCAAAAAGTTGTTTTCTTTTTTTATTATTAC-ACATCAA------TTAAAAAAAAatatatatatatata-------aaatatataaatGATTTTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16194910 80 +  18395747 TTCCCAAAAAGTTGTTTTCTTTTTTTATTATTAC-ACATCAA------TTAAAAA-----atatatatatata-------aaatatataaatGATTTTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5200998 81 +  26952557 TTCCAAAAAAGTTGTTTTCTTTTTTTATTATTAC-ACATCAA------TTAAAAA---A-ATATATATATAAA-------AAATATATAAATGATTTTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308831 82 +  82825804 TTCCCAAAAAGTTGTTTTCTTTCTTTATTATTAC-ACATCAa------tttaaaa---atatatatatatata-------taatatatagatGATTTTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3972940 82 -   4237731 TTCCCAAAAAGTTGTTTTCTTTTTTTATTATTAC-ACATCAA------TTAAAAA---atatatatatataaa-------aaatatataaatGATTTTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242679 93 -   1175262 TTCCCAAAAAGTTATTTTCTTTTTTTATTATTGCTACATCAA---TTTTTAAAat---atatatgtatatatatatatataaatatataaatGATTTTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123576176 68 - 204313951 TTCCCCAAAAGTTGT----GTTTTT----ATGATTACATCaa---ttttttaaaa-------------atata-------taatGCATAAACAATTTTC
i calJac3.chr2             C 0 I 2
s saiBol1.JH378106          55631970 73 -  71252344 TTCCCCAGAAGTTGT----TTTATTAATGATTACTACATCAA---TTTTTAAAAA------------TATATC-------TAATACATAAACAATTTTC
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107829v1     1326349 73 -   1400280 TTCACCAAAAGTTGT----TTTTTtaatgattactacatcaa---tttttaaata------------tatata-------taatatataaACAATTTTC
i cebCap1.NW_016107829v1   C 0 I 1
s aotNan1.NW_018505940v1    13119256 72 -  42888418 TTCCCCAAAAGTTGT----TTTTTT-ATGATTACTACATCAA---TTTTTAAAAA------------TATATA-------TAATACATAAACAATTTTC
i aotNan1.NW_018505940v1   C 0 I 1
s otoGar3.GL873679           3001692 49 +   4132165 --CCCAAAAAGTTTG----TTTTCTTTT--------------------TTAAAAA------------CATGAA-----------ATATAAACTACTTT-
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14866457 59 +  74389097 -------------------ttttttcatgatgactacatcaattctttttttaaa------------tatttc---------aaatagaaactactttc
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60492242 196 + 108143057 I
e proCoq1.NW_012155062v1     3522047 413 +  11683526 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=145907.000000
s hg38.chr5_KI270796v1_alt     17758 13 +    172708 CAAAAACACATAT
s panTro5.chr5             125127851 13 + 181907262 CAAAAACACATAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464827 13 + 183735486 CAAAAACACATAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1656376 13 +   8933513 CAAAAACACATAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139788732 13 + 163208435 CAAAAACACATAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122773804 13 + 180051392 CAAAAATGTATAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124197476 13 + 181584905 CAAAAATGTATAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16194990 13 +  18395747 CAAAAATGTATAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5201079 13 +  26952557 CAAAAATGTATAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308913 13 +  82825804 CAAAAATGTATAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3973022 13 -   4237731 CAAAAATGTATAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242772 13 -   1175262 CAAAAATGCATAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123576246 13 - 204313951 AAAAAAAGCATAT
i calJac3.chr2             I 2 C 0
s saiBol1.JH378106          55632044 13 -  71252344 AAAAAATGCATAT
i saiBol1.JH378106         I 1 C 0
s cebCap1.NW_016107829v1     1326423 13 -   1400280 AAAAAATACATAT
i cebCap1.NW_016107829v1   I 1 C 0
s aotNan1.NW_018505940v1    13119329 13 -  42888418 AAAAAATGCATAT
i aotNan1.NW_018505940v1   I 1 C 0
s micMur3.chr12             60492438 13 + 108143057 caaaaatgcATAA
i micMur3.chr12            I 196 C 0
s otoGar3.GL873679           3001741 13 +   4132165 AGAAAGTGCATAT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14866516 13 +  74389097 aaaaaCTGCATAT
i canFam3.chr11            C 0 C 0
e proCoq1.NW_012155062v1     3522047 413 +  11683526 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=738015.000000
s hg38.chr5_KI270796v1_alt     17771 52 +    172708 GCTTAGTTTGACTCTTAGGTATTCAATAATGCTAGTCTGTAAGTATTTGAGA
s panTro5.chr5             125127864 52 + 181907262 GCTTAGTTTGACTCTTAGGTATTCAATAATGCTAGTCTGTAAGTATTTGAGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464840 52 + 183735486 GCTTAGTTTGACTCTTAGGTATTCAATAATGCTAGTCTGTAAGTATTTGAGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1656389 52 +   8933513 GCTTAGTTTGACTCTTAGATATTCAATAATGCTAGTCTGTAAGTATTTGAGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139788745 52 + 163208435 GCTTAGTTTGACTTTTAGGCATTCAGTAATGCTACTCTGTAAGTATTTGGGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122773817 52 + 180051392 GCTTAGTTTGACTTTTAGGTATTCCATGATGCTAATCTGTAAGTATTTGGGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124197489 52 + 181584905 GCTTAGTTTGACTTTTAGGTATTCCATGATGCTAATCTGTAAGTATTTGGGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16195003 52 +  18395747 GCTTAGTTTGACTTTTAGGTATTCCATGATGCTAATCTGTAAGTATTTGGGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5201092 52 +  26952557 GCTTAGTTTGACTTTTAGGTATTCCATAATGCTAATCTGTAAGTATTTGAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308926 52 +  82825804 GCTTAGTTTGACTTTTAGGTATTCCATAATGCTAATCTGTAAGTATTTGGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3973035 52 -   4237731 GCTTAGTTTGACTTTTAGGTATTCCATAATGCTAATCTGTAAGTATTTGGGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242785 52 -   1175262 GCTTAGTTTGACTTTTAGGTATTCCATAATGCTAATCTGTAAGTATTTGGGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123576259 52 - 204313951 GCTTAGTTTGACTTTTAGGTATTCAATAAGGCCAGCCTGTAAGTATTTGGGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55632057 52 -  71252344 GCTTAGTTTGACTTTTAGGTATTCAGTAAGGCTAGCCTGTAAGTATTTGGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1326436 52 -   1400280 GCTTAGTTTGACTTTTAGGTGTTCAATAAGGCTAGCCTGTAAGTATTTGGGA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13119342 52 -  42888418 GCTTAGTTTGACGTTTAGCTATTCAATAAGGGTAGGCTGTAAGTATTTGGGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60492451 48 + 108143057 GCTTAGTATGACTTTTAGACATTCAGGAATGCTAGTCT----GTATTTGGGA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3522460 52 +  11683526 GCTTAGTTTGACTTTTAGGTATTCAGTAATGCTAGTCTGTAAGTATTTGGGA
i proCoq1.NW_012155062v1   I 413 C 0
s otoGar3.GL873679           3001754 46 +   4132165 GCTTAG------TTTTATGTATTCAATAATGCTAGTCTGTAAGTATTTGAGA
i otoGar3.GL873679         C 0 I 151
s canFam3.chr11             14866529 52 +  74389097 GCTTAGTTTGACTTCTAGGTATTAGGTAATGCTAGTCTTTAAGTATCTGGGT
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=758840.000000
s hg38.chr5_KI270796v1_alt     17823 56 +    172708 TAGCTGTGAGCATTCAGAATTCAGGTGATTCAGCTCTGTGAGGATAAGGTCTGCCC
s panTro5.chr5             125127916 56 + 181907262 TAGCTGTGAGCATTCAGAATTCAGGTCATTCAGCTCTGTGAGGATAAGGTCTGCCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464892 56 + 183735486 TAGCTGTGAGCATTCAGAATTCAGGTGATTCAGCTCTGTGAGGATAAGGTCTGCCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1656441 56 +   8933513 TAGCTGTGAGCATTCAGAATTCAGGTGATTCAGCTCTGTGAGGATAAGGTCTGCCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139788797 56 + 163208435 TAGTTGTGAGCATTCAGAATTCAGGTGATTCAGCTCTGTGAGGATAAGGTCTGCCC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122773869 56 + 180051392 TAGTTGTGAGCATTCAGAATTCAGGTGATACAGCTCTGTGAGGATAAGGTCTGCCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124197541 56 + 181584905 TAGTTGTGAGTATTCAGAATTCAGGTGATACAGCTCTGTGAGGATAAGGTCTGCCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16195055 56 +  18395747 TAGTTGTGAGCATTCAGAATTCAGGTGATACAGCTCTGTGAGGATAAGGTCTGCCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5201144 56 +  26952557 TAGTTGTGAGCATTCAGAATTCAGGTGATACAGCTCTGTGAGGATAAGGTCTGCCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28308978 56 +  82825804 TAGTTGTGAGCATTCAGAATTCAGGTGATACAGCTCTGTGAGGATAAGGTCTGCCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3973087 56 -   4237731 TAGTTGTGAGCATTCAGAATTCAGGTGATACAGCTCTGTGAGGATAAGGTCTGCCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242837 56 -   1175262 TAGTTGTGAGCATTCAGAATTCAGGTGATTCAGCTCTGTGAGGACAAGGTCTGCCC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123576311 56 - 204313951 TAGCTGTGAGCATCCGGAATTCAGCTAATTCAGCTCTGTGACCCTCACTTGTCATC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55632109 56 -  71252344 TAGCTGTGAGCATCCAGAATTCAGCTAATTCAGCTCTGTGAGAATAAGGTCTGCCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1326488 56 -   1400280 TAGCTGTAAGCATCCAGAATTCAGCTAATTCAGCTCTGGGAGAATAAGGTCTGCCC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13119394 56 -  42888418 TAGCTGTGAGCATCCAGAATTCAGCTAATTCAGCTCTGTGAGAATAAGGTCTGCCC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60492499 56 + 108143057 TAGTTGTGACTACTCAGAATTTAGCTAATTCATCTCTGTGCGGGTAAGGTCTGCCC
i micMur3.chr12            C 0 I 49
s proCoq1.NW_012155062v1     3522512 56 +  11683526 TAGCTGTGACTACTCAGAATTCAGCTAATTCAACTTCTTGTGGGTAAGGTCTGCCC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3001951 56 +   4132165 CAGTTGTGAATATTCAGAATTTAGCTAATTCAGCTCTGTAGAGATAAGCTCTGCCC
i otoGar3.GL873679         I 151 C 0
s canFam3.chr11             14866581 56 +  74389097 TAATCCCAACTACCTGGAGCTCAACCAGGTCAGCTCTATGCGGATAAGGTCTGTCA
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=547891.000000
s hg38.chr5_KI270796v1_alt     17879 48 +    172708 ACTGG-TCATCACGGCATG-CCAACCTGGCACGGTGTTCTCAGCATTGAT
s panTro5.chr5             125127972 48 + 181907262 ACTGG-TCATCACGGCATG-CCAACCTGGCGCGGTGTTCTCAGCATTGAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464948 48 + 183735486 ACTGG-TCATCACGGCATG-CCAACCTGGCACGGTGTTCTCAGCATTGAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1656497 48 +   8933513 ACTGG-TCATCACGGCGTG-CCAGCCTGGCACGGTGTTCTCAGCATTGAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139788853 48 + 163208435 ACTGG-ACATCATGGCATG-CCAACCTGGCACAGTGTTCTCAGCATTGAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122773925 48 + 180051392 ACTGG-TCATCACGGCGTG-CCAACCTGGCACGGTGTTCTCAGCGTTGAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124197597 48 + 181584905 ACTGG-TCATCACGGCGTG-CCAACCTGGCACGGTGTTCTCAGCGTTGAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16195111 48 +  18395747 ACTGG-TCATCACGGCGTG-CCAACCTGGCACGGTGTTCTCAGCGTTGAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5201200 48 +  26952557 ACTGG-TCATCACGGCGTG-CCAACCTGGCACGGTGTTCTCAGCGTTGAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28309034 48 +  82825804 ACTGG-TCATCACGGCATG-CCAAGCTGGCACAGTGTTCTCAGCGTTGAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3973143 48 -   4237731 ACTGG-TCATCACGGCATG-CCAACCTGGCATGGTGTTCTCAGCGTTGAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242893 48 -   1175262 ACTGG-TCATCACGGCATG-CCAGTCTGGCACGGTGTTCTCAGCATTGAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123576367 48 - 204313951 ACAGG-TCATCACAGTATG-CCAGCCTGGCACAGTGTTCTGAGCATTGAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55632165 48 -  71252344 ACTGG-TCATCACAGCATG-CCAGCCTGGCACAGTGTTCTGAGCACTGAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1326544 48 -   1400280 ACTGG-TCATCACAGCATG-CCAGCCTGGCACAGTGTTCTGAGCTCTGAC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13119450 48 -  42888418 ACTGG-TCGTCACAGCATG-CCAGCCTGGCACAGTGTTCTGAGCATTGAT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3522568 49 +  11683526 ATTGGTTCACCATGGCATG-TGCAACTGGTGCAGTGTTCTGAGCTCTGAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3002007 49 +   4132165 ATTGGTTCACTATGGCAAG-TCCAACTGGCATGGTGTTCTGAGCACTAAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14866637 43 +  74389097 GCTAG-TTA------CATACCCAACAGGGCTCCATATTCTGAGCATTGTA
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60492555 49 + 108143057 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=217745.000000
s hg38.chr5_KI270796v1_alt     17927 15 +    172708 GGAACTAATAAATAT
s panTro5.chr5             125128020 15 + 181907262 GGAACTAATAAATAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126464996 15 + 183735486 GGAACTAATAAATAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1656545 15 +   8933513 GGAACTAATAAATAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139788901 15 + 163208435 GGAACTAATAAATAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122773973 15 + 180051392 GGAAATAATAAACAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124197645 15 + 181584905 GGAAATAATAAACAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16195159 15 +  18395747 GGAAATAATAAACAT
i macNem1.NW_012012355v1   C 0 I 221
s cerAty1.NW_012002512v1     5201248 15 +  26952557 GGAAATAATAAACAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28309082 15 +  82825804 GGAAATAATAAACAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3973191 15 -   4237731 GGAAATAATAAACAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242941 15 -   1175262 GGAACTAATAAATAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123576415 15 - 204313951 GGAACTAATAAATAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55632213 15 -  71252344 GGAACTAAGAAATAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1326592 15 -   1400280 GAAACTAAGAAATAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13119498 15 -  42888418 GGAACTAATAAATTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60492604 15 + 108143057 GGAACTAATAAATAT
i micMur3.chr12            I 49 C 0
s proCoq1.NW_012155062v1     3522617 15 +  11683526 AGAACTAATAAATAT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3002056 15 +   4132165 GGAACTAATAAATAT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14866680 15 +  74389097 GGAACTAACAAATAT
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=3964800.000000
s hg38.chr5_KI270796v1_alt     17942 306 +    172708 GTGTAGACGGACAGATTGACAGATGAAATAGATCTTGTAT-------AGAGAAC-TTTTACTGACTCATATCTGTTAGGTTGGGAGTGGAGATGGAAGGGGATATGCTGTCCAATTCACTGCTAGGGCCAGAAGG-----------TCAGTAATGCATCCTATTTTCCATAGCTTTTGATTTTGTTTAGGTTTCCCGCTTTAGGAATA---TCTATATTA-TTTTCTGATATCAGTCCCTAATTGCCAGGTGGCTACCTTTTCTTAA-----------------------------AGTAATTTTAATTGGGCTGTGTCTGGTATTTACTttctcttttgcctctttctcttcccagt
s panTro5.chr5             125128035 306 + 181907262 GTGTAGATGGACAGATTGACAGATGAAATAGATCTTGTAT-------AGAGAAC-TTTTACTGACTCATATCTGTTAGGTTGGGAGTGGAGTTGGAAGGGGATATGCTGTCCAATTCACTGCTAGGGCCAGAAGG-----------TCAGTAATGCATCCTATTTTCCATAGCTTTTGATTTTTTTTAGGTTTCCCACTTTAGGAATA---TCTATATTA-TTTTCTGATATCAGTCCCTAATTGCCAGGTGGCTACCTTTTCTTAA-----------------------------AGTAATTTTAATTGGGCTGTGTCTGGTATTTACTttctcttttgcctctttctcttcccagt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126465011 306 + 183735486 GTGTAGATGGACAGATTGACAGATGAAATAGATCTTGTAT-------AGAGAAC-TTTTACTGACTCATATCTGTTAGGTTGGGAGTGGAGTTGGAAGGGGATATGCTGTCCAATTCACTGCTAGGGCCAGAAGG-----------TCAGTAATGCATCCTATTTTCCATAGCTTTTGATTTTTTTTAGGTTTCCCACTTTAGGAATA---TCTATATTA-TTTTCTGATATCAGTCCCTAATTGCCAGGTGGCTACCTTTTCTTAA-----------------------------AGTAATTTTAATTGGGCTGTGTCTGGTATTTACTttctcttttgcctctttctcttcccagt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1656560 306 +   8933513 GTGTAGATGGACAGATTGACAGATGAAATAGATCTTGTAT-------AGAGAAC-TTTTACTGACTCATATCTGTTAGGTTGGGAGTGGAGTTGGAAGGGGATATGATGTCCTATTCACTGCTAGGGCCAGAAGG-----------TCAGTAACGCATCCTCTTTTCCATAGCTTTTGATTTTTTTTAGGTTTCCCACTTTAGGAATA---TCTATATTA-TTTTCTGATATCAGTTCCTAATTGCCAGGTGGCTACCTTTTCTTAA-----------------------------ATTAATTTTAATTGGGCTGTGTCTGGTATTTACTttctcttttgcctctttctcttcccagt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139788916 307 + 163208435 GTGTAGTTGGACAGACTGACAGATGAAATAGATCTTGTAT-------AGAGAAC-TTTTACTGACTCATATCTGTTAGGTTGGGAGTGGAGTTGGAAGGGGATATGCTGTCCAATTCACTGCTAGGGCCAGAAGG-----------TCAGTAATGCATCTTATTTTTCATAGCTTTTGATTTTTTTTAGGTTTCCCACTTTAGGAATA---TCTATATTATTTTTTTGATATCAGTCCCTAATTTCCAGGTGGTTATCTTTTCTTAA-----------------------------ATTAATTTTAATTGGGCTGTGTCTGGtatttactttctcttttgcctctttctcttcccagt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122773988 305 + 180051392 GTGTAGTTGGACAGATTGACAGATGAAATAGATCTTACAT-------AGAGAAC-TTTTGCTGACTCATATCTGTTGGGTTCAGAGTGGAGTTGGAAGGGTATATGCTGTCCAATTCACTGCTAGGGCCAGAAGG-----------TCAGTAATGCGTCCTATTTTCCATAGCTTTTGGTATT-TTTAGGTTTCCCACTTTAGGAATA---TCTGTATTA-TTTTCTGATATCAGTCTCTAATTGCCAGGTGGTTATCTTTTCTTAA-----------------------------ATTAATTATAATTGGGCTGTGTCTGGTATTTACTTTCTCTtttgcctacttctcttcccagt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124197660 305 + 181584905 GTGTAGTTGGACAGATTGACAGATGAAATAGATCTTACAT-------AGAGAAC-TTTTGCTGACTCATATCTGTTGGGTTCAGAGTGGAGTTGGAAGGGTATATGCTGTCCAATTCACTGCTAGGGCCAGAAGG-----------TCAGTAATGTGTCCTATTTTCCATAGCTTTTGGTATT-TTTAGGTTTCCCACTTTAGGAATA---TCTGTATTA-TTTTCTGATATCAGTCTCTAATTGCCAGGTGGTTATCTTTTCTTAA-----------------------------ATTAATTATAATTGGGCTGTGTCTGGTATTTACTTTCTCTtttgcctacttctcttcccagt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16195395 305 +  18395747 GTGTAGTTGGACAGATTGACAGATGAAATAGATCTTACAT-------AGAGAAC-TTTTGCTGACTCATATCTGTTGGGTTCAGAGTGGAGTTGGAAGGGTATATGCTGTCCAATTCACTGCTAGGGCCAGAAGG-----------TCAGTAATGCGTCCTATTTTCCATAGCTTTTGGTATT-TTTAGGTTTCCCACTTTAGGAATA---TCTGTATTA-TTTTCTGATATCAGTCTCTAATTGCCAGGTGGTTATCTTTTCTTAA-----------------------------ATTAATTATAATTGGGCTGTGTCTGGTATTTACTTTCTCTtttgcctacttctcttcccagt
i macNem1.NW_012012355v1   I 221 C 0
s cerAty1.NW_012002512v1     5201263 305 +  26952557 GTGTAGTTGGACAGATTGACAGATGAAATAGATCTTACAT-------AGAGAAC-TTTTGCTGACTCATATCTGTTGGGTTCAGAGTGGAGTTGGAAGGGTATATGCTGTCCAATTCACTGCTAGGGCCAGAAGG-----------TCAGTAATGCGTCCTATTTTCCATAGCTTTTGGTATT-TTTAGGTTTCCCACTTTAGAAATA---TCTGTATTA-TTTTCTGATATCAGTCTCTAATTGCCAGGAGGTTATCTTTTCTTAA-----------------------------ATTAATTATAATTGGGCTGTGTCTGGTATTTACTttctcttttacctacttctcttcccagt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28309097 305 +  82825804 GTGTAGTTGGACAGATTGACAGATGAAATAGATCTTACAT-------AGAGAAC-TTTTGCTGGCTTCTATCTGTTGGGTTCAGATTGGAGTTGGAAGGGTATATGCTGTCCAATTCACTGCTAGGGCCAGAAGG-----------TCTGTAATGCGTCCTATTTTCCATAGCTTTTGGTATT-TTTAGGTTTCCCACTTTAGGAATA---TCTGTATTA-TTTTCTGATATCAGTCTCTAATTGTCAGGTGGTTATCTTTTCTTAA-----------------------------ATTAATTTTAACTGGGCTGTGTCTGGTATTTACTTTCTCTtttgcctacttctcttcccagt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3973206 305 -   4237731 GTGTAGTTGGACAGATTGACAGATGAAATAGATCTTACAT-------AGAGAAC-TTTTGCTGACTGATATCTGTTGGGTTCAGAGTGGAGTTGGAAGGGTATATGCTGTCCAATTCACTGCTAGGGCCAGAAGG-----------TCAGTAATGCGTCCTATTTTCCATAGCTTTTGGTATT-TTTAGGTTTCCCACTTTAGGAATA---TCTGTATTA-TTTTCTGATATCAGTCTCTAATTGCCAGGTGGTTATCTTTTCTTAA-----------------------------ATTAATTATAATTGGGCTGTGTCTGGTATTTACTTTCTCTtttgcctacttctcttcccagt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      242956 305 -   1175262 GTGTGGATGGACAGATTGACAGATGAAATAGATCTTGTAT-------AGAGAAC-TTTTGCTGAGTCATATCTGTTGGGTTCAGAGTGGAGTTGGAAGGGTATGTGCTGTCCAATTCACTGCTAGGGCCAGAAGG-----------TCAGTAATGCATCCTATTTTCCATAGCTTTTGATATT-TTTAGATTTCCCACTTCAGCAATA---TCTGTATTA-TTTTCTGATATCAGTCTCTAATTGCCAGGTGGTTATCTTTTCTTAA-----------------------------ATTAATTTTAATTGGGTTGTGTCTGGTATTTACTttctcttttgcctatttctcttcccagt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123576430 304 - 204313951 GTGTAGATGGACAGATTCACAGATGTAATAGATCCTGTAT-------AGAGAAC-TTTTACCGACTCATATCTATTAAGTTGGGAGTGGAGTTGGAAGGGGATATCCTTTCCAATTCGCGGCTGTGGCCAGAGGG-----------TCAGTAATGCATCCTGTTTTCCGCAGCTTTTGATTT--TTTAGGTTTCCCGCTTTAGGAATA---TATATATTA-TTTTCTAATATCAATCTCTAATTGCCAGGTGGTTATCTTCTCTTAA-----------------------------ATTAATTTTAATTGGACTGTGtctggtatttattttctctgttgcctatttctctacccagt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55632228 302 -  71252344 GTGTAGATGGACAGATTCACAGATGTAGTAGATCCTGTAT-------GGAGAAC-TTTTACCGACTCGTATCTATTCAGTTGGGAGCGGAGTTGGAAAGGGATATCCTTTCCAGTTCGCTACTGTGGCCAGA-GG-----------TCAGTAATGCATCCTATTTTCCACAGCTTTTGATTT--TTTAGGTTTCCCACTTTAGGAATA---TCTATATTA-TTTTCTAATATCAGTCTCTAATTGCCAGGTAGTTATCTTCTCTTCA-----------------------------ATTAATTTTCATTGGACTGTGTctggtatttactttcttt-ttgcctgtttctctacccagt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1326607 304 -   1400280 GTGTAGATGGACAGATTTACAGATGTAATAGATCCTGTAT-------AGAGAAC-ATTTACTGACTCATATCTATTAAGTTGGGAGTGGAGTTGGAAGGAGATATCCTTTCCAATTCACTACTATGGCCAGAGGG-----------TCAGTAATGCATCCTATTTTCCACAGCTTTTGATTT--TTTAGGTTTCCCACTTTAGGAATA---TCTATATTA-TTTTCTAATATCAGTCTCTAATTGCCAGGTGGTTATCTTCTCTTAA-----------------------------ATTAATTTTAATTGGACTGTGTCTGGTATTTACTttctcttttgcctatttctctaccgagt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13119513 305 -  42888418 GTGTAGATGGACAGATTCACAGATGTAATAGATCCTGTAT-------AGAGAACTTTTTACCGACTCGTATCTATTAAGTTGGGAGTGGAGTTGGAAGGGGGTATCCTTTCCAATTTGCTGCTATGGCCAGAGGG-----------TCAGTAATGCATCCTATTTTCCACAGCTTTTGATTT--TTTAGGTTTCCCACTTTAGGAATA---TCTGTATTA-TTTTCTAATATCAGTCTCTAATTGCCAGGTGGTTATCTTCTCTTAA-----------------------------ATTAATTTTAATTGGACTGTGTCTGGTATTTACTttctcttttgcctatttctctacccagt
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60492619 292 + 108143057 TTTCAGACGGATGGATTGATTGATTAAATGAATCCTGTGT-------AGAGAAC-TTTTACTAACTCATGCTTAAAAACTTGGGAGTGGAGTTGGAAGAGGAGCTGCTGTCCAGTTCACCACCAGGGCTAGAAGG-----------TCAGTAATGTGTCTTATTTTCTAGAGCTTTGGGTTT--TTTAGGTTTCACACTTTAGGAGTA---TCTATGTTA-TTTTTTGATATTAGTTTCTAATTGCCAGCTGATTATCCTTTCTTAA-----------------------------ATTAATTtta-----------tctagtatttactttctc-tttggctgtttttcttcccagt
i micMur3.chr12            C 0 I 43
s proCoq1.NW_012155062v1     3522632 293 +  11683526 TTTCAGGTGGATGGATTGATAGATGAAATGAATCCTGTGT-------AGAGAAC-TTTTACTAACTCATGCCTATCAACTTGGGAGTGGAGTTGGAAGAGGGGATGCTGTCCAGTTCACCACTAGGGCTGGAAGG-----------TCAGTAATGTGTCCTATTTTCTAGAGCTTTTGATTT--TTTAGGTTTCACATTTTAGGAATA---TCTATATTA-TTTTTTGATATCAGTCTTTAATTGCCAGCTGGTTATCCTTTCTTAA-----------------------------ATTAatttta-----------tctggtatttactttctcttttggctgtttttcttcccagt
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3002071 291 +   4132165 TTTCAGATGGACAGATTGATAGATGAAATGTATTCTGTA--------ACAGCAC-TTTTACTAATTCATGCCTATCAATTTGGAAGTGGAGTTGGAAGGGGAGG----ATATTATATATCACTAAGACTAGAAGA-----------TCGGTAATGCATCCTATTTTCTATAGCTTTTGATTT--TTTAGGTTTCATACTTTAGGAATGTTCTTCATATTG-TTCTTCTTTATCAGTCTTAAATTGCCAGCTGGTTATTCTTTCTTAA-----------------------------ATCAAATTTA-----------TCTGGTATCCATTTTCTTTGTCAGCtatttttcttcccagg
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14866695 340 +  74389097 TTGCAGGTGGACGGACTGACAGATTAAATGAATCCTATGTCTATTAAAGGGAAT-TTTCACCTATTCTTATC----ATGTTGGAGGTAGAGCAAATAAGGGATATGTTACTCATTTCAC----ATAGGTAGAAAACACGTTGTATTTCCATAATGCAACATGTTTTTTATAGCTTTTATT----TTTAGATTTCAT-TTTCTGGAATA---TTTCTGTTA-TTTTCTGGTATCACTCGCTAATTGCCACCTACTTGTCCTTTATGaaattaatttaattttattatttGTTATGAGATTAATTTTAATCAGACTAtatctggtatttactttttcttttacctatttctcttccctgt
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=461107.000000
s hg38.chr5_KI270796v1_alt     18248 36 +    172708 tacttggctggctctgtgaggagggcagatacgg----ct----
s panTro5.chr5             125128341 36 + 181907262 tacttggctggctctgtgaggagggcagatacgg----ct----
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126465317 36 + 183735486 tacttggctggctctgtgaggagggcagatacgg----ct----
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1656866 36 +   8933513 tacttggctggctctgtgaggagggcagatacgg----ct----
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139789223 36 + 163208435 tacttggctggctctgcgaggagggcagatatgg----ct----
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122774293 36 + 180051392 tacttggctggctctgtgaggagggcagatatgg----ct----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124197965 36 + 181584905 tacttggctggctctgtgaggagggcagatatgg----ct----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16195700 36 +  18395747 tacttggctggctctgtgaggagggcagatatgg----ct----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5201568 36 +  26952557 tacttggctggctctgtgaggagggcagatatgg----ct----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28309402 36 +  82825804 tacttggctggctctgtgaggagggcagatatgg----ct----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3973511 36 -   4237731 tacttggctggctctgtgaggagggcagatatgg----ct----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      243261 36 -   1175262 tacttggctggctctatgaggaaggcagatatgg----ct----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123576734 36 - 204313951 tacttggctggctctgtgaggaaggcaaatatgg----ct----
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55632530 36 -  71252344 tacctggctggctctgtgaggaaggcaaatatgg----ct----
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1326911 36 -   1400280 tacttggctggctctgtgaggaacgcaaatatgg----tt----
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13119818 36 -  42888418 tacttggctggctctgtgaggaaggcaaacgtgg----ct----
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3522925 36 +  11683526 ttcatgcttggttctgtgatgaggacagatgtgg----ct----
i proCoq1.NW_012155062v1   C 0 I 4
s otoGar3.GL873679           3002362 40 +   4132165 tatgcgactgggtctgtcaggagaacagatgtggaggtct----
i otoGar3.GL873679         C 0 I 7
s canFam3.chr11             14867035 40 +  74389097 ttcacggctgactctgtgaggagagcagatagaa----ctgtct
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60492911 43 + 108143057 I
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=1656206.000000
s hg38.chr5_KI270796v1_alt     18284 129 +    172708 aatttacagctgcgttaccagagcctgatccagagagtagatggtca--atatatat-ttgttgcataaatggatAGTGGCTGTCTCCTTATTTC---TTTCT--C---TTTTTTTCTTCATCAGAGCTCTCTAAAtaag
s panTro5.chr5             125128377 129 + 181907262 aatttacagctgcgtcaccagagcctgatccagagagtagatggtca--atatatat-ttgttgcataaatggatAGTGGCTGTCTCCTTATTTC---TTTCT--C---TTTTTTGCTTCATCAGAGCTCTCTAAAtaag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126465353 129 + 183735486 aatttacagctgcatcaccagagcctgatccagagagtagatggtca--atatatat-ttgttgcataaatggatAGTGGCTGTCTCCTTATTTC---TTTCT--C---TTTTTTTCTTCATCAGAGCTCTCTAAAtaag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1656902 129 +   8933513 aatttacagctgtgtcaccagagcctgatccagagagcagatggtca--atatatat-ttgttgcataaatggatAGTGGCTGTCTCCTTATTTC---TTTCT--C---TTTTTTTCTTCATCAGAGCTCTCTAAAtaag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139789259 129 + 163208435 aatttacagctgtatcaccagagcctgatcc--agagtagatggtca--atgtatat-ttgttgcataaatagatAGTGGCTGTCTACTTATTTC---TTTTCTGT---TTTTTTTCTTGATCAGAGCTATCTAAAtaag
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122774329 124 + 180051392 aatttacagctgtgtcaccagagcctgatcc--agagtagatggcca--atatatat-ttgttgcataaatggatAGTTGCTGTCTC----CTTC--TTTTCT--C---TTTTTTTCTTGATCAGAGCTCTCTAAAtaag
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124198001 128 + 181584905 aatttacagctgtgtcaccagagcctgatcc--agagtagatggcca--atatatat-ttgttgcataaatggatAGTTGCTGTCTCCTTACTTC--TTTTCT--C---TTTTTTTCTTGATCAGAGCTCTCTAAAtaag
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16195736 128 +  18395747 aatttacagctgtgtcaccagagcctgatcc--agagtagatggcca--atatatat-ttgttgcataaatggatAGTTGCTGTCTCCTTACTTC--TTTTCT--C---TTTTTTTCTTGATCAGAGCTCTCTAAAtaag
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5201604 128 +  26952557 aatttacagctgtgtcaccagagcctgatcc--agagtagatggcca--atatatat-ttgttgcataaatggatAGTTGCTGTCTCCTTACTTC--TTTTCT--C---TTTTTTTCTTGATCAGAGCTCTCTCAAtaag
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28309438 128 +  82825804 aatttacagctgtgtcaccagagcctgatcc--agagtagatggcca--atatttat-ttgttgcataaatggatAGTTGTTGTCTCCTTACTTC--TTTTCT--C---TTTTTTTCTTGATCAGAACTCTCTAAAtaaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3973547 128 -   4237731 aatttacagctgtgtcaccagagcctgatcc--agagtagatggcca--atatatat-ttgttgcataaatggatAGTTGCTGTCTCCTTACTTC--TTTTCT--C---TTTTTTTCTTGATCAGAGCTCTCTAAAtaag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      243297 128 -   1175262 aatttatggctgtgtcaccagagcctgatcc--agagtagatggcca--atatatat-ttgttgcataaatggatAGTCGCTGTCTCCTTACTTC--TTTTCT--C---TTTTTTTCTTGATCAGAGCTCTCTAAAtaag
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123576770 127 - 204313951 aatttacagctgtagcaccagagcctggtcc--agagcagatggtca--atatatat-ttatcgaataaatggatGGTGGCTGTCTCCTTATTTC---TTTCT--C---TTTTTTTCTTGATCAGAGCTCTCTAAAtaag
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55632566 132 -  71252344 aatttacagctgtatcaccagagactggtcc--agagcaggtggtcaatatatatat-ttattgaataaatggatAGTGGCTGTCTCCTTATGTC---TTTCT--CTTTTTTTTTTCTTGATCAGAGCTCTCTAAAtaag
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1326947 128 -   1400280 aatttacagctgtatcaccagagcctgatcg--agagcagagagtca--atatacatattattgaataaatggatGGTGGCTGTCTCCTTATTTC---TTTCT--C---TTTTTTCCTTGATCAGAGCTCTCTAAAtaag
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13119854 129 -  42888418 aatttacagctgtatcaccagagcctggtcc--agagcagatggtcaatatagatat-ttattgaataaatggatGGTGGCTGTCTCCTTATTTC---TTTTT--C---TTTTTTTCTTGATCAGAGCTTTCTAAAtaag
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60492954 127 + 108143057 aatttacagctgtatcaccagcacctggcac--agagtggatggtca--gtgtgtat-ttgttgaataaatagatGATGACTGTTTCCTTATTTT---CTCCC--T---CTTTTTTCTTGATCAGAGATCTCTAAAtaag
i micMur3.chr12            I 43 C 0
s proCoq1.NW_012155062v1     3522965 126 +  11683526 aatttacagctgtatcaccagcacctgg-ac--agagtggatggtca--gtatatat-ttgttgaatacatagatGATGACTGTTTCCTTATTTT---CTTCC--T---CTTTTTTCTTGATCAGAGATCTCTAAAtaag
i proCoq1.NW_012155062v1   I 4 C 0
s otoGar3.GL873679           3002409 124 +   4132165 aatttacagctgtgtcaccagagcccggcat--agagtgtgtggtca--gtatatat-ttgttgaataaatggatGAGAACTGTTTCCTTATT--------CC--T-GGTATTTTTCTTGATCAAAAATCTCCAAATAgg
i otoGar3.GL873679         I 7 I 110
s canFam3.chr11             14867075 126 +  74389097 aatttatacccatatcaccacagcctggcac--agagtaaatgatcg--atatatat-ttgttgca-aaatgcat---gaCTGTCTCCTTATTTCCTCCCTCC--C---TCCCTTTCCCAATTGGAGCCCTCTAAGtaag
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=1059092.000000
s hg38.chr5_KI270796v1_alt     18413 77 +    172708 gtgaccataaagtttgtccttgaaaccagg-----actttacagtgaaaggaagtgctgttgactgttatgccaggacaagg
s panTro5.chr5             125128506 77 + 181907262 gtgaccataaagtttgtcattgaaaccagg-----actttacagtgaaaggaagtgctgttgactgttatgccaggacaagg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126465482 77 + 183735486 gtgaccataaagtttgtcattgaaaccagg-----actttacagtgaaaggaagtgctgttgactgttatgccaggacaagg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1657031 77 +   8933513 gtcaccataaagtttgtcattgaaaccagg-----actttacagtgaaaggaggtgctgttgactgttatgccaggacaagg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139789388 77 + 163208435 gtggccataaagtttgtcattgaaaccagg-----actttacagtgaaaagaggtgctgttgaatgttatgccaggacaagg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122774453 82 + 180051392 gtaaccataaagtttgtcattgaaaccaggacttgactttactgtgaaaggaggtgctgttgactgttatgccaggacaagg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124198129 82 + 181584905 gtaaccataaagtttgtcattgaaaccaggacttgactttactgtgaaaggaggtgctgttgactgttatgccaggacaagg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16195864 82 +  18395747 gtaaccataaagtttgtcattgaaaccaggacttaactttactgtgaaaggaggtgctgttgactgttatgccaggacaagg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5201732 82 +  26952557 gtaaccataaagtttgtcattgaaaccaggacttaactttactgtgaaaggaggtgctgttgactgttatgccaggacaagg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28309566 82 +  82825804 gtgaccataaagtttgtcattgaaaccaggacttaactttacagtgaaaggaagtgctgttgactgttatgccaggacaagg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3973675 82 -   4237731 gtgaccataaagtttgtcattgaaaccaggacttaactttactgtgaaaggaggtgctgttgactgttatgccaggacaagg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      243425 82 -   1175262 gagaccataaagtttgtcattgaaaccaggacttaactttacagtgaaaggaggtgctattgactgttctgccaggataagg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123576897 82 - 204313951 gtgaccataaagtctgtcattgaaaccaggacttaactttacagtgaaaagaggtgctgccaattgttaccccaggactagg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55632698 82 -  71252344 gtgaccataaagtctgtcattgaaaccaggacttaactttacagtgaaaagaggtgttgctgattgttacgccaggactagg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1327075 82 -   1400280 gtgaccataaagtctgtcattgaaaccaggacttaactttacagtgaaaagaggtgctgctgattgttaccccaggactagg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13119983 82 -  42888418 gtgaccataaagtctgtcattgaaactaggacttaactttacagtgaaaagaggtgctgctgattgttaccccaggattagg
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60493081 82 + 108143057 atgaccataaagcttgcccttgaaaccaggacttttctctaaagtgaaaggaggtgctattgatgattatgccaagacaagg
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3523091 82 +  11683526 atgaccataatgtttgtccttgaaaccaggacttttctttaaagtgaaaggaggtgctattgatgattatgccaggacaaag
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3002643 81 +   4132165 gtgaccataacattagt-ctcaaaaccaggacttttcttaaaaatgaaaggaggtgctattgataatcatggcaagacaaag
i otoGar3.GL873679         I 110 C 0
s canFam3.chr11             14867201 80 +  74389097 gtcaccataaagtctgtcattgaaactagtaatcttttttatatggaaaggagatgctcttgctgattatatgaggacaa--
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2557473 538 +   3667625 I
e mm10.chr18                55469729 675 +  90702639 I

a score=595588.000000
s hg38.chr5_KI270796v1_alt     18490 43 +    172708 gcataatctgggattcttccacccaagctgagggatatcatca
s panTro5.chr5             125128583 43 + 181907262 gcataatctgggattcttccacccaagctgagGGAGATCATCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126465559 43 + 183735486 gcataatctgggattcttccacccaagctgagGGAGATCATCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1657108 43 +   8933513 gcataatctgggattcttccacccaagctgagggatatcatca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139789465 43 + 163208435 gcataatctgggattcttccacccaaactgaggaatatcatca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122774535 43 + 180051392 gcataatctgggattcttccacccaaactgagggatatcatca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124198211 43 + 181584905 gcataatctgggattcttccacccaaactgagggatatcatca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16195946 43 +  18395747 gcataatctgggattcttccacccaaactgagggatatcatca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5201814 43 +  26952557 gcataatctgggattcttccacccacactgagggatgtcatca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28309648 43 +  82825804 gcataatctgggattcttccacccaaactgacggatatCATCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3973757 43 -   4237731 gcataatctgggattcttccacccacactgagggatgtcatca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      243507 43 -   1175262 gcataatctgggattcttccacccaaactgcgggatatCATCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123576979 43 - 204313951 gcataatctgggattcttccatctaaactgaggcatatcatca
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55632780 43 -  71252344 gcataatctgggattctgccatctaaactgaggcatatcatca
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107829v1     1327157 43 -   1400280 gcatcatctgggattcttccatctaaactgaggcatatcatca
i cebCap1.NW_016107829v1   C 0 I 22
s aotNan1.NW_018505940v1    13120065 43 -  42888418 gcataatctgggattcttccatctaaactgaggcatatcatca
i aotNan1.NW_018505940v1   C 0 I 1
s micMur3.chr12             60493163 43 + 108143057 gcaaaatctgggattctcccactcaaattggggcatgtggtca
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3523173 43 +  11683526 gcaaaatctggggttctcccacccaaactggggcatatggtca
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3002724 43 +   4132165 gcatagtgtggggttttcccacccaaactggggcatagggtca
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14867281 38 +  74389097 ----aatctgccacggtccca-ccaaattgggacatatggtca
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2558011 33 +   3667625 GCTCAGTCTGGGATGGTCCCAACAAAACTGGGA----------
i dasNov3.JH567306         I 538 C 0
e mm10.chr18                55469729 675 +  90702639 I

a score=23481.000000
s hg38.chr5_KI270796v1_alt     18533 2 +    172708 TT
s panTro5.chr5             125128626 2 + 181907262 TT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126465602 2 + 183735486 TT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1657151 2 +   8933513 TT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139789508 2 + 163208435 TT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122774578 2 + 180051392 TT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124198254 2 + 181584905 TT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16195989 2 +  18395747 TT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5201857 2 +  26952557 TT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28309691 2 +  82825804 TT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3973800 2 -   4237731 TT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      243550 2 -   1175262 TT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123577023 2 - 204313951 tt
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55632824 2 -  71252344 tt
i saiBol1.JH378106         I 1 C 0
s aotNan1.NW_018505940v1    13120109 2 -  42888418 tt
i aotNan1.NW_018505940v1   I 1 C 0
s micMur3.chr12             60493206 2 + 108143057 ct
i micMur3.chr12            C 0 I 53
s proCoq1.NW_012155062v1     3523216 2 +  11683526 ct
i proCoq1.NW_012155062v1   C 0 I 27
s otoGar3.GL873679           3002767 2 +   4132165 ct
i otoGar3.GL873679         C 0 I 1
s canFam3.chr11             14867319 1 +  74389097 -t
i canFam3.chr11            C 0 I 2
e cebCap1.NW_016107829v1     1327200 22 -   1400280 I
e dasNov3.JH567306           2558044 0 +   3667625 C
e mm10.chr18                55469729 675 +  90702639 I

a score=73115.000000
s hg38.chr5_KI270796v1_alt     18535 19 +    172708 TATCACTAAAGA------TT-TTTTT
s panTro5.chr5             125128628 19 + 181907262 TATCACTAAAGA------TT-TTTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126465604 20 + 183735486 TATCACTAAAGA-----TTT-TTTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1657153 18 +   8933513 TATCACTAAAGA-------T-TTTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139789510 17 + 163208435 TATCACTAAAGA---------TTTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122774580 25 + 180051392 TATCACTAAAAGGttttttc-ttttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124198256 26 + 181584905 TATCACTAAAAGGTtttttctttttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16195991 25 +  18395747 TATCACTAAAAGGttttttc-ttttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5201859 25 +  26952557 TATCACTAAAAGGttttttc-ttttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28309693 19 +  82825804 TATCACTAAAAGGCttttt-------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3973802 25 -   4237731 TATCACTAAAAGGttttttc-ttttt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      243552 25 -   1175262 TATCACTAAAAAAttttttt-ttttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123577025 19 - 204313951 taTTACTAAAGG------TT-CCCCC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55632826 20 -  71252344 taTTACTAAAGG------TTCCCCCC
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13120111 19 -  42888418 taTTACTAAAGG------TT-TTTTT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3002770 25 +   4132165 taCTTTTAAAGACCTCTTTT-ATTTG
i otoGar3.GL873679         I 1 I 1
s canFam3.chr11             14867322 25 +  74389097 taCCTCAAGAGGTGTCTTCC-ATCTT
i canFam3.chr11            I 2 I 1
s dasNov3.JH567306           2558044 10 +   3667625 ---CATTAAAGG------T-------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60493208 53 + 108143057 I
e proCoq1.NW_012155062v1     3523218 27 +  11683526 I
e cebCap1.NW_016107829v1     1327200 22 -   1400280 I
e mm10.chr18                55469729 675 +  90702639 I

a score=16380.000000
s hg38.chr5_KI270796v1_alt     18554 2 +    172708 TT
s panTro5.chr5             125128647 2 + 181907262 TT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126465624 2 + 183735486 TT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1657171 2 +   8933513 TT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139789527 2 + 163208435 TT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122774605 2 + 180051392 tt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124198282 2 + 181584905 tt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16196016 2 +  18395747 tt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5201884 2 +  26952557 tt
i cerAty1.NW_012002512v1   C 0 C 0
s manLeu1.NW_012103321v1     3973827 2 -   4237731 tt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      243577 2 -   1175262 tt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123577044 2 - 204313951 AT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55632846 2 -  71252344 AT
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13120130 2 -  42888418 TT
i aotNan1.NW_018505940v1   C 0 I 2
s proCoq1.NW_012155062v1     3523245 2 +  11683526 TT
i proCoq1.NW_012155062v1   I 27 C 0
s otoGar3.GL873679           3002796 2 +   4132165 TC
i otoGar3.GL873679         I 1 C 0
s canFam3.chr11             14867348 2 +  74389097 TT
i canFam3.chr11            I 1 C 0
e micMur3.chr12             60493208 53 + 108143057 I
e chlSab2.chr23             28309712 0 +  82825804 C
e cebCap1.NW_016107829v1     1327200 22 -   1400280 I
e dasNov3.JH567306           2558054 0 +   3667625 C
e mm10.chr18                55469729 675 +  90702639 I

a score=135445.000000
s hg38.chr5_KI270796v1_alt     18556 26 +    172708 C-----------------------------------------------------------------------CCCTGGGGCTTTCTTAAAGAT-TGAT
s panTro5.chr5             125128649 26 + 181907262 C-----------------------------------------------------------------------CCCTGGGGCTTTCTTAAAGAT-TGAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126465626 26 + 183735486 C-----------------------------------------------------------------------CCCTGGGGCTTTCTTAAAGAT-TGAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1657173 26 +   8933513 C-----------------------------------------------------------------------CCCTGGGGCTTTCTTAAAGAT-TGAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139789529 26 + 163208435 C-----------------------------------------------------------------------CCCTGGGGCTTTCTTAAAGAT-TGAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122774607 71 + 180051392 c----------------ttttctttttcttttcttttctttttcttttttttttt----------tttttAACCCTGGGGCTTTCTTAAAGAT-TGAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124198284 68 + 181584905 c----------------ttttctttttcttttcttttctttttcttttttttttt-------------tAAACCCTGGGGCTTTCTTAAAGAT-TGAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16196018 66 +  18395747 c----------------ttttctttttcttttcttttctttttcttttttttttt---------------AACCCTGGGGCTTTCTTAAAGAT-TGAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5201886 54 +  26952557 c----------------ttttctttttcttttctttttttttt---------------------------AACCCTGGGGCTTTCTTAAAGAT-TGAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28309712 65 +  82825804 -----------------ttttttttttttttcttttttttttttttttttttttt---------------ACCCCTGGGGCTTTCTTAAAGAT-TGAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3973829 82 -   4237731 cttttcttttctttttcttttcttttttttttttttttttttttttttttttttt---------------AACCCTGGGGCTTTCTTAAAGAT-TGAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      243579 81 -   1175262 t----------------ttttttttttctttttttttttttgtttttttttttttttttttttttttttAACCCCTGGGGCTTTCTTAAAGAT-TGAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123577046 24 - 204313951 -------------------------------------------------------------------------TTCGGTGCTTTCTTAAAGAT-TGAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55632848 24 -  71252344 -------------------------------------------------------------------------CCCGGTGCTTTCTTAAAGAT-TGAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1327222 26 -   1400280 -----------------------------------------------------------------------CCCCCGGTGCTTTATTAAAGAT-TGAT
i cebCap1.NW_016107829v1   I 22 C 0
s aotNan1.NW_018505940v1    13120134 26 -  42888418 -----------------------------------------------------------------------CCCCAGGTGCTTTCTTAAAGAT-TGAT
i aotNan1.NW_018505940v1   I 2 C 0
s proCoq1.NW_012155062v1     3523247 25 +  11683526 -----------------------------------------------------------------------TCTCTGCAGCTTTCTTAATGAT-TAA-
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3002798 26 +   4132165 -----------------------------------------------------------------------TTTCTGGGACTTTCTTAATGATGTGA-
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14867350 23 +  74389097 -----------------------------------------------------------------------CCCCTGGAACTTTACTA---AT-TGGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2558054 17 +   3667625 --------------------------------------------------------------------------------CCTTTTTGATGAT-TGAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60493208 53 + 108143057 I
e mm10.chr18                55469729 675 +  90702639 I

a score=223700.000000
s hg38.chr5_KI270796v1_alt     18582 17 +    172708 GGAAATGGGCAAACCAA
s panTro5.chr5             125128675 17 + 181907262 GGAAATGGGCAAACCAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126465652 17 + 183735486 GGAAATGGGCAAACCAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1657199 17 +   8933513 GGAAATGGGCAAACCAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139789555 17 + 163208435 GGAAATGGGCAAACCAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122774678 17 + 180051392 GGAAATGGACAAACCAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124198352 17 + 181584905 GGAAATGGACAAACCAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16196084 17 +  18395747 GGAAATGGACAAACCAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5201940 17 +  26952557 GGAAATGGATAAACCAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28309777 17 +  82825804 GGAAATGGACAAACTAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3973911 17 -   4237731 GGAAATGGATAAACCAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      243660 17 -   1175262 GGAAATGAACAAACCAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123577070 17 - 204313951 GGATATAGGCAACCCAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55632872 17 -  71252344 GGATATAGGCAGTCCAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1327248 17 -   1400280 GGATATAGGCAATCCAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13120160 17 -  42888418 GGATATAGGCAATCCAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60493261 17 + 108143057 AAAAATGGGTGAACCAG
i micMur3.chr12            I 53 C 0
s proCoq1.NW_012155062v1     3523272 17 +  11683526 AAAAATGGGTGAACCAG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3002824 17 +   4132165 AGAAATAGATAAACCAG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14867373 17 +  74389097 AGAAATGGGCAAACGAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2558071 17 +   3667625 AGTAGTGGGCAAACCAG
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55469729 675 +  90702639 I

a score=2103932.000000
s hg38.chr5_KI270796v1_alt     18599 148 +    172708 TTTTAGATAATAGGTATTAGGGATCTTGCAAATTTTGTTCTTGCCTTTATAGCAAATAGCTAATGAGTTGTTAATGATTCTTGCCTGTCTCCTCAGAACTCTGTAACAAGTTCTCTCTCTG-----GTAATTTATTCCTGGTTTTGCTAGTTT
s panTro5.chr5             125128692 148 + 181907262 TTTTAAATAATAGGTATTAGGGATCTTGCAAATTTTGTTCTTGCCTTTATAGCAAATAGCTAATGAGTTGTTAATGATTCTTGCCTGTCTCCTCAGACCTCTGTAACAAGTTCTCTCTCTG-----GTAATTTATTCCTGGTTTTGCTAGTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126465669 148 + 183735486 TTTTAGATAATAGGTATTAGGGATCTTGCAAATTTTGTTCTTGCCTTTATAGCAAATAGCTAATGAGTTGTTAATGATTCTTGCCTGTCTCCTCAGACTTCTGTAACAAGTTCTCTCTCTG-----GTAATTTATTCCTGGTTTTGCTAGTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1657216 148 +   8933513 TTTTAGATAATAGGTATTAGGGATCTTGCAAATTTTGTTCTTGCCTTTATAGCAAATAGCTAATGAGTTGTTAATGATTCTTGCCTGTCTCCTCAGACCTCTGTAACAAGTTCTCTCTCTG-----GTAATTTATTCCTGGTTTTGCTAGTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139789572 146 + 163208435 TTTTAGATA--AATTAAAAGGGATCTTGCAAATTTTGTTCTTGCCTTTATAGCAAATAGCTAATGAGTTGTTAATGATGCTTGCCTGTCTCCTCAGACCTCTGTAACAAGTTCTCTCTCTG-----GTAATTTATTCCTGGTTTTGCTAGTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122774695 148 + 180051392 TTTTAGATAATAGGTATTAGGGATCTTGCAAATTTTCTTCTTGCCTTTATAGCAAATAGCTAATGAGTTGTTAATGATGCTAGCCTGTCTCCTCAGACCTCTGTAACACGTTCTCTCTCTG-----GTAATTTATTCCTGGTTTTGCTAGTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124198369 148 + 181584905 TTTTAGATAATAGGTATTAGGGATCTTGCAAATTTTCTTCTTGCCTTTATAGCAAATAGCTAATGAGTTGTTAATGATGCTAGCCTGTCTCCTCAGACCTCTGTAACACGTTCTCTCTCTG-----GTAATTTATTCCTGGTTTTGCTAGTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16196101 148 +  18395747 TTTTAGATAATAGGTATTAGGGATCTTGCAAATTTTCTTCTTGCCTTTATAGCAAATAGCTAATGAGTTGTTAATGATGCTAGCCTGTCTCCTCAGACCTCTGTAACACGTTCTCTCTCTG-----GTAATTTATTCCTGGTTTTGCTAGTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5201957 148 +  26952557 TTGTAGATAATAGGTATTAGGGATCTTGCAAATTTTGTTCTTGCCTTTATAGCAAATAGCTAATGAGTTGTTAATGATGCTTGCCTGTCTCCTCAGACCTCTGTAACATGTTCTCTCTCTG-----GTAATTTATTCCTGGTTTTGCTAGTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28309794 147 +  82825804 TTTTAGATAATAGGTATTAGGGATCTTGCAAATTTTGTTCTTGCCTTTATAGCAAATAGCTAATGAGTTGTTAATGATGCTTGCCTGTCTCCTCAGACCTCTGTAACACGTTCTCTCTCTG-----GTAATTTATTCCTGGTTTT-CTAGTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3973928 148 -   4237731 TTGTAGATAATAGGTATTAGGGATCTTGCAAATTTTGTTCTTGCCTTTATAGCAAATAGCTAATGAGTTGTTAATGATGCTTGCCTGTCTCCTCAGACCTCTGTAACACGTTCTCTCTCTG-----GTAATTTATTCCTGGTTTTGCTAGTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      243677 148 -   1175262 TTTTAGATAATAGGTATTAGGGATCTTGCAGATTTTGTTCTTGCCTTTATAGCAAATAGCTAATGCGTTGTTAATGATGCTTGCGTGTCTCCTCAGACCTCTGTAACAAGTTCTTTCTCTG-----GTAATTTATTCCTGGTTTTGCTAGTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123577087 147 - 204313951 TTTTTGATAATAGGTATCAGGGATCTAGCAAATTTTATTCTTG-TTTTATAGCAAATAGCTAATGAATTGTTAATGGTGCTTGCCTGTCTCCTCAGACCTCCTTAACAAGTTCTCTCTCTG-----GCAATTTATTCCTCATTTTGCTAGTTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55632889 147 -  71252344 TTTTTGATAATAGGTATCAGGGATCTAGCAAATTTTATTCTTG-TTTTATAGCAAATGGCTAATGAGTTGTCAATGGTGCTTGCCTATCTCCTCAGACCTCCTTAACAAGTTCTCTCTCTG-----GCAATTTATTCCTCGTTTTGCGAGTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1327265 146 -   1400280 TTTTT-ATAATAGGTATCAGGGATCTAGCAAATTTTATTCTTG-TTTTATAGCAAATAGCTAATGAGTTGTTAATGGTGCTTACCTGTTTCCTCAGATCTCCTTAACAAGTTCTCTCTCTG-----GCAATTTATTCCTCGTTTTGCTAGTTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13120177 147 -  42888418 TTTTTGATAATAGGTATCAGGGATCTAGCAAATTTTATTCTTG-TTTTATAGCAAATAGCTAATGAGTTGTTAATGGTGCTTGCCTGTCTCCTCAGACCTCCCTAACAAGTTCTCTCTCTG-----GCAATTTATTCCTCGTTTTGCTAGTTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60493278 148 + 108143057 TTTTAGATAGTAAATGTGAGGGATCCTGCAAATTTCATTCTTGTCTTTGTACCAAACAGCTAATGAGTTGCCAGTAATAGTTGTCCATCTCCCAAGACTTCCTCAACAAGTTCTCtatctg-----gctattttctccttgttttgttagttt
i micMur3.chr12            C 0 I 20
s proCoq1.NW_012155062v1     3523289 135 +  11683526 TTTTAGATAGTAGATGTGAGGAATCCCACAAATTTCATTCTTGCCTTTATACCAAACAGCTAATGAGTTGTCAGTAATACTTGTCCATCTTCCAAGACCTCCTCAACAAGTTCTCTATCTG-----GCTATTTTCTCCTT-------------
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3002841 135 +   4132165 TTTTTGGTAGTAGGTGT-----------CAGATTTCATTCTTACCTGTATACCAAACAGCTAATGAGGTCCCACTAATACCTGTC--TTCCACAAGACCTCTTCAATAAGTTCTCTATCTG-----GCTATTTACTCCTTATTTTGTTAGCTT
i otoGar3.GL873679         C 0 I 4
s mm10.chr18                55470404 137 +  90702639 TCTTAGAAAATACACATTAGGGATCCAGAAAATTCCATTCTTATCTTTCTATGAAAC-----------TGCTGATAATGCTCGCCTCTTGCCCAAGACCTCTTCAACAAGTTCTCTGACTG-----CTTGCTCTTCCTTTGGCTGGCTGAATT
i mm10.chr18               I 675 C 0
s canFam3.chr11             14867390 146 +  74389097 TTTTAGATAGTAGATGTCA-AAATCCAGCACATTTCATTATTGCTTATATACTCACCAGCCAATAAGTTGACAGTAATGCTTGCCTCTGTCCTAAGACCAC-ACAGTAAGTCCTCTCTCTG-----GCTTTTTATACTTTGTTTTGTTTGCAT
i canFam3.chr11            C 0 I 6
s dasNov3.JH567306           2558088 150 +   3667625 TTTTACATAGGAG---TCAGGATTCTAACAAGTTTCATTCTTGCCTTTATACCAAACTGCCAGTGAGTTGCCAATAATGCTTGCTTCTCTGCCAAGACTGCCTCAAAAACTTCTCTGTCTGGACCAGCTATTTATGCCTTGTTTTGTTTATTC
i dasNov3.JH567306         C 0 C 0

a score=208382.000000
s hg38.chr5_KI270796v1_alt     18747 15 +    172708 ------GTTTTCATTGCTCTT
s panTro5.chr5             125128840 15 + 181907262 ------GTTTTCATTGCTCTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126465817 15 + 183735486 ------GTTTTCATTGCTCTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1657364 15 +   8933513 ------GTTTTCATTGCTCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139789718 15 + 163208435 ------GTTTTCATTGCTCTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122774843 15 + 180051392 ------GTTTTCATTGCTCTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124198517 15 + 181584905 ------GTTTTCATTGCTCTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16196249 15 +  18395747 ------GTTTTCATTGCTCTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5202105 15 +  26952557 ------GTTTTCATTGCTCTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28309941 15 +  82825804 ------GTTTTCATTGCTCTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3974076 15 -   4237731 ------GTTTTCATTGCTCTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      243825 15 -   1175262 ------GTTTTCATTGCTCTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123577234 15 - 204313951 ------GTTTTTGTTGCTCTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55633036 15 -  71252344 ------GTTTTTGTTGCTTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1327411 15 -   1400280 ------GTTTTTGTTGCTCTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13120324 15 -  42888418 ------GTTTTTGTTGCTCTT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3523424 15 +  11683526 ------ATTTTTGTTATTTTT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3002980 15 +   4132165 ------GTTTTTATTGCTTTT
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55470541 14 +  90702639 ------GTTTTT-CTGCACTA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14867542 15 +  74389097 ------GTGTGTGTTTCTTTT
i canFam3.chr11            I 6 C 0
s dasNov3.JH567306           2558238 21 +   3667625 ATTTGATTTTTTGTTGTTTTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60493426 20 + 108143057 I

a score=222521.000000
s hg38.chr5_KI270796v1_alt     18762 16 +    172708 -AAGGATTCCTTGTTAT
s panTro5.chr5             125128855 16 + 181907262 -AAGGGTTCCTTGTTAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126465832 16 + 183735486 -AAGGATTCCTTGTTAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1657379 16 +   8933513 -AAGGATTCCTTGTTAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139789733 16 + 163208435 -AAGGATTCCTTGTTAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122774858 16 + 180051392 -AAGGATTCCTTGTTAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124198532 16 + 181584905 -AAGGATTCCTTGTTAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16196264 16 +  18395747 -AAGGATTCCTTGTTAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5202120 16 +  26952557 -AAGGATTCCTTGTCAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28309956 16 +  82825804 -AAGGATTCCTTGTTAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3974091 16 -   4237731 -AAGGATTCCTTGTTAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      243840 16 -   1175262 -AAGGATTCCTTGTTAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123577249 16 - 204313951 -AAGGATCTGTTGTTAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55633051 13 -  71252344 -AAGGATC---TGTTAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1327426 16 -   1400280 -AAGGATCTGTTGTTAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13120339 15 -  42888418 -AAGGATCTGTT-TAAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60493446 16 + 108143057 -aAGGATCTCTTGTTAC
i micMur3.chr12            I 20 C 0
s proCoq1.NW_012155062v1     3523439 16 +  11683526 -AAGGATCTCTTGTTAC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3002995 16 +   4132165 -AAAGATCTCTTGTTAT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55470555 16 +  90702639 -AAGGATCACTTGTTGA
i mm10.chr18               C 0 I 1
s canFam3.chr11             14867557 16 +  74389097 -AAGGATCTGTTGTTAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2558259 16 +   3667625 CAAGGCTCACTTTTTC-
i dasNov3.JH567306         C 0 C 0

a score=4511234.000000
s hg38.chr5_KI270796v1_alt     18778 341 +    172708 TAGAACTGGCTTTCTGGATGACTTAGAAT-TTCCTGA-------TCCTA-ACAA-TTTTGCTACCTGGTTCTCATTTCCTCATCATCCTGCCTACTTATTGTTGACTTTCTGTCTCAGGCTCTTGTCTGAGTTTA-TTATTTGGCTTCTGCCATTCTCTTCAGCTCCTCTTTGAAGCTCCTGCTGGTAACTTC-CAGCCTGCTCTTAAGAAACACCAGGCATCATCAATGTAGATGAGTCAGCCTGCATTTTGGCTGTCACTCTCACCTTTCAGAAGTGACATGAAGGCCTCCTAGCTGC-CC-TTTCTGCCTTATACCTGCACTTAATCTGGACTTG--------------------------------------------AACTTAGG-----GATCCTCAC
s panTro5.chr5             125128871 341 + 181907262 TAGAACTGGCTTTCTGGATGACTTAGAAT-TTCCTGA-------TCCTA-ACAA-TTTTGCTACCTGGTTCTCATTTCCTCATCATCCTGCCTACTTATTGTTGACTTTCTGTCTCAGGCTCTTGTCTGAGTTTA-TTATTTGGCTTCTGCCATTCTCTCCAGCTCCTCTTTGGAGCTCCTGCTGGTAACTTC-CAGCTTGCTCTTAACAAACACCAGACATCATCAATGTAGATGAGTCAGCCTGCATTTTGGCTGTCACTCTCACCTTTCAGAAGTGACATGAAGGCCTCCTAGCTGC-CC-TTTCTGCCTTATACCTGCACTTAATCTGGACTTG--------------------------------------------AACTTAGG-----GATCCTCAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126465848 341 + 183735486 TAGAACTGGCTTTCTGGATGACTTAGAAT-TTCCTGA-------TCCTA-ACAA-TTTTGCTACCTGGTTCTCATTTCCTCATCATCCTGCCTACTTATTGTTGACTTTCTGTCTCAGGCTCTTGTCTGAGTTTA-TTATTTGGCTTCTGCCATTCTCTCCAGCTCCTCTTTGGAGCTCCTGCTGGTAACTTC-CAGCCTGCTCTTAACAAACACCAGACATCATCAATGTAGATGAGTCAGCCTGCATTTTGGCTGTCACTCTCACCTTTCAGAAGTGACATGAAGGCCTCCTAGCTGC-CC-TTTCTGCCTTATACCTGCACTTAATCTGGACTTG--------------------------------------------AACTTAGG-----GATCCTCAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1657395 341 +   8933513 TAGAACTGGCTTTCTGGATGACTTAGAAT-TTCCTGA-------TCCTA-ACAA-TTTTGCTACCTGGTTCTCATTTCCTCATCATCCTGCCTACTTATTGTTGACTTTCTGTCTCAGGCTCTTGTCTGAGTTTA-TTATTTGGCTTCTGCCATTCTCTCCAGCTCCTCTTTGGAGCTCCTGCTGGTAACTTC-CAGCCTGCTCTTAACAAACACCAGACATCATCAATGTAGCTGAGTCAGCCTGCATTTTGGCTGTCACTCTCACCTTTCAGAAGTGACATGAAGGCCTCCTAGCTGC-CC-TTTCTGCCTTATACCTGCACTTAATCTGGACTTG--------------------------------------------AACTTAGG-----GATCCTCAC
i gorGor5.CYUI01015135v1   C 0 C 0
s rheMac8.chr6             122774874 340 + 180051392 TAGAACTGGCTTTCTGGATGACTTATAAT-TTCCTGA-------TTCTA-ACAA-TTTTGCTACCTGGTTCTCATTTCCTCATCATCCTGCTTACTTATTGTTGACTTTCTGTCCCAGGCTCTAGTCTGAGTTTA-TTATTTGGCTTCTGCCATTCCCTCCAGCCCCTCTTTGGAGCTTCTGCTGGTAACTT--CAGCCTGCTCTTAACAAGCACCAGACATCATCAATGTAGATGAGTCAGCCTGCATTTTGGCTGTCACTCTCACCCTTCAGAAGTGACATGAAGGCCTCCTAGCTGC-CC-TTCCTGCCTTATGCCTGCACTTAATCTGGACTTG--------------------------------------------AACTTAGA-----GATCCTCAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124198548 340 + 181584905 TAGAACTGGCTTTCTGGATGACTTATAAT-TTCCTGA-------TTCTA-ACAA-TTTTGCTACCTGGTTCTCATTTCCTCATCATCCTGCTTACTTATTGTTGACTTTCTGTCCCAGGCTCTAGTCTGAGTTTA-TTATTTGGCTTCTGCCATTCCCTCCAGCCCCTCTTTGGAGCTTCTGCTGGTAACTT--CAGCCTGCTCTTAACAAGCACCAGACATCATCAATGTAGATGAGTCAGCCTGCATTTTGGCTGTCACTCTCACCCTTCAGAAGTGACATGAAGGCCTCCTAGCTGC-CC-TTCCTGCCTTATGCCTGCACGTAATCTGGACTTG--------------------------------------------AACTTAGA-----GATCCTCAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16196280 340 +  18395747 TAGAACTGGCTTTCTGGATGACTTATAAT-TTCCTGA-------TTCTA-ACAA-TTTTGCTACCTGGTTCTCATTTCCTCATCATCCTGCTTACTTATTGTTGACTTTCTGTCCCAGGCTCTAGTCTGAGTTTA-TTATTTGGCTTCTGCCATTCCCTCCAGCCCCTCTTTGGAGCTTCTGCTGGTAACTT--CAGCCTGCTCTTAACAAGCACCAGACATCATCAATGTAGATGAGTCAGCCTGCATTTTGGCTGTCACTCTCACCCTTCAGAAGTGACATGAAGGCCTCCTAGCTGC-CC-TTCCTGCCTTATGCCTGCACTTAATCTGGACTTG--------------------------------------------AACTTAGA-----GATCCTCAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5202136 340 +  26952557 TAGAACTGGCTTTCTGGATGACTTATAAT-TTCCTGA-------TTCTA-ACAA-TTTTGCTACCTGGTTCTCATTTCCTCATCATCCTGCTTACTTATTGTTGACTTTCTGTCCCAGGCTCTAGTCTGAGTTTA-TTATTTGGCTTCTGCCATTCCCTCCAGCCCCTCTTTGGAGCTTCTGCTGGTAACTT--CAGCCTGCTCTTAACAAGCACCAGACATCATCAATGTAGATGAGTCAGCCTGCATTTTGGCTGTCACTCTCACCCTTCAGAAGTAACATGAAGGCCGCCTAGCTGC-CC-TTCCTGCCTTATGCCTGCACTTAATCTGGACTTG--------------------------------------------AACTTAGA-----GATCCTCAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28309972 340 +  82825804 TAGAACTGGCTTTCTGGATAACTTATAAT-TTCCTGA-------TTCTA-ACGA-TTTTGCTACCTGGTTCTCATTTCCTCATCATCCTGCTTACTTATTGTTGACTTTCTATCCCAGGCTCTAGTCTGAGTTTA-TTATTTGGCTTCTGCCATTCCCTCCAGCTCCTCTTTGGAGCTTCTGCTGGTAACTT--CAGCCTGCTCTTAACAAGCACCAGATATCATCAATGTAGATGAGTCAGCCTGCATTTTGGCTGTCACTCTCACTCTTCAGAAGTGACATGAAGGCCTCCTAGCTGC-CT-TTCCTGCCTTATGCCTGCACTTAATCTGGACTTG--------------------------------------------AACTTAGA-----GATCCTCAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3974107 340 -   4237731 TAGAACTGGCTTTCTGGATGACTTATAAT-TTCCTGA-------TTCTA-ACAA-TTTTGCTACCTGGTTCTCATTTCCTCATCATCCTGCTTACTTATTGTTGACTTTCTGTCCCAGGCTCTAGTCTGAGTTTA-TTATTTGGCTTCTGCCATTCCCTCCAGCCCCTCTTTGGAGCTTCTCCTGGTAACTT--CAGCCTGCTCTTAACAAGCACCAGACATCATCAATGTAGATGAGTCAGCCTGCATTTTGGCTGTCACTCTCACCCTTCAGAAGTGACATGAAGGCCGCCTAGCTGC-CC-TTCCTGCCTTATGCCTGCACTTAATCTGGACTTG--------------------------------------------AACTTAGA-----GATCCTCAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      243856 340 -   1175262 TAGAACTGGCTTTCTGGATGACTTAGAAT-TTCCTGA-------TTCTA-ACAA-TTTTGCTACCTGGTTCTCATTTCCTCATCATCCTGCCTACTTATTGTTGACTTTCTGTCCCAGGCTCTAGTCTGAGTTTA-TTGTTTAGCTTCTGCCATTCCCTCCAGCTCCTTTCTGGAGCTTCTGCTGGTAACTT--CAGCCTGCTCTTAACAAGCACCAGACATCATCAATGTAGATGAGTCAGCCTGCATTTTGGTTGTCACTCTCACCCTTCAGAAGTGACATGAAGGCCTCCTAGCTGC-CC-TTCCTGTCTTATGCCTGCACTTAATCTGGACTTG--------------------------------------------AACTTAGA-----GATCCTCAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123577265 339 - 204313951 TAG-TCTGGCTTTCTGGATGATTTAGAAT-TTCTTGA-------TCCTA-ACAA-TTTTGCTACCTGGTTCTCATTTCCTAGTCATCCTGCCTACTTATTGTTGACTTCCCATCCCAGGCTCT-GTCTGAGTTCA-TTATTTGGCTTCTGCCATTCTCTCCAACTCCTCTTAGGAGATCCTGCTGCTAATTTC-CAGCCTGTTCTTAACAAACACTAGACAGCATCAATGTAGATGAGCCGGCCCATATTTTGGCTGACACTCCCACCTTTTAAAAGTGACATGAAGGCCTCCTAGCTGC-CC-CTCCTGCCTTATACCTGCACTTAATCTGGACTTG--------------------------------------------AACTTAGA-----GATCCTTGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55633064 339 -  71252344 TAG-ACTGGCTTTCTGGATGACTTAGAAT-TTCTTGA-------CCCTA-ACAA-TTTTGCTACCTGGTTCTCATTTCCTAGTCATCCTGCCTACTTATTGTTGACTTCCCGTCCCAGGCTCT-GTCTGTGTTCA-TTATTTGGCTTCTGCCCTTCTCTCCAACTCCTCTTAGGAGCTCCTGCTGGTAATTTC-CAGCCCGTTCTCAACAAGCAGCAGACAGTGTCAATGTAGGTGAGCCAGCCTATATTTTGGCTGTCACTCCCACCTTTTAAAAGTGACATGAAGGCCTCCTAGCTGT-CC-CTCCTGCCTTATACCTGCACTTAATCTGGACTTG--------------------------------------------AACTTAGA-----GATCCTTGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1327442 339 -   1400280 TAG-ACTGGCTTTCTGGATGATTTAGAAT-TTCTTGA-------TCCTA-ACAA-TTTTGCTACCTGGTTCTCATTTCCTAGTCATCCTGCCTACTTCTTGTTGACGTCCCGTCCCAGGCTCT-GCCTGAGTTCA-TTATTTGGCCTCTGGCATTCTCTCCAACTCCTCTTAGGAGCTCCTGCTGGTAATTTC-CAGCCTGTTCTCAACAAGCACCAGACAGCATCAATGTAGATGAGCCAGCCTGTATTTTGACTGTCACTCCCACCTTTTAAAAGTGATATGAAGGCCTCCTAGCTGC-CC-TTCCTGCCTTACACCTGCACTTAATCTGGACTTG--------------------------------------------AACTTAGA-----GATCCTTGC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13120354 340 -  42888418 TAG-ACTGGCTTTCTGGATGATTTAGAAT-TTCTTGA-------TCCTA-ACAA-TTTTGCTACCTGGTTCTCATTTCCTAGTCATCCTGACTATTTATTGTTGACTTCCCGTCCCAGGTTCT-GTCTGAGTTCATTTATTTGGCTTCTGCCATTCTCTCCAACTCCTCTTAGGAGCTCCTGCTGGTAATTTC-CAGCCTGTTCCCAACAAGAACCAGACAGCATCAATGTAGATGACCCAGCCTGTATTTTGGCTGTCAGTCCCACCTTTTAAAAGTGACATGAAGGCTTCCTAGCTGC-CC-CTCCTGCCTTATACCTGCACTTAATCTGGACTTG--------------------------------------------AACTTAGA-----GATCCTTGT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60493462 340 + 108143057 TGGAACTGGATTTCTGGATGATTCAGAAT-TTCTGTA-------TCTCA-ATAT-TCTTGCTACCTGGTTTTCATTCCCTAATTATCCTGCTTATTTGTTGTAGACTTCTTGTCCCAGGCTTTTGTCTGAGTTAA-TTATTTGGCTTCAACCATTCTCTCCAACTTTTCTTTGGAGTTCCTGCTGGCAACTTC-TAGCCTGTTCTTAAGAAGCACCGT-CGTCATCAGTGCAGGTGAGCCAGGCTGGATTTGGGCTGCCACTCTCTCCTTTCAGAAGTGAGATGGAGGCCTCCTTGCAGC-CC-CTCCTGCcttgtgcctgcactcggtctggacttg--------------------------------------------gacttgga-----GAGCCACGT
i micMur3.chr12            C 0 I 81
s proCoq1.NW_012155062v1     3523455 336 +  11683526 TAGAACTGGCTTTCTGGATGATTCAGGAT-TTCTGGA-------TCCTA-ACAG-TCTTGCTTCCTGGTTTTCATTCCCTAATTATCCTGCTTACTTATTGTAGACTGCTTGTCCCAGGCTTTTGTC-----TAA-TTACTTGGCTTCAACCATTCTCTCCAACTTCTCTTTGGAGTTTCTGCTGGCAACTTC-TAGCCTGTTCTTAAGAAGCACCAT-CATCATCAGTGCAGATGAGCCAGCATGGATTTGGGCTGCCATCCTCTCCTTTCAGAAGTGACATGGAGGCCTCCCTGAGGC-CCGCTCCTGCCTTATacgtgcacttggtctggacttg--------------------------------------------gacttgga-----GACCCACAC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3003011 347 +   4132165 TAGAACTGGCTTTTGAGAATATCT--TAT-TCCCAGAACAGAATTCCTA-ATGG-CCTAGCTATGTGGCTTTCATTCCCTAATTACCTTGAATACTTATTGTAGATTTCTTGTCCTAGGCTTTTGTCTAAATTAG-TTAATTGGCTTCTGCCATTCTCTCCAGCTTCTCTTTAGAGCTCTTGCTGGCAACTTC-CAGCCTATTTTTAGCCAGCACCAGACATCATCACTGCAGATAAGCCAGCCTGGCTGGTGGCTGTCCCTCTCACCTTTCAGAAGTGACATGGAGGCCTCCTTGTGGC-CCACACCTGCCTTATATCTGCATTTGGTATGGACACA--------------------------------------------GACTTGGA-----GACCCATAG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55470572 364 +  90702639 TGGAAACGGTTTTCTGCATGCATCAGGATCTTCCTGA-------TTCTA-GCTG-CACTGCTACCTGGCTTGAATTCACTAAACATC----TGACTTATGGTAGACTTCCTGTTTCTGGGTCTTGTCTGAGTTAA-TTACTTGGCTCCTGCCA----CTCTAATTCCT-TTCAGACCTTCGAC-AAAGGCTGC-CAACCTGCTCTCAACAAGCTCCAGGAGTCATCGTGCCAGGCAATCCAGCCCTGGTCCTGACTATGACTCTC-----TCAAAACTG-TATGAGACCTTC------------CTGCTGCCTTA-ACTTGAACTTGGTTTGGACTTGTCTTTGTTCTTGGAACTCTCTGAGGAATAGAagccagttttgctagcttgggtctgtaatccttgt
i mm10.chr18               I 1 I 93
s canFam3.chr11             14867573 335 +  74389097 TAGGACTGGCTTTCTGGGTGATTCAGATT-TTCTTGA-------TTCTC-CCAAGTCTTGCTCCCTGCTTTTCATTCCCTAATCATCCTTCTTAGTTATTGTAGACTTCCAGTTGGAAGCTCTTCTCTGACTTAA-ATGTTTGGCTTCTGCCATTCTGCTCAACTTC-CTTTGGAGCTCCTGCTGGCAAATTCTAAACCTCCTCTTGACAAGAACCAA-------CAATGCAGATGAGTAAGCCTGGATTTTGGGCTAAATTCTCATCCTTCAGAAGTGACATGGAAGCTTATCTACTGCTCC-CCCCTGTCTTGACTGTGCACTTAGTCTAGATCTG--------------------------------------------GACTAAGG-----GAT-AACAC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2558275 325 +   3667625 AAAGTCTAACTTTCTGGATATTTCATTAC-TTCTAGA-------TCCTGCACAG-CTTTACTATACAATTTTTATTCCCTAATCATTCTGTTCACTTATTGAAGGCTTCCTGCTCTGGGCTTTTGTCTTAGTTAA-TTATTTGGCTCCTGCCTTTCACCAGAACTCCCCATTGG--------CTGGAGACTTT-TAGACTTTTCTTGATGA------GACATCATCAAAGTAGATTAGCCAGCCTGGATTTCGACTGTCACTCTAACCCCTCAGAAGTGACATAAAGGCCTCCCTGCT---CC-CCCATGCCTTG-ACCTGCACTTGGTATGGACCTG--------------------------------------------GATTTGGG-----GAGACATTG
i dasNov3.JH567306         C 0 C 0
e nomLeu3.chr2             139789749   0 + 163208435 C

a score=303370.000000
s hg38.chr5_KI270796v1_alt     19119 26 +    172708 CCTAGCCTTCAAAA----------------------------------------------GGAATGCAGCCC
s panTro5.chr5             125129212 26 + 181907262 CCTAGCCTTCAAAA----------------------------------------------GGAATGCAGCCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126466189 26 + 183735486 CCTAGCCTTCAAAA----------------------------------------------GGAATGCAGCCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1657736 26 +   8933513 CCTAGCCTTCAAAA----------------------------------------------GGAATGCAGCCC
i gorGor5.CYUI01015135v1   C 0 C 0
s rheMac8.chr6             122775214 26 + 180051392 CCTAGTCTTCAAAA----------------------------------------------GGAATGCAGCCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124198888 26 + 181584905 CCTAGTCTTCAAAA----------------------------------------------GGAATGCAGCCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16196620 26 +  18395747 CCTAGTCTTCAAAA----------------------------------------------GGAATGCAGCCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5202476 26 +  26952557 CCTAGTCTTCAAAA----------------------------------------------GGAATGCAGCCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28310312 26 +  82825804 CCTAGTCTTCAAAA----------------------------------------------GGAATGCAGCCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3974447 26 -   4237731 CCTAGTCTTCAAAA----------------------------------------------GGAATGCAGCCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      244196 26 -   1175262 CCTAGTCTTCAAAA----------------------------------------------GGAATGCAGCCC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123577604 26 - 204313951 CCTAGCCTTCAAAA----------------------------------------------GGAATGCAGCCC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55633403 26 -  71252344 CCTAGCCTTCAAAA----------------------------------------------GGAATGCAGCCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1327781 26 -   1400280 CCTAGCCTTCAAAA----------------------------------------------GGAATGCAGCCC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13120694 26 -  42888418 CCTAGCCTTCAAAA----------------------------------------------GGAATGCAGCCC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3523791 26 +  11683526 CATAGCCTTTAAGA----------------------------------------------GGAATGCAGCCC
i proCoq1.NW_012155062v1   C 0 I 61
s otoGar3.GL873679           3003358 26 +   4132165 CCTCACCTTTAAAA----------------------------------------------GAAATGTAACCT
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55471029 72 +  90702639 ccttttctcgaaaaccgaacaaaTAAGATATGCCAACATCAGGAAACAAACAATTAAGATACAATTCAGACC
i mm10.chr18               I 93 C 0
s canFam3.chr11             14867908 26 +  74389097 TGTTGCCTTCAAAA----------------------------------------------GGAATGTGGACC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2558600 25 +   3667625 CCTTTCCTAGACAT----------------------------------------------TGCATAGAGAC-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60493802 81 + 108143057 I
e nomLeu3.chr2             139789749  0 + 163208435 C

a score=497818.000000
s hg38.chr5_KI270796v1_alt     19145 62 +    172708 CATACTTATCAGGTAAGGTGGCTTTCTTTGTCTTTGCTA-CACATTGTGCACCAGAAACAGG--A
s panTro5.chr5             125129238 62 + 181907262 CATACTtatcaggtaaggtggctttctttgtctttgcta-catattgtgcaccagaaacagg--a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126466215 61 + 183735486 CATACTtatcaggtaaggtggctttctttgtctttgcta-catattgtgcaccagaaacagg---
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1657762 62 +   8933513 CATACTTATCAGGTAAGGTGGCTTTCTTTGTCTTTGCTA-CATATTGTGCACCAGAAACAGG--A
i gorGor5.CYUI01015135v1   C 0 C 0
s rheMac8.chr6             122775240 63 + 180051392 ACTACTTATGAGGTAAAGTGGCTTTCTTTATCTTTGATA-CATACTGTGTAGCGGAAACAGG-AA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124198914 63 + 181584905 ACTACTTATGAGGTAAAGTGGCTTTCTTTATCTTTGATA-CATACTGTGTAGCGGAAACAGG-AA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16196646 63 +  18395747 ACTACTTATGAGGTAAAGTGGCTTTCTTTATCTTTGATA-CATACTGTGTAGCGGAAACAGG-AA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5202502 64 +  26952557 ACTACTTATCAGGTAAAGTGGCTTTCTTTATCTTTGCTA-CATACTGTGTGGCGGAAACAGGAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28310338 63 +  82825804 ACTACTTATCAGGTAAAGTGGCTTTCTTTGTCTTTGCTA-CATACTGTGTAGCGGAAACAGG-AA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3974473 64 -   4237731 ACTACTTATCAGGTAAAGTGGCTTTCTTTATCTTTGCTA-CATACTGTGTGGCGGAAACAGGAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      244222 62 -   1175262 ACTACTTATCAGGTAAAGTGGCTTTCTTTATCTTTGCTA-CATATTGTGTAGCGGAAACAGG--A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123577630 61 - 204313951 ACTGCATATCAGGTAAGGAGGCTTTCTTTATCTTTGCTA-CATATTGTATATTGGAAACATG---
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55633429 61 -  71252344 ACTGCATATCAGGTAAGGAAGCTTTCTTTGTCTTCGCTA-CATATTGTATGTTTGAAACATG---
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1327807 61 -   1400280 GCTGCATATCAGGTAAGGAGGCTTTCTTTATCTTTGCTA-CATATTGTATATTTGAAACATG---
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13120720 61 -  42888418 ACTGCATATCAGGTAAGGAGGCTTTCTTTATCTTCGCTA-CATATTATATATTGGAAACATG---
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3003385 61 +   4132165 CCTACTTATCAGGT-GGGAGGATTTCTTGATCATTGTTA-TATGTCATGTACCAGAACTTGA--A
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55471101 51 +  90702639 ACTGTTGATCAAATAAGTTGTATTTCTTTCTGGTTGCAACCAAAATTTAGA--------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14867934 62 +  74389097 ACAACTTTCCAGGGAAGACAGCTTTCACTCTAACTGCCA-TCTGTCATGTGGCAAAACTTAG--A
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2558625 60 +   3667625 --TACTTATTGTTTAAGGTGGCTTTCTTTATCATGGCCA-CATGTCATGTACCAGGACTTGG--A
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60493802 81 + 108143057 I
e proCoq1.NW_012155062v1     3523817 61 +  11683526 I
e nomLeu3.chr2             139789749  0 + 163208435 C

a score=2466468.000000
s hg38.chr5_KI270796v1_alt     19207 193 +    172708 AAAAAAATTCCACTGTATTGTGCAGTATGGATTATTAGGGAAATTTGT-AAGCAAGGATCATGAAGAAGAGAAAAGCCCTACAGTCTCC------TCCCTCTCAGCAGTTTATTGAGTGCTCTAGACAGCCCAGGCAATCTGTTGGGTGCACAGGGA-----CTTActccagttgttctctatccttacaggataggcatgagag
s panTro5.chr5             125129300 193 + 181907262 aaaaaaattccactgtattgcacagtatggattattagggaaatttgt-aagcaaggatcatgaagaagagaaaagccctacagtctcc------tccctctcagcagtttattgagtgctctagagagcccaggcaatctgctgggtgcacaggga-----cttactccagttgttctctatccttacaggataggcatgagag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126466276 192 + 183735486 -aaaaaattccactgtattgcgcagtatggattattagggaaatttgt-aagcaaggatcatgaagaagagaaaagccctacagtctcc------tccctctcagcagtttattgagtgctctagagagcccaggcaatctgctgggtgcacaggga-----cttactccagttgttctctatccttacaggataggcatgagag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1657824 193 +   8933513 AAAAAAATTCCACTGTATTGCACAGTATGGATTATTAGGGAAATTTGT-AAGCAAGGATCATGAAGAAGAGAAAAGCCCTACAGTCTCC------TCCCTCTCAGCAGTTTATTGAGTGCTCTAGACAGCCCAGGCAATCTGTTGGGTGCACAGGGA-----CTTActccagttgttctctatccttacaggataggcatgagag
i gorGor5.CYUI01015135v1   C 0 C 0
s rheMac8.chr6             122775303 193 + 180051392 AAAAAAATTCCACTGTATTCCACAGTATGGATTATTGGGGAAATTTGT-AAGTAAGGATCATGAAGAAGAGAAAAGCCCTGAAGTCTCC------TCCCTCTCAGCTGTTTATCAAGTGCTTTAGACAGCCCGGGCAATCTGCTGGGTGCACAGTGA-----CTTActccagttgttatccatccttacaggataggcatgagag
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124198977 193 + 181584905 AAAAAAATTCCACTGTATTCCACAGTATGGATTATTGGGGAAATTTGT-AAGTAAGGATCATGAAGAAGAGAAAAGCCCCGCAGTCTCC------TCCCTCTCAGCTGTTTATCAAGTGCTTTAGACAGCCCGGGCAATCTGCTGGGTGCACAGTGA-----CTTActccagttgttatccatccttacaggataggcatgagag
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16196709 193 +  18395747 AAAAAAATTCCACTGTATTCCACAGTATGGATTATTGGGGAAATTTGT-AAGCAAGGATCATGAAGAAGAGAAAAGCCCTGCAGTCTCC------TCCCTCTCAGCTGTTTATCAAGTGCTTTAGACAGCCCGGGCAATCTGCTGGGTGCACAGTGA-----CTTActccagttgttatccatccttacaggataggcatgagag
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5202566 193 +  26952557 AAAAAAATTCCACTGTATTCCACAGTATGGATTATTggggaaatttgt-aagcaaggatcatgaagaagagaaaagccctgcagtctcc------tccctctcagctgtttatcaagtgctttagacagcccaggcaatctgctgggtgcacagtga-----cttactccagttgttatccatccttacaggataggcatgagag
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28310401 193 +  82825804 AAAAAAATTCCACTGTATTCCACAGTATGGATTATTTGGGAAATCTGT-AAGCAAGGATCATGAAGAAGAGAAAAGCCCTGCAGTCTCC------TCCCTCTCAACTGTTTATCAAGTGCTTTAGACAGCCCAGGCAATCTGCTGGGTGCACAGTGA-----CTTActccagttgttatctatccttacaggataggcatgagag
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3974537 193 -   4237731 AAAAAAATTCCACTGTATTCCACAGTATGGATTATTGGGGAAATTTGT-AAGCAAGGATCATGAAGAAGAGAAAAGCCCTGCAGTCTCC------TCCCTCTCAGCTGTTTATCAAGTGCTTTAGACAGCCCAGGCAATCTGCTGGGTGCACAGTGA-----CTTActccagttgttatccatccttacaggataggcatgagag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      244284 193 -   1175262 AAAAAAATTCCACTGTATTCCACAGTATGGATTATTGGGGAAATTTGT-AAGCAAGGATCATGAAGAAGAGAAAAGCCCTGCAGTCTCC------TCCCTCTCAGCTGTTTATCAAGTGCTTTAGATAGCCCAGGCAGTCTGCTGGGTGCACAGTGA-----CTTActccagttgttatccatccttacaggataggcatgagag
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123577691 193 - 204313951 AAAATAATTCCACTATATTGCACAGTATAGATTATTGGGGAAATTTGT-AAGCAAGAATCATGAAGAAGAGAAAAGGCCTGCAGTCCCC------TTCCTCTTGGCACTTTATCGAGTGCTGTAGGCAACCCAGACAACATGCTGGAGGCACAGTGA-----CTTACTCTAGTTGTTCTCCATTCTTACAGGATAGGTGTGAGAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55633490 190 -  71252344 AAAATAATTCTACTATATTGCACAGTGTGGATTATTggggaaatttgt-aagcaagaatcatggagaagagaaaaggcctgtattcccc------ttcctctcagcactttatcaagtgctgtagacagcccaggcagtctgctggaggcacagtga-----cttactcga---gttctccattcttacaggataggtgtgagag
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1327868 193 -   1400280 AAAATaattccactatattgcacagtatggattattggggaaatttgt-aagcaagaatcatgaagaagagaaaaggcctgtagtcctc------ttcctatcagcactttatcaagtgccgtagacagcccaggcaatctgctggaggcacagtga-----cttactctagttgttctccattcttaccggataggcgtgagag
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13120781 189 -  42888418 AAAATaattccactatattgcacagtatggattattggggaaatttgt-aagcaagaatcatgaagaagagaaaaggct----gtcccc------ttcctcttggcactttatcaagtgctgtcgacagcccaggcaatctgctggaggcacagtga-----cttactctagttgttctccattcttacaagataggcgtgtgag
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60493883 195 + 108143057 AACAGAATTCCACCGTGATGCACAGCAAGGATTATTGTGGAAATGTGT-AAGTTGGGATCATGAGGAAGAGAAAAGGCTTATGGTCTGT------TCCCTGTCAGCACTTAGTCAAGTGCTCTAGACAGCCCGGGCAACCTGC-GGTTACTCAGTGGA--CTTTTGTTCCACttgttctccattcttacagggtaggcatgagag
i micMur3.chr12            I 81 C 0
s proCoq1.NW_012155062v1     3523878 196 +  11683526 aacagaattccaccatgatgcacagtaagaattattggggaaatttgt-aagtagggatcatgaggaagagaaaaggcttacggtccct------tccctctcagcactttatcaagtgctctagacagcccaggcaatctgctggatacacagtggg--tttttgttccacttgttctccattcttacagggtaggcatgagag
i proCoq1.NW_012155062v1   I 61 C 0
s otoGar3.GL873679           3003446 185 +   4132165 ----------AACCATGTTTCATAGGAAGGATTACTAGGGAAATTTGT-AAGCAAGGATGATGAGGAAGAGAAAATGCTTGCAGTCCC-------TCCCTTTCAGCACTTTACTGAGTATGTTAGATAGCCCAGGCAATCTGCAGGATATACAATGGA--TTTTTGTTGTAgttgttctccattcttacagtgtaggcatgagaa
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55471152 180 +  90702639 ----AAATAATAACATATTACACAGTAT--------------ATGTAT-AAGTAGTTGTCATGA-----AGGAAAGGCCTTCAGTCTTTCCCCAGCCCCTTTTGGTACTTTATCTAGAATTCTTGACATTTTTGGCTATCTGCTGCTGACACCGTGGATTTTTTTTcccccattggtgcccattactaaaggg-atgtatggaag
i mm10.chr18               C 0 C 0
s canFam3.chr11             14867996 193 +  74389097 --GAAAACTCAACCAGGCTGTGTGATACGGATTCTGggggaaatttgtaaagcaaggatcagaaagaagagaaa--gcctgcagactcc------ttccttcccaggatgtattgagagttctagacactctgggaagtctgcaggatgcacagtgg--atttttgttccagttgctctccattctcacagggtaggcatgactg
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2558685 190 +   3667625 ---AAAATTACATTAAGGTGCACAGTA-GTGTTACTGGTGAAATATGTAAAGCAGGAATCC---AGAAGAGAAGAGGCCTGCAGTCTCC------TTCCTATCAGCAGTTTATCAAAAGCTTCAGAAAGTCTTGGCAATCTTTTGGCCAAGCAGGGG--CTTTTTGTTACACttgctccccattcttacagggtaggcctgaaag
i dasNov3.JH567306         C 0 C 0
e nomLeu3.chr2             139789749   0 + 163208435 C

a score=3015416.000000
s hg38.chr5_KI270796v1_alt     19400 207 +    172708 tatcattatcagtgtgggtacaaaaagagtaggaatgtgccaggcggtttgag-tttacatcacagctatttacaggagttgtctggga-gagctagcttctagacctagggatctctgtggccatgagaag--------ttgcc------atcaatcctgctgggaagtggaatcccttgg----atctgtgggatgttgagttgtgagcaCTGCTTaaaa--------caaaa
s panTro5.chr5             125129493 207 + 181907262 tatcattatcagtgtgggtacaaaaagagtatgaatgtgccaggcagtttgag-tttacatcacagctatttacaggagttgtctggga-gagctagcttctagacctagggatctctgtggccatgagaag--------ttgcc------atcaatcctgctgggaggtggagtcccttgg----atctgtgggatgttgagttgtgagcaCTGCTTaaaa--------caaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126466468 207 + 183735486 tatcattatcagtgtgggtacaaaaagagtatgaatgtgccgggcagtttgag-tttacatcacagctatttacaggagttgtctggga-gagctagcttctagacctagggatctctgtggccatgagaag--------ttgcc------atcaatcctgctgggaggtggagtcccttgg----atctgtgggatgttgagttgtgagcaCTGCTTaaaa--------caaaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1658017 207 +   8933513 tatcattatcagtgtgggtacaaaaagagtatgaatgtgccaggcggtttgag-tttacatcacagctatttacaggagttgtctggga-gagctagtttctagacctagggatctctgtggccatgagaag--------ttgcc------atcaatcctgctgggaggtggaatcccttgg----atctgtgggatgttgagttgtgagcaCTGCTTaaaa--------caaaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139789749 207 + 163208435 TATCAttatcagtgtgggtacaaaaagagtatgaatgtgccaggcagtttgag-tttacgtcacagctatttacaggagttgtctggga-gagctagcttctagacctagggatctctgtggccatgagaag--------ttgcc------atcaatcctgctgggaggtggagtcccttgg----atctgtgggatgttgagttgtgagcaCTGCTTaaaa--------caaaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122775496 206 + 180051392 tatcattatcagtgtgggtacaaaatgagtatgaatgtgccaggcag-ttgag-tttacatcagagctatttacaggagttgtctggga-gagctagcttctagacctagggatctctgtggccgtgagaag--------ttgcc------atcaatcctgttgggaggtggagtcccttgg----gtctgtgcgatgttgagttgtgagcaCTGCTTaaaa--------caaaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124199170 206 + 181584905 tatcattatcagtgtgggtacaaaatgagtatgaatgtgccaggcag-ttgag-tttacatcagagctatttacaggagttgtctggga-gagctagcttctagacctagggatctctgtggccgtgagaag--------ttgcc------atcaatcctgttgggaggtggagtcccttgg----gtctgtgcgatgttgagttgtgagcaCTGCTTaaaa--------caaaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16196902 206 +  18395747 tatcattatcagtgtgggtacaaaatgagtatgaatgtgccaggcag-ttgag-tttacatcagagctatttacaggagttgtctggga-gagctagcttctagacttagggatctctgtggccgtgagaag--------ttgcc------atcaatcctgttgggaggtggagtcccttgg----gtctgtgcgatgttgagttgtgagcaCTGCTTaaaa--------caaaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5202759 206 +  26952557 tatcattatcagtgtgggtaccaaaagagtatgaatgtgccaggcag-ttgag-tttacatcagagctatttacaggagttgtctggga-gagctagcttctagacctagggatctctgtggccgtgagaag--------ttgcc------atcaatcctgctgggaggtggagtcccttgg----gtctgtgcgatgttgaattgtgagcaCTGCTTaaaa--------caaaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28310594 207 +  82825804 tatcattatcagtgtgggtacaaaaagagtatgaatgtgccaggcagtttgag-tttacatcagagctatttacaggagttgtctggga-gagctagcttctagacctagggatctctgtggccatgagaag--------ttgcc------atcaatcctgctgggaggtggagtcccttgg----gtctgtgcgatgttgagttgtgagcaCTGCTTaaaa--------caaaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3974730 206 -   4237731 tatcattatcagtgtgggtacaaaaagagtatgaatgtgccaggcag-ttgag-tttacatcagagctatttacaggagttgtctggga-gagctagcttctagacctagggatctctgtggccgtgagaag--------ttgcc------atcaatcctgctgggaggtggagtcccttgg----gtctgtgcgatgttgaattgtgagcaCTGCTTaaaa--------caaaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      244477 206 -   1175262 tatcattatcagtgtgggtacaaaaagagtatgattgtgccaggcagtttgag-tttacatcagagcggtttacaggagttgtctggga-gagctagcttctagacctagggatctctgtggccatgagaag--------ttgcc------atcaatcctgctgggaggtggagtcccttgg----gtct-tgggatgttgagttgtgagcaCTGCTTaaaa--------caaaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123577884 212 - 204313951 TATCATTATCGGTGTGGGTACAAAAA-CGTATCAATGTGCCAGGTGGTTTGAG-TTTACATCACAGCTATTTACAGGAATTGTCTGGGA-GAGCTAACTTCTAGAGCTAGGGATCTCTGTGGCCATGAGAAT--------TTGCCAAGAGAATCAATCCTACTGGGAGGTGGAATCCACTGG----ATCCATGGGATGTTGAGTTGTGAGCACTGCTTaaaa--------caaaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55633680 207 -  71252344 tgtcattatcggtgtgagtacaaaaagagtaggaatgtgccaggcagtttgag-tttacatcacagctatttacaggaattgtctggga-gagctaatttctagacctagggatctctgtggccatgagaat--------ttgcc------atcaatcctactgggaggtggaatccattgg----atctgtgggatgttgagttgtgagcaCTGCTTAAAA--------CCAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1328061 206 -   1400280 tgtcattatcggtgtgagtacaaaaagagtatgaatgtgccaggc-gtttgag-tttgcatcacagcaatttacacgaattgtctggga-gagctaacttctagacctagggatctctgtggccatgagaat--------ttgcc------atcaatcctgctgggaggtggaatctattgg----atctgtgggatgttgagttgtgagcaCTGCTTaaaa--------caaaa
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13120970 207 -  42888418 tgtcattatcagtgtgggtacaaaaagagtatgaatgtgccaggtggcttgag-tttacatcacagctatttacaggaattgtctggga-gagctaacttctagacctagggatctctgtggccatgagaat--------ttgcc------atcaaccctactgggaggtggaatccattgg----atctgtgggatgttgggttgtgagcaCTGCTTaaaa--------caaaa
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60494078 210 + 108143057 tgtcattatcactgtgggaacctaaagggtatgagggtgccgggcagcccggg-ctgacatcacggctcttcccgggagtcgtctggga-gagctcgcttccagacctagggatctctgtgcccatcagaag--------ttgcc------atgaatcctgctggg-gctggaatcccttgggtctgtctgtgggatgctgagctGTGAGCACTGCTTAAAA--------GCAAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3524074 206 +  11683526 tgtcattatcactgtggaagcataaaggacatgagggtgccaggcagcctgag-ctgacatcacagctcttcacgggagttgtctggga-gagctcgcctctagacctagggatctctgtgcccataaggag--------ttgcc------gtgaatcctgctggg-ggtggaatcccttga----gtctgtgggatattgagctGTGAGCACCGCTGAAAA--------CAAAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3003631 181 +   4132165 tgtccttgtcatcgtataaacataaactgcatgagggtgc-----------------------cagctattttcaggaattgtctgaaa-gagctag----------tggtgatctttgtgctcataagatgttgccaccttgcc------atgaatcctgctggg-attgg-atcccttgg----gtctgtgaaatgttgagctgtgcGCACTGCTTAAAa--------caaaa
i otoGar3.GL873679         C 0 I 2273
s mm10.chr18                55471332 181 +  90702639 tgctggtgtcattatgaacacaaaaagggcctgtgaatgtcaggcagcctgag-tttacatcacagcggtctttggaaatcatctgggaggggcttgcttcctgacctaggaatccgt----------gatg--------tggat------g-----------ggaagatgAACTGCCTGAG----ATTTATA-GAGGTTGAGCTGTGAGCATTGCTCAAAA-------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14868189 199 +  74389097 ---tactgctagtgtgggtagaaaaagagtgcgagggtgccagtcagtctgaattttacaacttggctgtttataggaattgtctggga-aacacagcatccagacctagcagtctccaggcccacgggaca--------ttgag-----------tcctactaaggtgtggaattcgttgg----gtggatgagaggttgagTCAT-AACACTGCTTAAGA--------GATGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2558875 210 +   3667625 tgactttgttactggaggtaca-atggagtatgagagagccaggcattctgag-tttaaatcacggctgcttccaggagttgtctggga-aaactggcttccagaccaagggatcttt--ggcctcgggaag--------ttgcc------atctttcctactccagtcaggcatcccttgg----gcccatgggaCAT--AGGCGTGAATACTGCTcaaaaaccaaaaccaaaa
i dasNov3.JH567306         C 0 C 0

a score=-3695.000000
s hg38.chr5_KI270796v1_alt     19607 2 +    172708 ca
s panTro5.chr5             125129700 2 + 181907262 ca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126466675 2 + 183735486 ca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1658224 1 +   8933513 c-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139789956 2 + 163208435 ca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122775702 2 + 180051392 ca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124199376 2 + 181584905 ca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16197108 2 +  18395747 ca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5202965 2 +  26952557 ca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28310801 2 +  82825804 ca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3974936 2 -   4237731 ca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      244683 2 -   1175262 ca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123578096 1 - 204313951 c-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55633887 1 -  71252344 C-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1328267 1 -   1400280 c-
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13121177 1 -  42888418 c-
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60494288 2 + 108143057 CA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3524280 2 +  11683526 CA
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55471513 2 +  90702639 CA
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2559085 2 +   3667625 ca
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14868388 0 +  74389097 C
e otoGar3.GL873679           3003812 2273 +   4132165 I

a score=14468237.000000
s hg38.chr5_KI270796v1_alt     19609 918 +    172708 aaac-aaacaaaccaaaac-aaaacaGC-TGTAGATGCTGTGTTATTCACATTCTATTTCCATCATGCTATTCACAGAATCAGTCAGCATGACTATAACTCATCAGTGTCAAATAAAAATGCAAGTAAATCTAAATGATTTCAATCTG-------AAAAACACATTCAGGAGATAGGCCTTCTTATTGTTTTATTG-AAAGGAAACTCCATTGCTTTCTTGATTCTCTTTTATTGGAGGTGGTGAT-AAAAGTAAAATG-GAAGTGAAAGATGCTAAATAGATTAGAGGTACCTTACTCAATGAC-AAAAAACAAGACATATAAATAGAAATATTAATCAATGCTCTGAGCTTAGTTCAGGTACTAAGCTG-----TGTAATACATCCCACAGCTTAATTATTA-TTTTTATGGACATAGTGGCCCAGTGTACCCCAGGCAGTTGCATCAATAAAATCTG---CTTGAGTGGGTTCAGCACAGGGCTGTGCTAC---------------TTTTCTGCCAGGAGAACAGC--TTTGGATTTATGTTAGATTCATGCTAACAGTTTGAGCAGTGTGTCCTGGATCTTCTTTGTTTTAAACACACAGTTGAAGACACCTGCATTCAGTT-TCAAGTAGGACCTTAGTTT-TGTTCTGGAGATGTACCTGTTCACAACGAC-----------------------aaaaaaaaaaaaaaaaaaaaGGATTCAATTGAAGTGAGCCATGCGATGCTACATAAAAATCAAACTTGCTGCAAAAATAAATTGCCTGAAACAAATGCTTTCATCAGAAATGTCACTACTGAACAAGAAATAAAAAGAG-----------------------------------------------------A----TTTTTTTT-------TCTCTTGGCAGAGAGTAGCAGATTACAAAGA-TTTTTTTTGTATCCTCATATTAAA-TTTTAAATACATCTTTTTT----ACAGAGAATTAGCATTT-TTTAGGGCACATAAAGAAAGCAGATCAAGA--TCTCTCTCTTCTGG
s panTro5.chr5             125129702 904 + 181907262 -----aaacaaaccaaaac-aaaacaGC-TGTAGATGCTGTGTTATTCACATTCTATTTCCATCATGCTATTCACAGAATCAGTCAGCATGACTATAACTCATCAGTGTCAAATAAAAATGCAAGTAAATCTAAATGATTTCAATCTG-------AAAAACACATTCAGGAGATAGGCCTTCTTATTGTTTTATTG-AAAGGAAACTCCATTGCTTTCTTGATTCTCTTTTATTGGAGGTGGTGAT-AAAAGTCAAATG-GAAGTGAAAGATGCTAAATAGATTAGAGGTACCTTACTCAATGAC-AAAAAACAAGACATATAAATAGAAATATTAATCAATGCTCTGAGCTTAGTTCAGGTACTAAGCTG-----CGTAATACATCCCACAGCTTAATTATTA-TTTTTATGGACATAGTGGCCCAGTGTACCCCAGGCAATTGCATCAATAAAATCTG---CTTGAGTGGGTTCAGCACAGGGCTGTGCTAC---------------TTTTCTGCCAGGAGAACAGC--TTTGGATTTATGTTAGATTCACGCTAACAGTTTGAGCAGTATGTCCTGGATCTTCTTTGTTTTAAACACACAGTTGAAGACACCTGCATTCAGTT-TCAAGTAGGACCTTAGTTT-TGTTCTGGAGATGTACCTGTTCACAATGAC------------------------------AAAAAAAAAAAAAGGATTCAATTGAAGTGAGCCATGTGATGCTACATAAAAATCAAACTTGCTGCAAAAATAAATTGCCTGAAACAAATGCTTTCATCAGAAATGTCACTACTGAACAAGAAATAAAAAGAG-----------------------------------------------------A----TTTTTTTT-------TCTCTTGGCAGAGAGTAGCAGATTACAAAGATTTTTTTTTGTATCCTGATATTAAA-TTTTAAATACATCTTTTTT----ACAGAGAATTAGCATTT-TTTAGGGCACAT----AAAGCAGATTAAGA--TCTCTCTCTTCTGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126466677 908 + 183735486 aaac-aaacaaactaaaac-aaaacaGC-TGTAGATGCTGTGTTATTCACATTCTATTTCCATCATGCTATTCACAGAATCAGTCAGCATGACTATAACTCATCAGTGTCAAATAAAAATGCAAGTAAATCTAAATGATTTCAATCTG-------AAAAACACATTCAGGAGATAGGCCTTCTTATTGTTTTATTG-AAAGGAAACTCCATTGCTTTCTTGATTCTCTTTTATTGGAGGTGGTGAT-AAAAGTCAAATG-GAAGTGAAAGATGCTAAATAGATTAGAGGTACCTTACTCAATGAC-AAAAAACAAGACATATAAATAGAAATATTAATCAATGCTCTGAGCTTAGTTCAGGTACTAAGCTG-----CGTAATACATCCCACAGCTTAATTATTA-TTTTTATGGACATAGTGGCCCAGTGTACCCCAGGCAATTGCATCAATAAAATCTG---CTTGAGTGGGTTCAGCACAGGGCTGTGCTAC---------------TTTTCTGCCAGGAGAACAGC--TTTGGATTTATGTTAGATTCACGCTAACAGTTTGAGCAGTATGTCCTGGATCTTCTTTGTTTTAAACACACAGTTGAAGACACCTGCATTCAGTT-TCAAGTAGGACCTTAGTTT-TGTTCTGGAGATGTACCTGTTCACAACGAC-----------------------------AAAAAAAAAAAAAAGGATTCAATTGAAGTGAGCCATGTGATGCTACATAAAAATCAAACTTGCTGCAAAAATAAATTGCCTGAAACAAATGCTTTCATCAGAAATGTCACTACTGAACAAGAAATAAAAAGAG-----------------------------------------------------A----TTTTTTTT-------TCTCTTGGCAGAGAGTAGCAGATTACAAAGA-TTTTTTTTGTATCCTGATATTAAA-TTTTAAATACATCTTTTTT----ACAGAGAATTAGCATTT-TTTAGGGCACAT----AAAGCAGATCAAGA--TCTCTCTCTTCTGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1658225 911 +   8933513 -----aaacaaaccaaaac-aaaacaGC-TGTAGATGCTGTGTTATTCACATTCTATTTCCATCATGCTATTCACAGAATCAGTCAGCATGACTATAACTCATCAGTGTCAAATAAAAATGCAAGTAAATCTAAATGATTTCAATCTG-------AAAAACACATTCAGGATATAGGCCTTCTTATTGTTTTATTG-ACAGGAAACTCCATTGCTTTCTTGATTCTCTTTTATTGGAGGTGGTGAT-AAAAGTCAAATG-GAAGTGAAAGATGCTAAATAGATTAGAGGTACCTTACTCAATGAC-AAAAAACAAGACATATAAATAGAAATATTAATCAATGCTCTGAGCTTAGTTCAGGTACTAAGCTG-----TGTAATACATCCTACAGCTTAATTATTA-TTTTTATGGACATAGTGGCCCAGTGTACCCCAGGCAATTGCATCAATAAAATCTG---CTTGAGTGGGTTCAGCACAGGGCTGTGCTAC---------------TTTTCTGCCAGGAGAACAGC--TTTGGATTTATGTTAGATTCATGCTAACAGTTTGAGCAGTGTGTCCTGGATCTTCTTTGTTTTAAACACACAGTTGAAGACACCTGCATTCAGTT-TCAAGTAGGACCTTAGTTT-TGTTCTGGAGATGTACCTGTTCACAACGAC--------------------------aaaaaaaaaaaaaaaaaGGATTCAATTGAAGTGAGCCATGTGATGCTACATAAAAATCAAACTTGCTGCAAAAATAAATTGCCTGAAACAAATGCTTTCATCAGAAATGTCACTACTGAACAAGAAATAAAAAGAG-----------------------------------------------------A-----TTTTTTT-------TCTCTTGGCAGAGAGTAGCAGGTTACAAAGATTTTTTTTTGTATCCTGATATTAAA-TTTTAAATACATCTTTTTT----ACAGAGAATTAGCATTT-TTTAGGGCACATAAAGAAAGCGGATCAAGA--TCTCTCTCTTCTGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139789958 904 + 163208435 aagc-aaacaaaccaaaac-aaaacaGC-TGTAGATGCTGTGTTATTCACATTCTACTTCCATCATGCTATTCATAGAATCAGTCAGCATGACTATAACTCATCAGTGTCAAATAAAAATGCAAGTAAACCTAAACGATTTCAATCTG-------AAAAACACATTCAGGAGATAGGCCTTCTTACTGTTTTATTG-AAAGGAAACTCCATTGCTTTCTTGATTCTCTTTTAATGGAGGTGGTGAT-AAAAGTAAAATG-GAAGTGAAAGATGATAAACAGCTTACAGGTGCCTTACTCAATGAC--AAAAACAAGACATATAAATAGAAATATTAATCAATGCTCTGAGCTTCGTTCAGGTACTAAGCTG-----TGTAATACATCCCACAGCTTAATTATTA-TTTTTATGGACATAGTGGCCCAGGGTACCCCAGGCAATTGCATCCATAAAATCTTCTCCTTGAGTGGGTTCAGCACAGGGCTGTGCTAC---------------TTTTCTGCCAGGAGAACAGC--TTTGGATTTATGTTAGATTCATGCTAACAGTTTGAGCAGTGTGTCCTGGATCTTCTTTGTTTTAAACACACAGTTGAGGACACCTGCATTCAGTT-TCAAGTAGGACCTTAGTTT-TGTTCTGGAGATGTACCTGTTCACAACGAC-----------------------------------AAAAAAAAGGAGTCAATTGAAGTGAGCCATGTGATGCTACATAAAAATCAAACTTGCTGCAAAAATAAATTGCCTGAAACAAATGCTTTCATCAGAAATGTCGCTACTGAACAAGAAATAAAAAGAG-----------------------------------------------------A----TTTTTTCT-------TCTCTTGGCAGGGAGCAGCAGATTACAAAGA-TTTTTTTTGTATTCTGATATTAAA-TTTTAAATACATCTCTTTT----ACAGAGAATTAGCATTT-TTTAGGGCACAT----AAAGCGGATCAAGA--TCTCTCTCTTCTGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122775704 939 + 180051392 aaac-aaacaaaccaaaac-aaaacaGC-TGTAGATGCTGTGTTATTCACATTCTACTTCCATCATGCTATTCATAGAATCAGTCAGCATGACTATAACTCATCAGTGTCAAATAAAAATGCAAGTAAACCTAACTGATTTCAATCCG-------AAAAACACATTCAGGAGATAGGCCTTCTTATTGTTTTATTG-AAAGGAAACTCCATTGCTTTCTTGATTCTCTTTTAATGGAGGTGGTGAT-AAAAGTAAAATG-GAAATGAAAGATGCTAAACGGCTTAGAGGTACCTTACTCAATGAC-TAAAAACAAGACATATAAATCGAAATATT----AATGCTCTCAGCTTAGTTCAGGTACTAAGCTG-----TGTAATACATCCCACAGCTTAATTATTA-TTTTTATGGACATAGTGGCCCAGTGTACCCCAGGCAATTGCATCAATAAAATCTACTGCTTGAGTGGGTTCAGCACAGGGCTGTGCTAC---------------TTTTCTGCCAGGAGAACAGC--TTTGGATTTATGTGTGATTCATGCTAACAGTTTGAGCAGTGGGTCTTGGATCTTCTTTGTTTTAAACACACAGTTGAAGATACCTGCATTCAGTC-TCAAGTAGGACCTTAGTTT-TGTGCTGGAGATGTACCTGTTCACAACGACaaaaaaaaaaaaaaaaaaaaaaaacaaacaaacaaaaaaaaGAGGAGTCAATTGAACTGAGCCATGTGATGCTACAT-AAAATCAAACTTGCAGCAAAAATAAATTGCCTGAAACAAATGCTTTCATCAGAAATGTCACTACTGAACAAGAAATAAAAAGAG-----------------------------------------------------A----TTTTTTTT-------TCTCTTGGCAGAGAATAGCAGATTACAAAGA--TATTTTTGTATCCTGATATTAAA-TTTTAAATACATCTTTTTT----ACAGAGAATTAGCATTTATTTAGGACACATAAAGAAAGCAGATTAAGA--TCTCTCTCTTCTGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124199378 939 + 181584905 aaac-aaacaaaccaaaac-aaaacaGC-TGTAGATGCTGTGTTATTCACATTCTACTTCCATCATGCTATTCATAGAATCAGTCAGCATGACTATAACTCATCAGTGTCAAATAAAAATGCAAGTAAACCTAACTGATTTCAATCTG-------AAAAACACATTCAGGAGATAGGCCTTCTTATTGTTTTATTG-AAAGGAAACTCCATTGCTTTCTTGATTCTCTTTTAATGGAGGTGGTGAT-AAAAGTAAAATG-GAAATGAAAGATGCTAAACGGCTTAGAGGTACCTTACTCAATGAC-TAAAAACAAGACATATAAATCGAAATATT----AATGCTCTCAGCTTAGTTCAGGTACTAAGCTG-----TGTAATACATCCCACAGCTTAATTATTA-TTTTTATGGACATAGTGGCCCAGTGTACCCCAGGCAATTGCATCAATAAAATCTTCTGTTTGAGTGGGTTCAGCACAGGGCTGTGCTAC---------------TTTTCTGCCAGGAGAACAGC--TTTGGATTTATGTGTGATTCATGCTAACAGTTTGAGCAGTGGGTCTTGGATCTTCTTTGTTTTAAACACACAGTTGAAGATACCTGCATTCAGTC-TCAAGTAGGACCTTAGTTT-TGTGCTGGAGATGTACCTGTTCACAACGACaaaaaaaaaaaaaaaaaaaaaaaaaaaacaaacaaaaaaaaGAGGAGTCAATTGAACTGAGCCATGTGATGCTACAT-AAAATCAAACTTGCAGCAAAAATAAATTGCCTGAAACAAATGCTTTCATCAGAAATGTCACTACTGAACAAGAAATAAAAAGAG-----------------------------------------------------A----TTTTTTTT-------TCTCTTGGCAGAGAATAGCAGATTACAAAGA--TATTTTTGTATCCTGATATTAAA-TTTTAAATACATCTTTTTT----ACAGAGAATTAGCATTTATTTAGGGCACATAAAGAAAGCAGATTAAGA--TCTCTCTCTTCTGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16197110 932 +  18395747 aaac-aaacaaaccaaaac-aaaacaGC-TGTAGATGCTGTGTTATTCACATTCTACTTCCATCATGCTATTCATAGAATCAGTCAGCATGACTATAACTCATCAGTGTCAAATAAAAATGCAAGTAAACCTAACTGATTTCAATCTG-------AAAAACACATTCAGGAGATAGGCCTTCTTATTGTTTTATTG-AAAGGAAACTCCATTGCTTTCTTGATTCTCTTTTAATGGAGGTGGTGAT-AAAAGTAAAATG-GAAATGAAAGATGCTAAACGGCTTAGAGGTACCTTACTCAGTGAC-TAAAAACAAGACATATAAATCGAAATATT----AATGCTCTCAGCTTAGTTCAGGTACTAAGCTG-----TGTAATACATCCCACAGCTTAATTATTA-TTTTTATGGACATAGTGGCCCAGTGTACCCCAGGCAATTGCATCAATAAAATCTTCTGCTTGAGTGGGTTCAGCACAGGGCTGTGCTGC---------------TTTTCTGCCAGGAGAACAGC--TTTGGATTTATGTGTGATTCATGCTAACAGTTTGAGCAGTGGGTCTTGGATCTTCTTTGTTTTAAACACACAGTTGAAGATACCTGCATTCAGTC-TCAAGTAGGACCTTAGTTT-TGTGCTGGAGATGTACCTGTTCACAACGAC-------aaaaaaaaaaaaaaaaaaaaacaaacaaaaaaaaGAGGAGTCAATTGAACTGAGCCATGTGATGCTACAT-AAAATCAAACTTGCAGCAAAAATAAATTGCCTGAAACAAATGCTTTCATCAGAAATGTCACTACTGAACAAGAAATAAAAAGAG-----------------------------------------------------A----TTTTTTTT-------TCTCTTGGCAGAGAATAGCAGATTACAAAGA--TATTTTTGTATCCTGATATTAAA-TTTTAAATACATCTTTTTT----ACAGAGAATTAGCATTTATTTAGGGCACATAAAGAAAGCAGATTAAGA--TCTCTCTCTTCTGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5202967 920 +  26952557 aaac-aaacaaaccaaaac-aaaacaGC-TGTAGATGCTGTGTTATTCACATTCTACTTCCATCATGCTATTCATAGAATCAGTCAGCATGACTAAAACTCATCAGTGTCAAATAAAAATGCAAGTAAACCTAACTGATTTCAATCTG-------AAAAGCACATTCAGGAGATAGGCCTTCTTATTGTTTTATTG-AAAGGAAACTCCATTGCTTTCTTGATTCTCTTTTAATGGAGGTGGCGAT-AAAAGTAAAATG-GAAATGAAAGATGCTAAACGGCTTAGAGATACCTTACTCAATGAC-TAAAAACAAGACATATAAATCGAAATATT----AATGCTCTCAGCTTAGTTCAGGTACTAAGCTG-----TGTAATACATCCCACAGCTTAATTATTA-TTTTTATGGACATAGTGGCCCAGTGTACCCCAGGCAATTGCATCAATAAAATCTTCTGCTTGAGTGGGTTCAGCACAGGGCTGTGCTAC---------------TTTTCTGCCAGGAGAACAGC--TTTGGATTTATGTGTGATTCATGCTAACAGTTTGAGCAGTGGGTCTTGGATCTTCTTTGTTTTAAACACACAGTTGAAGATACCTGCATTCAGTC-TCAAGTAGGACCTTAGTTT-TGTGCTGAAGATGTACCTGTTCGCAATGAC-------aaaaaaagaaaaa-------------aaaaaaaaGAGGAGTCAATTGAACTGAGCCATGTGATGCTACAT-AAAATCAAACTTGCTGCAAAAATAAATTGCCTGAAACAAATGCTTTCATCAGAAATGTCACTACTGAACAAGAAATAAAAAGAG-----------------------------------------------------A---TTTTTTTTT-------TCTCTTGGCAGAGAATAGCAGATTACAAAGA--TATTTTTGTATCCTGATATTAAA-TTTTAAATACATCTTTTTT----ACAGAGAATTAGCATTTGTTTAGGGCACATAAAGAAAGCAGATTAAGA--TCTCTCTCTCCTGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28310803 911 +  82825804 aaac-aaacaaaccaaaac-aaaacaGC-TGTAGATGCTGTGTTATTCACATTCTACTTCCATCATGCTATTCAAAGAATCAGTCAGCATGACTATAACTCATCAGTGTCAAATAAAAAGGCAAGTAAACCTAACTGATTTCAATCTG-------AAAAATACATTCAGGAGATAGGCCTTCTTATTGTTTTATTG-AAAGGAAACTCCATTGCTTTCTTGATTCTCTTTTAATGGAGGTGGTGAT-AAAAGT--AATG-GAAATGAAAGATGCTAAACGGCTTAGAGGTACCTTACTCAATGAC-AAAAAACAAGACATATAAATAGAAATATTAATCAATGCTCTCAGCTTAGTTCAGGTACTAAGCTG-----TGTAATATATCCCACAGCTTAATTATTA-TTTTTATGGACATAGTGGCCCAGTGTACCCCAGGCAATTGCATCAATAAAATCTTCTGCTTGATTGGGTTCAGCACAGGGCTGTGCTGC---------------TTTTCTGCCAGGAGAACAGCTTTTTGGATTTATGTTTGATTCATGCTAACAGTTTGAGCAGTGGGTCTTGGATCTTCTTTGTTTTAAACACACAGTTGAAGATACCTGCATTCAGTC-TCAAGTAGGACCTTAGTTT-TGTTCTGGAGATGTACCTGTTCACAACGAC--------------------------------AAAAAAAAAGAGGAGTCAATTGAACTGAGCCATGTGATGCTACAT-AAAATCAAACTTGCTGCAAAAATAAATTGCCTGAAACAAATGCTTTCATCAGAAATGTCACTACTGAACAAGAAATAAAAAGAG-----------------------------------------------------A----TTTTTTTT-------TCTCTTGGCAGAGAATAGCAGATTACAAAGA--TATTTTTGTATCCTGATATTAAA-TTTTAAATACATCTTTTTT----ACAGAGAGTTAGCATTTGTTTAAGGCACATAAAGAAAGTAGATCAAGA--TCTCTCTCTTCTGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3974938 933 -   4237731 aaac-aaacaaaccaaaac-aaaacaGC-TGTAGATGCTGTGTTATTCACATTCTACTTCCATCATGCTATTCATAGAATCAGTCAGCATGACTAAAACTCATCAGTGTCAAATAAAAATGCAAGTAAACCTAACTGATTTCAATCTG-------AAAAACACATTCAGGAGATAGGCCTTCTTATTGTTTTATTG-AAAGGAAACTCCATTGCTTTCTTAATTCTCTTTTAATGGAGGTGGCGAT-AAAAGTAAAATG-GAAATGAAAGATGCTAAACGGCTTAGAGGTACCTTACTCAATGAC-TAAAAACAAGACATATAAATCGAAATATT----AATGCTCTCAGCTTAGTTCAGGTACTAAGCTG-----TGTAATACATCCCACAGCTTAATTATTA-TTTTTATGGACATAGTGGCCCAGTGTACCCCAGGCAATTGCATCAATAAAATCTTCTGCTTGAGTGGGTTCAGCACAGGGCTGTGCTAC---------------TTTTCTGCCAGGAGAACAGC--TTTGGATTTATGTGTGATTCATGCTAACAGTTTGAGCAGTGGGTCTCGGATCTTCTTTGTTTTAAACACACAGTTGAAGATACCTGCATTCAGTC-TCAAGTAGGACCTTAGTTT-TGTGCTGAAGATGTACCTGTTCGCAACGAC-------CaaaaaaaaaaaaaaaaaaaaaaaaaaaaaGAAAGAGGAGTCAATTGAACTGAGCCATGTGATGCTACAT-AAAATCAAACTTGCTGCAAAAATAAATTGCCTGAAACAAATGCTTTCATCAGAAATGTCACTACTGAACAAGAAATAAAAAGAG-----------------------------------------------------A---TTTTTTTTT-------TCTCTTGGCAGAGAATAGCAGATTACAAAGA--TATTTTTGTATCCTGATATTAAA-TTTTAAATACATCTTTTTT----ACAGAGAATTAGCATTTGTTTAGGGCACATAAAGAAAGCAGATTAAGA--TCTCTCTCTTCTGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      244685 913 -   1175262 aaataaaacaaactaaaac-aaaacaGC-TGTAGATGCTGTGTTATTCACATTCTACTTCCATCATGCTATTCATAGAATCAGTCAACATGACTACAACTCATCAGTGTCAAATACAAATGCAAGTAAACCTAAATGATTTCAATCTG-------AAAATCACATTCAGGAGATAGATCTTCTTATTGTTTTATTG-AAAGGAAACGCCATTGCTTTCTTGATTCTCTTTTAATGGAGGTGGTGAT-AAAAGTAAAATG-GAAATGAAAGATGCTAAATGGCTTAGAGGTACCTTACTCAATGAC-AAAAAACAAGACATATAAATAGAAATATTAATCAATGCTCTCAGCTTAGTTCAGGTACTAAGCTG-----TGTAATACATCCCACAGCTTAATTATTA-TTTTTATGGACATAGTGGCCCAGTGTACCCCAGGCAATTGCATCAATAAAATCTTCTGCTTGAGTGGGTTCAGCACAGGGCTGTGCTAC---------------TTTTCTGCCAGGAGAACAGC--TTTGGATTTGTGTTTGATTCATGCTAACAGTTTGAGCAGTGTGTCTTGGATCTTCTTTGTTTCAAACACACAGTTGAAGATACCTGCATTCAGTC-TCAAGTAGGACCTTAGTTT-TGTTCTGGAGATGTACCTGTTCACAAGAAC-------------------------------AACAAAAAAAGAGGAGTCAATTG-ACTGAGCCATGTGATGCTACAT-AAAATCAAACTTGCTGCAAGAATAAATTGCCTGAAACAAATGCTTTCATCAGAAATGTCACTACTGAACAAGAAATAAAAAGAG-----------------------------------------------------A---TTTTTTTTT-------TCTCTTGGCAGAGAATAGCAGATTACAAAGA--TATTTTTGTATCCTGATATTAAA-TTTTAAATACATGTTTTTT----ACAGAGAATTAACATTTGTTTAGGGCACATAAAGAAAGCAGATCAAGA--TCTCTCTCTTCTGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123578097 908 - 204313951 ---c-aaagaaaccaaaac-aaaacaGC-TGTAGATGGTGTGT--TTCACATTCTGCTTCCATCATGCTATACATAGAATCAGTCAGCATGACTATAACTCATCAGTGTCAAATAAAAATGCAAGTAAACCTAAATGATTTCAATCTG-------AAAAACACATTCAGGAGTCAGGCCTTCCTATTGTTTTATTG-AAAGGAAACTCCATTGCTTTTTTGATTCTCTTTTAATGGAGGTGACGAT-AAAAGTAAAATG-GAAGTGAAAGATGCTAAACAGCCTATAGGTACCTCACTCAATGAC-AAAAAACAAGACATATAAATAAAAATATTAATCAATGCTCTGAGCTTAGTTCAGGTATTAAGCTG-----TGTAATCCTTCCCACAGCTTAATTATTA-TTTTTATGGATATAGTGGCCCAGCATACCCCAGGCAATTGCATCAATGAAATCTTCTGCCTGAGTGTGTTCAGCAGAGGGCTGTGCCTC---------------CTTTCTGCCAGGAGAACAGC--TTTGGATTTATGTTAGATTCCTGCTAACAGTTTGAGCAGTGTATCCTGGATCTTCTTTGTTTTAAACACACAGTTGAAGACACCTGCATTCAGTT-TCAAGTAGGACCTTAGTTT-TGTTCTGGAGATGTACCTGTTCACAACAAC---------------------------------AGCAACAAAAGGAATCAATTGAACTGAGCCACGTGATGCTACAT-AAAATCAAACTCGCTGCAAAAATAAATTGCCTGAAACAAATGCTTTCATCAGAAATGTCACTACTGAACAAGAAATAAAAAGAG-----------------------------------------------------------TTTTTTT-------TCTCTTGGCAAAGAGTAACAGATTACAAAGA--TTGTTTTGTATCCTGatattaaa-ttttaaatacttttttttttttaaCAGAGAA-TAGCATTTGTTTAGGGCACTTAAAGAAAGCAGATCAAGATCTCTCTCTCTTCTGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55633888 909 -  71252344 ---C-AAACAAACCAAAAC-AGGACAGC-TGTAGATGGTGTGT--TGCACATTCTGCTTCCATCATGCTATACGTAGAATCAGTCAGCATGACTATAACTCATCAGTGTCAAATAAAAATGCAAGTAAACCAAAATGATTTCAATCTG-------AAAAACACATTCAGGAGGCAGGCCTTCCTATTGTTTTATTG-AAAGGAAACTCCATTGCTTTCTTGATTCTCTTTTAATGGAGGTGATGAT-AAAAGTAAAATG-GAAGTGAAAGATGCTAAACAGCCTGTAGGTACCTTATTCAATGACAAAAAAACAAGACATATAAATAGAAATATTAATCAATGCTCTGAGCTTAGTTCAGGTACTAAGCTG-----TGTAATCCTTCCCACAGTTTAATTATTA-TTTTTATGGCTATAGTGGCCCAGTGTACCCCAGGCAATTGCATCAATAAAATCTTCTGCCTGCATGCGTTCAGCAGAGGGCTGTGCCTC---------------TTTTCTGCCAGGAGAACAGC--TTTGGATTTATGTTAGATTCCTGCTAACAGTTTGAGCAGTGTATCCTGGATCTTCTTTGTTTTAAACACATAGTTGAAGACACCTGCATTCAGTT-TCAAGTAGGACCTTAGTTT-TGTTCTGGAGATGTACCTGTTCACAACAAC---------------------------------AGCAACAAAAGGAAACAATTGAACTGAGCCATGTGATGCTACAT-AAAATCAAACTCGCTACAAAAATAAATTGCCTGAAACAAATACTTTCGTCAGAAATGTCACTACTGAACAAGAAATAAAAAGAG-----------------------------------------------------A-----TTTTTTT-------TTTCTTGGCAAAGAGTAACAGATTACAAAGA--TTGTTTTGTATCCTGATAGTAAA-TTTTAAACACTTTTTTTTTTTAAACAGAGAATTAGCATTTGTTTAGGGCACATAAAGAAAGCAGATCAAGA--TCTCTCTCTTCTGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1328268 906 -   1400280 ---c-aaacaaaccaaaac-aaaacaGC-TGTAGATGGTGTGT--TTTACATTCTGTTTCCATGATGCTATACATAGAATCAGTCGGCATGACTATATCTCATCAGTGTAAAATAAAAATGCAAGTAAGCCTAAATGATTTCAATCTG-------AAAAACGCATTCAGGAGATAGGCCTTCCTATTGTTTTATTG-AAAGGAAACTCCATTGCTTTCTTGATTCTCTTTTAATGGAGGTGATGAT-AAAAGTAAAATG-GAAGTGAAAGATGCTAAACAGCCTATAGGTACCTTACTCAGTGAC-AAAAAACAAGACATATAAATAGAAATATTAATCAATGCTCTGAGCTTAGTTCAGGTACTAAACTG-----TGTAATCCTTCCCACAGCTTAATTATTA-TTTTTATGGCTATAGTGGCCCAGTGTATCCCAGGCAATTGCATCAATAAAATCTTCTGCCTGAGTGCATTCAGCAGAGGGCTATGCCTC---------------TTTTCTGCCAGGAGAACAGC--TTTGGATTTATGTTAGATTCCTGCTAACAGTTTGAGTAGTGTATCCTGGGTCTTCTTTGTTTTAAACAAACAGTTGAAGACACCTGCATTCAGTT-TCAAGTAGGACCTTAGTTT-TGTTCTGGAGATGTACCTGTTCACAACAAC---------------------------------AGCAACAAAAGGAATCAATTGAACTGAGCCATGTGATGCTACAT-AAAATCAAACTCGCTGCAAAAATAAATTGCCTGAAACAAATGCTTTCGTCAGAAATGTCACTACTGAACAAGAAATAAAAAGAG-----------------------------------------------------A----TTTTTTTT-------TCTCTTGGCAAAGAGTAACAGATTACAGAGA--TTGTTTTGTATCCTGATATTAAA-TTTTAAATACTTTTTTTTT---AACAGAGAATTAGCATTTGTTTAGGTCACATAAAGAAAGCAGATCAAGA--TCTCTCTCTTCTGG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13121178 905 -  42888418 ---c-aaacaaaccaaaac-aaaacaGC-GGTAGATGGTGTGT--TTCACATTCTGCTTCCATCATGCTATACATAGAATCAGTCAGCATGACTATAACTCATCAGTGTCAAATAAAAATGCAAGTAAACCTAAATGATTTCAATCTG-------AGAAACACATTCAGGAGATAGGCCTGCCTATTGTTTTATTG-AAAGGAAACTCCATTGCTTTCTTGATTCTCTTTTAATGGAGGTGATGAT-AAAAGTAAAACG-GAAGTGAAAGATGCTAAACAGCCTATAGGTACCTTACTCAATGAC-AAAAAACAAGACATATAAATAGAAATATTAATCAATGCTTTGAGCTTATTTCAGGTACTAAGCTG-----TGTAATCCTTCCCACAGCTTAATTATTA-TTTTTATGGCTATAGTGGCCCAGTGTACCCCAGGCAATTGCATCAATAAAATCTTCTGCCTGAGTGCATTCAGCAGAGGGCTGTGCCTC---------------TTTTCTGCCAGGAGAACAGC--TTTGGATTTATGTTAGATTCCTGCTAAGAGTTTGAGCAGTGTATCCTGGATCTTCTTTGTTTTAAACACACAGTTGAAGACACCTGCATTCAGTT-TCAAGTAGGACCTTAGTTT-TGTTCTGGAGATGTACCTGTTCACAACAAC---------------------------------AGCAACAAAAGGAATCAATTGGACTGAGCCATGTGATGCTATAT-AAAATCAAACTCGCTGCAAAAATAAATTGTCTGAAACAAATGCTTTCGTCAGAAATGTCACTACTGAACAAGAAATAAAAAGAG-----------------------------------------------------A-----TTTTTTT-------TCTCTTGGCAAAGAGTAACAGATTACAAAGA--TTGTTTTGTATCCTGATATTAAA-TTTTAAATACTTTTTTTTT---AACAGAGAATTAGCATTTGTTTAGGGCACATAAAGAAAGCAGATCAAGA--TCTCTCTCTTCTAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60494290 883 + 108143057 ---------------AAACAAAAACGGC-TGTAGCTGATGTGTTATTTACATTGTACTTCCATCATGCCATACAGAGAATCAGTCAGCACAACTACAACTCATCAGTTTCAAATAAAAATGCAGCTAAACCTAGATGATTTCAATCTGAAAAAAAAAAAAAACATTCAGGAGATAAACCTTCCTATTGTTTTATTG-AAAGGAAACTCCATTGCTGTCTTGACTCCCTTTTAATGGAGGTGGTGAT-aaaaataaaatg-gaaatgaaagatgataaatgaCCTACAGGCACCTTACTCAATGAC-AAAAAACAAGACATATAAATAGAAATATTAATCAATGCTCTGAGCTTAGTTCAGGTGCTAAGCTGTGCAATGTAATCCATCCCACAGCTTAATTATTA-TTTTTATGGACATAGTGGCCCAATGTACCCCAGGCAATTGCATCAATAAAATCTTCTGCTAGAGTGAGTTCAGCACAGGGCTGTGCTAC---------------TTTCCTGCCAGGAGAACAGC--TTTGGATTTATGTTTGATTCATGCTAATAGTCTGAGTGGTAAGTCCTGGATCCGCTTTGTTTTAAACGCACAGTTGAAGACACCTGCGTTCAGTT-TCAAGTCAGACCTCAGTTT-TGTTTT----ATGTGCCTGCTCACACCAAA-------------------------------------AAAAAAAGAGTGAATTGAATGTAGTCATGTGATGCTACAT-AAAATCAAACTTGCTACAAAAATAAATTGACTGAAACAAATGCTTTCTTCAGAAATGTTACTACTGAACAAGAACTAAAGA-------------------------------------------------------------CATTTTTT-------CCTCCTGGCCGAGAGGAGTGGATTACAAAGA----TTTTTCTATCCTGGTATTAAA-TTTTAAATATAAATTTTT-----ACAGAGAATTAGCATTTATTTAAG-----------AAGAAGCTCAAGA--TTTCTCTGTTCCAG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3524282 888 +  11683526 ---------------AAAC-AAAACGGC-TGTAGCTGGTGTGTTATTTACATTCTACTTCCATCATGCTATACAGAGAATCAGTCAGCATGACTACAACTGATCAGTTTCAAATAAAAATGCAGCTAAACCTAGATGATTTCAATCTG-AAAAAAAAAAAAACATTCAGGAGATAAACCTTCCTATTATTTTATTG-AAAGGAAACTCCATTGCTTTCTTGACTCCCTTTTAATGGAGGTGGTGAT-aaaaataaaatg-gaaatgaaagatgataaatgaCCTATAGGCACCTTACTCGATGAC-AAAAAACAAGACATATATATAGAAATATTAATCAATGCTCTGAGCTTAGTTCAGGTGCTAAGCTGTGGGATGTAATACATCCCACAGCTTAATTATTA-TTTTTATGGACATAGTGGCCCAGTGTACCCCAGGCAATTGCATCAATAAAATCTTCTGCTAGAGTGAGTTCAGCACAGGGCTGTGCTAC---------------TTTTCTGCCAGGAGAACAAC--TTTGGATTTATGTTTGATTCATGCTAATAGTTTCAGTGGTGAGTCCTGCATTGTCTTTGTTTTAAACGCACAG-TGAAGACACCTGCGTTCAGTT-TCAAGTCGGACCTCAGTTT-TGTTCTATAGATGTGCCTGCTCACACCAAA-------------------------------------ACAAA---TGTGAATTGAATGGAGCCATGCGATGCTACAT-AAAATCAAACTTGCTACAAAAATAAATTGACTGAAACAAATGCTTTCTTCAGAAATGTCACTACTGAACAAGAACTAAAGA-------------------------------------------------------------TTTTTTTTTTTTTTATCTCCTGGCTGAGAGGAGTGGATTACAAAGA----TTTTTCTATCCTGGTATTAAA-TTTTAAATATAAATTTTT-----ACAGAGAATTAGCATTTGTTTAAG-----------AAGAAGCTCAAGA--TTTCTCTGTTCCAG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3006085 891 +   4132165 -----AAAGAAA--AAAATAAAAACAAAGTGCAGCTGGTGTGTTATTTACATTCTACTTCCATCACACTATACAGAGAATCAGTCAGTACGACTACAACTCATCAGTTTCAGATAAAAATGGAGCTAAACCTGGACAGTTTCAATTTG------AAAAAAATTATTCACAAGATAGACCTTCCTGTTGTTGTACTG-AAAGAAAACTCCATTGCTTTCTTGATTCCCTTTCAATGGAAGTGATAAT-AAAAACAAAATG-GAAACGAAAGATGATAACTGACCTATTGGCACCTTATTCAACGAT-GAAGAACAAGACATATAAATAGAAATATTAA-------TATGAGCATAGCTTAGGTGTTAAGCTATGGAATGT-ATACATCCTACTGCTTA---ATTA-TTTTTATGGATATAGTGGCCCAGTGTACCCCGGGCAATTGCATCAATAAAATCTTCTAC-ACCGTGAGTTCAGCACAGGGCTGTGCTAC---------------TTTTCTGCCAGGAGAACAGC--TTTGGATTTATGTTTGATTCATGCTAATAGGTTGAGTGGTGTGTCCTGGATTGTCTTTGTTTTAAACACACAGGTGAAGACACCTGCATCTGGTT-TCAAGAGGAACCTTCATAT-TTTACTGTAGATGTGCCTGCTCACATCAAA-------------------------------------AAAGA---AAGGAATTGAACTGAGTCATGCGATGCTACAT-AAAATCAAACTTGCTACAAAAATAAATTGACTGAAACAAATGCTTTCTTCAGAAATGTCACTGCTGAACAAGAAGTAAAAG-------------------------------------------------------------ATTTTTTTTTTCCC-CCTCCTGGCTGAGAGTACTAGATTACAAAGA----TTTTTCTGTCTTGGTATTAAA-TTTTAAGTGGAAAACTTA-----ATAGAGAATT-GCATTTGTTTAAGGCTTATGAAGAAAGAAGATTAAGA--TTTCTCTCTTTTAG
i otoGar3.GL873679         I 2273 C 0
s mm10.chr18                55471515 961 +  90702639 AAAC-AAACAAACCTGAGG-CAAAGAGC-CATCGACA--GTGTTGCTTAAATTCC-CTTCTATCGCACTGTATAGCAAATCAGTCAGCATGACTATAAGTCATCAGCTTCAAATAAAAACACAACTAAACCTAGATGATTTCCATCTG-------AAAAACACATCTAGGAGACAGGCCTTCCTATTGTTTTATTG-AAGGGAAACGCCATTGCTTTCTTGATTCCCTTTTAA-GGAGGCAGTGATAAAAAATAAAACA-GAAATGAAAGGTGATAAATGGCCTGTAGGTACCATATTCAATGAT--AAAAACAAGACATAAAAA--GAAATATTAATCAATGCTCTGAGCTGCGTTCAGGCACTAAACTGAGGAATGTAATACATCCTGCAGCTTAATTATTA-TTTTTATGGACATAGTGGCCCAATGTACCCCAGGCAATTGCATCCATAAAGTCTCTTGCCAGAGTAGGTTCTGCACAGGCCTGTGCGACAttttttttttttttttttttGCCAGACGAACAGC--TTTGTGTTTATGTTAGA-TAAAGCTAATATTTTGAGCTGTGTGTTTTAGATCGTCTCTGTTTTTAATGCACAGTTAAGGACACCTGCATTCAGTT-CCAACTTGGACCTTAGTTTCTATTCTGGAGACAGGCCTGCTCATACCCAA----------------------------------------ACAGAACTCAGTGGGACATAGCCACATGATGCTGCAT-ACAGTCAAACTGGCAATGAGATGAACCTGACTGCAGCAAATGCTCTCATCAGAAATGCCACAACTGAACAAAAATTGAAaaaaaaaaacaaacaaacaaaaaaccaaaacaaaacagaacaacaacaacaacaaaaaa-------------------aaacCTGGCTAAGAGATGTGGATTATAAAGA-GTTTTCAAAAATCTTGGCATTAAGTTTTTAAAGGTAATCTTTCT----ACAGAAAATTAGCGTCTGATAAAGGCACAGAA--AATGTAGAT-AAGC--CTTTTCTCTTCTAG
i mm10.chr18               C 0 I 565
s canFam3.chr11             14868388 880 +  74389097 --------------------------GC-TGTAGATGCTGTGTTATTCACATCCTATCTCCCT---GCTTTACAAGG----AGTCAGCATGACTACAGCTTAGGAGCTTCAAATAAAAATACAAGTAGCCCTAGATCATTTCAATCTA-------AAAA--ACAGTCAGGAAAAAGGCCTTCCTATTGTTTTATTGCAAAAGAAACTTCATTGCTTTCTTGATTCCCTTTTAATAGAGATAGTAAT-AAAAGTAAAATG-GAAATGAAAGATTATGGATGGCCTGTAGGTATCTTCTTCAACAAC-AGAAAACAAGACATATAAATAGAAATATTAATCAATGCTCTGAGCTTAGTTCAGGTGCTAAGCTGTGGAGTGTAATACATCCCACAGCTTAATCATTATTTTTTATGGGTATAGTGGCCCAATGTACCCCAGGCAATTGCATCAATAAAATCTCCTGCTAGAATGGGTTCAGCATAGAGTTGTACTAC---------------TTTGCTGCCAGGTGAACAGC--TTTGGATTTATATGAGATTCATGCTAATGTTCTGAGCAGTGTGTCCTGGATCTTCTTCATTTTAAATGTATAGTTGAAGACACCTGTATTCAGTTCCCAAGGTGGGCCTTAGTTT-TGTTCTGGAAATGTGCCTGCTCACACCAAA----------------------------------------AAAGATGTCAATTGAACTGAGCCATGTGACGCTACAT-AAAATCAAGCTTGCTACAAAAATAAATTGGGTGAAACAAATGCTTTCATCAGAAATGTCACTACTGAACAAGAAATAAA-AGAG-----------------------------------------------------ATATTTTTTTCTC-------TCTCCTGGGCAAGAGTAGTAGATGACAAAGA----ATATTGT-TCCCGGtattaaa-ttttaaatataatttttttCT--ACAGGGAATTAGCATTTGTTTAAGGCACATAAAGAAAGTAGATCAAAA--TTTCTCTCATCTAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2559087 881 +   3667625 aaaa-aaacaaaggaaaaccaaaacCAT-TGTAGATGTT-TTTAATTCACAGCTCACATC-------------------TCAGTAAACATGACTACAATC---CAGTTTAAAATAAAAATGCAACTAAAGTTAGATGGCTTCAATATG------GAAAAGAACATTCAGAAGATAGGCTTTCCT-TTGTTTTATTA-GAAAGGAAACACGTTA-TTTTTTGATTGCCTTTAAAAAGTGATGGTGAT-AAAAGTAAAAAGAAAAAGGAAAGATGATGGATGGTCTGTAGGTGCCTTGCTCAATGAC-AGAAAACAAAACGTACAAATAGAAGTGTTAATCAATGCTCTGAGCTTAGCTCAGGTACTAAGCTCTGGAACGTATTACATCTCACAGCTTAATTATTA-TTTTTATGGGTATGGTAGCCCAATGTACCCCAGGCAATTGCATCAATAAAATCTTCTGCTCTTGTAGGTTTAGCACAAGTTT-TGCTAT---------------ATTTCTGCCAGGTAAACAGC--TTTGGATTTATATTAGATTCATGCTAATATTTTGAGCAGTATGCCCTGGATCTCTTTCATTTTAAATGCACAGTCGAAGATACCTGGATTCATTT-CCAAGCTGCACAGTGGTTT-TGTTCTGGACATGTGCCTGCTCATACCAAA-----------------------------------------AAGAAGTCAATTCAACTGAGCCATGTGATGCTAGAT-AAAATCAAGCTTGCTACAAAAATAAATTGGCTGAAACAAACACTTTCATCAGAAATGTCACTACTGAGCAAGAAATAAAAAGGT-----------------------------------------------------A-----TTTTTTT-------CCTCCTGG-GAAGAGTATTGGATTACAAGGT--GTTTTTTCTTGCCTGGTATTAAA-CATTAAATATAGTTTCTCT----GTAGAGAATTAG-ATTTCTTTAAAGCACATGAATAAAGCAAATGAAAA--TTTGTCACTTCTAT
i dasNov3.JH567306         C 0 C 0

a score=1613093.000000
s hg38.chr5_KI270796v1_alt     20527 114 +    172708 CAATGAATCTTT-ACAAAAATAACTTACTTTAATGTAGCCATACTTCGGAGG-AAAAAAAA-----ATTAT-GGGG--CGATCATGCTAGAGAGTTTCTTTTTCCCTCTGGGTTGTCGTATTAT
s panTro5.chr5             125130606 114 + 181907262 CAATGAATCTTT-ACGAAAATAACTTACTTTAATGTAGCCATACTTTGGAGG-AAAAAAAA-----ATTAT-GGGG--CGATCATGCTAGAGAGTTTCTTTTTCCCTCTGGGTTGTCatattat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126467585 114 + 183735486 CAATGAATCTTT-ATGAAAATAACTTACTTTAATGTAGCCATACTTTGGAGG-AAAAAATA-----ATTAT-GGGG--CGATCATGCTAGAGAGTTTCTTTTTCCCTCTGGGTTGTCatattat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1659136 114 +   8933513 CAATGAATCTTT-ACGAAAATAGCTTACTTTAATGTAGCCATACTTTGGAGG-AAAAAAAA-----ATTAT-GGGG--CGATCATGCTAGAGAGTTTCTTTTTCCCTCTGGGTTGTCatattat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139790862 114 + 163208435 CAATGAATCTTT-ACAAAAATAACTTACTTTAATGTAGCCATACTTCAGAGG-AAAAAAAA-----ATTAT-GGGG--CTATCATGCTAGAGAGTTTCTTTTTCCCTCTGGGTTGTCACATTAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122776643 114 + 180051392 CAATGGATCTTT-ATAAAAATAACTTACTTTAATGTAGCCATACTTTGGAGG-AAAAAAAA-----ATTAT-GGGG--CAATCATGCTAGAGAGTTTCTTTTCTCCTCTGGGTTGTCATATTAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124200317 114 + 181584905 CAATGGATCTTT-ATAAAAATAACTTACTTTAATGTAGCCATACTTTGGAGG-AAAAAAAA-----ATTAT-GGGG--CAATCATGCTAGAGAGTTTCTTTTCTCCTCTGGGTTGTCATATTAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198042 114 +  18395747 CAATGGATCTTT-ATAAAAATAACTTACTTTAATGTAGCCATACTTTGGAGG-AAAAAAAA-----ATTAT-GGGG--CAATCATGCTAGAGAGTTTCTTTTCTCCTCTGGGTTGTCATATTAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5203887 114 +  26952557 CAATGGATCTTT-ATAAAAATAACTTACTTTAATGTAGCCATACTTTGGAGG-AAAAAAAA-----ATTAT-GGGG--CAATCATGCTAGAGAGTTCCTTTTCTCCTCTGGGTTGTCATATTAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28311714 115 +  82825804 CAATGGATCTTT-ATAAAAATAACTTACTTTAATGTAGCCATACTTTGGAGGAAAAAAAAA-----ATTAT-GGGA--CAATCATGCTAGAGAGTTTCTTTTCTTCTCTGGGTTGTCATATTAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3975871 114 -   4237731 CAATGGATCTTT-ATAAAAATAACTTCCTTTAATGTAGCCATACTTTGGAGG-AAAGAAAA-----ATTAT-GGGG--CAATCATGCTAGAGAGTTCCTTTTCTCCTCTGGGTTGTCATATTAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      245598 114 -   1175262 CAATGGATCTTT-ACAAAAATAACTTACTTTAATGTAGCCATACTTTGGAGG-AAAAAAAA-----ATTAT-GGGG--CAATCATGCTAGAGAGTTTCTTTTCTCCTCTGGGTTGTCATATTAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123579005 115 - 204313951 CAATGAATCTTT-ACAAAAATAACTTACTTTAATGTAGCCACACTTTAGAAG-AAAAAAAT---TTATCAT--GGG--CAATCATGCTAGAGAATTTCTTTTTCCCTCTGGGTTGTCatattat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55634797 116 -  71252344 CAATGAATCTTT-ACAAGAATAACTAACTTTAATGTAGCCATACTTTAGAAG-AAAAAAAA---TTATCGT-GGGG--CAATCATGCTAGAGAATTCCTTTTTTCCTCTGGGTTGTCGTATTAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1329174 116 -   1400280 CAATGAATCTTT-ACAAGAATAACTTACTTTAATGTAGCCATACTTTAGAAG-AAAAAAAA---TTATCAT-GGGG--CAATCATGCTAGAGAATTTCTTTTTCCCTCTGGGTTGTCatattat
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13122083 117 -  42888418 CAATGAATATTT-ACAAGAATAACTTACTTTAATATAGCCATACTTTAGAAGAAAAAAAAA---TTATTAT-GGGG--CAATCATGCTAGAGAATTTCTTTTTCCCTCTGGGTTGTCATATTAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60495173 120 + 108143057 CAATGAATCTTTAAAAAAAATAGCATATTTTAATGTAGCCCTACTTTTTAGG-ACAAAAGGAAAACACTGT-GGGG--AGATCATGCTAGAAAGTTTCTTTTACACTCTGGGTTGTCATATTGT
i micMur3.chr12            C 0 I 6
s proCoq1.NW_012155062v1     3525170 119 +  11683526 CAATGAATCTTT-ACAAAAATAGCTTATTTTAATGTAGCCCTACTTTGTAGG-ACAAAAGAAAAACACTGT-GGTG--AGATCATGCTAGAAAGTTTCTTTTTCGCTCTGGGTTGTCATATTGT
i proCoq1.NW_012155062v1   C 0 I 62
s otoGar3.GL873679           3006976 120 +   4132165 CAATGAATCTGT-ACAAAAATAACTTATTTTACTGTAGCCATACTTTGTAGG-ACAAAAGAAAAACACTGG-GAGGGCGTGTCATGCCGGAAACTTTCTTTTTCTC-CTGGGTTGTCGTGTTTC
i otoGar3.GL873679         C 0 I 5
s canFam3.chr11             14869268 120 +  74389097 CAATTACTCTTT-AGAAAAATAATTTATTTTACTGCAGCCATACTTTGTAGG-AAAAAAGGAAAAAACTGCAGGGG--AAATCATGCCAGATCATTATTTTTCCCCTCTAGGTTGTCATATTAT
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2559968 100 +   3667625 TAATGAATCTTT-AGAAAAATAATTTATTTTAATGCAGTGATTATTTAGAGT-GAAAAAAT-----CTGAG-GGGA--AAATCATGCCAGAG--TTTCCTTTTCC-------TCAACAT-----
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55472476 565 +  90702639 I

a score=7336.000000
s hg38.chr5_KI270796v1_alt     20641 2 +    172708 AA-
s panTro5.chr5             125130720 2 + 181907262 aa-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126467699 2 + 183735486 aa-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1659250 2 +   8933513 aa-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139790976 2 + 163208435 AA-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122776757 2 + 180051392 AA-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124200431 2 + 181584905 AA-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198156 2 +  18395747 AA-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204001 2 +  26952557 AA-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28311829 2 +  82825804 AA-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3975985 2 -   4237731 AA-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      245712 2 -   1175262 AA-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123579120 2 - 204313951 aa-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55634913 2 -  71252344 AA-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1329290 2 -   1400280 aa-
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13122200 2 -  42888418 AA-
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60495299 2 + 108143057 AT-
i micMur3.chr12            I 6 C 0
s otoGar3.GL873679           3007101 2 +   4132165 AT-
i otoGar3.GL873679         I 5 C 0
s canFam3.chr11             14869389 1 +  74389097 A--
i canFam3.chr11            I 1 I 6
s dasNov3.JH567306           2560068 2 +   3667625 -AT
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3525289 62 +  11683526 I
e mm10.chr18                55472476 565 +  90702639 I

a score=661654.000000
s hg38.chr5_KI270796v1_alt     20643 50 +    172708 TATTACTAATTATATTATAGTCTCCTACTTGGTGAAATTGGCTACTTCAC
s panTro5.chr5             125130722 50 + 181907262 tattactaattatattataGTCTCCTACTTGGTGAAATTGGCTACTTCAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126467701 50 + 183735486 tattactaattatattataGTCTCCTACTTGGTGAAATTGGCTACTTCAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1659252 50 +   8933513 tattactaattatattataGTCTCCTACTTGGTGAAGTTGGCTACTTCAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139790978 50 + 163208435 TATTACTAATTATATTATAGTCTCCTACTTGGTGAAGTTGGCAACTTCAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122776759 50 + 180051392 TATTACTAATTATATTGTAGTCTCCTACTTGGTGAGGTTGGCTACTTCAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124200433 50 + 181584905 TATTACTAATTATATTTTAGTCTCCTACTTGGTGAGGTTGGCTACTTCAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198158 50 +  18395747 TATTACTAATTATATTTTAGTCTCCTACTTGGTGAGGTTGGCTACTTCAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204003 50 +  26952557 TATTACTAATTATATTTTAGTCTCCTACTTGGTGAGGTTGGCTACTTTAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28311831 50 +  82825804 TATTACTAATTATATTTTAGTCTCCTACTTGGTGAGGTTGGCTACTTCAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3975987 50 -   4237731 TATTACTAATTATATTTTAGTCTCCTACTTGGTGAGGTTGGCTACTTTAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      245714 50 -   1175262 TATTACTAATTATATTTTAGTCTCCTACTTGGTGAGGTTGGCTACTTCAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123579122 50 - 204313951 tattactaattatattataGCCTTCTATTTGGTGAGGTTGGCTACTTCAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55634915 50 -  71252344 TATTACTAATTATATTATAGCCTTCTACTTGGTGAGGTGGGCTACTTCAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1329292 50 -   1400280 tattactaattatattataGCCTTCTACTTGGTGAGGTTGGCTACTTCAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13122202 50 -  42888418 TATTGCTAATTATATTATAGCCTTCTACTTGGTGAGGTTGGCTACTTCAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60495301 49 + 108143057 CATCACTAATTATGTCATATTCTCT-ACTTTGTGAGATTAGCTCCTTTAG
i micMur3.chr12            C 0 I 5
s otoGar3.GL873679           3007103 34 +   4132165 CGTCACTAATTATGTTATCCTCTCT--CACTGAGAG--------------
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55473041 50 +  90702639 TGTCAGTAATTCCATTACGTTCTTCTATTCCACAGGGTCAGCTCTTTTAG
i mm10.chr18               I 565 I 5
s canFam3.chr11             14869396 50 +  74389097 TGTCACTAATTACATTATATTCTCCTACTTTGTAAGATTAGATTCTTCAG
i canFam3.chr11            I 6 I 5
s dasNov3.JH567306           2560070 47 +   3667625 TATCACTAATTACATTATATTCTCCTCC---GTGAGGTTAGCTTCTTCAG
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3525289 62 +  11683526 I

a score=1422400.000000
s hg38.chr5_KI270796v1_alt     20693 101 +    172708 -----GTTCCAAACATGAT-AAAGTA----AATGTCCATAGGTCTTCAAGAACTTAAGAAGAATAGAG-AAAAGCCAAGGAACTCTGACCTCAACCTTCTCTA-AAATATTCT
s panTro5.chr5             125130772 101 + 181907262 -----GTTCCAAACATGAT-ACAGTA----AATGTTCATAGGTCTTCAAGAACTTAAGAAGAATAGAG-AAAAGCCAAGGAACTCTGACCTCAACCTTCTCTA-AAATATTCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126467751 101 + 183735486 -----GTTCCAAACATGAT-ACAGTA----AATGTTCATAGGTCTTCAAGAACTTAAGAAGAATAGAG-AAAAGCCAAGGAACTCTGACCTCAACCTTCTCTA-AAATATTCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1659302 101 +   8933513 -----GTTCCAAACATGAT-ATAGTA----AATGTTCATAGGTCTTCAAGAACTTAAGAAGAATAGAG-GAAAGCCAAGGAACTCTGACCTCAACCTTCTCTA-AAATATTCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791028 101 + 163208435 -----GTTCCAAACATGAT-AAAGTA----AATGTTCATAGGTCTTCAAGAACTTAAGAAGAATAGAG-AAAAGCCAAGGAACTCTGACCTCAACCTTCTCTA-AAATACCCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122776809 100 + 180051392 -----GTTCCAAACATGAT-AAAGTA----AATGTTCATAGGTCTTCAAGAACTCAAGAAGACTAGAG--AAACCCAAGGAACTCTGACCTCAACCTTCTGTC-AAACATTCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124200483 100 + 181584905 -----GTTCCAAACATGAT-AAAGTA----AATGTTCATAGGTCTTCAAGAACTCAAGAAGACTAGAG--AAACCCAAGGAACTCTGACCTCAACCTTCTGTC-AAACATTCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198208 100 +  18395747 -----GTTCCAAACATGAT-AAAGTA----AATGTTCATAGGTCTTCAAGAACTCAAGAAGACTAGAG--AAACCCAAGGAACTCTGACCTCAACCTTCTGTC-AAACATTCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204053 100 +  26952557 -----GTTCCAAACTTGAT-AAAGTA----AATGTTCATAGGTCTTCAAGAACTCAAGAAGACTAGAG--AAACCCAAGGAACTCTGACCTCAACCTTCTGTC-AAACATTCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28311881 100 +  82825804 -----GTTCCAAACATGAT-AAAGTA----AATGTTCATAGGTCTTCAAGAACTCAAGAAGACTAGAG--AAACCCAAGGAACTCTGACCTCAACCTTCTGTA-AAACATTCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976037 100 -   4237731 -----GTTCCAAACATGAT-AAAGTA----AATGTTCATAGGTCTTCAAGAACTCAAGAAGACTAGAG--AAACCCAAGGAACTCTGACCTCCACCTTCTGTC-AAACATTCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      245764 100 -   1175262 -----GTTCCAAACACGAT-AAAGTA----AATGTTCATAGGTCTTCAAGAACTCAAGAAGACTAGAG--AAACCCAAGGAACTCTGACCTCAATCTTCTGTA-AAACATTCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123579172 101 - 204313951 -----GTTCCAAACAAGAT-AAAGTA----AATGTTCATAGATCATCAAGAACTTAAGAAGAATAGAG-AAAAGCCAAGAAACTCTGACCTCAACTTTCTCTA-AAACATTCT
i calJac3.chr2             C 0 I 325
s saiBol1.JH378106          55634965 101 -  71252344 -----GTTCCAAACAAGAT-AAAATA----AATGTTCATAGATCATCAAGAACTTAAGAAGAATAGAG-AAAAGCCAAGAAACTCTGACCTCAACCTTCTCGA-AAACATtct
i saiBol1.JH378106         C 0 I 306
s cebCap1.NW_016107829v1     1329342 101 -   1400280 -----GTTCCAAACAAGAT-AAAGTA----AATGTTCATAGATCATCAAGAGCTTAAGAAGAATAGAG-AAAAGCCAAAAAACTCTGGCCTCAACCTTCTCTA-AAACATtct
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13122252 101 -  42888418 -----GTTCCAAACAAGAT-AAAGTA----AATGTTCATAGATGATCAAGAACTTAAGAAGGATAGAG-AAAAGCCAAGAAACTCTGACCTCAACCTTCTCTA-AAACATtct
i aotNan1.NW_018505940v1   C 0 I 355
s micMur3.chr12             60495355 102 + 108143057 -----CTTCCAAGGATGATAAAAATA----AATGTTCATAGGTCATCAATAACTTGAAAAGAATAGAG-AAAATCCAAGGAACTCTGACTTCAACTTTCTCTA-AAATATTCT
i micMur3.chr12            I 5 C 0
s proCoq1.NW_012155062v1     3525351  99 +  11683526 -----CTTCCAAAGATGATAAAAATG----AATGTTCATAGGTCATCAATAACTTGAAAAGAATAGAG-AAAATCCAAGG---CCTGACTTCAATCTTCTCTA-AAATACTCT
i proCoq1.NW_012155062v1   I 62 C 0
s otoGar3.GL873679           3007137  92 +   4132165 ---------------TGATAAAAATA----AATGTTCCTAGATGACCAAAAGCTTGAAAAGAATAGAG-AAAACCCAAGGAACTCTGAGTTCAACCTTCTCTA-AGATACTCT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55473096 106 +  90702639 -----TTTTCAAGGACTCT-AAAGTAAGTCAACGTTCAAGGTTATTGCAGAACTTTAGGAGAATTGAGAAAGACTCCAGGAACTCTGACTTAAGCCTTCTCTA-AGACAATCC
i mm10.chr18               I 5 I 1
s canFam3.chr11             14869451  88 +  74389097 -----CTTCTAAGGATGAT-AAGGCC----A--------------TCAAGCATGCGAGAAAAAGAAAA-GAAATCCAAGGAACTCTGTCTTCACCCTCTTCTACAAACATTCT
i canFam3.chr11            I 5 C 0
s dasNov3.JH567306           2560117 102 +   3667625 GCCAACTTCTAAAGATGAT-AAAGGA----AACGCTCATATATTCTCAAGAACT---GGAGAATAAAG-AAAATCTGAGGAATTCTTTCTTTAACCTTCTC-A-AAACACCCA
i dasNov3.JH567306         C 0 C 0

a score=21021.000000
s hg38.chr5_KI270796v1_alt     20794 1 +    172708 T
s panTro5.chr5             125130873 1 + 181907262 T
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126467852 1 + 183735486 T
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1659403 1 +   8933513 T
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791129 1 + 163208435 T
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122776909 1 + 180051392 T
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124200583 1 + 181584905 T
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198308 1 +  18395747 T
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204153 1 +  26952557 T
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28311981 1 +  82825804 T
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976137 1 -   4237731 T
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      245864 1 -   1175262 T
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123579598 1 - 204313951 T
i calJac3.chr2             I 325 C 0
s saiBol1.JH378106          55635372 1 -  71252344 T
i saiBol1.JH378106         I 306 C 0
s cebCap1.NW_016107829v1     1329443 1 -   1400280 t
i cebCap1.NW_016107829v1   C 0 I 372
s aotNan1.NW_018505940v1    13122708 1 -  42888418 T
i aotNan1.NW_018505940v1   I 355 C 0
s micMur3.chr12             60495457 1 + 108143057 T
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3525450 1 +  11683526 T
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3007229 1 +   4132165 T
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55473203 1 +  90702639 T
i mm10.chr18               I 1 C 0
s canFam3.chr11             14869539 1 +  74389097 T
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2560219 1 +   3667625 T
i dasNov3.JH567306         C 0 C 0

a score=182151.000000
s hg38.chr5_KI270796v1_alt     20795 36 +    172708 TCTATGT-ACACCCCAAAGACATGATCACATTTATTT
s panTro5.chr5             125130874 36 + 181907262 TCTATGT-ACACCCCAAAGACATGATCACATTTATTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126467853 36 + 183735486 TCTATGT-ACACCCCAAAGACATGATCACATTTATTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1659404 27 +   8933513 TCTATGT-ACACCCCAAAGACATGATCA---------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791130 36 + 163208435 TCTATGT-ACACCCCAAGGACATGATCACGTTTATTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122776910 25 + 180051392 TCTATGT-ACACCGC--AGACATAATCA---------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124200584 25 + 181584905 TCTATGT-ACACCGC--AGACATAATCA---------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198309 25 +  18395747 TCTATGT-ACACCGC--AGACATAATCA---------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204154 25 +  26952557 TCTATGT-ACACCGC--AGACATGATCA---------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28311982 27 +  82825804 TCTATGT-ACACCGCAAAGACATGATCA---------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976138 25 -   4237731 TCTATGT-ACACCGC--AGACATGATCA---------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      245865 27 -   1175262 TCTATGT-ACACCGCAAAGACATGGTCA---------
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123579599 27 - 204313951 TCTATGT-ACACCCCAAAGGCATTATCA---------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55635373 27 -  71252344 TCTGTGT-ACACCCCAAAGGCATTATCA---------
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13122709 36 -  42888418 TCTATGT-ACACCCCAAATACATTATCACATTCATTT
i aotNan1.NW_018505940v1   C 0 I 5
s micMur3.chr12             60495458 36 + 108143057 TCTACAC-ACACCCAAAAGGCATTAAAACATTTATTT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3525451 36 +  11683526 TCCACAC-ACACCCAAAAGGCATTAAAGCATTTACTT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3007230 29 +   4132165 CCTACAC-ACATT------ACATTACAACATTTATT-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55473204 23 +  90702639 TTGACGC-ATACCCAGGAGACATA-------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14869540 24 +  74389097 TCTACATGGCATT----AAACATTTCCA---------
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2560220 35 +   3667625 -CTACAC-ACATTCAAAAGGTTTTAAAACATTTAGTG
i dasNov3.JH567306         C 0 C 0
e cebCap1.NW_016107829v1     1329444 372 -   1400280 I

a score=35282.000000
s hg38.chr5_KI270796v1_alt     20831 27 +    172708 CCCTGAAACAGAATTCTGGCTGTAATT
s panTro5.chr5             125130910 27 + 181907262 CCCTGAAACAGAATTCTGGCTGTAATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126467889 27 + 183735486 CCCTGAAACAGAATTCTGGCTGTAATT
i panPan2.chr5             C 0 C 0
s nomLeu3.chr2             139791166 27 + 163208435 CCCTGAAACAGAATTCTGGCTGTAATT
i nomLeu3.chr2             C 0 C 0
s micMur3.chr12             60495494 27 + 108143057 CCCTGAAATAGAATTCTGGCTGTAATT
i micMur3.chr12            C 0 I 1
s proCoq1.NW_012155062v1     3525487 27 +  11683526 CCCTGAAAGAGAATTCTGGCTGTAATT
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55473227  7 +  90702639 ---CAAAACA-----------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14869565 17 +  74389097 CCTCCAAACTGG---------GAAAT-
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2560255 27 +   3667625 TTCAAAACCAGAATTCTGGCTGTCATT
i dasNov3.JH567306         C 0 C 0
e gorGor5.CYUI01015135v1     1659431  0 +   8933513 C
e manLeu1.NW_012103321v1     3976163  0 -   4237731 C
e chlSab2.chr23             28312009  0 +  82825804 C
e cerAty1.NW_012002512v1     5204179  0 +  26952557 C
e macNem1.NW_012012355v1    16198334  0 +  18395747 C
e macFas5.chr6             124200609  0 + 181584905 C
e rheMac8.chr6             122776935  0 + 180051392 C
e otoGar3.GL873679           3007259  0 +   4132165 C
e aotNan1.NW_018505940v1    13122745  5 -  42888418 I
e cebCap1.NW_016107829v1     1329444 372 -   1400280 I
e saiBol1.JH378106          55635400  0 -  71252344 C
e calJac3.chr2             123579626  0 - 204313951 C
e colAng1.NW_012119644v1      245892  0 -   1175262 C

a score=5513.000000
s hg38.chr5_KI270796v1_alt     20858 4 +    172708 GCCA
s panTro5.chr5             125130937 4 + 181907262 GCCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126467916 4 + 183735486 GCCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1659431 2 +   8933513 --CA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791193 4 + 163208435 GCCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122776935 2 + 180051392 --TA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124200609 2 + 181584905 --TA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198334 2 +  18395747 --TA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204179 2 +  26952557 --TA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312009 2 +  82825804 --TA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976163 2 -   4237731 --TA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      245892 2 -   1175262 --TA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123579626 2 - 204313951 --CA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55635400 2 -  71252344 --CA
i saiBol1.JH378106         C 0 C 0
s proCoq1.NW_012155062v1     3525514 4 +  11683526 GCCA
i proCoq1.NW_012155062v1   C 0 I 58
s canFam3.chr11             14869582 1 +  74389097 G---
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2560282 4 +   3667625 GGCA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60495521 1 + 108143057 I
e otoGar3.GL873679           3007259 0 +   4132165 C
e aotNan1.NW_018505940v1    13122745 5 -  42888418 I
e cebCap1.NW_016107829v1     1329444 372 -   1400280 I
e mm10.chr18                55473234 0 +  90702639 C

a score=114607.000000
s hg38.chr5_KI270796v1_alt     20862 12 +    172708 TTTATTTCCCTG
s panTro5.chr5             125130941 12 + 181907262 TTTATTTCCCTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126467920 12 + 183735486 TTTATTTCCCTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1659433 12 +   8933513 TTTATTTCCCTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791197 12 + 163208435 TTTATTTCCTTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122776937 12 + 180051392 TTTATTTCCCTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124200611 12 + 181584905 TTTATTTCCCTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198336 12 +  18395747 TTTATTTCCCTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204181 12 +  26952557 TTTATTTCCCTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312011 12 +  82825804 TTTATTTCCCTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976165 12 -   4237731 TTTATTTCCCTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      245894 12 -   1175262 TTTATTTCCCTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123579628 12 - 204313951 TTTATTTCCCCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55635402 12 -  71252344 TTTATTTCCCCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1329816 12 -   1400280 TTTATTTCCCCA
i cebCap1.NW_016107829v1   I 372 C 0
s otoGar3.GL873679           3007259  5 +   4132165 -------CCCTG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55473234 11 +  90702639 -TTATTTCCCTG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14869583  6 +  74389097 ------TCTCCG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2560286  1 +   3667625 ------T-----
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60495521  1 + 108143057 I
e proCoq1.NW_012155062v1     3525518 58 +  11683526 I
e aotNan1.NW_018505940v1    13122745  5 -  42888418 I

a score=303443.000000
s hg38.chr5_KI270796v1_alt     20874 24 +    172708 AAACAGAATTCTGGCTGTAATTGC
s panTro5.chr5             125130953 24 + 181907262 AAACAGAATTCTGGCTGTAACTGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126467932 24 + 183735486 AAACAGAATTCTGGCTGTAACTGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1659445 24 +   8933513 AAACAGAATTCTGGCTGTAATTGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791209 24 + 163208435 AAACAGAATTCTGGCTGTAATTGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122776949 24 + 180051392 AAACAGAATTCTGGCTGTAATTTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124200623 24 + 181584905 AAACAGAATTCTGGCTGTAATTTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198348 24 +  18395747 AAACAGAATTCTGGCTGTAATTTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204193 24 +  26952557 AAACAGAATTCTGGCTGTAATTTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312023 24 +  82825804 AAACAGAATTCTGGCTGTAATTTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976177 24 -   4237731 AAACAGAATTCTGGCTGTAATTTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      245906 24 -   1175262 AAACAGAATTCTGGCTGTAATTTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123579640 24 - 204313951 AAACAGAATTCTGGCTGTAATTGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55635414 24 -  71252344 AAACAGAATTCTGGCTGTAATTGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1329828 24 -   1400280 AAACAGAATTCTGGCTGTAATTGC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13122750 24 -  42888418 AAACAGAATTCTGGCTGTAATTGC
i aotNan1.NW_018505940v1   I 5 C 0
s otoGar3.GL873679           3007264 24 +   4132165 AAATAGAATTCTGGCTGTGATTGC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55473245 23 +  90702639 AAACAGATTTCT-GCTGTCAGGGT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14869589 18 +  74389097 ------AAATCTGGCTGTCCAGGC
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60495521  1 + 108143057 I
e proCoq1.NW_012155062v1     3525518 58 +  11683526 I
e dasNov3.JH567306           2560287  0 +   3667625 C

a score=819991.000000
s hg38.chr5_KI270796v1_alt     20898 60 +    172708 CAGGTTCGAAATACCAACACA------ACCAGGGAAACAAGTTTGAAA--AAAAATTTTAACCCTACA
s panTro5.chr5             125130977 60 + 181907262 CAGGTTCAAAATACCAACACA------ACTAGGGAAACAAGTTTGAAA--AAAAATTTTAACCCTACA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126467956 59 + 183735486 CAGGTTCAAAATACCAACACA------ACTAGGGAAACAAGTTTG-AA--AAAAATTTTAACCCTACA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1659469 60 +   8933513 CAGGTTCAAAATACCAACACA------ACTAGGGAAACAAGTTTGAAA--AAAAATTTTAACCCTACA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791233 60 + 163208435 CAGGTTCAAAATACCAACTCA------ACTAGGGAAACAAGTTTGAAA--AAATATTTTAACGCTACA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122776973 60 + 180051392 CAGGTTCAAAACACCAACTCC------ACTAGGGAAACAAGTTTGAAG--CAAAATTTTATCCCTACA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124200647 60 + 181584905 CAGGTTCAAAACACCAACTCC------ACTAGGGAAACAAGTTTGAAG--CAAAATTTTAGCCCTACA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198372 60 +  18395747 CAGGTTCAAAACACCAACTCC------ACTAGGGAAACAAGTTTGAAG--CAAAATTTTATCCCTACA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204217 60 +  26952557 CAGGTTCAAAACACCAACTCA------ACTAGGGAAACAAGTTTGAAG--CAAAATTTTATCCCTACA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312047 60 +  82825804 CAGGTTCAAAATACCAACTCA------ACTAGGGAAACAAGTTTGAAG--CAAAATTTTATCCCTACA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976201 60 -   4237731 CAGGTTCAAAACACCAACTTA------ACTAGGGAAACAAGTTTGAAG--CAAAATTGTATCCCTACA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      245930 60 -   1175262 CAGGTTCAAAATACCATCTCA------ACTATGGAAACAAGTTTGAAG--CAAAATTTTATCCCTACA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123579664 60 - 204313951 CAGGTTCAAAATACCAGCTCA------ACCAGGGAAACAAGTTCAAAG--CAAAATTTTATTTCTATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55635438 60 -  71252344 CAGGTTCAAAATACCAGCTCA------ACTAGGGAAACAAGTTCAAAG--CAAAATTTTATTCCTATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1329852 66 -   1400280 CAGGTTCAAAATACCAGCTCAAGTATTACTAGGGAAACAAGTTCGAAG--CAAAATTTTATTCCTATA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13122774 60 -  42888418 CAGGTTCAAAATACCAGCTCA------ACTAGGGAAACATGTTCGAAG--CAAAATTTTATTCCTATA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60495522 60 + 108143057 CAGGTTCAAAATACCAACTCA------AGTAGGAAAACAATTCTGAAG--CGAAATGCTATCCTTACA
i micMur3.chr12            I 1 C 0
s otoGar3.GL873679           3007288 62 +   4132165 CAGGTTCAAAATACTGACTCA------AGGAGAGAAACTAGTCTGAAGCACAAAAGGCTTTCCTTACA
i otoGar3.GL873679         C 0 I 4
s mm10.chr18                55473268 60 +  90702639 CAGGTTCAAAATGCTGACTCA------GCCTGGGAAGCAAGGTTGAGA--CAAAATGCTCTCTCTCTC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14869607 60 +  74389097 CGGGTTCAAAACACTGACTCA------GTGAGGGAAACAAGTTTGGAG--TGAAATGCTATCCTTACA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2560287 57 +   3667625 ---GTTCAAAATATTAACTCA------CCTAGGGAAACAAGTTTAATG--CTAAATGTTATCCATAGA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3525518 58 +  11683526 I

a score=1404153.000000
s hg38.chr5_KI270796v1_alt     20958 82 +    172708 TTCAGTATTG-TTTTACCATTTCCTTTCTATAAATGTTTAATCAAATTTATTCAGAGAGACAGAAGATTTTGATTTTCATCCC
s panTro5.chr5             125131037 82 + 181907262 TTCAGTATTG-TTTTACCATTTCCTTTCTATAAATGTTTAATCAAATTTATTCAGAGAGACAGAAGATTTTGATTTTCATCCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126468015 82 + 183735486 TTCAGTATTG-TTTTACCATTTCCTTTCTATAAATGTTTAATCAAATTTATTCAGAGAGACAGAAGATTTTGATTTTCATCCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1659529 82 +   8933513 TTCAGTATTG-TTTTACCATTTCCTTTCTATAAATGTTTAATCAAATTTATTCGGAGAGACAGAAGATTTTGATTTTCATCCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791293 82 + 163208435 TTCAGTATTG-TTTTACCATTTCCTTTCTATAAATGTTTAATCAAATTTATTCGGAGAGACAGAAGATTTTGATTTTCATCCC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122777033 82 + 180051392 TTCAGTATTG-TTTTACCATTTCCTTTCTATAAATGTTTAATCAAATTTATTCTGAGAGACAGAAGATTTTGATTTTCATCCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124200707 82 + 181584905 TTCAGTATTG-TTTTACCATTTCCTTTCTATAAATGTTTAATCAAATTTATTCTGAGAGACAGAAGATTTTGATTTTCATCCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198432 82 +  18395747 TTCAGTATTG-TTTTACCATTTCCTTTCTATAAATGTTTAATCAAATTTATTCTGAGAGACAGAAGATTTTGATTTTCATCCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204277 82 +  26952557 TTCAGTATTG-TTTTACCATTTCCTTTCTATAAATGTTTAATCAAATTTATTCTGAGAGACAGAAGATTTTGATTTTCATCCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312107 82 +  82825804 TTCAGTATTG-TTTTACCATTTCCTTTCTATAAATGTTTAATCAAATTTATTCTGAGAGACAGAAGATTTTGATTTTCATCCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976261 82 -   4237731 TGCAGTATTG-TTTTACCATTTCCTTTCTATAAATGTTTAATCAAATGTATTCTGAGAGACAGAAGATTTTGATTTTCATCCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      245990 82 -   1175262 TTCAGTATTG-TTTTACCATTTCCTTTCTATAAATGTTTAATCAAATTTATTCTGAGAGACAGAAGATTTTGATTTTCATCCC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123579724 82 - 204313951 TTCAGTATTG-TTTTACCATTTTCTTTCTATAAATGTTTAATCAAATTTATTCTGAGATACAGAAGATTTTGATTTTTATCCC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55635498 82 -  71252344 TTCAATATTG-TTTTACCATTTTCTTTCTATAAATGTTTAATCAAATTTATTCTGAGATATGGAAGATTTTGATTTTTATCCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1329918 82 -   1400280 TTCAGTATTG-TTTTACCATTTTCTTTCTATAAATGTTTAATCAAATTTATTCTGAGATACAGAAGATTTTGATTTTTATCCC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13122834 82 -  42888418 TTCAGTATTG-TTTTACCATTTTCTTTCTATAAATGTTTAATCAAATTTATTCTGAGATACAGAAGATTTTGATTTTTATCCC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60495582 82 + 108143057 TTCAGTATTG-TTTTGCCAATTCCTTTTCATAAATGTTCGACTAAATTTATTCTGAGATAGAAAAGATTTGGATTTTCATCCC
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3525576 82 +  11683526 TTCAGTATTG-TTTTGCCAATTCCTTTTCATAAATGTTTGATCAAATTTATTCTGAGATATAAAAGATTTGGATTTTCATCCC
i proCoq1.NW_012155062v1   I 58 I 1138
s otoGar3.GL873679           3007354 82 +   4132165 GTCAGTACTG-TTTTGCCAATTCCTTTTTATAAATGTTCAATCAAATTTATTCTGTGACACAAAAGATTTTGATTTTCATCCC
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55473328 79 +  90702639 TTCTGCTCCG-CTCCACTGTTTCTGTCTT---AATGGGTAGCCGCATACATTCTGCCAGGCAGATGATTGGGATTGTCATCCC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14869667 81 +  74389097 TTCAATATTGACTTTTCCATTTCCTTTCCATAAATGTTCAATAAAATTTATTCTGAGATAC--AAGATTTTAATTTTCATTTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2560344 82 +   3667625 TTCAGTTTTG-TTATATCACTTCCTTTCTATAAATGTTCAATCAAATTTATTCTGAGATTTAAAATAATTCATTTTTCATTCC
i dasNov3.JH567306         C 0 C 0

a score=478877.000000
s hg38.chr5_KI270796v1_alt     21040 31 +    172708 TCCAGCTTTTCTCTGATATGTGTTTCTACAC
s panTro5.chr5             125131119 31 + 181907262 TCCAGCTTTTCTCTGATATGTGTTTCTACAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126468097 31 + 183735486 TCCAGCTTTTCTCTGATATGTGTTTCTACAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1659611 31 +   8933513 TCCAGCTTTTCTCTGATATGTGTTTCTACAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791375 31 + 163208435 TCCGGCTTTTCTCTGATATGTGTTTCTACAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122777115 31 + 180051392 TCCGGCTTTTCTCTGATACGTGTTTCTACAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124200789 31 + 181584905 TCCGGCTTTTCTCTGATACGTGTTTCTACAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198514 31 +  18395747 TCCGGCTTTTCTCTGATACGTGTTTCTACAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204359 31 +  26952557 TCCGGCTTTTCTCTGATATGTGTTTCTACAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312189 31 +  82825804 TCTGGCTTTTCTCTGATATGTGTTTCTACAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976343 31 -   4237731 TCCGGCTTTTCTCTGATATGTGTTTCTACAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      246072 31 -   1175262 TCCGGCTTTTCTCTGATATGTGTTTCTACAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123579806 31 - 204313951 TCCGGCTTTTCTCTGATATGTGTTTCTACAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55635580 31 -  71252344 TCCGGCTTTTCTCTGATATGTGTTTCTACAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1330000 31 -   1400280 TCCGGCTTTTCTCTGATATGTGTTTCTACAC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13122916 31 -  42888418 TCCGGCTTTTCTCTGATATGTGTTTCTACGC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60495664 31 + 108143057 TCTGGATTTTCACTGATATGAGTTTCCACAC
i micMur3.chr12            C 0 I 140
s otoGar3.GL873679           3007436 31 +   4132165 TCTGGCTCTTCATTGGTCTGGTTTTTCATAC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55473407 31 +  90702639 TCCGGCTTTCCCCTCATCTGTTTCTTCACAC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14869748 30 +  74389097 TCTAG-TTTTCATTGATATGTGTTTCCATGC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2560426 31 +   3667625 TCTGCCTTTTCTTTGATCTGTGTTTCCATAC
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3525658 1138 +  11683526 I

a score=908900.000000
s hg38.chr5_KI270796v1_alt     21071 75 +    172708 ATACAGGGTTTCAGTAGATGCGA-TTTT-AAAAATATA-ATATCAAGTGAACTATACATG--AAAAAAT-TTTACAAAGAA
s panTro5.chr5             125131150 75 + 181907262 ATATGTGGTTTCAGTAGATGCGA-TTTT-AAAAATATA-ATATCAAGTGAACTATACATG--AAAAAAT-TTTACAAAGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126468128 75 + 183735486 ATATGTGGTTTCAGTAGATGCGA-TTTT-AAAAATATA-ATATCAAGTGAACTATACATG--AAAAAAT-TTTACAAAGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1659642 75 +   8933513 ATATGTGGTTTCAGTAGATGCGA-TTTT-AAAAATATA-ATATCAAGTGAACTATACATG--AAAAAAT-TTTACAAAGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791406 75 + 163208435 ATATGTGGTTTCAGCAGATGCGA-TTTT-AAAAATATA-ACATCAAGTGAACTATACATG--AAAAAAT-TTTACAAAGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122777146 74 + 180051392 -TGTGTGGTTTTAGCAGATGCGA-TTTT-AAAAATATA-ATATCAAGTGAACTATACATG--AAAAAAT-TTTACAAAGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124200820 74 + 181584905 -TGTGTGGTTTTAGCAGATGCGA-TTTT-AAAAATATA-ATATCAAGTGAACTATACATG--AAAAAAT-TTTACAAAGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198545 74 +  18395747 -TGTGTGGTTTTAGCAGATGCGA-TTTT-AAAAATATA-ATATCAAGTGAACTATACATG--AAAAAAT-TTTACAAAGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204390 74 +  26952557 -TGTGTGGTTTCAGCAGATGCTA-TTTT-AAAAATATA-ATATCAAGTGAACTATACATG--AAAAAAT-TTTACAAAGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312220 74 +  82825804 -TGTGTGGTTTCAGTAGATGTGA-TTTT-AAAAATATA-ATATCAAGTGAACTATACATG--AAAAAAT-TTTACAAAGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976374 74 -   4237731 -TGTGTGGTTTCAGCAGATGCGA-TTTT-AAAAATATA-ATATGAAGTGAACTATACATG--AAAAAAT-TTTACAAAGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      246103 74 -   1175262 -TGTGTGGTTTCAGCAGATGCGA-TTTT-AAAAATATA-ATATCAAGTGAACTATACATG--AAAGAAT-TTTACAAAGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123579837 75 - 204313951 -TGTGTGGTTTCAGCAGATGAGA-TTTAAAAAAATATA-ATATCAAGTGAACTAGACATG--AAAAAAT-TTTGCAAAGAA
i calJac3.chr2             C 0 M 628
s saiBol1.JH378106          55635611 78 -  71252344 -TGTGTGATTTCAGCAGATGCaa-tttaaaaaaatatatatatCAAGTGAACAAGACGTGAAAAAAAAT-TTTGCAAAGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1330031 75 -   1400280 -TGTGTGGTTTCAGCAGATGTGA-TTTTAAAAAATATA-ACATCAAGTGAACTAGACGTG--AAAAAAT-TTTGCAAAGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13122947 76 -  42888418 -TGTGTGGTTTCAGCAGATGCGATTTTTAAAAAATGTA-ATATCAAGTGAACTAGACATG--AAAAAAT-TTTGCAAAGAA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3007467 74 +   4132165 -TATGTCGTTTCTGCAAATACAA-TTTT-TAATAGGTA-GTATCGAGTGAATTAGACATG--GCAGAAT-TTTATAAAGCT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55473438 68 +  90702639 -TGTGTAGTTTCAGAGGAT--AG-TTTT-TAAGCACTA-ATAGAAAGAGAACTACACATG--ACAGAGT-----AAAAGGA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14869778 71 +  74389097 -CATGTGGTTTCATCAAATATGA-T----TAAAAGATG-GTATCAAATGAGCTATCAATG--GCAAACT-TTTAAAAAGAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2560457 75 +   3667625 -TGTATGGTTTTAGCAGATATGA-TTTT-AAAAAGACA-ATATCAAATAAACTATAAATA--GTAAAATTTTTAAAAAGGA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60495695 140 + 108143057 I
e proCoq1.NW_012155062v1     3525658 1138 +  11683526 I

a score=425384.000000
s hg38.chr5_KI270796v1_alt     21146 36 +    172708 ATGCGGTGGTAATTT--TG--TGCC--AGAGCCATATCTGTG
s panTro5.chr5             125131225 36 + 181907262 ATGCAGTGGTAATTT--TG--TGCC--AGAGCCATACCTGTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126468203 36 + 183735486 ATGCAGTGGTAATTT--TG--TGCC--AGAGCCATACCTGTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1659717 36 +   8933513 ATGCAGTGGTAATTT--TG--TGCC--AGAGCCATATCTGTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791481 36 + 163208435 ATGCAGTGGTAATTT--TG--TGCC--AGAGCCATATCTGTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122777220 36 + 180051392 ATGCAGTAGTAATCT--TG--TGCC--AGAGCCATATCTGTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124200894 36 + 181584905 ATGCAGTGGTAATCT--TG--TGCC--AGAGCCATATCTGTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198619 36 +  18395747 ATGCAGTGGTAATCT--TG--TGCC--AGAGCCATATCTGTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204464 36 +  26952557 ATGCAGTGGTAATCT--TG--TGCC--AGAGCCATATCTGTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312294 36 +  82825804 ATGCAGTGGTAATCT--TG--TGCC--AGAGCCATATGTGTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976448 36 -   4237731 ATGCAGTGGTAATCT--TG--TGCC--AGAGCCGTATCTGTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      246177 36 -   1175262 ATGCAGTGGTAATCT--TG--TGCC--AGAGCCATATCTGTG
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55635689 36 -  71252344 ATGCAGTGGTAATTT--TG--TGCC--AGAGCTGTATCTGAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1330106 36 -   1400280 ATGCAGTGGTAATTT--TG--TGCC--AGAACTATATCTGAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13123023 36 -  42888418 ATGCAGTGGTAATTT--TG--TGCC--AGAGCTGTATCTGAG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3007541 38 +   4132165 ATGGGATGGTAATCTGATA--TGTT--GGAGCCATGTCTGTG
i otoGar3.GL873679         C 0 I 28
s mm10.chr18                55473506 38 +  90702639 AAACGAAGGTAATCT--TGTATGTC--AGAGCCATATCTGTG
i mm10.chr18               C 0 I 27
s canFam3.chr11             14869849 38 +  74389097 ATGTAACGGTAATCT--TA--TATCGTAGGGCTGTGTCTTTG
i canFam3.chr11            C 0 I 28
s dasNov3.JH567306           2560532 38 +   3667625 ATGCAGTAGTTATCT--TGTATATT--AGAGCTCTGTCTGTA
i dasNov3.JH567306         C 0 I 28
e micMur3.chr12             60495695 140 + 108143057 I
e proCoq1.NW_012155062v1     3525658 1138 +  11683526 I
e calJac3.chr2             123579912 628 - 204313951 M

a score=3276843.000000
s hg38.chr5_KI270796v1_alt     21182 231 +    172708 AAAAAT----GTTCAACCATACAAATGTTAACTCTGAAAAAATTTTAAATATTGGGATGTTTTGTCTATACTGTGCTAACCAGCCCCATGGTT-TGAG-TATATGGCTATTCACCCTGTGGAGACAAAGCAGATGGATAA-TTGGCAGCATCATTCATTTTTCTTTAATCTGGATATTCTGCCATCCTGTTGGCAACACCTTTCACCAGCATTTAACAGTCGATACTGGATATAAACT
s panTro5.chr5             125131261 231 + 181907262 AAAAAT----GTTCAACCACACAAATGTTAACTCTGAAAAAATTTTAAATATTGGGATGTTTTGTCTATACTGTGCTAACCAGCCCCATGTTT-TGAG-TATATGGCTATTCACCCTGTGGAGACAAAGCAGATGGATAA-TTGGCAGCATCATTCATTTTTCTTTAATCTGGATATTCTGCCATCCTGTTGGCAACACTTTTCACCAGCATTTAACAGTCGATACTGGATATAAACT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126468239 231 + 183735486 AAAAAT----GTTCAACCACACAAATGTTAACTCTGAAAAAATTTTAAATATTGGGATGTTTTGTCTATACTGTGCTAACCAGCCCCATGTTT-TGAG-TATATGGCTATTCACCCTGTGGAGACAAAGCAGATGGATAA-TTGGCAGCATCATTCATTTTTCTTTAATCTGGATATTCTGCCATCCTGTTGGCAACACTTTTCACCAGCATTTAACAGTCGATACTGGATATAAACT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1659753 231 +   8933513 AAAAAT----GTTCAGCCATACAAACGTTAACTCTGAAAAAATTTTAAATATTGGGATGTTTTGTCTATACTGTGCTAACCAGCCCCATGTTT-TGAG-TATATGGCTATTCACCCTGTGGAGACAAAGCAGATGGATAA-TTGGCAGCATCATTCATTTTTCTTTAATCTGGATATTCTGCCATCCTGTTGGCAACACCTTTCACCAGCATTTAACAGTCAATACTGGATATAAACT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791517 232 + 163208435 AAAAAT----GTTCAACCATACAAATGTTAACTCTGAGAAAATTTTAAATATTGGGATGTTTTGTCTATACTGTGCTAACCAGCCACATGTTT-TGAGTTATATGGCTATTCACCCTGTGTAGACAAAGCAGATGGATAA-TTGGCAGCATCATTCATTTTTCTTTAATCTGGATATTCTGCCATCCTGTTGGCAACACCTTTCACCAGCATTTAACCGTCGATACTGGATATAAACT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122777256 231 + 180051392 AAAAAT----GTTCAACCATACAAATGTTAACTCTGAAAAAATTTTAAATATTGGGATGTTTTGTCTATACTGTGCTAACCAGCCCCATGTTT-TGAG-TATATGGCTGTTCACCCTgtgtagacaaagcagatggataa-ttggcagcatcatacatttttctttaatccagatattctgccatcctgttggcaACACTTTTCACCAGCATTTAATAGTTGATACTGGATATAAACT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124200930 231 + 181584905 AAAAAT----GTTCAACCATACAAATGTTAACTCTGAAAAAATTTTAAATATTGGGATGTTTTGTCTATACTGTGCTAACCAGCCACATGTTT-TGAG-TATATGGCTGTTCACCCTGTGTAGACAAAGCAGATGGATAA-TTGGCAGCATCATACATTTTTCTTTAATCCAGATATTCTGCCATCCTGTTGGCAACACTTTTCACCAGCATTTAATAGTTGATACTGGATATAAACT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198655 231 +  18395747 AAAAAT----GTTCAACCATACAAATGTTAACTCTGAAAACATTTTAAATATTGGGATGTTTTGTCTATACTGTGCTAACCAGCCCCATGTTT-TGAG-TATATGGCTGTTCACCCTgtgtagacaaagcagatggataa-ttggcagcatcatacatttttctttaatccagatattctgccatcctgttggcaACACTTTTCACCAGCATTTAATAGTTGATACTGGATATAAACT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204500 231 +  26952557 AAAAAT----GTTCAACCATACAAATGTTAACTCTGAAAAAATTTTAAATATTGGGATGTTTTGTCTATACTGTGCTAACCAGCCCCATGTTT-TGAG-TATATGGCTGTTCACCCTgtgtagacaaagcagatggataa-ttggcagcatcatacatttttctttaatccagatattctgccatcctgttggcaACACTTTTCACCAGCATTTAATAGTTGATACTGGATATAAACT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312330 231 +  82825804 AAAAAT----GTTCAACCATACAAATGTTAACTCTGAAAAAATTTTAAATATTGGGATGTTTTGTCTATACTGTGCTAACCAGCCCCATGTTT-TGAG-TATATGGCTGTTCACCCTGTGTAGACAAAGCAGATGGATAA-TTGGCAGCATCATACATTTTTCTTTAATCCAGATATTCTGCCATCCTGTTGGCAACACTTTTCACCAGCATTTAATAGTTGATACTGGATATAAACT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976484 231 -   4237731 GAAAAT----GTTCAACCATACAAATGTTAACTCTGAAAAAATTTTAAATATTGGGATGTTTTGTCTATACTGTGCTAACCAGCCCCATGTTT-TGAG-TATATGGCTGTTCACCCTgtgtagacaaagcagatggataa-ttggcagcatcatacatttttctttaatccagatattctgccatcctgttggcaACACTTTTCACCAGCATTTAATAGTTGATACTGGATATAAACT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      246213 231 -   1175262 AAAAAT----GTTCAACCGTACAAATGTTAACTCTGAAAAGATTTTAAATATTGGGATGTTTTGTCTATACTGTGCTAACCAGCCCCATGTTT-TGAG-TATATGGCTATTCACCCTgtgtagacaaagcagatggataa-ttggcagcatcatacattttcctttaatccagatattctgccatcctgttggcaACACTTTTCACCAGCATTTAACAGTTGATACTGGATATAAACT
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55635725 228 -  71252344 AAAAAT----GTTCCACCACACAAGTGTTAACTCTGAAAAAATTTTAAATATTGGAATGTTTTGTCTGTACTGTGCCAACCAGCTCCATGTTT-TAAG-TATATGGCTATTCATCCTGTGTAGACAAAACAGATGGATAATTTGGAAGCATCATTCATTTTTCTTCAATCCAGATGTTCTGCCATCCTGTTGTCA--ACCTTTCACCAGCATTTAACAGTTGATAAT--ACATAAACT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1330142 230 -   1400280 AAAAAT----GTTCAACCGCACAAGTGTTAACTCTGAAAAAATTTTAAATATTGGAATGTTTTGTCTATACTGTgccaaccagctccatgttt-tgag-tatatggctattcatcctgtgtaggcaaaacagatggatgatttggcagcatcattcatttttctttaatccagatgttctgccatcctgtTGTCA--ACCTTTCACCAGCATCTAACAGTTGATACTGAGTATAAACT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13123059 230 -  42888418 AAAGAT----GTTCAACCACACAAGTGTTAACTCCGAAAAAATTTTAAATATTGGAATGTTTTGTCTGTACTGTgccaaccagctccatgttt-tgag-tatatggctattcatcctgtgtagacaaaacagatggataatttggcagcatcattcatttttctttaatccagatgttctgccatcctgtTGTCA--ACCTTTCACCAGCATTTAACAGTTGATACTGAGTATAAACT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60495835 232 + 108143057 AAAAAT----GTTCAATCATCCAGACGTTAACTTTGAAATAATTTTAAATATTGGGATGTTTTGTCTATACTGGGCCAGCCAGCCCAGCgtttctgag-tatatggttgttcatattgtgtagacaacacaggtgggtaatttgacagcatcattcattttt-tctaatccagatgttctgccatcctgttggcaaagcctTTCTATAGCCTTTAACAGTTTATACTTGATAGAAACT
i micMur3.chr12            I 140 C 0
s proCoq1.NW_012155062v1     3526796 232 +  11683526 AAAAAT----GTTCAACCATCCAGATGTTAACTTCGAAAGAACTTTAAATATTGGGATGTTTTTTCTATACCGGGCCAACCGGCCCAGTGTTTCTGAG-TGTATGGTTGTTCATGCTGTGTAGACAACACAGATGGGTAATTTAACAGCATCGTTCATTTTT-TCTAATCCAGATGTTCTGCCATCCTGTTGGCAAAGCCTTTCTACAGTGTTCAACAGTTTATACTTGCTATAAACT
i proCoq1.NW_012155062v1   I 1138 C 0
s otoGar3.GL873679           3007607 235 +   4132165 AAAAATTAAAGTTCAACCATCCAGATGTTAACGTTGAAAGAACTTTAAATATTGGGATGTTTTGTCTACACTGTGCCAACCATCCTGATGTTTTCAAA-TATATGGTTCTTCATACTGTGTAGACAAAACAGATGGATAATTTGACAGGATCATTCATTTTT-TAAAAGGCAGATGTTCTCCCTTCCTGTTGGCAAAGTCTTTCTACAGTGTTAACCAGTTCATACTTGATA-AAACT
i otoGar3.GL873679         I 28 C 0
s mm10.chr18                55473571 220 +  90702639 GGAAAA----GTTCAGCAGCCTAGATGCTAGCGATGACGGACTGCTAAACGTCAG-ATGCTGTATCTATCCCATGCCAACCAGCCCAGAGATTCTGAC-AGTGTGGTAGTGCGCACTGCGTAGACAAAACAGATGGATAATTTGACAATATCACTCATTTCT-TATTATCCAGATGTTCTACCATCCTGTTGACAAAACCTTT-----------AAGAGTTGACACTTGATACTAACT
i mm10.chr18               I 27 C 0
s canFam3.chr11             14869915 228 +  74389097 AAAAAT----GTCCCACTAACCAGATGTTAACGCTGAAGTAACTTTAAATATTGGGACACTTTATCTGTACT-TGCTAACTGGTCCAGTGTTTCTTAG-TATATGACTGTCCATACTCTGTAGACAAAAGAGATGGACAATCTAACAGCACTAATCATTTTTTT---ATCCAGATGTCCTGCCATCGTGTTAGCAAAGCCTTTCCCCGGT-TTTAACAGTTGATACTCAATAGAAACT
i canFam3.chr11            I 28 C 0
s dasNov3.JH567306           2560598 224 +   3667625 AAGAAT----ATTTAACTATCCAGATGTTAGCTTTAAAATAACTTTAAATATTGAGATGTTTTGTCTATACTCTGTTAAATGACCCAGTGTTTCTGAA-AATATGGATGTTCACACAGTGTAGTCAAAACAGATGGATAAGTTGACAGCATCATTCATTTTTTT---ATCCAGATGTTCTGCCATCAT-TTGGCAAAACTTTTCCACAGGCTTTAATGATTCATACTTGATAT-----
i dasNov3.JH567306         I 28 C 0
e calJac3.chr2             123579912 628 - 204313951 M

a score=408592.000000
s hg38.chr5_KI270796v1_alt     21413 36 +    172708 TTAGATCAATATAGTTACATTTGGTAGTTTTCTCTG
s panTro5.chr5             125131492 36 + 181907262 TTAGATCAATATAGTTACATTTGGTAGTTTTCCCTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126468470 36 + 183735486 TTAGATCAATATAGTTACATTTGGTAGTTTTCCCTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1659984 36 +   8933513 TTAGATCAATATAGTTACATTTGGTAGTTTTCCCTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791749 36 + 163208435 GTAGATCAATATAGTTACATTTGGTAGTTTTCCCTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122777487 33 + 180051392 TTAGAGCAATATAGTTACATT--GTAGTTTT-CAGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124201161 36 + 181584905 TTAGAGCAATATAGTTACATTTGGTAGTTTTCCCTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198886 36 +  18395747 TTAGAGCAATATAGTTACATTTGGTAGTTTTCCCTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204731 36 +  26952557 TTAGAGCAATATAGTTACATTTGGTAGTTTTCCCTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312561 36 +  82825804 TTAGAGCAATATAGTTACATTTGGTAGTTTTCCCTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976715 36 -   4237731 TTAGAGCAATATAGTTACATTTGGTAGTTTTCCCTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      246444 36 -   1175262 TTAGAGCAATATAGCTACATTTGGTAGTTTTCCCTG
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55635953 36 -  71252344 TTAGATCAATATAGTTACATTTGGTAGTTTTCCCTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1330372 36 -   1400280 TTAGATCAATATAGTTACATTTGGTAGTGTTCCCTG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13123289 36 -  42888418 TTAGATCAATATAGTTACATTTGGTAGTTTTCCCTG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60496067 36 + 108143057 TTAGATCAGTAAAGTTACATTTGATAGTTTCCCCTG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3527028 36 +  11683526 TTGGATCAGTATAGTTACATTTGGTAGTTTTCCCTG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3007842 23 +   4132165 TTAGATCACTGTAGTTACCTTTG-------------
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55473791 27 +  90702639 TCAAATC----TAGTTAAGTTTGGTGTTTTG-----
i mm10.chr18               C 0 C 0
e canFam3.chr11             14870143  0 +  74389097 C
e dasNov3.JH567306           2560822  0 +   3667625 C
e calJac3.chr2             123579912 628 - 204313951 M

a score=46481.000000
s hg38.chr5_KI270796v1_alt     21449 4 +    172708 AAAA
s panTro5.chr5             125131528 4 + 181907262 AAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126468506 4 + 183735486 AAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1660020 4 +   8933513 AAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791785 4 + 163208435 AAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122777520 4 + 180051392 AAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124201197 4 + 181584905 AAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198922 4 +  18395747 AAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204767 4 +  26952557 AAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312597 4 +  82825804 AAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976751 4 -   4237731 AAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      246480 4 -   1175262 AAAA
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55635989 4 -  71252344 AGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1330408 4 -   1400280 AGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13123325 4 -  42888418 AGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60496103 4 + 108143057 AAAA
i micMur3.chr12            C 0 I 3
s proCoq1.NW_012155062v1     3527064 4 +  11683526 AAAA
i proCoq1.NW_012155062v1   C 0 I 3
s dasNov3.JH567306           2560822 2 +   3667625 --AA
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14870143 0 +  74389097 C
e otoGar3.GL873679           3007865 0 +   4132165 C
e mm10.chr18                55473818 0 +  90702639 C
e calJac3.chr2             123579912 628 - 204313951 M

a score=49317.000000
s hg38.chr5_KI270796v1_alt     21453 9 +    172708 ACTCCTGtt-
s panTro5.chr5             125131532 8 + 181907262 ACTCCTG-t-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126468510 8 + 183735486 ACTCCTG-t-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1660024 8 +   8933513 ACTCCTG-t-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791789 8 + 163208435 ACTCCTG-t-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122777524 8 + 180051392 ACTCCTG-A-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124201201 8 + 181584905 ACTCCTG-A-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198926 8 +  18395747 ACTCCTG-A-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204771 8 +  26952557 CCTCCTG-A-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312601 8 +  82825804 ACTCCTG-A-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976755 8 -   4237731 ACTCCTG-A-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      246484 8 -   1175262 ACTCCTG-A-
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55635993 8 -  71252344 ACTCCTT-A-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1330412 8 -   1400280 ACTCCTT-A-
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13123329 8 -  42888418 ACTCCTT-A-
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2560824 9 +   3667625 ACTTCAG-TT
i dasNov3.JH567306         C 0 I 36
e micMur3.chr12             60496107 3 + 108143057 I
e canFam3.chr11             14870143 0 +  74389097 C
e proCoq1.NW_012155062v1     3527068 3 +  11683526 I
e otoGar3.GL873679           3007865 0 +   4132165 C
e mm10.chr18                55473818 0 +  90702639 C
e calJac3.chr2             123579912 628 - 204313951 M

a score=217307.000000
s hg38.chr5_KI270796v1_alt     21462 54 +    172708 ttt---------ttttttttttttttttttt---------------------------------------------tttgacac---agggtctcactctgtggctcaggc
s panTro5.chr5             125131540 54 + 181907262 ttt---------ttttttttttttttttttt---------------------------------------------tttgacac---agggtctcactctgtggctcaggc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126468518 43 + 183735486 ttt---------ttttttttttgt--------------------------------------------------------acac---agggtctcactctgtggctcaggc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1660032 43 +   8933513 ttt---------tttttttttttg--------------------------------------------------------acac---agggtctcactctgtggctcaggc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791797 84 + 163208435 ttt---------ttttttttgttgtttttttgttgttgttgtttggtttttgttttttttg---------------tgtgacac---agggtctcactctgcggctcaggc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122777532 73 + 180051392 TTT---------tttgtttgtttgtttgttt-----------ttgtttgtttgtttgtttt---------------ttggacac---agggtctcactctgtggctcaggc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124201209 73 + 181584905 TTT---------tttgtttgtttgtttgttt-----------ttgtttgtttgtttgtttt---------------ttggacac---agggtctcactctgtggctcaggc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16198934 73 +  18395747 TTT---------tttgtttatttgtttgttt-----------ttgtttgtttgtttgtttt---------------ttggacac---agggtctcactctgtggctcaggc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204779 82 +  26952557 TTTTtttgtttgtttgtttgtttgtttgttt-----------ttgtttgtttgtttgtttt---------------ttggacac---agggtctcactctgtggctcaggc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312609 55 +  82825804 t---------------------------ttt-----------ttgtttgtttgtttgtttt---------------ttggacac---agggtctcactctgtggctcaggc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976763 73 -   4237731 ttt---------tttttttgtttgtttgttt-----------ttgtttgtttgtttgtttt---------------ttggacac---agggtctcactctgtggctcaggc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      246492 47 -   1175262 Ctt----------------------------------------------tttttttttttt---------------ttggaaaa---agggtctcactctgtggctcaggc
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55636001 41 -  71252344 ttt---------atttat----------------------------------------------------------ttagagac---agggtctcactctgtggctcaggc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1330420 41 -   1400280 ttt---------atttat----------------------------------------------------------ttagagac---agggtctcactctgtagctctggc
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13123337 41 -  42888418 ttt---------atttat----------------------------------------------------------ttagagac---agggtatcactctgtggctcaggc
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55473818 60 +  90702639 --------------------------------------------GGTTGTTTTTTTTTCCCCCTAAAAATCCTGAATTGGGAATTAGAGGGT-------TATGGTTCAGTC
i mm10.chr18               C 0 I 248
e micMur3.chr12             60496107  3 + 108143057 I
e canFam3.chr11             14870143  0 +  74389097 C
e proCoq1.NW_012155062v1     3527068  3 +  11683526 I
e otoGar3.GL873679           3007865  0 +   4132165 C
e dasNov3.JH567306           2560833 36 +   3667625 I
e calJac3.chr2             123579912 628 - 204313951 M

a score=106697.000000
s hg38.chr5_KI270796v1_alt     21516 13 +    172708 tggagtgcagggc
s panTro5.chr5             125131594 13 + 181907262 tggagtgcagggc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126468561 13 + 183735486 tggagtgcagggc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1660075 13 +   8933513 tggagtgcagggc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791881 13 + 163208435 tggagtgcagggc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122777605 13 + 180051392 tggagtgcagtgg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124201282 13 + 181584905 tggagtgcagtgg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16199007 13 +  18395747 tggagtgcagtgg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204861 13 +  26952557 tggaatgcagtgg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312664 13 +  82825804 tggagtgcagtgg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976836 13 -   4237731 tggagtgcagtgg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      246539 13 -   1175262 tggagtgcagtgg
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55636042 13 -  71252344 tggagtgcaatgg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1330461 13 -   1400280 tggagtgcagtgg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13123378 13 -  42888418 tggagtgcagtgg
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60496107  3 + 108143057 I
e canFam3.chr11             14870143  0 +  74389097 C
e proCoq1.NW_012155062v1     3527068  3 +  11683526 I
e otoGar3.GL873679           3007865  0 +   4132165 C
e dasNov3.JH567306           2560833 36 +   3667625 I
e mm10.chr18                55473878 248 +  90702639 I
e calJac3.chr2             123579912 628 - 204313951 M

a score=76250.000000
s hg38.chr5_KI270796v1_alt     21529 8 +    172708 cgtgatca
s panTro5.chr5             125131607 8 + 181907262 catgatca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126468574 8 + 183735486 cgtgatca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1660088 8 +   8933513 cgtgatca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791894 8 + 163208435 cgtgatca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122777618 8 + 180051392 catgatca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124201295 8 + 181584905 cgtgatca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16199020 8 +  18395747 cgtgatca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204874 8 +  26952557 cgtgatcg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312677 8 +  82825804 cgtgatca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976849 8 -   4237731 cgtgatcg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      246552 8 -   1175262 cgtgatca
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55636055 8 -  71252344 tgtgatca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1330474 8 -   1400280 tgtgatca
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13123391 8 -  42888418 tgtgatca
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14870143 8 +  74389097 CGAGATCA
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60496107 3 + 108143057 I
e proCoq1.NW_012155062v1     3527068 3 +  11683526 I
e otoGar3.GL873679           3007865 0 +   4132165 C
e dasNov3.JH567306           2560833 36 +   3667625 I
e mm10.chr18                55473878 248 +  90702639 I
e calJac3.chr2             123579912 628 - 204313951 M

a score=861362.000000
s hg38.chr5_KI270796v1_alt     21537 100 +    172708 tggctca---cagccttaacct-cccgggctcaagtgattctcctactttagcctcccaagtagctgggattacaggtgcacgccaccacactgagctaatttt
s panTro5.chr5             125131615 100 + 181907262 tggctca---cagcctcaacct-cccgggctcaagtgattctcctactttagcctcccaagtagctgggattacaggtgcacgccaccacactgagctaatttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126468582 100 + 183735486 tggctca---cagcctcaacct-cccgggctcaagtgattctcctactttagcctcccaagtagctgggattacaggtgcacgccaccacactgagctaacttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1660096 100 +   8933513 tggctca---cagcctcaacct-cccgggctcaagtgattctcctactttagcctcccaagtagctgggattacaggtgcatgccaccacactgagctaatttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139791902 103 + 163208435 tggctcactgcagcctcaacct-ccacggctcaagtgattctcctactttagcctcccaagtagctgggattacaggtgcatgccaccacactgagctaatttt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122777626 103 + 180051392 tggctcactacagcctcaacct-cctgggctcaagtgattctcctacttcagcctcccaagtagctgggattacaggtgcacaccactacactgagctaatttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124201303 103 + 181584905 tggctcactacagcctcaacct-cccgggctcaagtgattctcctacttcagcctcccaagtagctgggattacaggtgcacaccactacactgagctaatttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16199028 103 +  18395747 tggctcactacagcctcaacct-cccgggctcaagtgattctcctacttcagcctcccaagtagctgggattacgggtgcacaccactacactgagctaatttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204882 103 +  26952557 tggctcactacagcctcaacct-cctgggctccagtgattctcctacttcagcctcccaagtagctgggattacaggtgcacaccactacactgagctaatttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312685 103 +  82825804 tggctcactacagcctcaacct-cctgggctcaagtgattctcctacttcagcctcccaagtagctaggattacaggtgtacaccactacactgagctaatttt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976857 103 -   4237731 tggctcactacagcctcaacct-cccgggctcaagtgattctcctacttcagcctcccaagtagctgggattacaggtgcacaccactacactgagctaatttt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      246560 103 -   1175262 tggctcactgcagcctcaacct-cccgggctcaagtgattctcctacttcagcctcccaagtagctgggattacaggtgcacaccgatacactgagctaatttt
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55636063 102 -  71252344 tggctcactgcagccttaacttccccgggctcaaatgattctcctgcttcaatcttctaagtagctgagattataggtgcacaacact--actgagctaatttt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1330482 101 -   1400280 tggctcactgcagccttaactt-cccaggctcacatgattctcctattttggccttctaagtagctgagattataggtgcacaccact--actgagctaatttt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13123399 101 -  42888418 tggctcactgcagccttaactt-cctggactcaagtgattctcgtacttcagccttctaagtagctgagattataggtgcacaccacc--actgagctaatttt
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60496107   3 + 108143057 I
e canFam3.chr11             14870151   0 +  74389097 C
e proCoq1.NW_012155062v1     3527068   3 +  11683526 I
e otoGar3.GL873679           3007865   0 +   4132165 C
e dasNov3.JH567306           2560833  36 +   3667625 I
e mm10.chr18                55473878 248 +  90702639 I
e calJac3.chr2             123579912 628 - 204313951 M

a score=154302.000000
s hg38.chr5_KI270796v1_alt     21637 20 +    172708 gtattttttgtagaaacggg
s panTro5.chr5             125131715 20 + 181907262 gtattttttgtagaaacggg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126468682 20 + 183735486 gtattttttgtagaaacggg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1660196 20 +   8933513 gtattttttgtagaaacggg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139792005 20 + 163208435 gtattctttgtagaaatggg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122777729 20 + 180051392 gtactttttgtagaaatggg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124201406 20 + 181584905 gtactttttgtagaaatggg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16199131 20 +  18395747 gtactttttgtagaaatggg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5204985 20 +  26952557 gtactttttgtagaaacggg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312788 20 +  82825804 gtactttttgtagaaacggg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976960 20 -   4237731 gtactttttgtagaaacggg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      246663 20 -   1175262 gtattttttgtaggaatgga
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55636165 20 -  71252344 gtaggttttgtagaaatgag
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1330583 20 -   1400280 gtaggttttgtagaaatgag
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13123500 20 -  42888418 gtaggtgttgtagaaatgag
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3007865  9 +   4132165 GTAGTTTTC-----------
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60496107  3 + 108143057 I
e canFam3.chr11             14870151  0 +  74389097 C
e proCoq1.NW_012155062v1     3527068  3 +  11683526 I
e dasNov3.JH567306           2560833 36 +   3667625 I
e mm10.chr18                55473878 248 +  90702639 I
e calJac3.chr2             123579912 628 - 204313951 M

a score=64470.000000
s hg38.chr5_KI270796v1_alt     21657 6 +    172708 gttttg
s panTro5.chr5             125131735 6 + 181907262 gttttg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126468702 6 + 183735486 gttttg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1660216 6 +   8933513 gttttg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139792025 6 + 163208435 gttttg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122777749 6 + 180051392 gttttg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124201426 6 + 181584905 gttttg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16199151 6 +  18395747 gttttg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5205005 6 +  26952557 gttttg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312808 6 +  82825804 gttttg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976980 6 -   4237731 gttttg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      246683 6 -   1175262 gttttg
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55636185 6 -  71252344 gttttg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1330603 6 -   1400280 gttttg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13123520 6 -  42888418 gttttg
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14870151 6 +  74389097 GTATTG
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60496107 3 + 108143057 I
e proCoq1.NW_012155062v1     3527068 3 +  11683526 I
e otoGar3.GL873679           3007874 0 +   4132165 C
e dasNov3.JH567306           2560833 36 +   3667625 I
e mm10.chr18                55473878 248 +  90702639 I
e calJac3.chr2             123579912 628 - 204313951 M

a score=956398.000000
s hg38.chr5_KI270796v1_alt     21663 102 +    172708 ccatgttgcccaggctggtcttgaactcctgagcacaagcaatccacccaccttggcctcccaaagtgctgggattacaggcatgagccaccacacctggTA
s panTro5.chr5             125131741 102 + 181907262 ccatgttgcccaggctggtcttgaactcctgagcacaagcaatccacccaccttggcctcccaaagtgctgggattacaggcacgagccaccacacctggTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126468708 102 + 183735486 ccatgttgcccaggctggtcttgaactcctgagcacaagcaatccacccaccttggcctcccaaagtgctgggattacaggcacgagccaccacacctggTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1660222 102 +   8933513 ccatgttgcccaggctggtcttgaactcctgagcacaagcaatccacccaccttggcctccgaaagtgctaggattacaggcacgagccaccacacctggTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139792031 102 + 163208435 ccatattgcccaggctggtcttgaactcctgagcacaagcaatccacccaccttggcctcccaaagtgctgggattacaggcatgagccaccacacctggTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122777755 102 + 180051392 ccatgttgcccaggctgctcttgaactcctgagcacaagcaatccacccaccttggcctcccaaagtcctgggattacaggcatgagccaccacacctggTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124201432 102 + 181584905 ccatgttgcccaggctgctcttgaactcctgagcacaagcaatccacccaccttggcctcccaaagtcctgggattacaggcatgagccaccacacctggTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16199157 102 +  18395747 ccatgttgcccaggctggtcttgaactcctgagcacaagcaatccacccaccttggcctcccaaagtcctgggattacaggcatgagccaccacacctggTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5205011 102 +  26952557 ccatgttgcccaggctgatcttgaactcctgagcacaagcaatccgcccaccttggcctcccaaagtcctgggattacgggcatgagccaccacaccTCGTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312814 102 +  82825804 ccatgttgcccaggctggtcttgaactcctgagcacaagcaatccacccaccttggcctcccaaagtcctgggattacaggcatgagccaccacacctggTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3976986 102 -   4237731 ccacgttgcccaggctgatcttgaactcctgagcacaagcaatccgcccaccttggcctcccaaagtcctgggattacaggcatgagccaccacacctggTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      246689 102 -   1175262 ccatgttgcccaggctggtcttgacctcctgagcacaagcaatccacccaccttggcctcccaaagtactgggattacaggcatgagccaccacacctggTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123580540 102 - 204313951 ccatgttgcccaggctggtcttgaacttctgagcacaagcaatctacccacatgagccttacaaaatgctgagattacaggcatgagccaccatacccagtc
i calJac3.chr2             M 628 C 0
s saiBol1.JH378106          55636191 102 -  71252344 ccatgttgtccaggctggtcttgaactcctgagcacaagcaatctatgcactttagcctcccaaaatgctgggattacaggcatgagccaccatacctagtc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1330609 102 -   1400280 ccatgttgcccaggctggtcttgaactcctaagtataagcaatctacccgccttagcctcccaaaatgctgggattacagccatgagccaccatacccagtc
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13123526 102 -  42888418 ccatgttgcccaggctggtcttgaactcctgagcacaagcaatctacccaccttagcctcccaaaacgctgggattacaggcatgagccaccatacccagtc
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3007874  11 +   4132165 ---------------------------CCTGAAAA----------------------CTC------------------------------------------
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14870157  34 +  74389097 TTACATT------GATGGTTTT----CCCTGAAAA---------------------------------------------------------ACCCCTGAT-
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60496107   3 + 108143057 I
e proCoq1.NW_012155062v1     3527068   3 +  11683526 I
e dasNov3.JH567306           2560833  36 +   3667625 I
e mm10.chr18                55473878 248 +  90702639 I

a score=21888829.000000
s hg38.chr5_KI270796v1_alt     21765 1335 +    172708 CTGATTTTTAAACTTCCTGAATATTTACCCATAAGTATTCTGAATAAGTAACTATTCTGACATTGTTGAGTAGCTTATGATGTACTGCTAATATGCTGTTAATAGA-GAAAG----------CAAGCTATA-ATGCACAT------ACATAC------------------AT----ATGTATGCCTACATAGA-------------------------------ACACTGTG-GG-TT------TTTTCATTTCATATATAAATCTTATTCCATTAATTAGCTTATA-TATTAATAACT---GATGA-G---TCTTTGACATGtaaataaataa----ataggtaaatac----------------------------------------atacatacatgcataGCCTAAA-----ATTTCACTGTGATACAATTTAATTTCGAGTGTTCTTTT--T-GGA-GTATAC--A---AAAAA-AT---TCCATACCTCAGGCTTATTTGAAATGTAC----TATTTGTTAGGTGACAGTATCTTCATATAATTTTCAAATTCTGAAGAATTATAGC-TTGAGAGATTCTTTTATTCTTCCACAGTAATGACATGCATCACTTAACAGCAGGAATTTTAAACTACGTGTATT--TCTTTGCATTTCTTCACAAGCTCCAACTTAAAATATTATTGTGACAATAAATATCTTTGCTTCAAGGATCCTGCATAAAATGTAAGAGCTTTTAACATGGAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATACACTGTATTAGAATGTTAATTGAGTTTGACATAAGCATGGATATAAAATGCATCATGCCACTCAACTTACCAGCAGTGAAACTGATTACCAATTCTAATCGTTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAACCAATAGAAGTAATTGGTATGCATGTAGGAACTAGCAGGCTGAGCACATCATTTATTTATAGAGCCTTTTGATGTAACTCTTTGGGGGAAAAAGTTAATAAAACATGGCTCAAAGATAAA-TTTACACTCACCACTATAATGTGACATACAGCACAAATTATTGTAC-AAAAAACC-CTGTTTTCTGGTGAGGCATGTTCTTTATCTCTTTTT-AAGCCATTTTGCCAAGGCAAG-AAGGAAAGGACT-----------GGAGGAAAT-AAGAGGTATAC------------------------------------------CGGTATTATTAATTATTTTAAATTTTTCTGAAGCAACTTGT-------------------------------------------------------------------------------------------GAC----------------AATAAAAATCCATGTGCCAACAGAGGGAAGTCATGGG-TATGATATAG--------------CCTTCCTATTTTCTCACGTAAAACAGGTTAT---GTTCTCAAAGGGTGGGTGACTTGTTCACCAACAAGTAGGTATTAGAAGCTGAGAAGGACTAGCA-A-CATATTTGGGAACCAACATGGTGGCCTCCTTTGAAAAGCCAG-
s panTro5.chr5             125131843 1335 + 181907262 CTGATTTTTAAACTTCCTGAATATTTACCCATAAGTATTCTGAATAAGTAAATATTCTGACATTGTTGAGTAGCTTATGATGTACTGCTAATATGCTGTTAATAGA-GAGAG----------CAAGCTATA-ATGCACAT------ACATAC------------------AT----ATGTATGCCTACATAGA-------------------------------ACACTGTG-GG-TT------TTTTCATTTCATATATAAATCTTATTCCATTAATTAGCTTATA-TATTAATAACT---GATGA-G---TCTTTGACATGtaaataaataa----ataggtaaatac----------------------------------------atacatacatacataGCCTAAA-----ATTTCACTGTGATACAATTTAATTTCGAGTGTTCTTTT--T-GGA-GTATAC--A---AAAAA-AT---TCCATACCTCAGGCTTATTTGAAATGTAC----TATTTGTTAGGTGACAGTGTCTTCATATAATTTTCAAATTCTGAAGAATTATAGC-TTGAGAGATTCTTTTCTTCTTCCACAGTAATGACATGCATCACTT-ACAGCAGGAATTTTAAACTACGTGTATT--TCTTTGCATTTCTTCACAAGCTCCAACTTAAAATATTATTGTGACAATAAATATCTTTGCTTCAAGAATCCTGCATAAAATGTAAGAGCTTTTAACATGGAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATACACTGTATTAGAATGTTAATTGAGTTTGACATAAGCATGGATATAAAATGCATCGTGCCACTCAACTTACCAGCAGTGAAACTGATTACCAATTCTAATCGTTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAACCAATAGAAGTAATTGGTATGCATGTAGGAACTAGCAGGCTGAGCACATCATTTATTTATAGAGCCTTTTGATGTAACTCTTTGGGGGGAAAAGTTAATAAAACATGGCTCAAAGATAAATTTTTCACTCACCACTATAATGTGACATACAGCACAAATTATTGTAC-AAAAAACC-CTGTTTTCTGGTGAGGCATGTTCTTTATCCCTTTTT-AAGCCATTTTGCCAAGGCAAG-AAGGAAAGGACT-----------GGAGGAAAT-AAGAGGTATAC------------------------------------------CGGTATTATTAATTATGTTAAATTTTTCTGAAGCAACTTGT-------------------------------------------------------------------------------------------GAC----------------AATAAAAATCCATGTGCCAACAGAGGGAAATCATGGG-TATGATATAG--------------CCTTCCTATTTTCTCACATAAAGCAGGTTAT---GTTCTCAAAGGGTGGGTGACTTGTTCACCAACAAGTAGGTATTAGAAGCTGAGAAGGACTAGCA-A-CATATTTGGGAACCAACATGGTGGCCTCCTTTGAAAAGCCAG-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126468810 1334 + 183735486 CTGATTTTTAAACTTCCTGAATATTTACCCATAAGTATTCTGAATAGGTAACTATTCTGACATTGTTGAGTAGCTTATGATGTACTGCTAATATGCTGTTAATAGA-GAGAG----------CAAGCTATA-ATGCACAT------ACATAC------------------AT----ATGTATGCCTACATAGA-------------------------------ACACTGTG-GG-TT------TTTTCATTTCATATATAAATCTTATTCCATTAATTAGCTTATA-TATTAATAACT---GATGA-G---TCTTTGACATGtaaataaataa----ataggtaaataa----------------------------------------atacatacatacataGCCTAAA-----ATTTCACTGTGATACAATTTAATTTCGAGTGTTATTTT--T-GGA-GTATAC--A---AAAAA-AT---TCCATACCTCAGGCTTATTTGAAATGTAC----TATTTGTTAGGTGACAGTGTCTTCATATAATTTTCAAATTCTGAAGAATTATAGC-TTGAGAGATTCTTTTCTTCTTCCACAGTAATGACATGCATCACTT-ACAGCAGGAATTTTAAACTACGTGTATT--TCTTTGCATTTCTTCACAAGCTCCAACTTAAAATATTATTGTGACAATAAATATCTTTGCTTGAAGAATCCTGCATAAAATGTAAGAGCTTTTAACATGGAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATACACTGTATTAGAATGTTAATTGAGTTTGACATAAGCATGGATATAAAATGCATTGTGCCACTCAACTTACCAGCAGTGAAACTGATTACCAATTCTAATCGTTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAACCAATAGAAGTAATTGGTATGCATGTAGGAACTAGCAGGCTGAGCACATCATTTATTTATAGAGCCTTTTGATGTAACTCTTTGGGGGGAAAAGTTAATAAAACATGGCTCAAAGATAAA-TTTACACTCACCACTATAATGTGACATACAGCACAAATTATTGTAC-AAAAAACC-CTGTTTTCTGGTGAGGCATGTTCTTTATCCCTTTTT-AAGCCATTTTGCCAAGGCAAG-AAGGAAAGGACT-----------GGAGGAAAT-AAGAGGTATAC------------------------------------------CGGTATTATTAATTATGTTAAATTTTTCTGAAGCAACTTGT-------------------------------------------------------------------------------------------GAC----------------AATAAAAATCCATGTGCCAACAGAGGGAAATCATGGG-TATGATATAG--------------CCTTCCTATTTTCTCACATAAAGCAGGTTAT---GTTCTCAAAGGATGGGTGACTTGTTCACCAACAAGTAGGTATTAGAAGCTGAGAAGGACTAGCA-A-CATATTTGGGAACCAACATGGTGGCCTCCTTTGAAAAGCCAG-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1660324 1334 +   8933513 CTGATTTTTAAACTTCCTGAATATTTACCCATAAGTATTCTGAATAAGTAACGATTCTGACATTGTTGAGTAGCTTATGATGTACTGCTAATATGCTGTTAATAGA-GAAAG----------CAAGCTGTA-ATGCACAT------ACATAC------------------AT----ATGTATGCCTACATAGA-------------------------------ACACTGTG-GG-CT------TTTTCATTTCATATATAAATCTTATTCCATTAATTGGCTTATA-TATTAATAACT---GATGA-G---TCTTTGACATGtaaataaataa----ataggtaaatac----------------------------------------atacatacatacataGCCTAAA-----ATTTCACTGTGATACAATTTAATTTCGAGTGTTCTTTT--T-GGA-GTATAC--A---AAAAA-AT---CCCATACCTCGGGCTTATTTGAAATGTAC----TATTTGTTAGGTGACAGTATCTTCATATAATTTTCAAATTCTGAAGAATTATAGC-TTGAGAGATTCTTTTCTTCTTCCACAGTAATGACATGCATCACTT-ACAGCAGGAATTTTAAACTACGTGTATT--TCTTTGCATTTCTTCACAAGCTCCAACTTAAAATATTATTGTGACAATAAATATCTTTGTTTCAAGAATCCTGCATAAAATGTAAGAGCTTTTAACATGGAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATACACTGTATTAGAATGTTAATTGAGTTTGACATAAGCATGGATATAAAATGCATCGTGCCACTCAACTTACCAGCAGTGAAACTGATTACCAATTCTAATCGTTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAACCAATAGAAGTAATTGGTATGCATGTAGGAACTAGCAGGCTGAGCACATCATTTATTTATAGAGTCTTTTGATGTAACTCTATGGGGGAAAAAGTTAATAAAACATGGCTCAAAGATAAA-TTTACACTCACCACTATAATGTGACATACAGCACAAATTATTGTAC-AGAAAACC-CTGTTTTCTGGTGAGGCATGTTCTTTATCCCTTTTT-AAGCCATTTTGCCAAGGCAAG-AAGGAAAGGACT-----------GGAGGAAAT-AAGAGGTATAC------------------------------------------AGGTATTATTAATTATTTTAAATTTTTCTGAAGCAACTTGT-------------------------------------------------------------------------------------------GAC----------------AATAAAAATCCATGTGCCAACAGAGGGAAATCATGGG-TATGATATAG--------------CCTTCCTATTTTCTCACATAAAACAGGTTAT---GTTTTCAAAGGGTGGGTGACTTGTTCACCAACAGGTACGTATTAGAAGCTGAGAAGGACTAGCA-A-CATATTTGGGAACCAATATGGTGGCCTCCTTTGAAAAGCCAG-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139792133 1326 + 163208435 CTGATTTTTAAACTTCCTGAGTATTTACCCATTATTATTCTGAATAAGTAACTATTCTGACATTGTTGAGTAGCTTATGATGTACTGCTAATATGCTGTTAATAGA-GAAAG----------CAAGCTGTA-ATGCACAT------ACATAC------------------AT----ATGTATGCCTACATAGA-------------------------------ACAC--TG-GG-TT------TTTGCATTTCATATATAAATCTTATTCCATTAATTGGCTTATA-TATTAATAACT---GATGA-G---TCTTTGATGTGtaaataagtaa----ataggtaa--------------------------------------------atacatacatacataGCCTAAA-----ATTTCACTGTGATACAATTTAATTTCGAGTGTTCTTTT--T-GGA-GTATAC--A---AAAAATAT---CCCATACCTCAGGCTTATTTGAAATGTAC----TATTTGTTAGGTGACAGTATCTTCATATAATTTTCAAATTCTGAAGAATTATAGC-TTGAGAGATTCTTTTCTTCTTCCACAGTAATGACATGCATCACTT-ACAGCAGGAATTTTAAACTAAGTGTATT--TCTTTGCATTTCTTCAGAAGCTCCAACTTAAAATATTATTGTGACAATAAATATCTTTGCTTCAAGAATCCTGCATAAAATGTAAGAGCTTTTAACATGGAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTG-AATACACTGTGTTAGAATGTTAATTGAGTTTGACATAAGCATGGATATAAAATGCATCGTGCCATTCAACTTACCAGCAGTGAAACTGATTACCAATTCTAATCGTTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTCTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAACCAATAGAAGTAATTCGTATGCATGTAGGAACTAGCAGGCTGAGCACATCATTTATTTATAGAGTCTTTTGATGTAACTCTATGGGGG-AAAAGTTAATAAAACATGGCTCAAAGATAAA-TTTACACTCACCACTATAATGTGACATACAGCACAAATTACTGTAC-AAAAAAAC-CTGTTTTCTGGTGAGGCATGTTCTTTATCCCTTTTT-AAGCCATTTTGCCAAGGCAAG-AAGGAAAGGACT-----------GGAGGAAAT-AAGAGGTATAC------------------------------------------AGGTATTATTAATTATTTTAAATTTTTCTGAAGCAACTTGT-------------------------------------------------------------------------------------------GAC----------------AATAAAAATCCATGTGCCAACAGAGGGAAATCATGGG-TATGATATAG--------------CCTTCCTATTTTCTCACATAAAACAGGTTAT---GTTCTCAAAGGGTGGGTGACTTGTTCACCAACAAGTAGGTATTAGAAGCTGAGAAGGACTAGCA-A-TATATTTGGGAACCAACAT-GTGGCCTCCTTTGAAACGCCAG-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122777857 1330 + 180051392 CTGATTTTTAAACTTCCTGAATATTTACCCATTATTATTCTGAATAAGTAACTATTCTGACATTGTTGAGTAGCTTACTATGTACTGCTAATATGCTGTTAATAGA-GAAAG----------CAAGCTGTA-ATGCACAT------ACATAC------------------AT----ACGTGGGCCTACACAGA-------------------------------ACATTGTG-GG-TT------TTTTCATTTCATATATAAATATTATTCCATTAATTGGCTTAGG-TATTGATAACT---GATGA-G---TCTTTGACATGtaaataaataa----ataggaaa--------------------------------------------atacatacatacatCACCTAAA-----ATTTCACTCAGATACAATTTAATTTCGAGTGTTCTTTT--T-GGA-GTATAC--A---AAAAATAT---CCCATACCTCAGGCTTATTTGAAATGTAT----TATTTGTTAGGTGACAGTATCTTCATATAATTTTCAAATTCTGAAGAATTATAGC-TTGAGAGATTCTTTTCTTCTTCCACAGTAATGACATGCATCACTT-ACAGCAGGAATTTTAAACTAACTGTATT--TCTTTGCATCTCTTCAGAAGCTCCAACTTAAAATATTATTGTGACAGTAAATATCTTTGCTTCAAGAATCCTGCATGAAATGTAAGAGCTTTTAACATGGAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATATACTGTGTTAGAATGTTAATTGAGTTTGACATAAGCATGGATATAAAATGCATCGTGCCACTCAACTTACCAGCAGTGAAACTGATTACCAATTCTAATCATTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAATCAATAGAAGTAATTGGTATGCATGTAGGAACTAGCAGACTGAGCACATCATTTATTTATAGAGTCTTTTGATGTAACTCTATGGGGG-AAAAGTTAATAAAACATGGCTCAAAGATAAA-TTTACACTCACCACTATAATGTGACATACAGCACAAATTATTGTACCAAAAAAAC-CTGTTTTCTGGTGAGGCATGTTCTTTATCCCTTTTT-AAGTCATTTTGCCAAGGCAAC-AAGGAAAGGACT-----------GGAGGAAAT-AAGAGGTATAC------------------------------------------AGGTATTATTAATTATTTTAAATTTTTCTGAAGCAACTTGT--------------------------------------------------------------------------------------------AC----------------AATTAAAATCCATGCGCCAACAGAGAGAAATCACGGG-TATGATATAG--------------CCTTCGTATTTTCTCACATAAAACAGGTTAT---GTTCTCAAAGGGTGGGTGGCTTGTTCACCAACAAGTAGGTATTAGAAGCTGAGAAGGACTAGCA-A-CATATTTGGGAACCAACATGGTGGCCTCCTTTGAAAGGCCAG-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124201534 1330 + 181584905 CTGATTTTTAAACTTCCTGAATATTTACCCATTATTATTCTGAATAAGTAACTATTCTGACATTGTTGAGTAGCTTACTATGTACTGCTAATATGCTGTTAATAGA-GAAAG----------CAAGCTGTA-ATGCACAT------ACATAC------------------AT----ACGTGGGCCTCCACAGA-------------------------------ACATTGTG-GG-TT------TTTTCATTTCATATATAAATCTTATTCCATTAATTGGCTTAGG-TATTGATAACT---GATGA-G---TCTTTGACATGtaaataaataa----ataggaaa--------------------------------------------atacatacatacatCACCTAAA-----ATTGCACTCAGATACAATTTAATTTCGAGTGTTCTTTT--T-GGA-GTATAC--A---AAAAATAT---CCCATACCTCAGGCTTATTTGAAATGTAT----TATTTGTTAGGTGACAGTATCTTCATATAATTTTCAAATTCTGAAGAATTATAGC-TTGAGAGATTCTTTTCTTCTTCCACAGTAATGACATGCATCACTT-ACAGCAGGAATTTTAAACTAAGTGTATT--TCTTTGCATCTCTTCAGAAGCTCCAACTCAAAATATTATTGTGACAGTAAATATCTTTGCTTCAAGAATCCTGCATGAAATGTAAGAGCTTTTAACATGGAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATATACTGTGTTAGAATGTTAATTGAGTTTGACATAAGCATGGATATAAAATGCATCGTGCCACTCAACTTACCAGCAGTGAAACTGATTACCAATTCTAATCATTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAATCAATAGAAGTAATTGGTATGCATGTAGGAACTAGCAGACTGAGCACATCATTTATTTATAGAGTCTTCTGATGTAACTCTATGGGGG-AAAAGTTAATAAAACATGGCTCAAAGATAAA-TTTACACTCACCACTATAATGTGACATACAGCACAAATTATTGTACCAAAAAAAC-CTGTTTTCTGGTGAGGCATGTTCTTTATCCCTTTTT-AAGTCATTTTGCCAAGGCAAC-AAGGAAAGGACT-----------GGAGGAAAT-AAGAGGTATAC------------------------------------------AGGTATTATTAATTATTTTAAATTTTTCCGAAGCAACTTGT--------------------------------------------------------------------------------------------AC----------------AATTAAAATCCATGCGCCAACAGAGAGAAATCACGGG-TATGATATAG--------------CCTTCGTATTTTCTCACATAAAACAGGTTAT---GTTCTCAAAGGGTGGGTGGCTTGTTCACCAACAAGTAGGTATTAGAAGCTGAGAAGGACTAGCA-A-CATATTTGGGAACCAACATGGTGGCCTCCTTTGAAAGGCCAG-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16199259 1330 +  18395747 CTGATTTTTAAACTTCCTGAATATTTACCCATTATTATTCTGAATAAGTAACTATTCTGACATTGTTGAGTAGCTTACTATGTACTGCTAATATTCTGTTAATAGA-GAAAG----------CAAGCTGTA-ATGCACAT------ACATAC------------------AT----ACGTGGGCCTCCACAGA-------------------------------ACATTGTG-GG-TT------TTTTCATTTCATATATAAATCTTATTCCATTAATTGGCTTAGG-TATTGATAACT---GATGA-G---TCTTTGACATGtaaataaataa----ataggaaa--------------------------------------------atacatacatacatCACCTAAA-----ATTTCACTCAGATACAATTTAATTTCGAGTGTTCTTTT--T-GGA-GTATAC--A---AAAAATAT---CCCATACCTCAGGCTTATTTGAAATGTAT----TATTTGTTAGGTGACAGTATCTTCATATAATTTTCAAATTCTGAAGAATTATAGC-TTGAGAGATTCTTTTCTTCTTCCACAGTAATGACATGCATCACTT-ACAGCAGGAATTTTAAACTAAGTGTATT--TCTTTGCATCTCTTCAGAAGCTCCAACTTAAAATATTATTGTGACAGTAAATATCTTTGCTTCAAGAATCCTGCATGAAATGTAAGAGCTTTTAACATGGAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATATACTGTGTTAGAATGTTAATTGAGTTTGACATAAGCATGGATATAAAATGCATCGTGCCACTCAACTTACCAGCAGTGAAACTGATTACCAATTCTAATCATTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAATCAATAGAAGTAATTGGTATGCATGTAGGAACTAGCAGACTGAGCACATCATTTATTTATAGAGTCTTTTGATGTAACTCTATGGGGG-AAAAGTTAATAAAACATGGCTCAAAGATAAA-TTTACACTCACCACTATAATGTGACATACAGCACAAATTATTGTACAAAAAAAAC-CTGTTTTCTGGTGAGGCATGTTCTTTATCCCTTTTT-AAGTCATTTTGCCAAGGCAAC-AAGGAAAGGACT-----------GGAGGAAAT-AAGAGGTATAC------------------------------------------AGGTATTATTAATTATTTTAAATTTTTCTGAAGCAACTTGT--------------------------------------------------------------------------------------------AC----------------AATTAAAATCCATGCGCCAACAGAGAGAAATCACGGG-TATGATATAG--------------CCTTCGTATTTTCTCACATAAAACAGGTTAT---GTTCTCAAAGGGTGGGTGGCTTGTTCACCAACAAGTAGGTATTAGAAGCTGAGAAGGACTAGCA-A-CATATTTGGGAACCAACATGGTGGCCTCCTTTGAAAGGCCAG-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5205113 1332 +  26952557 CTGATTTTTAAACTTCCTGAATATTTACCCATTATTATTCTGAATAAGTAACTATTCTGACATTGTTGAGTAGCTTACTATGTACTGCTAATATGCTGTTAATAGA-GAAAG----------CAAGCTGTA-ATGCACAT------ACATAC------------------AT----ACGTGGGCCTACACAGA-------------------------------ACATTGTG-GG-TT------TTTTCATTTCATATATAAATCTTATTCCATTAATTGTCTTAGG-TATTGATAACT---GATGA-G---TCTTTGACATGtaaataaataa----ataggaaa--------------------------------------------atacatacatacatCACCTAAA-----ATTTCACTCAGATACAATTTAATTTCGAGTGTTCTTTT--T-GGA-GTATACAAA---AAAAAAAT---CCCATACCTCAGGCTTATTTGAAATGTAT----TATTTGTTAGGTGACAGTATCTTCATATAATTTTCAAATTCTGAAGAATTATAGC-TTGAGAGATTCTTTTCTTCTTCCACAGTAATGACATGCATCACTT-ACAGCAGGAATTTTAAACTAAGTGTATT--TCTTTGCATCTCTTCAGAAGCTCCAACTTAAAATATTATTGTGACAGTAAATATCTTTGCTTCAAGAATCCTGCATGAAATGTAAGAGCTTTTAACATGGAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATATACTGTGTTAGAATGTTAATTGAGTTTGACATAAGCATGGATATAAAATGCATCGTGCCACTCAACTTACCAGCAGTGAAACTGATTACCAATTCTAATCGTTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAATCAATAGAAGTAATTGGTATGCATGTAGAAACTAGCAGACTGAGCACATCATTTATTTATAGAGTCTTTTGATGTAACTCTATGGGGG-AAAAGTTAATAAAACATGGCTCAAAGATAAA-TTTACACTCACCACTATAATGTGACATACAGCACAAATTATTGTACAAAAAAAAC-CTGTTTTCTGGTGAGGCATGTTCTTTATCCCTTTTT-AAGTCATTTTGCCAAGGCAAC-AAGGAAAGGACT-----------GGAGGAAAT-AAGAGGTATAC------------------------------------------AGGTGTTATTAATTATTTTAAATTTTTCTGAAGCAACTTGT--------------------------------------------------------------------------------------------AC----------------AATTAAAATCCATGCGCCAACAGAGAGAAATCACAGG-TATGATATAG--------------CCTTCGTATTTTCTCACATAAAACAGGTTAT---GTTCTCAAAGGGTGGGTGGCTTGTTCACCAACAAGTAGGTATTAGAAGCTGAGAAGGACTAGCA-A-CATATTTGGGAACCAACATGGTGGCCTCCTTTGAAAGGCCAG-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28312916 1330 +  82825804 CTGATTTTTAAACTTCCTGAATATTTACTCATTATTATTCTGAATAAGTAACTATTCTGACATTGTTGAGTAGCTTACTATGTCCTACTAATATGCTGTTAATAGA-GAAAG----------CAAGCTGTA-ATGCACAT------ACATAC------------------AT----ACGTGGGCCTATACAGA-------------------------------ACATTGTG-GG-TT------TTTTCATTTCATATATAAATCTTATTCCATTAATTGGCTTAGG-TATTGATAACT---GATGA-G---TCTTTGACATGtaaataaataa----ataggaaa--------------------------------------------atacatacatatatCACCTAAA-----ATTTCACTCAGATACAATTTAATTTCGAGTGTTCTTTT--T-GGA-GTATAC--A---AAAAATAT---CCCATACCTCAGGCTTATTTGAAATGTAT----TATTTGTTAGGTGACAGTATCTTCATATAATTTTCAAATTCTGAAGAATTATAGC-TTGAGAGATTCTTTTCTTCTTCCACAGTAATGACATGCATCACTT-ACAGCAGGAATTTTTAACTAAGTGTATT--TCTTTGCATCTCTTCAGAAGCTCCAACTTAAAATATTATTGTGACAGTAAATATCTTTGCTTCAAGAATCCTGCATGAAATGTAAGAGCTTTTAACATGGAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATATACTGTGTTAGAATGTTAATTGAGTTTGACATAAGCATGGGTATAAAATGCATCGTGCCACTCAACTTACCAGCAGTGAAACTGATTACCAATTCTAATCGTTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAATCAATAGAAGTAATTGGTATGCATGTAGGAACTAGCAGGCTGAGCACATCATTTATTTATAGAGTCTTTTGATGTAACTCTATGGGGGAAAAAGTTAATAAAACATGGCTCAAAGATAAA-TTTACACTCACCACTATAATGTGACATATAGCACAAATTATTGTACAAAAAAAAC-CTGTTTTCTGGTGAGGCATGTTCTTTATCCCTTTTT-AAGTCATTTTGCCAAGGCAAC-AAGGAAAGGACT-----------GGAGGAAAT-AAGAGGTATAC------------------------------------------AGGTATTATTAATTATTTTAAATTTTTCTGAAGCAACTTGT--------------------------------------------------------------------------------------------AC----------------AATTAAAATCCATGCGCCAACAGAGAGAAATCACGGG-TATGATATAG--------------CCTTCGTATTTTCTCACATAAAACAGGTTAT---GTTCTCAAAGGGTGGGTGACTTGTTTACCAACAAGTAGGTATTAGAAGCTGAGAAGGACTAGCA-A-CATATTTGGGAACCAACATGGTGGCCT-CTTTGAAAGGCCAG-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3977088 1332 -   4237731 CTGATTTTTAAACTTCCTGAATATTTACCCATTATTATTCTGAATAAGTAACTATTCTGACATTGTTGAGTAGCTTACTATGTACTGCTAATATGCTGTTAATAGA-GAAAG----------CAAGCTGTA-ATGCACAT------ACATAC------------------AT----ACGTGGGCCTACACAGA-------------------------------ACATTGTG-GG-TT------TTTTCATTTCATATATAAATCTCATTCCATTAATTGGCTTAGG-TATTGATAACT---GATGA-G---TCTTTGACATGtaaataaataa----ataggaaa--------------------------------------------atacatacatacatCACCTAAA-----ATTTCACTCAGATACAATTTAATTTCGAGTGTTCTTTT--T-GGA-GTATACAAA---AAAAATAT---CCCATACCTCAGGCTTATTTGAAATATAT----TATTTGTTAGGTGACAGTATCTTCATATAATTTTCAAATTCTGAAGAATTATAGC-TTGAGAGATTCTTTTCTTCTTCCACAGTAATGACATGCATCACTT-ACAGCAGGAATTTTAAACTAAGTGTATT--TCTTTGCATCTCTTCAGAAGCTCTAACTTAAAATATTATTGTGACAGTAAATATCTTTGCTTCAAGAATCCTGCATGAAATGTAAGAGCTTTTAACATGGAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATATACTGTGTTAGAATGTTAATTGAGTTTGACATAAGCATGGATATAAAATGCGTCGTGCCACTCAACTTACCAGCAGTGAAACTGATTACCAATTCTAATCGTTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCATGGTTGCTTAAAGTACTGACTACGTGTTTTGAAATCAATAGAAGTAATTGGTATGCATGTAGGAACTAGCAGACTGAGCACATCATTTATTTATAGAGTCTTTTGATGTAACTCTATGGGGG-AAAAGTTAATAAAACATGGCTCAAAGATAAA-TTTACACTCACCACTATAATGTGACATACAGCACAAATTATTGTACAAAAAAAAC-CTGTTTTCTGGTGAGGCATGTTCTTTATCCCTTTTT-AAGTCATTTTGCCAAGGCAAC-AAGGAAAGGACT-----------GGAGGAAAT-AAGAGGTATAC------------------------------------------AGGTGTTATTAATTATTTTAAATTTTTCTGAAGCAACTTGT--------------------------------------------------------------------------------------------AC----------------AATTAAAATCCATGCGCCAACAGAGAGAAATCACGGG-TATGATATAG--------------CCTTCGTATTTTCTCACATAAAACAGGTTAT---GTTCTCAAAGGGTGGGTGGCTTGTTCACCAACAAGTAGGTATTAGAAGCTGAGAAGGACTAGCA-A-CATATTTGGGAACCAACATGGTGGCCTCCTTTGAAAGGCCAG-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      246791 1327 -   1175262 CTGATTTTTAAACTTCCTGAATATTTACCCATTATTATTCTGAATGAGTAACTATTCTGACATTGTTGAGTAGCTTACTATGTACTGCTAATATGCTGTTAATAGA-GAAAG----------CAAGCTGTA-ATGCACAT------ACATAC------------------AT----ACGTGGGCCTACACAGA-------------------------------ACATTGTG-GG-TT------TTTTCATTTCATATATAAATCTTATTCCATTAATTGGCTTATG-TATTGATAACT---GATGA-G---TCTTTGACATGtaaataaataa----ataggaaa--------------------------------------------atacatacatacatCACCTAAA-----ATTTCACTCAGATACAATTTAATTTTGAGTGTTCTTTT--T-GGA-GTATAC--A---AAAAATAT---CCCATACCTCAGGCTTATTTGAAATGTAT----TATTTGTTAGGTGGCAGTATGTTCATATAATTCTCAAATTCTGAAGAATTATAGC-TTGAGAGA-----TTCTTCTTCCACAGTAATGACATGCATCACTT-ACAGCAGGAATTTTAAACTAAGTGTATT--TCATTGCATTTCTTCAGAAGCTCCAACTTAAAATATTATTGTGACAGTAAATATCTTTGCTTCAAGAATCCTGCATGAAATGTAAGAGCTTTTAACATGGAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATATACTGTGTTAGAATGTTAATTGAGTTTGACATAAGCATGGATATAAAATGCATCGTGCCACTCAGCTTACCAGCAGTGAAACTGATTACCAATTCTAATCGTTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAATCAATAGAAGTAATTGGTATGCATGTAGGAACTAGCAGGCTGAGCACATCATTTATTTATAGAGTCTTTTGATGTAACTCTATGGGGGAAAAAGTTAATAAAACATGGCTCAAAGATAAA-TTTACACTCACCACTATAATGTGACATACAGCACAAATTATTGTACCAAAAAAACTCTGTTTTCTGGTGAGGCATGTTCTTTATCCGTTTTT-AAGTCATTTTGCCAAGGCAAC-AAGGAAAGGACT-----------GGAGGGAAT-AAGAGGTATAC------------------------------------------AGGTATTATTAATTATTTTAAATTTTTCTGAAGCAACTTGT--------------------------------------------------------------------------------------------AC----------------AATTAAAATCCATGCGCCAACAGAGAGAAATCATGGG-TATGATATAG--------------CCTTCCTATTTTCTCACATAAAACAGGTTAT---GTTCTCAAAGGATGGGTGACTTGTTCACCAACAAGTAGGTATTAGAAGCTGAGAAGGACTAGCA-A-TATATTTGGGAACCAACATGGTGGCCTCCTTTGAAAGGCCGG-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123580642 1327 - 204313951 CTGATTTTTGAACTTCCTGAATATTTACCCTTTATTATTCTGAATAAGTAGCTATTTTGACATTGTTGAGTAGCTTATTATGTACTGCTAATATGCCGTTAATAGA-GAAAG----------CAAGCTATA-ATGCACTT------ACATCC------------------AT----ATGTATGCCTACATAGA-------------------------------ATATTGTG-TG-TT------TTTTCATTTCATTTAT--GTCTTACTCCATTAATTGGCTTATG-TATTAATATCT---GATGA-G-----CGTGACATGTAAATAAATAA----ATAGGTAA--------------------------------------------ATTCATACATACATAACCTAAA-----ATTTCACTCTGATACAATTTAATTTCAAGTATTCATTT--T-GGA-GTACAT--GCACAAAAAAAT---CCCATACCTCAGGCTTA-TTGAAATGTAT----TATTTCTTAGGTGACAGTATCTTCATATAATTTTAAAATTCTGAAGAATTATAGC-TTGAGAGATTCTTTTCTTCTTCCACTGTAATGACATGCATCACTT-ACAGTAGGAATTTCAAACCAAATCTATT--TCTTTGCATTTCTTCAGAAGATTCAACTTAAAATATTATTGTGACAATAAATATCTTTGCTCCAAGAATCCTGCATAAAATGTAAGAGCTTTTAACATGAAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATATACTGTGTTAGAATGTTAATTGAGTTTGACATAAGCATGGATATAAAATGCATCGTGCCACTCAACTTACCAGCAATGAAACTGATTACCAATTCTAATCATTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAACCAATAGAAGTAATTGGTATGCATGTAGAAACTAGCAGGCTGAGCACATCATTTATTTATAGAGTCTTTTGATGTAACTCTATGGGGG-AAAAGTTAATAAAACATGGCTCAAAGATAAA-TTTACACTCACCACTATAATGTGACACACAGCACAAATTATTGTACAAAAAAACC-CTGTTTTCTGGTGAGGCGTGTTCTTTATCCCTTTTT-AAGCTATTTCACCAAGGCAAG-ATGGAAAGGACT-----------GGAGGAAAC---GAGGTATTC------------------------------------------AGGtattattaattattttaaatttttCGGAAGCAACTTCT-------------------------------------------------------------------------------------------GAC----------------AATAAACATCCATGTGCCGATAGAGACAAATCAGGGG-TATGATAGAG--------------CCTTCCTATTTTCTCACAAAAAACAGGTTAT---GCCCTCGAAAGGTGGGTGACTTGTTCACCAACACCTAGGTATTAGAAGCTGAGAAGGACTAGCA-A-CATATTTGAGAACCAGCATGGTGGCCTCCTTTGAAAGGTCAG-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55636293 1378 -  71252344 CTGATTTTTGAACTTCCTGAATATTTACCCATTATTATTCTGAATAAGTAGCTATTTTGGCGTTGTTGAGTAGCTTATTATGGACTGCTAATATGCCATTAATAGA-GAAAG----------CAAGCTATA-ATGAACTT------ACATAC------------------AT----GTGTATGCCTACATAGA-------------------------------ATATTGTG-GG-TG------TTTTCATTTCATTTATAAATCTTATTCCCTTAATTGGCTTATG-TATTAATATCT---GATAA-G-----TGTGACATGtaaataaataaatagataggtaa--------------------------------------------atacatacatacataaCCTAAA-----ATTTCACTCTGATAGAATTTAATTTCAAGTATTCATTT--T-GGA-GTACAC--ACACAAAAACAT---CCCATACCTCAGGCTTA-TTGAAATGTAT----TATTTCTTAGGTGACAGTATCTTCATATAATTTTAAAATTCTGAAGAATTATAGC-TTGAGAGATTCTTTTCTTCTTCCACTGTGATGACATGCATCACTT-ACAGTAGGAATTTTAAACCAAGTTTATT--TCTTTGCATTTCTTCGGAAGATTCAACTTAAAATATTATTGTGACAATAAATACCTTTGCTACAAGAATCCTGCATAAAATGTAAGAGCTTTTAACATGAAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATATGCTGTGTTAGAATGTTAATTGAGTTTGACATAAGCATGGATATGAAATGCATCGTGCCACTCAACTTACCAGCAGTGAAACTGATTACCAATTCTAATCGTTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAACCAATAGAAGTAATTGGTATGCATGTAGGAACTAGCAGGCTGAGCACATCATTTATTTATAGAGTCTTTTGATGTAACTCTGTGGGGGAAAAAGTTAATAAAACATGGCTCGAAGATAAA-TTTACACTCACCACTACAATGTGACATACAGCACAAATTATTGTACAAAAAAACC-CTGTTTTCTGGTGAGGCGTGTTCTTTATCCCTTTTT-AAGCTATTTCACCAAGGCAAG-AAGGAAAGGACT-----------GGAGGAAGC-AAGAGGTCTTCCTATTTCACCAAGGCAAGAAGGAAAGGACTGGAGGAAGCAAGAGGTGttattaattattttaaatttttCTGAAGCAACTTCT-------------------------------------------------------------------------------------------GAC----------------AATAAACATCCATGTGCCAACAGAGAGAAATTAGGGG-TATGATATAA--------------CCTTCCTATTTTCTCACATAAAATAGGTTAT---GCCCTCAAAAGGTGGGTGGCTTGTTCACCAACAACTAGGTATTAGAAGCTGAGAAGGACCAGCA-A-CCTACTTGAGAACCAACATGGTGGGCTCCTTTGAAAGGTCAG-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1330711 1325 -   1400280 CTGATTTTTGAACTTCCTGAATATTTACCCATTATTAGTCTGAATAAGTAGCTATTTTGACGTTGTTGAGCAGCTTATTATGTACTGCTAATATGCCATTAATAGA-GAAAG----------CAAGCTGTA-ATGCACTT------AAATAC------------------AT----ATGTATGCCTACATAGA-------------------------------ATATTGTG-GG-TT------TTTTCATTTCATTTATAAATCTTATTCCATTAGTTGGCTTATG-TATTAATATCT---GATAA-G-----TGTGAGATGtaaataaataa----ataggtaa--------------------------------------------atacatacatacataaCCTAAA-----ATTTCACTCTGATGCAATTTAATTTCAAGTATTCATTT--T-GGA-GTACAC--GCACAAAAAAAT---CCCATACCTCAGGCTTA-TTGAAATGTAT----TATTTCTTAGGTGACAGTATCTTCAAATAATTGTAAAATTCTGAAGAATTATAGT-TTGAGAGATTCTTTTCTTCTTCCACTGTAATGACATGCATCACTT-ACAGTAGGAATTTTAAACCAAGTATATT--TCTTTGCATTTCTTCAGAAGATTCAAATTAAAATATTATTGTGACAATAAATATCTTTGCTCCAAGAATCCTGCATAAAATGTAAGAGCTTTTAACATGAAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATATACTGTGTTAGAATGTTAATTGAGTTTGACATAAGCATGGATATAAAATGCATCGTGCCACTCAACTTACCAGCAGTGAAACTGATTACCAATTCTAATCGTTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAACCAATAGAAGTAATTGGTATGCATGTAGGAACTAGCAGGCTGAGCACATCATTTATTTATAGAGTCTTTTGATGTAACTCTATGGGGGAAAAAGTTAATAAAACATGGCTCAAAGATAAA-TTTACACTCACCACTATAATGTGACATACAGCACAAATTATTGTACAAAAAAACC-CTGTTTTCTGGTGAGGCGTGTTCTTTATCCCTTTTT-AAGCTATTTCACCAAGGCAAG-AAGGAAAGGACT-----------GGAGGAAAC-AAGAGGTCTTC------------------------------------------AGGT-------ATTATTTTAAATTTTTCTGAAGCAACTTCT-------------------------------------------------------------------------------------------GAC----------------AGTAAACATCCATGTGCCAACAGAGAGAAATCAGGGG-TATGATATAG--------------CCTTCCTATTTTCTCATATAAAATAGGTTAT---GCCCTCGAAAGGTGGGTGACTTATTCACCAACAACTAGGTATTAGAAGCTGAGAAGGACTAGCA-A-CATATTTGAGAACCAACATGGTGGCCTCCTTTGAAAGGTCAG-
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13123628 1331 -  42888418 CTGATTTTTGAACTTCCTGAATATTTACCCATTATTATTCTGAATAAGTAGCTATTTTGACGTTGTTGAGTAGCTTATTATGTACTGCTAATATGCTGTTAATAGA-GAAAG----------CAAGCTGTA-ATGCACTT------ACATAC------------------AT----ATGTATGCCTACATAGA-------------------------------ATATTGTG-GG-TT------TTTTCATTTCATTTATAAATATTATTCCATTAATTGGCTTATG-TATTAATATCT---GATGT-G-----TGTGACacgtaaataaataa----ataggtaa--------------------------------------------atgcatacatacataACCTAAA-----ATTTCACTCTGATACAATTTAATTTCAAGTGTTCATTT--T-GGA-GTACAT--GCACAAAAA-AT---CCCATACCTCAGGCTTA-TTGAAATGTAT----TATTTGTTAGGTGACAGTATCTTCATATAATTTAAAAATTCTGAAGAATTATAGC-TTGAGAGATTCTTTTCTTCTTCCACTGTAATGACATGCATCACTT-ACAGTAGGAATTTTAAACCAAGTATATT--TCTTTGCATTTCTTCAGAAGATTCAACTTAAAATATTATTGTGACAATAAATATCTTTGCTTCAAGAATCCTGCATAAAATGTAAGAGCTTTTAACATGAAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATATACTGTATTAGAATGTTAATTGAGTTTGACATAAGCATGGATATAAAATGCATTGTGCCACTCAACTTACCAGCAGTGAAACTGATTACCAATTCTAATCGTTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAACCAATAGAAGTAATTGGTATGCATGTAGGAACTAGCAGGCTGAGCACATCATTTATTTATAGAGTCTTTTGATGTAACTCTATGGGGGAAAAAGTTAATAAAACATGGCTCAAAGATAAA-TTTACACTCACCACTATAATGTGACATACAGCACAAATTATTGTACAAAAAAACC-CTGTTTTCTGGTGAGGCGTGTTCTTTATCCCTTTTT-AAGCTATTTCACCAAGGCAAA-AAGGAAAGGACT-----------GGAGGAAAC-AAGAGGACTTC------------------------------------------AGGTATTATTAATTATTTTAAATTTTTCTGAAGCAACTTCT-------------------------------------------------------------------------------------------GAC----------------AATAAAAATCCATGTGCCAACAGAGAGAAATCAGGGG-TATGATATAG--------------CCTTCCTATTTTCTCACATAAAATAGGTTAT---GCCTTTGAAAGGTGGGTGACTTGTTCACCAAAAACTAGGTATTAGAAGCTGAGAAGGACTAGCA-G-CATATTTGAGAACCAACATGGTGGCCTCCTTTGAAAGGTCAG-
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60496110 1378 + 108143057 CTGATATTTAAACTTTCTGAATGTTTACCCATTATTGTTTTGAATAAGTAATCATTCTTAT-TTGCTGAGTAGATTATTATGTACTGTTAATATGTTGTTCATGGAGTAAAG----------CAAGGTGTA-ATGCACAC----------AC------------------AC----ATGTGTGCATATATGTA-------------------------------ACATTGTG-GA-TT------TTTCTATTTCATATATGAATCTTGTTCTGTTAATTGGCTTATA-TATTAATAATTTGGGATAA-G---ACTTTGACATataaataaataa----gtaggtaaatacatacatatatGTGTGTGTGTATATGTTTACACA-------ACACATACACACATACCCTAAA-----ACTTCACTCTGACACAATTAAATTTCAAGAGTTCTTTT--TGGGG-GTATGC------AAAAAAGT---CACAAACCTCAGGCATATTTATAATGTGC----TACTTGTAAGGAAATAGGATCTTCATATAATTTTGAAATTCTGAAGATTTATAGC-TTGAGAGGTTCTTTTCTTCTTCCACAGTAATGACATGTGTCGC-A-ACAGTAGGAATTTTAAACTAAGTATGTT--TCTTTGCATTTCTTCAGAAGCTCCAACTTAAAATATTATTGTGACAATAAATATCTTTGCTTCAAGAATCCTGCATAAAATGTAAAAGCTTTTAACATGAAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATATACTGTGTTAGAATGTTAATTGAGTTTGACAGAAGCATGGATATAAAATGCATCGTGCCACTCAACTTACCAGCAGTAGAACTGATTACCAATTCTAATCGTTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCACGGTTGTTTAAAGTACTGACTACGTGTTTTGAAACCAATAGAAGTAATTGGTATGCATGTAGGAACTAGCAGGCTGAGCACATCATTTATTTATAGAGTCTTTTGATGTAACTCTATGGGGG-AAAAGTTAATAAAACATGGTTCAAAGATAAA-TTTACATTTGCTGCTATAATGTGACATAAAGCACAAATTATTGTACCAAAAACA--CTGTTTTCTAGTGAAACATGTTCTTTATCCTTTCTT-AAGCCATTTCACAAAAGCAAGAAAAAAAAAGGCT-----------GGAGGAAAA-AAGAGGCACAT------------------------------------------AGGTACTGCTAATTCTTTTACTTTTTTCTGAAGCAACTTGT-------------------------------------------------------------------------------------------GAC----------------AATAAAAATCCATGTGCCAACAAAGAGAAATCAAGGGATATGACATAGTTTC------TAAGCCTTCCTACTTTCTCCCATAAAGTAGGTTATTATAGTCTCCAAGGGTGGGTGACTTGTTTACCAACAAGTCAGTATTAGAAGCTGAGAAGGACTAGAG-G-CATATTTAGGAAGCAGCATGGCAGCCTCCTCTGAAAGGCCAA-
i micMur3.chr12            I 3 I 25
s proCoq1.NW_012155062v1     3527071 1376 +  11683526 CTGATTTTTAAACTTTCTGAATATTTACCAA-TATTGTTTTGAACAAGTAACTATTCTGAC-TTGCTGAGTAGATTATTATGTACTGTTAATATGTTGTTAATGGAAGAAAG----------CAAGGTATA-ATGCATAC----------AC------------------AC----ATGTGTGCATACATAGA-------------------------------ACACTGTG-GA-TT------TTTCTATTTCATATATGAATCTTATTCTGTTAATTGGCTTACA-TATTAATAATTTGGAATAA-G---ACTTTGACATATAAATAAGTAA----GTAGGTAAATACATACAGATGTGTGTATGTGTGTATATTTatatatacacacacacatacatgcatacCCTAAA-----ACTTCACTCTGACATAATTTAATTTCAAGAGTTCTTTT--TGGGG-GTATGC--A---AAAAAAAT---CACATACCTCGGGCGTATTTGAAATGTGT----TATTTGCAAGGAGACAGGATCTTCATATAATTTTGAAATTCTGAAGATTTATAGC-TTGAGAGGTTCTTTTCTTCTTCCACAGTAATGACATGCGTCGCTT-ACAGTAGGAATTTTAGACTAAG------------TGTATTTCTTTAGATGTTCCAACTTAAAATATTATTGTGACAATAAATATCTTTGCTTCAAGAATCCTGCATAAAACGTAAAAGCTTTTAACATGAAATAAATAAATGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATATACTGTGTTAGAATGTTAATTGAGTTTGACATAAGCGTGGATATAAAATGCATCGTGCCACTCAACTTACCAGCAGTAGAACTGATTACCAATTCTAATCGCTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCACGGTTGTTTAAAGTACTGACTACGTGTTTTGAAACCAATAGAAGTAATTGGTATGCATGTAGGAACTAGCAGGCTGAGCACATCATTTATTTATAGAGTCTTTTGATGTAACTCTATGGGGG-AAAAGTTAATAAAACATGGTTCAAAGATAAA-TTTACACTCACCGCTATAATATGACATAAAGCACAAATTATTGTACCAAAAAAAC-CTGTTTTCTAGTGAAACATGTTTTTTATCCTTTCTT-AAGCCATTTCGCCAAAGCAAG-AAAAAAAAGGCT-----------AGAGGAAAA-AAGAGGTACAT------------------------------------------AGGTATTGCTAATTCTTTTCAATTTTTCTGAAGCAACTTGT-------------------------------------------------------------------------------------------GAC----------------AATAAAAGCCCATGTGCCAACAAAGAGAAATCAAGGGATATGACATAGTTTC------TAAACCTTCCTATTTTCTCCCATAAAGTAGGTTATTATAGTCTCCAAGGGTGGGTAACTTGTTTACCAACAAGTCAGTATTAGAAGCTGAGAAGGACTGGAA-A-CATATTTAGGAAGCAGCATGGTGGCCTCCTCTGAAAGGACAG-
i proCoq1.NW_012155062v1   I 3 I 1
s otoGar3.GL873679           3007885 1309 +   4132165 TTGATTTTTAAACTTTGTGGATATGTACTCAATAGTCTGTC-------------------C-TTGTGGAGTAGATTATTAAGTACTGTTAATATGTTGTTAGTGGACGAAA-----------CAAATTATA-ATGCACACACACATACATAC------------------AC----ATGTATGCATGCATAGA-------------------------------ATGTTGTA-GATTT------TTTCCACTTCTTATATGAATCTTCTTCTGTTTATTGGCTAGTGTTATTAATAATTTCAGATGA-G---ACTCTGACATATAAATAAACAG----GGAGGTAAAT------------------------------------------ACACATATAGG--TAGCCGAAA-----ATTTCACTCTGACACAACTTAATTTCAAGCACTCTTTT--TAGGG-GTATGC------AAAAAAG-----------CCCAGGCTTGTTTGAAATGTGT----TTTTTGTAAGGAGACAGGATCTCAATATAATTTTGAAATTCTGAAGAATTAGAGC-TCGTGCGATTCTTTTCTTCTTCCGCGGTAATGACATGTGTCGCTT-ACAGT---CATTTTAAACCAAGGGTATT--TCTTTGCCTTTCTTCAGAAGCTCCAACTTAAAATATTCTTGTGACAATAAATAGCTTTGTTTCAAGAAGCTTGCATAAAAAGTAAGAGCTTTTAACATGGAATAAATAAACGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAAATATACTGTGTTAGAATGTTAATTGAGTTTGACATCAGCATGGATGTGAAATGCAGCGTGCCGCTCAACTTACCAGCAGTAGAACTGATTACCAATTCTAATCGTTGTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTCAGTTTGTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAACCAATAGAAGTAATTGGTATGCATGTAGGAACTAGCAGGCTGAGCACATCATTTATTTATAGAGTCTTTTGATGTAACTCTATGGGGG-AAAAGTTAATAAAACATGGCTCAAAGATAAA-TTTACACTCACTGCTGTAATATGACATAAAGCACAAATTATTGTACCAAAAAA---CTGTTTTCTAGTGAAACACGTTCTTTATCCCTTTTTAAAGGCATTTCACCAAACCAAG-AAGAAAAGGGCC-----------AAAGGGGAACAAAAGATACAT------------------------------------------TAAGATTGCTAATTCTTTTCAATTTTTCTAAAGCAATTTAA-------------------------------------------------------------------------------------------GAC----------------AATAAAAATCCAAATGCCAACAGAGGT-------------TTAGAGAGTTTC------TAA-CCCTCCTCTTTTCTTCCATAGAGTAGATTATTACAGTCTCCAAGGTTGGGTGACTTGTTTATCAACTAGTCAGTCTTAGAAGCTGAGAAGGACGAGGA-A-CATATTTAGGAAGCAACATGGTGGCCTCCTCAGAAAGGTCAG-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55474126 1399 +  90702639 CCAGAATTTAATCTCCTTGAGTATTT-CCTGCTGTAATTCTGGATAGATAACTACT-TGATAGTGTTCACCAGCTTATTAATCACTATTGGCAT----TTAGTGGA-AGAGG------------AGATAAA-ATATGCAC------ACATAC------------------AC----ACCCATATAT-TATTAA-------------------------------ACACTGTA-GA-TT------TTAAGA-TGCAGATATCGATTTTATCTTGTTAA-TGATTTATA-TATTAATATTTGGAGATGG-C---ACTCTGAC----AAATAAGCAG----GTACGTAA--------------------------------------------AGACATTCGTACCTAATCTGAA-----ATTCCTCGCTGACACAACTTAATTTCAAGTGTTCTTTT--T-GGAGGTATGC--A---AAAGA-AT---GCCATACTTTAGACCTATTTGACATGTGT----TATTTCTGTGGAGACAAGATCGTCACATAATTTTAAAATTCTGCAGATTTACAGCTTTGGAAGATCCCCCTATTTGTCGACAGAAACGAAACAAGTTGCTT-ATAGTTGGACTGTTAAACTGATTGTATT--TCTTTGCATTTCTTCAGGGGCTCCAACTTGAAATGTTATTGTAGCAATAAATATTCCTGCTTCCAGAATCATGTACAAACCATAAGAGATTTTAACATGAAATAAATAAACGCATTGTTCTCTGAGATTAGGTCAGTGTCTTTGAGATATACTG--TTAGAATGTTAATTGAGTTTGACATAAGC-----------ATGCATCATGCCACTCAATGTGCCAGCAGTGAAACTGATTTCCAATTCTAATCATCATCTGTGTGCTGACAGCACACTGAGATGGAAATGTTGAATATTTTAGTCTGTGATATTATCCTGGTTGTTTAAAGTACTGACTACGTGTTTTGAAACCAATAGACGTAATTGGTATGCATGTTGGAATT---AGGCTGAGCACATCATTTATTTATAGAGTCTTTTGATGTAACTCTGTAGGGG-GAGAGTTAATAAAACATGGTTCAAAGATACA-TTTCTACTCACCACTATATTATGACAGAAAGTACAAATTATTGTTC-TGAAAACA-CGGATTTCTGAGGAAATGTGGTTTTTATTCCTTCTG-AAGCTATTTCACTAATGCAAG-AAGAAAAGAACCTAGGGGTGGGAGGGGAAAGC-AAGAGGTGCAC------------------------------------------AGGTGTTGCTAAGGCCTGTAAACTTTTCTGCTGCAACTTGAGGGGATTAAAATCCCCTCATAGGTAGAACTGGCTGTGGGTGAGCATTTTTACAACTCCCTAGTGAGTTTGAGTTTAGCCTGAAATGCATGAGACTGTCATATCAAAGATAAATAAATATCCATGAGTCAACAATGAGTGATCAAGGG-T----TGTGGCTGC---ACTTAACCCTTCCTGTCTCTTCCCGTAAAGTAGGTCAC---TGTGTCACAGAAC---TGGCTTTATC------------------TAAACTG---AGGTCTAGAG-A----GTTTAGGAAACAGCATG--CAACTTCTCTGAGAGGTCAG-
i mm10.chr18               I 248 C 0
s canFam3.chr11             14870191 1332 +  74389097 ----TTTTAAAAATTTCTGATTATTCACTCATTATTATTCTGAATAAGTAACTAATTTGACA----TGTGAAGCTTATTAAATACTGTTAATATGTTGTTAATGGT-GAGAG----------GAAAGTATT-ATACATAC-CATACACATAC------------------ATTTCGACATATATCTATATAGA-------------------------------TCATTGTGCAG-TT------TAAAAATTTTATGTATGAACCCTATTCTGTTAATTGGCTTCTG-CATTAATAATT---GGAGATG---ACACCAGCATATAAATAAACAA----GTAGGTAA--------------------------------------------ATACATACAAATATAACCTAAA-----ATTTCCCTCTTACATGAATTCATTTCAACTGTTCTTCTGCT-AAG-GTATAC--A---AAAAAAATAAAAATAAACCTCAGGCTATTTC---ATATGT----TCTTTGTAAGGAGACAGAATCTTTATATAATTTTAAAATTCTGAAGATTTATAGC-TTGTGAGGTTCTTTTA-CCTTCCACTCTAATGGCCCGCATCACTT-AGACTGGGAATTTTAAAGTAAGTATATTTATTTTTGCATTTCTTCAGAAGCTCCAACTT-AAATATTATCATGACAATAAATATCTTTGCGTTAAGAACCCTTCATAAAATGTAAGAGCTTTTAACGTGAAATAAATAAATGCATTGTTCACTCAGATTAGGTCAGTGTCTTTGAAATATACTGTGTTAGAATGTTAATTGAGTTTGACATAAGCATGGATATAAAATGCATCGTGCCACTCAACTTACCAGCGGTGAAACCAATTACCAATTCTAATCGTCGTCTGCCTGGTGACAGCATACCGAGATGGAGATGTTGAATATTTTAGTTTGTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAACCAATAGAAGTAATTGGTATGCATGTAAGAAATAGCAGGCTGAGCACATCATTTATTTAGAGAGTCTTTTGATGTAACTCTATGGGGGAAAAAGTTAATAAAACATGGTTCAAAGATAAA-TTTATACTCAGCACTATAATATGACATAAAGCACAAATTATTGTACTGAAACAA--CTGTTTTCTAGTGAAACATGTTCTTTATCCCTTCCG-AAGCTA-CTCACGAAAGCCAG-AAAGACCAGGCT----------AGGAGGAAAC-AAAAGGTATGC------------------------------------------AGGTATTGTTCATTCTTTTAAACTTTTTTGAAGCAACCTGT-------------------------------------------------------------------------------------------GAC----------------AATTACAATCTGTGTGCCAACGGAGAAAAATCAAGAAATGTGACAGAGTTCCCAAA------CCTTTACATTTGCTCCCAGAAATTAGGTTAT---GGTCTCACAGGGCAGGC-------TCACCACCAAGTCAGTAT-------TGAGAAAGACTAGAA-AACACGCTTAGGAAGTGATAGGGCGGCCTTGTGTGAAAGGTCAG-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2560869 1374 +   3667625 CTGATATTTAAACTTTCTGGATAAATAGCCATTATTATTGTGAATAAGTAACTAATCTGA-ATTGTTGAATAGCTT---AAGTACTGTTAACAT--TGTTAACAGA-GAAAGGtatattatatacattatatatgtgtat------atatattatatatgtgtatgtataAT----ATTTATGTTTACACACATGTTACACACATAGAAACTTTCTATGTTTCTATATTTTA-TG-TTTCTACATTTTCATTTCGTATGTGAATCCTATTCTGTTAATTCACTTATG-CATTAATAATT---GAAGA-AGTTACTCTGGCATAGTAGTAAACAA----GTATATA---------------------------------------------ACACATGCCTACAAAACCTAAAATTGTATTTAACTTTTACACAATTTAATTTCAA-TATTCCTTT--T-TAG-TTATAT--ATTTATAAA-AT-----CATACCTCACGATGATTTGAAATGTGTTTGCTATTTGTAGGAAGACAGAAACTTTATATAATTTAAAAATTCTGAAGATTAATAGC--------------------TTCCCCAGTAATGGTATGCATCTCTT-GCAGTAAGAATTTTTAACTAAGAGTATT--TCTTTGCATTTCTTCAGAAGCTAGAACTTAAAATATTATCTTGACAATAAATATCTTTGCTTCAAGAACCCTTCATAAAATGTAAGAGTTTTTAACATGAAATAAATAAACGCATTGTTCCCTGAGATTA-GTCAGTGTCTTTGAAATATACTGTGTTAGAATGTTAATTGAGTTTGACATAAGCATGGATATAAAATGCATTGTGCCACTCAACTTACCAGCAGTGAAACTGATTTCCAATTCTAATCGTTCTCTGCATGGTGACAGCATACTGAGATGGAGATGTTGAATATTTCAGTTTGTGATATTATCATGGTTGTTTAAAGTACTGACTACGTGTTTTGAAACCAATAGAATTAATTGGTATGCATGTAAGAACTAGCAGACTGAGCACATCATTTATTTATAGACTCTTTTGATGTAACTCTATGGGGGGAAAAGTTAATAAAACATGGTTCAAAGATAAA-TTTACACTCACTACTATAATATGACATAAAGCACAAATGATTGTATTGAAAAAA--CGGTTTTATAGTGAAGCATGTTCTTTATCCTTTGTT-AACTGATTCCACCAAAGCTGG-AAGAAAAGGCTG-----------GGAGGAAAC-AAGAAGTACAC------------------------------------------AGGTATTGTTAATTGTTT--AAACTTTCAGAAGCAACTTGT-------------------------------------------------------------------------------------------GAC----------------AGTTAAAATCTATGTGCCAACAGAGAGAAATCAAGGGATCTGACATAGTTTCTAAA------TCTTCCCATTTTCCCCCATAAATTAGGTTAT---GGTTTCAAAGAACAAGT-------TCACCAACAAGTCTGCATTAGAAGCCGAGAAGGACTTCTACA-CAGATTTAGGAAGCAGCACAG---------CTGATAGGCGGAG
i dasNov3.JH567306         I 36 C 0

a score=513519.000000
s hg38.chr5_KI270796v1_alt     23100 40 +    172708 ATGTACAGGAAGGTCCTCCTGTACACAC--CCCTCTGCAGGG
s panTro5.chr5             125133178 40 + 181907262 ATGTACAGGAAGGTCCTTCTGTACACAC--CCCTCTGCAGGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470144 40 + 183735486 ATGTACAGGAAGGTCCTTCTGTACACAC--CCCTCTGCAGGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1661658 40 +   8933513 ATGTACAGGAAAGTCCTTCTGTACACAC--CCCTCTGCAGGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139793459 40 + 163208435 ATGTACAGGAAGGTCCTTCTGTACACAC--CCCTCTGCAGGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779187 40 + 180051392 ATGTACAGGAAGATCCTTCTGTACACAC--CCCTCTGCAGGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124202864 40 + 181584905 ATGTACAGGAAGATCCTTCTGTACACAC--CCCTCTGCAGGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16200589 40 +  18395747 ATGTACAGGAAGATCCTTCTGTACACAC--CCCTCTGCAGGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5206445 40 +  26952557 ATGTACAGGAAGATCCTTCTGTACACAC--CCCTCTGCAGGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28314246 40 +  82825804 ATGTACAGGAAGATCCTTCTGTACACAC--CCCTCTGCAGGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3978420 40 -   4237731 ATGTACAGGAAGATCCTTCTGTACACAC--CCCTCTGCAGGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      248118 40 -   1175262 ATGTACAGGAAGATCCTTCTGTACACAC--TCCTCTGCAGGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123581969 40 - 204313951 ATGTAGAGGAAAGTCCTTCTGTACACAC--CCCTCTGCAGGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55637671 40 -  71252344 ATGTGGAGGAAAGTCCTTCTGTACACAC--CCCTCTGCAGGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1332036 40 -   1400280 ATGTAGAGGAAAGTCCTTTTGTACACAC--CCCTCTACAGGG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13124959 40 -  42888418 ATGTAGAGGAAAGACGTTCTCTACGCAC--CCCACTGCAGGG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3528448 40 +  11683526 TAATAGAGGAAGCTTCTTCTGTTCCAAC--CCTTCTGCGGTG
i proCoq1.NW_012155062v1   I 1 C 0
s otoGar3.GL873679           3009194 40 +   4132165 ATGTAGAGGAAGATTCTTCTGTTCAAAC--CCTTCTGTGGCC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55475525 40 +  90702639 GTGGGAAGGGAAGAGGGTTTGTATACTC--TCCGCCCCATTG
i mm10.chr18               C 0 I 2
s canFam3.chr11             14871523 39 +  74389097 AGGTAGAGGGTAG---CTCCGTACACACATCCTTCTGCAGCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2562243 41 +   3667625 ACACAGAGGAAGTCACTTCTGTACACTCA-CGGTCTGCAGTG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60497488 25 + 108143057 I

a score=2008090.000000
s hg38.chr5_KI270796v1_alt     23140 135 +    172708 AGGACACTGACATGCTCGGTCTCTATTCAAAACGGAGAACCATGTATTTTTACAACAATATTGACTCAATGTCTAATTGTGGTCAGAGAACTGCTAACTCCCAACTTGATTTGCCTCAGGCAGAATCAAATCTTA
s panTro5.chr5             125133218 135 + 181907262 AGGACACTGACATGCTCGGTCTCTATTCAAAACGGAGAACCATGTATTTTTACAACAATATTGACTCAATGTCTAATTGTGGTCAGAGAACTGCTAACTCCCAACTTGATTTGCCTCAGGCAGAATCAAATCTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470184 135 + 183735486 AGGACACTGACATGCTCGGTCTCTATTCAAAACGGAGAACCATGTATTTTTACAACAATATTGACTCAATGTCTAATTGTGGTCAGAGAACTGCTAACTCCCAACTTGATTTGCCTCAGGCAGAATCAAATCTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1661698 135 +   8933513 AGGACACTGACATGCTCGGTCTCTATTCAAAACGGAGAACCATGTATTTTTACAACAATATTGACTCAATGTCTAATTGTGGTCAGAGAACTGCTAACTCCCAACTTGATTTGCCTCAGGCAGAATCAAATCTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139793499 131 + 163208435 AGGACACTGACATGCTGGGTCTCTATTCAAAAAGGAGAACGGTGTATTTT----ACAATATTGACTCAATGTCTAATTGTGGTCAGAGAACAGCTAACTCCCAACTTGATTTGCCTCAGGCAGAATCGACTCTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779227 134 + 180051392 AGGACACTGACAAGCTCAGTCTGTTTTCAAAAAGGAGAATGGTGTATTTT-ACAACAATATTGACTCAATGTCTAATTGTGGTCAGAGAACTGCTAACTCCCAACTTGATTTGCCCCGGGCAGAATCAAATCTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124202904 134 + 181584905 AGGACACTGACAAGCTCCGTCTGTTTTCAAAAAGGAGAATGGTGTATTTT-ACAACAATATTGACTCAATGTCTAATTGTGGTCAGAGAACTGCTAACTCCCAACTTGATTTGCCCCGGGCAGAATCAAATCTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16200629 134 +  18395747 AGGACACTGACAAGCTCAGTCTGTTTTCAAAAAGGAGAATGGTGTATTTT-ACAACAATATTGACTCAATGTCTAATTGTGGTCAGAGAACTGCTAACTCCCAACTTGATTTGCCCCGGGCAGAATCAAATCTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5206485 134 +  26952557 AGGTCACTGACAAGCTCAGTCTGTTTTCAAAAAGGAGAATGGTGTATTTT-ACAGCAATATTGACTCAATGTCTAATTGTGGTCAGAGAACTGCTAACTCCCAACTTGATTTGCCCCGGGCAGAATCAAATCTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28314286 134 +  82825804 AGAACACTGACAAGCTCAGTCTGTTTTAAAAAAGGAGAACGGTGTATTTT-ACAACAATATTGACTCAATGTCTAATTGTGGTCAGAGAACTGCTAACTCCCAACTTGATTTGCCCCAGGCAGAATCAAATCTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3978460 134 -   4237731 AGGTCACTGACAAGCTCAGTCTGTTTTCAAAAAGGAGAATGGTGTATTTT-ACAGCAATATTGACTCAGTGTCTAATTGTGGTCAGAGAACTGCTAACTCCCAACTTGATTTGCCCCGGGCAGAATCAAATCTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      248158 134 -   1175262 AGGACACTGACAAGCTCAGTCTGTTTTCAAAAAGGAGAACGGTGTATTTT-ACAACAATATTGACTCAATGTCTAATTGTGGTCAGAGAACTGCTAACTCCCAACTTGATTTGCCCCAGGCAGAATCAAATCTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123582009 131 - 204313951 AGGACACTGACATGCTCAGTTTCTTTTCAAAAAGGAGAACGGCGTATTTT----ACAATATTGACTCAATGTCTAATTGTGGTCAGAGAACTGCTAACTTCCAACTTGATTTGCCTCAGGCAGAATCAAAGCTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55637711 131 -  71252344 AGGACACTGACATGCTCGGTCTCTTTTCAAAAAGGAGAACGACGTATTTT----ACAATATTGACTCAATGTCTAATTGTGGTCAGAGAACTGCTAACTTCCAACTTGATTTGCCTCAGGCAGAATCAAAGCTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1332076 130 -   1400280 AGGACACTGACATGCTCAGTCT-TTTCAAAAAAGGAGAACGGCGTATTTT----ACAATATTGATTCAATGTCTAATTGTGGTCAGAGAACTGCTAACTTCTAACTTGATTTGCCTCAGGCAGAATCAAAGCTTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13124999 131 -  42888418 AGGACACTGACATGCTCAGTCTCTTTTCAAAAAGGAGAACGGCGTATTTT----ACAATATTGACTCAATGTCTAATTGTGGTCAGAGAACTGCTAACTTCCAACTTGATTTGCCTCAGGCAGAATCAAAGCTTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60497513 130 + 108143057 ACAACACTGACATGCTCACTCTCTATTGAAACAGGAAA---GCGTATTTC-ACAGCAATATTAACTGAATGTCTAATTGTGGTCAGAGAATTGCTAACTTCAAACCTGATTTGCCTCAGGCAGAATCAAAGCTT-
i micMur3.chr12            I 25 C 0
s proCoq1.NW_012155062v1     3528488 131 +  11683526 ACGACACTGACATGCTCAGTCTCTACTTAAACAGGAAA---GTGTGTTTT-ACAAAAATATTAACTAAATGTCTAATTGTGGTCAGAGAACTGCTAACTTCAAACTTGATTTGCCTCAGGCAGAATCAAAGCTTA
i proCoq1.NW_012155062v1   C 0 I 362
s otoGar3.GL873679           3009234 131 +   4132165 AGGACACTGACATGCCCACTCTCTATTTAAACAGAAAA---GTGTATTTT-ACAACAATATTAACTACAGGTCTAACTGTGGCCAGAGAATTGCTAACTTCAAAGTTGATTTGCCTCAGGCAGAACCAAAGCTTA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55475567 125 +  90702639 AGGACACTGGCCCCGTCAGTCTCTCC-----AAAGAGGGCAGGGTATTTT----CTAACATTAGCTAAGCATCTAATTGTGCTCAGTGAACTACTGACTTCAAACATGATATTTCTCAAATGAACTCAGTATTT-
i mm10.chr18               I 2 C 0
s canFam3.chr11             14871562 131 +  74389097 AGGGCACGGACATGCTTAGTCTCTACTCAAGTGGGAAA---GTACCTTTT-ATGACAATATTAATTAAATGCCTAATAATGGCCAGAGAACTGCTGACTTCAAACCTGATGGGCTTCAGGCAGCGTCTGAGATTA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2562284 128 +   3667625 AAGACACTGACATGCTCAGTCTCTCTTCCAACTGGAAA---GCACATTTT----AAGATATTAAGTAAGTGCTTAATTGTGGACAGGGAAGAGTTCACGTCAAACGTGATGTGATTCAAGCAGAATCAAAGCCTA
i dasNov3.JH567306         C 0 C 0

a score=1417669.000000
s hg38.chr5_KI270796v1_alt     23275 110 +    172708 AAACAGTAAGCTGGAGAAA--TATTAAACTGCTGAC--AAGA-----T-GAAAAATGTGCCAAGAGTGGTGATGTGGGC-AGAGGTGGAAAGAGCATGAAGGAGCAAAGATGCTATACACA
s panTro5.chr5             125133353 110 + 181907262 AAACAGTAAGCTGGAGAAA--TATTAAACTGCTGAC--AAGA-----T-GAAAAATGTGCCAAGAGTGGTGATGTGGGC-AGAGGTGGAAAGAGCATGAAGGAGCAAAGATGCTCTACACA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470319 110 + 183735486 AAACAGTAAGCTGGAGAAA--TATTAAACTGCTGAC--AAGA-----T-GAAAAATGTGCCAAGAGTGGTGATGTGGGC-AGAGGTGGAAAGAGCATGAAGGAGCAAAGATGCTCTACACA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1661833 110 +   8933513 AAACAGTAAGCTGGAGAAA--TATTAAACTGCTGAC--AAGA-----T-GAAAAATGTGCCAAGAGTGGTGATGTGGGC-AGAGGTGGAAAGAGCACGAAGGAGCAAGGATGCTATACACA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139793630 110 + 163208435 AAACAATAAGCTGGGGAAA--TATTAAACTGCTGAC--AAGA-----T-GAAAAATGTGTCAAGAGTGGTGATGTGGGC-AGAGGTGGGAAGAGCATGAAGGAGCAAGGATGCTGTACACA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779361 110 + 180051392 AAACAATAAGCTGGAGAAA--TATTAAACTGCTGAC--AAGA-----T-GAAAAATGTGTTGAGAGTGGTGATGTGGGC-AGAGGTGGAAAGAGCATGAAGGAGCAAGGATGCTATACACA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203038 110 + 181584905 AAACAATAAGCTGGAGAAA--TATTAAACTGCTGAC--AAGA-----T-GAAAAATGTGTTGAGAGTGGTGATGTGGGC-AGAGGTGGAAAGAGCATGAAGGAGCAAGGATGCTATACACA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16200763 110 +  18395747 AAACAATAAGCTGGAGAAA--TATTAAACTGCTGAC--AAGA-----T-GAGAAATGTGTTGAGAGTGGTGATGTGGGC-AGAGGTGGAAAGAGCATGAAGGAGCAAGGATGCTATACACA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5206619 110 +  26952557 AAACAATAAGCTGGAGAAA--TATTAAACTGCTGAC--AAGA-----T-GAAAAATGTGTTGAGAGTGGTGATGTGGGC-AGAGGTGGAAAGAGCATGAAGGAGCAAGGATGCTATACACA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28314420 110 +  82825804 AAACAATAAGCTAGAGAAA--TATTAAACTGCTGAC--AAGA-----T-GAAAAATGTGTTGAGAGTGGTGATGTGGGC-AGAGGTGGAAAGAGCACGAAGGAGCAAGGATGCTATACACA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3978594 110 -   4237731 AAACAATAAGCTGGAGAAA--TATTAAACTGCTGAC--AAGA-----T-GAAAAATGTGTTGAGAGTGGTGATGTGGGC-AGAGGTGGAAAGAGCATGAAGGAGCAAGGATGCTATACACA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      248292 110 -   1175262 AAACAATAAGCTGGAGAAA--TATTAAACTGCTGAC--AAGA-----T-GAAAAATGTGTTGAGAGTGGTGATGTGGGT-AGAGGTGGAAAGAGCATGAAGGAGCAAGGATGCTATACACA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123582140 109 - 204313951 CAACAATGAGCTGGAGAAA--TATTAAACTGCTGAC--AAGA-----T-GAAAAATGTGTT-AGAGTGGTGATGTGGGC-AGAGGGGGAAAGAGCATGAAGGAGCAAGGATTCTACACACA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55637842 110 -  71252344 CAACAATGAGCTGGAGAAA--TATTAAACTGCTGAC--AAGA-----T-GAAAAATGTGTTAAGAGTGGTGATGTGGGC-AGAGGTGGAAAGAGCATGAAGGAGCAAGGATTTTATACACA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1332206 110 -   1400280 CAACAATGAGCTGGAGAAA--TATTAAACTGCTGAC--AAGA-----T-GAAAAATGTGTTAAGAGTGGTGATGTGGGC-AGAGGTGGAAAGAGCATGAAGGAGCAGGGGTTCTACACGCA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13125130 110 -  42888418 CAACAATGAACTGGAGAAA--TATTAAACTGCTGAC--AAGA-----T-GAAAAATGTGTTAAGAGTGGTGATGTGGGC-AGAGGTAGAAAGAGCATGAAGGAGCAAGGATTCTACACACA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60497643 108 + 108143057 --ACAATAAGCTGGAAAAA--TATTACACTGTTGGC--AAGA-----ATGAAAACTGTGTCAAGAGC-ATGATATAGAC-AGGGGTGGGAAAAGCAGGAAGGAGCAAGGACGCTCTACACA
i micMur3.chr12            C 0 I 187
s otoGar3.GL873679           3009365 110 +   4132165 CAACAATAAGATGGCATAA--TATTAAAGTGTTGGC--AAGA-----A-AAACAATGTGTTAAGACTGGTGAGATAGGC-AGAGGTAGAAAAAGCAAGAAACAGCGAGGATGCTGTCCACA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55475692  97 +  90702639 ATATGGTGA---GAATAAA--CAATAAACCATGGATCAAAGT-----A-AAGAAAAGAAATAGGAGTGATGGTGTGGGC-AGGCATGGCAA-------AAGAAATGACTATGCTCT-----
i mm10.chr18               C 0 C 0
s canFam3.chr11             14871693 109 +  74389097 CAACTATGTGTTAGCAAAACTTGAAAAACCGCTCAC--AA-------T-AAAAAATTCGTTAAGAACAGTGTTGTAGGCTAGACATGGACAAGCAGGGAGGGCAGAGGGTTTCGGTGCA--
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2562412 101 +   3667625 TAACAGCATGCTAAAGAA---TATTAAACTGCTGAT--AATAATAATT-TAAAAAAACGTTGAGCA--------------AGAGGGGCGGAAAGCAAGAAGGAGAGAGGCTAGTCTGCACA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3528619 362 +  11683526 I

a score=1342948.000000
s hg38.chr5_KI270796v1_alt     23385 122 +    172708 CACAATTATCTATGT---CATGTGACTG---CCTGTCTCCAGTGCGTATACACTTGCTCATAATCATTGGAGACCAAATAAAgcaatggttatgg---gactggcccgaaaatc--aagagctggg-ttttgac
s panTro5.chr5             125133463 124 + 181907262 CACAATTATCTATGT---CATGTGACTG---CCTGTCTCTAGTGTGTGTACACTTGCTCATAATCATTGGAGACCAAATAAAgcaatggttatgg---gactggcccgaaaatcaaaagagctggg-ttttgac
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470429 124 + 183735486 CACAATTATCTATGT---CATGTGACTG---CCTGTCTCTAGTGTGTGTACACTTGCTCATAATCATTGGAGACCAAATAAAgcaatggttatgg---gactggcccgaaaatcaaaagagctggg-ttttgac
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1661943 123 +   8933513 CACAATTATCTATGT---CATGTGACTG---CCTGTCTCTAGTGTGTGTACACTTGCTCATAATCATTGGAGACCAAATAAAGCAATGGTTat-g---gactggcccgaaaatcaaaagagctggg-ttttgac
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139793740 124 + 163208435 CACAATTATCTATGT---CATGTGACTG---CCTGTCTCTAGTGTGTGTACACTTGCTTCTAATCATCGgaggccaaataaagcaatggttatgg---gactggcctgaaaatcaaaagagctggg-ttttgac
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779471 124 + 180051392 CACAGTTATCTACAT---CATGTGACTG---CCTGTCTCTAGTGTGTGTACACTTGCTCATAATCATTGgaggccaaataaagcaatggttaggg---aactggcccaaaaatcaaaagagctggg-ttttgac
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203148 124 + 181584905 CACAATTATCTACGT---CATGTGACTG---CCTGTCTCTAGTGTGTGTACACTTGCTCATAATCATTGGAGGCCAAATAAAGCAATGGTTAGGG---AACTGGCCCAAAAATCAAAAGAGCTGGG-TTTTGAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16200873 124 +  18395747 CACAATTATCTACGT---CATGTGACTG---CCTGTCTCTAGTGTGTGTACACTTGCTCATAATCATTGgaggccaaataaagcaatggttaggg---aactggcccaaaaatcaaaagagctggg-ttttgac
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5206729 124 +  26952557 CACAATTATCTACGT---CATGTGACTG---CCTGTCTCTAGTGTGTGTACACTTGCTCATAATCATTGgaggccaaataaagcaatggttaggg---aactggcccaaaaatcaaaagagctggg-ttttgac
i cerAty1.NW_012002512v1   C 0 I 1
s chlSab2.chr23             28314530 124 +  82825804 CACAATTATCTACGT---CATGTGACTG---CCTGTCTCTAGTGTGTGTACACTTGCTCATAATCATTGGAGGCCAAATAAGGCAATGGTTAGGG---AACTGGCCCAAAAATCAAAAGAGCTGGG-TTTTGAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3978704 124 -   4237731 CACAATTATCTACGT---CATGTGACTG---CCTGTCTCTAGTGTGTGTACACTTGCTCATAATCATTGGAGGCCAAATAAAGCAATGGTTAGGG---AACTGGCCCAAAAATCAAAAGAGCTGGG-TTTTGAC
i manLeu1.NW_012103321v1   C 0 I 1
s colAng1.NW_012119644v1      248402 124 -   1175262 CACAATTATCTACGT---CATGTGACAG---CCTGTCTCTAGTGTGTATACACTTGCTCATAATCATTGGAGGCCAAATAAAGCaatggttaggg---gactggcccgaaaatcaaaagagctggg-ttttgac
i colAng1.NW_012119644v1   C 0 I 1
s calJac3.chr2             123582249 122 - 204313951 TATAATTACCTATGT---CATGTGACTG---CCTGTCTCTGGTGTATGCACACTTGCTCCTAATCATTGGAGGCCGACTAAAGCCGTGGTTAGGG---GACTGGCCCAAAAATC--AATAGTTGAG-TTTTGAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55637952 122 -  71252344 TATAATTACCTGTGT---CATGTGATTG---CCTGTCTCTGGTGTGTGCACACTTGCTCCTAATCATTGgaggccagttaaaacagtggttaggg---gactggtcggaaaatc--aataggtggg-ttttaac
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1332316 122 -   1400280 TATAATTACCTATGT---CATGTGACTG---CCTGTCTCTGGCGTGTGCACACTTGCTCCTAATCATTGGAGGCCAATTAAagcagtggttaggg---gactggcccggaaatc--aatagttggg-ttttgac
i cebCap1.NW_016107829v1   C 0 I 291
s aotNan1.NW_018505940v1    13125240 122 -  42888418 TATAATTACCTATGT---CATGTGACTG---CCTGTCTCTGGTGTGTGCACACTTGCTCCTAATCATTGGAGGCCAATTAAAGCAGTGGTTAGGG---GACTGGCCCGAAAATC--AATAGTTGGG-TTTTGAC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3009475 108 +   4132165 GACAGTCACCTGTGA---CCCCTCTCCC---CATCTCATTAGCATGTGTAGATGTG-TCCGGATCATgagaggccactcacggcagtgggatggg---tgctcggcc---------------tgga-ttttgac
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55475789  91 +  90702639 CAT-----TCTGTGG---TTTGGACTGG---CCTGACTC--------ACACGTGTGCTCACAA----------------AACATAGTGACTA--G---GACTGGCCTGAAACTC--AATATCTGGG-TTTGGAC
i mm10.chr18               C 0 I 2
s canFam3.chr11             14871802 128 +  74389097 GGCAACTCTCTAGGG---AGTGTGACTGACTCCTCTCACCAGTGTGGGGAGAAGTGTTCCTAATCAGTGTAGGCCACACACAGGCGTTCTTGGGG---GATCACCCTGAAAATCAGAAGAGTCGATCTTTTGAC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2562513 129 +   3667625 -AAGACTATATCTGTGGGGATGTAGCTGA--CCTGTCTC-AGCATGTGTAAAAATGTTCCTGATCATTGGAGATCATTCGGAGCAATGGTTAGGGTGCTGCTggtctgagaaccagaagagatgga-tttcagc
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60497751 187 + 108143057 I
e proCoq1.NW_012155062v1     3528619 362 +  11683526 I

a score=32281.000000
s hg38.chr5_KI270796v1_alt     23507 2 +    172708 tt
s panTro5.chr5             125133587 2 + 181907262 tt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470553 2 + 183735486 tt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662066 2 +   8933513 tt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139793864 2 + 163208435 tt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779595 2 + 180051392 tt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203272 2 + 181584905 TT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16200997 2 +  18395747 tt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5206854 2 +  26952557 tt
i cerAty1.NW_012002512v1   I 1 C 0
s chlSab2.chr23             28314654 1 +  82825804 -T
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3978829 2 -   4237731 TT
i manLeu1.NW_012103321v1   I 1 C 0
s colAng1.NW_012119644v1      248527 2 -   1175262 tt
i colAng1.NW_012119644v1   I 1 C 0
s calJac3.chr2             123582371 2 - 204313951 tt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55638074 2 -  71252344 tt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1332729 2 -   1400280 tt
i cebCap1.NW_016107829v1   I 291 C 0
s aotNan1.NW_018505940v1    13125362 2 -  42888418 tt
i aotNan1.NW_018505940v1   C 0 I 290
s otoGar3.GL873679           3009583 2 +   4132165 tt
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55475882 2 +  90702639 TT
i mm10.chr18               I 2 I 3
s canFam3.chr11             14871930 2 +  74389097 TT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2562642 2 +   3667625 tt
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60497751 187 + 108143057 I
e proCoq1.NW_012155062v1     3528619 362 +  11683526 I

a score=52097.000000
s hg38.chr5_KI270796v1_alt     23509 6 +    172708 -tttttt-
s panTro5.chr5             125133589 6 + 181907262 -tttttt-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470555 6 + 183735486 -tttttt-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662068 6 +   8933513 -tttttt-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139793866 6 + 163208435 -tttttt-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779597 6 + 180051392 -tttttt-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203274 6 + 181584905 -TTTTTT-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16200999 6 +  18395747 -tttttt-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5206856 6 +  26952557 -tttttt-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28314655 6 +  82825804 -TTTTTT-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3978831 6 -   4237731 -TTTTTT-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      248529 6 -   1175262 -tttttt-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123582373 6 - 204313951 -tttttt-
i calJac3.chr2             C 0 I 286
s saiBol1.JH378106          55638076 6 -  71252344 -tttttt-
i saiBol1.JH378106         C 0 I 293
s cebCap1.NW_016107829v1     1332731 6 -   1400280 -tttttt-
i cebCap1.NW_016107829v1   C 0 I 1
s aotNan1.NW_018505940v1    13125654 6 -  42888418 -TTTTTT-
i aotNan1.NW_018505940v1   I 290 I 1
s otoGar3.GL873679           3009585 2 +   4132165 -----tc-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55475887 6 +  90702639 -TTTTTT-
i mm10.chr18               I 3 C 0
s canFam3.chr11             14871932 2 +  74389097 -----TT-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2562644 8 +   3667625 ttgacttc
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60497751 187 + 108143057 I
e proCoq1.NW_012155062v1     3528619 362 +  11683526 I

a score=1140235.000000
s hg38.chr5_KI270796v1_alt     23515  94 +    172708 aactga--------caactgtgcaatcttaggtagggattttaatccttccaggcctacttttccgtatctTGAAC-----AGTTTCTCACTCTCTTTTTAAGTCAG
s panTro5.chr5             125133595  94 + 181907262 aactga--------caactgtgcaatcttaggtagggattttaatccttctgggcctgcttttccttatctTGAAC-----AGTTTCTCACTCTCTTTTTAAGTCCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470561  94 + 183735486 aactga--------caactgtgcaatcttaggtagggattttaatccttctgggcctgcttttccttatctTGAAC-----AGTTTCTCACTCTCTTTTTAAGTCCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662074  94 +   8933513 aactga--------caactctgcaatcttaggtagggattttaatccttccaggcctacttttccgtatctTGAAC-----AGTTTCTCACTCTCTTTTTAAGTCAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139793872  99 + 163208435 aactga--------caactgtgcaatcttaggtagggattttaatccttccgggcctacttttctttatcttgaactggATAGTTTCTCACTCTCTTTTTAAGTCCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779603 107 + 180051392 aactgacgactgtgcaattgtgcaatcttaggtagggattttaatcgttccaggccttcttttctttatcttgaactggatagtttctcactctccttttaagtcca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203280 107 + 181584905 AACTGACGACTGTGCAATTGTGCAATCTTAGGTAGGGATTTTAATCGTTCCAGGCCTTCTTTTCTTTATCTTGAACTGGATAGTTTCTCACTCTCCTTTTAAGTCCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16201005 107 +  18395747 aactgacgactgtgcaattgtgcaatcttaggtagggattttaatccttctgggccttcttttctttatcttgaactggatagtttctcactctccttttaagtcca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5206862 107 +  26952557 aactgacgactgtgcaattgtgcaatcttaggtagggattttaatccttccgggccttcttttctttatcttaaactggatagtttctcactctccttttaagtcca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28314661 107 +  82825804 AACTGATGGCTGTGCAATTGTGCAATCTTAGGTAGGGATTTTAATCCTTCTGGGCCTTCTGTTCTTTATCTTGAACTGGATAGTTTCTCACTCTCCTTTTAAGTCCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3978837 107 -   4237731 AACTGACGACTGTGCAATTGTGCAATCTTAGGTAGGGATTTTAATCCTTCCGGGCCTTCTTTTCTTTATCTTaaactggatagtttctcactctccttttaagtcca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      248535 107 -   1175262 aactgacggctgtgcaattgtgcaatcttaggtagggattttaatccttctgggccttcttttctttatcttgaactggatagtttctcactctccttttaagtcca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123582665  99 - 204313951 AGTCGA--------Caactgtgcaatattgggtagggattttaatccttctgggcctcattttctttatcttgaactggatagtttctcactcttcttttaagtcta
i calJac3.chr2             I 286 C 0
s saiBol1.JH378106          55638375  99 -  71252344 agctga--------caacggtgcaatattggggagggattttaatccttctgagccttgttttctttatcttgaactggataatatctCACACTTCTTTTAAGTGTA
i saiBol1.JH378106         I 293 C 0
s cebCap1.NW_016107829v1     1332738  99 -   1400280 agctga--------caactgtgcaatattgggtagggattttaatccttctgggccttgttttctttatcttgaactggataatatctcacactccttttaagtctA
i cebCap1.NW_016107829v1   I 1 C 0
s aotNan1.NW_018505940v1    13125661  99 -  42888418 AGCTGA--------CAACTGTGCAATATTGGGTAGGGATTTTATTCCTTCTGGGCCTTGTTTTCTTTATCTTGaactggatagtttctcactctccttttaagtcta
i aotNan1.NW_018505940v1   I 1 C 0
s otoGar3.GL873679           3009587  96 +   4132165 -actga--------caaccgtgtggtcttaggcaggg-tttcagtcctt-tgggccttattctcttcatcttggactggatggtttcttactcagtttttaagtcta
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55475893  73 +  90702639 CACTGG--------CATTCGTGTGATGTTTCCTTGGGATTTTAATTGGT---------------TTTGTCTTA--------GGTGTTTGGCTCCTCCCT---GTCTG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14871934  97 +  74389097 -AATGA--------CAACTGTGTATTCTTAGGCAGGGATTTGAATCCTTCTGAGCTTTATTCTCTTTATCTTGGACTAGATGGTTTCCCACTCTTCTTTTAATTCT-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2562652  99 +   3667625 taccaa--------ctactgtgttatcttaggcagggattttaattcttctgtgcatttttttctttatattggactggatgctttcccactttccttttagttcta
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60497751 187 + 108143057 I
e proCoq1.NW_012155062v1     3528619 362 +  11683526 I

a score=637969.000000
s hg38.chr5_KI270796v1_alt     23609 44 +    172708 TGGTTTCACAATGCCTTC-TCTTAGGAATGTTTTTGAAAGGGGAA
s panTro5.chr5             125133689 44 + 181907262 TGGTTTCACAATGCCTTC-TCTTAGGAATGTTTTTGAAAGGGGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470655 44 + 183735486 TGGTTTCACAATGCCTTC-TCTTAGGAATGTTTTTGAAAGGGGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662168 44 +   8933513 TGGTTTCACAATGCCTTC-TCTTAGGAATGTTTTTGAAAGGGGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139793971 44 + 163208435 TGGTTTCACAATGCCTCC-TCTTAGGAATGTTTTTGAAAGGGGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779710 44 + 180051392 tggtttcacaatgtcttc-TCTTAGGAATCTTTTTGAAAGGGGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203387 44 + 181584905 TGGTTTCACAATGTCTTC-TCTTAGGAATCTTTTTGAAAGGGGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16201112 44 +  18395747 tggtttcacaatgtcttc-TCTTAGGAATCTTTTTGAAAGGGGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5206969 44 +  26952557 tggtttcacagtgCCTTC-TCTTAGGAATCTTTTTGAAAGGGGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28314768 44 +  82825804 TGGTTTCACAATGACTTC-TCTTAGGAATGTTTTTGAAAGGGGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3978944 44 -   4237731 tggtttcacaatgCCTTC-TCTTAGGAATCTTTTTGAAAGGGGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      248642 44 -   1175262 tggtttcacaatgtcttc-TCTTAGGAATGTTTTTGAAAGGGGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123582764 44 - 204313951 tgatttcacaatGCGTTC-TCTTAGGAATGTTTATGAAAGGGGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55638474 44 -  71252344 TGGTTTCACAATGCCTTC-TCTTAGGAATGTTTTTGAAAGGGGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1332837 44 -   1400280 TGGTTTCACAATGCCTTC-TCTTAGGAATGTTTTTGAAAGGGGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13125760 44 -  42888418 tggtttcacaatgCCTTC-TCTTAGGAATGTTTTTGAAAGGGGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60497938 44 + 108143057 TGGTTCCACAAAGCCTCC-TCTCAAGAATGTTTTTGAAAGGAGAA
i micMur3.chr12            I 187 I 38
s otoGar3.GL873679           3009683 44 +   4132165 tggttccacaatGGCTCC-TCTCAAGAATGTCTTTGTAAAGAGAC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55475966 40 +  90702639 TAGCCTTATGATGTCTCC-TCTCAG----TTTCATGAAAGAAAAG
i mm10.chr18               C 0 I 2
s canFam3.chr11             14872031 41 +  74389097 TGGTTCTATAACGCCTTCTTCTCAAGGATGTT----AAGTGGGAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2562751 44 +   3667625 tagttccatgatGCCTCC-TATCAAGAGTGATTCTGAAGCAGCAA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3528619 362 +  11683526 I

a score=295292.000000
s hg38.chr5_KI270796v1_alt     23653 27 +    172708 ATTTTAGACCTAAAAAGTAG-AAACAAT
s panTro5.chr5             125133733 27 + 181907262 ATTTTAGATCTAAAAAGTAG-AAACAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470699 27 + 183735486 ATTTTAGATCTAAAAAGTAG-AAACAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662212 27 +   8933513 ATTTTAGACCTAAAAAGTAG-AAACAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139794015 27 + 163208435 ATTTTAGATCTAAAAAGTAG-AAAAAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779754 28 + 180051392 ATTTTAGGTCTGAAAAGTAGAAAAAAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203431 28 + 181584905 ATTTTAGGTCTGAAAAGTAGAAAAAAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16201156 28 +  18395747 ATTTTAGGTCTGAAAAGTAGAAAAAAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5207013 28 +  26952557 ATTTTAGGTCTGAAAAGTAGAAAAAAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28314812 28 +  82825804 ATTTTAGGTCTGAAAAGTAGAAAAAAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3978988 28 -   4237731 ATTTTAGGTCTGAAAAGTAGAAAAAAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      248686 28 -   1175262 ATTTTAGGTCTAAAAAGTAGAAAAAAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123582808 27 - 204313951 ATTTTAGATCTAAAAAGTAG-AAAAAAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55638518 27 -  71252344 ATTTTAGACCTAAAAAGTAG-AAAAAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1332881 27 -   1400280 ATTTTATATCTAAAAAGTAG-AAAAAAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13125804 28 -  42888418 ATTTTAGATCTAAAAAGTAGAAAAAAAT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3009727 27 +   4132165 CTTACAGGTCTAAGAAATAG-AAAAGAG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55476008 27 +  90702639 ACTGTAGTCTTATCATTTAG-ACAAAGT
i mm10.chr18               I 2 C 0
s canFam3.chr11             14872072 27 +  74389097 CTTCTAGGTCCAACAAGTAG-AAGAGAT
i canFam3.chr11            C 0 I 168
s dasNov3.JH567306           2562795 27 +   3667625 ATAAAAGGTCTAAGTAGTAG-AAAAGAT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60497982 38 + 108143057 I
e proCoq1.NW_012155062v1     3528619 362 +  11683526 I

a score=48866.000000
s hg38.chr5_KI270796v1_alt     23680 5 +    172708 TCATT
s panTro5.chr5             125133760 5 + 181907262 TCATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470726 5 + 183735486 TCATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662239 5 +   8933513 TCATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139794042 5 + 163208435 TCATT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779782 5 + 180051392 TCATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203459 5 + 181584905 TCATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16201184 5 +  18395747 TCATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5207041 5 +  26952557 TCATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28314840 5 +  82825804 TCATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3979016 5 -   4237731 TCATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      248714 5 -   1175262 TCATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123582835 5 - 204313951 TCATT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55638545 5 -  71252344 TCATT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1332908 5 -   1400280 TCATT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13125832 5 -  42888418 TCATT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3009754 5 +   4132165 CCAGT
i otoGar3.GL873679         C 0 I 331
s mm10.chr18                55476035 4 +  90702639 TCAT-
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2562822 2 +   3667625 -TA--
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60497982 38 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3528619 362 +  11683526 I

a score=67075.000000
s hg38.chr5_KI270796v1_alt     23685 5 +    172708 AGAAC
s panTro5.chr5             125133765 5 + 181907262 AGAAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470731 5 + 183735486 AGAAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662244 5 +   8933513 AGAAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139794047 5 + 163208435 AGAAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779787 5 + 180051392 AGAAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203464 5 + 181584905 AGAAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16201189 5 +  18395747 AGAAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5207046 5 +  26952557 AGAAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28314845 5 +  82825804 AGAAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3979021 5 -   4237731 AGAAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      248719 5 -   1175262 AGATC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123582840 5 - 204313951 AGAAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55638550 5 -  71252344 AGAAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1332913 5 -   1400280 AGAAC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13125837 5 -  42888418 GGAAC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3528981 5 +  11683526 AGAAA
i proCoq1.NW_012155062v1   I 362 C 0
s otoGar3.GL873679           3010090 5 +   4132165 AGAAC
i otoGar3.GL873679         I 331 C 0
s mm10.chr18                55476039 4 +  90702639 AAAA-
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2562824 5 +   3667625 AGAAC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60497982 38 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I

a score=1068543.000000
s hg38.chr5_KI270796v1_alt     23690 75 +    172708 TTTTATGAAGGAGCTATTTTTATAAACAAGCACAGTTTTTCATCAAATTTTGCCATTAA-TA-TTTTGTTATCAATA
s panTro5.chr5             125133770 75 + 181907262 TTTTATGAAGGAGCTATTTTTATAAACAAGCACAGTTTTTCATCAAATTTTGCCATTAA-TA-TTTTGTTATCAATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470736 75 + 183735486 TTTTATGAAGGAGCTATTTTTATAAACAAGCACAGTTTTTCATCAAATTTTGCCATTAA-TA-TTTTGTTATCAATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662249 75 +   8933513 TTTTATGAAGGAGCTATTTTTATAAACAAGCACAGTTTTTCATCAAATTTTGCCATTAA-TA-TTTTGTTATCAATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139794052 75 + 163208435 TTTTAGGAAGGAGCTATTTTTATAAACAAGTACACTTTTTCATCAAATTGTGCCATTAA-TG-TTTTGTTATCAATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779792 75 + 180051392 TTTTATGAAGGAGCTATTTTTATGAGCAAGTACAGTTTTTCATCAAATTTTGCCATTAA-TA-TTTTGTTATCAATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203469 75 + 181584905 TTTTATGAAGGAGCTATTTTTATGAGCAAGTACAGTTTTTCATCAAATTTTGCCATTAA-TA-TTTTGTTATCAATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16201194 75 +  18395747 TTTTATGAAGGAGCTATTTTTATGAGCAAGTACAGTTTTTCATCAAATTTTGCCATTAA-TA-TTTTGTTATCAATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5207051 75 +  26952557 TTTTATGAAGGAGCTATTTTTATGAGCAAGTACAGTTTTTCATCAAATTTTGCCATTAA-TA-TTTTGTTATCAATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28314850 75 +  82825804 TTTTATGAAGGAGCTATTTTTATGAGCAAGTACAGTTTTTCATCAAATTTTGCCATTAA-TA-TTTTGTTATCAATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3979026 75 -   4237731 TTTTATGAAGGAGCTATTTTTATGAGCAAGTACAGTTTTTCATCAAATTTTGCCATTAA-TA-TTTTGTTATCAATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      248724 75 -   1175262 TTTTATGAAGGAGCTATTTTTGTGAGTGAGTACAGTTTTTCATCAAATTTTGCCATTAA-TA-TTTTGTTATCAATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123582845 74 - 204313951 TTTTATAAAGGAGTTATTTTTATAAGCAAGTACA-TTTTTCATCAAATTTTGCCATTAA-TA-TTTTGTTATCAGCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55638555 74 -  71252344 TTTTATAAAGCAGTTATTTTTATAAGCAAGTACA-TTTTTCATCAAATTTTGCCATTAA-TA-TTTTGTTATCAATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1332918 74 -   1400280 TTTTATAGAGGAGTTATTTTTATAAGCAAGTACA-TTTTTCATCACATTTTGCCATTAA-TA-TTTTGTTATCAATA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13125842 74 -  42888418 TTTTATAAAGGCACTATTTTTATAAGCAAGTATA-TTTTTCATCAAATTTTGCCATTAA-TA-GTTTGTTATCAATA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60498020 74 + 108143057 TTTTATGAAGGAGCTGTTTTTGTAAGCAAGTAGAGTTTTTCATGAAATT-TGTCATTAA-TA-TTTTGTTATTCATA
i micMur3.chr12            I 38 C 0
s proCoq1.NW_012155062v1     3528986 74 +  11683526 TTTTATGAAGGAGCCATTTTTGTAAGCAAGTACAGTTTTTCATCAAATA-TGTCATTAA-TA-TTTTGTTATTAATA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3010095 60 +   4132165 TTTTATGAAGGAGCTGTTCTTGTAAGCAAGTACAGTTTTTCATCAGATT-TGTCATTA----------------ATA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55476043 76 +  90702639 TTTTATCAAGAGGCTAGTTTTGCACA-AAGTACAGTTTCTCAATCAAATTTGTCATTAAGTATTTTTGTTAATAGTA
i mm10.chr18               C 0 I 98
s dasNov3.JH567306           2562829 74 +   3667625 CTTGAAGAAGGAGTTATCTTCATAAGCAAGTACA-TTTTTTGTTAAATTTGTCaattaa-ta-tttaattgttaata
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14872099 168 +  74389097 I

a score=818550.000000
s hg38.chr5_KI270796v1_alt     23765 60 +    172708 TTTATTGACCACAATTATCTTTCTT--CAAATGGGAACCTGTATTCCAGTTGGTGGATTTTC
s panTro5.chr5             125133845 60 + 181907262 TTTATTAACCACAATTATCTTTCTT--CAGATGGGAACCTGTATTCCAGTTGGTGGATTTTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470811 60 + 183735486 TTTATTAACCACAATTATCTTTCTT--CAGATGGGAACCTGTATTCCAGTTGGTGGATTTTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662324 60 +   8933513 TTTATTGACCACAATTATCTTTCTT--CAAATGGGAACCTGTATTCCAGTTGGTGGATTTTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139794127 60 + 163208435 TTTATTAACCACAATTACCTTTCTT--CAAATGGGAACTTGTATTCCAGTTGGTGGATTTTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779867 60 + 180051392 TTTATTAACCACAACTACCTTTCTT--CATATGGGGACCTGTATTCTAGTTGGTGGATTTTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203544 60 + 181584905 TTTATTAACCACAACTACCTTTCTT--CATATGGGGACCTGTATTCTAGTTGGTGGATTTTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16201269 60 +  18395747 TTTATTAACCACAACTACCTTTCTT--CATATGGGGACCTGTATTCTAGTTGGTGGATTTTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5207126 60 +  26952557 TTTATTAACCACAACTACCTTTCTT--CATATGGGGACCTGTATTCTAGTTGGTAGATTTTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28314925 60 +  82825804 TTTATTAACCACAACTACCTTTCTT--CCTATGGGGACCTGTATTCTAGTTGGTGGATTTTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3979101 60 -   4237731 TTTATTAACCACAACTACCTTTCCT--CATATGGGGACCTGTATTCTAGTTGGTAGATTTTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      248799 60 -   1175262 TTTATTAACCCCAATTATCTTTCTT--CATATGGGGACCTGTATTCTAGTTGGTGGATTTTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123582919 60 - 204313951 TTTATTAACCACAGGTACCTTTCTT--CATATGGGAACCTGTATTCCAGTTGGTGAATTTTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55638629 60 -  71252344 TTTATTAACCACAGTTACCTTTCTT--CATATGGGAACCTATATTCCAGTTGGTGGATTTTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1332992 60 -   1400280 TTTATTAACCACAGTTACCTTTCTT--CATATGGGAACCTATATTCCAGTTGGTGGATTTTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13125916 60 -  42888418 TTTATTAACCATAGTTACGTTTCTT--CATATGGGAAACTATATTCCAGTTGGTGGATTTTC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60498094 60 + 108143057 TTTATTAAACACAGTTACCTTTCTT--CATATGGGCACCTGTATTACAGTTAGCAGATTTTC
i micMur3.chr12            C 0 I 242
s proCoq1.NW_012155062v1     3529060 60 +  11683526 TTTATTAAGCACAGCTGCCTTTCTT--CATATGGGAACCTGTACTCCAATTAGCAGATTTTC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3010155 44 +   4132165 TTTATTAAGCATAACTACCTTTCTTTGTATATGAGAACCTGTAT------------------
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2562903 60 +   3667625 tttatttaCCACAGTTGTCTTTCTC--AGTGTGGAAACCTATGTTTCAGTTGGCAAATTTTA
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14872099 168 +  74389097 I
e mm10.chr18                55476119 98 +  90702639 I

a score=132743.000000
s hg38.chr5_KI270796v1_alt     23825 12 +    172708 ATAGGTGTAAAA
s panTro5.chr5             125133905 12 + 181907262 ATAGGTGTAAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470871 12 + 183735486 ATAGGTGTAAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662384 12 +   8933513 ATAGGTGTAAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139794187 12 + 163208435 ATAGGTGTAAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779927 12 + 180051392 ATAGGTGTAAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203604 12 + 181584905 ATAGGTGTAAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16201329 12 +  18395747 ATAGGTGTAAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5207186 12 +  26952557 ATAGGTGTAAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28314985 12 +  82825804 ATAGGTGTAAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3979161 12 -   4237731 ATAGGTGTAAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      248859 12 -   1175262 ATAGGTGTAAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123582979 12 - 204313951 ATAGGTATATAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55638689 12 -  71252344 ATAGGTGTATAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1333052 12 -   1400280 ATAGGtgtataa
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13125976 12 -  42888418 ATAGATGTGTAA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3529120 12 +  11683526 ATACGTGCAAAA
i proCoq1.NW_012155062v1   C 0 I 235
s otoGar3.GL873679           3010199  9 +   4132165 --ATGTACAAA-
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2562963 12 +   3667625 GTAAGTAAAGAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60498154 242 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e mm10.chr18                55476119 98 +  90702639 I

a score=152864.000000
s hg38.chr5_KI270796v1_alt     23837 21 +    172708 -ATATCTTT----------------------------TATTGATTTATTT
s panTro5.chr5             125133917 21 + 181907262 -ATATCTTT----------------------------TATTGATTTATTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470883 21 + 183735486 -ATATCTTT----------------------------TATTGATTTATTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662396 21 +   8933513 -ATATCTTT----------------------------TATTTATTTATTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139794199 21 + 163208435 -GTATCTTT----------------------------TATTTATTTATTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779939 21 + 180051392 -ATATCTTT----------------------------TATTTATTTATTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203616 21 + 181584905 -ATATCTTT----------------------------TATTTATTTATTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16201341 21 +  18395747 -ATATCTTT----------------------------TATTTATTTATTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5207198 21 +  26952557 -ATATCTTT----------------------------TATTTATTTATTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28314997 21 +  82825804 -ATATCTTT----------------------------TATTTATTTATTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3979173 21 -   4237731 -ATATCTTT----------------------------TATTTATTTATTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      248871 21 -   1175262 -ATATCTTT----------------------------TATTTATGTATTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123582991 29 - 204313951 -ATATATTT--------------------TATGTATGTATGTATGTATTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55638701 49 -  71252344 -ATATATTTtatgtatgtatgtatgtatgtatgtatgtatgtatgtatTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1333064 33 -   1400280 -atatattt----------------tatgtgtgtatatatgtatgtatTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13125988 33 -  42888418 -ATATCTtg----------------tatgtatgtatgtatgtatgtatTT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3010208 21 +   4132165 -ACAGCTGt----------------------------tatttacttattt
i otoGar3.GL873679         C 0 I 94
s dasNov3.JH567306           2562975 13 +   3667625 AAGAGCTTT----------------------------TTTT---------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60498154 242 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529132 235 +  11683526 I
e mm10.chr18                55476119 98 +  90702639 I

a score=201189.000000
s hg38.chr5_KI270796v1_alt     23858 16 +    172708 TCCCTAGAGGGCACTT
s panTro5.chr5             125133938 16 + 181907262 TCCCTAGAGGGCACTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470904 16 + 183735486 TCCCTAGAGGGCACTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662417 16 +   8933513 TCCCTAGAGGGCACTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139794220 16 + 163208435 TCCCTAGAGGGCACTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779960 16 + 180051392 TCCCTAGAGGGCACTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203637 16 + 181584905 TCCCTAGAGGGCACTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16201362 16 +  18395747 TCCCTAGAGGGCACTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5207219 16 +  26952557 TCCCTAGAGGGCACTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28315018 16 +  82825804 TCCCTAGAGGGCACTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3979194 16 -   4237731 TCCCTAGAGGGCACTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      248892 16 -   1175262 TCCCTAGAGGGCACTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123583020 16 - 204313951 TCCCCAGAGGGCACTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55638750 16 -  71252344 TCCCTAGAGGGTACTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1333097 16 -   1400280 TCCCTAGAGGGCACTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13126021 16 -  42888418 TCCCTAGAGGGCACTT
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2562988 16 +   3667625 TTCCCAGAGGGCACTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60498154 242 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529132 235 +  11683526 I
e otoGar3.GL873679           3010229 94 +   4132165 I
e mm10.chr18                55476119 98 +  90702639 I

a score=169809.000000
s hg38.chr5_KI270796v1_alt     23874 17 +    172708 TGAAAATTTATTTTGgg
s panTro5.chr5             125133954 17 + 181907262 TGAAAATTTATTTTGgg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470920 17 + 183735486 TGAAAATTTATTTTGgg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662433 17 +   8933513 TGAAAATTTATTTTGgg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139794236 17 + 163208435 TGAAAATTTATTTTGgg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779976 17 + 180051392 TGAAAATTTATTTTGga
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203653 17 + 181584905 TGAAAATTTATTTTGga
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16201378 17 +  18395747 TGAAAATTTATTTTGga
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5207235 17 +  26952557 TGAAAATTTATTTTGga
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28315034 17 +  82825804 TGAAAATTTATTTTGgg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3979210 17 -   4237731 TGAAAATTTATTTTGga
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      248908 17 -   1175262 TGAAAATTTATTTTGga
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123583036 17 - 204313951 TTAAAATTTATTTTGgg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55638766 17 -  71252344 TTAAAATTTGTTTTGgg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1333113 17 -   1400280 TTAAAATTTATTTTGgg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13126037 17 -  42888418 TTAAAATTTATTTTGgg
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60498154 242 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529132 235 +  11683526 I
e otoGar3.GL873679           3010229 94 +   4132165 I
e dasNov3.JH567306           2563004  0 +   3667625 C
e mm10.chr18                55476119 98 +  90702639 I

a score=1074998.000000
s hg38.chr5_KI270796v1_alt     23891 111 +    172708 ccaggcacagtggct-catgcctgtaatcctagcactttgggaggccaagatgggtggatcacctgaggtcaggagttagagaccagcctggccaatatggcaaaatcctgt
s panTro5.chr5             125133971 111 + 181907262 ccaggcacagtggct-catgcctgtaatcctagcactttgggaggccaagatgggtggatcacctgaggtcaggagttagagaccagcctggccaacatggcgaaatcctgt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126470937 111 + 183735486 ccaggcacagtggct-catgcctgtaatcctagcactttgggaggccaagatgggtggatcacctgaggtcaggagttagagaccagcctggccaacatggcgaaatcctgt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662450 110 +   8933513 ccaggcacagtggct-catgcctgtaatcctagcactttgggaggccaaggtgggtggatcacctgaggtcaggagttagagaccag-ctggccaacatggcgaaatcctgt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139794253 111 + 163208435 ccaggcgcagtggct-catgcctgtaatcctagcactttgggaggccaaggcgggtggatcacctgaggtcaggagttagagaccaccctggccaacatggtgaaatcctgc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122779993 111 + 180051392 ccgggcgcagtggct-catgcctgtaatactagcactttgggaggccaaggcgggtggatcacctgaggtcaggagttagagaccagcctagccaacatggcaaaatcctgt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203670 111 + 181584905 ccgggcgcagtggct-catgcctgtaatactagcactttgggaggccaaggcgggtggatcacctggggtcaggagttagagaccagcctagccaacatggcaaaatcctgt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16201395 111 +  18395747 ccgggcgcagtggct-catgcctgtaatactagcactttgggaggccaaggcgggtggatcacctgaggtcaggagttagagaccagcctagccaacatggcaaaatcctgt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5207252 111 +  26952557 ccgggcgcagtggct-catgcctgtaatactagcactttgggaggccaaggcgggtggatcacctgaggtcaggagttagagaccagcctagccaacatggcaaaatcctgt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28315051 111 +  82825804 ccgggcacagtggct-catgcctgtaatactagcactttggaaggccaaagcgggtggatcacctgaggtcaggagttagagaccagcctggccaacatggaaaaatcctgt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3979227 111 -   4237731 ccgggcgcagtggct-catgcctgtaatactagcactttgggaggccaaggcgggtggatcacctgaggtcaggagttagagaccagcctagccaacatggcaaaatcctgt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      248925 111 -   1175262 ccaggtgcagtggct-catgcctgtaatactagcactttgggaggccaaggcgggtggatcacctgaggtcaggagttagagaccagcctggccaacatggcaaaatcctgt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123583053 111 - 204313951 ccaagtgagatagct-caaacctataatcctagcattttgggaggctgaggctggcagatcacatgaggtcaggagatcgagaccagcctggccaacatggtggaaccctgt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55638783 111 -  71252344 ccaggcgtagtggtt-catgcctataattctagcattctgggaggctgaggctggcagatcacctgaggtcaagagattgagaccagcctggccagcatggtgaaaccctgt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1333130 111 -   1400280 ccgggtgcggtggct-catgcctataatcctagtattttgggaggctgagcctggcagatcacctgagattgggagttcgagaccagcctggccaacatggtgaaaccttgt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13126054 111 -  42888418 ccaggcgcggtggct-cacacctgtaatcctagcattttgggaggctgaggctggcaggtcacctgaggtcagcagatcgagaccagcctggccaacatggtaaaaccctgt
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55476217 108 +  90702639 ctgggcatgatgggtgcaaatctgtattcctagt-cttgaggagatagagatagaaagaatcttggagcttgctgactc---acaagcctggttaaatcagtgaactctagg
i mm10.chr18               I 98 I 303
e micMur3.chr12             60498154 242 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529132 235 +  11683526 I
e otoGar3.GL873679           3010229  94 +   4132165 I
e dasNov3.JH567306           2563004   0 +   3667625 C

a score=1697985.000000
s hg38.chr5_KI270796v1_alt     24002 199 +    172708 ctctactaaaaatacaaaa-attagccaggtgtggtggtgcatgcctgtaatcccagctacttgggaggctgaggaaggagaatcacttgaacctgggaggtggaggttgcagtgaaccgagatcacaccactgccctccagcctacatgacgggagtgacactccttctc--------aaaaaaaa----t---------aattagaaaaaaaggaaaag------
s panTro5.chr5             125134082 201 + 181907262 ctctactaaaaatacaaaa-attagccgggtgtggtggtgcatgcctgtaatcccagctacttgggaggctgaggaaggagaatcatttgaacctgggaggtggaggttgcagtgagccgagatcgcaccactgccctccagcctacatgacgggagtgacactccttctc------aaaaaaaaaa----a---------aattagaaaaaaaggaaaag------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126471048 198 + 183735486 ctctactaaaaatacaaaa-attagccgggtgtggtggtgcatgcctgtaatcccagctacttgggaggctgaggaaggagaatcatttgaacctgggaggtggaggttgcagtgagccgagatcacaccactgccctccagcctacatgacgggagtgacactccttct---------acaaaaaa----a---------aattagaaaaaaaggaaaag------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662560 198 +   8933513 ctctactaaaaatacaaaa-attagccggttgtggtggtgcatgcctgtaatcccagctacttgggaggctgagaaaggagaatcacttgaacctgggaggtggaggttgcagtgagccgagatcacaccactgccctacagcctacgtgacgggagtgacactccttct---------caaaaaaa----a---------aattagaaaaaaaggaaaag------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139794364 210 + 163208435 ctctactaaaaatacaaaa-attagccgggtgtggtggcgcatgcctgtaatcccagctacttgggaggctgaggaaggagaatcacttgaacctgggaggtggaggttgcagtgagccgagatcacaccactgccctccagcctatgtgacgggaccgacgctccttctc------caaaaaaaaa----aaaTAATAATAATTAGAAAAAAAGGAAAAG------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122780104 197 + 180051392 ctctactaaaagtacaaaa-attagccgggtgtggtagtacatgcctgtaatcccagctacttgggaggctgaggaaggaaaatcacttgaacctgggaggtggaggttgcagtgaggcgagatcgcgccactgcactccagcctatgcgacgggagcgacactccatctc--------aaaaaaaa----t---------aat--aataaaaaggaaaag------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203781 197 + 181584905 ctctactaaaagtacaaaa-attagccgggtgtggtagtacatgcctgtaatcccagctacttgggaggctgaggaaggaaaatcacttgaacctgggaggtggaggttgcagtgaggcgagatcgcgccactgcactccagcctatgcgacgggagcgacactccatctc--------aaaaaaaa----t---------aat--aataaaaaggaaaag------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16201506 197 +  18395747 ctctactaaaagtacaaaa-attagccgggtgtggtagtacatgcctgtaatcccagctacttgggaggctgaggaaggaaaatcacttgaacctgggaggtggaggttgcagtgaggcgagatcgcgccactgcactccagcctatgcgacgggagcgacactccatctc--------aaaaaaaa----t---------aat--aataaaaaggaaaag------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5207363 197 +  26952557 ctctactaaaagtacaaaa-attagccgggtgtggtagtacatgcctgtaatcccagctacttgggaggctgaggaaggaaaatcacttgaacctgggaggtggaagttgcagtgaggcgagatcgcgccactgcactccagcctacgcgacgggagcgacactccatctc--------aaaaaaaa----t---------aat--aataaaaaggaaaag------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28315162 196 +  82825804 ttctactaaaagtgcaaaa-attagccaggtatggtagtacatgcctgtaatcccagctacttgggaggctgaggaaggaaaatcacttgaacctgggaggtggaggttgcagtgaggcgagatcgcaccactgcactccagcctacgcgacgggagcgacactccatctc--------aaaaaaaa--------------aaa--aaaaaaaaggaaaag------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3979338 198 -   4237731 ctctactaaaagtacaaaa-attagccgggtgtggtagtacatgcctgtaatcccagctacttgggaggctgaggaaggaaaatcacttgaacctgggaggtggaggttgcagtgaggcgagatcgcgccactgcactccagcctacgcgacgggagcgacactccatctc--------aaaaaaaa---at---------aat--aataaaaaggaaaag------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      249036 201 -   1175262 ctctgctaaaagtacaaaa-attagccgggtatggtggtacatgcctgtaatcccagctacttgagaggctgaggaaggagaatcatttgaacctgggaggtggaggttgcagtgaggcgagatcgcgccactgcactctagcctacgcggccggagcgacactccatctc--------aaaaaaaaaaaaa---------aaa--aaaaaaaaggaaaaG------
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123583164 190 - 204313951 ctctactaaaaatacaaaagagtagctgggtatggtgatgcacacttgtagtcccagctacttgggaggctgaggaaagagaatgacttgaacccaggaggtggaggttacagtaagccaagattgtaccactgcactccagcctgggcaatgggagcaacactccatctt----------aaaaaa----a---------aaa--aaaaaaaag------------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55638894 187 -  71252344 ctctactaaaaatacaaaagagtagctggatatggtggtgcacgcctgtaatgcaagctacttgggaagctgaggaaacagaatcacttgaacccaggaggtggaggttgcagtaagccaagattgcgccattgcactccagcctgggcaatgggagtgacattccatctt-------------aaa----a---------aaa--aaaaaaaag------------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1333241 207 -   1400280 ctctactaaaaatacaaaagagtagctgagtatggtggtgcacacctgtaatcccagctacttgggaggctgaggaaagagaatcacttgaacccaggaggtggaggttgaagtaagccaagattacgccattgcactccagcctgggcaatgggagcggcactccatcaaaca-----aaaaaaaa----a---------aaa--aaaaaaaaGTAAAAGAAAAAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13126165 200 -  42888418 ctctactaaaaatacaaaagattagccgggtatgatggtgcacgcctgtaatcccagctacttgggaggctgaggaaagagaatcacttgaactcaggaggtggaggttgcagtaagccaagattgtgccattgcacttcagcctgggcaatgggagtgacactccatctcaaaaaaataaaataaa----a---------taa--aagaaaaaG------------
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60498154 242 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529132 235 +  11683526 I
e otoGar3.GL873679           3010229  94 +   4132165 I
e dasNov3.JH567306           2563004   0 +   3667625 C
e mm10.chr18                55476325 303 +  90702639 I

a score=24752.000000
s hg38.chr5_KI270796v1_alt     24201 2 +    172708 aa
s panTro5.chr5             125134283 2 + 181907262 aa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126471246 2 + 183735486 aa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662758 2 +   8933513 aa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139794574 2 + 163208435 AA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122780301 2 + 180051392 aa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203978 2 + 181584905 aa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16201703 2 +  18395747 aa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5207560 2 +  26952557 aa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28315358 2 +  82825804 aa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3979536 2 -   4237731 aa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      249237 2 -   1175262 AA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123583354 2 - 204313951 aa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55639081 2 -  71252344 aa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1333448 2 -   1400280 AA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13126365 2 -  42888418 AA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3010323 2 +   4132165 AA
i otoGar3.GL873679         I 94 C 0
e micMur3.chr12             60498154 242 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529132 235 +  11683526 I
e dasNov3.JH567306           2563004 0 +   3667625 C
e mm10.chr18                55476325 303 +  90702639 I

a score=10438.000000
s hg38.chr5_KI270796v1_alt     24203 1 +    172708 a
s panTro5.chr5             125134285 1 + 181907262 a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126471248 1 + 183735486 a
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662760 1 +   8933513 a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139794576 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122780303 1 + 180051392 a
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203980 1 + 181584905 a
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16201705 1 +  18395747 a
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5207562 1 +  26952557 a
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28315360 1 +  82825804 a
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3979538 1 -   4237731 A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      249239 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123583356 1 - 204313951 a
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55639083 1 -  71252344 a
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1333450 1 -   1400280 A
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13126367 1 -  42888418 A
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3010325 1 +   4132165 C
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55476628 1 +  90702639 A
i mm10.chr18               I 303 C 0
e micMur3.chr12             60498154 242 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529132 235 +  11683526 I
e dasNov3.JH567306           2563004 0 +   3667625 C

a score=2114701.000000
s hg38.chr5_KI270796v1_alt     24204 190 +    172708 ATTTAATCTGAACAATAAGCACTGTTTATGGATAGTTGATAAGACATGACCAGACTC----GCTTAGACCCAATGATGATGAAGGAAATAGAACACAGAAATATGTAAGCAGGTACATCA-AGAACTTCTTTTTATGGTATTACGTCCTCCTCTAGAGTAGTAAACCCACAGCTCAAGACTCCTAAGACTGGTGA
s panTro5.chr5             125134286 190 + 181907262 ATTTAATTTGAACAATAAACACTGTTTATGGATGGTTGATAAGACATGACCAGACTG----GCTTAGACCCAATGATGATGAAGGAAGTAGAACACAGAAATATGTAAGTAGGTACATCA-AGAACTTCTTTTTATGGTATTAAGTCCTCCTCTAGAGCAGTAAACCCACAGCTCAAGACTCCTAAGACTGGTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126471249 190 + 183735486 aTTTAATTTGAACAATAAACACTGTTTATGGATCGTTGATAAGACATGACCAGACTG----GCTTAGACCCAATGATGATGAAGGAAGTAGAACACAGAAATATGTAAGTAGGTATATCA-AGAACTTCTTTTTATGGTATTAAGTCCTCCTCTAGAGCAGTAAACCCACAGCTCAAGACTCCTAAGACTGGTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662761 190 +   8933513 aTTTAATTTGAACAATAAGCACTGTTTATGGATGGTTGATAAGACATGACCAGACTG----GCTTAGACCCAATGACGATGAAGGAAATAGAACACAGAAATATGTAAGTAGGTATATCA-AGAACTTCTTTTTATGGTATTACGTCCTCCTCTAGAGCAGTAAACCCACAGCTCAAGACTCCTAAGACTGGTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139794577 188 + 163208435 ATTTAATTTGAACAATAAGCACTGTTTATGGATGGTTGATAAGACATGACCAGACTG----TCTTAGACTCAATGACGACGAAGGAAATAGAACACAGAAATATGTAATTAGGTACATCA---AACTTCTTTTTATGGTATTATGTCCTCCTCTAGAGCAGTAAACCCACAGCTCAAGACTCCTAAGACTGATTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122780304 190 + 180051392 ATTTATTTTGAACAATAAGCACTGTTTGTGGATGGTTGATAAGACATGACGAGACTG----GCTTAGACCCAATGACGATGAAGGAAATAGGACACAGAAATATGTAACTAAGTACATCA-AGAACTTCTTTTTATGGTATTACGTCGTCCTCTAGAGCAGTAAACCCACAGCTCAAGACTCCTAAGATTGGTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124203981 190 + 181584905 ATTTATTTTGAACAATAAGCACTGTTTGTGGATGGTTGATAAGACATGACGAGACTG----GCTTAGACCCAATGACGATGAAGGAAATAGGACACAGAAATATGTAACTAAGTACATCA-AGAACTTCTTTTTATGGTATTACGTCGTCCTCTAGAGCAGTAAACCCACAGCTCAAGACTCCTAAGATTGGTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16201706 190 +  18395747 ATTTATTTTGAACAATAAGCACTGTTTGTGGATGGTTGATAAGACATGACGAGACTG----GCTTAGACCCAATGACGATGAAGGAAATAGGACACAGAAATATGTAACTAAGTACATCA-AGAACTTCTTTTTATGGTATTACGTCGTCCTCTAGAGCAGTAAACCCACAGCTCAAGACTCCTAAGATTGGTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5207563 190 +  26952557 ATTTATTTTGAACAATAAGCACTGTTTGTGGATGGTTGATAAGACATGACGAGACTG----GCTTAGACCCAATGACGATGAAGGAAATAGGACACAGAAATATGTAACTAAGTACATCA-AGAACTTCTTTTTATGGTATTACGTCGTCGTCTAGAGCAGTAAACCCACAGCTCAAGACTCCTAAGATTGGTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28315361 188 +  82825804 aTTTATTTTGAACAATAAGCACTGTTTGTGGATGGCTGATAAGACATGACGAGACTG----GCTTAGACCCAATGACGATGAAGGAAATAGGACACAGAAATATGTAACTAGGTATATCA-AGAACTTCTTTTTATGGTATTACGTCGTCCTCTAGAGCAGTAAACCCATAG--CAAGACTCCTAAGATTGGTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3979539 190 -   4237731 ATTTATTTTGAACAATAAGCACTGTTTGTGGATGGTTGATAAGACATGACGAGACTG----GCTTAGATCCAATGACGATGAAGGAAATAGGACACAGAAATATGTAACTAAGTACATCA-AGAACTTCTTTTTATGGTATTACGTCGTCCTCTAGAGCAGTAAACCCACAGCTCAAGACTCCTAAGATTGGTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      249240 190 -   1175262 ATTTATTTTGAACAATAAGCACTGTTGGTGGATGGTTGATAAGACATGACGCGACTG----GCTTAGACCCAATGACGATGAAGGAAATAGGACACAGAAATATGTAACTAGGTACATCA-AGAACTTCTTTTTATGGTATTACGTCCCCCTCTAAAGCAGTAAACCCACAGCTCAAGACTCCTAAGATTGGTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123583357 189 - 204313951 aTTTATTTTGAACAACAAGCAGTGTATGTGGATGGTTGGTAAGACATGACCCGACTG----GCTTAGACCCAATGATAATCAAGGAAATAGGATACAGAAATATGTAACTAGGTACATCA-AGAACTTCTTTTTATGGTATTACATCCTCCTCTAGAG-AATAAACCCACTGCTCAAGACTCCTAAGACTGGTGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55639084 189 -  71252344 aTTTATTTTGAACAACAAGCAGTGTATGTGGATGGTTGGTAAGACATGACCCGACTG----GCTTAGACCCAATGACGACCAAGGAAATAGTATACAGAAATATGTAACTAGGTACATCA-AGAACTTCTTTTTATGGTATTACATCCTCCTGTAGAG-AATAAACCCACTGCTCAAGACTCTTAAAACTAGTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1333451 189 -   1400280 ATTTATTTTGAACAACAAGCAGTGTATGTGGATAGTTAGTAAGACATGACCCGACTA----GCTTAGACCCAATGACGATGAAGGAAATAGTATACAGAAATATGTAACTAGGTACATCA-AGAGCTTCTTTTTATGGTATTACATACTCCTCTAGAG-AATAAACCCACTGCTCAAGACTCCTAAGACTGGTTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13126368 189 -  42888418 ATTTATTTTGAACAACAAGCAGTGTATGTGGATGGTTGGTAAGACATGACCCGACTG----GCTTAGATCCAATGACAATGAAGGAAATAGAACACAGAAATATGTAACTAGGTACATCA-AGAACTTCTTTTTATGGTATTACATCCTCCTCTAGAG-AATAAACCCACTGCTTAAGACTCCTAAGACTGGTTA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3010326 190 +   4132165 ATTTATTTTGAGCATCAAGTACCATTTGTGGCAGGTTAGGTAGATGTGACCAGAGTG----GCTTTGTCTCAATGATTATGAAGGAAATAGCACACAGGAATATGTAACTGGGGATATCA-AGAATGTCTTTTTATGGAATTGTGTCTTCCCCCAACTCAGTGAGCCCACACCTCAAAGCATGTAGGGCTGGTGA
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55476629 182 +  90702639 ATTTCCTTTGGAAAAT-AGCACAGTTTATAGAAGGTTGGTAAGACATTATCAGGCTGCCTTACTTATAGTCATTCATTCTGAAGAAAAC---ACACAGAAATATGAAAC-AAATACAACA-GTAATTTCTCTAAAGGATGCCATCAACTGCCC------AGAGAGTTCATCGCTCATGTCTTTTAGGTCAGTGT-
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2563004 136 +   3667625 ATTTATTTTGAACA---AGTACTGACTGTGGATGTTAGAT---------CTAGGCTG----GCTTAGATCTAATGACTCTGAAAGAAATAAAACACAGAGACATGTAAGCAGGCATGTCAAAAAACTCCTTTATATAATATTATGTCTTCCA-------------------------------------------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60498154 242 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529132 235 +  11683526 I

a score=1666571.000000
s hg38.chr5_KI270796v1_alt     24394 126 +    172708 TTTATTTACTCCTTCTGGGCTCCATTGACCAAAGAACTTTTGAG-TGTGTTTTTCTGTA-AGTAATGA-----------AGAAAGTAATGGGC----AGCTGAGTCTACTCATTTGTATTCACATCTGGTATAAATCCTTT-CT
s panTro5.chr5             125134476 126 + 181907262 TTTATTTACTCCTTCTGGGCTCCATTGACCAAAGAACTGTTGAG-TGTGTTTTTCTGTA-AGTAATGA-----------AGAAAGTAATAGGC----AGCCGAGTCTACTCATTTGTATTCACATCTGGTATAAATCCTTT-CT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126471439 126 + 183735486 TTTATTTACTCCTTCTGGGCTCCATTGACCAAAGAACTGTTGAG-TGTGTTTTTCTGTA-AGTAATGA-----------AGAAAGTAATAGGC----AGCCGAGTCTACTCATTTGTATTCACATCTGGTATAAATCCTTT-CT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1662951 126 +   8933513 TTTATTTATTCCTTCTGGGCTCCATTGACCAAAGAACGGTTGAG-TGTGTTTTTCTGTA-AGTAATGA-----------AGAAAGTAATGGGC----AGCTGAGTCTACTCATTTGTATTCACATTTGGTATAAATCCTTT-CT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139794765 126 + 163208435 TTTATTTATTCCTTCTGGGCTCCATTGACCAAAGAACTCTTGAG-TGTGTTTTTCTGTG-AGTAATGA-----------AGAAAGTAATGGGC----AGCTGAGTCTACTCATTTGTATTCACATTTGGTATAAATCCTTT-CT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122780494 126 + 180051392 TTTATTCACTCCTTCTGGGCTCCATTGACCAAAGAACTGTTGAG-TATGTTTTTCTGTG-AGTAATGA-----------AGAAAGTAATGGGC----AGCTGAGTCTACTCATTTGTATTCACTTTTGGTATAAATTCTTT-CT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124204171 126 + 181584905 TTTATTCACTCCTTCTGGGCTCCATTGACCAAAGAACTGTTGAG-TATGTTTTTCTGTG-AGTAATGA-----------AGAAAGTAATGGGC----AGCTGAGTCTACTCATTTGTATTCACTTTTGGTATAAATTCTTT-CT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16201896 127 +  18395747 TTTATTCACTCCTTCTGGGCTCCATTGACCAAAGAACTGTTGAGTTATGTTTTTCTGTG-AGTAATGA-----------AGAAAGTAATGGGC----AGCCGAGTCTACTCATTTGTATTCACTTTTGGTATAAATTCTTT-CT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5207753 126 +  26952557 TTTATTCACTCCTTCTGGGCTCCATTGACCAAAGAACTGTTGAG-TATGTTTTTCTGTG-AGTAATGA-----------AGAAAGTAATGGGC----AGCTGAGTCTACTCGTTTGTATTCACGTTTGGTATAAATCCTTT-CT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28315549 126 +  82825804 TTTATTCACTCCTTCTGGGCTCCATTGACCAAAGAACTGTTGAG-TATGTTTTTCTGTG-AGTAATGA-----------AGAAAGTAATGGGC----AGCTGAGTCTACTCATTTGTATTCACGTTTGGTATAAATCCTTT-CT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3979729 126 -   4237731 TTTATTCACTCCTTCTGGGCTCCATTGACCAAAGAACTGTTGAG-TATGTTTTTCTGTG-AGTAATGA-----------AGAAAGTAATGGGC----AGCTGAGTCTACTCATTTGTATTCACGTTTGGTATAAATCCTTT-CT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      249430 126 -   1175262 TTTATTCACTCCTTCTGGGCTCCATTGACCAAAGAACTGTTGAG-TATGTTTTTCTGTG-AGTAATGA-----------AGAAAGTAACGGGC----AGCTGAGTCTACTCATTTGTATTCACGTTTGGTATAAATCCTTT-CT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123583546 126 - 204313951 TGTACTTACTCCTTCTGGGCTCCACTGACCAAAGAACTGTTGCG-TATGTTTCTCTGTG-AGTGATGA-----------CGATAGTAACGGGC----AACTGAGTCTACTCATTTGTATTCACATTTGGTATAAATCCTTT-CT
i calJac3.chr2             C 0 I 7288
s saiBol1.JH378106          55639273 126 -  71252344 TGTATTTACTCCTTCTTGGCTCCATTGACCAAAGAACTGTTGCA-TATGTTTCTCTGTG-AATAATGA-----------AGAAAGTAACGGGC----AACTGAGTCGACTCATTTGTATTCACATTTGGTGTAAATCCTTT-CT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1333640 126 -   1400280 TGTATTTACTACTTCTGGGCTCCATTGACCAAAGAACTGTTGCG-TATGTTTCTCTGTG-AATAATGA-----------AGAAAGTAATGGGC----AACTGAGTCTACTCATTTGTATTCACATTTGGTATAAATCCTTT-CT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13126557 126 -  42888418 TGTATTTACTTCTTCTGGGCTCCATTGACCAAAGAGCTTTTGCG-TATGTTTCTCTGTG-AGTAATGA-----------AGAAAGTATCGGGC----AGCTGAGTCTACTCATTTGTATTCACATTTGGTATAAATCCTTT-CT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60498396 123 + 108143057 TTTATTTAGTCCTTCTGGGCTCCCCTGACCAAAGAAGTTCTGAA---TGTTCTTCTGTG-AGTAATGA-----------GGAGAGTAACGGGG----AGCTGTGTCCATTCATTTATATTCATATTTTCTATAAATCCTTT-T-
i micMur3.chr12            I 242 C 0
s proCoq1.NW_012155062v1     3529367 118 +  11683526 TTTACTTAGTCCTTCTGGGCTCCACTGACCAAAGAA---CAGAA---TGTTCTTC--TG-AGTAATGA-----------GGAAAATAACAGGG----AGCTGTGTCCACTCATTTGTATTCATATTTTCTAGAAATCCTTT-T-
i proCoq1.NW_012155062v1   I 235 C 0
s otoGar3.GL873679           3010517 122 +   4132165 TTTATTTACTCCTTCT-GGCTCCATTGACAAAAGAACTTCTGAA---AATTCTTCC-AA-AGTAATGA-----------GGAAAGTCACTGAA----AGGTGTGTCCGCTCATTTGTATTCCTATTTTCTATAAATTCTTTGT-
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55476811 141 +  90702639 ATCATATACTTTATCTGGGATCCATGGTCTAAAGAATGCTTGAA-TGTAATAATGTTTGAAGTAATAATGCTCATGAATAATAAGTAATGAATCATGAATTATGTCCACTTATTT-CATGCATGCTTGGTGTAGGTCCTTT-AT
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2563140  93 +   3667625 TTTGTTT------------------------AAGAAATGCTGCT---------TCTGTG-AAGAATGA-----------GGGGAGTTATGGG-----AGCTGTGTCCACTCACCTGTATTCTTATTTGGCATAAATTCTTT-AT
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14872099 168 +  74389097 I

a score=1122917.000000
s hg38.chr5_KI270796v1_alt     24520 89 +    172708 ACTGCTCATTGCT-GTCGGTTGTATATCTATGAAAGAGCAACAATGAACAAAATCTGAGTCTTGGTCCTTGTATTATTTATCTAATGCTA
s panTro5.chr5             125134602 89 + 181907262 ACTGCTCATTGCT-GTTGGTTGTATATCTATGAAAGAGCAACAATGAACAAAATCTGAGTCTTGGTCCTTGTATTATTTATCTAATGCTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126471565 89 + 183735486 ACTGCTCATTGCT-GTTGGTTGTATATCTATGAAAGAGCAACAATGAACAAAATCTGAGTCTTGGTCCTTGTATTATTTATCTAATGCTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1663077 89 +   8933513 ACTGCTCATTGCT-GTTGGTTGTATATCTATGAAAGAGCAACAATGAACAAAATCTGAGTCTTGGTCCTTGTATTATTTATCTAATGCTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139794891 89 + 163208435 ACTGCTCATTGCT-GTTGGTTGTATATCTATGAAAGGGCAACAGTGAACAAAATCTGAGTCTTGGTCCTTGTATTATTTATCTAATGCTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122780620 86 + 180051392 ACTGCTCATTGCT-GTTGGTTGTAT---TACGGAAGAGCAACAGTGAACAAAATCTGAGTCTTGGTTCTTGCATTATTTATCTAAAGCTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124204297 86 + 181584905 ACTGCTCATTGCT-GTTGGTTGTAT---TACGGAAGAGCAACAGTGAACAAAATCTGAGTCTTGGTTCTTGCATTATTTATCTAAAGCTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16202023 86 +  18395747 ACTGCTCATTGCT-GTTGGTTGTAT---TACGGAAGAGCAACAGTGAACAAAATCTGAGTCTTGGTTCTTGCATTATTTATCTAAAGCTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5207879 86 +  26952557 ACTGCTCATTGCT-GTTGGTTGTAT---TACGGAAGAGCAACAGTGAACAAAATCTGAGTCTTGGTTCTTGCATTATTTATCTAAAGCTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28315675 86 +  82825804 ACTGCTCATTGCT-GTTGGCTGTAT---TATGGAAGAACAACAGTAAACAAAATCTGAGTCTTGGTTCTTGTATTATTTATCTAAAGCTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3979855 86 -   4237731 ACTGCTCATTGCT-GTTGGTTGTAT---TACGGAAGAGCAACAGTGAACAAAATCTGAGTCTTGGTTCTTGCATTATTTATCTAAAGCTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      249556 89 -   1175262 ACTGCTCATTGCT-GTTGGTTGTATATCTATGGAAGAGCAACAGTGAACAAAATCTGAGTCTTGGTTCTTGCATTATTTATCTAAAGCTA
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55639399 89 -  71252344 ACTGCTCATTGTT-GTTGGTTGTGTATCTATGAAAGAGCAACAATGAATAAAATCTGAGTCTTGGCCCTTGTATTATGTATCTAATGCTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1333766 89 -   1400280 ACTGCTCGTTGTT-GTTGGTTGTATATCTATGAAAGAGCAACAATGAATAAAATCTGAATCTTGGCCCTTGTATTATGTATCTAATGCTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13126683 89 -  42888418 ACTGCTCATTGTT-GTTGGTTGTATATCTATGAAAGAGCAACAATGAGTAAAATCTGAGTCTTGGCCCTTGTATTATGTGTCAAATGCTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60498519 87 + 108143057 ACTGCTCATTGCTGGTTGATAG---ATCTATGAAAGAGCAACAATGAACAAAATCGGAGTCTCTGTCTTTGTATCATTTATCTAACGCTA
i micMur3.chr12            C 0 I 835
s proCoq1.NW_012155062v1     3529485 90 +  11683526 ACTGCTCACTGCCGGTTGATAGTACATCTATGAAAGAGCAACAGTGAACAAAATCTGAGTCTTGGTCCTTGTATCATTTATCTAATGCTA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3010639 90 +   4132165 ATTGCTCACTGTTGGTTGATAGCACATCCATGAAAGAGCAACCATGAACCAAATCTGAGTCTTGGTCCTTGTGTCATGTATCTAATGCTA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55476952 75 +  90702639 AGTGCACATACCT-GACGTTGGTGCATCTAAG--------------AACACAATCAGAGTCTCGATCCTTGCATAATTTGTCTAATGCTA
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2563233 84 +   3667625 ATTGCTCATTGTTGGTTGGTAGTATATTTACGCAAAAGCAGCACTGAACCAAATCTAAGTC------ATTGCATAGTTCATCTAATACTG
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14872099 168 +  74389097 I
e calJac3.chr2             123583672 7288 - 204313951 I

a score=1269535.000000
s hg38.chr5_KI270796v1_alt     24609 112 +    172708 TGTAGAAAAAT-----ACTGTTGTCTAAATAATaatttgcacagagcctacctgggatgacttgtctctggtcgaagag-gggttggctaggcttatacatacatttgcagtc--ctacc
s panTro5.chr5             125134691 111 + 181907262 TGTAGAAAAAT-----ACTG-TGTCTAAATAATaatttgcacagagcctacctgggatgacttgtctctggtcgaagag-gggttggctaggcttatacatacatttgcagtc--ctacc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126471654 111 + 183735486 TGTAGAAAAAT-----ACTG-TGTCTAAATAATaatttgcacagagcctacctgggatgacttgtctctggtcgaagag-gggttggctaggcttatacatacatttgcagtc--ctacc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1663166 111 +   8933513 TGTAGAAAAAT-----ACTG-TGTCTAAATAATaatttgcacagagcctacctgggatgacttgtctctggtcgaagag-gggttggctaggcttatacatacatttgcagcc--ctatc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139794980 111 + 163208435 TGTAGAAAAAT-----ACTG-TGTCTAAATAATaatttgcacagagcctacctgggatgacttgtctctggttgaagag-gggttggctaggcttatgcatacatttgcagtc--ctacc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122780706 111 + 180051392 TGTAGAAAAAT-----ACTG-TGTCTAAATAATaatttgcacagagcctacctgggatgacgtgtctctggttgaagag-gggttggctaggcttatacatacatttgcagtc--ctacc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124204383 111 + 181584905 TGTAGAAAAAT-----ACTG-TGTCTAAATAATaatttgcacagagcctacctgggatgacgtgtctctggttgaagag-gggttggctaggcttatacatacatttgcagtc--ctacc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16202109 111 +  18395747 TGTAGAAAAAT-----ACTG-TGTCTAAATAATaatttgcacagagcctacctgggatgacgtgtctctggttgaagag-gggttggctaggcttatacatacatttgcagtc--ctacc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5207965 111 +  26952557 TGTAGAAAAAT-----ACTG-TGTCTAAATAATaatttgcacagagcctacctgggatgacgtgtctctggttgaagag-gggttggctaggcttatacatacatttgcagtc--ctacc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28315761 111 +  82825804 TGTAGAAAAAT-----ACTG-TGTCTAAATAATaatttgcacagagcctacctgggatgacttgtttctggttgaagag-gggttggctaggcttagacatacatttgcagtc--ctacc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3979941 111 -   4237731 TGTAGAAAAAT-----ACTG-TGTCTAAATAATaatttgcacagagcctacctgggatgacgtgtctctggttgaagag-gggttggctaggcttatacatacatttgcagtc--ctacc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      249645 111 -   1175262 TGTAGAAAAAT-----ACTG-TGTCTAAATAATaatttgcacagagcctacctgggatgacttgtctctggttgaagag-gggttggctaggcttatacatacatttgcagtc--ctacc
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55639488 111 -  71252344 TGTAGAAAAAT-----ACTG-TATCTAAATAATAATTTGCACAGAGCCTACCTGGAATGACTTGTCTCTAGTTGAAGAG-GGGTTGGCTGGGTTTATACATGCATTTGCAGCC--CTACC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1333855 111 -   1400280 TGTAGAAAAAT-----ACTG-TGTCTCAATAATAATTTGCACAGAGCCTACCTGGGGTGACTTGTCTCTGGTGGAAGAG-GGGttggctaggtttatacatgcatttgcagtc--ctacc
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13126772 111 -  42888418 TGTAGAAAAAT-----ACTG-TGTCTAAATAATAATTTGCACAGAGCCTACCTGGGATGACTTGTCTCTGGTTGAAGAG-GGGTTGGCTAGGTTTATACATGCATTTGCAGGC--CTACC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3529575 107 +  11683526 --CACAAAAAA-----GCTA-TACTT--GTAACAATTTGCACAGATCCCAGCTGGAATGACTTGTCTCTGAATGAAGAG-GGGCTGGCTGGGCTCATGTATGCATTTGCAGTC--CTTCT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3010729 103 +   4132165 --CACAGAATA-----GCTA-TACTC--ATAGTAATTTGCACTG--CCCCTCTGGGATGACTCTTCTC-AATTAGAGAG-GGGTTGGCTGGGCTCATGTAGGCATTTTCAGT---TTTCA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55477027 114 +  90702639 CATAAGAAAGTGAAGAACTG-CATTTGAATAATAATTTTCATAGAGCTCAATCTCAATCATTTCTCTTTGCTAAGGAAGTGGGttgaccaggctcatgaggtcatttgt-gtc--tt--c
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2563317 111 +   3667625 --CATAAACAA-----ACTA-TACCCAATCTGTACTTTGTGCATAACCCTACTGAAATGGCTCTTTTTTGTTTGAAGAG-GTGTTGGGTAAATTCACTTACACATTTGCAATCaactacc
i dasNov3.JH567306         C 0 I 1090
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e calJac3.chr2             123583672 7288 - 204313951 I

a score=3206782.000000
s hg38.chr5_KI270796v1_alt     24721 306 +    172708 agttacattagctggtaactgactggtcccagatggcctcatttgtat-gtttggcagtt-attagagctgttttccagagtgagtctactcttttctacatggcttctctagcaggctaccatgggcttcctcacgtggccactagattttaaggagatgagagc-------------------------------------------------agaaactattaagacattctaagacctgag--caaa-aattgcacaatatcacttctgccacatactattgatgaatgtaaatcacaaagacagcccaggtccaattggtgggaaaggaggctctatctctcaacgggatgagct
s panTro5.chr5             125134802 306 + 181907262 agttacattagctggtaactgactggtcccagatggcctcatttgtat-gtttggcagtt-attagagctgttttccagagtgagtctactcttttctacatggcttctctagcaggctaccatgggcttcctcacatggccactagattttaaggagatgagagc-------------------------------------------------agaaactattaagacattctaagacctgag--caaa-aattgcacaatatcacttctgccacatactattgatgaatgtaaatcacaaagacagcccaggtccaattggtgggaaaggaggctctatctctcaatgggatgagct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126471765 306 + 183735486 agttacattagctggtaactgactggtcccagatggcctcatttgtat-gtttggcagtt-attagagctgttttccagagtgagtctactcttttctacatggcttctctagcaggctaccatgggcttcctcacatggccactagattttaaggagatgagagc-------------------------------------------------agaaactattaagacattctaagacctgag--caaa-aattgcacaatatcacttctgccacatactattgatgaatgtaaatcacaaagacagcccaggtccaattggtgggaaaggaggctctatctctcaatgggatgagct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1663277 306 +   8933513 agttacattagctggtaactgactggtcccagatggcctcacttgtat-gtttggcattt-attagagctgttttccagagtgagtctactcttttctacacggcttctctagcaggctaccatgggcttcctcacatggccactagattttaagaagatgagagc-------------------------------------------------agaaaatattaagacattctaagacctgag--cata-aattgcacaatatcacttctgccacatactattgatgaatgtaaatcacaaagacagcccaggtccaactggtgggaaaggaggctttatctctcaatgggatgagct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139795091 300 + 163208435 agttacgttagctggtaactgactggtcccagatggcctcacttgtat-gtttggcagtt-gttagagctgttttccagagtgagtctactcttttctacatggcttctctagcaggctaccatgggcttcctcacacggccactagattttaaggagatgag-------------------------------------------------------aactattaagactttctaagacctgag--cata-aattgtccaatgtcacttctgccacatactattgaggaatgtaaatcacaaagacagcccaggtccaattggtgggaaaggaggctctgtctctcaatgggatgagct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122780817 306 + 180051392 agctacattagctggtaactgactggtcccagatggcctcacttgtat-gtttggcagtt-gttaaagctgttttccagaatgaatccactcttttctacatggcttctctagaaggttagcatggacttcctcacatggccactagattttaaggagatgagagc-------------------------------------------------agaaattattaagacattctaagacccaag--cata-aattgcacaatgtcacttctgtcacatactgttaatgaatgtaaatcacaaagatagcccaggtccaactggtgggaaaggaggctctatctctcagtgggatgagcc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124204494 306 + 181584905 agctacattagctggtaactgactggtcccagatggcctcacttgtat-gtttggcagtt-gttaaagctgttttccagaatgaatccactcttttctacatggcttctctagaaggttagcatggatttcctcacatggccactagattttaaggagatgagagc-------------------------------------------------agaaattattaagacattctaagacccaag--cata-aattgcacaatgtcacttctgtcacatactgttaatgaatgtaaatcacaaagatagcccaggtccaactggtgggaaaggaggctctatctctcagtgggatgagcc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16202220 306 +  18395747 agctacattagctggtaactgactggtcccagatggcctcacttgtat-gtttggcagtt-gttaaagctgttttccagaatgaatccactcttttctacatggcttctctagaaggttagcatggacttcctcacatggccactagattttaaggagatgagagc-------------------------------------------------agaaattattaagacattctaagacccaag--cata-aattgcacaatgtcacttctgtcacatactgttaatgagtgtaaatcacaaagatagcccaggtccaactggtgggaaaggaggctctatctctcagtgggatgagcc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5208076 306 +  26952557 agctacattagctggtaactgactggtcccagatggcctcacttgtat-gtttggcagtt-gttaaagctgttttccagaatgaatccactcttttctacatggcttctctagaaggttagcatggacttcctcacatggccactagattttaaggagatgagagc-------------------------------------------------agaaattattaagacattctaagacccaag--cata-aattgcacaatgtcacttctgtcacatactgttaatgaatgtaaatcacaaagatagcccaggtccaactggtgggaaaggaggctctatctctcagtgggatgagcc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28315872 306 +  82825804 agctacattagctggtaactgactggtcctagatggcctcacttgtat-gttcggcagtt-gttaaagctgttttccagaatgaatccactcttttctacatagcttctctagaaggtcagcatggacttcctcacatggccactagattttaaggagatgagagc-------------------------------------------------agaaattattaagacattctaagacccaag--cata-aattgcacagtgtcacttctgtcacatactgttaatgaatgtaaatcacaaagatagcccaggtccaactggtgggaaaggaggctctatctctcagtgggatgagcc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3980052 306 -   4237731 agctacattagctgttaactgactggtcccagatggcctcacttgtat-gtttggcagtt-gttaaagctgttttccagaatgaatccactcttttctacatggcttctctagaaggttagcatggacttcctcacatggccactagattttaaggagatgagagc-------------------------------------------------agaaattattaagacattctaagacccaag--cata-aattgcacaatgtcacttctgtcacatactgttaatgaatgtaaatcacaaagatagcccaggtccaactggtgggaaaggaggctctatctctcagtgggatgagcc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      249756 306 -   1175262 agctacagtagctggtaactgactggtcccagatggcctcacttgtat-gtttggcagtt-gttaaagctgttttccagaatgaatctactcttttctacatggcttctctagaaggttagcatggacttcctcacatggccactagattttaaggagatgagagc-------------------------------------------------agaaattattaagacattctaagacccaag--cata-aattgcgcaatgtcacttctgccacatactgttaatgaatgtaaatcacaaagatagcccaggtccaattggtgggaaaggaggctctatctctcagtgggatgagct
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55639599 305 -  71252344 AGTTACATTAgctggtaaccgacgggtcccagatggcctcacttctat-atttggcagtt-gttagaactgttttccagagtcagtctgctctctgctacatggcttctctagcaggctagcatggacttccttacatggccactagattccaaggagatgaaagc-------------------------------------------------agaaactattaagacatcctaagacctgag--cata-tattgcacaatgtcacttctcctacatactgttgatgaatgcaaatcacaaagacagcctaggtccagttggtgggaaaggagcttctgtctctcaacggg-tgagct
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1333966 305 -   1400280 agttacattagctggtaaccgactggtcccagatggcctcacttctat-gtttggcaggt-gttagaactgttttccagagtgagtctacactcttctacatggcttctctagcaggctagcatggacttccttacgtggccactagattccaaggagatgagagc-------------------------------------------------agaaactattaagacatcctaagacctgag--cata-tattgcacaatgtcacttctcctacatgctattgatgaatgcaaatcacaaagacagcccaggtccagttggtgggaaaggaggctctatctctcaacgga-tgagct
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13126883 305 -  42888418 AGTTACAttagctggtaactgactggtcccagatggcctcacttgtat-gtttgacagtt-gttagaactgttttccagagtgagtctactctcttctatgtggcttctctagcaggctagcatggacttccttacatggccactcgattccaaggagatgagagc-------------------------------------------------agaaattattaagacatcctaagacctgag--cata-tattgcacagtgtcacttctcctacatactattgatgaatgcaaatcacaaagacagcccaggtccagttggtgggaaaggaggctctgtctctcaacggg-tgagct
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3529682 305 +  11683526 G--CAAGTTGGCTGGTAACCGGCTGGTCCCAGGT-GCCTCCCTCATAT-ATCTGGCAGGTGGTTGGAGGTGCTGTCCCGAGTGTGTCTATGCTCTTCTACACAGCttctctagcaggctacctcgggcttcctcatgtggccaccagattctaagaagacaagagt-------------------------------------------------agaaacgg-taagacctcctgagtcctgagctcaaa-agttgcacagtatcacttctgccacattctattgatcaaagcaagtcacaaagccagctcaggtccaactggtgggaaaagaggctccatctctcaatgggatgagct
i proCoq1.NW_012155062v1   C 0 I 393
s otoGar3.GL873679           3010832 303 +   4132165 g--caagttggctggtaattggcaggtcccagctggcctttctcctat-gtctggcagttagctgaagcttctgtcctaggtgagtctatcttctttttcatgggttctacagcaggttggttggggtttcttcacgtgg---ccaggttctaagaagatgagagt-------------------------------------------------agaaactg-caagaccgcctgaggcctgagctcaaa-cattgcacaatgtcacttccaccatattctagtgatcaaagcaagtcacagaggcagctcaggtccaactggtggcaaaaggggctccatctctcaatgggatgagct
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55477141 337 +  90702639 ggcaagatggctaagtgatctgttggttccagagagtcatacctacatggtctagcagtg-gacagagctcttgtgc--actagatctggactcttctctgtggtccccttagcaggtgagctcagacttcttt-catggcaagcagactccaagaatacaaaagagtgagtgagagagagagagagagagagagagagagagagagagagagagagagactg-taaaacttcccaaggcttggg--ctcagaattgCAGGATACCA-------------GTATTGATCCAATCATGTCACCAAGGAAGCCCACATTTAGCTGGGGGAAACA---CCTCTATGTTTCAGTTGGATTTGAC
i mm10.chr18               C 0 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e calJac3.chr2             123583672 7288 - 204313951 I

a score=1387429.000000
s hg38.chr5_KI270796v1_alt     25027 151 +    172708 gtatagtcTGTTTAC--CTTGC--CTGGACTTTACCCACGGAGCTCCATTGTTAATG-------CTTCAGGTATTTATTTTAGC-ACACTCCACTTCTGATTACAATTTCTGTGT-AAGGAGT----------CTATCGTGATATAAAGAAATACCCAAAGACTTAGTGGAAAA
s panTro5.chr5             125135108 151 + 181907262 gtatagtcTGTTTAC--CTTGC--CTGGACTTTACCCACGGAGCTCCATTGTTAATG-------CTTCAGGTATTTATTTTGGC-ACACTCCACTTCTGATTACAATTTCTGTGT-AAGGAGT----------CTATCGTGATATAAAGAAATACCCAAAGACTTAGTGGAAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126472071 151 + 183735486 gtatagtcTGTTTAC--CTTGC--CTGGACTTTACCCACGGAGCTCCATTGTTAATG-------CTTCAGGTATTTATTTTGGC-ACACTCCACTTCTGATTACAATTTCTGTGT-AAGGAGT----------CTATCGTGATATAAAGAAATACCCAAAGACTTAGTGGAAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1663583 152 +   8933513 gtatagtcTCTTTAC--CTTGT--CTGGACTTTACCCACGGAGCTCCATTGTTAATG-------CTTCAGGTATTTATTTTGGCAACACTCCACTTCTGATTACAATTTCTATGT-AAGGAGT----------CTATCGTGATATAAAGAAATACCCAAAGACTTAGTGGAAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139795391 152 + 163208435 gtatagtGTCTTTAC--CTTGT--CTGGACTTTACCCACTGAGCTCCATTGTTAATG-------CTTCAGGTATTTATTTTGGCAACACTCCACTTCTGATTACAATTTCTGTGT-AAGGAGT----------CTATCGTGATATAAAGAGATACCCAAAGACTTAGTGGAAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122781123 159 + 180051392 gtatagtctctttac--cttgt--gtggactttacctacccagctccagtgttaatgctatatacttcaggtatttattgtggcaacactcgacttctgattacaatttcTGTGT-AAGGAGT----------CTATTGTGATATAAAGAAATACCCAAAGACTTAGTGGAAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124204800 159 + 181584905 gtatagtcTCTTTAC--CTTGT--GTGGACTTTACCTACCCAGCTCCAGTGTTAATGCTATATACTTCAGGTATTTATTGTGGCAACACTCGACTTCTGATTACAATTTCTGTGT-AAGGAGT----------CTATTGTGATATAAAGAAATACCCAAAGACTTAGTGGAAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16202526 159 +  18395747 gtatagtctctttac--cttgt--gtggactttacctacccagctccagtgttaatgctatatacttcaggtatttattgtggcaacactcgacttctgattacaatttcTGTGT-AAGGAGT----------CTATTGTGATATAAAGAAATACCCAAAGACTTAGTGGAAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5208382 159 +  26952557 gtatagtcTCTTTAC--CTTGT--GTGGACTTTACCTACCCAGCTCCAGTGTTAATGCTATATACTTCAGGTATTTATTGTGGCAACACTCGACTTCTGATTACAATTTCTGTGT-AAGGAGT----------CTATTGTGATATAAAGAAATACCCAAAGACTTAGTGGAAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28316178 159 +  82825804 gtatagtcTCTTTAC--CTTGT--GTGGACTTTGCCTACCCAGCTCCAATGTTAATGCTATATACTTCAGGTATTTATTGTGGCAACACTCGACTTCTGATTACAATTTCTGTGT-AAGGAGT----------CTATTGTGATATAAAGAAATACCCAAAGACTTAGTGGAAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3980358 159 -   4237731 gtatagtcTCTTTAC--CTTGT--GTGGACTTTACCTACCCAGCTCCAGTGTTAATGCTATATACTTCAGGTATTTATTGTGGCAACACTCGACTTCTGATTACAATTTCTGTGT-AAGGAGT----------CTATTGTGATATAAAGAAATACCCAAAGACTTAGTGGAAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      250062 159 -   1175262 gtatagtctctttgc--cttgt--gtggactttacctacccagctccaatgttaatgctatatacttcaggtatttattgtggcagcactcgacttctgattacaatttcTGTGT-AAGGAGT----------CTGTTGTGATATAAAGAAATACCCAAAGACTTAGTGGGAAA
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55639904 158 -  71252344 gtacagtTTCTTTAC--CTTGT--GTGGACTTTACCCACACAGCTCCAGTGTTAATGCTATGTACTTCAGGGATTTATTTTGGCAACAGTCCATGTCTGATTACACTTTCTGTGT-AAAGAGT----------CTAT-GTGATATAAAGAAATACCCAAAAACTTAGTGGAAAA
i saiBol1.JH378106         C 0 I 2
s cebCap1.NW_016107829v1     1334271 155 -   1400280 gtacagtTTCTTTAC--CTTGT--GTGGACTTTACCCACCCAGCTCCAATGTTAATGCTATGTACTTCAGGTATTTATTTTGGCAACAATCCATGTTTGATTACACTTTCTGTGT---AGAGT----------CCAT-GTGATATAAAGAAATACCC-AAAACTTAGTGGAAAA
i cebCap1.NW_016107829v1   C 0 I 158
s aotNan1.NW_018505940v1    13127188 157 -  42888418 gtacagtttctttac--cttgt--gtggactttacccacccagctccaatgttaatgctatgtacttcaggtatttattttggcaacaatccatgtctgattacACTTTCTGTGT--AAGAAG----------CTAT-GTGATTTAAAGAAATACCCAAAAACTTAGGGAAAAA
i aotNan1.NW_018505940v1   C 0 I 1
s otoGar3.GL873679           3011135 168 +   4132165 gcaCATCTTCCTTGCCTCTTGT--TTAGACCTCACctgcccaggcccagtgttaatgctacatacttcagatatttattttagtaacaatccac--ctagttacaatttcTGTGTTAAAAAGCAAACAAACAACTAT-GTAgtataacaaaatacccgaaaacgtagtggtta-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55477478 151 +  90702639 TCACCATGTCCTTGT--CTTTTTACTGGACTTTACTCACTTGTGT---ATGGGAATACTACACACTTTAGG-----GTTTTCACTAAAACCTACTTCTAGTAACTATTTCTACAT-AAGAAGT----------CTGATGT-ATATAACAAGATACCCCAAAACTTTGTGACAG-
i mm10.chr18               C 0 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e calJac3.chr2             123583672 7288 - 204313951 I

a score=366435.000000
s hg38.chr5_KI270796v1_alt     25178 52 +    172708 ATATAATATTCATTTATTTTTGTCA-TAATTGATTGACCATTGAGAAGGCC--ta
s panTro5.chr5             125135259 52 + 181907262 ATATAATATTCATTTATTTTTGTCA-TAATTTATTGACCATTGAGAAGGCC--ta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126472222 52 + 183735486 ATATAATATTCATTTATTTTTGTCA-TAATTTATTGACCATTGAGAAGGCC--ta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1663735 52 +   8933513 ATATAATATTCATTTATTTTGGTCA-TAATTTATTGACCATTGAGAAGGCC--TG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139795543 52 + 163208435 ATAGAATATTCATTTATTTTGATCA-TAATTTATTGACCATTGAGAAGGCC--TG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122781282 50 + 180051392 ATGTAATATTCACTAATTTTGGTTA-TAATTTATTGACCATTGAGAAGGCC----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124204959 50 + 181584905 ATGTAATATTCACTAATTTTGGTTA-TAATTTATTGACCATTGAGAAGGCC----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16202685 50 +  18395747 ATGTAATATTCACTAATTTTGGTTA-TAATTTATTGACCATTGAGAAGGCC----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5208541 50 +  26952557 ATATAATATTCACTAATTTTGGTTA-TAATTTATTGACCATTGAGAAGGCC----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28316337 50 +  82825804 ATATAATATTCACTTATTTTAGTTA-TAATTTATTGACCATTGAGAAGGCC----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3980517 50 -   4237731 ATATAATATTCACTAATTTTGGTTA-TAATTTATTGACCATTGAGAAGGCC----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      250221 52 -   1175262 ATATAATATTCACTTATTTTGGTTA-TAATTTATTGACCATTGAGAAGGCCTA--
i colAng1.NW_012119644v1   C 0 M 686
s saiBol1.JH378106          55640064 52 -  71252344 ATATAATATTTTTTAATTTTGGTCA-TAATTTACTGACCATTGTGCAGGGg--tg
i saiBol1.JH378106         I 2 I 32
s aotNan1.NW_018505940v1    13127346 52 -  42888418 ATATAATATTCATTAATTTTGGTCA-TAATTTACTGACCATTGTGCAGGCg--tg
i aotNan1.NW_018505940v1   I 1 I 32
s otoGar3.GL873679           3011303 51 +   4132165 gtgtagcacccattta-tttggtcg-tgatttattgaccactattcaggcc--ta
i otoGar3.GL873679         C 0 I 3
s mm10.chr18                55477629 53 +  90702639 ATCTACTGCACATTTATTTGGTCTATTTATTTCCTAACTGTTGAGCAGGGT--TA
i mm10.chr18               C 0 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e cebCap1.NW_016107829v1     1334426 158 -   1400280 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e calJac3.chr2             123583672 7288 - 204313951 I

a score=43987.000000
s hg38.chr5_KI270796v1_alt     25230 26 +    172708 --tatatatat--atacacac-------acacatgta
s panTro5.chr5             125135311 26 + 181907262 --tatatatat--atatacac-------acacatgta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126472274 22 + 183735486 --tatatatat------acac-------acacatgta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1663787 28 +   8933513 --TATATacacacacacacac-------acacatata
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139795595 24 + 163208435 --TATATACAT----ACACGC-------ACACACATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122781332 24 + 180051392 ----TATACAC--ACACACAC-------ACCCATATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124205009 24 + 181584905 ----TATACAC--ACACACAC-------ACCCATATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16202735 24 +  18395747 ----TATACAC--ACACACAC-------ACCCATATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5208591 24 +  26952557 ----TATACAC--ACACACAC-------ACCCATATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28316387 24 +  82825804 ----TATacac--acacacac-------acacacaTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3980567 24 -   4237731 ----TATACAC--ACACACAC-------CCCCATACA
i manLeu1.NW_012103321v1   C 0 C 0
s saiBol1.JH378106          55640148 34 -  71252344 --tatatgtAT-Aatatatacttattatacatatgta
i saiBol1.JH378106         I 32 I 6
s aotNan1.NW_018505940v1    13127430 33 -  42888418 --tatatacac--atatatacatattatacatatgta
i aotNan1.NW_018505940v1   I 32 I 6
s otoGar3.GL873679           3011357 22 +   4132165 --aagatatct--tctctcac-------ctcca----
i otoGar3.GL873679         I 3 C 0
s mm10.chr18                55477682 18 +  90702639 GTAAGATAACT--TCTTTCA-----------------
i mm10.chr18               C 0 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e cebCap1.NW_016107829v1     1334426 158 -   1400280 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e calJac3.chr2             123583672 7288 - 204313951 I
e colAng1.NW_012119644v1      250273 686 -   1175262 M

a score=1501074.000000
s hg38.chr5_KI270796v1_alt     25256 178 +    172708 tgtataatatacacacatacgtataATTGGCTGAGTTTACATATGCAGTTATGGTCAGTTGCCAGGTAGATGGGAGGGGGCTGTCCTGGATGGTCTTGCTCA------TATCTAGCTAGTGGCTGGACTGTTAAACAGGGTACCTTGATTTTCTCCTTGTAGGTT--AGCTCAGCTTCTTCATACA
s panTro5.chr5             125135337 178 + 181907262 tgtataatatacacacatacatataATTGGCTGAGTTTACATATGCAGTTATGGTCAGTTGCCAGGTAGATGGGAGGGGGCTGTCCTGGATGGTCTTGCTCA------TATCTAGCTAGTGGCTGGACTGTTAAGCAGGGTACCTTGATTTTCTCCTTGTAGGTT--AGCTCAGCTTCTTCATATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126472296 178 + 183735486 tgtataatatacacacatacatataATTGGCTGAGTTTACATATGCAGTTATGGTCAGTTGCCAGGTAGATGGGAGGGGGCTGTCCTGGATGGTCTTGCTCA------TATCTAGCTAGTGGCTGGACTGTTAAACAGGGTACCTTGATTTTCTCCTTGTAGGTT--AGCTCAGCTTCTTCATATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1663815 178 +   8933513 tatataatatacacacatacCTATAATTGGCTGAGTTTACATATGCATTTATGGTCAGTTGTCAGGTGGATGGGAGGGGACTGTCCTGGATGGTCTTGCTCA------TATCTAGCTAGTGGCTGGACTGTTAAACAGGGTACCTTGATTTTCTCCTTGTAGGTT--AGCTCAGCTTCTTCATATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139795619 178 + 163208435 TGTATAATATACACACATACGTATAATTGGCTGAGTTTACATATGCAGTTATGGTCAGTTGCCAGGTAGATGGGAGGAGGCTGTCCTGGATGGTCTTGCTCA------TATCTAGCTAGTGGCTGGACTGTTAAACAGGGTACCTTGATTTTCTCCTTGTAGGTT--AGCTCAGCTTCTTCATATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122781356 178 + 180051392 TGTATAATATACACACATGCGTATAATTGGCTGAGCTTACATATGCAGTTATGGTCAGTTGCCAGGTAAATGGGAGGGGGATGTCCTGGATGGTCTTCCTCA------TATCTAGCTAGTGACTGGACTGTTAAACAGGGTACCTTGATTTTCTCCTTGTAGGTT--AGCTCAGCTTCTTCATATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124205033 178 + 181584905 TGTATAATATACACACATGCGTATAATTGGCTGAGCTTACATATGCAGTTATGGTCAGTTGCCAGGTAAATGGGAGGGGGATGTCCTGGATGGTCTTCCTCA------TATCTAGCTAGTGACTGGACTGTTAAACAGGGTACCTTGATTTTCTCCTTGTAGGTT--AGCTCAGCTTCTTCATATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16202759 178 +  18395747 TGTATAATATACACACATGCGTATAATTGGCTGAGCTTACATATGCAGTTATGGTCAGTTGCCAGGTAAATGGGAGGGGGATGTCCTGGATGGTCTTCCTCA------TATCTAGCTAGTGACTGGACTGTTAAACAGGGTACCTTGATTTTCTCCTTGTAGGTT--AGCTCAGCTTCTTCATATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5208615 178 +  26952557 TGTATGATATACACACATACGTATAATTGGCTGAGCTTACATATGCAGTTATGGTCAGTTGCCAGGTAAATGGGAGGGGGATGTCCTGGATGGTCTTCCTCA------TATCTAGCTAGTGACTGGACTGTTAAACAGGGTACCTTGATTTTCTCCTTGTAGGTT--AGCTCAGCTTCTTCATATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28316411 178 +  82825804 TGTATAATATACACACATACGTATAATTGGCTGAGCTTACATATGCAGTTATGGTCAGTTGCCAGGTAAATGGGAGGGGGATGTCCTGGATGGTCTTCCTCA------TATCTAGCTAGTGACTGGACTGTTAAACCGGGTACCTTGATTTTCTCCTTGTAGGTT--AGCTCAGCTTCTTCATATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3980591 178 -   4237731 TGTATAATATACACACATACGTATAATTGGCTGAGCTTACATATGCAGTTATGGTCAGTTGCCAGGTAAATGGGAGGGGGATGTCCTGGATGGTCTTCCTCA------TATCTAGCTAGTGACTGGACTGTTAAACAGGGTACCTTGATTTTCTCCTTGTAGGTT--AGCTCAGCTTCTTCATATA
i manLeu1.NW_012103321v1   C 0 C 0
s saiBol1.JH378106          55640188 178 -  71252344 tgtataatatacacccatatgtataATTGGCTGAGCTTACTTATACAGTTATGGTCAGTTGCCAGGTAGATGGGAGAGGGCTGTCCTGGATGGACTTGCTCA------TATCTAGCTAGTGGCTGGACTGTTAAGCAGGGTACATTGATTTTCTCCTTGTAAGTT--TGTTCAGCTTCTTCATATA
i saiBol1.JH378106         I 6 C 0
s cebCap1.NW_016107829v1     1334584 178 -   1400280 tgtataatatacacccatatatataATTGGCTGAGCTTACTTATACAGTTGTGGTCAGTTGCCAGGTAGATGGAAGGGGGCTGTCCTGGATGGCCTTGCTCA------TACCTAGCTAGTGGCTGGACTGTTAAGCAGGGTACCTTGATTTTCTCCTTGTAGGTT--TATTCAGCTTCTTCATATA
i cebCap1.NW_016107829v1   I 158 C 0
s aotNan1.NW_018505940v1    13127469 178 -  42888418 tgtataatatataCCCATAGGTATAATTGGCTGAGGTTACTTATACAGTTATGGTCAGTTGCCAGGTAGATGGGAGAGGGCTGTCCTGGATGGGCTTGCTCA------TATCTAGCTAGTGGCTGGACTGTTAAGCAGGGTACCTTGATTTTCTCCTTGTAGGTT--TGTTCAGCTTCTTCATATA
i aotNan1.NW_018505940v1   I 6 C 0
s otoGar3.GL873679           3011379 165 +   4132165 ---------------------cgagaggggctaagctttctcatgcatttgtgatcagttgacaagtaggttggaggcCATGGTCCTAGATGGTCTTTCTTACTCATGTATCTTACCAGTGTCTGGGCTGCTAAACAGGGAGTCTTGATTCTCCGCTTGGAAGCTAAAGGTCAGCTGCTTCATATA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55477700 152 +  90702639 ----------ACTCAAGATCGTTGACTTGGT----CTTATGTTTGCATTT-TAATTAGGCATCAGGCCTGAGGTCAAGGGTAGCC--------TCACCCTTA------TATCTCGATAAGCAGCGGGTTGGTATCTA---TGTCTTCAGTATTTCTTAATAAGTT--TGCTCAGCTTCTTCACGTG
i mm10.chr18               C 0 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e calJac3.chr2             123583672 7288 - 204313951 I
e colAng1.NW_012119644v1      250273 686 -   1175262 M

a score=74914.000000
s hg38.chr5_KI270796v1_alt     25434 8 +    172708 GTAACTAA
s panTro5.chr5             125135515 8 + 181907262 GTAACTAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126472474 8 + 183735486 GTAACTAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1663993 8 +   8933513 GTAACTAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139795797 8 + 163208435 GTAACTAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122781534 8 + 180051392 GTAACTAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124205211 8 + 181584905 GTAACTAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16202937 8 +  18395747 GTAACTAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5208793 8 +  26952557 GTAACTAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28316589 8 +  82825804 GTAACTAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3980769 8 -   4237731 GTAACTAA
i manLeu1.NW_012103321v1   C 0 C 0
s saiBol1.JH378106          55640366 8 -  71252344 GTAACTAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1334762 8 -   1400280 GTAACTAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13127647 8 -  42888418 GTAACTAG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3011544 8 +   4132165 GTAGCTAA
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852 0 +  90702639 C
e calJac3.chr2             123583672 7288 - 204313951 I
e colAng1.NW_012119644v1      250273 686 -   1175262 M

a score=1702629.000000
s hg38.chr5_KI270796v1_alt     25442 232 +    172708 tttttattttgtaaatttaattttattttagactc--tgggtacatgtgcaggtttgttacatgaacatattgtgtaatggtggagtttgggcttctagtgtgcacataacccaaacggcgacttttgtacccaataggtaatttttcaaccctcacctccctctcaatctgcccctttttggaatccccagtctctattgtttccatatttatgtccatatatttccattgtt
s panTro5.chr5             125135523 232 + 181907262 tttttattttgtaaatttaattttattttagactc--tgggtacatgtgcaggtttgttacatgaacatattgtgtaatggtggagtttgggcttctagtgtgcacataacccaaacggcgacttttgtacccaataggtaatttttcaaccctcacctccctctcaatctccccctttttggaatccccagtctctattgtttccatatttatgtccatatatttccattgtt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126472482 232 + 183735486 tttttattttgtaaatttaattttattttagactc--tgggtacatgtgcaggtttgttacatgaacatattgtgtaatggtggagtttgggcttctagtgtgcacataacccaaacggcgacttttgtacccaataggtaatttttcaaccctcacctccctctcaatctccccctttttggaatccccagtctctattgtttccatatttatgtccatatatttccattgtt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1664001 221 +   8933513 tt-------------tttaattttgttttagactctgtgggtacatgtgcaggtttgttacatgaacatattgtgtaatggtggagtttgggcttctagtgtgcacataacccgaacggtgacttttgtacccaacaggtaatttttcaaccctcacctccctctcagtctccccctttttggaatccccagtgtctattgtttccatatttatgtccatatatttccattgtt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139795805 234 + 163208435 tttttcttctgtaaatttaattttattttagactctgtgggtacgtgtgcaggtttgttacatgaacatattgtgtaatggtggagtttgggcttctagtgtgcacgtaacccaaacagtgacttttgtacccaataggtaatttttcaaccctcacctccctctcagtctccccctttttggagtccccagtgtctgttgtttccatatttatgtccatatgtttccattgtt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122781542 234 + 180051392 TTTTTATTTTATAAATTTAAtttaattttagactctgtgggtacatgtgcaggtttgttacatgaacatattgtgtaatggtggagtttgggcttctagtgtgcacataatccaaacagtgacttttgtacctaataggtaatttttcaaccctcagctccctctcaacctcccccttttcggagtccctagtgtctgttgtttccatctttatgtccagatgtttccgttgtt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124205219 234 + 181584905 TTTTTATTTTATAAATTTAAtttaattttagactctgtgggtacatgtgcaggtttgttacatgaacatattgtgtaatggtggagtttgggcttctagtgtgcacgtaatccaaacagtgacttttgtacctaataggtaatttttcaaccctcagctccctctcaacctcccccttttcggagtccctagtgtctgttgtttccatctttatgtccagatgtttccattgtt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16202945 234 +  18395747 TTTTTATTTTATAAATTTAAtttaattttagactctgtgggtacatgtgcaggtttgttacatgaacatattgtgtaatggtggagtttgggcttctagtgtgcacataatccaaactgtgacttttgtacctaataggtaatttttcaaccctcagctccctctcaacctcccccttttcggagtccctagtgtctgttgtttccatctttatgtccagatgtttccattgtt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5208801 234 +  26952557 TTTTTATTTTATAAATTTAAtttaattttagactctgtgggtacatgtgcaggtttgttacatgaacatattgtgtaatggtggagtttgggcttctagtgtgcacataatccaaacagtgacttttgtacctaacaggtaatttttcaaccctcagctgcctctcaacctccccctttttggagtccctagtgtctgttgtttccatctttatgtccagatgtttccattgtt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28316597 232 +  82825804 tttttattttataaatttaatttaattttagattctgtgggtacatgtgcaggtttgttacatgaacatattgtgtaatggtggagtttgggcttcta--gtgcatataacccaaacagtgacttttgtacctaataggtaatttttcaaccctcagctccctttcaacctccccctttttggagtccctagtgtctgttgtttccatctttatgtccagatgtttccattgtt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3980777 234 -   4237731 TTTTTATTTTATAAATTTAAtttaattttagactctgtgggtacatgtgcaggtgtgttacatgaacatattgtgtaatggtggagtttgggcttctagtgtgcacataatccaaacagtgacttttgtacctaataggtaatttttcaaccctcagctccctctcaacctccccctttttggagtccctagtgtctgttgtttccatctttatgtccagatgtttccattgtt
i manLeu1.NW_012103321v1   C 0 C 0
s saiBol1.JH378106          55640374 234 -  71252344 TTTTTTGTGTGTAAATTTAAttttactttagactctgtgggtacatttgcaggtttattacatgaacatattgtgtcatgctggagtttgagcttctagtgtacacataactcaaacagtgacctttgtatctaataggtaatttttcaaccctcatctccctctcaacctccctctttctggagaacccagcatctattgtttccatttttatgtccatatgttttcattgtt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1334770 234 -   1400280 ATTTTTGTGTGTGAATTTAAttttattttagactctgtgggtacatttgcaggtttgttacatgaacatactgtgtaatggtggagtttgggcttctcgtgtacacataacccaaacagtgacctttgtacctaacaggtaatttttcaaccctcccctccctctcaacctccctctttttggagaccccagtgtctactgtttccatctttatgtccatatgttttcattgtt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13127655 233 -  42888418 TTTTACGTGTGTGAATTTAAttttattttagactctgtgggtacatttgcaggtttgttacatgaacatattgtgtaatggtagagtttgggcttctagtgtacacataaccccaacagtgacctttgtacctagtaggtaatttttcaaccctcacctccctctcaacctccctctttttggagactccagtgcctattgtttccat-ttagtgtccatatgttttcattgtt
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e otoGar3.GL873679           3011552   0 +   4132165 C
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852   0 +  90702639 C
e calJac3.chr2             123583672 7288 - 204313951 I
e colAng1.NW_012119644v1      250273 686 -   1175262 M

a score=50034.000000
s hg38.chr5_KI270796v1_alt     25674 7 +    172708 gagctcc
s panTro5.chr5             125135755 7 + 181907262 tagctcc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126472714 7 + 183735486 tagctcc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1664222 7 +   8933513 tagctcc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139796039 7 + 163208435 tagctcc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122781776 7 + 180051392 tagctcc
i rheMac8.chr6             C 0 C 0
s macNem1.NW_012012355v1    16203179 7 +  18395747 tagctcc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5209035 7 +  26952557 tagctcc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28316829 7 +  82825804 tagctcc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3981011 7 -   4237731 tagctcc
i manLeu1.NW_012103321v1   C 0 C 0
s saiBol1.JH378106          55640608 7 -  71252344 tagctcc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1335004 7 -   1400280 tagctcc
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13127888 7 -  42888418 tagctcc
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e macFas5.chr6             124205453 0 + 181584905 C
e otoGar3.GL873679           3011552 0 +   4132165 C
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852 0 +  90702639 C
e calJac3.chr2             123583672 7288 - 204313951 I
e colAng1.NW_012119644v1      250273 686 -   1175262 M

a score=3407.000000
s hg38.chr5_KI270796v1_alt     25681 4 +    172708 cac-t
s panTro5.chr5             125135762 4 + 181907262 cac-t
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126472721 3 + 183735486 cac--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1664229 5 +   8933513 cactt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139796046 5 + 163208435 cactt
i nomLeu3.chr2             C 0 C 0
s manLeu1.NW_012103321v1     3981018 4 -   4237731 cac-t
i manLeu1.NW_012103321v1   C 0 C 0
s saiBol1.JH378106          55640615 4 -  71252344 cac-t
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1335011 4 -   1400280 tac-t
i cebCap1.NW_016107829v1   C 0 I 682
s aotNan1.NW_018505940v1    13127895 4 -  42888418 cac-t
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e chlSab2.chr23             28316836 0 +  82825804 C
e cerAty1.NW_012002512v1     5209042 0 +  26952557 C
e macNem1.NW_012012355v1    16203186 0 +  18395747 C
e macFas5.chr6             124205453 0 + 181584905 C
e rheMac8.chr6             122781783 0 + 180051392 C
e otoGar3.GL873679           3011552 0 +   4132165 C
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852 0 +  90702639 C
e calJac3.chr2             123583672 7288 - 204313951 I
e colAng1.NW_012119644v1      250273 686 -   1175262 M

a score=2548.000000
s hg38.chr5_KI270796v1_alt     25685 1 +    172708 t
s panTro5.chr5             125135766 1 + 181907262 t
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126472724 1 + 183735486 t
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1664234 1 +   8933513 t
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139796051 1 + 163208435 t
i nomLeu3.chr2             C 0 C 0
s manLeu1.NW_012103321v1     3981022 1 -   4237731 t
i manLeu1.NW_012103321v1   C 0 C 0
s saiBol1.JH378106          55640619 1 -  71252344 t
i saiBol1.JH378106         C 0 I 688
s aotNan1.NW_018505940v1    13127899 1 -  42888418 t
i aotNan1.NW_018505940v1   C 0 I 661
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e chlSab2.chr23             28316836 0 +  82825804 C
e cerAty1.NW_012002512v1     5209042 0 +  26952557 C
e macNem1.NW_012012355v1    16203186 0 +  18395747 C
e macFas5.chr6             124205453 0 + 181584905 C
e rheMac8.chr6             122781783 0 + 180051392 C
e otoGar3.GL873679           3011552 0 +   4132165 C
e cebCap1.NW_016107829v1     1335015 682 -   1400280 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852 0 +  90702639 C
e calJac3.chr2             123583672 7288 - 204313951 I
e colAng1.NW_012119644v1      250273 686 -   1175262 M

a score=1365.000000
s hg38.chr5_KI270796v1_alt     25686 1 +    172708 t
s panTro5.chr5             125135767 1 + 181907262 t
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126472725 1 + 183735486 t
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1664235 1 +   8933513 t
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139796052 1 + 163208435 t
i nomLeu3.chr2             C 0 C 0
s manLeu1.NW_012103321v1     3981023 1 -   4237731 t
i manLeu1.NW_012103321v1   C 0 I 243
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e chlSab2.chr23             28316836 0 +  82825804 C
e cerAty1.NW_012002512v1     5209042 0 +  26952557 C
e macNem1.NW_012012355v1    16203186 0 +  18395747 C
e macFas5.chr6             124205453 0 + 181584905 C
e rheMac8.chr6             122781783 0 + 180051392 C
e otoGar3.GL873679           3011552 0 +   4132165 C
e aotNan1.NW_018505940v1    13127900 661 -  42888418 I
e cebCap1.NW_016107829v1     1335015 682 -   1400280 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852 0 +  90702639 C
e saiBol1.JH378106          55640620 688 -  71252344 I
e calJac3.chr2             123583672 7288 - 204313951 I
e colAng1.NW_012119644v1      250273 686 -   1175262 M

a score=31369.000000
s hg38.chr5_KI270796v1_alt     25687 37 +    172708 tttttattatactttatgttctagggtacatgtgcac
s panTro5.chr5             125135768 37 + 181907262 tttttattgtactttatgttctagggtacatgtgcac
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126472726 37 + 183735486 tttttattgtactttatgttctagggtacatgtgcac
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1664236 37 +   8933513 tttttattatactttatgttctagggtacatgtgcac
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139796053 37 + 163208435 ttaaaattatactttatgttctagggtacatgtgcac
i nomLeu3.chr2             C 0 I 472
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e manLeu1.NW_012103321v1     3981024 243 -   4237731 I
e chlSab2.chr23             28316836  0 +  82825804 C
e cerAty1.NW_012002512v1     5209042  0 +  26952557 C
e macNem1.NW_012012355v1    16203186  0 +  18395747 C
e macFas5.chr6             124205453  0 + 181584905 C
e rheMac8.chr6             122781783  0 + 180051392 C
e otoGar3.GL873679           3011552  0 +   4132165 C
e aotNan1.NW_018505940v1    13127900 661 -  42888418 I
e cebCap1.NW_016107829v1     1335015 682 -   1400280 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852  0 +  90702639 C
e saiBol1.JH378106          55640620 688 -  71252344 I
e calJac3.chr2             123583672 7288 - 204313951 I
e colAng1.NW_012119644v1      250273 686 -   1175262 M

a score=848212.000000
s hg38.chr5_KI270796v1_alt     25724 1593 +    172708 aacgtgcaggtttgttacatatgtatacatgtgccatgttggtgtactgcacgcattaactcgtcatttacattaggtttatctcctaatgctatccctcccccctcccccaaccccacaacaggccccggtgtgtgatgttccccttcctgtgtccaagtgttctcattgttcagttcccacctatgagtgagaacatgcggtgtttggttttttgtccttgtgataggttgctgagaatgatggtttccagcttcatccatgtccctacaaaggacatgacatcatcatttttttatggctgcatagtattccatggcgtatatgtgccacattttcttaatccagtctatcattgatggacatttgggttggttccaagtctttgctattgtgaatagtgccgcaataaacatatgtgtgcacgtgtctttatagcagtatgatttataatcctttgggtatatatccagtaatagaatgactggatcaaatggtatttctagttctagatccttgaggaatcgtcacactctcttccacaatgcttgaactagtttacagtcccaccaacagtgtaaaagtgttcctatttctccacatcctctccagcacctgttgtttcctgactttttagggatcgccattgtaactggtgtgagatggtatctcattgtggttttgacttgtatttctctgatggccagtgatgatgagcattttttcgtgtgtcttttggctgcataaatgtcttcttttgagaagtgtctgttcatatccttcgcccaatttttaatggggttgtttgtttttttcttgtaaatttgtttgagttctttgtagattctggatattagccctttgtcagatgagtaggttgcaaaaattttctcccattct-taggttgcctgttcactctgatggtagtttcttttgctgtgcaaaagctctttagtttaattagatcccgtttgtcaattttggcttttgttgccattgtttttggtgtttcagacatgaagtccttgcccatgcctatatcctgaatggcattgcctaggttttcttctagggttttaatggttttaggtctaacatgtaagtctttaatccatcttgaattaatttttgtgtaaggtgtaaggaagggatccagtttcagctttctacttagggctagccagttttcccagcaccatttattaaatagggaatcctttccccatttcttgtttttgtcagctttgtcaaagatcagatggttgtagatgtgtggtattatttctgagggctctgttctgttccattggtctatatgtctgctttggtactggtaccattaccatgctgttttggttactgcagccttgtagtatagtttgaagtcaggtagcatgatgcctccagctttgctcttttggcttaggattgtcttggcaatgcaggc---tcttttttggttacaagtgaactttaaagtacttttttctaattctgtgaagaaagtctttggtagcttgatggggatggcattgaatctataaattaccttgggcagtatggccattttcatgatattgattcttcctatccatg
s panTro5.chr5             125135805 1592 + 181907262 aacgttcatgtttgttacataggtatacatgtgccatgttggtgtactgcacgcattaactcgtcatttacattaggtttatctcctaatgctatccctcccccctcccccgaccccacaacagtcgccggtgtgtgatgttccccttcctgtgtccaagtgttctcattgttcagttcccacctatgagtgagaacatgcggtgtttggttttttgtccttgtgataggttgctgagaatgatggtttccagcttcatccatgtccctacaaaggacatgacatcatcg-ttttttatggctgtgtagtattccatggtgtatatgtgccacattttcttaatccagtctatcattgatggacatttgggttggttccaagtctttgctattgtgaatagtgtcacaataaacatatgtgtgcatgtgtctttatagcagtatgatttataatcctttgggtatatatccagtaatagaatgactggatcaaatggtatttctagttctagatccttgaggaatcatcacactctcttccacaatggttgaactagtttacagtcccaccaacagtgtcaaagtgttcctatttctccacatcctctccagcacctgttgtttcctgactttttagggatcgccattgtaactggtgtgagatggtatctcattgtggttttgacttgcatttctctgatggccagtgatgatgagcattttttcgtgtgtcttttggctgcataaatgtcttcttttgagaagtgtctgttcatatccttcgcccaacttttaatggggttgtttgtttttttcttgtaaatttgtttgagttctttgtagattctggatattagccctttgtcagatgagtagattgcaaaaattttctcccattct-taggttgcctgttcactctgatggtagtttcttttgctgtgcaaaagctctttagtttaattagttcccgtttgtcaattttggcttttgttgccattgcttttggtgttttagacacgaagtccttgcccatgcctgtatcctgaatggcattgcctaggttttcttctagggtttttatggttttaggtctaacatttaagtctttaatccatcttgaattaatttttgtgtaaggtgtaaggaagggatccagtttcagctttccacttatggctagccagttttcccagcgccatttattaaatagggaatcctttccccatttcttgtttttgtcagctttgtcaaagatcagatggttgtagatgtgtggtattatttctgagggctctgttctgttccattggtctatatgtctgctttggtactggtaccattaccatgctgttttggttactgtagccttgtagtatagtttgaagtcaggtagcatgatgcctccagctttactcttttggcttaggattgtcttggcaatgcaggc---tcttttttggttacaagtgaaccttaaagtacttttttctaattctgtgaagaaagtcattggtagcttgatggggatggcattgaatctataaattaccttgggcagtatggccattttcatgatattgattcttcctatccatg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126472763 1590 + 183735486 aatgttcatgtttgttacataggtatacatgtgccatgttggtgtactgcacgcattaactcgtcatttacattaggtttatctcctaatgctatccctcccccctcccccgaccccacaacagtccccggtgtgtgatgttccccttcctgtgtccaagtgttctcattgttcagttcccacctatgagtgagaacatgcggtgtttggttttttgtccttgtgataggttgctgagaatgatggtttccagcttcatctatgtccctacaaaggacatgacatcatcg-ttttttatggctgtgtagtattccatggtgtatatgtgccacattttcttaatccagtctatcattgatggacatttgggttggttccaagtctttgctattgtgaatagtgtcacaataaacatatgtgtgcatgtgtctttatagcagtatgatttataatcctttgggtatatatccagtaatagaatgactggatcaaatggtatttctagttctagatccttgaggaatcatcacactctcttccacaatggttgaactagtttacagtcccaccaacagtgtcaaagtgttcctatttctccacatcctctccagcacctgttgtttcctgactttttagggatcgccattgtaactggtgtgagatggtatctcattgtggttttgacttgcatttctctgatggccagtgatgatgagcattttttcgtgtgtcttttggctgcataaatgtcttcttttgagaagtgtctgttcatatccttcgcccaacttttaatggggttgtttg-ttttttcttgtaaatttgtttgagttctttgtagattctggatattagccctttgtcagatgagtagattgcaaaaattttctcccattct-taggttgcctgttcactctgatggtagtttcttttgctgtgcaaaagctctttagtttaattagttcccgtttgtcaattttggcttttgttgccattgcttttggtgttttagacatgaagtccttgcccatgcctgtatcctgaatggcattgcctaggttttcttctagggtttttatggttttaggtctaacatttaagtctttaatccatcttgaattaa-ttttgtgtaaggtgtaaggaagggatccagtttcagctttccacttatggctagccagttttcccagcgccatttattaaatagggaatcctttccccatttcttgtttttgtcagctttgtcaaagatcagatggttgtagatgtgtggtattatttctgagggctctgttctgttccattggtctatatgtctgctttggtactggtaccattaccatgctgttttggttactgtagccttgtagtatagtttgaagtcaggtagcatgatgcctccagctttactcttttggcttaggattgtcttggcaatgcaggc---tcttttttggttacaagtgaaccttaaagtacttttttctaattctgtgaagaaagtcattggtagcttgatggggatggcattgaatctataaattaccttgggcagtatggccattttcatgatattgattcttcctatccatg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1664273 1589 +   8933513 aacgtgcaggtttgttacatatgtatacatgtgccatgttggtgtactgcacccattaactcgtcatttacattaggtatatctcctaatgctatccctcccccctcccccaaccccacaacaggccccggtgtgtgatgttccccttcctgtgtccaagtgttctcattgttcagttcccacctatgagtgagaacatgcggtgtttcgttttttgtccttgtgatagtttgctgagaatgatggtttccagcttcatccatgtccctaaaaaggacacgacctcatca-ttttttatggctgcatactattccatggtgtatatgtgccacattttcttaatccagtctatcattgatggacatttgggttggttccaagtctttgctattgtgaatagtgccacaataaacatacatgtgcatgtgtctgtacagcagtatgatttataatcctttgggtatatacccagtaataggatgactgggtcaaatggtatttctagttctagatccttgaggaatcctcacactctcttccacaatggttgaactggtttacagtcccaccaacagtgtcaaagtgttcctatttctccacatcctctctagtatctgttgtttcctgacattttagggatcgccattctaactggtgtgagatggtatctcattgtggttttgacttggatttctctgatggccagtgatgatgagcattttgtcatgtgtctttcggctgcataaatgtcttcttttgagaagtgtctgttcatatcctttgcccactttttgatggggttgtttgtttttttcttgtaaatttgtttgagttcattgtagattctggatattagccctttgtcagatgggtagattgcaaaaattttctcccattctgtaggttgtctgttcactctgatggtagtttcttttgctgtgcaaaagctctttagtttaattagatcccatttgtcatttttggcttttgttgccattgcttttggtgttttagacatgaagtccttgcccatgcctatatcctgaatggcattgcctaggttttcttctagggtttttatagttttaggtctaacatttaagtctttaatccatcttgaattaatttttgtgtaaggtgtaaggaagggatccagtttcaactttctacatatggctagccagttttgccag-accatttattaaatagggaatcctttccccatttcttgtttttgtcaggtttgtcaaagatcagatggttgtagatatgtggtattatttctgagggctctgttctgttccattggtctatatgtctgttt------tggtaccagtaccatgctgttttggttactgtagccttgtagtatagtttgaagtcaggtagcatgatgcctccagctttgctcttttggcttaggattgtcttggcaatgcaggcttttttttttttgttccaaacgaactttaaagtagttttttctaattctgtgaagaaagtcattggtagcttgatggggatggcattgaatctataaattaccttgggcagtatggccattttcatgatattgattcttcctatccatg
i gorGor5.CYUI01015135v1   C 0 C 0
e micMur3.chr12             60498606  835 + 108143057 I
e canFam3.chr11             14872099  168 +  74389097 I
e proCoq1.NW_012155062v1     3529987  393 +  11683526 I
e manLeu1.NW_012103321v1     3981024  243 -   4237731 I
e chlSab2.chr23             28316836    0 +  82825804 C
e cerAty1.NW_012002512v1     5209042    0 +  26952557 C
e macNem1.NW_012012355v1    16203186    0 +  18395747 C
e macFas5.chr6             124205453    0 + 181584905 C
e rheMac8.chr6             122781783    0 + 180051392 C
e otoGar3.GL873679           3011552    0 +   4132165 C
e aotNan1.NW_018505940v1    13127900  661 -  42888418 I
e cebCap1.NW_016107829v1     1335015  682 -   1400280 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852    0 +  90702639 C
e saiBol1.JH378106          55640620  688 -  71252344 I
e calJac3.chr2             123583672 7288 - 204313951 I
e colAng1.NW_012119644v1      250273  686 -   1175262 M
e nomLeu3.chr2             139796090  472 + 163208435 I

a score=5419.000000
s hg38.chr5_KI270796v1_alt     27317 7 +    172708 tagctca
s panTro5.chr5             125137397 7 + 181907262 tagctca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126474353 7 + 183735486 tagctca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1665862 7 +   8933513 tagctcc
i gorGor5.CYUI01015135v1   C 0 C 0
s macFas5.chr6             124205453 7 + 181584905 tagctcc
i macFas5.chr6             C 0 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e manLeu1.NW_012103321v1     3981024 243 -   4237731 I
e chlSab2.chr23             28316836 0 +  82825804 C
e cerAty1.NW_012002512v1     5209042 0 +  26952557 C
e macNem1.NW_012012355v1    16203186 0 +  18395747 C
e rheMac8.chr6             122781783 0 + 180051392 C
e otoGar3.GL873679           3011552 0 +   4132165 C
e aotNan1.NW_018505940v1    13127900 661 -  42888418 I
e cebCap1.NW_016107829v1     1335015 682 -   1400280 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852 0 +  90702639 C
e saiBol1.JH378106          55640620 688 -  71252344 I
e calJac3.chr2             123583672 7288 - 204313951 I
e colAng1.NW_012119644v1      250273 686 -   1175262 M
e nomLeu3.chr2             139796090 472 + 163208435 I

a score=722748.000000
s hg38.chr5_KI270796v1_alt     27324 322 +    172708 cactttataaatgagaagatgtagtatttgattgtctgtttctgagttaactcacttaggatgatagcctccagctccattcatgttgctgcaaaggacatgattttgttc-tttttcatggctgcatagtatcccgtggtgtatacataccacatttagtt----taatcaactgtcgatggacacttgggttgattctgtgtctttgctattgtgactagtgggtgtatttttaatataatgatttctgttcctttttttgttgttattgtgaatagtgctgcaatactagctcaggcatatttttaatataatgagctctgttc
s panTro5.chr5             125137404 322 + 181907262 cactttataaatgagaagatgtagtatttgattgtctgtttctgagttatttcacttaggataatagcctccagctctattcatgttgctgcaaaggacatgattttgttc-tttttcatggctgcatagtatcccgtggtgtatacataccacatttactt----taattaactgtcgatggacacttgggttgattctgtgtctttgctattgtaactagtgggtgtatttttaatataatgatttctgttcctttttttgttgttattgtgaatagtgctgcaatactagctcaggcgtatttttaatataatgagttctgttc
i panTro5.chr5             C 0 I 2
s panPan2.chr5             126474360 322 + 183735486 cactttataaatgagaagatgtagtatttgattgtctgtttctgagttatttcacttaggataatagcctccagctctattcatgttgctgcaaaggacatgattttgttc-tttttcatggctgcatagtatcccgtggtgtatacataccacatttactt----taattaactgtcgatggacacttgggttgattctgtgtctttgctattgtaactagtgggtgtatttttaatataatgatttctgttcctttttttgttgttattgtgaatagtgctgcaatactagctcaggcgtatttttaatataatgagttctgttc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1665869 326 +   8933513 cactttataaatgagaagatgtagtatttgattttctgtttctgagttaattcacttaggataatagcctccagctctattcatgttgctgcaaaggacatgattttgttc-tttttcatggctgcatagtatcccgtggtgtatacataccacatttattttatgtaatcaactgttgatggacacttgggttgattctgtgtctttgctattgtgactagtgggtgtatttttaatataatgatttctgttcctttttttgttgttattgtgaatagtgctgcaatactagctcaggcatatttttaatataatgagttctgttt
i gorGor5.CYUI01015135v1   C 0 I 1
s rheMac8.chr6             122781783 248 + 180051392 cagtttataaataagaagatgtagtatttgattttctgtttctgaattaattcacttaggataatagcctccagctctatccatgttgctgcaaaggacatgattttgttctttttttatggctgcattttattccttggtgtgtatataccatatttattttatctaatcaactgttgatggacgcttgggttgattcagtgtctttgctattgtgaccagtgggtgtatttt-----taatgatttctgtt--------------------------------------------------------------------------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124205460 247 + 181584905 cactttataaataagaagatgtagtatttgattttctgtttctgaattaattcacttaggataatagcctccagctctatccatgttgctgcaaaggacatgattttgttc-ttttttatggctgcattttattccttggtgtgtatataccatatttattttatctaatcaactgttgatggacgcttgggttgattcagtgtctttgctattgtgaccagtgggtgtatttt-----taatgatttctgtt--------------------------------------------------------------------------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16203186 247 +  18395747 cactttataaataagaagatgtagtatttgattttctgtttctgaattaattcacttaggataatagcctccagctctatccatgttgctgcaaaggacatgattttgttc-ttttttatggctgcattttattccttggtgtgtatataccatatttattttatctaatcaactgttgatggacgcttgggttgattcagtgtctttgctattgtgaccagtgggtgtatttt-----taatgatttctgtt--------------------------------------------------------------------------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5209042 247 +  26952557 cactttataaatgagaagatgtaatatttgattttctgtttctgaattaattcacttaggataatggcctccagctctatccatgttgctgcaaaggacatgattttgttc-ttttttatggctgcattttattccttggtgtgtatataccatatttattttatctaatcaactgttgatggacccttgggttgattctgtgtctttgctattgtgaccagtgggtgtatttt-----taatgatttctgtt--------------------------------------------------------------------------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28316836 247 +  82825804 cactttataaatgagaagatgtagtatttgattttctgtttctgaattaattcactttggataatagcctccagctctatccatgttgctgcaaaggacatgattttgttc-ttttttatggctgcattttattccgtggtgtgtatatgccatatttattttatctaatcaactgttgatggacccttgggttgattctgtgtctttgctattgtgaccagtaggtgtatttt-----taatgatttctggt--------------------------------------------------------------------------
i chlSab2.chr23            C 0 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e manLeu1.NW_012103321v1     3981024 243 -   4237731 I
e otoGar3.GL873679           3011552   0 +   4132165 C
e aotNan1.NW_018505940v1    13127900 661 -  42888418 I
e cebCap1.NW_016107829v1     1335015 682 -   1400280 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852   0 +  90702639 C
e saiBol1.JH378106          55640620 688 -  71252344 I
e calJac3.chr2             123583672 7288 - 204313951 I
e colAng1.NW_012119644v1      250273 686 -   1175262 M
e nomLeu3.chr2             139796090 472 + 163208435 I

a score=24422.000000
s hg38.chr5_KI270796v1_alt     27646 7 +    172708 ttttttt
s panTro5.chr5             125137728 7 + 181907262 ttttttt
i panTro5.chr5             I 2 C 0
s panPan2.chr5             126474682 7 + 183735486 ttttttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1666196 7 +   8933513 tcttttt
i gorGor5.CYUI01015135v1   I 1 C 0
s rheMac8.chr6             122782031 7 + 180051392 ttttttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124205707 7 + 181584905 ttttttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16203433 7 +  18395747 ttttttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5209289 7 +  26952557 ttttttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28317083 4 +  82825804 ---tttt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3981267 7 -   4237731 ttttttt
i manLeu1.NW_012103321v1   I 243 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e otoGar3.GL873679           3011552 0 +   4132165 C
e aotNan1.NW_018505940v1    13127900 661 -  42888418 I
e cebCap1.NW_016107829v1     1335015 682 -   1400280 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852 0 +  90702639 C
e saiBol1.JH378106          55640620 688 -  71252344 I
e calJac3.chr2             123583672 7288 - 204313951 I
e colAng1.NW_012119644v1      250273 686 -   1175262 M
e nomLeu3.chr2             139796090 472 + 163208435 I

a score=1223121.000000
s hg38.chr5_KI270796v1_alt     27653 286 +    172708 tttttagatggagtctcgctctgtcacccaagctggagtgcagtggcgcgatcttggcttactgccagctctgcctcctgggttcatgccattctcctgcctcagcctccaagtagctggaactacaggcgtctgccaccacgcctagctaattttttgtatttttttagtagagacagggtttcaccatgttagccaggctggtcttgatcttctgacctcgtggtccgcctgccttggcctctgaaagtgctgggaatataggcatgagccaccgtgcctggaa
s panTro5.chr5             125137735 286 + 181907262 tttttagatggagtctcgctctgtcacccaagctggagtgcagtggcgtgatcttggctcactgccagctctgcctcctgggttcatgccattctcctgcctcagcctccaagtagctggaactacaggcgtctgccaccacgcctagcaaattttttgtatttttttagtagagacagggtttcaccatgttagccaggctggtcttgatcttctgacctcgtggtccgcctgccttggcctctgaaagtgctgggaatataggcatgagccaccgtgcctggaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126474689 286 + 183735486 tttttagatggagtctcactctgtcacccaagctggagtgcagtggcgtgatcttggctcactgccagctctgcctcctgggttcatgccattctcctgcctcagcctccaagtagctggaactacaggcgtctgccaccacgcctagctaattttttgtatttttttagtagagacagggtttcaccatgttagccaggctggtcttgatcttctgacctcgtggtccgcctgccttggcctctgaaagtgctgggaatataggcatgagccaccgtgcctggaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1666203 286 +   8933513 tttttagatggagtctcactctgtcacccaagctggagtgcagtggtgcaatcttggctcactgccagctctgcctcctgggtccatgccattctcctgcctcagcctccaagtagctggaactacaggtacctgccaccatgcctagctaattttttgtatttttttagtagagacagggtttcaccgtgttagccaggctggtctcgatcttctgatctcatggtctgcctgcctcggcctccgaaagtgctgggaatacaggcatgagccactgtgcctggcc
i gorGor5.CYUI01015135v1   C 0 C 0
s rheMac8.chr6             122782038 285 + 180051392 ttttcagacggagtctcactctgtcacgcaagcttgagtgcagtggcgcgatctcagctcactgcaacctccacctcctgggttcatgccatattcctgcttcagcctccgagtagctgggactataggcgcccaccaccatgcctggctaattgttt-tgtattttcactagagacgcggtttcaccgtgttagccaggatgatcttgatctcctgaccttgtgatccacctgcctcagcctcccaaagtgctgagatttcaggcatgagccaccgtgcccggcc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124205714 285 + 181584905 ttttcagacggagtctcactctgtcacgcaagcttgagtgcagtggcgcgatctcagctcactgcaacctccacctcctgggttcatgccatattcctgcttcagcctccgagtagctgggactataggcgcccaccaccatgcctggctaattgttt-tgtattttcactagagacgcggtttcaccgtgttagccaggatgatcttgatctcctgaccttgtgatccacctgcctcagcctcccaaagtgctgagatttcaggcatgagccaccgtgcctggcc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16203440 285 +  18395747 ttctcagacggagtctcactctgtcacgcaagcttgagtgcagtggcgcgatctcagctcactgcaacctccacctcctgggttcatgccatattcctgcttcagcctccgagtagctgggactataggcgcccaccatcatgcctggctaattgttt-tgtattttcactagagatgcggtttcaccgtgttagccaggatgatcttgatctcctgaccttgtgatccacctgcctcagcctcccaaagtgctgagatttcaggcatgagccaccgtgcccggcc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5209296 284 +  26952557 tt-tcagacggagtctcactctgtcacgcaagcttgagtgcagtggcgcaatctcagttcactgcaacctccacctcctgggttcatgccatattcctgcttcagcctccgagtagctgggactataggtgcccaccaccatgcctggctaattgttt-tgtatttttactagatacacggtttcaccgtgttagccaggatgatcttgatctcctgaccttgtgatccacctgcctcagcctcccaaagtgctgagatttcaggcatgagccaccgtgcccggcc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28317087 285 +  82825804 ttttcagacggggtctcactctgtcgcgcaagctggagtgcagtggcgcgatctcagctcactgcaacctccacctcctgggttcatgccatattcctgcttcagcctctgagtagctgggactataggcacccaccaccatgcctggctaattgttt-tgtatttttactagagacggggtttcaccgtgttagccaggatgatcttgatatcctgacctcgtgatccacctgcctcagcctcccaaagtgctgagatttcaggcatgagccactgtgcccggcc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3981274 285 -   4237731 ttttcagacggagtctcactctgtcgcgcaagcttgagtgcagtggcgcaatctcagctcactgcaacctccacctcctgggttcatgccatattcctgcttcagcctccgagtagctgggactataggtgcccaccaccatgtctggctaattgttt-tgtatttttactagatacacggtttcaccgtgttagccaggatgatcttgatctcctgaccttgtgatccacctgcctcagcctcccaaagcgctgagatttcaggcatgagccaccgtgcctggcc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      250961 274 -   1175262 ttttcagacggagtctcactctgtcacacaagctggagtgcagtggca-----------cactgcaacctccacctcctgggttcatgccattctcctgcttcagcctccaagtagctgggactataggcacccaccaccatgcctggctaattgttt-tgtatttttactagagacggggtttcaccgtgttagccaggatgatcttgatctcctgacctcgtgatccacctgcctcagcctcccaaagtgctgagatttcaggcatgagccaccgtgcccgacc
i colAng1.NW_012119644v1   M 686 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e otoGar3.GL873679           3011552   0 +   4132165 C
e aotNan1.NW_018505940v1    13127900 661 -  42888418 I
e cebCap1.NW_016107829v1     1335015 682 -   1400280 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852   0 +  90702639 C
e saiBol1.JH378106          55640620 688 -  71252344 I
e calJac3.chr2             123583672 7288 - 204313951 I
e nomLeu3.chr2             139796090 472 + 163208435 I

a score=2175550.000000
s hg38.chr5_KI270796v1_alt     27939 296 +    172708 gatttctgttccttttagtagatagccagcaatgggattgctgggtataatggtagttttatttttacttctttgagaaatctctttactgttttctgtagaggtgttactaattaacattcctaccaacggtgtataagcatacccttttctcagtatccacactaacgtctgttgttttttgactttttgataatagtcattctgactggtataagttgatatcccatttctctgatgattagtgatgttgagccttttaaatgtttcttggctacttgtatgtcttcctctgg
s panTro5.chr5             125138021 296 + 181907262 gatttctgttccttttagtagatagccagcaatgggattgctgggtataatggtagttttatttttacttctttgagaaatctctttactgttttccgtagaggtgttactaattaacattcctaccaacagtgtataagcatacccttttctcagtatccacactaacatctgttgttttttgactttttgataatagtcattctgactggtataagttgatatgccatttctctgatgattagtgatgttgagccttttaaatgtttcttggctacttgtatgtcttcctctgg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126474975 296 + 183735486 gatttctgttccttttagtagatagccagcaatgggattgctgggtataatggtagttttatttttacttctttgagaaatctctttactgttttccgtagaggtgttactaattaacattcctaccaacagtgtataagcatacccttttctcagtatccacactaacatctgttgttttttgactttttgataatagtcattctgactggtataagttgatatcccatttctctgatgattagtgatgttgagccttttaaatgtttcttggctacttgtatgtcttcctctgg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1666489 296 +   8933513 aatttctgttccttttagtagatagccagcaatgagattgctgggtgtaatggtagttttatttttacttctttgagaaatctctttactgttttccgtagaggtgttactaattaacattcctaccaacagtgtataagcatacccttttctcagtatccacgctaacatctgttgttttttgactttttgataacagtcattctggctggtataagttgatatcccatttctctgatgattagtgatgttgagccttttaaatgtttcttggctacttgtatgtcttcctctga
i gorGor5.CYUI01015135v1   C 0 C 0
s rheMac8.chr6             122782323 293 + 180051392 gatttctgttccttttagtagatagccagcaatgggattgttgggtgtaatggtagttttatttttacttctttgagaaatctccttactgttttccgtagaggtattactaattaacattcctaccaacagtgtataagcatacccttttctcagtatccacaccaacatctgttgtgttttgactttttgataatagtcattctgactggtgtaagatgatatctaatttctctgatgattagtgatgttaagccttttaaatatttgttggctacttgtatgttg---tctga
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124205999 293 + 181584905 gatttctgttccttttagtagatagccagcaatgggattgttgggtgtaatggtagttttatttttacttctttgagaaatctccttactgttttccgtagaggtattactaattaacattcctaccaacagtgtataagcatacccttttctcagtatccacaccaacatctgttgtgttttgactttttgataatagtcattctgactggtgtaagatgatatctaatttctctgatgattagtgatgttaagccttttaaatatttgttggctacttgtatgttg---tctga
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16203725 293 +  18395747 gatttctgttccttttagtagatagccagcaatgggattgttgggtgtaatggtagttttatttttacttctttgagaaatctccttactgttttccgtagaggtattactaattaacattcctaccaacagtgtataagcatacccttttctcagtatccacaacaacatctgttgtgttttgactttttgataatagtcattctgactgttgtaagatgatatctaatttctctgatgattagtgatgttaagccttttaaatatttgttggctacttgtatgttg---tctga
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5209580 293 +  26952557 gatttctgttccttttagtagatagccagcaatgggattgttgggtgtaatggtagttttatttttacttctttgagaaatctccttactgttttccgtagaggtattactaattaacattcctaccaacagtgtataagcatacccttttctcagtatccacaccaacatctgttgtgttttgactttttgataatagtcattctgactggtgtaagatgatatctaatttctctgatgattagtgatgttgagccttttaaatatttgttggctacttgtatgttg---tctga
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28317372 293 +  82825804 gatttctgttccttttagtagatggccagcaatgggattgttgggtgtaatggtagttttatttttacttctttgagaaatctccttactgttttacgtagaggtattactaattaacattcctaccaacagtatataagcatacccttttctcagtatccacaccaacatctgttgtgttttgactttttaataatagtcattctgactggtgtaagatgatatctaatttctctgatgattagtgatgttgagccttttaaatatttgttggctacttgtatgtcg---tctga
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3981559 293 -   4237731 gatttctgttccttttagtagatagccagcagtgggattgttgggtgtaatggtagttttatttttacttctttgagaaatctccttactgttttccgtagaggtattactaattaacattcctaccaacagtgtataagcatacccttttctcagtatccacaccaacatctgttgtgttttgactttttgataatagtcattctgactggtgtaagatgatatctaatttctctgatgattagtgatgttgagccttttaaatatttgttggctacttgtatgttg---tctga
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      251235 293 -   1175262 gatttctgttccttttagtagatagccagcaatgggattgttgggtataatagtagttttatttttacttctttgagaaatctccttactgttttctgtagaggtattactaattaacattcctaccaacagtgtataagcataccattttctcagtatccacaccagcatctgttgtgttttgactttttgataatagtcattctgactggtgtaagatgatatctaatttctctgatgattagtgatgttgagccttttaaatatttgctggctacttctatgtcg---tatga
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55641308 290 -  71252344 gatttatgtttcttttagtagctagccaggaatgagattgctgggtataatggtaattttatttttacttctttgagaaatctccttactgttttccataaaagtgttactaattaatatttctaccaacagtgtataag----cccttttctcagtatccacaccaacatctgctgt-ttttgacttttt-aaaatagtcattctgattggtgtaagatgacatcttatttctttgatgattagtgatgttgagccttttaaatgtttgttggctatttgtatgtcttcctctga
i saiBol1.JH378106         I 688 C 0
s cebCap1.NW_016107829v1     1335697 288 -   1400280 gatttatgtttcttttagtaggtagccaggaatgagattgctgggtataatggtagttttatttttacttctttgagaaatctccttattgttttccaaaaaagtgttactaattaacatttctaccaacagtgtataaa----cccttttctcagtatccataccaatatctgttgt-tcttgactttttaaaaatagtcattctgactggtgtaagaggacatcttatttctt---tgattagtgacgttgagtcttttaaatgtttgttggctatttgtatgtcttcctctga
i cebCap1.NW_016107829v1   I 682 C 0
s aotNan1.NW_018505940v1    13128561 291 -  42888418 gatttatgtttcttttagtagattgccaggaatgagattgctgggtataacggtagttttatttttacttctttgagaaatctccttactgttttccataaaagtgttactaattaacatttctaccaacagtgtataag----cccttttctcagtatccacaccaacatctgtttt-tcttgactttttaaaaatagtcattctgactggtgtaagatgacatcttatttcttcgatgattagtgatgttgagccttttaaatgtttgttggctatttgtatgtcttcctctga
i aotNan1.NW_018505940v1   I 661 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e otoGar3.GL873679           3011552   0 +   4132165 C
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852   0 +  90702639 C
e calJac3.chr2             123583672 7288 - 204313951 I
e nomLeu3.chr2             139796090 472 + 163208435 I

a score=4838394.000000
s hg38.chr5_KI270796v1_alt     28235 586 +    172708 gaaaggtctttctcagtcttcctctcagaaat-tctgttcatgttctttgcccactttttaataggg--tttttttttttt---cttgttgaaatgtttgagtttgttgtagattctggctattaaccctttgttgaagcataatttgcaaatattttctcccattctctagattgtccatttatcctgtta-cttctttagctgtgcagaacttttgaaaatttaattatgtcccatttgtctgttattgttttttgttgaattttctttgggggtcttagtcataaatactttgcctaggccagaagagtttttcttaggacttttatagtctcaggttttaaaatttaagtctt---------taatccatcttgagttaa-tttttgtatatcgtgagaaatagaggtc-cagt-ttcattcttctgcatgtggctagccatttttccccactgtttatttttg---------ttg--------gctttgtcaaagatcagttcgttggaagtatatggttttatttctaggttctctattctgttccattcacctatgtgtctatttttgtaccagtaccatgctgttttagttattatagccttgtactataattt
s panTro5.chr5             125138317 585 + 181907262 gaaaggtctttctcagtcttcctctcagaaat-tctgttcatgttctttgcccactttttaataggg---ttttttttttt---cttgttgaaatgtttgagtttgttgtagattctggctattaaccctttgttgaagcataatttgcaaatattttctcccattctctagattgtccatttattctgtta-cttctttagctatgcagaacttttgaaaatttaattatgtcccatttgtctattattgttttttgttgaattttctttgggggtcttagtcataaatactttgcctaggccagaagagtttttcttagaacttttatagtctcaggttttaaaatttaagtctt---------taatccatcttgagttaa-tttttgtatattgtgagaaataggggtc-cagt-ttcattcttctgcatgtggctagccatttttccccactgtttatttttg---------ttg--------gctttgtcaaagatcagttcgttggaagtatatggctttatttctaggttctctattctgttccattcacctatgtgtctatttttgtaccagtaccatgctgttttagttattatagccttgtactataattt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126475271 584 + 183735486 gaaaggtctttctcagtcttcctctcagaaat-tctgttcatgttctttgcccactttttaataggg----tttttttttt---cttgttgaaatgtttgagtttgttgtagattctggctattaaccctttgttgaagcataatttgcaaatattttctcccattctctagattgtccatttattctgtta-cttctttagctatgcagaacttttgaaaatttaattatgtcccatttgtctattattgttttttgttgaattttctttgggggtcttagtcataaatactttgcctaggccagaagagtttttcttagaacttttatagtctcaggttttaaaatttaagtctt---------taatccatcttgagttaa-tttttgtatatcgtgagaaataggggtc-cagt-ttcattcttctgcatgtggctagccatttttccccactgtttatttttg---------ttg--------gctttgtcaaagatcagttcgttggaagtatatggctttatttctaggttctctattctgttccattcacctatgtgtctatttttgtaccagtaccatgctgttttagttattatagccttgtactataattt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1666785 580 +   8933513 gaagggtctttctcagtcttcctctcagaaat-tctgttcatgttctttgcccactttttaataagg-----ttttttttt---cttgttgaaatgtttgagtttgttgtagattctggctattaaccctttgttgaagcataatttgcaaatattttctcccattctctagattgtccatttattctgtta-cttctttagctgtgcagaacttttgaaaatttaattatgtcccatttgtctatta---ttttttgttgcatttgctttgggggtctcagtcataaatactttgcctaggccagaagagtttttcttaggacttttatagtctcagattttaaaatttaagtctt---------taatccatcttgagttaa-tttttgtgtatcatgagaaataggggtc-cagt-ttcattcttctgcatgtggctagccattattccccactgtttatttttg---------ttg--------actttgtcaaagatcagttcgttagaagtatatggctttatttctaggttctctattctgtcccattcacctatgtgtctatttttgtaccagtaccatgctgttttagttattatagccttgtactgtaattt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139796562 581 + 163208435 GAAATGCCTTTCTCAgtcttcctctcagaaat-tctgttcatgttctttgtccactttttaagag-------ttatttttt---cttgttgaaatttttgggttttttgtagattctggctattcaccctttgttgaagcataatttgcaaatattttctcccattctctagattgtccatttattctgtta-cttctttagctgtgcagaacttttgaaaatttaattatgtcccatttgtctattattgttttttgttgcatttgctttgagggtcttattcataaatactttgtctaggccagaagagtttttcttaggacttttatagtctcaggtttgaaaatttaagtctt---------taatccatcttgagttaa-tttttgtatatcgtgagaaataggggtc-cagt-ttcattcttctgcatgtggctagccaattttccccactgtttatttttg---------tgg--------actttgtcaaagatcagtttgttggaagtatatggctttatttctaggttctctattctgttccattcacctatgtgtctatttttgtaccagtaccatgttgttttagttattatagccttataatataattt
i nomLeu3.chr2             I 472 C 0
s rheMac8.chr6             122782616 584 + 180051392 gaaatgtctttctcagtcttcctctcagaaat-tctgtccatgctctctgcccactttttaataggg----tttttttttt---cttgttgagttgtttgagtttgttgtagattctggctgttaaccctttgttggagcataatttgcaaatattttctcccatgctctagattatccatttattctgtta-cttctgtagctgggcagaacttttaaaaatttaattatgtcctatttgtctattgttgttttttgttgcatttgcttttggggtcttagtcataaattatttgcctaggccagaagagttcttcttaggacttttatagtctcgggttttaaaatttaaatctt---------taatccatcttgagttaa-tttttgtatatggtgggaaatagaggtc-cagt-ttcattcttctgcatgtggctagccaattttccccactgtttatttttg---------ttg--------actttgtcaaagatcagttcattggaagtatatggctttacttctaggttctctattctgttccattcacctatgtgtttatttttgtattagtaccatgctgttttagttattatagccttgtagtataattt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124206292 583 + 181584905 gaaatgtctttctcagtcttcctctcagaaat-tctgtccatgctctctgcccactttttaataggg-----ttttttttt---cttgttgagttgtttgagtttgttgtagattctggctgttaaccctttgttggagcataatttgcaaatattttctcccatgctgtagattatccatttattctgtta-cttctgtagctgggcagaacttttaaaaatttaattatgtcctatttgtctattgttgttttttgttgcatttgcttttggggtcttagtcataaattatttgcctaggccagaagagttcttcttaggacttttatagtctcgggttttaaaatttaaatctt---------taatccatcttgagttaa-tttttgtatatggtgggaaatagaggtc-cagt-ttcattcttctgcatgtggctagccaattttccccactgtttatttttg---------ttg--------actttgtcaaagatcagttcattggaagtatatggctttacttctaggttctctattctgttctattcacctatgtgtttatttttgtattagtaccatgctgttttagttattatagccttgtagtataattt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16204018 583 +  18395747 gaaatgtctttctcagtcttcctctcagaaat-tctgtccatgctctctgcccactttttaataggg-----ttttttttt---cttgttgagttgtttgagtttgttgtagattctggctgttaaccctttgttggagcataatttgcaaatattttctcccatgctgtagattatccatttattctgtta-cttctgtagctgggcagaacttttaaaaatttagttatgtcctatttgtctattgttgttttttgttgcatttgcttttggggtcttagtcataaattatttgcctaggccagaagagttcttcttaggacttttatagtctcgggttttaaaatttaaatctt---------taatccatcttgagttaa-tttttgtatatggtgagaaatagaggtc-cagt-ttcattcttctgcatgtggctagccaattttccccactgtttatttttg---------ttg--------actttgtcaaagatcagttcattggaagtatatggctttacttctaggttctctattctgttccattcacctatgtgtttatttttgtattagtaccatgctgttttagttattatagccttgtagtataattt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5209873 586 +  26952557 gaaatgtctttctcagtcttcctctcagaaat-tctgtccatgctctttgcccactttttaataggg--tttttttttttt---cttgttgagttgtttgagtttgttgtagagtctggctattaaccctttgttggagcataatttgcaaatattttctcccatgctgtagattatccatttattctgtta-cttctgtagctgggcagaacttttaaaaatttaattatgtcctatttgtctattgttgttttctgttgcatttgcttttggggtcttagtcataaattatttgcctaggccagaagagttcttcttaggacttttatagtctcgggttttaaaatttaaatctt---------taatccatcttgagttaa-tttttgtatatggtgagaaatagaggtc-tagt-ttcattcttctgcatgtggctagccaattttccccactgtttatttttg---------ttg--------actttgtcaaagatcagttcattggaagtatatggctttacttctaggttctctattctgttccattcacctatgtgtttatttttgtattagtaccatgctgttttagttattatagccttgtagtataattt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28317665 593 +  82825804 gaaatgtctttctcagtcttcctctcagaaat-tctgtccatgctctttgcccactttttaatagggtttttttttttttt---cttgttgagttgtttgagtttgttgtagattctggctattaaccctttgttggagcatactttgcaaatattttctcccattctgtagattatcc----attctgtta-cttctgtagcttggcaaaacttttaaaaatttaattatgtcctatttgtctattgttgttttttgttgcatttgctttgggggtcttagtcataaattatttgcctaggccagaagagttcttcttaggacttttatagtctcgggttttaaaatttaaatctttaatccatctaatccatcttgagttaa-tttttgtatatggttagaaataggggtc-cagt-ttcattcttctgcatgtggctagccaattttccccactgtttatttttg---------ctg--------actttgtcaaagatcagttcattggaagtatatggctttacttctaggttctctattctgttccattcacctatgtgtttatttttgtattagtaccatgctgttttagttattatagccttgtagtataattt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3981852 584 -   4237731 gaaatgtctttctcagtcttcctctcagaaat-tctgtccatgctctttgcccactttttaataggg----tttttttttt---cttgttgagttgtttgagtttgttgtagagtctggctattaaccctttgttggagcataatttgcaaatattttctcccatgctgtagattatccatttattctgtta-cttctgtagctgggcagaacttttaaaaatttaattatgtcctatttgtctattgttgttttttgttgcatttgcttttggggtcttagtcataaattatttgcctaggccagaagagttcttcttaggacttttatagtctcgggttttaaaatttaaatctt---------tactccatcttgagttaa-tttttatatatggtgagaaatagaggtc-cagt-ttcattcttctgcatgtggctagccaattttccccactgtttatttttg---------ttg--------actttgtcaaatatcagttcattggaagtatatggctttacttctaggttctctattctgttccattcacctatgtgtttatttttgtattagtaccatgctgttttagttattatagccttgtagtataattt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      251528 587 -   1175262 gaaatgtctttctcagtcttcctctcagaaat-tctgtccatgctctttgcccgctttttaataggg--tttttttttttt---cttgttgagttgtttgagtttgttgtagattctggccattaacccttggttggagcctaatttgcaaatattttctcccattctgtagattatccatttattctgtta-cttatttagctgtgcagaacttttaaaaatttaattatgtcctatttgtctgttgttgttttttgttgcatttgctttgggggtcttagtcataaattatttgtctaggccagaagagttcttcttaggacttttatagtctcgggttttaaaatttaaatctt---------taatccatcttgagttaattttttgtatatagtgagaaataggggtc-cagt-ttcattcttctgcatgtggctagccaattttccccactgtttatttttg---------ttg--------actttgtcaaagatcagttcattggaagtatatggctttacttctaggttctctattctgttccattcacctatgtgtttatttttgtactagtaccatgctgttttagttattatagccttgtactgtaattt
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55641598 576 -  71252344 gaaatgtctttctcagtcttcctctcagaaatgtctgttcatgttctttgctcactttttaacaggg-----ttttatttt---ctttttgagttgt---------gtgtagattcttgctgttaaccctttgttggagcataatttgcaaatattttctcccattctgtagattgtctgtttattctgttaacttcttttgctgtgcagaacttttaaaaatttgattacatcccatttttctattattgttttttgttgcatttgcttttgaggtcttagttataaattctttgcctagggcagaagactttttcataggaattttatagtctcaggtatt-aaatttaagtctt---------taatccatcttgagttca-gttttgtatatggtaagaaatggaggtc-cagtatttactcctctgattgtggctagccagttctccccattgtttatttttg---------ttg--------actttgtcaaagatcagtttgctggaagtatgtgggtttatttctaggttctctattctgttcctttcacctatgtgtctgtttttgtactagtaccaggctgttttagttgttatagccttgtagtataattt
i saiBol1.JH378106         C 0 I 5
s cebCap1.NW_016107829v1     1335985 592 -   1400280 gaaatgtctttctcagccttcctctcagaaatgtctgttcatgttctttgcccactttttaataggt-----tttttttttttgcttgttgagttgt---------ttgtagattcttgctattagccctttgttggagcataatttgcaaatattttctcccattctgtagattgtctgtttattctgttagcttcttttgctgtgcagaacttttaaaaatttaattacatctcatttttctattattggtttttgttgcatttgcttttgaggtcttagtta-aaattctttgcctagggcagaagactttttcataggaattgaatagtctcaggtatt-aaatttaagtctt---------taatccatcttgagttaa-gttttgtatatggtaagaaatagaggcc-cagt-tttactcctctgattgtggctagccaattttccccattgtttattttggggaaatattttggggaaactgctttgtcaaag--cagtttcttggaagtatgtgggtttatttctaggttctctattctgttcttttcacctatgtgtctatttttgtactagtaccaggctgttttagttattatagccttgtagtataattt
i cebCap1.NW_016107829v1   C 0 I 31
s aotNan1.NW_018505940v1    13128852 574 -  42888418 gaaatggctttctcagtcttcctctcagaaatgtctgttcatgttctttgcccactttttaataggg-----ttttttttt---cttgttgagttgt---------ttgtagattcttgctattaatcctttgttggagcataatttgcaaatattttctcccattctgtagattgtctgtttattgtgttaacttcatttgctgtgcagacctttaaaaaatttaattacatcccatttttctattattgttttttgttgcatttgcttttgaggtcttagtcataaattttttacctagggcggaagactcttttgtaggaattttatagtctcaggtatt-aaatttaagtctt---------taatctatc--aagttaa-gttttgtatatggtaagaaatagaggtctcagt-tttactcctctgattgtggctaggcagttttccccattgtttatttttg---------ttg--------actttgtcaaagatcagtttgttggaagtatgtgggtttatttctaggtcctctattctgttccttttacctatgtgtctatttttgtactagtaccaggctgttttagttattatagccttgtataatttttt
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e otoGar3.GL873679           3011552   0 +   4132165 C
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852   0 +  90702639 C
e calJac3.chr2             123583672 7288 - 204313951 I

a score=17917.000000
s hg38.chr5_KI270796v1_alt     28821 4 +    172708 gaag
s panTro5.chr5             125138902 4 + 181907262 gaag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126475855 4 + 183735486 gaag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1667365 4 +   8933513 gaat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797143 4 + 163208435 gaag
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122783200 4 + 180051392 gaga
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124206875 4 + 181584905 gaga
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16204601 4 +  18395747 gaga
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5210459 4 +  26952557 gaga
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28318258 4 +  82825804 gaga
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3982436 4 -   4237731 gaga
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      252115 4 -   1175262 gaga
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55642179 4 -  71252344 aaaa
i saiBol1.JH378106         I 5 C 0
s aotNan1.NW_018505940v1    13129426 4 -  42888418 aaaa
i aotNan1.NW_018505940v1   C 0 I 24
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e otoGar3.GL873679           3011552 0 +   4132165 C
e cebCap1.NW_016107829v1     1336577 31 -   1400280 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852 0 +  90702639 C
e calJac3.chr2             123583672 7288 - 204313951 I

a score=331553.000000
s hg38.chr5_KI270796v1_alt     28825 85 +    172708 ttgggtactgtgatgcctctggcttcattctttttgtttaggattgctttggctactgggc-----ttttgttttgt----tttgttt---tgtttt
s panTro5.chr5             125138906 90 + 181907262 ttgggtactgtgatgcctctggcttcattctttttgtttaggattgctttggctactgggcttttgttttgttttgt----tttgttt---tgtttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126475859 85 + 183735486 ttgggtactgtgatgcctctggcttcattctttttgtttaggattgctttggctactgggc-----ttttgttttgt----tttgttt---tgtttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1667369 75 +   8933513 ttgggtactgtgatgcctctggcttcattctttttgcttaggattgctttggctactgggc---------------t----ttttttt---tttttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797147 70 + 163208435 ttgggtactgtgatgcctctggcttcattctttttgcttaggattgctttggctattggga------------------------ttt---tttttt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122783204 87 + 180051392 ttgggtactgtgatgcctctggattcattctttttgcttagaattgctttggctattgggc------tttgtttttt----tttttttttttttttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124206879 85 + 181584905 ttgggtactgtgatgcctctggattcattctttttgcttagaattgctttggttattgggc------tttgtttttt----ttttttt--tttcttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16204605 81 +  18395747 ttgggtactgtgatgcctctggattaattctttttgcttagaattgctttggctattgggc------tttgtttttt----tgttttt------ttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5210463 84 +  26952557 ttgggtactgtgatgcctctggattcattctttttgcttagaattgctttggctattgggc------tttgtttttt----ttgtttt---tttgtt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28318262 78 +  82825804 ttgggtactgtgatgcctttgggttcattctttttgcttagaattgctttggctattgggc------tttctttt---------tttt----ttttt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3982440 83 -   4237731 ttgggtactgtgatgcctctggattcattctttttgcttagaattgctttggctattgggc------tttgtttttt----ttgtttt----ttgtt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      252119 88 -   1175262 ttgggtactgtgatgcctctggattcattctttttgcttagaattgctttggctattgggc------ttttttttgtgtggttttttt---tttgtt
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55642183 24 -  71252344 ttaaaaa-------------------atacatttt--ttaaaatt----------------------------------------------------
i saiBol1.JH378106         C 0 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e otoGar3.GL873679           3011552  0 +   4132165 C
e aotNan1.NW_018505940v1    13129430 24 -  42888418 I
e cebCap1.NW_016107829v1     1336577 31 -   1400280 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852  0 +  90702639 C
e calJac3.chr2             123583672 7288 - 204313951 I

a score=1823849.000000
s hg38.chr5_KI270796v1_alt     28910 220 +    172708 ttggtttcatatgaactttaggaa-tttttttctaattctgtgaagaataatattggtagtttgataggaatttcattgaatctatagatttctttgggcagtatgatcatttaagaaatattgattcttctgatttgtgagaatgtgatgttcttccatctgtttgtgtcatctataatttctttcatcagtg-ttttgtagctctccttgtagagataac
s panTro5.chr5             125138996 220 + 181907262 ttggttccatatgaactttaggaa-tttttttctaattctgtgaagaataacattggtagtttgataggaatttcattgaatctatagatttctttgggcagtatgatcatttaagaagtattgattcttctgatttgtgagaatgtgatgtttttccatctgtttgtgtcatctataatttctttcatcagtg-ttttgtagctctccttgtagacataac
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126475944 220 + 183735486 ttggttccatatgaactttaggaa-tttttttctaattctgtgaagaataacattggtagtttgataggaatttcattgaatctatagatttctttgggcagtatgatcatttaagaagtattgattcttctgatttgtgagaatgtgatgtttttccatctgtttgtgtcatctataatttctttcatcagtg-ttttgtagctctccttgtagacataac
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1667444 220 +   8933513 ttggttccatatgaactttaggaattttttttctaattctgtgaagaataacattggtagtttgataggaatttcattgaatctgtagatttctttgggcagtatgatcatttaagaaatattgattcttctgatttgtgagaatgggatgtt-ttccatctgtttgtgtcatctataatttctttcatcagtg-ttttgtagctctccttgtagagataac
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797217 222 + 163208435 ttggttccatatgaactttaggatttttttttctaattctgtgaagaataacattggtagtttgataggaattgcattgaatctgtagatttctttgggcagtatgatcatttaagaaatattgattcttctgattcatgagaatgggatgtttttccatctgtttgtgtcatctgtaatttctttcatcagtgtttttgtagctctccttgtagagataac
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122783291 221 + 180051392 tttaatccatatgaactctaggattgttttttctaattctgtggagaataacattggtagtttgataggaattgcattgaatctgtagatttctttgggcagtatgatcatttaaaaaatattgattcttctgattcatgagcatgggatgtttctccatctctttgtgtcatctataatttatttcatcagtg-ttttgtagctctccttgtagagatcac
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124206964 221 + 181584905 tttaatccatatgaactctaggattgttttttctaattctgtggagaataacattggtagtttgataggaattgcattgaatctgtagatttctttgggcagtatgatcatttaagaaatattgattcttctgattcatgagcatgggatgtttctccatctctttgtgtcatctataatttatttcatcagtg-ttttgtagctctccttgtagagatcac
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16204686 221 +  18395747 tttaatccatatgaactctaggattgttttttctaattctgtggagaataacattggtagtttgataggaattgcactgaatctgtagatttctttgggcagtatgatcatttaagaaatattgattcttctgattcatgagcatgggatgtttctccatctctttgtgtcatctataatttatttcatcagtg-ttttgtagttctccttgtagagatcac
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5210547 221 +  26952557 tttaatccatatgaactctaggattgttttttctaattctgtggagaataacattggtagtttgataggaattgcattgaatctgtagatttctttgggcagtatgatcatttaagaaatattgattcttctgattcatgagcatgggatgtttctccatctctttgtgtcatctataatttatttcatcagtg-ttttgtagctctccttgtagagatcac
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28318340 220 +  82825804 tttgatccatatgaactctaggattgttttttctaattctgtgaagaataacattggtag-ttgataggaattgcattgaatctgtagatttctttgggcagtatgatcatttaagaaatattgattcctctgattcatgagcatgggatgtttttccacctctttgtgtcatctataatttatttcatcagtg-ttttgtagctctccttgtagagatcac
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3982523 221 -   4237731 tttaatccatatgaactctaggattgtttttgctaattctgtggagaataacattggtagtttgataggaattgcattgaatctgtagatttctttgggtagtatgatcatttaagaaatattgattcttctgattcatgagcatgggatgtttctccatctctttgtgtcatctataatttatttcatcagtg-ttttgtagctctccttgtagagatcac
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      252207 221 -   1175262 gttgttccatatgaactctaggattgttttttctaattctgtgaagaatagcattggcagtttgatagaaattgcattgaatctgtagatttctttgggcagtatgatcatttaagaaatattgactcttctgattcatgagcatgggatgtgttcccatctgtttgtgtcatttataatttatttcatcagtg-ttttgtagctctccttgtagagatcac
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55642207 221 -  71252344 ttggttccatataaactttaggattgttttttctaattctgtgcagaacaacattggtagtttgataggaattccactgaaacttcagattgctttgggcagtataatcatttaaaaattattgattcttccgatttgtgagcatgggatgtttttccatttgtttgtgtcatctctaatgtccttcatcagtg-ctttgtagttcttcttgtagagatcat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1336608 220 -   1400280 ttggttccatataaactttaggattgttttttctaattctgtgaagaacaacattgttagttttataggaattccattgaatctatagattgctttgggcagtatactcatttaaaaattattgattcttctgatttgtgagcatgggat-tttttccatttgtttgtgtcaccgataatgtccttcatcagtg-ttttgtagttctccttgtagatattgt
i cebCap1.NW_016107829v1   I 31 C 0
s aotNan1.NW_018505940v1    13129454 221 -  42888418 ttggttccatataaactttaggattgttttttctcattctgtgaagaacaatattggtagtttgataggaattccattgaatctatagattgctttgggcagtataatcatttaaaaattattgattcttctgattcatgagcaaaggatgtttttccatttgtttgtgtcatctataatgtcctttatcagtg-ttttgtagttctccttgtagagatcat
i aotNan1.NW_018505940v1   I 24 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e otoGar3.GL873679           3011552   0 +   4132165 C
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852   0 +  90702639 C
e calJac3.chr2             123583672 7288 - 204313951 I

a score=1101186.000000
s hg38.chr5_KI270796v1_alt     29130 115 +    172708 ttacctctttggttgaatttattcctagacattttatttttatcttggct-attgtaaatgtaattgagttcctgatttggttctcagcttgaaaattatttgtgtatag-aaatgA
s panTro5.chr5             125139216 115 + 181907262 ttacctctttggttgaatttattcctagacattttatttttatcttggct-attgtaaatgtaattgagttcctcatttggttctcagcttgaaaattatttgtgtatag-aaatgA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476164 115 + 183735486 ttacctctttggttgaatttattcctagacattttatttttatcttggct-attgtaaatgtaattgagttcctgatttggttctcagcttgaaaattatttgtgtatag-aaatgA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1667664 115 +   8933513 ttacctctttggttgaatttattcctagacattttatttttattttggct-attgtaaatgtaattgagttcctgatttggttctcagcttgaaaattatttgtgtatag-aaatgc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797439 115 + 163208435 ttacctctttggttgaatttattcctagacattttatttttatcttggct-attgtaaatgtaattgagttcctgatttggttctcagcttgaaaattatttgtgtgtag-aaatgA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122783512 115 + 180051392 ttacctctcttgttgaatttattcctagacattttatttttatcttggct-attgtaaatgtaattgagttcctgatttgattctcagcttgaaaattatttgtgtatag-aaatgA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207185 115 + 181584905 ttacctctcttgttgaatttattcctagacattttatttttatcttggct-attgtaaatgtaattgagttcctgatttgattctcagcttgaaaattatttgtgtatag-aaatgA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16204907 115 +  18395747 ttacctctcttgttgaatttattcctagacattttatttttatcttggct-attgtaaatgtaattgagttcctgatttgattctcagcttgaaaattatttgtgtatag-aaatgA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5210768 115 +  26952557 ttacctctcttgttgaatttattcctagacattttatttttatcttggct-attgtaaatgtaattgagtttctgatttgattctcagcttgaaaattatttgtgtatag-aaatgA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28318560 115 +  82825804 ttacctctttggttgaatttattcctagacattttatttttatcttggct-attgcaaatgtaattgagttcttgatttcattctcagcttgaaaattatttgtgtatag-aaatgA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3982744 115 -   4237731 ttacctctcttgttgaatttattcctagacattttatttttatcttggct-attgtaaatgtaattgagtttctgatttgattctcagcttgaaaattatttgtgtatag-aaatgA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      252428  96 -   1175262 ttacctctctggttgaatttatttctagacattttatttttatc--------------------ttgagttcctgatttggttctcagcttgaaaattatttgtgtatag-aaatgA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123590960 115 - 204313951 ttatctcctgggtgaa--ttaatcctagataatttatttgtatcttagctaatggtaaatataattgagttccggatttggttcttggcttgaaaattatttgtgtatagaaaATGA
i calJac3.chr2             I 7288 C 0
s saiBol1.JH378106          55642428 115 -  71252344 ttacctccttggttgaatttattcccagatattttatttttatcttagct-attgtaaatataattgagttcctgatttggttcttggcttgaaaattatttgtgtatag-aaATGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1336828 115 -   1400280 ttacctccttggttgaatttattcctagatattttatttttatcttagct-attgtaaatataattgagttcctgatttggttcttggcttgaagattatttgtgtatag-agatgA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13129675 115 -  42888418 ttacctccttggttgaatttattcctacatattttatttttatcttagct-attgtaaatataattgagttcctgatttggttcttggcttgaaaattatttgtgtatag-aaATGA
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e otoGar3.GL873679           3011552   0 +   4132165 C
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55477852   0 +  90702639 C

a score=62376.000000
s hg38.chr5_KI270796v1_alt     29245 5 +    172708 GTAGT
s panTro5.chr5             125139331 5 + 181907262 GTAGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476279 5 + 183735486 GTAGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1667779 5 +   8933513 GTAGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797554 5 + 163208435 GTAGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122783627 5 + 180051392 GTAGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207300 5 + 181584905 GTAGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205022 5 +  18395747 GTAGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5210883 5 +  26952557 GTAGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28318675 5 +  82825804 GTAGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3982859 5 -   4237731 GTAGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      252524 5 -   1175262 GTAGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123591075 5 - 204313951 GTAGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55642543 5 -  71252344 GTAGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1336943 5 -   1400280 GTAGT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13129790 5 -  42888418 GTAGT
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55477852 5 +  90702639 GTAGT
i mm10.chr18               C 0 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3529987 393 +  11683526 I
e otoGar3.GL873679           3011552 0 +   4132165 C
e dasNov3.JH567306           2563428 1090 +   3667625 I

a score=39032.000000
s hg38.chr5_KI270796v1_alt     29250 3 +    172708 TAG
s panTro5.chr5             125139336 3 + 181907262 TAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476284 3 + 183735486 TAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1667784 3 +   8933513 TAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797559 3 + 163208435 TAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122783632 3 + 180051392 TAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207305 3 + 181584905 TAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205027 3 +  18395747 TAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5210888 3 +  26952557 TAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28318680 3 +  82825804 TAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3982864 3 -   4237731 TAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      252529 3 -   1175262 TAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123591080 3 - 204313951 TAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55642548 3 -  71252344 TAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1336948 3 -   1400280 TAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13129795 3 -  42888418 TAG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3530380 3 +  11683526 TAG
i proCoq1.NW_012155062v1   I 393 C 0
s mm10.chr18                55477857 1 +  90702639 --G
i mm10.chr18               C 0 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e otoGar3.GL873679           3011552 0 +   4132165 C
e dasNov3.JH567306           2563428 1090 +   3667625 I

a score=276260.000000
s hg38.chr5_KI270796v1_alt     29253 20 +    172708 ATTTCAAGAGCACAACAATT
s panTro5.chr5             125139339 20 + 181907262 ATTTCAAGAGCACAACAATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476287 20 + 183735486 ATTTCAAGAGCACAACAATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1667787 20 +   8933513 ATTTCAAGAGCACAACAATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797562 20 + 163208435 ATTTCAAGAGCACAACAATT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122783635 20 + 180051392 ATTTCAAGAGCACAACAATT
i rheMac8.chr6             C 0 I 2
s macFas5.chr6             124207308 20 + 181584905 ATTTCAAGAGCACAACAATT
i macFas5.chr6             C 0 I 2
s macNem1.NW_012012355v1    16205030 20 +  18395747 ATTTCAAGAGCACAACAATT
i macNem1.NW_012012355v1   C 0 I 2
s cerAty1.NW_012002512v1     5210891 20 +  26952557 ATTTCAAGAGCATAACAATT
i cerAty1.NW_012002512v1   C 0 I 2
s chlSab2.chr23             28318683 20 +  82825804 ATTTCAAGAGCACAACAATT
i chlSab2.chr23            C 0 I 1
s manLeu1.NW_012103321v1     3982867 20 -   4237731 ATTTCAAGAGCACAACAATT
i manLeu1.NW_012103321v1   C 0 I 2
s colAng1.NW_012119644v1      252532 20 -   1175262 ATTTCAAGAGCACAACAATT
i colAng1.NW_012119644v1   C 0 I 2
s calJac3.chr2             123591083 20 - 204313951 ATTTCAAGAGCACAACAATT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55642551 20 -  71252344 ATTTCAAGAGTACAACAATT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1336951 20 -   1400280 ATTTCAAGAGTACAACAATT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13129798 20 -  42888418 ATTTCAAGAGCAAAACAATT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3530383 20 +  11683526 ATCTCAAGAGCACAACAATT
i proCoq1.NW_012155062v1   C 0 I 3
s otoGar3.GL873679           3011552 20 +   4132165 ATTTTAAGAACAAAATATTT
i otoGar3.GL873679         C 0 I 2
s mm10.chr18                55477858 20 +  90702639 GTTTCAAAAGTACACCATTG
i mm10.chr18               C 0 C 0
e micMur3.chr12             60498606 835 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e dasNov3.JH567306           2563428 1090 +   3667625 I

a score=2071324.000000
s hg38.chr5_KI270796v1_alt     29273 158 +    172708 -----AAAAAAAGTTTT-CAAGTTTTCATATCTAGCTAACAGACATGTATAGAGAGCAAATTAATGACTAAACCCTAG-AAAAGAAATTGTGTGAAGGTAGGTAGAGAATAAATAATATAAAAGGACAATAGGGTGAATGTCTCAAAAATGATGTGCACCACATG
s panTro5.chr5             125139359 158 + 181907262 -----AAAAAAAGTTTT-GAAGTTTTCATATCTAGCTAACAGACATGTATAGAGAGTAAATTAATGACTAAACCCTAG-AAAAGAAATTGTGTGAAGGTAGGTAGAGAATAAATAATATAAAAGGACAATAGGGTGAATGTCTCAAAAATGATGTGCACCACATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476307 158 + 183735486 -----AAAAAAAGTTTT-CAAGTTTTCATATCTAGCTAACAGACATGTATAGAGAGTAAATTAATGACTAAACCCTAG-AAAAGAAATTGTGTGAAGGTAGGTAGAGAATAAATAATATAAAAGGACAATAGGGTGAATGTCTCAAAAATGATGTGCACCACATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1667807 158 +   8933513 -----AAAAAAAGTTTT-CAAGTTTTCATATCTAGCTTACAGACATGTATAGAGAGTAAATTAATGACTAAACCCTAG-AAAAGAAATTGTGTGAAGGTAGGTAGAGAATAAATAATATAAAAGGACAACAGGGTGAATGTCTCAGAAATGATGTGCACCACATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797582 158 + 163208435 -----AAAAAAAGTTTT-CAAGTATTCATATCTAGCTTACAGACATGTATAGAGAGTAAATTAATGACTAAACCCTAG-AAAAGAAATTGTGTGAAGGTAGGTAGAGAATAAATAATATAAAAGGACAATAGGGCGAATGTCTCAGAAATGGTATGCACCACATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122783657 158 + 180051392 -----AAAAAAAGTTTT-CAAGTTTTCATATCTAGCTTACAGACATGTATAGAGAGTAAATTAATGACTAGACCCTAG-AAAAGAAATTGTGTGATGGTAGGGAGAGAATAAATAATATAAAAGGACAACAGGGCGAATGTCTCAGAAATTATGTGCATCACATG
i rheMac8.chr6             I 2 C 0
s macFas5.chr6             124207330 158 + 181584905 -----AAAAAAAGTTTT-CAAGTTTTCATATCTAGCTTACAGACATGTATAGAGAGTAAATTAATGACTAGACCCTAG-AAAAGAAATTGTGTGATGGTAGGGAGAGAATAAATAATATAAAAGGACAACAGGGCGAATGTCTCAGAAATTATGTGCATCACATG
i macFas5.chr6             I 2 C 0
s macNem1.NW_012012355v1    16205052 158 +  18395747 -----AAAAAAAGTTTT-CAAGTTTTCATATCTAGCTTACAGACATGTATAGAGAGTAAATTAATGACTAGACCCTAG-AAAAGAAATTGTGTGATGGTAGGGAGAGAATAAATAATATAAAAGGACAACAGGGCGAATGTCTCAGAAATTATGTGCATCACATG
i macNem1.NW_012012355v1   I 2 C 0
s cerAty1.NW_012002512v1     5210913 158 +  26952557 -----AAAAAAAGTTTT-CAAGTTTTCGTATCTAGCTTACAGGCATGTATAGAGAGTAAATTAATGACTAGACCCTAG-AAAAGAAATTGTGTGATGGTAGGGAGAGAATAAATAATATAAAAGGACAACAGGGCGAATGTCTCAGAAATTATGTGCATCACATG
i cerAty1.NW_012002512v1   I 2 C 0
s chlSab2.chr23             28318704 158 +  82825804 -----AAAAAAAGTTTT-CAAGTTTTCATATCTAGCTTACAGACATGTATAGAGAGTAAATTAATGACTAGACCCTAG-AAAAGAAATTGTGTGATGGTAGGGAGAGAATAAATAATGTAAAAGGACAACAGGGCGAATGTCTCAGAAATTATGTGCATCACATG
i chlSab2.chr23            I 1 C 0
s manLeu1.NW_012103321v1     3982889 158 -   4237731 -----AAAAAAAGTTTT-CAAGTTTTCATATCTAGCTTACAGACATGTATAGAGAGTAAATTAATGACTAGACCCTAG-AAAAGAAATTGTGTGATGGTAGGGAGAGAATAAATAATATAAAAGGACAATAGGGCGAATGTCTCAGAAATTATGTGCATCACATG
i manLeu1.NW_012103321v1   I 2 C 0
s colAng1.NW_012119644v1      252554 158 -   1175262 -----AAAAAAAGTTTT-CGAGTTTTCATATCTAGCTTACAGACATGTGTAGAGAGTAAATTAATGACTAAACCCTAG-AAAAGAAATTGTGTGATGGTAGGGAGAGAATAAATAATATAAAAGGACAACAAGGCGAATGTCTCAGAAATTATATGCATCACATG
i colAng1.NW_012119644v1   I 2 C 0
s calJac3.chr2             123591103 158 - 204313951 -----TTAAAAAGTTTT-CAAGTTTTTATATCTAGCTAACAGACATGTACGGAGAGTAAATGAATGACTAGACCCTAG-AAAAGAAATTGTGAAAAGGTAGGTAGAAAATAAATAATATAAAAGGACAACAGTGCAAATGCCTCAGAAATGATGTGTATCACATG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55642571 158 -  71252344 -----AAAAAAAGTTTT-CAAGTTTTTATATCTAGCCAACAGACACGTATAGAGAGCAAATTAATGACTAGACCCTAG-AAAAGGAATTGTGTAAAGGTAGGTAGAAAATAAATAATATAAAAGGACAACAGTGCAAATGCCTCAGAAATAATGTGTATCTCATG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1336971 158 -   1400280 -----TAAAAAAGTTTT-CAAGTTTTTCTATCTAGCTAACAGACATGTATAGAGAGTAAATTAATGACTAGACCCTAG-AAAAGAAATTGTGTAAAGGTAGGTAGAAAATAAATAATATAAAATGACAACAGTGTAAATGCCTCAGAAATGATGTGTATCACATG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13129818 156 -  42888418 -------AAAAAGTTTT-CAAGTTTTTATGTCTAGCTAACAGACATGTATAGAGAGTAAATTAATGACTAGACCCTAG-AAAAGAAATTGCATAAAGGTAGGTAGAAAATAAATAATATAAAAGGACAACAGTGCAAATGCCTCAGAAATGATATGTATCACATG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60499441 159 + 108143057 -----AAAGAAAGCTTT-CAAGTTTTTATACCCAGCTAACAGACATGTGTAGCGATTAAATTAATGCTTAGACCCTAGGAAAAGAAATTGTGTATAGGTAGGTAAAAAATGAATAATAAATAAGGGCAGCAGTGCAAATGCCTCAGAAATGATGTGCACCACATG
i micMur3.chr12            I 835 I 97
s proCoq1.NW_012155062v1     3530406 159 +  11683526 -----AAAAAAATCTTT-CAAGTTTTTATACCCAGCTAACAGACATATGTAGAGATTAAACTAATGCCTAAACCCAAGAAAAAGAAATTGTGTATAGGTAGGTAAGAAATGAATAATAAATAAGGGCAGCAGTGCGAATGCCTCAGAAATGATATGCACCACATG
i proCoq1.NW_012155062v1   I 3 C 0
s otoGar3.GL873679           3011574 142 +   4132165 -----TTAAAAACCTTT-CAAGTTTTTATACCCAGCTAATAGACATGTACAGAGATTAAATCAATGCCTAGTCCCTAGGAAAATAAATTGTGCACAGGTAGG--------------TAAATGAGCACAGCAGAGCAAACGCCT--GCATTGGTGTGCACTACAC-
i otoGar3.GL873679         I 2 C 0
s mm10.chr18                55477878 161 +  90702639 GAAATAACAGGGGTCTTGCAAGTTTGAACAGTCAGATAATAGACATACACAGAGAACAAATTGATGCCTGAACCCTAGGGGGGAAAACTGTGCATGAGTAAGCAGAAGATAAATACCAGCACAGGGCAAT-GGGCGGAGAGCTC---AACTATGTGCTCCGAGGA
i mm10.chr18               C 0 C 0
e canFam3.chr11             14872099 168 +  74389097 I
e dasNov3.JH567306           2563428 1090 +   3667625 I

a score=510527.000000
s hg38.chr5_KI270796v1_alt     29431 46 +    172708 AATGTTA--TTGACAATTCAAACCTAAATACCCAATTGATGAAATGAT
s panTro5.chr5             125139517 46 + 181907262 AATGTTA--TTGACAATTCAAACCTAAATACCCAATTGATGAAATGAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476465 46 + 183735486 AATGTTA--TTGACAATTCAAACCTAAATACCCAATTGATGAAATGAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1667965 46 +   8933513 AATGTTA--TTGACGATTCAAACCTAAATACCCAATTGATGAAATGAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797740 46 + 163208435 AATGTTA--TTGAGAGTTCAAACCTAAATACCCAATTGATGAAATGAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122783815 48 + 180051392 AATGTTATTTTGACAACTCAAACCTAAACACCCAATTGATGAAATGAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207488 48 + 181584905 AATGTTATTTTGACAACTCAAACCTAAACACCCAATTGATGAAATGAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205210 48 +  18395747 AATGTTATTTTGACAACTCAAACCTAAACACCCAATTGATGAAATGAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211071 48 +  26952557 AATGTTATTTTGACAACTCAAACCTAAACACCCAATTGATGAAATGAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28318862 48 +  82825804 AATGTTATTTTGACAATTCAAACCTAAACACCCAATTGATGAAATGAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983047 48 -   4237731 AATGTTATTTTGACAACTCAAACCTAAACACCCAATTGATGAACTGAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      252712 48 -   1175262 AATGTTATTTTGACAATTCAAACCTAAACACCCAGTTGATGAAATGAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123591261 47 - 204313951 AATGTTATTTTGACAATTCAAACCTAAATA-CCAATTGATAAAATGAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55642729 47 -  71252344 AATGTTATTTTGACGATTGAAACCTAAATA-CCAATTGATAAAATGAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337129 47 -   1400280 AATGTTATTTTGACAATTCAAACCTAAATA-CCAATTGATAAAATGAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13129974 47 -  42888418 AATGTTATTTTGACAATTCAAACCTAAATA-CCAATTGATAAACTGAT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3530565 42 +  11683526 GATATTGTTTTGAT------AAGCCAAATACGCAATTAATGAAGTAAT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3011716 42 +   4132165 AATGTTGTTTTGAT------AAGCTAAACGCCAAATTAATAAGGTAAT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55478039 46 +  90702639 --GGTGGTCTGGGGAACTCAAAGCTAAATGCTCAGTTAGTGAAGTGAT
i mm10.chr18               C 0 I 421
e micMur3.chr12             60499600 97 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e dasNov3.JH567306           2563428 1090 +   3667625 I

a score=75709.000000
s hg38.chr5_KI270796v1_alt     29477 7 +    172708 ACACACT
s panTro5.chr5             125139563 7 + 181907262 ACACATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476511 7 + 183735486 ACACATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668011 7 +   8933513 ACACACT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797786 7 + 163208435 ACACACT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122783863 7 + 180051392 ACATACT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207536 7 + 181584905 ACATACT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205258 7 +  18395747 ACATACT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211119 7 +  26952557 ACATACT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28318910 7 +  82825804 ACACACT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983095 7 -   4237731 ACATACT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      252760 7 -   1175262 ACACAGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123591308 7 - 204313951 ACATACT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55642776 7 -  71252344 ACATACT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337176 7 -   1400280 ACATACT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130021 7 -  42888418 ACATACT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3530607 7 +  11683526 ACACATT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3011758 7 +   4132165 ATACATT
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60499600 97 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e mm10.chr18                55478085 421 +  90702639 I

a score=342665.000000
s hg38.chr5_KI270796v1_alt     29484 30 +    172708 TTATTATTAGAATTGCATTTAAAATATTGA
s panTro5.chr5             125139570 30 + 181907262 TTATTATTAGAATTGCATTTAAAATATTGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476518 30 + 183735486 TTATTATTAGAATTGCATTTAAAATATTGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668018 30 +   8933513 TTATTATTAGAATTGCATTTAAAATATTGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797793 30 + 163208435 TTATTATTAGAATTGCATTTAAAATATTGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122783870 30 + 180051392 TTATTATTAGAATTGCATTTAAAATATTGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207543 30 + 181584905 TTATTATTAGAATTGCATTTAAAATATTGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205265 30 +  18395747 TTATTATTAGAATTGCATTTAAAATATTGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211126 30 +  26952557 TTATTATTAGAATTGCATTTAAAATATTGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28318917 30 +  82825804 TTATTATTAGAATTGCCTTTAAAATATTGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983102 30 -   4237731 TTATTATTAGAATTGCATTTAAAATATTGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      252767 30 -   1175262 TTATTATTAGAATTGCATTTAAAATATTGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123591315 30 - 204313951 TTATTATTAGAATTATGTTTAAAATATTGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55642783 30 -  71252344 TTATTATTAGAATTACATTTAAAATATTGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337183 30 -   1400280 TTATTATTAGAATTACATTTAAAATATTGA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130028 30 -  42888418 TTGTTATTAGAATTACATTAAAAATATTGA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3530614 28 +  11683526 TTATTATCAGAATTATGTTAAAAATTTG--
i proCoq1.NW_012155062v1   C 0 I 29
s otoGar3.GL873679           3011765 28 +   4132165 TTACTATCAGGATCATATTAAAAAATGA--
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55478506 25 +  90702639 TTAGTATCTGAATTACATTCAAAAA-----
i mm10.chr18               I 421 C 0
e micMur3.chr12             60499600 97 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e dasNov3.JH567306           2563428 1090 +   3667625 I

a score=269116.000000
s hg38.chr5_KI270796v1_alt     29514 28 +    172708 TGAATAATTTTTATGTTGTAGTTAAATT
s panTro5.chr5             125139600 28 + 181907262 TGGATAATTTTTATGTTGTAGTTAAATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476548 28 + 183735486 TGGATAATTTTTATGTTGTAGTTAAATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668048 28 +   8933513 TGGATAATTTTTATGTTGTAGTTAAATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797823 23 + 163208435 TGGATAATTTTTATGTTGTAG-----TT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122783900 27 + 180051392 TGGAT-ATTTTTATGTTGTAGTTAAATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207573 27 + 181584905 TGGAT-ATTTTTATGTTGTAGTTAAATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205295 27 +  18395747 TGGAT-ATTTTTATGTTGTAGTTAAATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211156 27 +  26952557 TGGAT-ATTTTTATGTTGTAGTTAAATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28318947 27 +  82825804 TGGAT-ATTTTTATGTTGTAGTTAAATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983132 27 -   4237731 TGGAT-ATTTTTATGTTGTAGTTAAATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      252797 27 -   1175262 TGGAT-ATTTTTATGTTGTAGTTAAATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123591345 28 - 204313951 TGGATAATATTTATATTGTAGTTAAATT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55642813 28 -  71252344 TGGAAAATATTTATATTGTAGTTAAATT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337213 28 -   1400280 TGAATAATATTTATGTTGTAGTTAAATT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130058 27 -  42888418 GGGATAATATTTA-ATTGTAGTTAAATT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3011793 26 +   4132165 TAAATAATCTTTCTGTTGTAGTTAAA--
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55478531 27 +  90702639 -GGATAATCTCTCTGTTGTAATTAAATT
i mm10.chr18               C 0 C 0
e micMur3.chr12             60499600 97 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3530642 29 +  11683526 I
e dasNov3.JH567306           2563428 1090 +   3667625 I

a score=18479.000000
s hg38.chr5_KI270796v1_alt     29542 2 +    172708 -AA
s panTro5.chr5             125139628 2 + 181907262 -AA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476576 2 + 183735486 -AA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668076 2 +   8933513 -AA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797846 2 + 163208435 -AA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122783927 2 + 180051392 -AA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207600 2 + 181584905 -AA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205322 2 +  18395747 -AA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211183 2 +  26952557 -AA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28318974 2 +  82825804 -AA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983159 2 -   4237731 -AA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      252824 2 -   1175262 -AA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123591373 2 - 204313951 -AA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55642841 2 -  71252344 -AA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337241 2 -   1400280 -AA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130085 2 -  42888418 -AA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60499697 2 + 108143057 -AA
i micMur3.chr12            I 97 C 0
s mm10.chr18                55478558 2 +  90702639 TA-
i mm10.chr18               C 0 C 0
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3530642 29 +  11683526 I
e otoGar3.GL873679           3011819 0 +   4132165 C
e dasNov3.JH567306           2563428 1090 +   3667625 I

a score=473425.000000
s hg38.chr5_KI270796v1_alt     29544 31 +    172708 GATCAGAAAGTTTGACCACGAAACCTAAATA
s panTro5.chr5             125139630 31 + 181907262 GATCAGAAAGTTTGACCACGAAACCTAAATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476578 31 + 183735486 GATCAGAAAGTTTGACCATGAAACCTAAATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668078 31 +   8933513 GATCAGAAAGTTTGACCACGAAACCTAAATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797848 31 + 163208435 GATCAGAAAGTTTGACCACGAAACCTAAATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122783929 31 + 180051392 GATCAGAAAGTTTGACCACAAAACCTAAATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207602 31 + 181584905 GATCAGAAAGTTTGACCACAAAACCTAAATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205324 31 +  18395747 GATCAGAAAGTTTGACCACAAAACCTAAATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211185 31 +  26952557 GATCAGAAAGTTTGACCACAAAACCTAAATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28318976 31 +  82825804 GATCAGAAAGTTTGACCACAAAACCTAAATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983161 31 -   4237731 GATCAGAAAGTTTGACCACAAAACCTAAATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      252826 31 -   1175262 GATCAGAAAGTTTGACCACAAAACCTAAATA
i colAng1.NW_012119644v1   C 0 M 920
s calJac3.chr2             123591375 31 - 204313951 GATCAGAAAGTTTGACCACATAACCTAAATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55642843 31 -  71252344 GATCAGAAAGTTTGACCACGTAACCTAAATC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337243 31 -   1400280 GATCAGAAAGTTTGACTACGTAACCTAAATA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130087 31 -  42888418 GATCAGAAAGTTTGACCACGTAACCTAAATA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60499699 31 + 108143057 GATCAGAAAGTTTGACCACAAAACCTAAACA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3530671 31 +  11683526 GGTCAGAAAGTTTGACCACATAACCTAAATA
i proCoq1.NW_012155062v1   I 29 C 0
s otoGar3.GL873679           3011819 31 +   4132165 GATAAGAAAGTTTGATGACATAACCtaaata
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55478560 31 +  90702639 GATTACAGAATTTGACCAGAAAGACAAAATA
i mm10.chr18               C 0 C 0
e canFam3.chr11             14872099 168 +  74389097 I
e dasNov3.JH567306           2563428 1090 +   3667625 I

a score=148934.000000
s hg38.chr5_KI270796v1_alt     29575 12 +    172708 TAAATAA--TATTT-
s panTro5.chr5             125139661 12 + 181907262 TAAATAA--TATTT-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476609 12 + 183735486 TAAATAA--TATTT-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668109 12 +   8933513 TAAATAG--TATTT-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797879 12 + 163208435 TAAATAA--TATTT-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122783960 12 + 180051392 TAAATAA--TATTT-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207633 12 + 181584905 TAAATAA--TATTT-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205355 12 +  18395747 TAAATAA--TATTT-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211216 12 +  26952557 TAAATAA--TATTT-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319007 12 +  82825804 TAAATAA--TATTT-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983192 12 -   4237731 TAAATAA--TATTT-
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123591406 12 - 204313951 TAAATAA--CATTT-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55642874 12 -  71252344 TAAATAA--CATTT-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337274 12 -   1400280 TAAATAA--CATTT-
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130118 12 -  42888418 TAAATAA--CATTT-
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60499730 12 + 108143057 TAAATAA--TATTT-
i micMur3.chr12            C 0 I 127
s proCoq1.NW_012155062v1     3530702 12 +  11683526 TAAATAA--CATTT-
i proCoq1.NW_012155062v1   C 0 I 5
s otoGar3.GL873679           3011850 14 +   4132165 taaatactttattt-
i otoGar3.GL873679         C 0 I 5
s mm10.chr18                55478591 11 +  90702639 --AATAA--AATTTT
i mm10.chr18               C 0 C 0
e canFam3.chr11             14872099 168 +  74389097 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e colAng1.NW_012119644v1      252857 920 -   1175262 M

a score=234522.000000
s hg38.chr5_KI270796v1_alt     29587 26 +    172708 ATCAAAATGTTTTTCTCCAACTCCCT
s panTro5.chr5             125139673 26 + 181907262 ATCAAAATGTTTTTCTCCAACTCCCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476621 26 + 183735486 ATCAAAATGTTTTTCTCCAACTCCCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668121 26 +   8933513 ATCAAAATGTTTTTCTCCAACTCCCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797891 26 + 163208435 ATCAAAATGTTTTTCTCCAACTCCCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122783972 26 + 180051392 ATCAAAATGTTTTTCTCCAACTCCCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207645 26 + 181584905 ATCAAAATGTTTTTCTCCAACTCCCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205367 26 +  18395747 ATCAAAATGTTTTTCTCCAGCTCCCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211228 26 +  26952557 ATCAAAATGTTTTTCTCCAACTCCCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319019 26 +  82825804 ATCAAAATGTTTTTCCCCAACTCCCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983204 26 -   4237731 ATCAAAATGTTTTTCTCCAACTCCCT
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123591418 24 - 204313951 ATCAAATATTTTCTC--CAACTCCCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55642886 25 -  71252344 ATCAAAAATTTTTTT-ACAACTCCAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337286 25 -   1400280 ATCAAAATTTTTTTC-CCAACTCCCT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130130 25 -  42888418 ATCAAATTTTTTTTT-CCTACTCCCT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3530719 25 +  11683526 ATCAAAAT-TTTTTCTCCAATTCCCT
i proCoq1.NW_012155062v1   I 5 I 7948
s otoGar3.GL873679           3011869 25 +   4132165 atcaattt-ttttCCACCAACTACCT
i otoGar3.GL873679         I 5 C 0
s mm10.chr18                55478602 23 +  90702639 GTTGGA---TTTTTTTTCAAGTCCTT
i mm10.chr18               C 0 C 0
e micMur3.chr12             60499742 127 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e colAng1.NW_012119644v1      252857 920 -   1175262 M

a score=282166.000000
s hg38.chr5_KI270796v1_alt     29613 29 +    172708 AAATAAGTCTACAATTTTCTCTGGTGTCG
s panTro5.chr5             125139699 29 + 181907262 AAATAAGTCTACAATTTTCTCTGGTGTCG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476647 29 + 183735486 AAATAAGTCTACAATTTTCTCTGGTGTCG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668147 29 +   8933513 AAATAAGTCTACAATTTTCTCTGGTGTCG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797917 29 + 163208435 AAATAAGTCTACAGTTTTCTCTGGTGTCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122783998 29 + 180051392 AAATAAGTCTACAATTTTCTCCAGTATCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207671 29 + 181584905 AAATAAGTCTACAATTTTCTCCAGTATCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205393 29 +  18395747 AAATAAGTCTACAATTTTCTCCAGTATCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211254 29 +  26952557 AAATAAGTCTACAATTTTCTCCAGTATCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319045 29 +  82825804 AAATAAGTCTACAATTTTCTCCAGTATCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983230 29 -   4237731 AAATAAGTCTACAATTTTCTCCAGTATCC
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123591442 29 - 204313951 AAATAAATCTACAATTTTCTCTGGTATCC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55642911 29 -  71252344 AAATAAATCTACAATTTTCTCTGGTATCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337311 29 -   1400280 AAGTAAATCTACAATTTTCTCTGGTATCC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130155 29 -  42888418 AAATAAATCTACAATTTTCTCTGGTATCC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3011894 29 +   4132165 AGACAAGTTTACCATTTTCCACAGTATCC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55478625 29 +  90702639 GGAAAATTCTGTAATTTCCTCTGAAATTC
i mm10.chr18               C 0 C 0
e micMur3.chr12             60499742 127 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3530744 7948 +  11683526 I
e dasNov3.JH567306           2563428 1090 +   3667625 I
e colAng1.NW_012119644v1      252857 920 -   1175262 M

a score=692628.000000
s hg38.chr5_KI270796v1_alt     29642 75 +    172708 AAGTAATCTTTTGGT-------AAAATATT-AAACATCCTTGAAGGGGT------TGTAATTCTTTCAGACCATGCTTGTATTAAGTAG
s panTro5.chr5             125139728 75 + 181907262 AAGTAATCTTTTGGT-------AAAATATT-AAACATCCTTGAAGGGGT------TGTAATTCTTTCAGACCATGCTTGCATTAAGTAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476676 75 + 183735486 AAGTAATCTTTTGGT-------AAAATATT-AAACATCCTTGAAGGGGT------TGTAATTCTTTCAGACCATGCTTGCATTAAGTAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668176 75 +   8933513 AAGTAATATTTTGGT-------AAAATATT-AAACATCCTTGAAGGGGT------TGTAATTCTTTCAGACCATGCTTGTATTAAATAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139797946 75 + 163208435 AAGTAATCTTTTGGT-------AAAATATT-AAATATCCTTGAAGGGGT------TGTAACTCTTTCAGACCATGCTTGTATTATGTAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122784027 75 + 180051392 AAATAATCTTTTGGT-------AAAATATT-AAACATCCTTGAAGGGGT------TGTAACTCTTTCAGACCATGGTTGTATTATGTAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207700 75 + 181584905 AAATAATCTTTTGGT-------AAAATATT-AAACATCCTTGAAGGGGT------TGTAACTCTTTCAGACCATGGTTGTATTATGTAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205422 75 +  18395747 AAATAATCTTTTGGT-------AAAATATT-AAACATCCTTGAAGGGGT------TGTAACTCTTTCAGACCATGGTTGTATTATGTAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211283 75 +  26952557 AAATAATCTTTTGGT-------AAAATATT-AAACATCCTTGAAGGGGT------TGTAACTCTTTCAGACCATGGTTGTATTATGTAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319074 75 +  82825804 AAATAATCTTTTGGT-------AAAATATT-AAACATCCTTGAAGGGGT------TGTAACTCTTTCAGACCATGGTTGTATTATGTAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983259 75 -   4237731 AAATAATCTTTTGGT-------AAAATATT-AAACATCCTTGAAGGGGT------TGTAACTCTTTCAGACCATGGTTGTATTATGTAG
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123591471 75 - 204313951 AAGTAATCTTTTGGT-------AAAATATT-AAATGTCCTTGAAGGGGT------TTTAACTCCTTCAGGTCATGCTTGTATGATGTAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55642940 75 -  71252344 AAGTAACCTTTTGGT-------AAAATATT-AAATGTCCTTGAAGGGGT------TTTAATCCCTTCAGATCATGCTTGTATGATGTAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337340 75 -   1400280 AAGTAATCTTTTGGT-------AAAATATT-AAATGTCCTTGAAGGGGT------TTTAACTCCTTCAGATCATGCTTGTATGATGTAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130184 75 -  42888418 AAGTAATCTGTTGGT-------AAAATATT-AAATGTCCTTGAAGGGGT------TTTAACTCCTTCAGATCATGCTTTTATGATGTAG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3011923 70 +   4132165 AAGCCAAATATTGA--------AAAATAT----GCATCCTAGAAGAGGT------TTTCACTCTTTTAGATCATGTTTGTAT-ATGTCA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55478654 81 +  90702639 TTGTAGACTTTTGGT-------TGCATATT-ACCTGTCTACGCAGATTTAAAAAAAAAAATTCATTCACACAATGATTGCATCATGTCT
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2564518 67 +   3667625 AAGTAATCTATTGCTGTACAACAAAATACTCCAAAATTCTGGAAGGGGA------TTTATCTTTTTTGTATCA----------------
i dasNov3.JH567306         I 1090 C 0
e micMur3.chr12             60499742 127 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3530744 7948 +  11683526 I
e colAng1.NW_012119644v1      252857 920 -   1175262 M

a score=15561.000000
s hg38.chr5_KI270796v1_alt     29717 1 +    172708 T
s panTro5.chr5             125139803 1 + 181907262 T
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476751 1 + 183735486 T
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668251 1 +   8933513 T
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139798021 1 + 163208435 T
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122784102 1 + 180051392 T
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207775 1 + 181584905 T
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205497 1 +  18395747 T
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211358 1 +  26952557 T
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319149 1 +  82825804 T
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983334 1 -   4237731 T
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123591546 1 - 204313951 T
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55643015 1 -  71252344 T
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337415 1 -   1400280 T
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130259 1 -  42888418 T
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3538692 1 +  11683526 T
i proCoq1.NW_012155062v1   I 7948 C 0
s otoGar3.GL873679           3011993 1 +   4132165 T
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55478735 1 +  90702639 T
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2564585 1 +   3667625 T
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60499742 127 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e colAng1.NW_012119644v1      252857 920 -   1175262 M

a score=445559.000000
s hg38.chr5_KI270796v1_alt     29718 40 +    172708 ATATTTATAACTGCTCAAGTTATTTATTCTGACTAAATTA
s panTro5.chr5             125139804 40 + 181907262 ATATTTATAACTGCTCAAGTTACTTATTCTGACTAAATTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476752 40 + 183735486 ATATTTATAACTGCTCAAGTTACTTATTCTGACTAAATTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668252 40 +   8933513 ATATTTATAACTGCTCAAGTTATTTATTCTGACTAAATTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139798022 40 + 163208435 ATATTTATAACTGCTTAAGTTATTTATTCTGACTAAATTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122784103 40 + 180051392 GTATTTATGACTGCTCAAGTTATTTATTCTGACTAAATTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207776 40 + 181584905 GTATTTATGACTGCTCAAGTTATTTATTCTGACTAAATTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205498 40 +  18395747 GTATTTATGACTGCTCAAGTTATTTATTCTGACTAAATTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211359 40 +  26952557 GTATTTATAACTGCTCAAGTTATTTATTCTGACTAAATTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319150 40 +  82825804 GTATTTATAACTGCTCAAGTTATTTATTCTGACTAAATTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983335 40 -   4237731 GTATTTATAACTGCTCAAGTTATTTATTCTGACTAAATTA
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123591547 36 - 204313951 ATATTTATAACTGCTCAAG----TTATTCTGACTAAGTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55643016 36 -  71252344 ATATTTATAACTGCTCAAG----TTATTCTGACTAAGTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337416 36 -   1400280 ATATTTATAACTGCTCAAG----CTATTCTGACTATGTTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130260 36 -  42888418 ATGTTTATAACTGCTTAAG----TTATTCTGACTAAGTTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60499869 40 + 108143057 ATATTTACAACTGTTCAAGTTATTTACCATGATTAAAATA
i micMur3.chr12            I 127 C 0
s proCoq1.NW_012155062v1     3538693 40 +  11683526 ATACTTACAACTGCTCAAGTTATTTACGTTGACTAAAATA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3011994 26 +   4132165 ACATTTACAATTGCC--------------TGATTAAAACA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55478736 40 +  90702639 GTATTTATAGCTGTTCAAATTCTTTATTCTTTTTCATATG
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2564586 39 +   3667625 ATTTTTAGAATTTCCC-AGTTATTTACCCTGATTGAAACA
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14872099 168 +  74389097 I
e colAng1.NW_012119644v1      252857 920 -   1175262 M

a score=610196.000000
s hg38.chr5_KI270796v1_alt     29758 53 +    172708 TATCCTACTACCAAGAGTTGACTTAGTGACTGGTAACTACTGTGAATAGCACC
s panTro5.chr5             125139844 53 + 181907262 TATCCTACTACCAAGAGTTGACTTAGTGACTGGTAACTACTGTGAATAGCACC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476792 53 + 183735486 TATCCTACTACCAAGAGTTGACTTAGTGACTGGTAACTACTGTGAATAGCACC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668292 53 +   8933513 TATCCTACTACCAAGAGTTGACTTAGTGACTGGTAACCACTGTGAATAGCACC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139798062 53 + 163208435 TATCCTACTACCAAGAGTTGACTTAGTGACTGGTAACTAGTGTGAATAGCCCC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122784143 52 + 180051392 GATCCTACTACCAAGAGTTGACTTAGTGACTGG-AGCTAGTGTGAATACCACC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207816 52 + 181584905 GATCCTACTACCAAGAGTTGACTTAGTGACTGG-AGCTAGTGTGAATACCACC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205538 52 +  18395747 GATCCTACTACCAAGAGTTGACTTAGTGACGGG-AGCTAGTGTGAATACCACC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211399 52 +  26952557 GATCCTACTACCAAGAGTTGACTTAGTGACTGG-AGCTAGTGTGAATAACACC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319190 52 +  82825804 GATCCTACTACCAAGAGTTGACTTAGTGACTGG-AGCTAGTGTGAATAATACC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983375 52 -   4237731 GATTCTACTACCAAGAGTTGACTTAGTGACTGG-AGCTAGTGTGAATAACACC
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123591583 53 - 204313951 TATCCTACTACGAAGAGTTGACTTAGTGACTGGTAACTAATGTGACTAGCACC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55643052 53 -  71252344 TATCCTACTACCAAGAGTTGACTTAGTGACTGGTAACTAATGTGAATAGCACC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337452 53 -   1400280 TGTCCTACTACCAAGAGTTGATTTAGTGACTGGTAACTAATGTGAATAGCACC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130296 53 -  42888418 TATCCTACTACCAAGAGTTGACTTAATGACTGGTAACTAATGTGAATAGCACC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60499909 53 + 108143057 TATCCTACTAATAAGAGCTGACTTAGTGACTGGTGACTAGTATAAATAGCACC
i micMur3.chr12            C 0 I 213
s proCoq1.NW_012155062v1     3538733 53 +  11683526 CATCCTACTAACAAGAGCTGACTTAGTGACTGGTGACTAGTATACATAGCACC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3012020 53 +   4132165 TATTCTATTAGTAAGACTTGACTTCGTGACTGGGGACTTGTATAAACAGCATG
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2564625 45 +   3667625 TATCTTACTAATAA--------TTAGTGACTGGTTATTAATATGAACAGAGCC
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14872099 168 +  74389097 I
e mm10.chr18                55478776  0 +  90702639 C
e colAng1.NW_012119644v1      252857 920 -   1175262 M

a score=90854.000000
s hg38.chr5_KI270796v1_alt     29811 7 +    172708 CATTTTA
s panTro5.chr5             125139897 7 + 181907262 CATTTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476845 7 + 183735486 CATTTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668345 7 +   8933513 CATTTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139798115 7 + 163208435 CATTTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122784195 7 + 180051392 CATTTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207868 7 + 181584905 CATTTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205590 7 +  18395747 CATTTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211451 7 +  26952557 CATTTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319242 7 +  82825804 CGTTTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983427 7 -   4237731 CATTTTA
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123591636 7 - 204313951 CATTTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55643105 7 -  71252344 CATTTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337505 7 -   1400280 CATTTTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130349 7 -  42888418 CATTTTA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3538786 7 +  11683526 TATTTTA
i proCoq1.NW_012155062v1   C 0 I 493
s otoGar3.GL873679           3012073 7 +   4132165 GATTTTA
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2564670 7 +   3667625 CATTTTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60499962 213 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e mm10.chr18                55478776 0 +  90702639 C
e colAng1.NW_012119644v1      252857 920 -   1175262 M

a score=1905544.000000
s hg38.chr5_KI270796v1_alt     29818 219 +    172708 TGTATAACAGCTTTCT-AAACGCTTCATATCAACAAGCTTCCC-AATAATAATAAATATTCAGGAATCACCCATATCCATCTTTCTCCAGCTTCATTGATGG-AAGACtcatatgaggtatttgctaaacaaacaaattctcaagcctcaacctggaccttctgaataataatctTATGTGTAAATTGATGATCTCCATGTTTAATGATCACCTCTGGGAAT
s panTro5.chr5             125139904 219 + 181907262 TGTATAACAGCTTTCT-AAACCCTTCATATCAACAAGCTTCCC-AATAATAATAAATATTCAGGAATCACCCATATCCATCTTTCTCCAACTTCATTGATGG-AAGACtcatatgaggtatttgctaaacaaacaaattctcaagcctcaacctggaccttctgaataataatctTATGTGTAAATTGATGATCTCCATGTTTAATGATCACCTCTGGGAAt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126476852 218 + 183735486 TGTATAACAGCTTTCT-AAACCCTTCATATCAACAAGCTTCCC-AATAATAATAAATATTCAGGAATCACCCATATCCATCTTTCTCCAACTTCATTGATGG-AAGATTCATATGAGGTATTTGCCAAACAAACAAATCCTCAAGCCTCAACCTGGACCTTCTGAA-AATAATCTTATGTGTAAATTGATGATCTCCATGTTTAATGATCACCTCTGGGAAt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668352 218 +   8933513 TGTATAACAGCTTTCT-AAACCCTTCATATCAACAAGCTTCCC-AATAATAATAAATATTCAGGAATCACCCATATCCATCTTTCTCCA-CTTCATTGATGG-AAGACtcatatgaggtatttgctaaacaaacaaattctcaagcctcaacctggaccttctgaataataatctTATGTGTAAATTGATGATCTCCATGTTTAATGATCACCTCTGGGAAt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139798122 219 + 163208435 CGTATAACAGCTTTCT-AAACCCTTCATATCAACAAGCTTCCC-AATAATAATAAATATCCAGGAATCACCCATATCCATCTTTCTCCAACTTTGTTGATTG-AAGACtcatatgaggtatttgctaaacaaacaaattctcaagcctcaacctggaccttttgaataataatctcatgtgtaatttgatgatctccatgtttaatgatcacctctgggaat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122784202 211 + 180051392 CATATAAAAGCTTTCT-AAACCCTTCATATCAACAAGCTTCCC-AAACAC--------TTCAGGAATCAGCCATATCCATCTTTCTCCAACTTCAATGATGG-AAGACTCATATGAggtatttgctaaacaaacaaattctcaagcctcaacttggacctactgaataataatctcATGTGTAATTTGATGATCTGCATGTTTAATGATCACCTCTGAGAAt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124207875 211 + 181584905 CATATAAAAGCTTTCT-AAACCCTTCATATCAACAAGCTTCCC-AAACAC--------TTCAGGAATCAACCATATCCATCTTTCTCCAACTTCAATGATGG-AAGACTCATATGAggtatttgctaaacaaacaaattctcaagcctcaacctggacctactgaataataatctcATGTGTAATTTGATGATCTGCATGTTTAATGATCACCTCTGAGAAt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205597 211 +  18395747 CATATAAAAGCTTTCT-AAACCCTTCATATCAACAAGCTTCCC-AAACAC--------TTCAGGAATCAACCATATCCATCTTTCTCCAACTTCAATGATGG-AAGACtcatatgagatatttgctaaacaaacaaattctcaagcctcaacctggacctactgaataataatctcATGTGTAATTTGATGATCTGCATGTTTAATGATCACCTCTGAGAAt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211458 211 +  26952557 CATATAAAAGCTTTCT-AAACCCTTCATATCAACAAGCTTCCC-AAACAC--------TTCAGGAATCAACCATATCCATCTTTCTCCAACTTCAATGATGG-AAGACTCATATGAggtatttgctaaacaaacaaattctcaagcctcaacctggacctactgaataataatctcATGTGTAATTTGATGATCTGCATGTTTAATGATCACCTCTGAGAAt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319249 211 +  82825804 CATATAAAAGCTTTCT-AAACCCTTCATATCAACAAGCTTCCC-AAACAC--------TTCAGGAATCAACCATATCCATCTTTCTCCAACTTCAATGATAG-AAGACTCATATGAggtatttgctaaacaaacaaattctcaagcctcaacctggacctactgaataataatctcATGTGTAATTTGATGATCTGCATGTTTAATGATCACCTCTGAGAAt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983434 203 -   4237731 CATATAAAAGCTCTCT-AAACCCTTCATATCAACAAGCTTCCC-AAACAC--------TTCAGGAATCAACCATATCCATCTTTCTCCAACTTCAATGATGG-AAGACTCATATGAggtatttgctaaacaaacaaattctcaagcctcaacctggacctactgaa--------tcaTGTGTAATTTGATGATCTGCATGTTTAATGATCACCTCTGAGAAt
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123591643 206 - 204313951 CGTATAAGAGCTTTCT-AAACCCTTTCTATCAGCAAGCTTCCC-AAACAC--------TTCAGGAATCAAACACATTCATCTTTCTCCAACTTCATTGATGA-AAGACTCTTATGAggcatttgctaaacaaaca----ctcaagcctcaacctggacctactgaatAATAATCACATGTGTAA-TTGATGATCTGCATGTCTAATATTAACCTCTGGGAAt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55643112 207 -  71252344 CATATAACAGTTTTCG-AAACCCTTTCTATCAGCAAGCTTCCC-AAACAC--------TTCAGGAATCACCCACATCCATCTTTCTCCAACTTCGTTGATGG-AAGACtcatatgaggcatttgctaaacaaaca----tccaagcctcaacctggacctactgaataataatcacacgtgtaatttgatgatctgcatgtttaataatcacctctgggAAt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337512 203 -   1400280 CATATAACAGCTTTCT-AAACCCTTTCTATCAGCAAGCTTCCC-AAACAT--------TTCAGGAATCACCCACATCCATCTTTCTCCAACTTCGTTGATGG-AAAACTCATATGAGGCATTTGCTAAACAAACA----CTCAAGCCTCAACCTGG----ACTGAATAATAATCACGTGTGTAATTTGATGATCTGCATGTATAATAATCACCTCTGGGAAt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130356 207 -  42888418 TGTATAACAGCTTTCT-AAACCCTTTCTATCAGCAAGCTTCCC-AAACAC--------TTCAGGAATCACCCACATTCATCTTTCTCCAACTTCGTTGATGG-AAGACtcatatgatgaatttgctaaacaaaca----ctcaagcctcaacctggacctactgaataataatcacatgtgtaatttgatgatctgcatgtttaataatcacctctgggAAt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3012080 193 +   4132165 CATGTAACAAATTTTTAAAACCACTCATGTAAACAGATTTTTC-AAAACA--------CTCAACGGTCTCCCACATCAGTGTTTCTCAAACATCCTTGAAGGTAAGACTCACATGTCATatttgctaaacagaaaaattctcagacctcaacctagacctactgaataataatctggtgtgtaatttggtaatctg--------------------gatggt
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2564677 171 +   3667625 TATGTATTGAATTTTTAAAACATTTCATGTCAATAAGTTTTCCAAAACAC--------TTAGTGACTGATCTAGCTCAGTGTTTCTCAAACTTCCTTGATGGTAAGACTTACATAAggtatttgttagccaaa----ttctcaggcttaagcctagacctactgaataataat---------------------------------------ttctaagagt
i dasNov3.JH567306         C 0 I 40
e micMur3.chr12             60499962 213 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3538793 493 +  11683526 I
e mm10.chr18                55478776   0 +  90702639 C
e colAng1.NW_012119644v1      252857 920 -   1175262 M

a score=621848.000000
s hg38.chr5_KI270796v1_alt     30037  98 +    172708 TCtt---ttttttttttttttttttttttttggagatggagtcttactctgtcacccaggctggagtgccatggtgcaatctcagctcactgcaacctcca
s panTro5.chr5             125140123  88 + 181907262 tc-------------ttttttttttttttttggagatggagtcttactctgtcacccaggctggagtgccatggtgcaatctcagctcactgcaacctcca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126477070  86 + 183735486 tc---------------tttttttttttttggtagatggagtcttactctgtcacccaggctggagtgccatggtgcaatctcagctcactgcaacctcca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668570  82 +   8933513 tc-------------------ttttttttttggagatggagtctcactctgtcacccaggctggagtgccatgatgcagtctcagctcactgcaacctcca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139798341 101 + 163208435 tctTTTATTATTATTATTAttttttttttttggcgatggagtcttactctgtcacccaggctggagtgccatggtatgatctcggctcactgcaacctcca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122784413  86 + 180051392 tc---------------ttttttttttttttggagatggagtctcactctgtcacccaggctggagtgccgtggcgtgatcttggctcactgcaacctcca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124208086  86 + 181584905 tc---------------ttttttttttttttggagatggagtctcactctgtcacccaggctggagtgccgtggcgtgatcttggctcactgcaacctcca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205808  88 +  18395747 tc-------------ttttttttttttttttggagatggagtctcactctgtcacccaggctggagtgccgtggcgtgatcttggctcactgcaacctcca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211669  90 +  26952557 tc-----------tcttttttttttttttttggagatggagtctcactctgtcacccaggctggagtgctgtggcgtgatcttggctcactgtaacctcca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319460  89 +  82825804 tc------------tttttttttttttttttggagatggagtctcactctgtcacccaggctggagtgccgtggcgtgatcttggctcactgcagcctcca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983637  83 -   4237731 tc------------------tctttttttttggagatggagtctcactctgtcacccaggctggagtgctgtggcgtgatcttggctcactgtaacctcca
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123591849  85 - 204313951 tc----------------ttttttgttttttggagacaaagtctcaccctgttgcccaggctggagtgctgtggtgcgatctcggctcactgcaacttctg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55643319  86 -  71252344 tc---------------tttttttgttttttggagataaagtctcaccttgttgcctaggctggagtgctgtggtgcaatctcagctcactgtaacctctg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337715  85 -   1400280 tc----------------ttttttgttttttggagacaaagtctcaccctgttgcccaggttggagtgctgtggcacaatctcagctcactgcaacctctg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130563  85 -  42888418 tc----------------ttttttgttttttggagacaaagtctcaccctgttgcccaggctggagtgctgtggtgtgatctcggctcactgcaacctctg
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3012273  15 +   4132165 ta-------------------------------------------------------------------------gtaatc-------------acctcca
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60499962 213 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3538793 493 +  11683526 I
e dasNov3.JH567306           2564848  40 +   3667625 I
e mm10.chr18                55478776   0 +  90702639 C
e colAng1.NW_012119644v1      252857 920 -   1175262 M

a score=609893.000000
s hg38.chr5_KI270796v1_alt     30135 70 +    172708 ccttctgggttcaagcaattcccctgcctcagcctcccaagtagctgggactacaggcacatgccaccac
s panTro5.chr5             125140211 70 + 181907262 ccttctgggttcaagcaattcccctgcctcagcctcccaagtagctgggactacaggcacatgccaccac
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126477156 70 + 183735486 ccttctgggttcaagcaattcccctgcctcagcctcccaagtagctgggactacaggcacatgccaccac
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668652 70 +   8933513 ccttctggattcaagcaattcccctgcctcagcctcccaggtagctgggactacaggcacatgccaccac
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139798442 70 + 163208435 ccttctgggttcaagcaattcttctgcttcagcctcccaagtagctgggaccacaggcacatgccatcac
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122784499 70 + 180051392 ccttctgggttcaagccattctcctgcctcagcctcccaagtagctgggactacaggcacgtaccaccaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124208172 70 + 181584905 ccttctgggttcaagccattctcctgcctcagcctcccaagtagctgggactacaggcacgtaccaccaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205896 70 +  18395747 ccttctgggttcaagccattctcctgcctcagcctcccaagtagctgggactataggcacgtaccaccaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211759 70 +  26952557 ccttctgggttcaagccattctcctgcctcagcctcccaagtagctgggactacaggcacgtgccaccaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319549 70 +  82825804 ccttctgggttcaagccattctcctgcctcagcctcccaagtagctgtgactacaggcacgtgccaccaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983720 70 -   4237731 ccttctgggttcaagccattctcctgcctcagcctcccaagtagctgggactacaggcacgtgccaccaa
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123591934 70 - 204313951 cctcctgggttcaagcaattctcctacctcagcctcccaaatagctgggactataggcaggcaccaccat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55643405 70 -  71252344 cctcctgggttcaagcaattctcctgtctcagcctcccaagtagctgggactataggcaggcaccaccat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337800 70 -   1400280 cctcctgggttcaagcaattctcctgcctctgcctcccaagtagctgggactataggcaggcaccaccat
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130648 70 -  42888418 cctcctgggttcaagcaattctcctgcttcagcctcccaagtagctgagactataggcaggcaccaccat
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60499962 213 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3538793 493 +  11683526 I
e otoGar3.GL873679           3012288  0 +   4132165 C
e dasNov3.JH567306           2564848 40 +   3667625 I
e mm10.chr18                55478776  0 +  90702639 C
e colAng1.NW_012119644v1      252857 920 -   1175262 M

a score=1341572.000000
s hg38.chr5_KI270796v1_alt     30205 143 +    172708 gtctggccaatttttgcatttttactagagatagggtttcaccatgttggccaggctggtcttgaactcttgacctcaggtgatccacccgtctcggcctctcaaagtgctgggaatacaggtatgagccactgcgcccggcc
s panTro5.chr5             125140281 143 + 181907262 atctggctaatttttgcatttttactagagatagggtttcaccatgttgaccaggctggtcttgaactcttgacctcaggtgatccacccgtctcggcctctcaaagtgctgggaatacaggtatgagccactgcgcccggcc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126477226 143 + 183735486 atctggctaatttttgcatttttactagagatagggtttcaccatgttgaccaggctggtcttgaactcttgacctcaggtgatccacccgtctcggcctctcaaagtgctgggaatacaggtatgagccactgcgcccggcc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668722 142 +   8933513 atctggctaatttttccatttttactagagatggggtttcaccatgttggccaggctggtcttgaactcttga-ctcaggtgatccacccgtctcggcctctcaaagtgctgggaatacaggtatgagccactgcgcacggcc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139798512 143 + 163208435 atctggctaatttttgcatttttagtagagatggggtttcaccatgttggccaggctggtcttgaactcttgacctcaggtgatccacccctctcggcctctcaaagtgctgggaatacaggcatgagccactgcgcctggGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122784569 143 + 180051392 gtctggctaatttttgtatttttagtagagacggggtttcaccatgctggccaggctggtcttgaactcctgacctcaggtgatccacccatctcagcctcccaaaatgctgggaatagaggcatgagccactgcacccagcT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124208242 143 + 181584905 gtctggctaatttttgtatttttagtagagacggggtttcaccatgctggccaggctggtcttgaactcctgacctcaggtgatccacccatctcagcctcccaaaatgctgggaatagaggcatgagccactgcacccagcT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16205966 143 +  18395747 gtctggctaatttttgtatttttagtagagacggggtttcaccatgctggccaggctggtcttgaactcctgacctcaggtgatccacccatctcagcctgccaaaatgctgggaatagaggcatgagccactgcacccagcT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211829 143 +  26952557 gtctggctaatttttgtatttttagtagagacggggtttcaccatgctggccaggctggtcttgaactcctgacctcaggtgatccacccatctcagcctcccaaaatgctgggaatagaggcatgtgccactgcacccagcT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319619 143 +  82825804 gtctggctaatttttgtatttttagtagagacggggtttcaccatgctggccaggctggtcttgaactcctgacctcaggtgatccacccatctcagtctcccaaaatgctgggaatagaggcatgagccactgcacccagcT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983790 143 -   4237731 gtctggctaatttttgtatttttagtagagacggggtttcaccatgctggccaggctggtcttgaactcctgacctcaggtgatccacccatctcagcctcccaaaatgctgggaatagaggcatgtgccactgcacccagcT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      253780 143 -   1175262 gtctggctaatttttgtatttttagtagagacagggtttcaccatgctggccaggctggtcttgaactcctgaccccaggtgatccacccatctcagcctcccaaagtgctgggaatagaggcatgagccactgcacccggcT
i colAng1.NW_012119644v1   M 920 C 0
s calJac3.chr2             123592004 143 - 204313951 gcccagctaatttttgtatttttagtagagatggggtttcaccatgttggccaggctcgtctcaaactcctgacctcaagtgatccacccaccacagtctcccaaagtgctgggattacaagcatgagccgctgccactggcc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55643475 143 -  71252344 gcccagctaatttttgtatttttagtagagatggggtttcaccatgttggccaagctgttctcaaactcctgacctcaagtgatccatccacctcggccttccaaagtgctgggattacaagcatgagccaccaccactggcc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1337870 142 -   1400280 gcccagctcatttttgtatttttagtagagatggggttttaccacgttggccaggctggtctcaaactcctaacctcgagtgatccacccaccccggcctcccaaagtgctgggattacaagcatgagccattgtcac-ggcc
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130718 143 -  42888418 gcccagctaatttttgtatttttagtagagatggagtttcaccatgttggccaggctggtctcaaactcctgatctcaagtgatctacccacctcagcctcccaaagtgctgggattacaagcatgagccaccgccactggcc
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60499962 213 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3538793 493 +  11683526 I
e otoGar3.GL873679           3012288   0 +   4132165 C
e dasNov3.JH567306           2564848  40 +   3667625 I
e mm10.chr18                55478776   0 +  90702639 C

a score=17516.000000
s hg38.chr5_KI270796v1_alt     30348 2 +    172708 AG
s panTro5.chr5             125140424 2 + 181907262 AG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126477369 2 + 183735486 AG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668864 2 +   8933513 AG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139798655 2 + 163208435 GG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122784712 2 + 180051392 GG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124208385 2 + 181584905 GG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16206109 2 +  18395747 GG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211972 2 +  26952557 GG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319762 2 +  82825804 GG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983933 2 -   4237731 GG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      253923 2 -   1175262 GG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123592147 2 - 204313951 AG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55643618 2 -  71252344 AG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1338012 2 -   1400280 AG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130861 2 -  42888418 AG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3012288 2 +   4132165 gg
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60499962 213 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3538793 493 +  11683526 I
e dasNov3.JH567306           2564848 40 +   3667625 I
e mm10.chr18                55478776 0 +  90702639 C

a score=15561.000000
s hg38.chr5_KI270796v1_alt     30350 1 +    172708 A
s panTro5.chr5             125140426 1 + 181907262 A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126477371 1 + 183735486 A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668866 1 +   8933513 A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139798657 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122784714 1 + 180051392 A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124208387 1 + 181584905 A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16206111 1 +  18395747 A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211974 1 +  26952557 A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319764 1 +  82825804 A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983935 1 -   4237731 A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      253925 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123592149 1 - 204313951 A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55643620 1 -  71252344 A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1338014 1 -   1400280 A
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130863 1 -  42888418 A
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60500175 1 + 108143057 a
i micMur3.chr12            I 213 C 0
s proCoq1.NW_012155062v1     3539286 1 +  11683526 a
i proCoq1.NW_012155062v1   I 493 C 0
s otoGar3.GL873679           3012290 1 +   4132165 a
i otoGar3.GL873679         C 0 C 0
e canFam3.chr11             14872099 168 +  74389097 I
e dasNov3.JH567306           2564848 40 +   3667625 I
e mm10.chr18                55478776 0 +  90702639 C

a score=1097950.000000
s hg38.chr5_KI270796v1_alt     30351 78 +    172708 ATTCTTATGATTAGGGGAGTATGGGAAGTCCTAACCTAGGTAATACATTTGAGATTCGTGGAGTACGTATCTTTATAT
s panTro5.chr5             125140427 78 + 181907262 ATTCTTATGATTAGGGGAGTATGGGAAGTCCTAACCTAGGTAATACATTTGAGATTCATGGAGTACGTATCTTTATAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126477372 78 + 183735486 ATTCTTATGATTAGGGGAGTATGGGAAGTCCTAACCTAGGTAATACATTTGAGATTCATGGAGTACGTATCTTTATAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668867 75 +   8933513 A---TTATGATTAGGGGAGTATGGGAAGTCCTAACCTAGGTAATACATTTGAGATTCATGGAGTACATATCTTTATAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139798658 78 + 163208435 ATTCTTATGATTAGGGGAGTATGGGAAGTCCTAACCTAGGTAATACATTTGAGATTCATGGAGTACATATCTTTATAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122784715 78 + 180051392 ATTCTTATGATTAGGGGAGTATGGGAAGTCCTAACCTCGGTAATACATTTGAGATTCATGGAGTACATATCTTTATAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124208388 78 + 181584905 ATTCTTATGATTAGGGGAGTATGGGAAGTCCTAACCTCAGTAATACATTTGAGATTCATGGAGTACATATCTTTATAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16206112 78 +  18395747 ATTCTTATGATTAGGGGAGTATGGGAAGTCCTAACCTCGGTAATACATTTGAGATTCATGGAGTACATATCTTTATAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5211975 78 +  26952557 ATTCTTATGATTAGGGGAGTATGGGAAGTCCTAACCTAGGTAATACATTTGAGATTCATGGAGTACATATCTTTATAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319765 78 +  82825804 ATTCTTATGATTAGGGGAGTATGGGAAGTCCTAACCTAGGTAATACATTTGAGATTCATGGAGTACATATCTTTATAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3983936 78 -   4237731 ATTCTTATGATTAGGGGAGTATGGGAAGTCCTAACCTAGGTAATACATTTGAGATTCATGGAGTACATATCTTTATAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      253926 78 -   1175262 ATTCTTATGATTAGGGGAGTATGGGAAGTCCTAACCTAGGTAATACGTTTGAGATTCATGGAGTACATATCTTTATAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123592150 77 - 204313951 TTTCTTATGATTAGGGGAGTATGGAAAGTCCTAACCTA-GTAATACATTTGAGATTCATGGAGCACATATCTTTATAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55643621 77 -  71252344 ATTCTTATGATTA-GGGAGTATGGAAAGTCCTAACCTAGGTAATACATTTGAGATTCATAGAGCACATATCTTTATAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1338015 78 -   1400280 ATTCTTATGATTAGAGGAGTATGGAAAGTCCTAACCTAGGTAATACATTTGAGATTCATAAAGCACATATCTATATAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130864 78 -  42888418 ATTCTTATGATTAGGGGAGTATGGAAAGTCCTAACCTAGGTAATACATTTGAGATTCGTGGAGCACATATCTTTATAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60500176 78 + 108143057 attcttatCATTCGAGAAGTATAGGAAGCCCTAACCTAGATCATAAGTTTAAGATTCATGGAGTACACATTTTAATAT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3539287 77 +  11683526 attcttatCATTAGAGGAGTATAGGAAGCCCTAACCTAGATCATAAGTTTGAGATTCATGGAGTATACATTTC-ATAT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3012291 76 +   4132165 attctTAGCATTAGAGGAGTATAGGAAGCCCTAACCTAAGTAATAAGTTTGAGATTCAT--AGGACACATTTTCGTGT
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2564888 70 +   3667625 GTTCTTATCATCAGGAAA--ATAGGAAGCCCTAATCTAGCTACTA------AGATTCATGGAGAATACTTTTTCATAT
i dasNov3.JH567306         I 40 C 0
e canFam3.chr11             14872099 168 +  74389097 I
e mm10.chr18                55478776  0 +  90702639 C

a score=1220460.000000
s hg38.chr5_KI270796v1_alt     30429 96 +    172708 TCTCCCACCACATATAATAAAGAGTCTTGCAAATATTTTAGTTATGTTTGAGACTATTAAAAACAACCTAATTAATACTCGTGAG-TATATAGTAAA
s panTro5.chr5             125140505 96 + 181907262 TCTCCCACCACATATAATAAAGAGTCTTGCAAATATTTTAGTTATGTTTGAGACTATTAAAAACAACCTAATTAATACTCGTGAG-TATATAGTAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126477450 96 + 183735486 TCTCCCACCACATATAATAAAGAGTCTTGCAAATATTTTAGTTATGTTTGAGACTATTAAAAACAACCTAATTAATACTCGTGAG-TATATAGTAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1668942 96 +   8933513 TCTCCCACCACATATAATAAGGAGTCTTGCAAATATTTTAGTTATGTTTGAGATTATTAAAAACAACCTAATTAATACTTGTGAG-TATATAGTAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139798736 96 + 163208435 TCTCCCACTGCATATAACAAAGAGTCTTGCAAATGTTTTAGTTATGTTTGAGATTATTAAAAACAATCTAATTAATACTTGTGAG-TATATAGTAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122784793 96 + 180051392 TCTCCCATCACATATAACAAAGAGTCTTGCCAATATTTTAGGAATGCTTGAGATTATTAAAAACAACCTCATTCATACTTGTGAG-TGAGTAGTAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124208466 96 + 181584905 TCTCCCATCACATATAACAAAGAGTCTTGCCAATATTTTAGGAATGCTTGAGATTATTAAAAACAACCTCATTCATACTTGTGAG-TGAGTAGTAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16206190 96 +  18395747 TCTCCCATCACATATAACAAAGAGTCTTGCCAATATTTTAGGAATGCTTGAGATTATTAAAAACAACCTCATTCATACTAGTGAG-TGAGTAGTAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5212053 96 +  26952557 TCTCCCATCACATATAACAAAGAGTCTTGCCAATATTTTAGGAATGCTTGAGATTATTAAAAACAACCTCATTCATACTTGTGAG-TGAGTAGTAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319843 96 +  82825804 TCTCCCATCACATATAACAAAGAGTCTTGCCAATATTTTAGGAATGCTTGAGATTATTAAAAACAACCTCATTCATACTTGTGAG-TATATAGTAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3984014 96 -   4237731 TCTCCCATCACATATAACAAAGAGTCTTGCCAATATTTTAGGAATGCTTGAGATTATTAAAAACAACCTCATTCATACTTGTGAG-TGAGTAGTAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      254004 96 -   1175262 TCTCCCATCACATATAACAAAGAGTCTTGCCAATATTTTAGGAATGCTTGCGGTTATTAAAAACAACCTCATTAATACTTGTGAG-tatatagtaaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123592227 93 - 204313951 TCTCCCACCACATATAACAAAGAGTCTTGCAAATATTTTACGTGTATTTGAGTTGATT-AAAAC-ACCTAATTCATACTTGTGGA-TATATA-CAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55643698 94 -  71252344 TCTCCCACCACATATAACAAAGAGTCTTTCAAATATTTTAGGTATATTTGAGATGATT-AAAACAACCTAATTCATACTTGTGGG-TATATA-TAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1338093 94 -   1400280 TCTCCCAACACATATAACAAAGAGTCTTGGAAATATTTTAGGTATATTTGAGATGATT-AAAGCAACCTAATTCATACTTGTGGG-TATATA-TAAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13130942 94 -  42888418 TCTCCCACCACATGTAACAAAGAGTCTTGCAATTATTTTAGGTATATTTGAGATGATT-AAAACAACCTAATTCATACTTGTGGG-TATATA-TAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60500254 96 + 108143057 TCTACTACCACACCTAACAAAGAGTCTTACCAATATGTTAGGTATATTTGAGAATATTAAAAACAACTCAATTAATACTTGTGGG-TATGCAGTAAA
i micMur3.chr12            C 0 I 11
s proCoq1.NW_012155062v1     3539364 96 +  11683526 TCTACTACCACACCTAACAAAGAGTCTTACAAATATTTTAGGTATATTTGAGAATATTAAAAATGACCCAATTAATACCTGTGCA-TATACAATAAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3012367 96 +   4132165 GCTCCTCCCACACCTAACCAAGGGTCTTGCAAACATTTTAGGTGTATCTGAAAATATTAAAAACAACCCAGTTAATGCTTATGGG-TATATAGTAAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55478776 94 +  90702639 TTTCCCACCAT-TACCAAAATAAGACTTGTATATATTTTGAGTATATC--AGAATTTTGAAAACAACTGAATTAGCATTTGTAGGTTCTAGGGTAAA
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2564958 90 +   3667625 TTTCCCAT---ATATAACATAGAAGCTTGAAAATATTTTAACTGTGGTTGAGAATATTAAAAACATCTTAATTAG---TTGTGGA-TATATAGTAGA
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14872099 168 +  74389097 I

a score=279569.000000
s hg38.chr5_KI270796v1_alt     30525 21 +    172708 CACTCATAAATACACATCTCC
s panTro5.chr5             125140601 21 + 181907262 CACTCATAAATACACATCTCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126477546 21 + 183735486 CACTCATAAATACACATCTCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1669038 21 +   8933513 CACTCATAAATACACGTCTCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139798832 21 + 163208435 CACTCATAAATACACATCTCC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122784889 21 + 180051392 CACTCATAAATACACATCTCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124208562 21 + 181584905 CACTCATAAATACACATCTCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16206286 21 +  18395747 CACTCATAAATACACATCTCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5212149 21 +  26952557 CACTCATAAATACACATCTCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319939 21 +  82825804 CACTCATAAATACACATCTCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3984110 21 -   4237731 CACTCATAAATACACATCTCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      254100 21 -   1175262 cactcataaatacacatctct
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123592320 21 - 204313951 TACTCACAAATACATATCTCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55643792 21 -  71252344 TACTCACAAAGACATATCTCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1338187 21 -   1400280 TACTCACAAATACGTATCTCC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13131036 21 -  42888418 TACTCACAAATACATATCTCG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3539460 21 +  11683526 CACTCACAAATACACATCTCT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3012463 17 +   4132165 ----CACAAATACACATCTCT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55478870 17 +  90702639 ----TACAAATATGCAACTCT
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2565048 21 +   3667625 CCCTCAGAAAAACACACCTAT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60500350 11 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I

a score=1290461.000000
s hg38.chr5_KI270796v1_alt     30546  94 +    172708 ATAAGT----------------------CAAGATTATGTTGCTCTCC-AGGGAAATATATCAGAAATTTAAACCACTGCAAGATTCTGATGACAGTTTGCTCAATTTAGAAAG--AGAA
s panTro5.chr5             125140622  94 + 181907262 ATAAGT----------------------CAAGATTATGTTGCTCTCC-AGGGAAATATATCAGAAATTTAAACCACTGCAAGATTCTGATGGCAGTTTGCTCAATTTAGAAAG--AGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126477567  94 + 183735486 ATAAGT----------------------CAAGATTATGTTGCTCTCC-AGGGAAATATATCAGAAATTTAAACCACTGCAAGATTCTGATGGCAGTTTGCTCAATTTAGAAAG--AGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1669059  93 +   8933513 ATAAGT----------------------CAAGATTATGTTGCTCTCC-AGGGAAATATATCAGAAA-TTAAACCACTGCAAGATTCTGATGACAGTTTGCTCAATTTAGAAAG--AGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139798853  94 + 163208435 ATAAGT----------------------CAAGGTTATATTGCTCTCT-AGGGAAATATATCAGAAATTTAAACCACTGCAAGATTCTGATGACAGTTTGCTCAATTTAGAAAG--AAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122784910  95 + 180051392 ATAAGT----------------------CACGATTATGTTGCTCTTC-AGGGAAATATATCAGAAATTTAAACCAGTGCAAGATTCTAATGGCAGTTTGCCCAATTTAGAAAG-AAAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124208583  95 + 181584905 ATAAGT----------------------CACGATTATGTTGCTCTTC-AGGGAAATATATCAGAAATTTAAACCAGTGCAAGATTCTAATGGCAGTTTGCCCAATTTAGAAAG-AAAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16206307  95 +  18395747 ATAAGT----------------------CACGATTATGTTGCTCTTC-AGGGAAATATATCAGAAATTTAAACCAGTGCAAGATTCTAATGGCAGTTTGCCCAATTTAGAAAG-AAAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5212170  95 +  26952557 ATAAGT----------------------CACGATTATGTTGCTCTTC-AGGGAAATATATCAGAAATTTAAACCAGTGCAAGATTCTAATGGCAGTTTGCCCAATTTAGAAAG-AAAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28319960  95 +  82825804 ATAAGT----------------------CACGATTATGTTGCTCTTC-AGGGAAATATATAAGAAATTTAAACCAGTGCAAGATTCTAATGGCAGTTTGCCCAATTTAGAAAG-AAAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3984131  96 -   4237731 ATAAGT----------------------CACGATTATGTTGCTCTTC-AGGGAAATATATCAGAAATTTAAACCAGTGCAAGATTCTAATGGCAGTTTGCCCAATTTAGAAAGAAAAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      254121 117 -   1175262 ataagtctatatatactatatataCTCACAAGATTATGTTGCTCTCC-AGGGAAATATATCAGAAATTTAAACCACTGCAAGATTCTAATGGCAGTTTGCCCAATTTAGAAAG-AAAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123592341  88 - 204313951 GTAAGT-----------------------AAAATTGTGTTGCTCT-C-AGGAATATAT-TCAGAAATTTAAACCACTGC-AGATTCTGATGAAAG-TTGCTCAG-TTAGAAAT--AAAA
i calJac3.chr2             C 0 M 242
s saiBol1.JH378106          55643813  94 -  71252344 ATAAGT----------------------CAAGACTGTGTTGCTCTCC-AGGGAAGTATATCAGAAATTTAAACCACTGCAAGATTCTGATGACAGTTTGTTCAATTTAGAAAT--AAAA
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107829v1     1338208  94 -   1400280 ATAAGT----------------------CAAGATTGTGTTGCTCTCC-AGGGAAATATATCAGGAATTTAAACCACTACAAGATTCTGGTGACAGTTTGCTCAGTTTAGAAAT--AAAA
i cebCap1.NW_016107829v1   C 0 I 1
s aotNan1.NW_018505940v1    13131057  94 -  42888418 ATAAGT----------------------CAAGATTGTGTTGCTCTCC-AGGGAAATATATCAGAAATTTAAACCACTGCAAGATTATGATGACAGTTTGCTCAATTTAGAAAT--AAAA
i aotNan1.NW_018505940v1   C 0 I 1
s micMur3.chr12             60500361  94 + 108143057 ATAAGT----------------------CAAGATTATGTTGCTCTGT-AGGGAAAAATATCAGAAATTTAAACCACCACAGAACTCTAATGACAGTTTACTCAATTTAGAAAG--AAAA
i micMur3.chr12            I 11 I 1
s proCoq1.NW_012155062v1     3539481  94 +  11683526 GTAAGC----------------------CAAGATTATGTTTCTCTGT-AGAAAAAAATATCAGAAATTTAAACTACCACAGAATTCTAATGACAGTTTACTCAACTTAGAAAG--AAAA
i proCoq1.NW_012155062v1   C 0 I 1
s otoGar3.GL873679           3012480  96 +   4132165 GTAAGT----------------------CAGTATTAGGTGGCTCGGTGGGGGGAAAATATCAGAAATTTAAACTACCACAGGATTCTAGTGATAGTTTACTCAATTTAGAAAG-AAAAA
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55478887  92 +  90702639 GTAAGT----------------------TCAGCCTATGTGGTCTTCT-ATGGAAA-ACATCAGAAATTTAAAGCACTGGATAATTCTAA-GCCAGTTTGCTAGCTTTTTAAAA--GTAA
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2565069  94 +   3667625 AAAAGT----------------------CAAGATTATATTGCTCTTT-AGGGAAAAACATCACAAATTTAAAGCACTGCAGGATTCTAATGACAATTTGCTCTATTTAGAAAG--AAAA
i dasNov3.JH567306         C 0 I 2
e canFam3.chr11             14872099 168 +  74389097 I

a score=462251.000000
s hg38.chr5_KI270796v1_alt     30640 37 +    172708 AGGCTATTTGGAATAAAAACAGCTTTTACAAAAGAAT
s panTro5.chr5             125140716 37 + 181907262 AGGCTATTTGGAATAAAAACAGGTTTTACAAAAGAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126477661 37 + 183735486 AGGCTATTTGGAATAAAAACAGGTTTTACAAAAGAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1669152 37 +   8933513 AGGCTATTTGGAATAAAAACAGCTTTTACAAAAGAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139798947 37 + 163208435 AGGCTATTTGGAATAAAAACAGGTTTTACAAAAGAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122785005 37 + 180051392 AGGCTATTTGGAATAAAAATAGGTTTTACAAAAGAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124208678 37 + 181584905 AGGCTATTTGGAATAAAAATAGGTTTTACAAAAGAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16206402 37 +  18395747 AGGCTATTTGGAATAAAAATAGGTTTTACAAAAGAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5212265 37 +  26952557 AGGCTATTTGGAATAAAAATAGGTTTTACAAAAGAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28320055 37 +  82825804 AGGCTATTTGGAATAAAAATAGGTTTTACAAAAGAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3984227 37 -   4237731 AGGCTATTTGGAATAAAAATAGGTTTTACAAAAGAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      254238 37 -   1175262 AGGCTATTTGGAATAAAAATAGGTTTTACAAAAGAAT
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55643908 37 -  71252344 AGAGtatttaaaataaaaatatgttttataaaaGAAT
i saiBol1.JH378106         I 1 C 0
s cebCap1.NW_016107829v1     1338303 37 -   1400280 AGAGTATTTAAAATAAAAATATGTTTTATAAAAGAAT
i cebCap1.NW_016107829v1   I 1 C 0
s aotNan1.NW_018505940v1    13131152 37 -  42888418 AGAGTATTCAAAATAAAAATATGTTTTATAAAATAAT
i aotNan1.NW_018505940v1   I 1 C 0
s micMur3.chr12             60500456 37 + 108143057 AGAGTATTTGAAATACAAATAAGTTTTACAGAGTAAT
i micMur3.chr12            I 1 C 0
s proCoq1.NW_012155062v1     3539576 37 +  11683526 AGAGTATTTGAAATAAAAATAAGTTTTACAGAGGAAT
i proCoq1.NW_012155062v1   I 1 C 0
s otoGar3.GL873679           3012577 37 +   4132165 AGAGTACATGAAATAAAAACAAGTTTTCTAAAGGAAT
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55478979 37 +  90702639 AAAGTCTATGAAATAAAAGTATGTTTTACAAAAATAT
i mm10.chr18               C 0 I 3212
s dasNov3.JH567306           2565165 35 +   3667625 AAAGTTTTTGGCATAACACTAAGTTTTACCAAAAT--
i dasNov3.JH567306         I 2 C 0
e canFam3.chr11             14872099 168 +  74389097 I
e calJac3.chr2             123592429 242 - 204313951 M

a score=773760.000000
s hg38.chr5_KI270796v1_alt     30677 73 +    172708 TTCAAAAATGTGATGCTATATCCTCTTAAAGTCATTGTAACTATATTAAAGATACAAGCTGATACATTGTAT-----A
s panTro5.chr5             125140753 73 + 181907262 TTCAAAAATGTGATGCTATATCCTCTTAAAGTCATTGTAACTATATTAAAGATACAAGCTGATACATTGTAT-----A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126477698 73 + 183735486 TTCAAAAATGTGATGCTATATCCTCTTAAAGTCATTGTAACTATATTAAAGATACAAGCTGATACATTGTAT-----A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1669189 72 +   8933513 TTCAAAAATGTGATGCTATATCCTCTTAAAGTCATTGTAACTATATTAAAGATACAA-CTGATACATTGTAT-----A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139798984 73 + 163208435 TTCAAAAATGTGATGCTATATCCTCTTAAAGTCATTGTAACTATTTTAAAGATACAAGGTGATACATTGTAT-----A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122785042 73 + 180051392 TTCAAAAATCTGGTGCTATATCCTCTCAAAGTCATTGTAACTATATTAAACATATAAGGAGATACATTGTGT-----A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124208715 73 + 181584905 TTCAAAAATCTGGTGCTATATCCTCTCAAAGTCATTGTAACTATATTAAACATATAAGGAGATACATTGTGT-----A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16206439 73 +  18395747 TTCAAAAATCTGGTGCTATATCCTCTCAAAGTCATTGTAACTATATTAAACATATAAGGAGATACATTGTGT-----A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5212302 73 +  26952557 TTCAAAAATCTGGTGCTATATCCTCTCAAAGTCATTGTAACTATATTAAACATATAAGGAGATACATTGTGT-----A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28320092 78 +  82825804 TTCAAAAATGTGGTGCTATATCCTCTCAAAGTCATTGTAACTATATTAAATGTATAAGGAGATACATTGTGTATAACA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3984264 73 -   4237731 TTCAAAAATCTGGTGCTATATCCTCTCAAAGTCATTGTAACTATATTAAACATATAAGGAGATACATTGTGT-----A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      254275 73 -   1175262 TTCAAAAATGTGATGCTATATCCTCTCAAAGTCATTGTACCTATATTAAACATATAAGGAGATACATTGTGT-----A
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55643945 73 -  71252344 TTCAAAAACATGATGCTCTATCCTCTGAAAGTCATAGTAACTATATTAAACATACAAAGTGAAACATTGTAT-----A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1338340 72 -   1400280 TTCAAAAACATGATGCTATATCCTCTGAAAGT-ATTGTAACTATATTAAACATACAAAGTGAAACATTGTAT-----A
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13131189 73 -  42888418 TTCAAAAACATGATGCTATATTCTCTGAAAGTCATTGTAACTATATTAAACATACAAAGTGAAACATTGTAT-----A
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60500493 73 + 108143057 TTCAAAAATTTCTTGATATAGCCTCTCACAGTCAGTGTAACTATGCTAAACTTCCAAACTGATACTGTGTGT-----A
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3539613 73 +  11683526 TTCAAAAATTTCATGATATATGCTCTCACAGTCAGTGTAACTATACTAAACTTACAAACTGATTCTCTGTGT-----A
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3012614 72 +   4132165 TTCAAAAAATT-ATGCTATATCCTCTCAAAGTCAATTTAATTATACTAAATTTCCAAAATGATACTTTGTGT-----A
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2565200 67 +   3667625 TTTAAATAT---ATACCACATCCTTTCAAATTCAGTG-AATTACACTACATTT-CAAAGCTATAT-TTGTAC-----A
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14872099 168 +  74389097 I
e mm10.chr18                55479016 3212 +  90702639 I
e calJac3.chr2             123592429 242 - 204313951 M

a score=2747422.000000
s hg38.chr5_KI270796v1_alt     30750 218 +    172708 TATAACATTTCCCCCATTTTTACCATGACTTACACTTCCATGAAGATTCATTTGAAATGTGAATTTTGATTACTTGCTTTGCACGGAAATTCACTTAGCAAAACTTC-------AGCAGG--TTGAAGCACAAGTAAATATGATGAACTACAGTACAAGAATAGTCTTATGA-TTTTAAT---AAAAATTACACAAATATATTATTTGAATAATTACTACCAAGTAGTCA---A
s panTro5.chr5             125140826 218 + 181907262 TATAACATTTCCCCCATTTTTACCCTGACTTACACTTCCATGAAGATTAATTTGAAATGTGAATTTTGATTACTTGCTTTGCACGGAAATTCACTTAGCAAAACTTC-------AGCAGG--TTGAAGCACAAGTAAATATGACGAACTACAGTACAAGGATAGTCTTATGA-TTTTAAT---AAAAATTACACAAATATATTATTTGAATAATTAATACCAAGTAGTCA---A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126477771 218 + 183735486 TATAACATTTCCCCCATTTTTACCCTGACTTACACTTCCATGAAGATTAATTTGAAATGTGAATTTTGATTACTTGCTTTGCACGGAAATTCACTTAGCAAAACTTC-------AGCAGG--TTGAAGCACAAGTAAATATGACGAACTACAGTACAAGAATAGTCTTATGA-TTTTAAT---AAAAATTACACAAATATATTATTTGAATAATTAATACCAAGTAGTCA---A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1669261 218 +   8933513 TATAACATTTCCCCCATTTTTACCATGACTTACACTTCCATGAAGATTAATTTGAAATGTGAATTTTGATTACTTGCTTTGCACGGAAATTCACTTAGCAAAACTTC-------AGCGGG--TTGAAGCACAAGTAAATATAATGAACTGCAGTACAAGAATAGTCTTATGA-TTTTAAT---AAAAATTACACAAATATATTATTTGAATAATTAATACCAAGTAGTCA---A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139799057 218 + 163208435 TATAACATTTCCCCCATTTTTACCATGACTTACACTTCCATGAAGATTAATTTGAAATGTGAATTTTGATTACTTGATTTGCACGGAAATTCACTTAGCAAAACTTC-------AGCAGG--TTGAAGCACAAGTAAATATAATGAACTACAGTACAAGAATAGTCTTATGA-TTTTAAT---AAAAATTAAACAAATATATTATTTGAATAATTAGTACCAAGCAGTCA---A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122785115 217 + 180051392 TATAACATTTCCCCCATTTTTACCATGACTTATACTTCCATGAAGATTAATTTGAAATGTGAATTTTGATTACTTGCTTTGCACTGAAATTCACTTTGCAAAACTTG-------AGCAGG--TTGAAGCACAAGTAAATATAATGAACTACAACACAAGAATAGTCTTATGA-TTTTAAT---AAAAATTACACAAATATATTATTTGAATAA----TACCAAGTAGTCAGTAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124208788 217 + 181584905 TATAACATTTCCCCCATTTTTACCATGACTTATACTTCCATGAAGATTAATTTGAAATGTGAATTTTGATTACTTGCTTTGCACTGAAATTCACTTTGCAAAACTTG-------AGCAGG--TTGAAGCACAAGTAAATATAATGAACTACAACACAAGAATAGTCTTATGA-TTTTAAT---AAAAATTACACAAATATATTATTTGAATAA----TACCAAGTAGTCAGTAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16206512 217 +  18395747 TATAACATTTCCCCCATTTTTACCATGACTTATACTTCCATGAAGATTAATTTGAAATGTGAATTTTGATTACTTGCTTTGCACTGAAATTCACTTTGCAAAACTTG-------AGCAGG--TTGAAGCACAAGTAAATATAATGAACTACAACACAAGAATAGTCTTATGA-TTTTAAT---AAAAATTACACAAATATATTATTTGAATAA----TACCAAGTAGTCAGTAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5212375 217 +  26952557 TATAACATTTCCCCCATTTTTACCATGACTTATACTTCCATGAAGATTAATTTGAAATGTGAATTTTGATTACTTGCTTTGCACTGAAATTCACTTTGCAAAACTTG-------AGCAGG--TTGAAGCACAAGTAAATATAATGAACTACAACACAAGAATAGTCTTATGA-TTTTAAT---AAAAATTACACAAATATATTATTTGAATAA----TACCAAGTAGTCAGTAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28320170 217 +  82825804 TATAACATTTCCCCCATTTTTACCATGACTTCTACTTCCATGAAGATTAATTTGAAATGTGAATTTTGATTACTTGCTTTGCACTGAAATTCACTTTGTAAAACTTG-------AGCAGG--TTGAAGCACAAGTAAATATAGTGAACTACAACACAAGAATAGTCTTATGA-TTTTAAT---AAAAATTACACAAATATATTATTTGAATAA----TACCAAGTAGTCAGTAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3984337 217 -   4237731 TATAACATTTCCCCCATTTTTACCATGACTTATACTTCCATGAAGATTAATTTGAAATGTGAATTTTGATTACTTGCTTTGCACTGAAATTCACTTTGCAAAACTTG-------AGCAGG--TTGAAGCACAAGTAAATATAATGAACTACAACACAAGAATAGTCTTATGA-TTTTAAT---AAAAATTACACAAATATATTATTTGAATAA----TACCAAGTAGTCAGTAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      254348 217 -   1175262 TATAACATTTCCCCCATTTGTACCATGACTTAGACTTCCATGAAGATTAATTTGAAATGTGAATTTTGATTACTTGCTTTGCACTGAAATTCACTTTGCAAAACTTG-------AGCAGG--TTGAAGCACAAGTAAATATAATGAACTACAACACAAGAATTGTCTTATGA-TTTTAAT---AAAAATTACACAAATATATTATTTGAATAA----TACCAAGTAGTCAATCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123592671 214 - 204313951 TACAAATTTCCCCCCATTTTGACCATGACTTACACTTCTATGAAGGATAA-TTGAAATGTGAGTTTTGA-TACTTGCTTTGCACCAAAATTCACTTAGCAAAAATTC-------AGCAGATTTTTGAGTACAAGTAAATTTAATGAACTACAGCATAAGAATT--CTTATG--ttttaat----aaaattacataaatatattatttacataattaataaaGAGTAGTAA---A
i calJac3.chr2             M 242 C 0
s saiBol1.JH378106          55644018 218 -  71252344 TATAACATTTCCCTCATTTTGACCATGACTTATACTTCCATGAAGATTAATTTGAAATGTGAATTTTGATTACTTGCTTTGCACCAAAATTCACTTAGCAAAAATTC-------AGCAGATTTTTCAGTACAAGTAAATTTAATGAACAACAACATAAGAATA--CTTATGa-ttttaat---aaaaattacacaaatatattattaacataattaataaCAAGTAGTGA---A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1338412 218 -   1400280 TATAACATTTCCCCCATTTTGACCATGACTTACACTTCCATGAAGATTAATTTGAAATGTGAATTTTGATTACTTGCTTTGCACCAAAATTCACTTAGCAAAAATTC-------AGCAGATTTTTCAGTACAAGTTAATTTCATGAACTACAACATAAGAATA--CTTATGA-TTTTAAT---AAAAATTACACAAATATATTATTTACATAATTAATAACAAGTAGTAA---A
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13131262 218 -  42888418 TATAACATTTCCCCCATTTTGACCATGACTTACACTTCCATGAAAATTAATTTGAAATGTGAATTTTGATTACTTGCTTTGCACCAAGATTCACTTAGCAAAAATTC-------AGCAGATTTTTCAGTACAAGTAAATTTAATGAACTACAACataagaata--cttataa-ttttaat---aaaaattacacaaatatattatTTACATAATCAATAACAAGTAGTAT---A
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60500566 211 + 108143057 AATAACGTT-CCCTCATTTTTACCATGACTTATACTTCTATAAACCTTAATTCAAAATGTGAA-TTTGATTACTTGCATTGCATTAAAATTCACTT---AAAATCTC-------AGCAGATCTTTCAGCACAAGTAAACATAATTAAAT-----ACAAGAAAAGTCTTATGATTTTTAAT---AAATGTTAAACAAATACATTATTTGAATAATTAATATCAAGTAGTCA---A
i micMur3.chr12            C 0 I 537
s proCoq1.NW_012155062v1     3539686 220 +  11683526 TCTAGCAGT-CCCCCATTTTTACCATGACTTATACTTCTATAAAGCTTAATTCAAAATATGAA-TTTGATTACTTGCATTGCATTGAAATTCACTTAACAAAACTTC-------AGCAGCTCTTTCAGCACAAGTAAATATAATTAAATACAACACAAGAATAGTCTTATGATTTTTAAT--AAAAAGTTAAACAAATACATTATTTGAATAATTAATACCAAGTAGTCA---A
i proCoq1.NW_012155062v1   C 0 I 25
s otoGar3.GL873679           3012686 218 +   4132165 TTTAACAGT-CTCCCATTTTTACTGTGACTTATACTTGTAGAAAGCTTCATCTGAAGTATGAA-TCTGATTACTTGTA-CGCATTGAAATTCACTTAGCAAAACTTC-------AGCAGATTTTTCAGTGCAAATAAGTATAATTAAATACAACACAAAAATGCTTTTATGG-TTGTAAT--AAGAAATTATTCAAATATATTATTTGAATAATTAATACCAAAGAGTCA---A
i otoGar3.GL873679         C 0 I 3
s dasNov3.JH567306           2565267 229 +   3667625 TCTAACATTCCCCTCATTTTTATTGTGGCTCATACCTCCGTAAAGCTTAATTTGAAATAAGGATTTTGATTACTTGCATTGCACTGAAGTTTGCTTACCAAAAAATTCATCAAAAGCAGGTGTTTCAGCATAAGTAACTATAAGTAAACACAACACAAGAATAATCTTATAA-TTTTAACTTAAAAAATCACATGAATATATTATTAGAATAATAAAGATCACTTAGCAA----
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14872099 168 +  74389097 I
e mm10.chr18                55479016 3212 +  90702639 I

a score=93833.000000
s hg38.chr5_KI270796v1_alt     30968 17 +    172708 AAATAGCTGCCTATATC
s panTro5.chr5             125141044 17 + 181907262 AAATAGCTGCCTATATC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126477989 17 + 183735486 AAATAGCTGCCTATATC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1669479 17 +   8933513 AAATAGCTACCTATATC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139799275 17 + 163208435 AAATAGCTACCTATATC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122785332 17 + 180051392 AAATATTTACCTATATC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124209005 17 + 181584905 AAATATTTACCTATATC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16206729 17 +  18395747 AAATATTTACCTATATC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5212592 17 +  26952557 AAATATCTACCTATATC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28320387 16 +  82825804 AAA-ATCTACCTATATC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3984554 17 -   4237731 AAATATCTACCTATATC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      254565 17 -   1175262 AAATATCTACCTATATC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123592885 12 - 204313951 AA-----TACCTAAAAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55644236 12 -  71252344 AA-----TATCTAAAAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1338630 12 -   1400280 AA-----TACCTAAAAC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13131480 12 -  42888418 AA-----TACCCAAAAC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3012907 13 +   4132165 AAA----TACCTAAAAC
i otoGar3.GL873679         I 3 I 7
s dasNov3.JH567306           2565496 12 +   3667625 ----ATATA-CTAAACC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60500777 537 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3539906 25 +  11683526 I
e mm10.chr18                55479016 3212 +  90702639 I

a score=385858.000000
s hg38.chr5_KI270796v1_alt     30985 27 +    172708 AAAAAATACATTAGAGTATTAATTTGC
s panTro5.chr5             125141061 27 + 181907262 AAAAAATACATTAGAGTATTAATTTGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126478006 27 + 183735486 AAAAAATGCATTAGAGTATTAATTTGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1669496 27 +   8933513 AAAAAATACATTAGAGTATTAATTTGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139799292 27 + 163208435 AAAAAATACATTACAGTATTAATTTGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122785349 27 + 180051392 AAAAAATACATTAGAGTATTAATTTGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124209022 27 + 181584905 AAAAAATACATTAGAGTATTAATTTGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16206746 27 +  18395747 AAAAAATACATTAGAGTATTAATTTGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5212609 27 +  26952557 AAAAAATACATTAGAGTATTAATTTGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28320403 27 +  82825804 AAAAATTACATTAGAGTATTAATTTGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3984571 27 -   4237731 AAAAAATACATTAGAGTATTAATTTGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      254582 27 -   1175262 AAAAAATACATTACAGTATTAATTTGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123592897 27 - 204313951 AAAAAATACATTAGAGTATTAATTTGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55644248 27 -  71252344 AAAAAATACATTAGAGTATTAATTTGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1338642 27 -   1400280 AAAAAATACATTAGAGTATTAATTTGC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13131492 27 -  42888418 AAAAAATACATTAGAGTATTAATTTGC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3539931 27 +  11683526 aaaaaacaCATTAAAGTATTAATTTGC
i proCoq1.NW_012155062v1   I 25 C 0
s otoGar3.GL873679           3012927 27 +   4132165 CAAGAACATATTAAAGTACTAATTTGT
i otoGar3.GL873679         I 7 C 0
s dasNov3.JH567306           2565508 27 +   3667625 AAAAAATACATCAAAGTATTCATTTGC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60500777 537 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e mm10.chr18                55479016 3212 +  90702639 I

a score=210381.000000
s hg38.chr5_KI270796v1_alt     31012 22 +    172708 TGAACAATTCTGGTGGGCAGGT
s panTro5.chr5             125141088 22 + 181907262 TGAACAATTCTGGTGGGCAGGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126478033 22 + 183735486 TGAACAATTCTGGTGGGCAGGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1669523 22 +   8933513 TGGACAATTCTGGTGGGCAGGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139799319 22 + 163208435 TGAACAATTCTGGCGGGCAGGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122785376 21 + 180051392 TGAACAATTCT-GTTGACAGGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124209049 21 + 181584905 TGAACAATTCT-GTTGACAGGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16206773 21 +  18395747 TGAACAATTCT-GTTGACAGGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5212636 21 +  26952557 TGAACAACTCT-GTTGACAGGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28320430 21 +  82825804 TGAACAATTCT-GTTGACAGGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3984598 21 -   4237731 TGAACAACTCT-GTTGACAGGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      254609 21 -   1175262 TGAACAATTCT-GTTGACAGGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123592924 22 - 204313951 TCAATAATTCTGGTTGACAGGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55644275 22 -  71252344 TCAACAATTCTGGTTGACAGGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1338669 22 -   1400280 TCAACAATTCTGGTTGACAGGT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13131519 22 -  42888418 TCAACAATTCTGGTTGACAGGT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3539958 22 +  11683526 TGAAAAATTCTGGTTGACAGGT
i proCoq1.NW_012155062v1   C 0 I 2051
s otoGar3.GL873679           3012954 20 +   4132165 TGAATAATTCTGGTGTACAG--
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60500777 537 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e dasNov3.JH567306           2565535  0 +   3667625 C
e mm10.chr18                55479016 3212 +  90702639 I

a score=1195588.000000
s hg38.chr5_KI270796v1_alt     31034 138 +    172708 GTACTGTTCGCAGATTTAAGAAAAAAT-G--------cacacacacacacagacacacacacacac----acGCCCTCAGACAcagatgctccttgacttacaatgaagttaaatcctggtaaagccattgtaagctgacaatatc--aactt
s panTro5.chr5             125141110 138 + 181907262 GTACTGTTTGCAGATTTAAGAAAAAAT-G--------cacacacacacacagacacacacacacac----acGCCCTCAGACAcagatgctccttgacttacaatgaagttaaatcctggtaaagccattgtaagctgacaatatc--aactt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126478055 139 + 183735486 GTACTGTTTGCAGATTTAAGAAAAAATAG--------cacacacacacacagacacacacacacac----acGCCCTCAGACAcagatgctccttgacttacaatgaagttaaatcctggtaaagccattgtaagctgacaatatc--aactt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1669545 126 +   8933513 GTACTGTTTGCAGATTTAAGAAAAAAT-G--------cac------------acacacacacacac----acgccctcagacacagatgttccttgacttacaatgaagttaaatcctgataaagccattgtaagctgacaatatc--aactt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139799341 126 + 163208435 ATACTGTTTGCAGATTTAAGAAAAAAT-G--------cac------------acacacacacacac----acgccctcagacacagatgctccttgacttaccatgaagttaaatcctgataaagccattgtaagctgacaatatc--aactt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122785397 130 + 180051392 GTACTGTTTGCAGATTTAAGAAAAAAT-G------------cacacac----acacacacatacac----accccctcgcacacagatgctccttgacttacaatgaagttaaatcctgataaagccattgtaagctgacaatatc--aagtt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124209070 134 + 181584905 GTACTGTTTGCAGATTTAAGAAAAAAT-G--------cacacacacac----acacacacatacac----accccctcgcacacagatgctccttgacttacaatgaagttaaatcctgataaagccattgtaagctgacaatatc--aagtt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16206794 142 +  18395747 GTACTGTTTGCAGATTTAAGAAAAAAT-Gcacacacacacacacacac----acacacacatacac----acCCCCTCACACAcagatgctccttgacttacaatgaagttaaatcctgataaagccattgtaagctgacaatatc--aagtt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5212657 134 +  26952557 GTACTGTTTGCAGATTTAAGAAAAAAT-G--------CGcacacacac----acacacacatacac----accccctcacacacagatgctccttgacttacaatgaagttaaatcctgataaagctattgtaagctgacaatatc--aagtt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28320451 122 +  82825804 GTACTGTTTGCAGATTTAAGAAAAAAT-G--------cacacagacac----acaca----------------ccctcacacacagatgctccttgacttacaatgaagttaaatcctgataaagccattgtaagctgacaatatc--aagtt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3984619 134 -   4237731 GTACTGTTTGCAGATTTAAGAAAAAAT-G--------TGcacacacac----acacacacatacac----accccctcacacacagatgctccttgacttacaatgaagttaaatcctgataaagccattgtaagctgacaatatc--aagtt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      254630 140 -   1175262 GAACTGTTTGCAGATTTAAGAAAAAAT-G--cacacacatacacacac----acacacacacacac----acacCCTCACACGcaaatgctccttgacttacaatgaagttaaatcctgataaagccattgtaagctgacaatatc--aagtt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123592946 136 - 204313951 GTACTGTTTGCAGATTTAAGAAAAAAT-G--------cacacacacac----acacacacacaca--catcctctcacacacaGagatgctccttgacttacaattaaattaaatcctgataaatctgttgtaagcttatgacatc--cagtt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55644297 124 -  71252344 GCACTGTTTGCAGATTTAAGAAAAAAT-A--------CACACATACAC----ACCC--------------CCCCCCACACACAcagatgctccttgacttaaaataaaattaaatcctgataaatctgttgtaagcttacaacatc--cagtt
i saiBol1.JH378106         C 0 I 761
s cebCap1.NW_016107829v1     1338691 130 -   1400280 GTACTGTTTGCAGATTTAAGAAAAAAT-G--------Gacacacgcac----acacacaccc--------cctctcacacacaGagatgctccttgacttacaataatattaaatcctgataaatctgttgtaagcttacaacatc--cagtt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13131541 138 -  42888418 GTACTGTTTGCAGATTTAAGAAAAAAT-G--------cacacaaacac----acacacacacacactcacactctcacacacaGagatgctccttgacttacaataaaattaaatcctgataaatctgttgtaagcttacaacatc--cagtt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3012974 107 +   4132165 GTACTGTTTACAGAGTT------AAAT-A--------CACACATACAC----ACACACAAagatgc-------------------------cctagacttatgatggagttaattcctgataaacccattgtaagttgaaaatatcttaag--
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60500777 537 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3539980 2051 +  11683526 I
e dasNov3.JH567306           2565535   0 +   3667625 C
e mm10.chr18                55479016 3212 +  90702639 I

a score=1580568.000000
s hg38.chr5_KI270796v1_alt     31172 154 +    172708 gaaatgcatttatttaatacaaccaaactactaaacattatag----cttaacctagcctaacttcagtaggctcagagcagctacattagactatagttgaac-agaatcatctaaca-gaaacctactttataatagagtttgaataactcatttaat
s panTro5.chr5             125141248 154 + 181907262 gaaatgcatttacttaatacaaccaaactactaaacattatag----cttaacctagcctaacttcaataggctcagagcagctacattagactatagttgaac-agaatcatctaaca-gaaacctactttataatagagtttgaataactcatttaat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126478194 154 + 183735486 gaaatgcatttacttaatacaaccaaactactaaacattatag----cttaacctagcctaacttcaataggctcagagcagctacattagactatagttgaac-agaatcatctaaca-gaaacctactttataatagagtttgaataactcatttaat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1669671 154 +   8933513 gaaatgtatttatttaatacaaccaaactactaaacattatag----cttaacctagcctaacttcaatagactcagagcagctacattagactatagttgaac-agaatcatctaaca-gaagcctactttataatagagtttgaataactcatgtaat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139799467 149 + 163208435 gaaatgcatttatttaatacgtccaaactactaaacattatag----cttaacctagcctaacttcaataggctcagagcagctacat-----tatagttgaac-agaatcatctaata-gaagcctactttataatagagtttgaataactcatttaat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122785527 154 + 180051392 gaaatgcatttatttaatatacccaaactaccaaacagtatag----cttaacctggcctaactgcagtaggctcagagcagctacattagagtatagttgaac-agaatcatctaaca-gaagcctactttataatagaatctgaataactcgtttaat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124209204 154 + 181584905 gaaatgcatttatttaatatacccaaactaccaaacagtatag----cttaacctggcctaactgcagtaggctcagagcagctacattagagtatagttgaac-agaatcatctaaca-gaagcctactttataacagaatctgaataactcgtttaat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16206936 154 +  18395747 gaaatgcatttatttaatatacccaaactaccaaacagtatag----cttaacctggcctaactgcagtaggctcagagcagctacattagagtatagttgaac-agaatcatctaaca-gaagcctactttataacagaatctgaataactcgtttaat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5212791 154 +  26952557 gaaatgcatttatttaatatacccaaactaccaaacagtatag----cttaacctggcctaacttcagtaggctcagagcagctacattagagtatagttgaac-agaatcatctaaca-gaaggctactttataatagaatctgaataattcgtttaat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28320573 154 +  82825804 gaaatgcatttatttaatatacccaaactaccaaacagtatag----cttgacctggcctaacttcaataggctcagagcagctacatcagagtatagttgaac-agaatcgtctcaca-gaagcctactttataatagaatttgaataactcgtttaat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3984753 154 -   4237731 gaaatgcatttatttaatatacccaaactaccaaacagtatag----cttaacctggcctaacttcagtaggctcagagcagctacattagagtatagttgaac-agaatcatctaaca-gaagcctactttataatagaatctgaataactcgtttaat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      254770 154 -   1175262 gaaatacatttatttaatatacccaaactaccaaacagtatag----cttaacctggcctaatttcaataggctcagagcagctacattagagtatagttgaac-agaatcatttaaca-gaagcctactttataatagaatttgaataactcatttaat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123593082 154 - 204313951 gaaatgcatttatttaatacacccaaactagcaaacattatag----cttaacctagcctaactttaataggctcagagaagttacattagactatagttgaac-agaatcatctaaca-caggcctactttataatagagtttgaatagcacatttaat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55645182 153 -  71252344 gaaatgcatttatttaatacacccaaactagcaaacattatag----cttaacctagcctaactttaataggctcagagaagctacattagactatagttgaac-agaataatctaaca-caggtgtattttataatagagtttgaatggcacatttaa-
i saiBol1.JH378106         I 761 C 0
s cebCap1.NW_016107829v1     1338821 154 -   1400280 gaaatgcatttatttaatacaaccaaactagcaaacatcatag----cttaacctagcctaactttaataggctcagagaagctacattagactatagttgaac-agaatcatctaaca-caggcctactttataatagagtttgaatagcacatttaat
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13131679 154 -  42888418 gaaatgcatttatttaatacacccaaactagcaaacattatag----cttaacctagcctaactttaataggctcagagaagctacattagactatagttgaac-agaatcatctaaca-caggactactttataatagagtttaaatagcacatttaat
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3013081 160 +   4132165 taaaacaaggcattcaaaacacgtaacctgctgcacatcatagcttacttagcctaacctactttaaatgtgctcagaacacttgcattaggctacagctggacaaaaatcatctaacatgcagcctactttataataaagtttgaatatcttatataat
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60500777 537 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3539980 2051 +  11683526 I
e dasNov3.JH567306           2565535   0 +   3667625 C
e mm10.chr18                55479016 3212 +  90702639 I

a score=536500.000000
s hg38.chr5_KI270796v1_alt     31326 61 +    172708 ttattgaatattatact---gaaagtg-aaaaacacaatagttgtatgggtacttgaagtatggt
s panTro5.chr5             125141402 61 + 181907262 ttattgaatattatact---gaaagtg-aaaaacacaatagttgtatgggtacttgaagtatggt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126478348 61 + 183735486 ttattgaatattatact---gaaagtg-aaaaacacaatagttgtatgggtacttgaagtatggt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1669825 61 +   8933513 ttattgaatattatact---gaaagtg-aaaaacacaatagttgtatgggtacttgaagtatggt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139799616 61 + 163208435 ttattgaatattatact---gaaagtg-aaaaacacaatagttgtatgggtatttgaagtatggt
i nomLeu3.chr2             C 0 I 178
s rheMac8.chr6             122785681 61 + 180051392 ttatcgaatattgtact---gaaagtg-aaaaaaagaatggttgtatgggtacttgaggtatggc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124209358 61 + 181584905 ttattgaatattgtact---gaaagtg-aaaaaaagaatggttgtatgggtacttgaggtatggc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16207090 61 +  18395747 ttatcgaatattgtact---gaaagtg-aaaaaaagaatgggtatatgggtacttgaggtatggc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5212945 61 +  26952557 ttatcgaatattgtact---gaaagtg-aaaaaaagaatggttgtatgggtacttgaggtatggc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28320727 62 +  82825804 ttattgaatattatact---gaaaatgaaaaaaaagaattgttgtatgagtacttgaggtatggc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3984907 61 -   4237731 ttatcgaatattatact---gaaagtg-aaaaaaagaatggttgtatgggtacttgaggtatggc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      254924 61 -   1175262 ttatcaaatattatact---gaaagtg-aaaaaaagaatggttgtatgggtacttgaggtatggc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123593236 64 - 204313951 ttattgaatactataataaggaaagtg-aaaaacagaatggttgtaaggggacctgaagtatagt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55645335 64 -  71252344 ttattgaatactgtaataatgaaagtg-aaaaacagaatggttgtatggggactagaagtatagt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1338975 64 -   1400280 ttattgaatactgtaataacgaaagtg-aaaaacagaatggttgtatggggacttgaagtatagt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13131833 64 -  42888418 ttattgaatactataataatgaaagtg-aaaaacagaatggttgtatgaggacttgaagtatagt
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60500777 537 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3539980 2051 +  11683526 I
e otoGar3.GL873679           3013241  0 +   4132165 C
e dasNov3.JH567306           2565535  0 +   3667625 C
e mm10.chr18                55479016 3212 +  90702639 I

a score=769316.000000
s hg38.chr5_KI270796v1_alt     31387 107 +    172708 ttctactgagcatatatcacctgcttaccattgtaaagttgaaacattgtaagtcaaaccattgttaagtcagtgactcactctctctctctctc----------tctctgtctc----tt
s panTro5.chr5             125141463 101 + 181907262 ttctactgagcatatatcacctccttaccattgtaaagttgaaacattgtaagtcaaaccattgttaagtcagtgactca----ctctctctctc----------tctctgtctc------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126478409 105 + 183735486 ttctactgagcatatatcacctccttaccattgtaaagttgaaacattgtaagtcaaaccattgttaagtcagtgactcactctccctctctctc----------tctctgtctc------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1669886 103 +   8933513 ttctactgagcatatatcacctcattaccattgtaaagttgaaacactgtaagtcaaaccattgttaagtcagtgacTCA----CTCTCTCTCCC----------TCTCtgtctg----tg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139799855 111 + 163208435 ttctactgagcatacatcacttccttaccattgtaaagttgaaacattgtaagtcaaaccattgttaagtcagtgactcactctctctctctctc----------tctctctctctctgtg
i nomLeu3.chr2             I 178 C 0
s rheMac8.chr6             122785742 110 + 180051392 ttctactgagcatgtatcacctactta-cattgtaaagttgaaaaattgtaagtcaaaccatcgttaagtcagtgact------ctctCTCTCTCtgtgtgtgtgtgtgtgtgtg----tg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124209419 110 + 181584905 ttctactgagcatgtatcacctactta-cattgtaaagttgaaaaattgtaagtcaaaccatcgttaagtcagtgact------ctctCTCTCTCTCtgtgtgtgtgtgtgtgtg----tg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16207151 110 +  18395747 ttctactgagcatgtatcacctactta-cattgtaaagttgaaaaattgtaagtcaaaccatcgttaagtcagtgact------ctctCTCTCTCTCTCTCtgtgtgtgtgtgtg----tg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5213006 101 +  26952557 ttctactgagcatgtatcacctacttaccattgtaaagttgaaaaattgtaagtcaaaccatcgttaagtcagtgact------ctctCTCTCTC----------tgtgtgtgtg----tg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28320789 101 +  82825804 ttctactgagcatatatcacctgcttaccattgtaaagttgaaaaattgtaagtcaaaccatcgttaagtcagtgact------ctctCTCTCTC----------TCtgtgtgtg----tg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3984968  99 -   4237731 ttctactgagcatgtatcacctacttaccattgtaaagttgaaaaattgtaagtcaaaccatcgttaagtcagtga--------ctctctCTCTC----------tgtgtgtgtg----tg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      254985 100 -   1175262 ttctactgagcatatatcacctacttaccattgtaaagttgaaaaattgtaagtcaaa-catcgttaagtcagtgact------ctctCTCTCTC----------TCTCtgtgtg----tg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123593300  91 - 204313951 ttctactgagcacatatcacctccctaccattgtaaagttgaaaaattataagttaaaccattgttaagtcagtgacA----------------C----------tgtgtgtgtg----tg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55645399  91 -  71252344 ttctcctgaacacatatcacctccctaccattgcaaagttgaaaaattataagttaaaccattgttaagtcagtgacA----------------C----------tctgtgtgtg----tg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1339039  81 -   1400280 ttctactgagcacatatcacctccctaccattgt----------aattataagttaaaccattgttaagtcagtgact----------------g----------tgtgtgtgtt----tg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13131897  91 -  42888418 ttctactgagcacatatcacctccctaccattgtaaagttgaaaaattgtaagttaaaccattgttaagtcagtgacA----------------C----------tgtgtgtgtg----tg
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60500777 537 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3539980 2051 +  11683526 I
e otoGar3.GL873679           3013241   0 +   4132165 C
e dasNov3.JH567306           2565535   0 +   3667625 C
e mm10.chr18                55479016 3212 +  90702639 I

a score=74769.000000
s hg38.chr5_KI270796v1_alt     31494 24 +    172708 tgtgt--------------atgtgtgtgtgtatg----------------------tgtg
s panTro5.chr5             125141564 14 + 181907262 ------------------------tGTGTGTATG----------------------TGTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126478514 14 + 183735486 ------------------------tGTGTGTATG----------------------TGTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1669989 24 +   8933513 tgtgt--------------gtgtgtgtgtgtatg----------------------tgtg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139799966 24 + 163208435 tgtgt--------------gtgtgtgtgtgtgtg----------------------tgtg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122785852 38 + 180051392 tgtgtgcgcgcgcgcgtgtgtgtatgtgtgtgtg----------------------tgtg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124209529 38 + 181584905 tgtgtgcgcgcgcgcgtgtgtgtatgtgtgtgtg----------------------tgtg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16207261 36 +  18395747 tgtgt--gcgcgcgcgtgtgtgtatgtgtgtgtg----------------------tgtg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5213107 24 +  26952557 tgtgtgcgtgcgcgc--------------gtgtg----------------------tgtg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28320890 36 +  82825804 tgtgt--gtgtgtgtgtgtgtatgtgtgtgtgtg----------------------tgtT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3985067 36 -   4237731 tgtgt--gtgtgcgcgcgtgtgtgtgtgtgtgtg----------------------tgtg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      255085 24 -   1175262 tgtgt--------------gtgtgtgtgtgtgtg----------------------tgtg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123593391 20 - 204313951 tgtgt----------gtatgtgtgtg------------------------------tgtt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55645490 50 -  71252344 tgtgt----------gtgtgtgtgtgtgtgtgtgtctgtctgtctgtctgtctgtctgtc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1339120 28 -   1400280 tgtgt----------gtgtgtgtgtgtgtgtgtg----------------------tgtg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13131988  6 -  42888418 tg------------------------------------------------------tgtg
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2565535 24 +   3667625 --------------TATATCTATATCTATATATA----------------------TATA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60500777 537 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3539980 2051 +  11683526 I
e otoGar3.GL873679           3013241  0 +   4132165 C
e mm10.chr18                55479016 3212 +  90702639 I

a score=801101.000000
s hg38.chr5_KI270796v1_alt     31518 67 +    172708 tATTACCTGCTTGCAAGAACTAGCTAATAGTCTAACTcaggggttggcaaac----ttctgaaaatagcca
s panTro5.chr5             125141578 67 + 181907262 TATTACCTGCTTGCAAGAACTAGCTAATAGTCTAACTcaggggttggcaaac----ttctgaaaatagcca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126478528 67 + 183735486 TATTACCTGCTTGCAAGAACTAGCTAATAGTCTAACTcaggggttggcaaac----ttctgaaaatagcca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1670013 67 +   8933513 tATTACCTGCTTGCAAGAACTAGCTAATAGTCTAACTcaggggttggcaaac----ttctgaaaatagcca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139799990 67 + 163208435 tATTACCTGCTTGCCAGAACTAGCTAATAGTCTAACTcaggggttggcaaac----ttctgaaaatagcca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122785890 67 + 180051392 tATTACCTGCTTGCAAGAACTAGCTAATAGTCTAACTcaggggttggcaaac----ttctgaaaatagcca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124209567 67 + 181584905 tATTACCTGCTTGCAAGAACTAGCTAATAGTCTAACTcaggggttggcaaac----ttctgaaaatagcca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16207297 67 +  18395747 tATTACCTGCTTGCAAGAACTAGCTAATAGTCTAACTcaggggttggcaaac----ttctgaaaatagcca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5213131 67 +  26952557 tATTACCTGCTTGCAAGAACTAGCTAATAGTCTAACTcaggggtgggcaaac----ttctgaaaatagcca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28320926 67 +  82825804 TATTACCTGCTTGCAAGAACTAGCTAATAGTCTAACTcaggggttggcaaac----ttctgaaaatagcca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3985103 67 -   4237731 tATTACCTGCTTGCAAGAACTAGCTAATAGTCTAACTcaggggttggcaaac----ttctgaaaatagcca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      255109 67 -   1175262 tATTACCTGCTTGCAAGAACTAGCTAATAGTCTAACTcaggggttggcaaac----ttctgaaaatagtca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123593411 67 - 204313951 tgtTTCCTGCTTGCAAGAACTAGCTAATAGTCTAACTCAGCGTTTGCAAAAC----ttctaaaaaaagcca
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55645540 67 -  71252344 tgtctCCTGCTTGCAAGAACTAGCTAATAGTCTAACTCAGCATTTGCAAAAC----ttctaaaaatagcca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1339148 67 -   1400280 tgtTACCTGCTTGCAAGAACTAGCTAATAGTCTAACTCAGCATTTGCAAAAC----ttctaaaaatagtca
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13131994 65 -  42888418 tgtTTCCTCCTTGCAAGAACTAGCTAATAGTCTAACTCAGGG--TGCAAAAC----ttctaaaaatagcca
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60501314 70 + 108143057 TATTTCCTGCTTACAAGGACTAACTAATAGTTTAGCTcaagggttgccaaac-tttttttgaaaatggcca
i micMur3.chr12            I 537 C 0
s dasNov3.JH567306           2565559 71 +   3667625 TAGTTCCTGCTTGCAAGGACTAGCTAATACCTTACCTCTgaggttgccaaacttttttctgaaaatggcca
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3539980 2051 +  11683526 I
e otoGar3.GL873679           3013241  0 +   4132165 C
e mm10.chr18                55479016 3212 +  90702639 I

a score=7851956.000000
s hg38.chr5_KI270796v1_alt     31585 665 +    172708 gataatacatattttaggttttgctggccacaaagt--ct--gtcacaaccactctactctgccattgtagcctgaaagctg------------------------------------ctacagtcaatatgtaaacaaacaaatg----tgtattccaataaaattttattta-taaaacaggcattcagctggatttggctc------acaggccatagtttgccaacctctgATCTAATGGGGT--AAAAAATTAA----A----AAGTACCAGATGAAGCTTACATAATATCT-ATCTTGTAAGTTTATTCTCCTCCCTGTCTGTACATACCGTttctcagatcaaaaggtagagctcactttccttctctttgaattctgacttataactgaatatgaccacgagaatagcaatttcagaagaagaaatgatgttctgagaccttgaagtc-caggctttaagaggaatggaagtttctacttttggccttttggaacgcagtcaccatgctgtgaggatcccagatcatatggaaagaccacgta-gaggaga--------acagaggtgctccagttggcagccctaattaagctcctagtggacagtcagaaccaactgtaagccattttggatgttctggatgtccaggttgaaccccccccagtgactgcagccccagggagtatcacatggagcagaagaactgact----gagcctagccaacttgcag
s panTro5.chr5             125141645 665 + 181907262 gataataaatattttaggttttgctggccacaaagt--ct--gtcacaaccactctactctgccattgtagcctgaaagctg------------------------------------ctacagtcaatatgtaaacaaacaaacg----tgtattccaataaaattttattta-taaaaaaggcattcagctggatttggctc------acaggccatagtttgccaacctctgATCTAATGGGGT--AAAAAATTAT----A----AAGTACCAGATGAAGCTTACATAATATCT-ATCTTGTAAGTTTATTCTCCTCCCTGTCTGTACATACCATttctcagatcaaaaggtagagctcactttcctcctctttgaattctgacttataactgaatatgaccaagagaatagcaatttcagaagaagaaatgatgttctgagaccttgaagtc-caggctttaagaggaatggaagtttctacttttggccttttggaatacagtcaccatgctgtgaggatcccagatcatatggaaagaccacgta-gaggaga--------acagaggtgctccagttggcagccctaactaagctcctagtggacagtcagaaccaactgtaagccattttggacgttctggatgtccaggttgaaccccccacaatgactgcagccccagggagtatcacatggagcagaagaactgact----gagcctagccaacttgcag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126478595 665 + 183735486 gataataaatattttaggttttgctggccacaaagt--ct--gtcacaaccactctactctgccattgtagcctgaaagctg------------------------------------ctacagtcaatatgtaaacaaacaaacg----tgtattccaataaaattttattta-taaaaaaggcattcagctggatttggctc------acaggccatagtttgccaacctctgATCTAATGGGGT--AAAAAATTAT----A----AAGTACCAGATGAAGCTTACATAATATCT-ATCTTGTAAGTTTATTCTCCTCCCTGTCTGTACATACCATttctcagatcaaaaggtagagctcactttcctcctctttgaattctgacttataactgaatatgaccaagagaatagcaatttcagaagaagaaatgatgttctgagaccttgaagtc-cagactttaagaggaatggaagtttctacttttggccttctggaatacagtcaccatgctgtgaggatcccagatcatatggaaagaccacgta-gaggaga--------acagaggtgctccagttggcagccctaactaagctcctagtggacagtcagaaccaactgtaagccattttggacgttctggatgtccaggttgaaccccccccaatgactgcagccccagagagtatcacatggagcagaagaactgact----gagcctagccaacttgcag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1670080 664 +   8933513 gataataaatattttaggttttgctggccacaaagt--ct--gtcacaaccactctactctgccattgtagcctgaaagctg------------------------------------ctgcagtcaatatgtaaacaaacaaatg----tgtattccaataaaattttattta-taaaacaggcattcagctggatttggctc------acaggccatagtttgccaacctctgATCTAATGGGGT--AAAAAATTAT----A----AAGTACCAGATGAAGCTTACATAATATCT-ATCTTGTAAGTTTATTCTCCTCCCTGTCTGTACATACcatttctcagatcaaaaggtagagctcactttcctcctctttgaattctgacttataactgaatatgaccaagagaatagcaatttcagaagaagaaatgatgttctgagaccttgaagtc-caggctttaagaggaatggaagtttctacttttggccttttggaacgcagtcaccatgctgtgaggatcccagatcatatggaaagaccacgta-gaggaga--------acagaggtgctccagttggcagccctaactaagctcctagtggacagccagaaccaactgtaagccattttggacgttctggatgtccaggttgaacccccc-caatgactgcagccccagggagtatcacatggagcagaagaactgact----gagcgtagccaacttgcag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139800057 664 + 163208435 gataaaaaatattttaggttttgctggccacaaagt--ct--gtcacaaccactctactctgccattgtaggctgaaagctg------------------------------------ctacagtcaatatgtaaacaaacaaatg----tgtattccaataaaattttattta-taaaacaggcattcagctggctttggctc------acgggccatagtttgccaacctctgATCAAATGGGGT--AAAAAATTAT----A----AAGTACCCGATAAAGCTTACATAATATCT-ATCTTGTACGTCTATTCTCCTCCCTGTGTGTACATACcatttctcagatcaaaaggtagagctcactttccttctctttgaattctgacttataactgaatatgaccaagataatagcaatttcagaagaaaaaatgatgttctgagaccttgaagtc-caggctttaagaggaatggaagtttctacttttggccttttggaacacagtcaccgtgctgtgaggatcccagatcatatggaaagaccatgta-gaggaga--------acagaggtgttccagttggcagccctaactaagctcctagtggacagccagaaccaactgtaagccattttggacattctggatgtccaggttgaacccccc-cagtgactgcagccccagggagtatcacatggagcagaagaactgact----gagcctagccaacttgcag
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122785957 668 + 180051392 tataataaatattttaggttttgctggccacaaagt--ct--gtcacaaccactctactctgccattgtagcctgaaagctg------------------------------------ctacagtcaatacgtaaacaaacaaatg----tgtattccaataaaattttattta-taaaacaggcattcagctggatttggctt------acaggccatagtttgccaatctctgATCTAATGGGGT--AAAAAATTAT----AAAGAAAGTACCAGATAAAGCTTACATAATATCT-GTCTGGTAAGTTTACTCTCCTCCCTGTCTGTACAtgccatttctcagatcaaaaggtagaagtcactttccttctctttgaattctgacttataactgaatatgaacaagagaatagcaatttcagaagaagaaatgatattctgagaccttgaagtc-caggctttaagaagactggaagtttctacttttggccttttggaatgcagtcatcatgctgtgaggatcccagatcatatggaaagaccatgta-gaggaga--------gcagaggtgctccagttggcagccctagctaagctcctggtggacagccagaaccaactgtaagccattttggacattttggatgtccaggttgaacgcccc-cagtgactgcagccccagggagtatcacatggagcagaagaactgact----gatcctagccaacttgcag
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124209634 668 + 181584905 tataataaatattttaggttttgctggccacaaagt--ct--gtcacaaccactctactctgccattgtagcctgaaagctg------------------------------------ctacagtcaatacgtaaacaaacaaatg----tgtattccaataaaattttattta-taaaacaggcattcagctggatttggctt------acaggccatagtttgccaatctctgATCTAACGGGGT--AAAAAATTAT----AAAGAAAGTACCAGATAAAGCTTACATAATATCT-GTCTTGTAAGTTTACTCTCCTCCCTGTCTGTACAtgccatttctcagatcaaaaggtagaagtcactttccttctctttgaattctgacttataactgaatatgaacaagagaatagcaatttcagaagaagaaatgatattctgagaccttgaagtc-caggctttaagaagactggaagtttctacttttggccttttggaatgcagtcatcatgctgtgaggatcccagatcatatggaaagaccatgta-gaggaga--------gcagaggtgctccagttggcagccctagctaagctcctggtggacagccagaaccaactgtaagccattttggacattttggatgtccaggttgaacgcccc-cagtgactgcagccccagggagtatcacatggagcagaagaactgact----gatcctagccaacttgcag
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16207364 676 +  18395747 tataataaatattttaggttttgctggccacaaagt--ct--gtcacaaccactctactctgccattgtagcctgaaagctg------------------------------------ctacagtcaatacgtaaacaaacaaatg----tgtattccaataaaattttattta-taaaacaggcattcagctggatttggctt------acaggccatagtttgccaatctctgATCTAACGGGGT--AAAAAATTAT----AAAGAAAGTACCAGATAAAGCTTACATAATATCT-GTCTTGTAAGTTTACTCTCCTCCCTGTCTGTACAtgccatttctcagatcaaaaggtagaagtcactttccttctctttgaattctgacttataactgaatatgaacaagagaatagcaatttcagaagaagaaatgatattctgagaccttgaagtc-caggctttaagaagactggaagtttctacttttggccttttggaatgcagtcatcatgctgtgaggatcccagatcatatggaaagaccatgta-gaggagagcagaggtgcagaggtgctccagttggcagccctagctaagctcctggtggacagccagaaccaactgtaagccattttggacattttggatgtccaggttgaacgcccc-cagtgactgcagccccagggaatatcacatggagcagaagaactgact----gatcctagccaacttgcag
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5213198 668 +  26952557 tataacaaatattttaggttttgctggtcacaaagt--ct--gtcacaaccactctactctgccattgtagcctgaaaactg------------------------------------ctacagtcaatacgtaaacaaacaaatg----tgtattccaataaaattttattta-taaaacaggcattcagctggatttggctt------acaggccatagtttgccaatctctgATCTAATGGGGT--AAAAAATTAT----AAAGGAAGTACCAGATAAAGCTTACATAATATCT-GTCTTGTAAGTTTACTCTCCTCCCTGTCTGTACAtgccatttctcagatcaaaaggtagaagtcactttccttctctttgaattctgacttataactgaatatgaacaagagaatagcaatttcagaagaagaaatgatgttctgagaccttgaagtc-caggctttaagaagactggaagtttctactttaggccttttggaatgcagtcatcatgctgtgaggatcccagatcatatggaaagaccatgta-gaggaga--------gcagaggtgctccagttggcagccctagctaagctcctagtggacagccagaaccaactgtaagccattttggacattttggatgtccatgttgaacgcccc-cagtgactgcagccccaggcagtatcacatggagcagaagaactgact----gatcctagccaacttgcag
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28320993 668 +  82825804 tataataaatattttaggttttcctggccacaaagt--ct--gccacaaccactctactctgccattgtagcctgaaagctg------------------------------------ctacagtcaatatgtaaacaaaccaatg----tgtattccaataaaattttattta-taaaacaggcattcagctggatttggctc------acaggccatagtttgccaatctctgATCTAATGGGGT--AAAAAATTAT----AAAGAAAGTACCAGATAAAGCTTACATAATATCT-GTCTTGTAAGTTTACTCTCCTCCCTGTCTGTACAtgccatttctcagatcaaaaggtagaagtcactttccttctctttgaattctgacgtataactgaatatgaccaagagaatagcaatttcagaagaagaaatgatgttctgagaccttgaagtc-caggctttaagaagactggaagtttctacttttggccttttggaacgcagtcatcatgctgtgaggatcccagatcatatggaaagaccatgta-gagaaga--------acagaggtgctccagttggcagccctagctaagctcctagtggacagccagaaccaactgtaagccattttggacattttggatgtccaagttaaatgcccc-cagtgactgcagtcccagggagtatcacatggagcagaagaactgact----gatcctagccaacttgcag
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3985170 668 -   4237731 tataataaatattttaggttttgctggtcacaaagt--ct--gtcacaaccactctactctgccattgtagcctgaaagctg------------------------------------ctacagtcaatacgtaaacaaacaaatg----tgtattccaataaaattttattta-taaaacaggcattcagctggatttggctt------acaggccatagtttgccaatctctgATCTAATGGGGT--AAAAAATTAT----AAAGAAAGTACCAGATAAAGCTTACATAATATCT-GTCTTGTAAGTTTACTCTCCTCCCTGTCTGTACAtgccatttctcagatcaaaaggtagaagtcactttccttctctttgaattctgacttataactgaatatgaacaagagaatagcaatttcagaagaagaaatgatattctgagaccttgaagtc-caggctttaagaagactggaagtttctacttttggccttttggaatgcagtcatcatgctgtaaggatcccagatcatatggaaagaccatgta-gaggaga--------gcagaggtgctccagttggcagccctagctaagctcctagtggacagccagaaccaactgtaagccattttggacattttggatgtccatgttgaacgcccc-cagtgactgcagccccaggcagtatcacatggagcagaagaactgact----gatcctagccaacttgcag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      255176 665 -   1175262 tataataaatattttaggttttgttggccacaaagt--ct--gtcacaaccactctactctaccattgtagccggaaagctg------------------------------------ctacagtcaatatgtaaacaaacaaatg----tgtattccaataaaattttattta-taaaacaggcattcagctggatttggctc------acaggccatagtttgccaatctctgATCTAATGGGGT-AAAAAAATTAT----A----AAGTACCAGATAAAGCTTACATAATATCT-GTCTTGTAAGTTtgctctcctgcctgtctgtacatgccatttctcagatcaaaaggtagaagtcactttccttctctttgaattctgccttataactgaatgtgaccaagagaatagcaattttagaagaagaaatgatgttctgagaccttgaagtc-caggctttaagaagactggaagtttctacttttggccttttggaacgcagtcatcatgctgtgaggatcccagatcatatggaaagaccatgta-gaggaga--------acaggggtgttccagttggcagccctagctaagctcctagtggacagccagaaccaactgtaagccattttggacattttggatgtccaacttgaacggccc-cagtgactgcagccccagggagtatcacatggagcagaagaactgact----gatcctagccaacttgcag
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123593478 703 - 204313951 g---ataaataatctaggctttgctggccgt--agt--ct--gtcacaaccactctactctgctattgtagcctgaaagctacaatatgaatttatgaatcccacaaatatatgaatcccacagtcaatatgtaaacaaacaaatg----tgtgttccaataaaattttattta-caaaacaggcattcagctggatttggctc------acaggccatagtttgccaacctctgATCTAATGGGGTAAAAAAAATCAT----AAAGAAAGCAATAGATACAGCTTACATGATATCTAGTATTCTAAGTTTACTCTCCTCTCTGTCTGTGCATACcatttcttagatccaaaggtagagctcactttccttctctttgaatgatgaattataacagaatatgaccaatataatagcaattttagaacaagaaatgatgttctgagacctgcaagtc-caggctttaagaggattggaagtttctacttttggccttttggaacatagtcatcgtgct-tgaggatcccagatcatatgtaaggaccatgtg-gaggaga--------acagaggtgctcctgttggcaaccctagctaagctcccagtggacagccagacccaactataagccattttggaca-cctggatatccaagttgaac-cccc-caatgactgcagccccagggagtatcacattgaacagaggaactgattaacggagcctagctaatttgcag
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55645607 669 -  71252344 gataataaataatttaggttttgctggccat--agt--ct--gtcacaaccactctactctgccattgtggcctgaaagctg------------------------------------ccacagtcagtatgtaaacaaacaaacg----tgtgttccaataaaagtttattta-caaaacaggcattcagctggatttggctc------acaggccatagtttgccaacctctgATCTAATGGGGT-AAAAAAATAAT----AAAGAAAGTAACAGATAAAGCTTACATGATATCTAGTATTCTAAGTTTACTCTCCTCTCTGTCTGTACATACCATttctcagatccaaaggtagagctcactttccttctctttgaatgatgacttctaacagaatatggccaatataatagcaatttcagaacaagaaatgatgttctgagacctgcaagtc-caggctttaagaggattggaagtttttacttttggccttttggaacatagccgtcatgct-tgaggatcccagatcatatgcaaagaccatgta-gaggaga--------acagaggtgctcctgttgacagtcctagctaagctcccagtggacagccagacccaactgtaagccgttttggaca-tctgggtgtgcaatttgaac-ccct-caatgactgcagtcccagggagtatcacattgaacagaggaactgattaatggagcatagctaatttgcag
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1339215 663 -   1400280 gataataaataatttaggttttgctggccat--agt--ct--gtcacaaccaccctactctgccattgtggcctgaaagctg------------------------------------ccacagtcaatatgtagacaaac----------gtgttccaataaaattttattta-caaaacaggcattcagctggatttggctc------acaggccatagtttgccaacctctgATCTAATGGAGT-AAAAAAATCAT----AAAGAAAGTAACAAATAAAGCTTACATGATATCTAGTATTCTAAGTTTACTCTCCTCTCTGCCTGCACATACcatttctcagaaccaaaggtagagctcactttccttctctttgaatgatgacttataacagaatatgaccaatataatagcaatttcagaacaagaaatgatgttctgagacctgaaagtc-caggctttaagaggattggaagtttctacttttggccttttggaacatagtcatcatgct-tgaggatcccagatcatatgtaaagaccatgta-gaggata--------acagaggtgctcctgttggcagccctagctaagctcccagtggacagccagacccaactgtaagccattttggaca-tctggatgtccaagttgaac-ccct-caatgactgcagccccAGGGAGTAACACACTGAACAGAGGAACTGATTAATAGAGCCTAGCTAATTTGTAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13132059 667 -  42888418 gataataaataatttaggttttgctggccat--agt--ct--gtcacagcaactctactctgctattgtagcctgaaagctg------------------------------------ccacagtcaatatgtaaacaaacaaac------gacttccaataaaattttattta-caaaacaggcattcagctggatttgactc------acaggccatagtttgccaacctctgATCTAATGGGGT-AAAAAAATCGT----AAAGAAAGTAACAGATACAGCTTACTTGATATCTAGTATTCTAAGTTTACTCTCCTCTCTGTCTGTACACACcatttctcagatccaaaggtacaactcactttccttctctttgaatgatgacttataacagaatatagccaatataatagcaatttcagaacaagaaatgatgttctgagacttgcaagtc-taggctttaagaggattggaaatttctacttctggccttttggaacatagtcatcatgct-tgaggatcccagatcatatgtaaggcccacgta-gaggaga--------acagaggtgctcctgttggcagccctagctaagctcccagtggccacccagatccaactgtaagacattttggaca-tctggatgtccaagttgaac-cccc-caatgactgcagccccagggagtatcacactgaacagaggagctgattaacggagcctagctaatttgcag
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60501384 667 + 108143057 gatagtaaatattttaggc--tactggccataaaatccct--gtcacaactactcaactctgctattgtagcatgaaacctg------------------------------------tcacaaccaatgtgtacacaaatgagtc----tgtgttccaataaaactttgttta-c-aaacaggcattcagcttgattggtcc-------atgggccatagtttgccaacTGGTAGTCTAATGGGAT--AAAAAACTGTCTTGAGATACAGTAACAGCTAAAGCTTACATTATATCTAGTCTTCTAGGTTTACTCTCCTTCCTGTCTTTATATACTatttctcagatcaaaaggtagaacttactttgcttctctttgaattgtgtcttatcactggatatgactaatagaatggcaacttcagaacaaaaagtgatgttctgagacttccaagtc-caggccttaaggggactgccagcttctactttctgccttttgaaacccggtttccatgctgtgagaataccaaatcatatggagagaccatgta-gaacaga--------actgaggtgctttggttggcagccccagctaagctctcaactgccagccagaaccaactgccagccgttccagacattctgggcatccaaggtgaac-cccc-agatgactgcaacccgaggccatggcacatgtagcagaggaactgact------gcc-agccaacctacag
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3013241 621 +   4132165 GATA-------------------------------------------------TAagctctgccactgtagcatgaaagcca------------------------------------tcacagcccataggtacgcaaatgaatc----tgtgttccagtaaaactttgttta-caaaacaggcatttggcttgattttctccatattgataggccatgttttgctaacTGTTTGTCTAATGGGGT--AAAAACCTGTCTTGAGATATAGTAACAGATAAAGCTTAC---------------CTAGGTTTATTCTCTTTCCTGCCTCTACATACTatttctcagatcaaaaggcagaacttactttccttctctttgaattctgtcttatcactggctgtgaccaacagaatggcaacttcagaacaagaagtgatgttctgagacttccaagttgctagccttaaggggactgcttgtgtctgctttctgccttttgaaacccagtttccgtgctgtgaggacaccaaatcatatggagagatcgtttagggaaaaa--------atggaggttctgtggttgacagccgcaactaagctcctgactatcacccagaggcaacggccagccattctggacatttgggatgtccaagg-gaac-ctcc-ggatgactgtaacccaaggctgt-acatgtggagcagaaggactgactcactgagcc-agccaacctccag
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2565630 626 +   3667625 tatagtaaatattttagtctttgctggccatatagg--ctcagtcacagttactcaactctgccattgtagcatgaaagctg------------------------------------ccacagccactatgtaaacaaatgagcgtggctgtgttccagtaaaactctgtttactaaaacagacactgaactataattggcTG------TCTTGTGATAGAGGG----------ATCT-------T--AAAACAGTTC----A----TTTTCCCAGATAAAGATTACAAGACATCTAGTCTTCAAGGATTACTCTCCT---TGTCTGAGAATACcatttctcagttcaagaggtggaaggtatctttcttctccttgaatcttgttttgtaactggatctaaccaatagaat-gcaat---------ggaaatgatgttttgaaacttccaacat-caggtcttaagaggactgacagcttccactgcctgcctcttggaattcagctgccatgctctgagaagctcagatcatatagatagaccaggca-gaggagg--------actgaggtgctttggttgtcag------ctaagctcccagttgacagccagttccaatagccaaacatgtgggacattcc-------------aagccagct-gaaggagtgtggcctcagtca-tctcttatggagcagaaaaactatctagaggagctcagtcAACCTCCAG
i dasNov3.JH567306         C 0 I 223
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3539980 2051 +  11683526 I
e mm10.chr18                55479016 3212 +  90702639 I

a score=2105446.000000
s hg38.chr5_KI270796v1_alt     32250 183 +    172708 tgtcatgagagata------atatagtcattgttttaagtaactacattttgggatggcttg------tgatacagtagtagatacttaaaacaTCTCACTATTGGT-ATTATTTGTGTCCAGTTATTCATGCCTACCAATGACATGGAATC----------ATAACTA---------------------------------------------------------------TAAGAACAAACTAGTAGTGTTAGTGAATCACTAAACA
s panTro5.chr5             125142310 183 + 181907262 tgtcatgagagata------atatagtcattgttttaagtaactacattttgggatggcttg------tgatacagtagtagatacttaaaacaTCTCACTATTGGT-ATTATTTGTGTCCAGTTATTCATGCCTACCAATGACTTGGAATC----------ATAACTA---------------------------------------------------------------TAAGAACAAACTAGTAGTGTTAGTGAATCACTAAACA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126479260 183 + 183735486 tgtcatgagagata------atatagtcattgttttaagtaactacattttgggatggcttg------tgatacagtagtagatacttaaaacaTCTCACTATTGGT-ATTATTTGTGTCCAGTTATTCATGCCTACCAATGACTTGGAATC----------ATAACTA---------------------------------------------------------------TAAGAACAAACTAGTAGTGTTAGTGAATCACTAAACA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1670744 183 +   8933513 tgtcatgagagata------atatagtcattgttttaagtaactacattttgagatggcttg------tgatacagtagtagatacttaaaacaTCTCACTATTGGT-ATTATTTGTGTCCAGTTATTCATGCCTACCAATGACTTGGAATC----------ATAACTA---------------------------------------------------------------TAAGAACAAACTAGTAGTGTTAGTGAATCACTAAACA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139800721 183 + 163208435 tgtcatgagagata------atatagtcattgttttaagtaactacattttgggatggcttg------tgatacagtagcagatacttaaaacaTCTCACTATTGGT-ATTATTTGTGTCCAGTTATTCATGCCTACCAACGACTTGGAATC----------ATAACTT---------------------------------------------------------------TAAGAAGAAACTAGTAGTGTTAGTGAATCACTAAAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122786625 184 + 180051392 tgtcatgagaaata------atatagtcattgttttaagtaactacattttgggatggcttg------taatacagtagtagatacttaaaacaTCTCACTATTAGTAATTATTTGTGTCCAGTTATTCATGCCTACCAGTGACTTGGAATC----------ATAACTA---------------------------------------------------------------CAAGAACAAACTAGCAGTGTTAGTGAATCACTAAACA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124210302 184 + 181584905 tgtcatgagaaata------atatagtcattgttttaagtaactacattttgggatggcttg------taatacagtagtagatacttaaaacaTCTCACTATTAGTAATTATTTGTGTCCAGTTATTCATGCCTACCAGTGACTTGGAATC----------ATAACTA---------------------------------------------------------------CAAGAACAAACTAGCAGTGTTAGTGAATCACTAAACA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16208040 184 +  18395747 tgtcatgagaaata------atatagtcattgttttaagtaactacattttgggatggcttg------taatacagtagtagatacttaaaacaTCTCACTATTAGTAATTATTTGTGTCCAGTTATTCATGCCTACCAGTGACTTGGAATC----------ATAACTA---------------------------------------------------------------CAAGAACAAACTAGCAGTGTTAGTGAATCACTAAACA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5213866 184 +  26952557 tgtcatgagaaata------atatagtcattgttttaagtaactacattttgggatggcttg------taacacagtagtagatacttaaaacaTCTCACTATTGGTAATTATTTGTGTCCAGTTATTCATGCCTACCAGTGACTTGGAATC----------ATAACTA---------------------------------------------------------------CAAGAACAAACTAGCAGTGTTAGTGAATCACTAAACA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28321661 184 +  82825804 tgttatgagaaata------atatagtcattgttttaagtaactacattttgggatggcttg------taatacagtagtagatatttaaaacaTCTCACTATTGGTAATTATTTGTGTCCAGTTATTCATGCCTACCAGTGACTTGGAATC----------ATAACTA---------------------------------------------------------------TAAGAACAAACTAGTAGTGTTAGTGAATCACTAAACA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3985838 184 -   4237731 tgtcatgagaaata------atatagtcattgttttaagtaactgcattttgggatggcttg------taatacagtagtagatacttaaaacaTCTCACTATTGGTAATTATTTGTGTCCAGTTATTCATGCCTACCAGTGACTTGGAATC----------ATAACTA---------------------------------------------------------------CAAGAACAAACTAGCAGTGTTAGTGAATCACTAAACA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      255841 184 -   1175262 tgtcgtgagaaata------gtatagtcattgttttaagtaactacattttggcgtggcttg------taatacagtagtagatacttaaaacaTCTCATTATTGGCAATTATTTGTGTCCAGTTATTTATGCCTACCAGTGACTTGGAATC----------ATAACTA---------------------------------------------------------------CAAGAACAAACTAGTAGTATTAGTGAATCACTAAACA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123594181 183 - 204313951 tgtcataagatata------atatagtcattgttttaagtaactacattttgggatggtttg------taatacaggagtagatacttaaaacaCCTCATTATTGGT-GTTATTTGTGTCTAGTTACTCATGCCTACCAATGACTTGGAATC----------ATAACTA---------------------------------------------------------------TAAGAACAAACTAGTAGTGTTAGTGAATCACTAAACA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55646276 183 -  71252344 tgtcatgagagata------atatagtcatttttttaagaaactacattttgggatggtttg------taatacagtagtagatatttaaaacaCCTCATCATTGGT-ATTATTTGTGTCTAGTTACTCATGCCTACCAATGACTTGGAATC----------ATAACTA---------------------------------------------------------------TAAAAACAAACTAGTAGTGTTAGTGAATCACTAAACA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1339878 178 -   1400280 TGTCATGAGAGATA------ATATAGTCA-----TTAAGTAACTACATTTTGGGATGGTTTC------TAATACAGTGGTAGATACTTAAAACACATCATTATTGGT-ATTATTTGTGTCTAGTTACTCATGCCTACCAATGACTTGGAATC----------ATAACTG---------------------------------------------------------------TAAGAACAAACTAGTAGTGTTAGTGAATCACTAAACA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13132726 182 -  42888418 tgtcatgagagata------atatagtcattgttttaagtaactacatttttggatggtttgtaatattaatacagtagtagatacttaaaacaCCTCATTATTGGT-ATTATTTGTGTCTGGTTACACATGCATACCAATGACTTGGAATC----------ATAACTA---------------------------------------------------------------TAAGAACAAACTAGTAGTGTTAGTG-------AAACA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60502051 192 + 108143057 agtcatgagagaca------atctagtggttattttgagcaactaagttttgggatggtttg------tgctacagcagtcaatacttgaaacaCCTCCCTACTGGC-ATTATTTGTATCCAGTTATTTATGCCTA-CAATGATTTGGAATCATAGACTATTATAACTA---------------------------------------------------------------TAAGCACAAACTACTAGTGTTAGTCAATCACTAAACA
i micMur3.chr12            C 0 I 590
s otoGar3.GL873679           3013862 258 +   4132165 ggtgacgagagctgagagatatagagtggttgcttagaac----aagtttggggatggttta------tgatacagcagtcgatacttgcaacaCCTCACTGTCGAT-GTTATTTGTGTCCAGTTGTTTATGCTTATCCATGATTTGGAATCCTAAGCTGTAATAGCTACAGCTATTACAattgctatactagccaggagtttgagactctagttggagcaagagtgagacccAAGTTGAGACCAGTAGTGTTAGTGAATCACTAAACA
i otoGar3.GL873679         C 0 C 0
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3539980 2051 +  11683526 I
e dasNov3.JH567306           2566256 223 +   3667625 I
e mm10.chr18                55479016 3212 +  90702639 I

a score=8046.000000
s hg38.chr5_KI270796v1_alt     32433 1 +    172708 G
s panTro5.chr5             125142493 1 + 181907262 G
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126479443 1 + 183735486 G
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1670927 1 +   8933513 G
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139800904 1 + 163208435 G
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122786809 1 + 180051392 G
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124210486 1 + 181584905 G
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16208224 1 +  18395747 G
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5214050 1 +  26952557 G
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28321845 1 +  82825804 G
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3986022 1 -   4237731 G
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      256025 1 -   1175262 C
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123594364 1 - 204313951 G
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55646459 1 -  71252344 G
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1340056 1 -   1400280 G
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13132908 1 -  42888418 G
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3014120 1 +   4132165 A
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60502243 590 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3539980 2051 +  11683526 I
e dasNov3.JH567306           2566256 223 +   3667625 I
e mm10.chr18                55479016 3212 +  90702639 I

a score=800173.000000
s hg38.chr5_KI270796v1_alt     32434 74 +    172708 C--TCATGAATTTTTGTCCTCACATTTCCTAGTCTGAGTCATATTATTCAAAATTCCATTCTGGATATCTTGTATA
s panTro5.chr5             125142494 74 + 181907262 C--TCATGAATTTTTGTCCTCAAATTTCCTAGTCTGAGCCATATTATTCAAAATTCCATTCTGGATATCTTGTATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126479444 74 + 183735486 C--TCATGAATTTTTGTCCTCAAATTTCCTAGTCTGAGTCATATTATTCAAAATTCCATTCTGGATATCTTGTATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1670928 74 +   8933513 C--TCATGAATTTTTGTCCTCAGATTTCCTAGTCTGAGTCATATTATTCAAAATTCCATTCTGGATATCTTGTATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139800905 74 + 163208435 C--TCATGAATTTTTGTCCTCAGATTTCCTAGTCTGAGTCATATTATTCAAAATTCCATTCTGGATATCTTGTATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122786810 71 + 180051392 C--TCATGAATTTTTGTCCTCAAATTTCCTAGTCTGAGCCA---TATTCAAAATTCCATTCTGGATATCTTGTATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124210487 71 + 181584905 C--TCATGAATTTTTGTCCTCAAATTTCCTAGTCTGAGCCA---TATTCAAAATTCCATTCTGGATATCTTGTATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16208225 71 +  18395747 C--TCATGAATTTTTGTCCTCAAATTTCCTAGTCTGAGCCA---TATTCAAAATTCCATTCTGGATATCTTGTATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5214051 71 +  26952557 C--TCATGAATTTTTGTCCTCAAATTTCCTAGTCTGAGTCA---TATTCAAAATTCCATTCTGGATATCTTGTATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28321846 74 +  82825804 C--TCATGAATTTTTGTCCTCAAATTTCCTAGTCTGAGTCATATTATTCAAAATTCCATTCTGGATATCTTGTATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3986023 71 -   4237731 C--TTATGAATTTTTGTCCTCAAATTTCCTAGTCTGAGTCA---TATTCAAAATTCCATTCTGGATATCTTGTATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      256026 74 -   1175262 C--TCATGAACTTTTGTCCTCAAATTTCCTAGTCTCAGTCATATTATTCAAAATTCCATTCTGGATATCTTGTATA
i colAng1.NW_012119644v1   C 0 I 312
s calJac3.chr2             123594365 76 - 204313951 CTGTTATAAATTTTTGTCCTCAAATTTCCTAGTCTGAGTCATACTATTCAAATTTCCATTCTGGATATCTTATAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55646460 76 -  71252344 CTGTTATAAATTTTTGTCATCAAATTTCCTAGTCTGAGTCATATTATTCAAATTTCCATTCTGGATATCTTATATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1340057 76 -   1400280 CTGTCATAAATTTTTGTCCTCAAATTTTCTAATCTGAGTCATATTATTCAAATTTCTATTCTGGATATCTTATATA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13132909 76 -  42888418 CTGTTATAAATTTTTGTCCTCAAATTTCCTAGTCTGAGTCATATTATTCAAATTTCCATTCTGGATATCTTATATA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3014121 76 +   4132165 CTGTTGTGGACTTTTGTCCTCAAATATCCTAGCCTGAGCCATGTTTTCCAAGATTTGATTCTGGAAATTTTGCATA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55482228 59 +  90702639 C--CCATGAGTATCTCTCCTCACATTTCTTAGCCTGAACATTATTGTCCAAATTTCCATTC---------------
i mm10.chr18               I 3212 C 0
e micMur3.chr12             60502243 590 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3539980 2051 +  11683526 I
e dasNov3.JH567306           2566256 223 +   3667625 I

a score=79465.000000
s hg38.chr5_KI270796v1_alt     32508 8 +    172708 ACACATTC
s panTro5.chr5             125142568 8 + 181907262 ACACATTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126479518 8 + 183735486 ACACATTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1671002 8 +   8933513 ACATATTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139800979 8 + 163208435 ACATATTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122786881 8 + 180051392 ACACATTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124210558 8 + 181584905 ACACATTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16208296 8 +  18395747 ACACATTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5214122 8 +  26952557 ACACATTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28321920 8 +  82825804 ACACATTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3986094 8 -   4237731 ACACATTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      256412 8 -   1175262 ACACATTC
i colAng1.NW_012119644v1   I 312 C 0
s calJac3.chr2             123594441 8 - 204313951 ACATATTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55646536 8 -  71252344 ACCTATTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1340133 8 -   1400280 ACATATTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13132985 8 -  42888418 ACATATTC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3014197 7 +   4132165 ATATATT-
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60502243 590 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3539980 2051 +  11683526 I
e dasNov3.JH567306           2566256 223 +   3667625 I
e mm10.chr18                55482287 0 +  90702639 C

a score=2457163.000000
s hg38.chr5_KI270796v1_alt     32516 202 +    172708 CAGGAATATGTGTAATATATTCCAA----GATTCTCT-GAATGTGTAACTGGAGGA-TTGTTTAAGAAACTAAGAT--TACATTTTTTAAGAGTTGGAAAGTCAGAGAATCTATGATCTGGTATGTCTGGGTCTCTCCCC--ATCCGCAGAAGACACAAATGAAAGCTAGACAATCTGAAATTATCCTCCTCTCTCTTACATCAAGAAGCCT
s panTro5.chr5             125142576 202 + 181907262 CAGGAATATGTGTAATATATTCCAA----GATTCTCT-GAATGTGTAACTGGAGGA-TTGTTTAAGAAACTAAGAT--TACATTTTTTAAAAGTTGGAAAGTCAGAGAATCTATGATCTGATATGTCTGGGTCTCTCTCC--ATCCGCAGAAGACACAAATGAAAGCTAGACAATCTGAAATTATCCTCCTCTCTCTTACATCAAGAAGCCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126479526 202 + 183735486 CAGGAATATGTGTAATATATTCCAA----GATTCTCT-GAATGTGTAACTGGAGGA-TTGTTTAAGAAACTAAGAT--TACATTTTTTAAAAGTTGGAAAGTCAGAGAATCTATGATCTGATATGTCTGGGTCTCTCTCC--ATCCGCAGAAGACACAAATGAAAGCTAGACAATCTGAAATTATCCTCCTCTCTCTTACATCAAGAAGCCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1671010 200 +   8933513 CAGGAATATGTGTAATATATTCCAA----GATTCTCT-GAATGTGTAACTGGAGGA-TTATTTAAGAAACTAAGAT--TACATTTTTTAAAAGTTGGAAAGTCAGAGAATCTATGATCTGATATGTCTGGGTCTCTCCCC--AT--GCAGAAGACACAAATGAAAGCTAGACAATCTGAAATTATCCTCCTCTCTCTTACATCAAGAAGCCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139800987 204 + 163208435 CAGGAATATGTGTAATATATTCCAA----GATTCTCT-GAATGTGTAACTGGAGGA-TTGTTTAAGAAACTAAGATGACACATTTTTTAAAAGTTGGAAAGTCAGAGAATCTATGATCTGATATGTCTGGGTCTCTCCCC--ATCTGCAGAAGACGCAAATGAAAGCTAGACAATCTGAAATTATCCTCCTCTCTCTTACATCAAGAAGCCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122786889 204 + 180051392 CAGGAATATGTGTAATATATTCCAA----TATTATCT-GAATGTATAACTGGAGGA-TTGTTTAAGAAACTAAGATTACACATTTTTTAAAAGTTGGAAATTCAAAGAATCTATGATCTGATATGTCTGCGTCTCTCCCC--ATCTGCAGAAGACACAAATGAAAGCTAGAGAATCTGAAATTATCCTCCTCTCTCTTACATCAAGAAGCCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124210566 204 + 181584905 CAGGAATATGTGTAATATATTCCAA----TATTATCT-GAATGTATAACTGGAGGA-TTGTTTAAGAAACTAAGATTACACATTTTTTAAAAGTTGGAAATTCAAAGAATCTATGATCTGATATGTCTGGGTCTCTCCCC--ATCTGCAGAAGACACAAATGAAAGCTAGAGAATCTGAAATTATCCTCCTCTCTCTTACATCAAGAAGCCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16208304 204 +  18395747 CAGGAATATGTGTAATATATTCCAA----TATTATCT-GAATGTATAACTGGAGGA-TTGTTTAAGAAACTAAGATTACACATTTTTTAAAAGTTGGAAATTCAAAGAATCTATGATCTGATATGTCTGGGTCTCTCCCC--ATCTGCAGAAGACACAAATGAAAGCTAGAGAATCTGAAATTATCCTCCTCTCTCTTACATCAAGAAGCCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5214130 204 +  26952557 CAGGAATATGTGTAATATATTCCAA----TATTATCT-GAATGTATAACTGGAGGT-TTGTTTAAGAAACTAAGATTACACATTTTTTAAAAGTTGGAAATTCAGAGAATCTATGATCTGATATGTCTGGGTCTCTCCGC--ATCTGCAGAAGACACAAATGAAAGCTAGAGAATCTGAAATTATCCTCATCTCTCTTACATCAAGAAGCCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28321928 204 +  82825804 CAGGAATATGTGTAATATATTCCAA----TATTATCT-GAATGTATAACTGGAGGA-TTGTTTAAAAAACTAAGATTACACATTTTTAAAAAGTTGGAAATTCAGAGAATCTATGATCTGATATGTCTGGGTCTCTCCCC--ATCTGCAGAAGACACAAATGAAAGCTAGAGAATCTGAAATTATCCTCCTCTCTCTTACATCAAGAAGCCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3986102 204 -   4237731 CAGGAATATGTGTAATATATTCCAA----TATTATCT-GAATGTATAACTGGAGGA-TTGTTTAAGAAACTAAGATTACACATTTTTTAAAAGTTGGAAATTCAGAGGATCTATGATCTGATATGTCTGGGTCTCTCCGC--ATCTGCAGAAGACACAAATGAAAGCTAGAGAATCTGAAATTATCCTCATCTCTCTTACATCAAGAAGCCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      256420 204 -   1175262 CAGGAATATGTGTAATATATTCCAA----TATTATCT-GAATGTATAACTGGAGGA-TTGTTTAGGAAACTAAGATTACACCTTTTTTAAAAGTTGGAAATTCAGAGAATCTATGATCTGATATGTCTGGGTCTCTCCCC--ATCTGCAGAAGACACAAATGAAAGCTAGAGAATCTGAAATTATCCTCCTCTCTCTTACATCAAGAAGCCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123594449 204 - 204313951 AAGGAATATGTATAATATATTCCAA----AATTCTCT-GAATTTATAAATGGAGGA-TTGTTTAAGAAACTAAGATTACACATTTTTTAAAAGTTGGAAAGTCAGAGAATCTATGATTTGATATGTCTGGGTCTCTCCCT--ATCTGCAGAAGACACAAATGCAAGCTAGACAATCTGAAATTATCTTCCTATCTCTTACATCAAGAAGCCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55646544 203 -  71252344 AGGGAATATGTATAATATATTCCAA----AATTCTCT-GAATTTATAAATGGAGGA-TTGTTTAAGAAACTAAGATTACGCATTTTTT-AAATTTGGAAAGTCAGAGTATCTATGATTTGATATGTCTGCATCTCTCCCT--ATCTGCAAAAGACACAAATAAAAGCTAGACAATCTGAAATTATCTTCCTCTCTCTTACATCAAGAAGCCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1340141 204 -   1400280 AGGGACTATGTATAATATATTCTAA----AATTCTCT-GAATTTATAAATGGAGGA-TTGTTTAAGAAACTCAGATTACACATTTTTTAAAAGTTGGAAAGTCAGAGAATCTATGATTTGATATGTCTGGGTCTCTCCCT--ATCTGCAGAAGACACAAATGAAAGCTAGACAATCTGAAATTATCTTCCTCTCTCTTACATCAAGAAGCCT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13132993 202 -  42888418 AGGGAATATGTATAATATATTCCAA----AATTCTCT-GAATTTATAAATGGAGGA-TTGTTTAAGAAACTAAGATCACACATTTTTTAAAAGTTGGAAAGTCAGAGAATCTATGATTTGATATGTCTGGATCTCTCCCT--ATCTGCAGAAGACATAAA--AAAGCTAGACAATCTGAAATTATCTTCCTCTCTCTTACATCAAGAAACCT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3542031 207 +  11683526 CAGGAATGTGTATAATATATTCCAG----TGTCCTCT-GAATGTGTAACCAAAGGATTTGTTTAAGAAACTaagtttataaatgttttaaaagttgaaaagtgaaaagatttataaTCTGATGTGTCTGGGTCTCTCCCCTTATCTGCAGAAGACACAGATAGGAGCTAAACCATCTGGAACTACTCCCCTCTCCCTTATATCAAGAAGCCT
i proCoq1.NW_012155062v1   I 2051 C 0
s otoGar3.GL873679           3014204 204 +   4132165 CAGGAATGTGTATTATATATTCCAA----TGTCCTCT-GAA--TATAACTGGAAGACTTTTTTAAGAAGTCAAGTTTATAAATATTTGAAAAGTT-AAATGTTGGAGGATTTATGATTTGATGTGTCTGGGTCTCTCCTCTTATCCGCCGAAGACACAGATAGGAGCTAAACAATATGAAACTCTTCCCCTCTCCCTTATATCAAGAAGCCT
i otoGar3.GL873679         C 0 I 491
s mm10.chr18                55482287 181 +  90702639 --AGAGCAGGCACAATATTTTCTGAGGGGTGTTCTATAGATTATGTAACTGAAGCATTTGCCTAAGAAGCAAAGATTATACA-ATTTTAAAGACAAAAAGGTTAAAAGACTTGGAGTCT-----------------------ATCTGCAGAAGATGTAGAAGGCAACTAAACAATCTGCAAGCATT---CTCTCCTTTTGATGAAGAAGC--
i mm10.chr18               C 0 C 0
e micMur3.chr12             60502243 590 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e dasNov3.JH567306           2566256 223 +   3667625 I

a score=306974.000000
s hg38.chr5_KI270796v1_alt     32718 27 +    172708 AGAAAGTATAATAAAAAGACACTAATA
s panTro5.chr5             125142778 27 + 181907262 AGACAGTATAATAAAAAGACACTAATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126479728 27 + 183735486 AGACAGTATAATAAAAAGACACTAATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1671210 27 +   8933513 AGAAAGTATAATAAAAAGACACTAATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139801191 27 + 163208435 AGAAAGCATAATAAAAAGACACTAATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122787093 27 + 180051392 AGAAAGTATAATAAAAATACACTAATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124210770 27 + 181584905 AGAAAGTATAATAAAAATACACTAATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16208508 27 +  18395747 AGAAAGTATAATAAAAATACACTAATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5214334 27 +  26952557 AGAAAGTATAATAAAAATACACTAATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28322132 27 +  82825804 AGAAAGTATAATAAAAATACACTAATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3986306 27 -   4237731 AGAAAGTATAATAAAAATACACTAATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      256624 27 -   1175262 AGAAAGTATAATAAAAAGACACTAATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123594653 27 - 204313951 AGAAAGTATAATAAAAAGACACTAATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55646747 27 -  71252344 AGAAAGTATAATAAAAAGACACTAATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1340345 27 -   1400280 AGAAAGCATAATAAAAAGACACTAATA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13133195 27 -  42888418 AGAAAGTATAATAAAAAGACACTAATA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3542238 27 +  11683526 AGCCAGTATAATATAAAGACACTGATA
i proCoq1.NW_012155062v1   C 0 I 253
s mm10.chr18                55482468 13 +  90702639 --------------AGACACATTGGTA
i mm10.chr18               C 0 C 0
e micMur3.chr12             60502243 590 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e otoGar3.GL873679           3014408 491 +   4132165 I
e dasNov3.JH567306           2566256 223 +   3667625 I

a score=1971425.000000
s hg38.chr5_KI270796v1_alt     32745 208 +    172708 ATT-AAAAATTTTGGTTGTGATCAAAAAGATACAACATatttattataggcttactatgtcctgtttgtgattcaagga-tttatctggaatatctcatttaattctccc-aacaaccttgagagatatt-atattccca-tttttctgatgatgaagtcaagatttggtcattgtatacaactataatgaacactg-ccaagattcaaaccta
s panTro5.chr5             125142805 208 + 181907262 ATT-AAAAATTTTGGTTGTGATCAAAAAGATACAACGTatttattataggcttactatgtcctgtttgtgattcaagga-tttatctggaatatctcatttaattctccc-aacaaccttgagagatatt-atattccca-tttttctgatgatgaagtcaagacttggtcattgtatacaactataatgaacactg-tcaagattcaaaccta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126479755 208 + 183735486 ATT-AAAAATTTTGGTTGTGATCAAAAAGATACAACGTatttattataggcttactatgccctgttcgtgattcaagga-tttatctggaatatctcatttaattctccc-aacaaccttgagagatatt-atattccca-tttttctgatgatgaagtcaagacttggtcattgtatacaactataatgaacactg-tcaagattcaaaccta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1671237 208 +   8933513 ATT-AAAAATTTTGGTTGTGATCAAAAAGATACAACatatttattataggcttactatgtcctgtttgtgattcaagga-tttatctggaatatctcatttaattctccc-aacaaccttgagagatatt-ctattccca-tttttctgatgatgaagtcaagacttggtcgttgtatacaactataatgaacactg-ccaagattcaaaccta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139801218 208 + 163208435 ATT-AAAAATTTTGGTTGTGATATAAAAGATATGATATatttattataggcttactatgtcctggttgtgattcaagga-tttatctggaatatctcatttaattctccc-aacaatcttgagagatatt-atattccca-tttttctgatgatgaagtcaagacttggtcattgtatacaactataatgaacacag-ccaagattcaaaccta
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122787120 209 + 180051392 ATT-AAAAATGTTGGTTGTGataaaaaagatacaacgtatttattacaggcttactatgtcctgggtgtgattcaagga-tttacctggaatatctcatttaattctccc-aacaatcttgagagatatt-atatgccca-tttttctgacgaggaagtcaaaacttggtcattgtatacaactataatgaacacagcccaagattcaaaccta
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124210797 209 + 181584905 ATT-AAAAATGTTGGTTGTGataaaaaagatacaacatatttattacaggcttactatgtcctgggtatcattcaagga-tttacctggaatatctcatttaattctccc-aacaattttgagagatatt-atatgccca-tttttctgacgaggaagtcaaaacttggtcattgtatacaactataatgaacacagcccaagattcaaaccta
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16208535 209 +  18395747 ATT-AAAAATGTTGGTTGTGataaaagagatacaacatatttattacaggcttactatgtcctgggtgtgattcaagga-tttacctggaatatctcatttaattctccc-aacaatcttgagagatatt-atatgccca-tttttctgacgaggaagtcaaaacttggtcattgtatacaactataatgaacacagcccaagattcaaaccta
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5214361 209 +  26952557 ATT-AAAAATTTTGGTTGTGATGAAAAAGATACAACATatttattacaggcttactatgtcctgggtgtgattcaagga-tttacctggaatatctcatttaattctccc-aacaatcttgagagatatt-atatgccca-tttttctgacgaggaagtcaaaagttggtcattgtatacacctataatgaacacagcccaagattcaaaccta
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28322159 208 +  82825804 ATT-AAAAATTTT-GTTGTGataaaaaagatacaacatatttattacaggcttactatgtcctggatgtgattcaagga-tttacttggaatatctcatttaattctccc-aacaatcttgagagatatt-atatgccta-tttctctgacaaggaagtcaaagcttggtcattgtatacaactataatgaacacagcccaagattcaaatcta
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3986333 209 -   4237731 ATT-AAAAATTTTGGTTGTGataaaaaagatacaacatatttattacaggcttactatgtcctgggtgtgattcaagga-tgtacctggaatatctcatttaattctccc-aacaatcttgagagatatt-atatgccca-tttttctgatgaggaagtcaaaagttggtcattgtatacaactataatgaacacagcccaagattcaaaccta
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      256651 209 -   1175262 ATT-AAAAATTTTGTTTGTGATAAAAAAGATAAAACATatttattacaggcttactatgtcctgggtgtgattcaagga-tttacctggaatgtctcatttaattctccc-aacaatcttgagagatatt-atatgccca-tttttctgacgaggaactcaaaacttggtcattgtatacaactataatgaacacagcccaagattcaaaACTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123594680 208 - 204313951 ATT-AGAAAATTCAGTTGTGATCAAAAAGATAAGACATatttattataggcttactatgtcctgagtgtgattcaagaa-tttatctggaatatctcatttaattctcccaaacaacctggagagttatt-atatttcca-tttatctgatgaggaagtcaagacttggtcattgtatacaactttaatgaacacag-caaagattc-aactcg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55646774 210 -  71252344 ATT-AAAAATTTTGGTTGTGATAAAAAAGATAAGACATatttattataggcttactgtgtcctgagtgtgattcaagaa-tttatctggaatatctcatttaattctcccaaacaacctggagagttatt-atattttcattttttctgatgagaaagtcaagacttggtcattgtatgcagctttaatgaacacag-ccaagattcaaactca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1340372 210 -   1400280 ATTAAAAAAATTCAGTTGTGATCAAAAAGATAAGACATatttattataggcttaccatgtcctgagtgtgattcaagaa-tttatctggaatatctcatttaattctcccaaacaacctggagagttatt-atatttccg-tttttctgatgaggaagtcaagacttggtcattgtatacaactttaatgaacacag-ccaagattcaaactca
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13133222 208 -  42888418 ATT-AAAAAATTCGGTTGTGATCAAAAAGATAAGACatattcattataggcttactatgtcctgagtgtgattcaagaa-tttatctggaatatctcatttaattctcccaaacaacctggagagttatt-atatttcca-tttttctgataaggaagtcaaaacttggtcattgtatacaactttaatcaacacag-ccaagattc-aactca
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55482481 182 +  90702639 ------------TGATTTT-----AAAAAGCATGAAATAGCTACC------------TCTCAGGTATGTGCTTGAAGTATTTTAATTCTACTATCTTATTTCA-TCTCAT-TCAGACTTTGAGAAATACTGAAATTTCTA-CTTTTTACAGTAAAAAATCAAGCCTCAAGCATCATATACAACCATAAGCAACAAGTACCAAGACTCAAACTCA
i mm10.chr18               C 0 I 22
e micMur3.chr12             60502243 590 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3542265 253 +  11683526 I
e otoGar3.GL873679           3014408 491 +   4132165 I
e dasNov3.JH567306           2566256 223 +   3667625 I

a score=8813349.000000
s hg38.chr5_KI270796v1_alt     32953  994 +    172708 gactg---------------------------------------tttttttccagagTACAGGTACgtattagtccattttcacactgctataaagatactacctgagactgggaaatttatttttttaaaaaagatttaattcactcaaag--tttcacatggctgggaaggcctcaggaaacttacaatcatggcagaaggtgaaggggttacaatcatggcagaaggggaaagggaagaaaggtacatcttacatggcattggtagaaagagagaa------------------------------tgtgcaggggaaact-----------------caacaagatcttctgagaactccctcactatcatgacagcagcatgggggaaactgccaccatgatccaat-------caccagttccctgccttgatatgtgggggttacagttagagatgagatttgagtggggatgcagagccaaaccacatcattctgcccc-ggcccctcccaaatctcatgtccttttcatatttcaaaaccaatctcattccttcccaacagtcccccaaggtcttaactcattccaacattaactcaaatgtcctagtccaaagtcttatctgagacaaagcaagtcccttttgcctatgagcctctaaaatcagaaacaaattagttacttccaagataaaatgggggtacaggatttgcctatgagactct-aaatcagaaacgagttagttacttccaagataaaatgggggtacattcacatgataaatgttcctattgaaaa-gggagcaattggccaaaacaaagggcctgcaggccccatgcaagtgtgaaacccagccagg---------gttcttaaaactccaaaatctcttttgactatatgtctcacatccagggcatgctgatgcaagggatgggcttccaaggccttgggcagctctatccctgtggctctacagggtacaacccctttggctgctttcagggactggtgtttagtgcttgctgtttttccaggtacatggtgcaagctgttaatggatctactattctggagtctgggggatggtgg
s panTro5.chr5             125143013  994 + 181907262 gactgt--------------------------------------tttttttccagagtacagATACgtattagtccattttcacactgctataaagatactacctgagactgggaaatttatttttttaaaaaagatttaattcactcaaag--tttcacatggctgggaaggcctcaggaaacttacaatcatggcagaaggtgaaggggttacaatcatggcagaaggggaaagggaagaaaggtacatcttacatggcattggtagagagagagaa------------------------------tgtgcaggggaaact-----------------caacaagatcttctgagaactccctcactatcatgagagcagcatgggggaaactgcccccatgatccaat-------caccagttccctgccttgatatgtgggagttacagttagagatgagatttgagtggggatgcagagccaaaccacatcattctgcccctggcccctcccaaatctcatgtccttttcatatttcaaaaccaatctcattccttcccaacagtcccccaaggtcttaactcattccaacattaactcaaatgtcctagtccaaagtcttatctgagacaaggcaagtcccttttgcctatgagcctctaaaatcagaaacaagttagttacttccaagataaaatgggggtacaggatttgcctatgagactct-aaatcagaaatgagttagttacttccaagat-aaatgggggtacatttacatgataaatgttcctattgcaaa-gcgagcaattggccaaaacaaagggcctgcaggccccatgcaagtgtgaaacccagccagg---------gttcttaaaactccaaaatctcttttgactatatgtctcacatccagggcatgctgatgcaagggatgggcttccaaggccttgggcagctctatccctgtggctctacagggtacaa-ccctttggctgctttcagggactggtgttgagtgcttgctgtttttccaggtacatggtgcaagctgttaatggatctactattctggagtctgggggatggtgg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126479963  994 + 183735486 gactgt--------------------------------------tttttttccagagtacagATACgtattagtccattttcacactgctataaagatactacctgagactaggaaatttatttttttaaaaaagatttaattcactcaaag--tttcacatggctgggaaggcctcaggaaacttacaatcatggcagaaggtgaaggggttacaatcatggcagaaggggaaagggaagaaaggtacgtcttacatggcattggtagagagagagaa------------------------------tgtgcaggggaaact-----------------caacaagatcttctgagaactccctcactatcatgagagcagcatgggggaaactgcccccatgatccaat-------caccagttccctgccttgatatgtgggagttacagttagagatgagatttgagtggggatgcagagccaaaccacatcattctgcccctggcccctcccaaatctcatgtccttttcatatttcaaaaccaatctcattccttcccaacagtcccccaaggtcttaactcattccaacattaactcaaatgtcctagtccaaagtcttatctgagacaaggcaagtcccttttgcctatgagcctctaaaatcagaaacaagttagttacttccaagataaaatgggggtacaggatttgcctatgagactct-aaatcagaaatgagttagttacttccaagat-aaatgggggtacatttacatgataaatgttcctattgcaaa-gggagcaattggccaaaacaaagggcctgcaggccccatgcaagtgtgaaacccagccagg---------gttcttaaaactccaaaatctcttttgactatatgtctcacatccagggcatgctgatgcaagggatgggcttccaaggccttgggcagctctatccctgtggctctacagggtacaa-ccctttggctgctttcagggactggtgttgagtgcttgctgtttttccaggtacatggtgcaagctgttaatggatctactattctggagtctgggggatggtgg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1671445  995 +   8933513 gactg---------------------------------------tttttttccggagtACAGATACgtattagtccattttcacactgctataaagatactacctgagactgggaaatttatttttttaaaaaagatttaattcactcaaag--tttcacatggctggggaggcctcaggaaacttacaatcatggcagaaggtgaaggggttacaatcatggcagaaggggaaagggaagaaaggtacatcttacatggcattggtagagagagagaa------------------------------tgtgcaggggaaact-----------------caacaagatcttctgagaactccctcactatcatgagagcagcatgggggaaactgcccccatgatccaat-------caccagttcccttccttgatatgtgggggttacagttagagatgagatttgagtggggatgcagagccaaaccacatcattctgcccctggcccctcccaaatctcatgtccttttcatatttcaaaaccaatctcattccttcccaacagtcccccaaggtcttaactcattccaacattaactcaaatgtcctagtccaaagtcttatgtgagacaaggcaagtcccttttgcctatgagcctctaaaatcagaaacaagttagttacttccaagataaaatgggggtacaggatttgcctatgagactct-aaatcagaaacgagttagctactttcaagataaaatgggggtacattcacatgataaatgttcttattgcaaa-gggagcaattggccaaaacaaagggcctgcaggccccatgcaagtgtgaaacccagccagg---------gttcttaaaactccaaaatctcttttgactatatgtctcacatccagggcatgctgatgcaagggatgggctttcaaggccttgggcagctctatccctgtggctctacagggtacaacccctttggctgctttcagggactggtgttgagtgcttgctgtttttccaggtacatggtgcaagctgttaatggatctactattctggagtctgggcgatggtgg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139801426  995 + 163208435 gactg---------------------------------------tttttttccagagcACAGGTAtgtattagtccattttcacactgctataaagatactacctgagactgggaaatttattttttaaaaaaagatttaattgactcaaag--ttttgcatggctagggaggcctcaggaaacttacaatcatggcagaaggtgaaggggttacattcatggcagaatgcgtaagggaagaaaggcacatcttacgtggcatcggtagagagagagag------------------------------tgtgcagggaaaact-----------------caataagatcttctgacaactccctcactatcatgagagcagcatgggggaaactgcccccatgatccaat-------caccagttcccttccttgatatgtgggggttacagttagagatgagatttgagtggggacacagagccaaaccacatcattctgcccctggcccctcccaaatctcatgtgcttttcatatttcaaaaccaatctcattccttcccaacagtcccccaaggtcttaagtcattccaacataaactcaaatgtccaagtccaaagtcttatctgagacaaggcaagtcccttttgcctatgagcctctaaaattagaaacaagttagttacttccaagataaaatgggagtacgggctttgcctatgagactct-aaatcagaaatgagttagttacttccaaggtaaaatgggggtacatttacatgttaaatgttcccattgcaaa-gggagcaactggccaaaacaaagggcctgcaggccccatgcaagtgtgaaacccagccagg---------gttcttaaaactccaaaatctcttttgactctatgtctcacatccagggcatgctgatgcaagggatgggcttccaaggccttgggcagctctactgctgtggctctgcagggtacaacccctttggctgctttcaggggctggtgttgagtgcttgcagcttttccagctacatggtgcaagctgttgatggatctactattctggggtctgggggatggtgg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122787329  987 + 180051392 gactgt-----------ttTGTTTTGTTTTT-------------TTTTTTTCCAGAATACAGATAtgtattagcccattttcacactgctataaagatactacctgagactgggaaatttattttttttaaagagatttaattgactcaaag--tttcacatggctggggaggcctcaggaaacttacaatcatggcagaaggtgaaggggttacaattatggcagaagaggaaggggaagaaaggcacatcttacatggcatcagtagagagagagag------------------------------tgtgcaggggaaatt-----------------caacacgatcttctgagaactcc-------------------catgggggaaactgcccccgtgatccagt-------caccagttcccttccttgatatgtggggattacagttcgagatgagatttgagtggggacacagagccaaaccacatcattctgcccctggtccctcccaaatctcatgtccttttcacatttcaaaaccaatctcactctttcccaacagtccccca--gtcttaactcattccaacattaactcaaatgttgaagtccaaagtctcgtctgagacaaagcaagtcccttctgcctatgagcctctaaaatcagaaacaagttagttacttccaagatataatgggggtacaggctttgcctatgagcctct-aaataagaa---agttagttacttccaagatcaaatgggggtacatttatgtggtatatattcctattccaaatgggagcaattggccaaaacaaagggcctgcaggccccatgcaagtgtgaaacccagccagg---------gttcttaaaactccaaaatctcttttgactccatgtctcacatccagggcatgctgatgcaaggggtggacttccaaggccttgagcagctctacccctgtgaatctgcagggtgcagcccctctggctgctttcaggggctggtattgagtgcttgcagcttttccaggtgcatggtgcaagctgttgatggatctactattctggggtctgggggatggtgg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124211006  983 + 181584905 gactgt-----------ttTGT----TTTTT-------------TTTTTTTCCAGAATACAGATAtgtattagcccattttcacactgctataaagatactacctgagactgggaaatttattttttttaaagagatttaattgactcaaag--tttcacatggctggggaggcctcaggaaacttacaatcatggcagaaggtgaaggggttacaattatggcagaagaggaaggggaagaaaggcacatcttacatggcatcagtagagagagagag------------------------------tgtgcaggggaaatt-----------------caacacgatcttctgagaactcc-------------------catgggggaaactgcccccatgatccagt-------caccagttcccttccttgatatgtggggattacagttcgagatgagatttgagtggggacacagagccaaaccacatcattctgcccctggtccctcccaaatctcatgtccttttcacatttcaaaaccaatctcactctttcccaacagtccccca--gtcttaactcattccaacattaactcaaatgttgaagtccaaagtctcgtctgagacaaagcaagtcccttctgcctatgagcctctaaaatcagaaacaagttagttacttccaagatataatgggggtacaggctttgcctatgagcctct-aaataagaa---agttagttacttccaagatcaaatgggggtacatttatgtggtatatattcctattccaaatgggagcaattggccaaaacaaagggcctgcaggccccatgcaagtgtgaaacccagccagg---------gttcttaaaactccaaaatctcttttgactccatgtctcacatccagggcctgctgatgcaaggggtggacttccaaggccttgagcagctctacccctgtgactctgcagggtgcagcccctctggctgctttcaggggctggtattgagtgcttgcagcttttccaggtgcatggtgcaagctgttgatggatctactattctggggtctgggggatggtgg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16208744  980 +  18395747 gactgt-----------ttTG-------TTT-------------TTTTTTTCCAGAATACAGATAtgtattagcccattttcacactgctataaagatactacctgagactgggaaatttattttttttaaagagatttaattgactcaaag--tttcacatggctggggaggcctcaggaaacttacaatcatggcagaaggtgaaggggttacaattatggcagaagaggaaggggaagaaaggcacatcttacatggcatcagtagagagagagag------------------------------tgtgcaggggaaatt-----------------caacgcgatcttctgagaactcc-------------------catgggggaaactgcccccatgatccagt-------caccagttcccttccttgatatgtggggattacagttcgagatgagatttgagtggggacacagagccaaaccacatcattctgcccctggtccctcccaaatctcatgtccttttcacatttcaaaaccaatctcactctttcccaacagtccccca--gtcttaactcattccaacattaactcaaatgttgaagtccaaagtctcgtctgagacaaagcaagtcccttctgcctatgagcctctaaaatcagaaacaagttagttacttccaagatataatgggggtacaggctttgcctatgagcctct-aaataagaa---agttagttacttccaagatcaaatgggggtacatttatgtggtatatattcctattccaaatgggagcaattggccaaaacaaagggcctgcaggccccatgcaagtgtgaaacccagccagg---------gttcttaaaactccaaaatctcttttgactccatgtctcacatccagggcatgctgatgcaaggggtggacttccaaggccttgagcagctctacccctgtgactctgcagggtgcagcctctctggctgctttcaggggctggtattgagtgcttgcagcttttccaggtgcatggtgcaagctgttgatggatctactattctggggtctgggggatggtgg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5214570  981 +  26952557 gactgt-----------ttTGT------TTT-------------TTTTTTTCCAGAATACAGATAtgtattagcccattttcacactgctataaagatactacctgagactgggaaatttattttttttaaagagatttaattgactcaaag--tttcacatggctggggaggcctcaggaaacttacaatcatggcagaaggtgaaggggttacaattatggcagaagaggaaggggaagaaaggcacatcttacatggcatcaatagagagagagag------------------------------tgtgcaggggaaatt-----------------caacacgatcttctgagaactcc-------------------catgggggaaactgcccccatgatccagt-------caccagttcccttccttgatatgtggggattacagttcgagatgagatttgagtgtggacacagagccaaaccacatcattctgcccctggtccctcccaaatctcatgtccttttcacatttcaaaaccaatctcactctttcccaatagtccccca--gtcttaactcattccaacattaactcaaatgttgaagtccaaagtctcgtctgagacaaagcaagtcccttctgcctatgagcctctaaaatcagaaacaagttagttacttccaagataaaatgggggtacaggctttgcctatgagcctct-aaataagaa---agttagttacttccaagatcaaatgggggtacatttatgtggtatatattcctattccaaatgggagcaattggccaaaacaaagggcctgcaggccccatgcaagtgtgaaacccagccagg---------gttcttaaaactccaaaatctcttttgactccatgtctcacatccagggcatgctgatgcaaggggtggacttccaaggccttgagcagctctacccctgtgactctgcagggtgcagcccctctggctgctttcaggggctggtattgagtgcttgcagcttttccaggtgcatggtgcaagctgttgatagatctactattctggggtctgggggatggtgg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28322367 1007 +  82825804 gactgtttgtttgtttgtttgt------tttgttgttgttgttgttttttttCAGAATACAGATAtgtattagcccgttttcacagtgctataaagatactacctgagactgggaaatttatttttttaaaagagatttaattgactcaaag--tttcacatggctggggaggcctcaggaaacttacaatcatggcagaaggtgaaggtgttacaattatggcagaaggggaaggggaggaaaggcacatcttacacggcatcagtagagagagagag------------------------------tgtgcaggggaaatt-----------------caacatgatcttctgagaactcc-------------------catgggggaaactgcccccatgatccaat-------caccagttcccttccttgatatgtggggattacagttcgagatgagatttgagtggggacacagagccaaatcacatcCttctgcccctggtccctcccaaatctcatatccttttcacatttcaaaaccaatctcactccttcccaacagtccctcaaggtcttaactcattccaacattaactcaaatgttgaagtccaaagtcttgtctgagacaaagcaagtcccttctgcctatgagcctctaaaatcagaaacaagttagttacttccaagagaaaatgggggtacaggctttgcctatgagcctct-aaataagaa---agttagttacttccaagatcaaatgggggtacatttatgtggtatatattcctattccaaatgggaacaattggccaaaacaaagggcctgcaggccccatgcaagtgtgaaacccagccagc---------gttcttaaaactctaaaatctcttttgactccatgtctcacatccagggcatgctgatgcaaggggtggacttccaaggccttgggcagctctacccctgtgacactgcagggtacagtccctctggctgctttcaggggctggtattgagtgcttgcagcttttccaggtgtatggtgcaagctgttgatggatctactattctgggatctgggggatggtga
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3986542  981 -   4237731 gactgt-----------ttTGT------TTT-------------TTTTTTTCCAGAATACAGATAtgtattagcccattttcacactgctataaagatactacctgagactgggaaatttactttttttaaagagatttaattgactcaaag--tttcacatggctggggaggcctcaggaaacttacaatcatggcagaaggtgaaggggttacaattatggcagaagaggaaggggaagaaaggcacatcttacatggcatcagtagagagagagag------------------------------tgtgcaggggaaatt-----------------caacacgatcttctgagaactcc-------------------catgggggaaactgcccccatgatccagt-------caccagttcccttccttgatatgtggggattacagttcgagatgagatttgagtggggacacagagccaaaccacatcattctgcccctggtccctcccaaatctcatgtccttttcacatttcaaaaccaatctcactctttcccaacagtccccca--gtcttaactcattccaacattaactcaaatgttgaagtccaaagtctcgtctgagacaaagcaagtcccttctgcctatgagcctctaaaatcagaaacaagttagttacttccaagataaaatgggggtacaggctttgcctatgagcctct-aaataagaa---agttagttacttccaagatcaaatgggggtacatttatgtggtatatattcctattccaaatgggagcaattggccaaaacaaagggcctgcaggccccatgcaagtgtgaaacccagccagg---------gttcttaagactccaaaatctcttttgactccatgtctcacatccagggcatgctgatgcaaggggtggacttccaaggccttgagcagctctacccctgtgactctgcagggtgcagcccctctggctgctttcaggggctggtattgagtgcttgcagcttttccaggtgcacggtgcaagctgttgatggatctactattctggggtctgggggatgttgg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      256860  959 -   1175262 GACTGT-----------T----------TTT-------------TTTTCCCCCAGAATACAGATAtgcattagtccattttcacactgctataaagatactacctgaaactgggaaatttatttttttaaaagagatttaattgactcaaag--tttcacatggctggggaagcctcaggaaacttacaatcatggcagaaggggaaggggttataattatggcagaaggggaagtggaagaaaggcacatcttacgtggcatcagtagagacagagag------------------------------tgtgcaggggaaatt-----------------caacacaatcttctgagaactcc-------------------catgggggaaactgcccccatgatccaat-------caccagttcccttccttgatatgtggggattacagttcgagatgagatttgggtggggacacagagccaaaccatatcattctgcccctggtccctcccaaatctcatgtccttttcacatttcaaaaccaatctcactccttcccaacagtcccccaagttcttaactcattccaacattaactcaaatgttgaagtccaaagtctcatctgagacaaagcaagtcccttctgcctatgagcctctaaaaccagaaacaagttacttacttccaagataaaatggaggtacaggctttgcctatgagcctct-aaataagaa-------agttacttccaagatcaaatgggggtacatttatgtggtatatattcctattccaaatgggaaaaattggccaaaacaaagggcctgcaggcctcatgcaagtgtgaaacccagccagg---------gttcttaaaactccaaaatctcttttgactccatgtctcacttccagggcatgctgatgcaaggggtggacttccaaggccttgggcagctctacccctgtgactctg----------------tggctgctttctggggctggtattgagtgcttgcagcttttccaggtgcatggtgcaagctgttgatggatctactattctagggtctgggggatggtgg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123594888 1014 - 204313951 gactg---------------------------------------ctttgctccagagAACAGATGtgaattagtccattttcacactgctgtaaagat-tttccggggactggg-aa---------aataaaaaggattaattgactcacaggttttcacttgactggggaggtcccaggaaacttacaatcatgaaagaaggtgaaggggt---------------------------agaaaggaacatcttacatggcatcagtagagaaagagacagaaagagagggagagcaagagagagagcatgcacaagagaaactgccagacacttatcagacaaccagatcatctgaaaactccctcactatcatgatagcagcatgaaggaaactgcccctatgacccaatcacctcccacaagttccctcccttaatatgtggggattagaattctagatgagatttgagtggggatacagagccaaaccacatcattctgtccc-agcccctcccaaatcttatgtccttttcacatttcaaaaccaa--tcatgccttcccaacagtcccccaatgtcttaactcattacagcattaactcaaatgtccaagtccaaagtctcatctgaaa-----caagtcccttctgcctatggacctctgaaatcagaaacaggttggatac-cccaagataaaacggaggcacaggctctgtccatgagcctctaaaatcagaaacaagttaattacttccaagataaaatgggagtacatttacatgataaatgttctcattccaaatggaagtaattggccaaaacaaaggggctgtaggccccatgcaagtgtaaaaaccatctaggcagtcattaaatctgaaaactccaaaatctcttttgactccatgtctcacatctggggcatgctgatgcaaggtgtgatcttccaaggccttggggagctctacccctgtggctctgcagggtagagatgctttggttgttttcaggggctgatgttttgtacctgcagcttttccaggtacatggtgcaagctgttgatggatctcccattctggggtt-gggggacaaggg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55646984 1038 -  71252344 gactg---------------------------------------ctttgttccagagAACAGATGtgaattagtccattttcacactgctataaagatactacctgggactgggaaa---------aagaaaaaggtttaattgaatcacaggttttcacttgactggggagatctcaggaaacttacaatcatgaaagaaggtgaaggggttctaatcatggcagaagatgaaggggaagaaaggcacatcttacatcgcatcagtagagaaagagacag--agagagtgagaatgagagagagagtgtgcacaggggaaactgccagacacttatcagacaaccagatcttctgaaaactccctcactatcatgaaaacatcatgaaggaaactacccctgtaacccaatctcctcccaccagttccttcccttaatatgtggggattataattcgagatgagatttgagtggggatacagagccaaaccacatcattctgcccc-agcccctcccaaatctcatatccttttcacattttaaaaccaa--tcatgccttcccaacagtcccccaatatcttaactcattatagcattaactcaaatgtccaaatccagagtcttatctgaga-----caagtcccttctgcctatggacctctgaaaccagaaacaggttagttac-cccaagataaaatggaggcacaggctctgtccatgagcctctaaaatcagaaacaagttaattacttccaagataaaatgggggtacatttacatgataaatgttcccattccaaatggaagtaattggccaaaacaaaggggttgtaggccccatgcaactgtgaaaaccatctaggcagtcattaaatctgaaaactccaaaacctctttagactccatgtctcacatctagggcatgctgatgcaaggtgtgagtttccaaggccttggggagctctacccctgtggctttgcagggtagagatgctttg---gtttacaggggctgatgttgagtgcctacagcttttccaggtacatggtgcaagctgttgatggatctctcattctggagtt-gggggacaaggg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1340582 1039 -   1400280 gactg---------------------------------------ctttgttccagagAACAGATGtgaattagttcattttcacactgctgtaaagataccacctgggactgggaaa---------aagaaaaaggtttaattgactcacaggttttcacttgactgaggaggtctcaggaaacttacagtcatgaaagaaggtgaaggggttctaatcatggcagaagatgaaggggaagaaaggcacatcttacatggcatcagtagagaaagagac----agagagagagagcgagagagagagcatgcccaggggaaactgccagacacttatcagacaaccagatcttctgaaaactccctcactatcatgaaagcagcatgaaggaaattgcccctatgacccaattgcctcccaccagttccctcccataatatgtggggattagaattcgagatgagatttgagtggggatacggagccaaaccacatcattctgccca-agcccctcctaaatctcatgtcattttcacatttcaaaaccaa--tcatgccttcccaacagtcccccaatgtcttaactcattacagcattaactcaaatgtccaagtccagagtcttatctgaga-----caagtcccttctgcctagggacctctgaaatcagaaacaggttagttac-cccaaaagaaaatggaggcacaggccctgtccatgagactctaaaatcagaaacaagttaattacttccaagataaaatgggggtgcatttacatgataaaagttcccattccaaatggaagcaattggccaaaacaaaggggctgtaggccccatgcaagtgtgaaaaccatctaggcagtcattaaatctgaaaactccaaaacctcttttgactccatgtgtcacatctggggcatgctgatgcaagatgtgagcttccaaggccttggggagctctacacctgtggctctgctgggtagagatgctttggttgttttcaggggctgatgttgagtgcctgcagcttttccacgtacatggtgcaagctgttgatggatctcccgttctggggtt-ggggaacgaggg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13133430 1040 -  42888418 gactg---------------------------------------ctttgttccagagAACAGATATTAattagtccattttcacactgctgtaaagatactacctgggactgggaaa---------aagaaaaaggtttaattgactcacaggttttcacttgactggggaggtctcaggaaacttacaatcatgaaagaaggtgaaggggttctaatcatggcagaagatgaaggggaagaaaggcatatcttacgtggcatcagtagagaaagacag----agaaagagagagcgagagagagagcgtacacaggggaaactgccagacacttatcagacaaccagatcttctgaaaactccctcactatcatgaaagcagcatgaaggaaactgcccctatgacccaatcacctcccaccagttccctcccttaatatgtggggattagaatttgagatgagatttgagtggggctacagagccaaaccacatcattctgcctc-agcccctcccaaatctcatgtccttttcacatttcaaaaccaa--tcatgccttcccaacagtcccacaatgtcttaactcattacagcattaactcaaatgtccaagtccaaagtctcatctgaga-----caagtcccttctgcctatggacctctgaaatcagaaacaggttagttac-cccaagataaaatggaggcacaggctctgtccatgagcctctaaaatcagaaacaagttgattacttccaagataaaatgggggtacatttacatgataaacgttcccattccaaatgggagtaattggccaaaacaaaggggctgtaggccccatgcaagtgtgaaaaccatctaggcagtcattaaatctgaaaactccaaaacctcttttgactccatgtctcacatctgaggcatgctgatgcaaggtgtgagcttccaaggcgttggggagctctacccctgtggctctgcagggtagagatgctttggttgttttcagtggctgattttgagtgcctgcagcttttccaggtacatggtgcaaactgttgatggatctcccactttggggttggggggacgaggg
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60502243  590 + 108143057 I
e canFam3.chr11             14872099  168 +  74389097 I
e proCoq1.NW_012155062v1     3542265  253 +  11683526 I
e otoGar3.GL873679           3014408  491 +   4132165 I
e dasNov3.JH567306           2566256  223 +   3667625 I
e mm10.chr18                55482663   22 +  90702639 I

a score=10297929.000000
s hg38.chr5_KI270796v1_alt     33947 1167 +    172708 ccctcttc---------cactaggcagtgccccagtggggactctgtgtgggggctccaatcccacattttccttctgcactgccctagcagaggttctctatgaggactctgcccctgctgcagacttctgcctggacatcca-----atccatacctcctctgaaatctcggcagaagctcccaaagctcaactcttgtcttctgtgcacccgcaggccaaacaccatgtggaagctgccaaggtttggggcttgcactctctgaagcaatggcctgagctgtacgttggcacattttagccaggcaggagctggagcagctgggacatagagcaccacatcccaaggctgcacagagcagtgggatcctgggcccggatcatgaaaccattttcctctcttagacctccaggcctgtgatgggaggggctgccatgaaggtctttgacatgccctggagacatttttccccattgtcttggctattaacatttggctccttttaacttatgcaaatttctgcagctggcttaaatttttcc--cccc-aaaatgggcttttcttttctaccacatg----gttaggctgcaaattttcc-aaccttttacactctgcttcccctttaatcataagtttcaatttcaaaccatctctttgtgagtgtatataactgtatgctttcaggaaaaatcaggtcacctcttgaatgctttgctgcttagaaatttcttctgccaggtactctaaatcatctctctcaagttcaaagttccacacatctctagggcagggggcaaaatgccaccagtctctttgctaaagtatagcaagagtcacttttattccagttcccaacaagttccttatctccatctgagaccacctcagcctggacttcattgtccatatcactatcagcattttggtcaaaacctttcaacaagtatctagg-agttccaaactttcccacatctttctgtctgtttctgagcactccaaactgttccaacctctgcctgttacccagtt-ccaaagttgtttccacattttcaggttatttttataggagtatgccactatt-ctggtaccaattatctgtattagtccattttcacactgctataaagaactacctgagactggataatttatgaagaaaaggggtttaattgactcacagttcc
s panTro5.chr5             125144007 1167 + 181907262 ccctcttc---------cactaggcagtgccccagtggggactctgtgtgggagctccaatcccacattttccttctgcactgccctagcagaggttctctatgaggactctgcccctgttgcagacttctgcctggacatcca-----atccatacctcctctgaaatctcggcagaagctcccaaagctcaactcttgtcttctgtgcacccgcaggccaaacaccatgtggaagctgccaaggtttggggcttgcactctctgaagcaatggcctgagctgtatgttggcccattttagccaggcaggagctggagcaactgggacatagagcaccacatcccaaggctgcacagagcggtgggatcctgggcccggatcatgaaaccatttttctctcttagacctccaggcctgtgatgggaggggctgccatgaaggtctttgacatgccctggagacattcttccccattgtcttggctattaacatttggctccttttaacttatgcaaatttctgcagctggcttaaattttttc--cccc-aaaatgggcttttcttttctaccacatg----gttaggctgcaaattttcc-aaccttttacactctgcttcccctttaatcataagtttcaatttcaaaccatctctttgtgagtgtatataactgtatgctttcaggaaaaatcaggtcacctcttgaatgctttgctgcttagaaatttcttctgccaggtaccctaaatcatctctctcaagttcaaagttccacacatctctagggcagggggcaaaatgccaccagtctctttgctaaaatatagcaagggtcacttttattccagttcccaacaagttccttatctccatctgagaccacctcagcctggacttcattgtccatatcactgtcagcattttggtcaaaacctttcaacaagtatctagg-agttccaagctttcccacatctttctgtctttttctgagcactccaaactgttccaacctctgcctgttacccagtt-ccaaagttgcttccacattttcaggttatttttatagcagtatgccactatt-ctggtaccaattatctgtattagtccattttcacactgctataaagaactacctgagactggataatttatgaagaaaaggggtttaattgactcacagttcc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126480957 1167 + 183735486 ccctcttc---------cactaggcagtgccccagtggggactctgtgtgggggctccaatcccacattttccttctgcactgccctagcagaggttctctatgaggactctgcccctgttgcagacttctgcctggacatcca-----atccatacctcctctgaaatctcggcagaagctcccaaagctcaactcttgtcttctgtgcacccgcaggccaaacaccatgtggaagctgccaaggtttggggcttgcactctctgaagcaatggcctgagctgtatgttggcccattttagccaggcaggagctggagcaactgggacatagagcaccacatcccaaggctgcacagagcggtgggatcctgggcccagatcatgaaaccatttttctctcttagacctccaggcctgtgatgggaggggctgccatgaaggtctttgacatgccctggggacatttttccccattgtcttggctattaacatttggctccttttaacttatgcaaatttctgcagctggcttaaattttttc--cccc-aaaatgggcttttcttttctaccacatg----gttaggctgcaaattttcc-aaccttttacactctgcttcccctttaatcataagtttcaatttcaaaccatctctttgtgagtgtatataactgtatgctttcaggaaaaatcaggtcacctcttgaatgctttgctgcttagaaatttcttctgccaggtactctaaatcatctctctcaagttcaaagttccacacatctctagggcagggggcaaaatgccaccagtctctttgctaaaatatagcaagggtcacttttattccagttcccaacaagttccttatctccatctgagaccacctcagcctggacttcattgtccatatcactgtcagcattttggtcaaaacctttcaacaagtatctagg-agttccaagctttcccacatctttctgtctttttctgagcactccaaactgttccaacctctgcctgttacccagtt-ccaaagttgcttccacattttcaggttatttttatagcagtatgccactatt-ctggtaccaattatctgtattagtccattttcacactgctataaagaactacctgagactggataatttatgaagaaaaggggtttaattgactcacagttcc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1672440 1169 +   8933513 ccctcttc---------cactaggcagtgccccagtggggactctgtgtgggggctccaatcccacattttccttctgcactgccctagcagaggttctctatgaggactctgcccctgctgcagacttctgcctggacatcca-----atccatacctcctctgaaatctcggcagaagctcccaaagcccaactcttgtcttctgtgcacccgcaggccaaacaccatgtggaagctgccaaggtttggggcttgcactctctgaagcaatggcctgagctgtacattggcccattttagccaggcaggagctggagcagctgggacatagagcaccacatcccaaggctgcacagagcagtgggatcctgggcctggatcatgaaaccatttttctctcttagacctccaggcctgtgatgggaggggctgccatgaaggtctttgacgtgccctggagacatttttccccattgtcttggctgttaacatttggctccttttaacttatgcaaatttctgcagctggcttaaattccccccacccc-aaaatgggcttttcttttctaccacatg----gttaggctgcaaattttcc-aaacttttacactctgcttcccctttaatcataagtttccattttaaaccatctctttgtgagtgtatataactgtatgctttcaggaaaaatcaggtcacctcttgaatgctttgctgcttagaaatttcttctgccaggtactctaaatcatctctctcaagttcaaagttccacacatctctagggcagggggcaaaatgccaccagtctctttgctaaagtatagcaagagtcacttttattccagttcccaacaagttccttatctccatctgagaccacctcagcctggacttcattgtctatatcactatcagtattttggtcaaaacctttcaacaagtatctagg-agttccaaactttcccacatctttctgtctttttctgagcactccaaactgttccatcctctgcctgttacccagtt-ccaaagttgcttccacattttcaggttatttttatagcagtatgccactatt-ctggtaccaattatctgtattagtccattttcacactgctataaagaactacctgagactggataattcatgaagaaaaggggtttaattgactcacagttcc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139802421 1170 + 163208435 ccctcttctcacagctgcactaggcagtgccccagtggggactctgtgtgggggctccaatcccacattttccttctgcactgccctagcagaggttctccatgaggactctgcccctgctgcagacttctgcctggacatcaa-----atccatacctcctctgaaatgtaggcagaagctcccaaagctcaactcttgtcttctgtgcacccacgggccaaacaccatgtggaagctgccaaggtctggggcttgcactctctgaagcaatggcctcagctgtatgatggcccattttagccaggctggagctggagcagctgagacatagagcaccacatcccaaggctgcacagagcagtgggatcctgggcccagatcatgaaaccatttttctctcttagacctccaggcctgtgatgggaggggctgccatgaaggtctttgacatgtcctggagacatttttccccattgtcttggctattaacattcggcttcttttaacttatgcaaatttctgcagctggcttaaatttttcc--cctc-aaaatggg-----cttttctaccacatg----gttaggctgcaaattttcc-aaccttttatactctgcttcccctttaatcataagtttcaatttcaaaccatctgtttgtgagtgtatatacctgtatgctttcaggaaaaatcaggtcacctcttgaatgctttgctgcttagaaatttcttctgccaggtactctaaatcatctgtctcaagttcaaagttccacacatctctagggca-ggggcaaaatgccaccagtctctttgctaaagtatagtaagagtcacttttattccagttcccaacaagttccttatctccatctgagaccacctcagcctggacttcattgtccatatcactatcagcatttttgtcaaaacctttcaacaaatatctagg-agttgcaaaatttcccatatctttctgtctttttctgagcactccaaactgttccaacctctgcctgttacccagtt-ccaaagttgcttccacattttcaggttatttttatagcagtataccactatt-ctggtaccaattATCtgtattagtccattttcacactgctataaacaactatgtgagactggataatttatgaagaaaagaggtttaattgactcccagttcc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122788316 1178 + 180051392 ccctcttctcacagctcccctaggcagtgccccagtggggactctgtgtggggggcccaatcccacattttccttctgcagtgccctagcagaagttctccataagtactctgcccttgctgcagacttctgcctggacatcca-----atccatttatcctctgaaatctaggcagaagctcccaaagctcaactcttgtcttctgtgtacccacaggccaaacaccacatggaagctgccaaggtttggggcttgcaccttttgaagcaacggcctgagctgtgtgttggccccttttagtcaggctggagctggagcagctgggacatagagcaccgcatcccaaggctgcacagagcagtgggatcctgggcccagatcattaaaccatttttctctcttaggcctccaggcctgtgatgggaggggctgccatgaaggtctttgacataccctggaaacatttttccccattgtcttggctactaacattcggctctttttaacttatgcaaatttctgcagctgtcttaaattttttc--cccagaaaatgggtttttcttttctaccacatg----gttaggctgcaaattttccaaaacttttacactctgcttcccctttaatcataagtttcaatttccaaccatctctttatgagtgtatataactgtatgctttcaggagaaaccaggtcacctcttgaatgctttgctgcttagaaatttcttctgccaggtactctaaatcatctctctcaagttcaaagttccacacatctctagggca-ggggcaaaatgccaccagtctctttgctaaagtatagcaagagtcacttttattccagttcccaggaagttcctcatctccatctgagaccacctcagcctagacttcattatccatatcactatcagcattttggtaaaaacctttcaacgagtatctaggaagttccaaactttcccacatctttctgtctttttctgagcactccaaactgttccaacctctgcctgttacccagtt-caaaagttgcttccacattttcaggttatttttatagcagtatgccactatt-ctggtaccaattctctatattagtccattttcacactgctataaagaactacctgagattgggtaatttatgaagaaaagaggtttaactgattcacagttcc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124211989 1178 + 181584905 ccctcttctcacagctcccctaggcagtgccccagtggggactctgtgtggggggcccaatcccacattttccttctgcagtgccctagcagaagttctccataagtactctgcccttgctgcagacttctgcctggacatcca-----atccatttatcctctgaaatctaggcagaagctcccaaagctcaactcttgtcttctgtgtacccacaggccaaacaccacatggaagctgccaaggtttggggcttgcaccttttgaagcaacggcctgagctgtgtgttggccccttttagtcaggctggagctggagcagctgggacatagagcaccacatcccaaggctgcacagagcagtgggatcctgggcccagatcattaaaccatttttctctcttaggcctccaggcctgtgatgggaggggctgccatgaaggtctttgacataccctggaaacatttttccccattgtcttggctactaacattcggctctttttaacttatgcaaatttctgcagctgtcttaaattttttc--cccagaaaatgggtttttcttttctaccacatg----gttaggctgcaaattttccaaaacttttacactctgcttcccctttaatcataagtttcaatttccaaccatctctttatgagtgtatataactgtatgctttcaggagaaaccaggtcacctcttgaatgctttgctgcttagaaatttcttctgccaggtactctaaatcatctctctcaagttcaaagttccacacatctctagggca-ggggcaaaatgccaccagtctctttgctaaagtatagcaagagtcacttttattccagttcccaggaagttcctcatctccatctgagaccacctcagcctagacttcattatccagatcactatcagcattttggtaaaaacctttcaacgagtatctaggaagttccaaactttcccacatctttctgtctttttctgagcactccaaactgttccaacctctgcctgttacccagtt-caaaagttgcttccacattttcaggttatttttatagcagtatgccactatt-ctggtaccaattctctatattagtccattttcacactgctataaagaactacctgagattgggtaatttatgaagaaaagaggtttaactgattcacagttcc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16209724 1177 +  18395747 ccctcttctcacagctcccctaggcagtgccccagtggggactctgtgtggggggcccaatcccacattttccttctgcagtgccctagcagaagttctccataagtactctgcccttgctgcagacttctgcctggacatcca-----atccgtttatcctctgaaatctaggcagaagctcccaaagctcaactcttgtcttctgtgtacccacaggccaaacaccacatggaagctgccaaggtttggggcttgcaccttttgaagcaacggcctgagctgtgtgttggccccttttagtcaggctggagctggagcagctgggacatagagcaccacatcccaaggctgcacagagcagtgggatcctgggcccagatcattaaaccatttttctctcttaggcctccaggcctgtgatgggaggggctgccatgaaggtctttgacataccctggaaacatttttccccattgtcttggctactaacattcggctctttttaacttatgcaaatttctgcagctgtcttaaattttttc--cccagaaaatgggtttttcttttctaccacatg----gttaggctgcaaattttcc-aaacttttacactctgcttcccctttaatcataagtttcaatttccaaccatctctttatgagtgtatataactgtatgctttcaggagaaaccaggtcacctcttgaatgctttgctgcttagaaatttcttctgccaggtactctaaatcatctctctcaagttcaaagttccacacatccctagggca-ggggcaaaatgccaccagtctctttgctaaagtatagcaagagtcacttttattccagttcccaggaagttcctcatctccatctgagaccacctcagcctagacttcattatccatatcactatcagcattttggtaaaaacctttcaacgagtatctaggaagttccaaactttcccacatctttctgtctttttctgagcactccaaactgttccaacctctgcctgttacccagtt-caaaagttgcttccacattttcaggttatttttatagcagtatgccactatt-ctggtaccaattctctatattagtccattttcacgctgctataaagaactacctgagattgggtaatttatgaagaaaagaggtttaactgattcacagttcc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5215551 1177 +  26952557 ccctcttctcacagctcccctaggcagtgccccagtggggactctgtgtggggggcccaatcccacattttccttctgcagtgccctagcagaagttctccataagtactctgcccttgctgcagacttctgcctggacatcca-----atccatttatcctctgaaatctaggcagaagctcccaaagctcaactcttgtcttctgtgtacccacaggccaaacaccacatggaagctgccgaggtttggggcttgcaccttttgaagcaacggcctgagctgtgtgttggccccttttagtcaggctggagctggagcagctgggacatagagcaccacatcccaaggctgcacagagcagtaggatcctgggcccagatcattaaaccatttttctctcttaggcctccaggcctgtgatgggaggggctgccatgaaggtctttgacataccctggaaacatttttccccattgtcttggctactaacattcggctctttttaacttatgcaaatttctgcagctgtcttaaattttttc--cccagaaaatgggtttttcttttctaccacatg----gttaggctgcaaattttcc-aaacttttacactctgcttcccctttaatcataagtttcaatttccaaccatctctttgtgagtgtatataactgtatgctttcaggagaaaccaggtcacctcttgaatgctttgctgcttagaaatttcttctgccaggtactctaaatcgtctctctcaagttcaaagttccgcacatctctagggca-ggggcaaaatgccaccagtctctttgctaaagtatagcaagagtcacttttattccagttcccagcaagttcctcatctccatctgagaccacctcagcctagacttcattatccatatcactatcagcattttggtaaaaacctttcaacgagtatctaggaagttccaaactttcccacatctttctgtctttttctgagcactccaaactgttccaacctctgcctgttacccagtt-caaaagttgcttccacattttcaggttatttttatagcagtatgccactatt-ctggtaccaattctctatattagtccattttcacactgctataaagaactacctgagattgggtaatttatgaagaaaagaggtttaactgattcacagttcc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28323374 1177 +  82825804 ccctattctcacagttcccctaggtagtgccccagtggggactctgtgtggaggctccaacctcacatttcccttctgtaccactgtagcagaggttctccatgagtactctgcccttgctacagacttctgcctggacatcca-----atccatttatcctctgaaatctaggcagaaactcccaaagctcaactcttgtcttctgtgcacccacaggccaaacaccacatggaagctgccaaggtttggggcttgcaccttttgaagcaatggcctgagctatgtgttggccccttttagccaggctgaagctggagcagctgggacacagagcaccacatcccaaggctgcactgagcagtgggatcctgggcccagatcattaaatcatttttctctcttaggcctccaggcctgtgatgggaggggctgccacgaaggtctttgacatgccctggagacatttttccccattgtcttggctactaacattcagctctttttaacttacgcaaatttctgcagctggcttaaattttttc--cccagaaaatggatttttcttttctaccacatg----gttaggctgcaaattttcc-aaacttttacactctgcttcccctttaatcataagtttcaatttccaaccatctctttgtgagtgtatataactgtatgctttcaggagaaaccaggtcacctcttgaatgctttgctgcttagaaatttcttctgccaggtactctaaatcatctctctcaagttcaaagttccacacatctctagggca-ggggcaaaatgccaccagtctctttgctaaagtatagcaagagtcacttttattccagtttccagcaagttcctcatctccatctgagaccacctcagcctagacttcattatccatatcactatcagcattttggtaaaaacctttcaacgagtatctaggaagttccaaactttcccacatctttctgtctttttctgagcactccaaactgttccaacctctgcctgttacccagtt-caaaagttgcttccacattttcaggttatttttattgcagcatgccactatt-ctggtaccaattctctgtattagtccattttcacactgctataaagaactacccgagattgggtaatttatgaagaaaagaggtttaattgattcacagttcc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3987523 1177 -   4237731 ccctcttctcacagctcccctaggcagtgccccagtggggactctgtgtggggggcccaatcccacattttccttctgcagtgccctagcagaagttctccataagtactctgcccttgctgcagacttctgcctggacatcca-----atccatttatcctctgaaatctaggcagaagctcccaaagctcaactcttgtcttctgtgtacccacaggtcaaacaccacatggaagctgccgaggtttggggcttgcaccttttgaagcaacggcctgagctgtgtgttggccccttttagtcaggctggagctggagcagctgggacatagagcaccacatcccaaggctgcacagtgcagtgggatcctgggcccagatcattaaaccatttttctctcttaggcctccaggcctgtgatgggaggggctgccatgaaggtctttgacataccctggaaacatttttccccattgtcttggctactaacattcggctctttttaacttatgcaaatttctgcaactgtcttaaactttttc--cccagaaaatgggtttttcttttctaccacatg----gttaggctgcaaattttcc-aaacttttacactctgcttcccctttaatcataagtttcaatttccaaccatctctttgtgagtgtatataactgtatgctttcaggagaaaccaggtcacctcttgaatgctttgctgcttagaaatttcttctgccaggtactctaaatcgtctctctcaagttcaaagttccgcacatctctagggca-ggggcaaaatgccaccagtctctttgctaaagtatagcaagagtcacttttattccagttcccagcaagttcctcatctccatctgagaccacctcagcctagacttcattatccatatcactatcagcattttggtaaaaacctttcaacgagtatctaggaagttccaaactttcccacatctttctgtctttttctgagcactccaaactgttccaacctctgcctgttacccagtt-caaaagttgcttccacattttcaggttatttttatagcagtatgccactatt-ctggtaccaattctctatattagtccattttcacactgctataaagaactacctgagattgggtaatttatgaagaaaagaggtttaactgattcacagttcc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      257819 1181 -   1175262 ccctcttctcacagctccactaggcagtgccccagtggggactctgtgtggggggtccaatcccacattttccttctgcggtgccctagcagaagttctccataagtactctgcccttgctgcagacttctgcctggacatcca-----atccatttatcctctgaaatctaagcagaagctcccaaagctcaactcttgtcttctgtgcacccacaggccaaacaccacatggaaggtgccaaggtctgggacttgcaccttttgaagcaatggcctgagctgtgcgttggccccttttagccaggctggagctggagcagctgggacatagagcaccacatcccaaggctgcacagagcagtgcgatcctgggcccagatcattaaatcatttttctctcttaggcctccaggcctgtgatgggaggggctgccatgaaggtctctgacatgccctggagacatttttccccattgtcttggctactaacatttggctctttttaacttatgcaaatttctgcagctggcttaaattttttc--ctcagaaaatgggtttttcttttctaccacatggttagttaggctgcaaattttcc-aaacttttacactctgtttcccctttaatcataagtttcaattttcaaccgtctctttgtgagtgtatataactgtatgctttcaggagaaaccaggtcacctcttgaatgctttgctgcttagaaatttcttctgccaggtactctaaatcatctctctcaagttcaaagttccacacatctctagggca-ggagcaaaatgcaaccagtctctttgctaaagtatagcaagggtcacttttattcctgttcccagcaagttcctcatctccatctgagaccacatcagcctagacttcattatccatatcactatcagcattttggtaaaaacctttcaacaagtatctaggaagttccaaactttcccacatctttctgtttttttctgagcactccaaactgttccaacctctgcctgttacccagtt-caaaagttgcttccacattttcaggttatttttatagcagtatgccactatt-ctggtaccaattctctgtattagtccattttcacactgctataaagaactacctgggattgggtaatttatgaagaaaagaggcttaattgattcacagttcc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123595902 1181 - 204313951 ccctcttctcactgctccactaggcagtcccccagtggggactctgtgtggggactccaatcccacattttctttctgcactgccctagcaggggttctctatgaggactctacccctgctgaagacttctgcttggacatccaggggtgtccatacatcctctgaaatctaggcagaaactcccaaagcttaactcttgttttctgtgcacttgcaggccaaacaccatgtggaa-ctgtcaaggtttttggcgtgcactctctgaaacaatggtctgagctgtatgttggccccttttagccaggctggagctggagcagttgggaca-agggcatcacatcccaaggctgcacagagctgtgaaaccctgggcccagatcataaaaccatttttctctcttaagcctccaggcctgtgatgggaggggctgccatgaaggtatttcatatgccctggagacatttttccccattgttctggctattaacatttggctcctttttacttatacaaatttctgcagctggcttaaatttctct--ccag-aaaatgggtttttctgttctgctacatg----gttaggctgcaaattttcc-aaacttttacactctgcttcccttctaagcataagtttcaatttcaaaccatatctttgtgagtggatataattgtatgcttttgggaaaaaccagcacacctcttgaatgctttgctgcttagaaatttcttctgccagatactctaaattgtttctttcaggttcaaagttccacagatcgctagggta-ggggcaaaatgccaccagtctcgttgctaaagtatagcaagaataacttttattccagttcccaccaaattcctcatctccatctgagatcacctcagcctggacttcattgttcatatcactatcagcattttggtcaaaacctttcaacaagtaactaggaagttccaaactttcccatgtctttctgtcttcttcatagccctccaaactgttctaaccttttcctgttacccagtttcaaaagttgcttccacattttcaggttatttttatagcagtaccccactattactggtaccaattCTCtgtattagtccattatcacactgctataaagagctacctgagactgggtaatttataaagaaaataggtttaattgactcacagttcc
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1341621 1179 -   1400280 ccctcttctcactgctccattaggcagtgccccagtggggactctgtgtggggactccaatcccacattttctttctgcacagccctagcagaggttctccatgaggattctgcccctgctgcagacttctgcctggacatccaggggtatccatacatcctctgaaatctaggcagaagctcccaaagctcatctcttgtcttctgtgcacttgcaggctaaacaccatgtggaa-ctgccaaggattggggcttgcactctctgaaacaacggtctgagctgtatgttggccccttttagccagtctggagctggagcagttgggaca-agggcatcacatcccaaggctgcacagagctgtgagacgctgggcccagatcataaaaccatttttctcttttaagcctccaggcctgtgatggaaggggctgccttgaaggtatttgatattccctggagacatttttccctgttgttctgcctattaacatttggctcctttttacttatacaaattcctgcagctggcttaaatttttca--ccag-aaaatgagtttttcttttctaccacatg----gttaggctgcaaattttcc-aaacttttacactctgcttcccctttaagcataagtttcaatttcaaaccatatctttgtgagtgcatataactgtatgctttcaggaaaaaccagggcacctcttgaatgctttgctgcttagaaatttcttctgccagatactctaaaccatgtctttcaagttcaaagttccacagatcgctagggta-ggggcaaaataccaccagtctctttgctaaattacagcaagagtcacttttattccagttcccaccaaattcctcatctccatctgagaccacctcagcctttacttcattgtccatatcactgtcagca-ttcggtcaaaacctttcaacaagtaactaggaagttccaaactttcccatgtctttctgtcttcttcatagccctccaaactattctaacctttgcttgttacccagttccaaaagttgcttccacattttcaggtgatttttatagcagtaccccactatt-ctggtaccaattCTCtgtattagtccattatcacactgctataaagaactacctgagactgggtaatttatgaagaaaagaggtttaattgactcacaattcc
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13134470 1180 -  42888418 cccttttctcactgctccactaggcagtgccccagtggggactctgtatggggactccaatcccacattttctttctgcattgcccttgcaggggttctctacgaggactctgcccctgctgcagacttctgcctggacatccaggggtatccatacatcctctgaaatctaggcagaagctcccaaagctcaactcttgtcttctgtgcacttgtaggccaaacaccatgtggaa-ctgccaaggtttgggacttgcactctctgaaacaatgatctgagctgtatgttggccccttttagccagtctagagctggagcagttgggaca-agggcatcacatcccaaggctgcacagagctgtgagaccctgggcccagatcataaaaccatttttttctcttaacactccaggtctgtgatggaaggggctgccatgaaggtatttgatatgccctggagacatttttccccattgttctggctactaacatttggctcctttttacttatacaaatttctgcagctggcttaaatttctcc--acag-aaaatgggtttttcttttctactacacg----gttaggctgcaaattttcc-aaacttttacactctgcttcccctttaagcttaagtttctgtttcaaaccatatctttttgagtgcatataactgtatgctttcaggaaaaaccaaggcacctcttgaatgctttgctgcttagaaatttcttctgccagatactctcaatcatctctctcaagttcaaagttccacagatcgctagggta-ggggcaaaatgccaccagtctctttgctaaagtatagcaagagtcacttttattccagttcccaccaaaatcctcatctccatctgagaccacctcagcctggacttcattgtccatatcactatcagcattttggtcaaaacctttcaacaagtaattaggaagttccaaactttcccatgtctttttgtcttcttcatagccctccaaactgttctaacctttgcctgttacccagttccaaaagttgcttccacattttcaggttatttttatagcagtaccccactatt-ctggtaccaattCTCtgtattagtccattatcacactgctataaagaactacctgagactgggtaatttatgaagaaaagaggtttaattgactcacagttcc
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60502243  590 + 108143057 I
e canFam3.chr11             14872099  168 +  74389097 I
e proCoq1.NW_012155062v1     3542265  253 +  11683526 I
e otoGar3.GL873679           3014408  491 +   4132165 I
e dasNov3.JH567306           2566256  223 +   3667625 I
e mm10.chr18                55482663   22 +  90702639 I
e saiBol1.JH378106          55648022    0 -  71252344 C

a score=853472.000000
s hg38.chr5_KI270796v1_alt     35114 122 +    172708 acatggctggggaggcctcaggaaactt-acaatcacggcagaaggcaaaggggaagcaaggcacatcttacatggcagcaggagagaaagaga--------------------------------------------------gagcacaggggaaactgccacacacttat
s panTro5.chr5             125145174 122 + 181907262 acatggctggggaggcctcaggaaactt-acaattacggcagaaggcaaaggggaagcaaggcacatcttacatggcagcaggagagaaagaga--------------------------------------------------gagcacaggggaaactgccacacacttat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126482124 122 + 183735486 acatggctggggaggcctcaggaaactt-acaattacggcagaaggcaaaggggaagcaaggcacatcttacatggcagcaggagagaaagaga--------------------------------------------------gagcacaggggaaactgccacacacttat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1673609 118 +   8933513 acatggctgggaaggcctcaggaaactt-acaatcacggcagaaggcaaaggggaagcaaggcacatcttacatggcagcaggag----agaga--------------------------------------------------gagcacaggggaagctgccacacacttat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139803591 122 + 163208435 gcatagctggggaggcctcaggaaactt-actatcatggcagaaggcaaagcggaagcaaggcacatcttacatggcagcaggagagaaagaga--------------------------------------------------gagcacaggggaaactgccacacacttac
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122789494 118 + 180051392 acatggctggggaggtctcaggaaactt-acaatcatggcagaaggcaaaggggaagcaaggcacatcttacatggcagcaggtg----agaaa--------------------------------------------------gagcacagggagaattgctagacacttat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124213167 118 + 181584905 acatggctggggaggtctcaggaaactt-acaatcatggcagaaggcaaaggggaagcaaggcacatcttacatggcagcaggtg----agaaa--------------------------------------------------gagcacagggagaattgctagacacttat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16210901 118 +  18395747 acatggctggggaggtctcaggaaactt-acaatcatggcagaaggcaaaggggaagcaaggcacatcttacatggcagcaggtg----agaaa--------------------------------------------------gagcacagggagaattgctagacacttat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5216728 118 +  26952557 acatggctggggaggtctcaggaaactt-acaatcatggcagaaggcaaaggggaagcaaggcacatcttacatggcagcaggtg----agaaa--------------------------------------------------gagcacagggagaattgctagacacttat
i cerAty1.NW_012002512v1   C 0 C 0
s manLeu1.NW_012103321v1     3988700 118 -   4237731 acatggctggggaggtctcaggaaactt-acaatcatggcagaaggcaaaggggaagcaaggcacatcttacatggcagcaggtg----agaaa--------------------------------------------------gagcacagggagaattgctagacacttat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259000 119 -   1175262 acatggctggggaggtctcaggaaacttaacagtcatggcagaaggcaaaggggaagcaaggcacatcttacatggcagcaggtg----ggaaa--------------------------------------------------gagcacagggggaattgctggacacttat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123597083 172 - 204313951 acatggctggggagacctcaggaaactt-acaatcatggcagaaagcaatggggaagcaaggcacatcttacatggcagcaggagagagagagagagagagagagagagagagagagagagagagagagagagagagagagagcgagcacacaggaaactgccagacacttgc
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1342800 126 -   1400280 acatggctgggaagccctcaggaaactt-acaatcatgacagaaggcaaaggggaagcaaggcacatcttacatggcagcaggagagacagagagaga----------------------------------------------gagcacaggggaaactgccagacacttgc
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13135650 128 -  42888418 acatggctggggaggcctcaggaaactt-acaatcatggcagaagacaaaggggaagcaaggcacatcttacgtggcagcaggagagagagagagagaga--------------------------------------------gagcacaggggaaacagccagacacttac
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60502243 590 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3542265 253 +  11683526 I
e chlSab2.chr23             28324551   0 +  82825804 C
e otoGar3.GL873679           3014408 491 +   4132165 I
e dasNov3.JH567306           2566256 223 +   3667625 I
e mm10.chr18                55482663  22 +  90702639 I
e saiBol1.JH378106          55648022   0 -  71252344 C

a score=606735.000000
s hg38.chr5_KI270796v1_alt     35236 71 +    172708 caaacaaccagatcttatgagaactccctcactgtcacgagagcagcatgggggaaacaacctccatgatc
s panTro5.chr5             125145296 71 + 181907262 caaacaaccagatcttatgagaactccctcactgtcacgagagcagcatgggggaaacaacctccatgatc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126482246 71 + 183735486 caaacaaccagatcttatgagaactccctcactgtcacgagagcagcatgggggaaacaacctccatgatc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1673727 71 +   8933513 caaacaaccagatcttatgagaactccctcactgtcacgagagcagcatgggggaaacaacctccatgatc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139803713 71 + 163208435 caaacgaccagatcatatgagaactccttcactgtcacaagagcagcatgggggaaacaacttccatgatc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122789612 71 + 180051392 caaacaaccagatcttatgagaattccctcactatcacaagagcagcatggggggaaccacctccatgatc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124213285 71 + 181584905 caaacaaccagatcttatgagaattccctcactatcacgagagcagcatgggggaaaccacctccatgatc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211019 71 +  18395747 caaacaaccagatcttatgagaattccctcactatcacgagagcagcatgggggaaaccacctccatgatc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5216846 71 +  26952557 caaacaaccagatcttatgagaattccctcactatcacgagagcagcatgggggaaaccacctccatgatc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28324551 71 +  82825804 Caaacaaccagatcttatgagaattccctcactatcacgagagcagcatgggggaaatcacctccatgatc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3988818 71 -   4237731 caaacaaccagatcttatgagaattccctcactatcacgagagcagcatgggggaaaccacctccatgatc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259119 71 -   1175262 caaacaaccagatcttatgagaattccctcactatcatgaaagcagcgtgggggaaaccacctccatgatc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123597255 71 - 204313951 aaaacaaccagatcttgtgagaacttcctcactatcatgagagcagcatgggggaaaccacctccatgatc
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1342926 71 -   1400280 caaacaaccagatctcctgagaaccccctcactatcatgagagcagcatgggggaaaccacctccatgatc
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13135778 50 -  42888418 caaacaaccagatctcgtgagaactccctcact---------------------aaaccacctccatgatc
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60502243 590 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3542265 253 +  11683526 I
e otoGar3.GL873679           3014408 491 +   4132165 I
e dasNov3.JH567306           2566256 223 +   3667625 I
e mm10.chr18                55482663 22 +  90702639 I
e saiBol1.JH378106          55648022  0 -  71252344 C

a score=520128.000000
s hg38.chr5_KI270796v1_alt     35307 52 +    172708 caatcacctcccaccaggtccctccctcaatatgtggggattacaatttgag
s panTro5.chr5             125145367 52 + 181907262 caatcacctcccaccaagtccctccctcaatatgtggggattacaatttgag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126482317 52 + 183735486 caatcacctcccaccaagtccctccctcaatatgtggggattacaatttgag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1673798 52 +   8933513 caatcacctcccaccaagtccctccctcaatatgtggggattacaatttgag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139803784 52 + 163208435 caatcacctcccaccaggtccctccctcaatatgtggggattacaatttgag
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122789683 52 + 180051392 caatcacctcctaccaggtccctccctcaatatgtggggattacaatttgag
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124213356 52 + 181584905 caatcacctcctaccaggtccctctctcaatatgtggggattacaatttgag
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211090 52 +  18395747 caatcacctcctaccaggtccctccctcaatatgtggggattacaatttgag
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5216917 52 +  26952557 caatcacctcctaccaggtccctccctcaatatgtggggattacaatttgag
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28324622 52 +  82825804 caatcacctcctaccaggtccctccctcaatatgtggggattacaatttgag
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3988889 52 -   4237731 caatcacctcctaccaggtccctccctcaatatgtggggattacaatttgag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259190 52 -   1175262 caatcacctcccaccaggtccctcccacaatatgtggggattacaatttgag
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123597326 52 - 204313951 caatcacctactaccctgtccctccctcacaatgtggggattacatttcgag
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648022 52 -  71252344 cactcacctcccaccaggtccctccctcaaaaggtgaggattacattttgag
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1342997 52 -   1400280 caatcacctcccaccaggtccctccctcaaaatgtggggattacattttgag
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13135828 52 -  42888418 caatcacctcccaccacgtctctccctcacagtgtgaggattatatttcgag
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60502243 590 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3542265 253 +  11683526 I
e otoGar3.GL873679           3014408 491 +   4132165 I
e dasNov3.JH567306           2566256 223 +   3667625 I
e mm10.chr18                55482663 22 +  90702639 I

a score=394148.000000
s hg38.chr5_KI270796v1_alt     35359 40 +    172708 atgagatttaggtggggacacagaggaaaaccatatcaAG------
s panTro5.chr5             125145419 40 + 181907262 atgagatttagatggggacacagaggaaaaccatatcaAG------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126482369 40 + 183735486 atgagatttagatggggacacagaggaaaaccatatcaAG------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1673850 40 +   8933513 atgagatttaggtggggacacagaggaaaaccatatcaAG------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139803836 40 + 163208435 atgagatttaggtggggacacagaggcaaaccatatcaAG------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122789735 40 + 180051392 atgagatttgggtggggacacagagccaaaccatatcaAG------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124213408 40 + 181584905 atgagatttgggtggggacacagagccaaaccatatcaAG------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211142 40 +  18395747 atgagatttgggtggggacacagagccaaaccatatcaAG------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5216969 40 +  26952557 atgagatttgggtggggacacagagccaaaccatatcaAG------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28324674 40 +  82825804 atgagatttgggtggggacacagagtcaaaccgtatcaAG------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3988941 40 -   4237731 atgagatttgggtggggacacagagccaaaccatatcaAG------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259242 40 -   1175262 acgagatttgggtggggacacagagccaaaccatatcaAG------
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123597378 40 - 204313951 gtgagatttgggtggggacacagagccaacccatatcaAG------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648074 40 -  71252344 gtgagatttgggtggggacacagagtcaacccatatcaAG------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1343049 40 -   1400280 gtgagatttgggtggggacacagagccaacccatatcaAG------
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13135880 40 -  42888418 gtgagatttgggtggggacacagagccaacctgtatcaAG------
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2566479 44 +   3667625 atggagtctagattgaaacccagg--caatatggctccagaaccAA
i dasNov3.JH567306         I 223 C 0
e micMur3.chr12             60502243 590 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3542265 253 +  11683526 I
e otoGar3.GL873679           3014408 491 +   4132165 I
e mm10.chr18                55482663 22 +  90702639 I

a score=95659.000000
s hg38.chr5_KI270796v1_alt     35399 7 +    172708 GTGCCTA
s panTro5.chr5             125145459 7 + 181907262 GTGCCTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126482409 7 + 183735486 GTGCCTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1673890 7 +   8933513 GTGCCTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139803876 7 + 163208435 GTGCGTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122789775 7 + 180051392 GTGCCTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124213448 7 + 181584905 GTGCCTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211182 7 +  18395747 GTGCCTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217009 7 +  26952557 GTGCCTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28324714 7 +  82825804 GTGCCTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3988981 7 -   4237731 GTGCCTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259282 7 -   1175262 GGGCCTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123597418 7 - 204313951 GTGCCTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648114 7 -  71252344 GTGCCTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1343089 7 -   1400280 GTGCCTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13135920 7 -  42888418 GTGCCTA
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55482685 7 +  90702639 GTGCCTA
i mm10.chr18               I 22 C 0
s dasNov3.JH567306           2566523 7 +   3667625 GTGCCTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60502243 590 + 108143057 I
e canFam3.chr11             14872099 168 +  74389097 I
e proCoq1.NW_012155062v1     3542265 253 +  11683526 I
e otoGar3.GL873679           3014408 491 +   4132165 I

a score=137589.000000
s hg38.chr5_KI270796v1_alt     35406 14 +    172708 -GCATCAGAC--CAATA
s panTro5.chr5             125145466 14 + 181907262 -GCATCAGAG--CAATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126482416 14 + 183735486 -GCATCAGAG--CAATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1673897 14 +   8933513 -GCATCAGAC--CAATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139803883 14 + 163208435 -GTATCAGAC--CAATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122789782 14 + 180051392 -ATATCAGAC--CAATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124213455 14 + 181584905 -ATATCAGAC--CAATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211189 14 +  18395747 -ATATCAGAC--CAATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217016 14 +  26952557 -ATATCAGAC--CAATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28324721 14 +  82825804 -ATATCAGAC--CAATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3988988 14 -   4237731 -ATATCAGAC--CAATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259289 14 -   1175262 -ATATCAGAC--CAATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123597425 14 - 204313951 -GTATCAGAC--CAATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648121 14 -  71252344 -GTATCAGAC--CCATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1343096 14 -   1400280 -GTATCAGAC--CAATA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13135927 14 -  42888418 -GTATCAGAC--CAATA
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55482692 11 +  90702639 -ATGTCAGCT--CT---
i mm10.chr18               C 0 C 0
s canFam3.chr11             14872267 16 +  74389097 -GTGCCAGACTTCAAAA
i canFam3.chr11            I 168 C 0
s dasNov3.JH567306           2566530 12 +   3667625 AATATCAGAC--CT---
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60502243 590 + 108143057 I
e proCoq1.NW_012155062v1     3542265 253 +  11683526 I
e otoGar3.GL873679           3014408 491 +   4132165 I

a score=248718.000000
s hg38.chr5_KI270796v1_alt     35420 21 +    172708 ATACCACAATGCAT----ATCTGTT
s panTro5.chr5             125145480 21 + 181907262 ATACCACAATGCAT----ATCTGTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126482430 21 + 183735486 ATACCACAATGCAT----ATCTATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1673911 21 +   8933513 ATACCACAATGCAT----ATCTGTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139803897 21 + 163208435 ATACCACAGTGCAT----ATCTGTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122789796 21 + 180051392 ATACTACAGTGTAT----ATCTGTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124213469 21 + 181584905 ATACTACAGTGTAT----ATCTGTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211203 21 +  18395747 ATACTACAGTGTAT----ATCTGTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217030 21 +  26952557 ATACTACAATGTAT----ATCTGTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28324735 21 +  82825804 ATACTACAATGTAT----ATCTGTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989002 21 -   4237731 ATACTACAATGTAT----ATCTGTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259303 21 -   1175262 ATACTGCAATGTAT----ATCTGTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123597439 21 - 204313951 ATACCACAATGCAT----GTCTGTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648135 21 -  71252344 ATACCACAATGCAT----ATCTGTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1343110 21 -   1400280 ATACCACAATGCGT----ATCTGTG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13135941 21 -  42888418 ATACCACAATGCAT----ATCTGTG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3542518 21 +  11683526 ataccgcAATGCAT----GCCTGTG
i proCoq1.NW_012155062v1   I 253 C 0
s mm10.chr18                55482703 20 +  90702639 -TACCTCAAAGATG----GCCCAAG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14872283 25 +  74389097 GTATCACAGTGAATGAACATCTGTG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2566542 20 +   3667625 -TCCTGCAATGAAT----GCCTGTG
i dasNov3.JH567306         C 0 I 1
e micMur3.chr12             60502243 590 + 108143057 I
e otoGar3.GL873679           3014408 491 +   4132165 I

a score=932914.000000
s hg38.chr5_KI270796v1_alt     35441 61 +    172708 CTTAGCCCAAACTTTTCTGCTGAATGTGACCCCTGCATTTTGTG------ACCAAATGACTAGCCAC
s panTro5.chr5             125145501 61 + 181907262 CTTAGCCCAAACTTTTCGGCTGAATGTGACCCCTGCATTTTGTG------ACCAAATGACTAGCCAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126482451 61 + 183735486 CTTAGCCCAAACTTTTCGGCTGAATGTGACCCCTGCATTTTGTG------ACCAAATGACTAGCCAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1673932 61 +   8933513 CTTAGCCCAAACTTTTCTGCTGAATGTGACCCCTGCATTTTGTG------ACCAAATGACTAGCCAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139803918 61 + 163208435 CTTAGTCCAAACTTTTCTGCTGAATGTGACCCCTGCATTTTGTG------ACCAAATGACTAGCCAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122789817 61 + 180051392 CTTAGCCCAAACTTTTTTACTGAATGTGACCCCTGCATTTTGTG------GCCAAATGACTAGCCAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124213490 61 + 181584905 CTTAGCCCAAACTTTTTTACTGAATGTGACCCCTGCATTTTGTG------GCCAAATGACTAGCCAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211224 61 +  18395747 CTTAGCCCAAACTTTTTTACTGAATGTGACCCCTGCATTTTGTG------GCCAAATGACTAGCCAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217051 61 +  26952557 CTTAGCCCAAACTTTTTTACTGAATGTGACCCCTGCATTTTGTG------GCCAAATGACTAGCCAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28324756 61 +  82825804 CTTAGCCCAAACTTTTTTACTGTATGTGACCCCTGCATTTTGTG------GCCAAATGACTAGCCAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989023 61 -   4237731 CTTAGCCCAAACTTTTTTACTGAATGTGACCCCTGCATTTTGTG------GCCAAATGACTAGCCAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259324 61 -   1175262 CTTAGCCCAGACTTTTTTGCTGAATGTGACCCCTGCATTTTATG------GCCAAATGACTAGCCAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123597460 61 - 204313951 CTTAGCCTGAACTTTTCTGTGGAATGTGACCCCTGCATTTTGTG------ACCCAATGACTAGCCAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648156 61 -  71252344 CTTAGCCTGAACTTTTCTGTGGAATGTGACCCCTGCATTTTGTG------ACCCAATGACTAGCCAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1343131 61 -   1400280 CTTAGCCTGAACTTTTCTGCAGAATGTGACCCCTGCATTTTGTG------ACCCAATGACTAGCCAC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13135962 61 -  42888418 CTTAGCCTGAACTTTTCTGCGGAATGTGACCCCTGCATTCTGTG------ACCCAATGACTAGCCAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60502833 61 + 108143057 CTTAGCTCAAACTTTTCTGCTGAATGTGTCCCCTGTATTCTGTG------ACCAAGGGACTAGCTGT
i micMur3.chr12            I 590 C 0
s proCoq1.NW_012155062v1     3542539 61 +  11683526 CTTAGCCCAAACTTTTCTGCTGAATGTGTCCCCTCTATTTTGTG------ACCAAGGGAGTAGCTGA
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55482723 61 +  90702639 CTTAATTCAAACTTTTCTGTTGCATGTCAGTTCTGCCTTTTGTG------ACCAAGTAACCAGACAG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14872308 61 +  74389097 CCTGGCCCAATCTTTTCTGCTGCATGTGACCCCTGCCTTTTGTG------ATCAAGTCACTAGCCAT
i canFam3.chr11            C 0 I 7
s dasNov3.JH567306           2566563 67 +   3667625 TTTAGCCAAAACTTTTCTGCTGAACATGACCCTCATATTTTGTGACCTTCACCAGATGGCTAACCAC
i dasNov3.JH567306         I 1 C 0
e otoGar3.GL873679           3014408 491 +   4132165 I

a score=2358687.000000
s hg38.chr5_KI270796v1_alt     35502 183 +    172708 GGTGGTTGGCTAGCACAGC-----AGAATGGCTAGAATCAGCCTAAGAAGAGCTCACTTTCATCCATACACTCACTGTTTCTAACTTGGAACCCTGATTTACAGGACAGTTAAAATGAGAATTCCTATCTTTAGATAAACTGAGT-GGGGAAGGAGAAGAGGTGCTTTTCTGGGTGCCTCCGCTTCTGA
s panTro5.chr5             125145562 183 + 181907262 GGTGGTTGGCTAGCACAGC-----AGAGTGGCTGGAATCAGCCTAAGAAGAGCTCACTTTCATCCATACACTCACTGTTTCTAACTTGGAACCCTGATTTACAGGACAGTTACAATGAGAATTCCTATCTTTAGATAAACTGAAT-GGGGAAGGAGAAGAGGTGCTTTTCTGGGTGCCTCCGCTTCTGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126482512 183 + 183735486 GGTGGTTGGCTAGCACAGC-----AGAATGGCTGGAATCAGCCTAAGAAGAGCTCACTTTCATCCATACACTCACTGTTTCTAACTTGGAACCCTGATTTACAGGACAGTTACAATGAGAATTCCTATCTTTAGATAAACTGAAT-GGGGAAGGAGAAGAGGTGCTTTTCTGGGTGCCTCCGCTTCTGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1673993 183 +   8933513 GGTGGTTGGCTAGCACAGC-----AGAACGGCTAGAATCAGCCTAAGAAGAGCTCACTTTCATCCATACACTCACTGTTTCTAACTTGGAACCCTGATTTACAGGACAGTTACAATGAGAATTCCTATCTTTAGATAAACTGAGT-GGGGAAGGAGAAGAGGTGCTTTTCTGGGTGCCTCCACTTCTGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139803979 183 + 163208435 GGTGGTTGGCTAGCACAGC-----AGAATGGCTAGAATCAGCCTAAGAAGAGCCTGCTTTCATCCATACACTCACTGTTTCTAACTTGGAACCCTGATTTACAGGAGAGTTACAATGAGAATTCCTATCTTTAGATAAACTGAGT-AGGGAAGGAGAAGAGGTACTTTTCTGGGTGTTTCCGCTTCTGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122789878 181 + 180051392 GGGGGTTGGTTAGCACAGT-----GAAATGGCTAGAATCAGCCTAAGAAGAGCTCACTTTCATCCATACACTCA--GTTTCTATCTTGGAACCCTAATTTACAGGAGAGTTACAATGAGAATTCCTATATTCAGGTAAACTGATT-GGGGAAGGATATGAGGTGCTTTTCTGGCTGCCTCTTCTTCTGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124213551 181 + 181584905 GGGGGTTGGTTAGCACAGT-----GAAATGGCTAGAATCAGCCTAAGAAGAGCTCACTTTCATCCATACACTCA--GTTTCTATCTTGGAACCCTAATTTACAGGAGAGTTACAATGAGAATTCCTATATTCAGGTAAACTGATT-GGGGAAGGATATGAGGTGCTTTTCTGGCTGCCTCCTCTTCTGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211285 181 +  18395747 GGGGGTTGGTTAGCACAGT-----GAAATGGCTAGAATCAGCCTAAGAAGAGCTCACTTTCATCCATACACTCA--GTTTCTATCTTGGAACCCTAATTTACAGGAGAGTTACAATGAGAATTCCTATATTCAGGTAAACTGATT-GGGGAAGGATATGAGGTGCTTTTCTGGCTGCCTCCTCTTCTGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217112 181 +  26952557 GGGGGTTGGTTAGCACAGT-----GAAATGGCTAGAATCAGCCTAAGAAGAGCTCACTTTCATCCATACACTCA--GTTTCTATCTTGGAACCCTAATTTACAGGAGAGTTACAATGAGAATTCCTATATTCAGGTAAACTGATT-GGGGAAGGATATGAGGTGCTTTTCTGGGTGCCTCCTCTTCTGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28324817 181 +  82825804 GGGGGTTGGCTAGCACAGC-----GAAATGGCTAGAATCAGCCTAAGAAGAGCTCACTTTCATCCATACACTCA--GTTTCTAACTTGGAACCCTAATTTACAGGAGAGTTACAGTGAGAATTCCCATATTCAGGTAAACTGATT-GGGGAAGGATATGAGGTGCTTTTCTGGGTGCCTCCTCTTCTGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989084 181 -   4237731 GGGGGTTGGTTAGCACAGT-----GAAATGGCTAGAATCAGCCTAAGAAGAGCTCACTTTCATCCATACACTCA--GTTTCTATCTTGGAACCCTAATTTACAGGAGAGTTACAATGAGAATTCCTATATTCAGGTAAACTGATT-GGGGAAGGATATGAGGTGCTTTTCTGGGTGCCTCCTCTTCTGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259385 181 -   1175262 GGGGGTTGGCTAGCACAGC-----AAAATGGCTAGACTCAGCCTAAGAAGAGCTTACTTTCATCCACACACTCA--GTTTCTAACTTGGAACCCTAATTTATAGGAGAGTTACAATGAGAATTCCTATATTCAGGTTAACTGATT-GGGGAAGGATATGAGGTGCTTTTCTGGGTGCCTCCTCTTCTGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123597521 183 - 204313951 GAGGGTTGGCTAGCACAGC-----AAGATGGCTAGAATCAGCTTAAGAAGAACTCACTTTCATCCATACACTCACTGTTTCTAACTTGGAACCCTATTTTACAGGAGAGTTACAATAAGAATTCCTATCTTCAGGTAAACTGAGT-AGGGAAGGAGATGAAGTGCTTTTCTGAGTTCCTCCTCTTCTGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648217 183 -  71252344 GAGGGTTGGCTAGTGCAGC-----AGGATGGCTAGAATCAGCCTAAGAAGAGCTTACTTTCATCCATACACTCACTGTTTCTAACTTGGAACCCTAATTTACAGGATAGTTATAGTGAGAATTCCTATCTTCAGGTAAACTGAGT-AGGGAAGGAGATGAAGTGCTTTTCTGGGTTCCTCCTCTTCTGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1343192 180 -   1400280 AAGGGTTGGCTAGTGCAGC-----AAGATGGCTAGAATCAGCCTAAGAAGAGCTTACTTTCATCCGTACACTCACTGTTTCTAACTTGGAACCCTAATTTACAGGAGAGTTACAATGAGAATTCCTATCTTCAGGTAAACTGAGC-AGGGAAGGAGATGAAGTGCTTTTCTGGGTTCCTCCTCTTC---
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13136023 183 -  42888418 GAGGGTTGGCTAGCGCAGC-----AAGATGGCTAGAATCAGCTTAAGAGGAGCTCACTTTCATCCATACACTCACTGTTTCTAACTTGGAACCCTAATTTACAGGAGAGTTACAATGAGAATTCCTATCTTCAGCTAAACTGAGT-AGGGAAGGAGATGAAGTGCTTTTCTGGGTTCCTCCTCTTCTGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60502894 174 + 108143057 GGGGACTGGCCCATACGG---------GTAGCTAGAATCAGCGTGAGAAGAGCTCACTTTCATCCATACACT----GTTTCTGACTCAGCACCCCGATTTACAGGAAAGTTACAATGACAAGTCCCATCTTCAGGTCAGCTGGGT-GGGGAAGGGGACGGGGCACTTTTCCTGGTGTCTCCACTTTG-G
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3542600 174 +  11683526 GGGGATTGGCCCAGACGG---------ACAGCTAGAATCAGCGTGAGAAGAGCTCACTTTCATCCATACACT----GTTTCTGACCCAGAACCCTCATTTACAGGAAAGTTACAACGAGACTTCCTATCTCCAGGTGAGCTGGGT-GGGGAAGGGGATGAGGAGCTTTTCCTGGTGTCTCCTCTTCC-A
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3014899 144 +   4132165 ggggattgGCCTGACCAG---------CCAGACAGCATCAGCCTGAGAAGAGCTTCCTTTCACCCATACACT----G----TGACTCAG--------------------------TGAGAAGTCTTATCATCAGGTCAGGTAGGT-GGGGACAAGGATGAGGTA-TTTCTGTGATGTCCCCTCTTCCAA
i otoGar3.GL873679         I 491 C 0
s mm10.chr18                55482784 155 +  90702639 AGCAGGTGGCTGTCATAGC-----C----------------------AAGGGCTCACTTTCATTCCTATACT----GCTTAAAACTCAGTGCCCTTGTCAACAGGGGCATCACTTGGTAAAATCCTATCTTGAGCCAGATAGA-T-AAGGAAGGGCTAGAGG-ATTTTTCAAGATGGCTCCTCTACTGA
i mm10.chr18               C 0 I 348
s canFam3.chr11             14872376 184 +  74389097 GGAGGGTGGCTAGGACAGCTGTGAGGAGTAGCTTGGCTTAATCTGAGAAGAGTTCACTTTCACCTACACACA----GTTGCTACCTCAGAACTCTTATCCATCAGATTGCCACCATGAGAAATTCTGTCCTTGGTTCAGCTGACTGGGGGGAGCATATGAGGAGCTCTCCCCTGTGTCTCCTCTATGA-
i canFam3.chr11            I 7 C 0
s dasNov3.JH567306           2566630 174 +   3667625 AGGTCATGGGAGGCATGGC-----CAGGTGGCTAGGATCAGCCTAAGAAGAGCTCAGTTTCA-ACATATACT----GTTT-TACTTCAGAGCCCTTATCAAATGAAGAGTCACTATGAGAAGTCCTGTCTTTAGGACAGTTGGGT-TGGGGAGGGGATGATA---TTTGACAGGTGTCTCCTCTTCTTA
i dasNov3.JH567306         C 0 C 0

a score=1090277.000000
s hg38.chr5_KI270796v1_alt     35685 83 +    172708 CTATTTCATCTTTGTACTTGGGCTTCAGTATTCAAACTGTCTACGTGAACAGCCGTTAATTCAGTCAACCTCAACACTCATCA
s panTro5.chr5             125145745 83 + 181907262 CTATTTCATCTTTGTACTTGGGCTTCAGTATTCAAACTGTCCACGTGAACAGCCGTTAATTCAGTCAACCTCAACACTCATCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126482695 83 + 183735486 CTATTTCATCTTTGTACTTGGGCTTCAGTATTCAAACTGTCCACGTGAACAGCCGTTAATTCAGTCAACCTCAACACTCATCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1674176 83 +   8933513 CTATTTCATCTTTGTACTTGGGCTTCAGTATTCAAACTGTCTACGTGAACAGCCGTTAATTCAGTCAACCTCAACACTCATCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139804162 83 + 163208435 CTATTTCATCTCTGTACTTGTGCTTCAGTATTCAAACTGTCTACCTGAACAGCCATTAATTCATTCGACCTCAACATTCATCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790059 83 + 180051392 CTATTTCATTTGTGTACTTGGGCTTCAGTATTCAAGCTGACTGCGTGGACAGCCATTCATTCAATCGACCTCAACACTCATCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124213732 83 + 181584905 CTATTTCATTTGTGTACTTGGGCTTCAGTATTCAAGCTGACTGCGTGGACAGCCATTCATTCAATCGACCTCAACACTCATCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211466 83 +  18395747 CTATTTCGTTTGTGTACTTGGGCTTCAGTATTCAAGCTGACTGCGTGGACAGCCATTCATTCAATCGACCTCAACACTCATCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217293 83 +  26952557 TTATTTCATTTATGTACTTGGGCTTCAGTATTCAAGCTGACTGCGTGGACAGCCATTCATTCAATCGACCTCAACACTCATCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28324998 83 +  82825804 CTATTTCATTTGTGTACTTGGGCTTCAGTATTCAAGCTGTCTACGTGGACAGCCATTCATTCAATTGACCTCAACACTCATCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989265 83 -   4237731 CTATTTCATTTATGTACTTGGGCTTCAGTATTCAAGCTGTCTACGTGGACAGCCATTCATTCAATCGACCTCAACACTCATCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259566 83 -   1175262 CTATTTCATTTGTGTACTTGGGCTTCAGGATTCAAGCTGTCTACATGGACAGCCATTCATTCAGTTGACCTCAACACTCATCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123597704 83 - 204313951 ATATTTCATCTTCATACTCGGGCTTCAGTATTCAAACTGTCTATGTGAACAGCTGTTAATTCAATTGACCTCAACACTTATCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648400 83 -  71252344 CTATTTCATCTTCGTACTTGGGCTTCAGTATTTAAACTGTCTATGTGAACAGCTGTTAATTCAGTTGACCTCAACAGTCATCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1343372 82 -   1400280 -TATTTCATCTTCGTACTTGGGCTTCAGTATTCAAACTGTCTATGTGAACAGCTGTTAATTCAATTGACCTCAACACTCGTCA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13136206 83 -  42888418 TTATTGCATCTTCGTACTTGGGTTTCAGTATTCAAACTGTCTATGTGAACAGCAGTTAATTCAATTGACCTCAACACTCATCA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60503068 79 + 108143057 CAATTTCATCTCTGTAATTGGGCTTCAGTGTCTAAAGTATCTATATCAATAGCACTTAATTCAATCCACCCC-ACACTTA---
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3542774 82 +  11683526 CTACTTCATCTCTGTCACTGGGCTTCAGTGTGTAAAGTGTCTATATCAACAGCACTTAATTCAATCCACCCC-ACACTTACAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3015043 82 +   4132165 CTATTTCATCTCCGTAATTGAGCCTCAGTGTTGAAAGTGTCTATAGCAATAGCTCTTAATTCAGTCCACCCC-ACACTCATCA
i otoGar3.GL873679         C 0 I 6472
s canFam3.chr11             14872560 82 +  74389097 TCATTTCATCCCTATAATTGGGCTTCAGTGTTTAAAGTCTCTATGTCAATAGTATTTAATTTAATCAACCCC-ACATTCATCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2566804 81 +   3667625 CCATTTTATCC-TGTAATTGGGTTTCAGGATTTAAAGCCTCTATGTCCACAGCCCTTAATTTAATCAGCACC-ATACTTACCC
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55482939 348 +  90702639 I

a score=87050.000000
s hg38.chr5_KI270796v1_alt     35768 6 +    172708 AGTAGT
s panTro5.chr5             125145828 6 + 181907262 AGTAGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126482778 6 + 183735486 AGTAGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1674259 6 +   8933513 AGTAGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139804245 6 + 163208435 AGTAGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790142 6 + 180051392 AGTAGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124213815 6 + 181584905 AGTAGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211549 6 +  18395747 AGTAGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217376 6 +  26952557 AGTAGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325081 6 +  82825804 GGTAGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989348 6 -   4237731 AGTAGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259649 6 -   1175262 AGTAGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123597787 6 - 204313951 AGTAGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648483 6 -  71252344 AGTAGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1343454 6 -   1400280 AGTAGT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13136289 6 -  42888418 AGTAGT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60503147 4 + 108143057 --TAAT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3542856 6 +  11683526 AGTAAT
i proCoq1.NW_012155062v1   C 0 C 0
s canFam3.chr11             14872642 6 +  74389097 AGCAGT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2566885 6 +   3667625 AGGAGC
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3015125 6472 +   4132165 I
e mm10.chr18                55482939 348 +  90702639 I

a score=327736.000000
s hg38.chr5_KI270796v1_alt     35774 25 +    172708 GTATTATAAAACCCAGTTTATGTTG
s panTro5.chr5             125145834 25 + 181907262 GTATCATAAAACCCAGTTTATGTTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126482784 25 + 183735486 GTATCATAAAACCCAGTTTATGTTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1674265 25 +   8933513 GTATTATAAAACCCACTGTATGTTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139804251 25 + 163208435 GTATCACAAAACCCAGTTTATGTTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790148 25 + 180051392 GTATTATAAACCCCAGTTTACGTTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124213821 25 + 181584905 GTATTATAAACCCCAGTTTACGTTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211555 25 +  18395747 GTATTATAAACCCCAGTTTACGTTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217382 25 +  26952557 GTATTATAAACCCCAGTTTACGTTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325087 25 +  82825804 GTATTATAAACCCCAGTTTACGTTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989354 25 -   4237731 GTATTATAAACCCCAGTTTACGTTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259655 25 -   1175262 GTATTATAAACCCCAGTTTACGTTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123597793 25 - 204313951 GTATCATAAACTCTAGTTTATGTTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648489 25 -  71252344 GTATCATAAACCCCAGTTTATGTCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1343460 25 -   1400280 GTATCATAAACCCCAGTTTATGTCG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13136295 25 -  42888418 GTATCATAAACCTCAGTTTATGTCG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60503151 25 + 108143057 GTATCCTAAACCCCAGTTTATGCTG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3542862 25 +  11683526 GTATCCTAACCTCCGGTTTATGCTG
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55483287 25 +  90702639 GCATCAGTAACTCTGATTTAGGCTA
i mm10.chr18               I 348 C 0
s canFam3.chr11             14872648 25 +  74389097 GTATTATAAGCGGAAGCTTATGTTG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2566891 24 +   3667625 -ATTTATAAACCCTGACTTATGCTG
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3015125 6472 +   4132165 I

a score=202803.000000
s hg38.chr5_KI270796v1_alt     35799 15 +    172708 AAAATCCTATTCATG
s panTro5.chr5             125145859 15 + 181907262 AAAATCCTATTCATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126482809 15 + 183735486 AAAATCCTATTCATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1674290 15 +   8933513 AAAATCCTATTCATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139804276 15 + 163208435 AAAATCCTATTCATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790173 15 + 180051392 AAACTCCTATTCATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124213846 15 + 181584905 AAACTCCTATTCATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211580 15 +  18395747 AAACTCCTATTCATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217407 15 +  26952557 AAACTCCTATTCATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325112 15 +  82825804 AATCTCCTATTCATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989379 15 -   4237731 ACACTCCTATTCATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259680 15 -   1175262 AAACTCCTATTCATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123597818 15 - 204313951 AAACTTCTATTCATG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648514 15 -  71252344 AAACTCCTATTCATG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1343485 15 -   1400280 AAACTCCTATTCATG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13136320 15 -  42888418 AAACTCCTATTCATG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60503176 15 + 108143057 AGATTTCTATTCATG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3542887 15 +  11683526 AGATTTCTATTCATG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3021597 11 +   4132165 AGAATCC--TTCA--
i otoGar3.GL873679         I 6472 C 0
s mm10.chr18                55483312 15 +  90702639 AAATTCCTATCACAG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14872673 15 +  74389097 GAATTCCTATTAACT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2566915 15 +   3667625 AAATTCTTGTTTTTT
i dasNov3.JH567306         C 0 I 11567

a score=1096512.000000
s hg38.chr5_KI270796v1_alt     35814 77 +    172708 TGAATTTTTGAAAATGG---AACATTGGAGTTTCAGAATGGCCACTTT-TGGCAAAAATAGGGCTAA-ACAATGAAAGCA---AA
s panTro5.chr5             125145874 76 + 181907262 TGAA-TTTTGAAAATGG---AACATTGGAGTTTCAGAATGGCCACTTT-TGGCAAAAATAGGGCTAA-ACAATGAAAGCA---AA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126482824 77 + 183735486 TGAATTTTTGAAAATGG---AACATTGGAGTTTCAGAATGGCCACTTT-TGGCAAAAATAGGGCTAA-ACAATGAAAGCA---AA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1674305 77 +   8933513 TGAATTTTTGAAAATGG---AACATTGGAGTTTCAGAATGGCCACTTT-TGGCAAAAATAGGGCTAA-ACAATGAAAGCA---AA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139804291 77 + 163208435 TGAATTTTTGAAAATGG---AACACTGGAGTTTCAGAATGGCCACTTT-TGGCAAAAATAGGGCTAA-ACAATGAAAGCA---AA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790188 80 + 180051392 TGAATTTTTGAAAATGG---AACCTTGGGGTTTCAGAATGGCCACTTT-TGGCAAAAATAGGGCTAC-ATAATGAAAGCAAATAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124213861 80 + 181584905 TGAATTTTTGAAAATGG---AACCTTGGGGTTTCAGAATGGCCACTTT-TGGCAAAAATAGGGCTAC-ATAATGAAAGCAAATAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211595 80 +  18395747 TGAATTTTTGAAAATGG---AACCTTGGGGTTTCAGAATGGCCACTTT-TGGCAAAAATAGGGCTAC-ATAATGAAAGCAAATAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217422 80 +  26952557 TGAATTTTTGAAAATGG---AACCTTGGGGTTTCAGAATGGCCACTTT-TGGCAAAAATAGGGCTAC-ATAATGAAAGCAAATAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325127 80 +  82825804 TGAATTTTTGAAAATGG---AACCTTGGGGTTTCAGAATGGCCACTTT-TGGCAAAAATAGGGCTAC-ATAATGAAAGCAAATAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989394 80 -   4237731 TGAATTTTTGAAAATGG---AACCTTGGGGTTTCAGAATGGCCACTTT-TGGCAAAAATAGGGCTCC-ATAATGAAAGCAAATAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259695 80 -   1175262 TGAATTTTTGAAAATGG---AACCTTGGGGTTTCAGAATGGCCACTTT-TGGCAAAAATAGGGCTAC-ATAATGAAAGCAAATAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123597833 84 - 204313951 TGAATTTTTGAAAATGGAAAAAACTTGAGGTTTCAGAATGGCCTCTTTAAGGCAAAAACAGGGCTAC-ACAATGAAACCAAATAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648529 80 -  71252344 TGAATTTTTGAAAATGG---AAACTTGAGGTTTCAGAATGGCTTCTTT-TGGCAAAAACAGGGCTGC-ACAATGAAACCAAATAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1343500 80 -   1400280 TGAATTTTTGAAAATGG---AACCTTGAGGTTTCAGAATGGCCTCTTT-TGGCAAAAACAGGGCTAC-ACAGTGAAACCAAATAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13136335 81 -  42888418 TGAATTTTTGAAAATGG--AAACCTTGAGGTTTCAGAATGGCCTCTTT-TGGCAAAAACAGGGCTAC-ACGATGAAACCAAATAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60503191 76 + 108143057 TAAAATTTTT-CAATGG---GGCCTTGAGGTTTCAGAGTGGCCACTTT-TGGTAAAAACAGGGCTAT-AAAATGAAAGCAAA---
i micMur3.chr12            C 0 I 96
s proCoq1.NW_012155062v1     3542902 76 +  11683526 TAAAATTTTT-AAATGG---GGCCTTGAGGTTTCAGAGTGGCCACTTT-TGGTAAAAATAGGGCTAT-AAAATGAAAGCAAA---
i proCoq1.NW_012155062v1   C 0 I 3
s otoGar3.GL873679           3021608 76 +   4132165 TAAAATTTTT-AAATAA---GGCCTCATGGTTTCAGTGTGGCCACTTT-TGATAAAAATAGGGCTAT-AGAATGAAAGCAAA---
i otoGar3.GL873679         C 0 I 5
s mm10.chr18                55483327 76 +  90702639 CGATTTTCTT-CAGTGG---TGACTTAGGGCTTCAGTGTGGCCACTTG-TGGCAGGAATGGGATTCC-AGCATGAAGGCAGA---
i mm10.chr18               C 0 C 0
s canFam3.chr11             14872688 77 +  74389097 TGCATTTTTT-AAATGA---GGATTTGAGGATTCAGAATGGCCACTTT-TGGCAAAAATATGACTATAAAAATAAAAGCTAA---
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2578497 76 +   3667625 TGAATTTTTA-AAATGG---GGAATTGAGATTTCAGAATAACCACCAC-TGGCAAAAATAGGACTAG-GAAATGAATGCAAG---
i dasNov3.JH567306         I 11567 C 0

a score=641437.000000
s hg38.chr5_KI270796v1_alt     35891 53 +    172708 -------TGAGAAAAATGTTTGACATTTTCCCTTCA--TATCTGAATTTGTGTGTTCCCACT----
s panTro5.chr5             125145950 53 + 181907262 -------AGAGAAAAATGTTTGACATTTTCCCTTCA--TACCTGAATTTATGTGTTCCTACT----
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126482901 53 + 183735486 -------AGAGAAAAATGTTTGACATTTTCCCTTCA--TACCTGAATTTATGTGTTCCTACT----
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1674382 53 +   8933513 -------TGAGAAAAATGTTTGACATTTTCCCTTCA--TATCTGAATTTATGTGTTCCCACT----
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139804368 53 + 163208435 -------TGAGAAAAATGTTTGACATTTCCCCTTCA--TACCTGAATTTATGTGTTCCTACT----
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790268 53 + 180051392 -------TGAGAAAAATGTTTGACATTTTCCCTTCA--TACCTGAATTTATGTGCTCCTACT----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124213941 53 + 181584905 -------TGAGAAAAATGTTTGACATTTTCCCTTCA--TACCTGAATTTATGTGCTCCTACT----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211675 53 +  18395747 -------TGAGAAAAATGTTTGACATTTTCCCTTCA--TACCTGAATTTATGTGCTCCTACT----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217502 53 +  26952557 -------TGAGAAAAATGTTTGACATTTTCCCTTCA--TACCTGAATTTATGTGCTCCTCCT----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325207 53 +  82825804 -------TGAGAAAAATGTTTGACATTTTCCCTTCA--TACCTGAATTTATGTGCTCCTACT----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989474 53 -   4237731 -------TGAGAAAAAAGTTTGACATTTTCCCTTCA--TACCTGAATTTATGTGCTCCTACT----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259775 53 -   1175262 -------TGAGAAAAATGTTTGACATTTTCCCTTCA--TACCTGAATTTATGTGCTCCTACT----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123597917 51 - 204313951 -------TGAGAAAAATGCTTGACATTTTCCCTTCA--TATCTGAAGTTTTGCG--CCTACT----
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648609 53 -  71252344 -------TGAGAAAAATGCTTGACATTTTCCCTTCA--TACCTGAATTTTTGCACTCCTACT----
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1343580 53 -   1400280 -------TGAGAAAAATGTTTGACATTTTCCCTTCA--TACCTGAATTTTTGTGCTCCTACT----
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13136416 53 -  42888418 -------TGAGAAAAATGCTTGACATTTTCCCTTCA--TACCTGAATTTTTGCGCTCCTACT----
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3542981 53 +  11683526 -------TGAGAAAAATGCTTGACATTTCCCCTTCC--TACCTGCGTTTGTGTGCTCGTGCT----
i proCoq1.NW_012155062v1   I 3 I 83
s otoGar3.GL873679           3021689 52 +   4132165 -------TGA-AAAAATGCTTGCCATTCTCCCTTCC--TACATGCATGTGTGCACTGGTGCT----
i otoGar3.GL873679         I 5 C 0
s mm10.chr18                55483403 22 +  90702639 ----------------------------------------CGTGTTTTTATTTGCTCCAGCT----
i mm10.chr18               C 0 C 0
s canFam3.chr11             14872768 52 +  74389097 -------TTAGAAAAATGCTTGACAGTTCCCCGTCC--TACCTACACTTAT-TGCTTCTGCT----
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2578573 62 +   3667625 TAATTACTTAAAAAA----TTGACAGTCCTTTTTAATTTATTTGTGCTGTTGTGTCCCAGCTTACT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60503267 96 + 108143057 I

a score=448406.000000
s hg38.chr5_KI270796v1_alt     35944 42 +    172708 GATGCCACATTCCTGAAT-ATGA--ACTCAAACT----CCTGCATTACA---
s panTro5.chr5             125146003 42 + 181907262 GATGCCGCATTCCTGCAT-ATGA--ACTCAAACT----CCTCCATTACA---
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126482954 42 + 183735486 GATGCCGCATTCCTGCAT-ATGA--ACTCAAACT----CCTCCATTACA---
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1674435 42 +   8933513 GATGCCGCATTCCTGCAT-ATGA--ACTCAAACT----CCTCCATTACA---
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139804421 42 + 163208435 GATGCCCCATTCCTGCAT-ATGA--ACTCAAACT----CCTGCATTACA---
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790321 42 + 180051392 GATGCTGCATTCCTGCGT-GTGA--ACTCACACT----CCTCCATTACA---
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124213994 42 + 181584905 GATGCTGCATTCCTGCGT-GTGA--ACTCACACT----CCTCCATTACA---
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211728 42 +  18395747 GATGCTGCATTCCTGCGT-GTGA--ACTCACACT----CCTCCATTACA---
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217555 42 +  26952557 GATGCTGCATTCCTGCGT-GTGA--ACTCACACT----CCTCCGTTACA---
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325260 42 +  82825804 GATGCTGCATTCCTGCAT-GTGA--ACTCACACT----CCTCCATTACA---
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989527 42 -   4237731 GATGCTGCATCCCTGCGT-GTGA--ACTCACACT----CCTCCATTACA---
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259828 42 -   1175262 GATGCTGCATTCCTGTGT-GTGA--ACTCACACT----CCTCCATTACA---
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123597968 42 - 204313951 GCTGCTGCATTCCTGCGT-ATGA--ACTCACACT----CATCCATTACA---
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648662 37 -  71252344 GCCGCTGCATTCCTGCAT-ATGA--ACTCACACT----CCTCCG--------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1343633 42 -   1400280 GCTGCTGCATTCCTGCAT-ATGA--ACTCACACT----CCTTCATTACA---
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13136469 42 -  42888418 GCTGCTGCATTCCTGCAT-ATGA--ACTCACACT----CCTCCATTACA---
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3021741 43 +   4132165 GCTACCACATTCCTGCATGATGA--ACTCACACT----CCTCCATCCCC---
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55483425 44 +  90702639 TGTGCTGCTTTGCCATGTAATGAGCGCGCACACA----CCTCCATCCC----
i mm10.chr18               C 0 C 0
s canFam3.chr11             14872820 43 +  74389097 GATACTGCATTTCTGCCTAATGA--ACTCACACC----CTTTCATCAGC---
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2578635 29 +   3667625 ---------------------GA--ACCCACGCTCTCACCTTCATCATCACC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60503267 96 + 108143057 I
e proCoq1.NW_012155062v1     3543034 83 +  11683526 I

a score=507035.000000
s hg38.chr5_KI270796v1_alt     35986 36 +    172708 CACAGCATGCTTCTGCCGGGCCCCATTATCTTTTCA
s panTro5.chr5             125146045 36 + 181907262 CGCAACATGCTTCTGCTGGGCCCCATTATCTTTTCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126482996 36 + 183735486 CGCAACATGCTTCTGCTGGGCCCCATTATCTTTTCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1674477 36 +   8933513 CACAGCATGCTTCTGTCGGGCCCCATTATCTTTTCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139804463 36 + 163208435 CACAGCATGCTTCTGCCGGGCCTCATCATCTTTTCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790363 36 + 180051392 CACAGCATGCTTCTGCTGGGCCCCATCATCTTTTCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214036 36 + 181584905 CACAGCATGCTTCTGCTGGGCCCCATCATCTTTTCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211770 36 +  18395747 CACAGCATGCTTCTGCTGGGCCCCATCATCTTTTCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217597 36 +  26952557 CACAGCAGGCTTCTGCTGGGCCCCATCATCTTTTCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325302 36 +  82825804 CACAGCATGCTTCTGCTGGGCCCCATTATCTTTTCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989569 36 -   4237731 CACAGCATGCTTCTGCTGGGCCCCATCATCTTTTCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259870 36 -   1175262 CACAGCATGCTTCTGCTGGGCCCCATCATCTTTTCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598010 36 - 204313951 CACAGCATGCTTCTGCTGGGCCCCATCATCTTTTCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648699 35 -  71252344 -ACAGCATGCTTCTGCTGGGCCCCATCACCTTTTCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1343675 36 -   1400280 CACAGCATGCTTCTGCTGGGCCCCATCATCTTTTCA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13136511 36 -  42888418 CACAGCATGCTTCTGCTGGGCCCCATCATCTTTTCA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60503363 32 + 108143057 CACGGCAGGCTTCTGCA--GCCCCATCATCTGTC--
i micMur3.chr12            I 96 C 0
s otoGar3.GL873679           3021784 17 +   4132165 CACAGCTGGCAACTGTA-------------------
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55483469 36 +  90702639 TGTTGCATGCTTTTGCCAGGCTCCGTCATTGTTTCA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14872863 36 +  74389097 CACAGCATGCTTCTGCCAGGCTCCATCAACTTTCCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2578664 36 +   3667625 CTCAGCTTGTTTCTGCCGGGTCCCATCATCTTTTCT
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3543034 83 +  11683526 I

a score=2090810.000000
s hg38.chr5_KI270796v1_alt     36022 134 +    172708 GGCCCATTCATAATTTTAGTTATTGCTTTCTTGCCA-TTACAAAGGTTAGTGCAAAGTACACATCTCACAGGTCTATGGCTATAGCAAAGCTAAACAACTAATGT----TCAGCTTTCATTGAATACTGAATATTAAGG
s panTro5.chr5             125146081 134 + 181907262 GGCCCATTCATAATTTTTGTTATTGCTTTCTTGCCA-TTACAAAGGTTAGTGCAAAGTACGCATCTCACAGGTCTATGGCTATAGCAAAGCTAAACAACTAATGT----TCAACTTTCATTGAATACTGAATATTAAGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483032 134 + 183735486 AGCCCATTCATAATTTTTGTTATTGCTTTCTTGCCA-TTACAAAGGTTAGTGCAAAGTACACATCTCACAGGTCTATGGCTATAGCAAAGCTAAACAACTAATGT----TCAACTTTCATTGAATACTGAATATTAAGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1674513 135 +   8933513 GGCCCATTCATGATTTTTGTCATTGCTTTCTTGCCATTTACAAAGGTTAGTGCAAAGTACACATCTCACAGGTCTATGGCTATAGCAAAGCTAAACAACTAATGT----TCAACTTTCATTGAATACTGAATATTAAGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139804499 134 + 163208435 GGCCCATTCATAATTTTTGTTATTGCTTTCTTGCCT-TTACAAAGGTTAGTGCAAAGTACACATCTCACAGGTCTATGGCTATAGCAAGGCTAAACAAGTAATGT----TCAACTTTCATTGAATACTGAATATTAAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790399 134 + 180051392 GGCCCATTCATAAGTTCTGTTATTGCTTTCTTGCCA-TTACAAAGGTTAGTGCAAAGTACACATCTCACAGGTCTATGGCTATAGCAAAGCTAAACAAGTAATGT----TCAACTTTCATTGAATACTGAATATTAAGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214072 134 + 181584905 GGCCCATTCATAAGTTCTGTTATTGCTTTCTTGCCA-TTACAAAGGTTAGTGCAAAGTACACATCTCACAGGTCTATGGCTATAGCAAAGCTAAACAAGTAATGT----TCAACTTTCATTGAATACTGAATATTAAGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211806 134 +  18395747 GGCCCATTCATAAGTTCTGTTATTGCTTTCTTGCCA-TTACAAAGGTTAGTGCAAAGTACACATCTCACAGGTCTATGGCTATAGCAAAGCTAAACAAGTAATGT----TCAACTTTCATTGAATACTGAATATTAAGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217633 134 +  26952557 GGCCCATTCATAAGTTCTGTTATTGCTTTCTTGCCA-TTACAAAGGTTAGTGCAAAGTACACATCTCACAGGTCTATGGCTATAGCAAAGCTAAACAAGTAATGT----TCAACTTTCATTGAATACTGAATATTAAGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325338 134 +  82825804 GGCCCACTCATAAGTTCTGTTATTGCTTTCTTGCCA-TTACAAAGGTTAGTGCAAAGTACACATCTCACAGGTCTATGGCTATAGCAAAACTAAACAAGTAATGT----TCAACTTTTACTGAATACGGAATATTAAGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989605 134 -   4237731 GGCCCATTCATAAGTTCTGTTATTGCTTTCTTGCCA-TTACAAAGGTTAGTGCAAAGTACACATCTCACAGGTCTATGGCTATAGCAAAGCTAAACAAGTAATGT----TCAACTTTCATTGAATACTGAATATTAAGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      259906 134 -   1175262 GGCCCATTCATAAGTTCTGTTATTGCTTTCTTGTCA-TTACAAAGGTTAGTACAAAGTACACATCTCACAGGTCTATGGCTATAGCAAAGCTAAACAAGTAATGT----TCAACTTTCATTGAATACTGAATATTAAGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598046 134 - 204313951 GGCCCATTCATAATTTCTGTTATTCCTTTCTTGCCA-TTACAAAGGGTAGTGCAAAATACACATCTCACAGGTCTGTGGCTATAGCAAAGCTAAACAAGTAATGC----TGAACTCTTATTGAATACTGAATATCGAGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648734 134 -  71252344 GGCCCATTCATAGTTTCTGTTATTTCTTTCTTGCCA-TTACAAAGGGTAGCGCAAAGTACACATCTCACAGGTCTGTGGCTATAGCAAAGCTGAACAAGTAATGC----TCAACTCTTATTGAACACTGAATATTGAGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1343711 134 -   1400280 GGCCCATTCATAATTTCTGTTATTCCTTTCTTGCCT-TTACAAAGGATAGTGCAAAGTACACATCTCACAGGTCTGTGGCTATAGCAAAGCTAAACAAGTAATGC----TCAACTCTTATTGAATACTGAATATTGAGG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13136547 132 -  42888418 GGCCCATTCATAATT--TGTTATTCCTTTCTTGCCA-TTACAAAGGGTAGTGCAAAGTACACATCTCACAGATCTGTGGCTATAGCAAAGCTAAACAAGTAATGC----TCAACTCGTATTGAATACTGAATATTGAGG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60503395 133 + 108143057 GGCCCATGCATGATTTCTGTTATTGCTTTCTCGTCA-TTACAGAGGTTAGCATGAAGCACACTGCTCATAGGTCTATGGCTATAGCAAAGCTAAACAAGT-ATGG----TCAACTCTCGTTGAATACTGGATATGAAAG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3543117 133 +  11683526 GGCCCATTCATAGTTTCTGTTACTGCTTTCTTGTCA-TTACAGAGGCTAGCGTAAAGTACACTTCTCACAGGTCCTTGGCTATAGCAAAGCTAAACAAGT-ATGT----TCAACTCTTGCTGAATACTGGGTATGAAAG
i proCoq1.NW_012155062v1   I 83 C 0
s otoGar3.GL873679           3021801 133 +   4132165 GGCCCATTCATAATTCCTGCTATTGCTTTCCTGTCA-TTGTGGAGGTTAGCATAAGGTACACTTCACCAAGGTCTATGGCTCTCGCAAAACTCAGCCAGA-ATAT----TCAAGTCCTGTTGAATACTGGTTAAGAAGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55483505 124 +  90702639 GGTCGATTCATAATTTTTATCATTACTCTCTTGTCA-TTAGAAAGGTTAGCGTAAAATAAACATCACATGGGGCCGTGGCTATGGCAACGATAAACAAGCATTG--------------ATTAAATCCTGGCTGTAGCTG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14872899 127 +  74389097 GGCCTGTTCATAATTTCTGTCACTACTTTCTTGTCA-CTACGGAGGTCAGTGTAAAGAACACATCTCCTAAGTTTATGGCTA-----------AACACGTAACATTTCATCAACTCTTCCTAAATACTGGATACTCAAG
i canFam3.chr11            C 0 I 587
s dasNov3.JH567306           2578700 136 +   3667625 GAACCACTCATACTTTCTGTTATTATTTTACTGGTC-TTTTA-AGGTTAGTGTAAAGTGCACATCCCATAGTCCTATGGCTACAGCAAAGCTAAACAAGTAACATTTCATCACCTTTTATAGAATG-TGAATATAAAGG
i dasNov3.JH567306         C 0 C 0

a score=61160.000000
s hg38.chr5_KI270796v1_alt     36156 4 +    172708 GGCA
s panTro5.chr5             125146215 4 + 181907262 GGCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483166 4 + 183735486 GGCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1674648 4 +   8933513 GGCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139804633 4 + 163208435 GGCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790533 4 + 180051392 GGCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214206 4 + 181584905 GGCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211940 4 +  18395747 GGCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217767 4 +  26952557 GGCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325472 4 +  82825804 GGCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989739 4 -   4237731 GGCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260040 4 -   1175262 GGCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598180 4 - 204313951 GGCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648868 4 -  71252344 AGCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1343845 4 -   1400280 GGCA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13136679 4 -  42888418 GGCA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60503528 4 + 108143057 GGCA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3543250 4 +  11683526 GGCA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3021934 4 +   4132165 GGGG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55483629 4 +  90702639 GGTG
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2578836 4 +   3667625 GCTA
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14873026 587 +  74389097 I

a score=18375.000000
s hg38.chr5_KI270796v1_alt     36160 1 +    172708 C
s panTro5.chr5             125146219 1 + 181907262 C
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483170 1 + 183735486 C
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1674652 1 +   8933513 C
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139804637 1 + 163208435 G
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790537 1 + 180051392 C
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214210 1 + 181584905 C
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211944 1 +  18395747 C
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217771 1 +  26952557 C
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325476 1 +  82825804 C
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989743 1 -   4237731 C
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260044 1 -   1175262 C
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598184 1 - 204313951 C
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648872 1 -  71252344 C
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1343849 1 -   1400280 C
i cebCap1.NW_016107829v1   C 0 I 395
s aotNan1.NW_018505940v1    13136683 1 -  42888418 C
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60503532 1 + 108143057 C
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3543254 1 +  11683526 C
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3021938 1 +   4132165 C
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55483633 1 +  90702639 C
i mm10.chr18               C 0 C 0
s canFam3.chr11             14873613 1 +  74389097 C
i canFam3.chr11            I 587 C 0
s dasNov3.JH567306           2578840 1 +   3667625 C
i dasNov3.JH567306         C 0 C 0

a score=18309.000000
s hg38.chr5_KI270796v1_alt     36161 4 +    172708 AATG
s panTro5.chr5             125146220 4 + 181907262 AATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483171 4 + 183735486 AATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1674653 4 +   8933513 AATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139804638 4 + 163208435 AATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790538 4 + 180051392 AATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214211 4 + 181584905 AATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211945 4 +  18395747 AATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217772 4 +  26952557 AATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325477 4 +  82825804 AATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989744 4 -   4237731 AATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260045 4 -   1175262 GATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598185 2 - 204313951 --TT
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55648873 2 -  71252344 --TT
i saiBol1.JH378106         C 0 I 1
s aotNan1.NW_018505940v1    13136684 2 -  42888418 --TT
i aotNan1.NW_018505940v1   C 0 I 1
s micMur3.chr12             60503533 3 + 108143057 AGT-
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3543255 3 +  11683526 AAT-
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3021939 3 +   4132165 AAT-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55483634 4 +  90702639 AGTA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14873614 4 +  74389097 AATG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2578841 4 +   3667625 AATG
i dasNov3.JH567306         C 0 C 0
e cebCap1.NW_016107829v1     1343850 395 -   1400280 I

a score=487549.000000
s hg38.chr5_KI270796v1_alt     36165 26 +    172708 AAAAATTCTCATCTTTTCATCCTCTG
s panTro5.chr5             125146224 26 + 181907262 AAAAATCCTCATCTTTTCATCCTCTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483175 26 + 183735486 AAAAATCCTCATCTTTTCATCCTCTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1674657 26 +   8933513 AAAAATTCTCATCTTTTCATCCTCTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139804642 26 + 163208435 ACAAATTCTCATCTTTTCATCCTCTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790542 26 + 180051392 AAAAATTCTCATCTTTTCATCCTCTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214215 26 + 181584905 AAAAATTCTCATCTTTTCATCCTCTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211949 26 +  18395747 AAAAATTCTCATCTTTTCATCCTCTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217776 26 +  26952557 AAAAATTCTCATCTTTTCATCCTCTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325481 26 +  82825804 AAAAATTCTCATGTTTTCATCCTCTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989748 26 -   4237731 AAAAATTCTCATCTTTTCATCCTCTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260049 26 -   1175262 AAAAATTCTCATCTTTTCATCCTCTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598188 26 - 204313951 AAAAATTCTCATCTTTTCATCCTCTG
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55648876 26 -  71252344 AAAAATTCTCAACTTTTCATCCTCTG
i saiBol1.JH378106         I 1 C 0
s cebCap1.NW_016107829v1     1344245 26 -   1400280 aaaaaTTCTCATCTTTTCATCCTCTG
i cebCap1.NW_016107829v1   I 395 C 0
s aotNan1.NW_018505940v1    13136687 26 -  42888418 AAAAATTCTCATCTTTTCATCCTCTG
i aotNan1.NW_018505940v1   I 1 C 0
s micMur3.chr12             60503536 26 + 108143057 AAAAATTCTTACCTTTTCATCCTCTG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3543258 26 +  11683526 AAAAATTCTCATCTTTTCACCCTCTG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3021942 26 +   4132165 AAAAATTCTCATCTTCTTGTCCTCTG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55483638 26 +  90702639 ATCGCTTCTCATCTTTTTATTCTCTG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14873618 26 +  74389097 AAAAATTTTCATCTTTTCATCTTCTG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2578845 25 +   3667625 AAAAATTCTCACCTT-TCATCTTCTG
i dasNov3.JH567306         C 0 M 50

a score=2486674.000000
s hg38.chr5_KI270796v1_alt     36191 190 +    172708 GATGGAAACAACACCAGTGTATAT------AGAAAG-----CTATCTTTTCTTGCCTTTCCTATTTGACTTTCAT--CA---C-----TTCTTGATGTTTGGTAATT-ATTTCTCTACAAGTGCATTTTGCATGGTTCCCAGGTCCCTCCCTCAATCTGTGGCTAATACAGATTAATGTTGT----CTCAGTCTAGCTTCAAATTGCATGCTGGTG
s panTro5.chr5             125146250 195 + 181907262 GATGGAAACACCACCAGTGTATATAG-AAAAGAAAG-----CTGTCTTTTCTTGCCTTTCCTATTTGACTTTTAT--CA---C-----TTCTTGATGTTTGGTAATT-ATTTCTCTACAAGTGCATTTTGCATGGTTCCCAGGTCCCTCCCTCAATCTGTGGCTAATACAGATTAATGTTGT----CTCAGTCTAGCTTCAAATTGCATGCTGGTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483201 195 + 183735486 GATGGAAACACCACCAGTGTATATAG-AAAAGAAAG-----CTGTCTTTTCTTGCCTTTCCTATTTGACTTTTAT--CA---C-----TTCTTGATGTTTGGTAATT-ATTTCTCTGCAAGTGCATTTTGCATGGTTCCCAGGTCCCTCCCTCAATCTGTGGCTAATACAGATTAATGTTGT----CTCAGTCTAGCTTCAAATTGCATCTTGGTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1674683 195 +   8933513 GATGGAAACAACACCAGTGTATATAG-AAAAGAAAG-----CTATCTTTTCTTGCCTTTCCTACTTGACTTTTAT--CA---C-----TTCTTGATGTTTGGTAATT-ATTTCTCTACAAGTGCATTTTGCATGGTTCTGAGGTCCCTCCCTCAATCTGTGGCTAATACAGATTAATGTTGT----CTCAGTCTAGCTTCAAATTGCATGCTGGTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139804668 198 + 163208435 GATGGAAACAACACCAGGGTGTATAG-AAAAGAAAG-----CTATCTTTTCTTGCCTTTCCTATTTGACTTTTAT--CACCTC-----TTCTTGATGTTTGGTAATT-ATTTCTCTACAAGTGCATTTTGCATGGTTCCCAGGTCCCTCCCTCAATCTGTGGCTAATATAGATCAACGTTTT----CTCAGTCTAGCTTCAAATTGCATGCTGGTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790568 198 + 180051392 AATGGAGACCACATCAGTGTGTACAG-AAAAGAAAG-----CAAtcttttcttgcctttcctatttgacttttat--tacctt-----ttcttGATGTTTGGTCATT-ATTTCTCTACAAGTACATTTTGCATGGTTCCCAGGTCCCTACCTCAGTCTGTGGCTAATACAGATTAATATTGT----CTCAGTCTAGCTTCAAATTGTATGTTGATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214241 198 + 181584905 AATGGAGACCACATCAGTGTGTACAG-AAAAGAAAG-----CAAtcttttcttgcctttcctatttgacttttat--tacctt-----ttcttGATGTTTGGTCATT-ATTTCTCTACAAGTACATTTTGCATGGTTCCCAGGTCCCTCCCTCAGTCTGTGGCTAATACAGATTAATATTGT----CTCAGTCTAGCTTCAAATTGTATGTTGATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16211975 198 +  18395747 AATGGAGACCACATCAGTGTGTACAG-AAAAGAAAG-----CAAtcttttcttgcctttcctatttgacttttat--tacctt-----ttcttGATGTTTGGTCATT-ATTTCTCTACAAGTACATTTTGCATGGTTCCCAGGTCCCTCCCTCAGTCTGTGGCTAATACAGATTAATATTGT----CTCAGTCTAGCTTCAAATTGTATGTTGATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5217802 198 +  26952557 AATGGAGACCACATCAGTGTGTACAG-AAAAGAAAG-----CAAtcttttcttgcctttcctatttgacttttat--tacctt-----ttcttGATGTTTGGTCATT-ATTTCTCTACAAGTACATTTTGCATGGTTCCCAGGTCCCTCCCTCAGTCTGTGGCTAATACAGATTAATGTTGT----CTCAGTCTAGCTTCAAATTGTATGTTGATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325507 198 +  82825804 AATGGAGACAACATCAGTGTGTACAC-AAAAGAAAG-----CAATCTTTTCTTGCCTTTCCTATTTGACTTTTAT--CACCTT-----TTCTTGATGTTTGGTCATT-ATTTCTCTACAAGTACATTTTGCATGGTTCCCAGGTCCCTCCCTCAGTCTGTGGCTAATACAGATTAATGTTGT----CTCAGTCTAGCTTCAAATTGTATGTTGATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989774 198 -   4237731 AATGGAGACCACATCAGTGTGTACAG-AAAAGAAAG-----CAAtcttttcttgcctttcctatttgacttttat--tacctt-----ttcttGATGTTTGGTCATT-ATTTCTCTACAAGTACATTTTGCATGGTTCCCAGGTCCCTCCCTCAGTCTGTGGCTAATACAGATTAATGTTGT----CTCAGTCTAGCTTCAAATTGTATGTTGATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260075 198 -   1175262 AATGGAGACAACATCAGTGTGTACAA-AAAAGAAAG-----CAATCTTTTCTTGCCTTTCCTATTTGACTTTTAT--CACCTC-----TTCTTAATGTTTGGTCATT-ATTTCTCTACAAGTACATTTTGCATGGTTCCCAGGTCCTTCCCTCAGTCTGTGGCTAATACAGATTAATGTTGT----CTCAGTCTAACTTCAAATTGTATGTTGATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598214 199 - 204313951 GATAGAAGCAACATCAGTGTGTATAGAAAAAAAAAG-----CTGTCTTTTCTTGCCTTTCCTATTTGACGTTTAT--TACCTC-----TTCTTGATGTTTGGTCATT-ATTTCTCGACAAGTGCACTTTGCATGGTTCCCTGGTCCCTCCCTCAATCTGTGGCTAATACTGATGAATGTTGT----CTCAGTCTAGCTTCAGATTGCAAGCTGGCG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55648902 199 -  71252344 GATAGAAACAACATCAGTGTGAATAGAAAAAAAAAG-----CTGTCTTTTCTTGCCTTTCCTCTTTGACTTTTAT--TACCTC-----TTCTTGATGTTTGGTCATT-ATTTCTTGACAAGTGAACTTTGCATGGTTCCCTGGTCCCTCCCTCAATCGGTGGCTAATACAGATGAATGCTGT----CTCAGTCTAGCTTCAAATTGCAAGCTGGTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1344271 198 -   1400280 GATAGAAGCAACATCAGTGTGAATAG-AAAAAAAAG-----CTGTCTTTTCTTGCCTTTCCTATTTGACTTTTAT--TACCTC-----TCCTTGATGTTTGGTCATT-ATTTCTCGACAAGCGCACTTTGCATGGTTCCCTGGTCCCTCCCTCAATCTGTGGCTAATACAGATGAATGTTGT----CTCAGTCTAGCTTCAAAGTGCAAGCTGGTG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13136713 197 -  42888418 GATAGAAACAACATCAGTGTGAATAG--AAAACAAG-----CTGTCTTTTCTTGCCTTTCCTATTTGATGTTTAT--TACCTT-----TTCTTGATGTTTGGTCATT-ATTTCCCGACAAGTGCACTTTGCATGGTTCCCTGGTCCCTCCCTCAATCTGTGGCTAATGCAGATGAATGTTGT----CTCAGTCTAGCTTCAAATTGCAAGCTGGCG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60503562 185 + 108143057 GACGGAAAGGACATCAGTACACATGG-AAAAGAGAG-----CTATCTTTTCTTGCCTTTCCTATTTGGCTTTTATCCCGCCTC-----TTCTTGATGTTTGGTCATT-ATTTTTCTAAAAGTGCTCCATGCATGGTTCCCAG--------------TAGTGGCTAATACAGATTAATGTTG-----TTTAGCCTAGCTTCAAATTGCTTGCTATTG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3543284 184 +  11683526 AATGGAAAGGACATCAGCACACGTAG-AAAAGACAG-----CTGTCTTTTCTTGTCTTTCCTATTTGACTTTTAT--CGCCTC-----TTCTTGATGTTTGATCATT-ATTTTTCTAAAAGTGCACCGTGCGTGGTTCCCAG--------------TAGTGGCTAATACAGATTAATGTTGC----TTCAGCCTAGCTTCAAATTGCTTGCTATTG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3021968 183 +   4132165 GAGGGCAATGACATCAGTGTGCATAC-AGAAGAGAG-----CTATCTTTTTTTGCCTCTCCTATTTGAATTTGAT--CACCTC-----TTCTCGACATTTGGTTGTT-ATTTTCCTAACAGTACCCCATG-ATGGTTCCCAG--------------TAGTGTGTAATACAGATGAATGTTGT----TTCAGCCTAGTTTCAAATTGCTTGCTATTG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55483664 173 +  90702639 CCAAGA-----CACCAGTGTGCGTAC-AGAGAAAAG-----CCACCTCCTCTTGCCT------TTTGAGGATTAT--TTTCTCTCACATTCTTGATGTTTGGCTATTGATCTCCCTAGTGTGTCACTTTGCATGGGTCTCAG-------------------GCTGGTGCACAGT-TTCCTGT----GCTGGCCCATGTTCAATTTGCTTGCTTGTA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14873644 182 +  74389097 AACGGAAATGACATGAGTCCACATAG-AAAAGGCAGGACTTTTATTTTTTTTTCTCTTTCCCA-TTGACTTTTAT--TGCCTC-----TTTTTGATCTTTGCTTATTGATCTCCCTAAAAATGCAC----------TCTCAGG--------------GGTGGTGAACCAGATTTAAGGTTGCCTTACTTACTCTTGCTTCAAGTT-CATGCTATCA
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2578870  50 +   3667625 M

a score=1965137.000000
s hg38.chr5_KI270796v1_alt     36381 133 +    172708 TGA-TTTTCAGATTCTCACTCTTAACTAAAAGAACAAGT-----------------------------TTCAGAAAATTTCTT----AACA-TGTT--TATATATTT--------------------------------------------------------------------------------------------CTTGATTTGTGGCTAGTTCATCACAGGAGAGGCATAAAATTTAATA--TTTAAGAAAGGGTAATT
s panTro5.chr5             125146445 133 + 181907262 TGA-TTTTCAGATTCTCACTCTTAACTAAAAGAACAAGT-----------------------------TTCAGAAAATTTCTT----AACA-TGTT--TATGTATTT--------------------------------------------------------------------------------------------CTTGATTTGTGGCTAGTTCATCACAGGAGAGGCATAAAATTTAATT--TTTAAGAAAGGGTAATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483396 132 + 183735486 TGA-TTTTCAGATTCTCACTCTTAACTAAAAGAACAAGT-----------------------------TTCAGAAAATTTCTT----AACA-TGTT--TATGTATTT--------------------------------------------------------------------------------------------CTTGATTTGTGGCTAGTTCATCACAGGAGAGGCATAAAATTTAAT---TTTAAGAAAGGGTAATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1674878 133 +   8933513 TGA-TTTTCAGATTCTCACTCTTAACTAAAAGAACAAGT-----------------------------TTCAGAAAATTTCTT----AACA-TATT--TATATATTT--------------------------------------------------------------------------------------------CTTGATTTGTGGCTAGTTCATCACAGGAGAGGCATAAAATTTAATA--TTTAAGAAAGGGTAATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139804866 137 + 163208435 TGA-TTTTCAGAGTCTCACTCTTAACTAAAAGAAAAGGT-----------------------------TTAAGAAAATTTCTTAAGCAACA-TGTT--TATATATTT--------------------------------------------------------------------------------------------CTTGATTTGTGGTTAGTTCATCATAGGAGAGGCATAAAATTTAATA--TTTAAGAAAGGGTAATT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790766 137 + 180051392 TGA-TTTTCAGATTCTCGCTCTTAACTAAAAGAACAAGT-----------------------------TTCAGAAAATTTCTTAAACAACA-TGTT--TATATATAT--------------------------------------------------------------------------------------------CTTGATTTGTGGTTAGTTTGTCACAGGAGAGGTGTAAAATTTAGTA--TTTAAGAAAGGATAATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214439 137 + 181584905 TGA-TTTTCAGATTCTCGCTCTTAACTAAAAGAACAAGT-----------------------------TTCAGAAAATTTCTTAAACAACA-TGTT--TATATATAT--------------------------------------------------------------------------------------------CTTGATTTGTGGTTAGTTTGTCACAGGAGAGGTGTAAAATTTAGTA--TTTAAGAAAGGATAATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16212173 137 +  18395747 TGA-TTTTCAGATTCTCGCTCTTAACTAAAAGAACAAGT-----------------------------TTCAGAAAATTTCTTAAACAACA-TGTT--TATATATAT--------------------------------------------------------------------------------------------CTTGATTTGTGGTTAGTTTGTCACAGGAGAGGTATAAAATTTAGTA--TTTAAGAAAGGATAATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5218000 137 +  26952557 TGA-TTTTCAGATTCTCGCTCTTAACTAAAAGAACAAGT-----------------------------TTCAGAAAATTTCTTAAACAACA-TGTT--TATATATAT--------------------------------------------------------------------------------------------CTTGATTTGTGGTTAGTTTGTCACAGGAGAGGTGTAAAATTTAGTA--TTTAAGAAAGGATAATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325705 139 +  82825804 TGA-TTTTCAGATTCTCACTCTTAACTAAAATAACAAGT-----------------------------TTCAGAAAATTTCTTAAACAACA-TGTTTATATATATAT--------------------------------------------------------------------------------------------CTTGATTTGTGGTTACTTTGTCACAGGAGAGGTGTAAAATTTAATA--TTTAAGAAAGGGTAATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3989972 137 -   4237731 TGA-TTTTCAGATTCTCGCTCTTAACTAAAAGAACAAGT-----------------------------TTCAGAAAATTTCTTAAACAACA-TGTT--TATATATAT--------------------------------------------------------------------------------------------CTTGATTTGTGGTTAGTTTGTCACAGGAGAGGTGTAAAATTTAGTA--TTTAAGAAAGGATAATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260273 137 -   1175262 TGA-TTTTCAGATTCTCACTCTTAACTAGAAGAACAACT-----------------------------TTCAGAAAATTTCTTAAACAACA-TGTT--TATATATAT--------------------------------------------------------------------------------------------CTTGATTTGTGGTTAGTTTGTCACAGGAGAGGTGTAAAATTTAGTA--TTTAAGAAAGGGTAATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598413 136 - 204313951 TGA-CTTTCAGATTCTCATTCTTAAATGAAAGAACAAGT-----------------------------TTCAGAAAATTTCTTAAGAAACA-TGTT--TATGTATTT--------------------------------------------------------------------------------------------CTTGATTTGTAGTTAGTTCATCATAAGAGAGGCAT-ACATTTAATA--TTTAAGAAAGGATAATT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55649101 133 -  71252344 TGA-CTTTCAGATTCTCATTCTTAACTGAAAGAACAAGT-----------------------------TTCAGAAAATTTCTTAAGGAACA-TGTT--TATGTATTT--------------------------------------------------------------------------------------------CTTGATTTG----TAGTTCATCACAGGAGAGGCATAACATTTAATA--TTTAAGAAAGAATCATT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1344469 121 -   1400280 TGA-TTTTCAGATTCTCATTCTTAACTGAAAGAACAAG-----------------------------------------TCTTAAGCAACA-TGCT--TATACATTT--------------------------------------------------------------------------------------------CTTGGTTTG----TAGTTCGTCATAGGAGAGGCATAACATTTAATA--TTTAAGAAATGATAATT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13136910 137 -  42888418 TGA-TTTTCAGATTCTCATTCTTAACTGAAAGAACAAGT-----------------------------TTCAGAAAATTTCTTAAGCAACA-TGTT--TATATATTT--------------------------------------------------------------------------------------------CTTGATTTGTAGTTAGTTCATCATAGGAGAGGCATAACATTTAATA--TTTAAGAAAGGATAATT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60503747 138 + 108143057 TGATTTTTCAGATTCTTATTCTTAATTAAAAGAACAAGT-----------------------------TTCAGGAAATTTCATAAGCAATG-TGTT--TATGTTTTT--------------------------------------------------------------------------------------------CTTGATTTGTAGTTAGTCCATCATAGGAGAGATATAAAATTTAATA--TTCTAGAAAGGATAATT
i micMur3.chr12            C 0 I 45
s proCoq1.NW_012155062v1     3543468 138 +  11683526 TGATTTTTCAGATTCTTATTCTTAACTAAAAGAACAAGT-----------------------------TTCAGGAAATTTCATAAGCAATG-TGTT--TATGTATTT--------------------------------------------------------------------------------------------CTTGACTTATGGTTAGTTCATCATAGGAGAGATACAACATTTAATA--TTCTAGAAAGGATAATT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3022151 138 +   4132165 TGATTTTTCAGCTTCTCATTCTTAACTAAAAGAACGAGT-----------------------------TTCAGGAAATTTCATAAGTAACA-TGTT--TATGTATTT--------------------------------------------------------------------------------------------CTTGATTTGTGGATAGTTCATCGCAGGAGAGGCATACAATTTAATG--TTCTAGAAAGGATAATT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55483837 260 +  90702639 TGG-TTTTCAGGGTTTTGCCTTCTATAAAAAAGGAGAGTAAAGCCAAAGTTTATTCAAAGAAGACAACTTTAGTAGgtttgtttgtttgtt-tgtt--tgtttgtttTGCTGCTTTTTATTTCTGGAGTGGGATGGCCCCTCAGACTCCCCCTTACAAGAAGTTGCTTGGGAAATGTCAGAAGCAGTACTCTGATGTACTCTGCTTTGTGGTTTGCTTATGAAAAGGGAGACATACAGTCTGATAGCTTACAGAAGGGGTGAGT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14873826 136 +  74389097 TGG-TTTCCAGATTCTTACTCTCATTCAAAAGAACAAGT-----------------------------CTTAGTAAATTTTATAAACAGCG-TGTT--TCCACATTT--------------------------------------------------------------------------------------------CTTGATTTGTGGTTAGTTTATGACAGGTGAGACATAAAAGTTAACA--TTTAAGAA-GGATAAGT
i canFam3.chr11            C 0 I 33
s dasNov3.JH567306           2578922 138 +   3667625 TGA-TTTTCAGATGCTCACTCATAGCTAAAAGAACAAGT-----------------------------TTCAGGAAATTTCATAGGCAGTGTTGTT--TACATATTT--------------------------------------------------------------------------------------------CTTGTTTTGTGGTTAGTACATTATAGGCAAGGCataaaatttaata--ttttagaaatattaatt
i dasNov3.JH567306         M 50 C 0

a score=68652.000000
s hg38.chr5_KI270796v1_alt     36514 6 +    172708 -TCACTA
s panTro5.chr5             125146578 6 + 181907262 -TCACTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483528 6 + 183735486 -TCACTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675011 6 +   8933513 -TCACTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805003 6 + 163208435 -TCACTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790903 6 + 180051392 -TCACTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214576 6 + 181584905 -TCACTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16212310 6 +  18395747 -TCACTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5218137 6 +  26952557 -TCACTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325844 6 +  82825804 -TCACTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3990109 6 -   4237731 -TCACTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260410 6 -   1175262 -TCACTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598549 6 - 204313951 -CCACTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55649234 6 -  71252344 -CCACTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1344590 6 -   1400280 -CCACTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13137047 6 -  42888418 -CCACTA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3543606 6 +  11683526 -CTACTC
i proCoq1.NW_012155062v1   C 0 I 22
s otoGar3.GL873679           3022289 6 +   4132165 -CCACCC
i otoGar3.GL873679         C 0 I 2
s mm10.chr18                55484097 3 +  90702639 ----CTA
i mm10.chr18               C 0 I 3
s canFam3.chr11             14873995 6 +  74389097 -ttatta
i canFam3.chr11            I 33 I 3
s dasNov3.JH567306           2579060 7 +   3667625 CCTACTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60503885 45 + 108143057 I

a score=187343.000000
s hg38.chr5_KI270796v1_alt     36520 13 +    172708 AGCCAC--AAAAAA-----------A
s panTro5.chr5             125146584 24 + 181907262 AGCCAC--AAAAAAATTAAACATGCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483534 24 + 183735486 AGCCAC--AAAAAAATTAAACATGCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675017 13 +   8933513 AGCCAC--AAAAAA-----------A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805009 24 + 163208435 AACCAC--AAACAAATTAAACATGCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790909 24 + 180051392 AACCAC--AAAAAAATTAAACATGCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214582 24 + 181584905 AACCAC--AAAAAAATTAAACATGCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16212316 24 +  18395747 AACCAC--AAAAAAATTAAACATGCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5218143 24 +  26952557 AACCAC--AAAAAAATTAAACATGCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325850 26 +  82825804 AACCACAAAAAAAAATTAAACATGCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3990115 24 -   4237731 AACCAC--AAAAAAATTAAACATGCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260416 24 -   1175262 AACCAC--AAAAAAATTAAACATGCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598555 23 - 204313951 AACCAC--AAAAAA-TTAAGCATGCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55649240 23 -  71252344 AACCAC--AAAAAA-TTAAGCATGCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1344596 23 -   1400280 AACCAC--AAAAAA-TTAAGCATGCA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13137053 23 -  42888418 AACCAC--AAAAAA-TTAAGCATGCA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3022297 13 +   4132165 ATCTAA--AAATAAA-----------
i otoGar3.GL873679         I 2 I 7
s mm10.chr18                55484103 23 +  90702639 AATTAA--AATAAA-TCAAGCATCCA
i mm10.chr18               I 3 C 0
s canFam3.chr11             14874004 23 +  74389097 aacaat--taataa-tcaaatatgta
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2579067 23 +   3667625 AACTGA--AAAATG-TATAGCATGTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60503885 45 + 108143057 I
e proCoq1.NW_012155062v1     3543612 22 +  11683526 I

a score=191836.000000
s hg38.chr5_KI270796v1_alt     36533 17 +    172708 TAAAACTTAC----ACTCTCG
s panTro5.chr5             125146608 17 + 181907262 TAAAACTTAC----ACTCTCG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483558 17 + 183735486 TAAAACTTAC----ACTCTCG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675030 17 +   8933513 TAAAACTTAC----ACTCTCG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805033 17 + 163208435 TAAAACTTAT----ACTCTTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790933 17 + 180051392 TAAAACTTAC----ACTTCCG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214606 17 + 181584905 TAAAACTTAC----ACTTCCG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16212340 17 +  18395747 TAAAACTTAC----ACTTCCG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5218167 17 +  26952557 TAAAACTTAC----ACTTCCG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325876 17 +  82825804 TAAAACTTAC----ACTTCCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3990139 17 -   4237731 TAAAACTTAC----ACTTCCG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260440 16 -   1175262 TAAAACTTAC----AC-TCCG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598578 17 - 204313951 TAAAACTTAC----ACTCTTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55649263 17 -  71252344 TGAAACTTAC----ACTCTTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1344619 17 -   1400280 TAAAACTTAC----ACTCTTG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13137076 17 -  42888418 TAAAACTTAC----ACTCTTG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3543634 17 +  11683526 TAAAACTTAG----CCCCTTT
i proCoq1.NW_012155062v1   I 22 C 0
s otoGar3.GL873679           3022317 17 +   4132165 TAAAACTTAG----TCCTTTC
i otoGar3.GL873679         I 7 C 0
s mm10.chr18                55484126 17 +  90702639 TGAAACTTAC----AATCTCA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14874027 14 +  74389097 taaaatGTAG----ACTG---
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2579090 21 +   3667625 TAAAATGTACCTTGAATCTCT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60503885 45 + 108143057 I

a score=21021.000000
s hg38.chr5_KI270796v1_alt     36550 1 +    172708 T
s panTro5.chr5             125146625 1 + 181907262 T
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483575 1 + 183735486 T
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675047 1 +   8933513 T
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805050 1 + 163208435 T
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790950 1 + 180051392 T
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214623 1 + 181584905 T
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16212357 1 +  18395747 T
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5218184 1 +  26952557 T
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325893 1 +  82825804 T
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3990156 1 -   4237731 T
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260456 1 -   1175262 T
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598595 1 - 204313951 T
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55649280 1 -  71252344 T
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1344636 1 -   1400280 T
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13137093 1 -  42888418 T
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60503930 1 + 108143057 T
i micMur3.chr12            I 45 C 0
s proCoq1.NW_012155062v1     3543651 1 +  11683526 T
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3022334 1 +   4132165 T
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55484143 1 +  90702639 T
i mm10.chr18               C 0 I 70
s canFam3.chr11             14874041 1 +  74389097 T
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2579111 1 +   3667625 T
i dasNov3.JH567306         C 0 C 0

a score=546123.000000
s hg38.chr5_KI270796v1_alt     36551 43 +    172708 AAGGTAGAAATACAGGTT-----------TACA-------------ATAA--ATATATA-----TTTATTGATT
s panTro5.chr5             125146626 43 + 181907262 AAGGTAGAAATACAGGTT-----------TACA-------------ATGA--ATATATA-----TGTATTGATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483576 43 + 183735486 AAGGTAGAAATACAGGTT-----------TACA-------------ATAA--ATATATA-----TGTATTGATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675048 43 +   8933513 AAGGTAGAAATACAGGTT-----------TACA-------------ATAA--ATATATA-----TTTATTGATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805051 43 + 163208435 AAGGTAGAAATACAGGTT-----------TACA-------------ATAA--ATATATA-----TTTATTGATT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790951 43 + 180051392 AAGGTAGAAATACAGGTT-----------TACA-------------ATAA--ATATATA-----TTTATTGATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214624 43 + 181584905 AAGGTAGAAATACAGGTT-----------TACA-------------ATAA--ATATATA-----TTTATTGATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16212358 43 +  18395747 AAGGTAGAAATACAGGTT-----------TACA-------------ATAA--ATATATA-----TTTATTGATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5218185 43 +  26952557 AAGGTAGAAATACAGGTT-----------TACA-------------ATAA--ATATATA-----TTTATTGATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325894 43 +  82825804 AAGGTAGAAATACAGGTT-----------TACA-------------ATAA--ATATATA-----TTTATTGATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3990157 43 -   4237731 AAGGTAGAAATACAGGTT-----------TACA-------------ATAA--ATATATA-----TTTATTGATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260457 43 -   1175262 AAGGTCGAAATACAGCTT-----------TACA-------------ATAA--ATATATA-----TTTATTGATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598596 35 - 204313951 AAGGTAGAAATAAAGGTT-----------TAC-----------------A--ATATAT---------ATTGATT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55649281 39 -  71252344 AAGGTAGAAATATAGGCT-----------TACA-------------ATAA--ATATAT---------ATTGATT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1344637 43 -   1400280 AAGGTAGAAATATAGGCT-----------TACA-------------ATAA--ATATATA-----TTAATTGATT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13137094 43 -  42888418 AAGGTAGAAATATAGGCT-----------TACA-------------ATAA--ATATATA-----TTGATTGATT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60503931 45 + 108143057 AAGGTAGGAACATAGGTT-----------CACA-------------ATAAATATATATA-----TTTATTGATT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3543652 43 +  11683526 AAGGTAGTAACATAGGTT-----------CACA-------------ATGA--ATATATA-----TTTATTGATA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3022335 43 +   4132165 AAGGTAGGAACATAGGTT-----------CACA-------------GTAA--ATATATG-----TTTATGGGTC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14874043 72 +  74389097 ATGGTAGAAACATAAGTtatatatatatatacatatatatatgtatatat--atatataaagattttatttatt
i canFam3.chr11            I 1 I 171
s dasNov3.JH567306           2579112 30 +   3667625 ATGGTAGAG-------------------------------------ATAA--CTGTATG-----TTTATTGACT
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55484144 70 +  90702639 I

a score=266659.000000
s hg38.chr5_KI270796v1_alt     36594 18 +    172708 GAA-----TAAGTGTGAAAATAC
s panTro5.chr5             125146669 18 + 181907262 GAA-----TAAGTGTGAAAATAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483619 18 + 183735486 GAA-----TAAGTGTGAAAATAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675091 23 +   8933513 GAATAAATTAAGTGTGAAAATAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805094 23 + 163208435 GAATAAATTAAGTGTGAAAATAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122790994 23 + 180051392 GAATAAGTTAAGTGTGAAAATAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214667 23 + 181584905 GAATAAGTTAAGTGTGAAAATAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16212401 23 +  18395747 GAATAAGTTAAGTGTGAAAATAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5218228 23 +  26952557 GAATAAGTTAAGTGTGAAAATAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325937 23 +  82825804 TAATAAATTAAGTGTGAAAATAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3990200 23 -   4237731 GAATAAGTTAAGTGTGAAAATAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260500 23 -   1175262 GAATAAATTAAGTGTGAAAATAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598631 22 - 204313951 GAATAAATTAAGGG-AAAAATAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55649320 23 -  71252344 GAATAAATTAAGGGTAAAAATAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1344680 23 -   1400280 GAATAAATTAAGGGTAAAAATAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13137137 23 -  42888418 GAATAAATTAAGGGTAAAAATAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60503976 23 + 108143057 GAATAAATTAAGGATGACAATAC
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3543695 23 +  11683526 GAATAAATTAAAGATGACAATAC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3022378 23 +   4132165 AAATAAACTAAGGATGGTAATGC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14874286 18 +  74389097 -----GATTAAGGATGAAAATAC
i canFam3.chr11            I 171 I 1
s dasNov3.JH567306           2579142 22 +   3667625 GAATAAATTAAGAATGAAAATA-
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55484144 70 +  90702639 I

a score=541977.000000
s hg38.chr5_KI270796v1_alt     36612 33 +    172708 TTCAGTTAGCTAAAG------AATTTCAAAAGTCTCCTT
s panTro5.chr5             125146687 33 + 181907262 TTCAGTTAGCTAAAG------AATTTCAAAAGTCTCCTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483637 33 + 183735486 TTCAGTTAGCTAAAG------AATTTCAAAAGTCTCCTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675114 33 +   8933513 TTCAGTTAGCTAAAA------AATTTCAAAAGTCTCCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805117 33 + 163208435 TTCAGTTAGCTAAAG------GATTTCAAATGTCTCCTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122791017 33 + 180051392 TTCAGTTAGCTAAAG------GATTTCAAAAGTCTCCTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214690 33 + 181584905 TTCAGTTAGCTAAAG------GATTTCAAAAGTCTCCTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16212424 33 +  18395747 TTCAGTTAGCTAAAG------GATTTCAAAAGTCTCCTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5218251 33 +  26952557 TTCAGTTAGCTAAAG------GATTTCAAAAGTCTCCTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325960 33 +  82825804 TTCAGTTAGCTAAAG------TATTTCAAAAGTCTCCTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3990223 33 -   4237731 TTCAGTTAGCTAAAG------GATTTCAAAAGTCTCCTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260523 33 -   1175262 TTCAGTTAGCTAAAG------GATTTCAAATGTCTCCTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598653 33 - 204313951 TTCAGTTAGCTAAAG------GATTTCAAAAGTCTCCTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55649343 33 -  71252344 TTCAGTTAGCTAAAG------GATTTCAAAAGTCTCCTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1344703 33 -   1400280 TTCAGTTAGCTAAAG------GATTTCAAAAGTCTCCTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13137160 33 -  42888418 TTCAGTTAGCTAAGG------GATTTCAAAAGTCTCCTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60503999 33 + 108143057 TTCAGTTAGCTAAAG------GATTTCAAAAGTCTCCTT
i micMur3.chr12            C 0 I 109
s proCoq1.NW_012155062v1     3543718 33 +  11683526 TTCAGTTAGTTAAAG------GATTTCCAAAGTCTCCCT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3022401 32 +   4132165 TTAGGTTAGCTAAAG------GATCTCAAAAATCTCTC-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55484214 33 +  90702639 TTCTGTTACACCAAG------ATTTCCCAATACCCTCTT
i mm10.chr18               I 70 C 0
s canFam3.chr11             14874305 39 +  74389097 CTAAACAAGTAACAGAAATTAGATTTCAAAAGTTTCCTT
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2579164 30 +   3667625 ---GGTTAGCTAAGG------AATTTCACAAGTCTTCTT
i dasNov3.JH567306         C 0 C 0

a score=848093.000000
s hg38.chr5_KI270796v1_alt     36645  79 +    172708 CTAGGCTTATGGAA------AGTACATGCATGACATGATAC-ATAG--------AAGTTAGAGAAGTCCTCATTTTG------------------------------CCCCTTTC----------------------TTTTCTTTC--
s panTro5.chr5             125146720  79 + 181907262 CTAGGCTTATGGAA------AGTACATGCATGACATGATAC-ATAG--------AAGTTAGAGAAGTCCTCATTTTG------------------------------CCCCTTTC----------------------TTTTCTTTC--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483670  79 + 183735486 CTAGGCTTATGGAA------AGTACATGCATGACATGATAC-ATAG--------AAGTTAGAGAAGTCCTCATTTTG------------------------------CCCCTTTC----------------------TTTTCTTTC--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675147  79 +   8933513 CTAGGCTTATGGAA------AGTACATGCATGACATGATAC-ATAG--------AAGTTAGAGAAGTCTTCATTTTG------------------------------CTCCTTTC----------------------TTTTCTTTC--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805150  79 + 163208435 CTAGGCTTATGGAA------AGTACATGAATGGCATGATAC-ATTG--------AAGTTAGAGAAGTCCTCATTTTG------------------------------CCCCTTTC----------------------CTTTCTTTC--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122791050  80 + 180051392 CTAAGCTTATGGAA------AGTAAATGAATGACATGATAC-ATAG--------AAGTTGGAAAAGTCCTCAGTTTGC-----------------------------CCCCTTTC----------------------TTTTCTTTC--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214723  80 + 181584905 CTAAGCTTATGGAA------AGTAAATGAATGACATGATAC-ATAG--------AAGTTGGAAAAGTCCTCAGTTTGC-----------------------------CCCCTTTC----------------------TTTTCTTTC--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16212457  80 +  18395747 CTCAGCTTATGGAA------AGTAAATGAATGACATGATAC-ATAG--------AAGTTGGAAAAGTCCTCAGTTTGC-----------------------------CCCCTTTC----------------------TTTTCTTTC--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5218284  80 +  26952557 CTAAGCTTATGGAA------AGTAAATGAATGGCATGATAT-ATAG--------AAGTTGGAAAAGTCCTCAGTTTGC-----------------------------CCCCTTTC----------------------TTTTCTTTC--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28325993  79 +  82825804 CTAAGCTTATGGAA------AGTAAATGAATGACATGATAC-ATAG--------AAGTTGGAAAAGTCCTCATTTTG------------------------------CCCCTTTC----------------------TTTTCTTTC--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3990256  80 -   4237731 CTAAGCTTATGGAA------AGTAAATGAATGGCATGATAC-ATAG--------AAGTTGGAAAAGTCCTCAGTTTGC-----------------------------CCCCTTTC----------------------TTTTCTTTC--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260556  79 -   1175262 CTAAGCTTATGGGA------AGTAAATGAATGACATGATAT-GTAG--------AAGTTGGAAAAGTCCTCATTTTG------------------------------CCCCTTTC----------------------TTTTCTTTC--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598686  79 - 204313951 CTAGGCTTATGGAA------AGTGAATGAATGACATGAGGC-ATAG--------AAGTTTGAGAAGTCCTCATTTTG------------------------------TCCCTTTC----------------------TTTTCTTTC--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55649376  78 -  71252344 CTAGGCTTATGGAA------AGTCAATGAATGACATGAGGC-GTAG--------AAGTTAGAGAAGTCTTCATTTTG------------------------------CCCCTTT-----------------------TTTTCTTTC--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1344736  79 -   1400280 CTAGGCTTATGGAG------AGTAAATGAATGACATGAGGC-ATAG--------AAGTTAGAGAAGTCCTCATTTTG------------------------------CCCCTTTC----------------------TTTTCTTTC--
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13137193  79 -  42888418 CTAGGCTTATGGAA------AGTAAATGAATGATATGAGGC-ATAG--------AAGTTAGAGAAGTCCTCATTTTG------------------------------CCCCTTTC----------------------TTTTCTTTC--
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3543751 101 +  11683526 CCAGACGTGTGGAAAGTATTAATAAGTGAGTAACATAATAC-ATAG----TCAAAAATTAGAGAAGTCCT-ATTttt------------------------------tcctattc---------cttttctatatctttttctttc--
i proCoq1.NW_012155062v1   C 0 I 10
s otoGar3.GL873679           3022433 103 +   4132165 --AGGCTTGTGGAA------AATAAATGAGTAACTTAATAC-ACAG----TCAAAAATTAAAAAAGTACTCATTCAT------------------------------TCCTATTTGTATTTTTACTGTCCTTTACCCTTTTCTTTC--
i otoGar3.GL873679         C 0 I 6
s mm10.chr18                55484247  94 +  90702639 -GCAGCTTGAGCAA------AGGAGATGAATGGCAAGGGCCTATTGCCCATCACGGGTTAGGGGAGACATGATGCTGTTA---TGTA------------------AGCCTTGATC----------------------CTTCCCA----
i mm10.chr18               C 0 C 0
s canFam3.chr11             14874344 108 +  74389097 CCAGGCTTATGAAA------GTTAAGTGAATAATATAAGAC-ATAG----TC--AAGTTAGACAAATCCTCAttttcttc---tctatgtgtttctactttcttgatcccttttt----------------------tcttctttt--
i canFam3.chr11            C 0 I 7
s dasNov3.JH567306           2579194 113 +   3667625 CCAGGTTCATGGAT------ATTAAATG--TGGAATAAAAT-AAAG----TAAAAAGTTAGAACAtttctcatttttttcctttgtatttctatttttctttattctttcctctc----------------------tttttttttct
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60504032 109 + 108143057 I

a score=468113.000000
s hg38.chr5_KI270796v1_alt     36724 26 +    172708 TTCTTTGTGGTCACAGTTTATTGACT
s panTro5.chr5             125146799 26 + 181907262 TTCTTTGTGGTCACAGTTTATTGACT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483749 26 + 183735486 TTCTTTGTGGTCACAGTTTATTGACT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675226 26 +   8933513 TTCTTTGTGGTCACAGTTCATTGACT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805229 26 + 163208435 TTCTTTGTGGTCACAGTTTATTGACT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122791130 26 + 180051392 TTCTTTGTGGTCACAGTTTATTGACT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214803 26 + 181584905 TTCTTTGTGGTCACAGTTTATTGACT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16212537 26 +  18395747 TTCTTTGTGGTCACAGTTTATTGACT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5218364 26 +  26952557 TTCTTTGTGGTCACAGTTTATTGACT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28326072 26 +  82825804 TTCTTTGTGGTCACAGTTTATTGACT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3990336 26 -   4237731 TTCTTTGTGGTCACAGTTTATTGACT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260635 26 -   1175262 TCCTTTGTGGTCACAGTTTATGGACT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598765 26 - 204313951 TTCTTTGTGGTCACAGTTTATTGACT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55649454 26 -  71252344 TTCTTTGTGGTCACAGTTTATTGACT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1344815 26 -   1400280 TTCCTTGTGGTCACAGTTTATTGACT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13137272 26 -  42888418 TTCCTTGTGGTCACAGTTTATTGACT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60504141 26 + 108143057 TTCTTTGTGATCACAGTTTATTGACT
i micMur3.chr12            I 109 I 14
s proCoq1.NW_012155062v1     3543862 26 +  11683526 ttCTTTGTGGTCACAGTTTATTGACT
i proCoq1.NW_012155062v1   I 10 I 7
s otoGar3.GL873679           3022542 26 +   4132165 TTCTTTGTGATCACAGTTTATTGACT
i otoGar3.GL873679         I 6 I 6
s mm10.chr18                55484341  7 +  90702639 TTCTCCA-------------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14874459 26 +  74389097 ttctttGTGGTCACAGTTTACTGACT
i canFam3.chr11            I 7 C 0
s dasNov3.JH567306           2579307 26 +   3667625 ttctttGTGGTTGCAGTTTACTGATT
i dasNov3.JH567306         C 0 C 0

a score=5204.000000
s hg38.chr5_KI270796v1_alt     36750  4 +    172708 C--------TTT--
s panTro5.chr5             125146825  4 + 181907262 C--------TTT--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483775  4 + 183735486 C--------TTT--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675252  4 +   8933513 C--------TTT--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805255  4 + 163208435 C--------TTT--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122791156 12 + 180051392 CTCTAATTCTTT--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214829 12 + 181584905 CTCTAATTCTTT--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16212563 12 +  18395747 CTCTAATTCTTT--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5218390 12 +  26952557 CTCTAATTCTTT--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28326098 11 +  82825804 CTCTAACT-TTT--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3990362 12 -   4237731 CTCTAATTCTTT--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260661 12 -   1175262 CTCTAACTCTTT--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598791 12 - 204313951 TTGTAACTCTGT--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55649480 12 -  71252344 TTGTAACTCTTT--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1344841 12 -   1400280 TTGTAACTCTTT--
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13137298 12 -  42888418 TTGTAACTCTTT--
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3543895  4 +  11683526 --------CTTT--
i proCoq1.NW_012155062v1   I 7 I 2
s otoGar3.GL873679           3022574  4 +   4132165 --------CTTT--
i otoGar3.GL873679         I 6 I 2
s mm10.chr18                55484348  4 +  90702639 --------CTTA--
i mm10.chr18               C 0 C 0
s canFam3.chr11             14874485  2 +  74389097 ----------TT--
i canFam3.chr11            C 0 I 11
s dasNov3.JH567306           2579333  4 +   3667625 ----------TTGT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60504167 14 + 108143057 I

a score=1918698.000000
s hg38.chr5_KI270796v1_alt     36754 124 +    172708 AAAAT-GATGGGATTTTACAGAATTCATACTATTACCTTTTTGCCTATGTTGTATAATATAGAC-AAAAGCTAAATAGTAAGTGAAGCGAAAGGCTGAGGATAGAAAGGAAACCTCATTCTTTCAC
s panTro5.chr5             125146829 124 + 181907262 AAAAT-GATGGGATTTTACAGAATTCATACTATTACCTTTTTGCCTACGTTGTATAATATAGAC-AAAAGCTAAATAGTAAGTGAAGCGAAAGGCTGAGGATAGAAAGGAAACCTCATTCTTTCAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483779 124 + 183735486 AAAAT-GATGGGATTTTACAGAATTCATACTATTACCTTTTTGCCTACGTTGTATAATATAGAC-AAAAGCTAAATAGTAAGTGAAGCGAAAGGCTGAGGATAGAAAGGAAACCTCATTCTTTCAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675256 124 +   8933513 AAAAT-GATGGGATTTTACAGAATTCATACTATTACCTTTTTGCCTACATTGTGTAATATAGAC-AAAAGCTAAATAGTAAGTGAAGCGAAAGGCTGAGGATAGAAAGGAAACCTCATTCTTTCAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805259 124 + 163208435 AAAAT-GATGGGATTTTACAGAATTCCTACTTTTACCTTTTTGCCTACATTGTGTAATATAGAC-AAAAACTAAATAGTAAGTGAAGCAACAGGCTGAGGATAGAAAGGAAACCTCATTCTTTCAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122791168 124 + 180051392 AAAAT-GATGGGATTTTACAGAATTTATACTTTTACCTTTTTGCCTACATTGTATAATATAGAC-AAAAGCTAACTAGTAAGTGAAGCGAAAGGCTGAGGATAGAAAGGAAACCTCATTTTTTCAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214841 124 + 181584905 AAAAT-GATGGGATTTTACAGAATTTATACTTTTACCTTTTTGCCTACATTGTATAATATAGAC-AAAAGCTAACTAGTAAGTGAAGCGAAAGGCTGAGGATAGAAAGGAAACCTCATTCTTTCAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16212575 124 +  18395747 AAAAT-GATGGGATTTTACAGAATTTATACTTTTACCTTTTTGCCTACATTGTATAATATAGAC-AAAAGCTAACTAGTAAGTGAAGCGAAAGGCTGAGGATAGAAAGGAAACCTCATTCTTTCAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5218402 124 +  26952557 AAAAT-GATGGGATTTTACAGAATTTATACTTTTACCTTTTTGCCTACATTGTATAATATAGAC-AAAAGCTAACTAGTAAGTGAAGCGAAAGGCTGAGGATAGAAAGGAAACCTCATTCTTTCAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28326109 124 +  82825804 AAAAT-GATGGGATTTTACAGAATTTATACTTTCACCTTTTTGCCTACATTGTATAATATAGAC-AAAAGCTAACTAGTAAGTGAAGCGAAAGGCTGAGGATAGAAAGGAAACCTCATTCTTTCAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3990374 124 -   4237731 AAAAT-GATGGGATTTTACAGAATTTATACTTTTACCTTTTTGCCTACATTGTATAATATAGAC-AAAAGCTAACTAGTAAGTGAAGCGAAAGGCTGAGGATAGAAAGGAAACCTCATTCTTTCAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260673 124 -   1175262 AAAAT-GATGGGATTTTACAGAATTTATACTTTTACCTTTTTGCCTACATTGTATAATATAGAC-AAAAGCTAACCAGTAAGTGAAGCGAAAGGCTGAGGATAGAAAGGAAACCTCATTCTTTCAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598803 124 - 204313951 AAAAT-AATGGGACTGTACAGAATTTATACTTTTACCTTTTTGCCTACATTTTATAATATAGAC-GAAAGCTAACTAGTAAGTGAACAAAAAGGCCGAGGATAAGATGGAAACCTAATTCTTTCAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55649492 125 -  71252344 AAAAT-GATAGGACTGTACAGAATTTATACTTTTACCTTTTTGCCTACATTTTATAATATAGACAAAAAGCTAACTAGTAAGTGAACCAAAAGGCTGAGGATAGAAAGGAAACCTAATTCTTTCAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1344853 124 -   1400280 AAAAT-GATGGGACTGTACAGAATTTATGCTTTTACCTTTTTGCCTACGTTTTATAATATAGGC-AAAAGCTAACTAGTAAGTGAACCAAAAGGCGGAGAATAGAAAGAAAACCTAATTCTTTCAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13137310 124 -  42888418 AACAT-GATGGGACTGTACAGAATTTATACTTTTACTTTTTTGCCTACATTTTATAGTATAGAC-AAAAGCTAACTAGTAAGTGAACCAAAAGGCTGAGGATAGAAAGGAAACCTAATTCTTTCAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60504181 124 + 108143057 AAAAT-GATGTGATTTTACAGAATTTATACCGCTACCCTTTTGCTTACATTGTATAACACAGAC-AAGAACGAACCAGTAAGTGAACCCAAAAGCTGAGGATAGAAAGGAACCCTCAGTCTGTCAC
i micMur3.chr12            I 14 I 124
s proCoq1.NW_012155062v1     3543901 124 +  11683526 AAAAT-GATGTGATTTTACAGAATTTATACCTCTACCTTTTTGCTTACCTTGTATAATACAGAC-AAGAACTAACTAGCAAGTGAACAAGAAAGCTGAGGCTAAAAAGGAAACCTCAGTCTTTCAC
i proCoq1.NW_012155062v1   I 2 C 0
s otoGar3.GL873679           3022580 124 +   4132165 AGAAT-GATGTGATTTTACAGACTTTACACCTCTACCCTTTTGCTTACCTTGAGTAATATAGAA-AACAACTAAGTAGTAAGCGAATTGAAAAGCTGAGAATAGGAAGGAAAACTCAGTTTTGCAC
i otoGar3.GL873679         I 2 C 0
s mm10.chr18                55484352 115 +  90702639 AATATAGATGACATCATACAGAGTTTACACATTTACTCCTCTGCCTACAATGTTTGAAATGGAC-AAGGATTGGCTCCTAAG-GGACTGGGAAGCTAAGGATGGCAGGAAGAGCTCA---------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14874498 124 +  74389097 ATAAA-GATGCAATTTTATGGAATTTACACCTCTCACTTTTTGCCTATATCAGAGAATATAGAT-AAAATCTAATAAGTCAGTGAGCCAGGAAGCTGAGAATAGAAAGGAAATGTAAGTCTTTCAC
i canFam3.chr11            I 11 C 0
s dasNov3.JH567306           2579337 121 +   3667625 -AAAT-GGTAAGATTTTATAAAATTCACATGTCTGCCCTTTTGCTTACATTCTAC--TAGAGAC-AAGAATTGACTATTAAGTGAATGAGGAAGCCCAGAATAGAAAGAAAACTTTGATCTTTCAC
i dasNov3.JH567306         C 0 C 0

a score=1252214.000000
s hg38.chr5_KI270796v1_alt     36878 125 +    172708 TGATATTTTTTCCTCATGTTTGTGTTTTTCTTGTCTACCAATATAGG---TCCACAA-----CGTAAAATCAATAATTGGTCAG---TTT--TTTTAGAAACAGGTGGTTGAATCA-AGGCTAGAGCAATATGAATA--G---A
s panTro5.chr5             125146953 128 + 181907262 TGATATTTTTTCCTCATGTTTGTGTTTTTCTTGTCTACCAATATAGG---TCCACAA-----TGTAATATCAATAATTGGTCAG---TTT--TTTTAGAACCAGGTGGTTGAATCA-AGGCTAGAGCAATATGAATA--GAAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126483903 126 + 183735486 TGATATTTTTTCCTCATGTTTGTGTTTTTCTTGTCTACCAATATAGG---TCCACAA-----TGTAATATCAATAATTGGTCAG---TTT--TTTTAGAACCAGGTGGTTGAATCA-AGGCTAGAGCAATATGAATA--G--AA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675380 125 +   8933513 TAATATTTTTTCCTCATGTTTGT-TTTTTCTTATCTACCAATATAGG---TCCACAA-----CGTAAAATCAA-AATTGGTCAG---TTT--TTTTAGAACCAGGTGGTTGGATCA-AGGCTAGAGCAATATGAATA--G-AAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805383 127 + 163208435 TGATATTTTTTCCTCATGTTTGTGTTTTTCTTGTCTACCAATATAGG---TCCACAA-----TGTAAGATCAATAATTGGTCAG---TTTTCTTTTAGAATCGGGTGGTTGAATCA-AGGCTAGAACAATATGAATA--G---A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122791292 125 + 180051392 TGATATTTTTTCCTCATGTTTGTGTTTTTCCTGTCTTCCAGTGTAGG---TCCATAA-----TGTAAAATCAATAGTTGATCAG---TT---TTTTAGAACTGGGTGGTTGAATCA-AGGCTAGAATAATATGAATA--G--AA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124214965 125 + 181584905 TGATATTTTTTCCTCATGTTTGTGTTTTTCCTGTCTTCCAGTGTAGG---TCCATAA-----TGTAAAATCAATAGTTGGTCAG---TT---TTTTAGAACTGGGTGGTTGAATCA-AGGCTAGAATAATATGAATA--G--AA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16212699 125 +  18395747 TGATATTTTTTCCTCATGTTTGTGTTTTTCCTGTCTTCCAGTGTAGG---TCCATAA-----TGTAAAATCAATAGTTGGTCAG---TT---TTTTAGAACTGGGTGGTTGAATCA-AGGCTAGAATAATATGAATA--G--AA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5218526 125 +  26952557 TGATATTTTTTCCTCATGTTTGTGTTTTTCCTGTCTACCAGTGTAGG---TCCATAA-----TGTAAAATCAATAGTTGGTCAG---TT---TTTTAGAACTGGGTGGTTGAATCA-AGGCTAGAATAATATGAATA--G--AA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28326233 125 +  82825804 TGATATTTTTTCCTCATGTTTGTGTTTTTCCTGTCTACCAATGTAGG---TCCATAA-----TGTAAAATCAAAAATTGGTCAG---TT---TTTTAGAACTGGGTGGTTGAATCA-AGGCTAGAATAATATGAATA--G--AA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3990498 125 -   4237731 TGATATTTTTTCCTCATGTTTGTGTTTTTCCTGTCTACCAGTGTAGG---TCCATAA-----TGTAAAATCAATAGTTGGTCAG---TT---TTTTAGAACTGGGTGGTGGAATCA-AGGCTAGAATAATATGAATA--G--AA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260797 125 -   1175262 TGATATTTTTTCCTCATGTTTGTGGTTTTCCTGTCTACCAATGTAGG---TCCATAA-----TGTAAAATCAATAATTGGTCAG---TT---TTTTAGAACTGGGTGGTTGAATCA-AGGCTAGAATAATATGAATA--G--AA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123598927 122 - 204313951 TG--TATTTTTCCT-CTTTTTTTGATTTTCCTATCTACCAACATAGGCGCTTCATAA-----TATAAAACCAAT--TAGGTCAG---TTT--TTTTAGAAACTGGTGGTTTAATCA-TGGCTAGAATAACATGAACA--G----
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55649617 128 -  71252344 TA--TGTTTTTCCTGATGTTTTTGATTTTCCTGTCTACCAATGTAGGCGCTTCATAA-----TATAAAATCAATAATTGGTCCT---TTT--TTTTGGAAGCTGGTGGTTGAATCA-AGGCTAGAATAACATGAACA--G-AAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1344977 130 -   1400280 TA--TTTTTTTCCTCATGTTTTTTATTTTCCTATCTACCAATGTAGGTGCTTCATAA-----TATAAAATCAATAATTGGACAGTTTTTT--TTTTAGAAGCTGGTGATTGAATCA-AGACTAGAATAACATGAACA--G--AA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13137434 129 -  42888418 TA--TTTTTTTCTTCATGTTTTTGATTTTCCTATCTGCCAATGTAGGCACTTCATAA-----TATAAAATCAATAATTGGTCAG--TTTT--TTTTAGAAGCTGGTGGTTGAATCA-AGGCTAGAATAACACGAATA--G-AAA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3544025 127 +  11683526 TGATATTGTCCCTTCATGTTTACATTCTTCCTGTCTACCAATGTAGGTGCTCCATAACATTAAATACAATCAA---CTGGTCAG---TG---TTTTAGAACGAGGTAGTTGGATCA-AGTTTAGTACAACATACAGA-------
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3022704 111 +   4132165 TGATATTAGCCCCTCACATATACATTCTTCCTGTCTACCTCTGT------------------AATAAAATCAA---CTGGTCAG---TG---TCTTAGAACAAGGTATTTCGATTG-AGGTCGGGACAAGATAAACAGG-----
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55484467 123 +  90702639 -GATTTTCTTGTTTTATCTGTGTCATTCCTCTGTCCAGCAACAGTG----TCCTCCC-----CTTAAAAGCATTAATGACCCCA---GG---ATTTGGTATCAGGCAATTCTATCAGAAGCTAGAATAATAGACATA--G--G-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14874622 124 +  74389097 TGATATCTCTCCTTCCTGTTTATGGTTTTCCTGTCTGCCAGTCTAGGTCTTCTATAA-----TGTCAAGTCAG---TTGGTTAA---TT---TTTCAGAACCAGGTAGTTGGATTG-AGGACTGGACAAAACAAATA--G--A-
i canFam3.chr11            C 0 I 10
s dasNov3.JH567306           2579458 124 +   3667625 CAATATTTCTCCTTTTCATTTATGTTTTTCCTGTCTCCCAATCTAGGTGTTCTATAA-----TCTAAAATCAA---TTGGCTAA---TT---TTTTAGAAGCAGGTAGCTGGATCA-AAGATAGGAAAACCCGAATA--G--A-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60504305 124 + 108143057 I

a score=1722994.000000
s hg38.chr5_KI270796v1_alt     37003 112 +    172708 A--AAAAAA---------ATCAG-AGATGTTACCTTTAT-----AGATAGAGCATTTCCTAGTTGTTTT----AAAC---------------TGTGGTAAGTTGCAA--AATCTGTTCAAGACATTTCTCATAAAAACTGCTGTAAA------------TGT
s panTro5.chr5             125147081 112 + 181907262 A--AAAAAA---------ATCAG-AGATGTTACCTTTAT-----AGATAGAGCATTTCCTAGTTGTTTT----AAAC---------------TGTGGTAAGTTGCAA--AATCTGTTCAAGACATTTCTCGTAAAAACTGCTGTAAA------------TGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126484029 112 + 183735486 A--AAAAAA---------ATCAG-AGATGTTACCTTTAT-----AGATAGAGCATTTCCTAGTTGTTTT----AAAC---------------TGTGGTAAGTTGCAA--AATCTGTTCAAGACATTTCTCGTAAAAACTGCTGTAAA------------TGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675505 112 +   8933513 A--AAAAAA---------ATCAG-AGATGTTACCTTTAT-----AGATAGAGCATTTCCTAGTTGTTTT----AAAC---------------TGTGGTAAGTTGCAA--AATCTGTTCAAGACATTTCTCATAAAAACTGCTGTAAA------------TGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805510 112 + 163208435 A--AAAAAA---------ATCAG-AGATGTTACCTTTAT-----AGATAGAGCATTTCCTAGTTGTTTT----AAAC---------------TGTGGTAAGTTGCAA--AATCTGTTCAAGACATTTCTCATAAAAACTGCTGTAAA------------TGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122791417 112 + 180051392 A--AAAAAT---------TTTAG-AGATGTTACCTTTAT-----AGACAGAGCATTTCCTAGTTGTTTT----AAAC---------------TGTGGTAAGCTGCAA--AATCTGTTCAAGACATTTCTCATAAAAACTGCTGTAAA------------TGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124215090 112 + 181584905 A--AAAAAA---------TTTAG-AGATGTTACCTTTAT-----AGACAGAGCATTTCCTAGTTGTTTT----AAAC---------------TGTGGTAAGTTGCAA--AATCTGTTCAAGACATTTCTCATAAAAACTGCTGTAAA------------TGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16212824 112 +  18395747 A--AAAAAA---------TTTAG-AGATGCTACTTTTAT-----AGACAGAGCATTTCCTAGTTGTTTT----AAAC---------------TGTGGTAAGTTGCAA--AATCTGTTCAAGACATTTCTCATAAAAACTGCTGTAAA------------TGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5218651 127 +  26952557 A--AAAAAA---------TTTAG-AGATGTTACCTTTAT-----AGACAGAGCATTTCCTAATTGTTTT----AAACAATTGTTTTAAACAATGTGGTAAGTTGCAA--AATCTGTTCAAGACATTTCTCATAAAAACTGCTGTAAA------------TGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28326358 114 +  82825804 AAGAAAAAA---------TTTAG-AGATGTTACCTTTAT-----AGACAGAGCATTTCCTAGTTGTTTT----AAAC---------------TGTGGTAAGTTGCAA--AATCTATTCAAGACATTTCTCATAAAAACTGCTGTAAA------------TGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3990623 112 -   4237731 A--AAAAAA---------TTTAG-AGATGTTACCTTTAT-----AGACAGAGCATTTCCTAGTTGTTTT----AAAC---------------TGTGGTAAGTTGCAA--AATCTGTTCAAGACATTTCTCATAAAAACTGCTGTAAA------------TGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      260922 108 -   1175262 A--AAAAAA---------TTTAG-AGATGTTACCTTTAT---------AGAGAATTTCCTAGTTGTTTT----AAAT---------------TGTGGTAAGTTACAA--AATCTGTTCAAGACATTTCTCATAAAAACTGCTGTAAA------------TGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123599049 112 - 204313951 A--AAAAGA---------TTCAG-AGACGTTGCCTTTAT-----AGACAGAGTATTTCCTAGTTGTTTT----AATC---------------TGTGGTAAGTTGCAA--AATCTATTCAATACATTTCTCATAAAAACTGCTGTAAA------------tat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55649745 112 -  71252344 A--AAAAAA---------TTCAG-AGACATTGCCTTTAT-----AGACAGTGCATTTCCTAGTTGTTTT----AAAC---------------CGTGGTAAGTTGCAA--AATCTATTCAATACATTTCTCATAAAAACTGCTGTAAA------------TGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1345107 112 -   1400280 A--AAAAAA---------TTCAG-ACACGTTGCCTTTAT-----AGACAGTGCATTTTCTAGTTGTTTT----AAAC---------------TGTGGTAAGTTGCAA--AATCTATTCCATACATTTCTCATAAAAACTGCTGTAAA------------TGT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13137563 112 -  42888418 A--AAAAAA---------TTCAG-AGACATTGCCTTTAT-----AGACAGAGCATTTTCTAGTTGCTTT----AAAC---------------TGTGGTAAGTTTCAA--AATCTATTCAATACATTTCTCATAAAAACTGCTGTAAA------------TGT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60504429 112 + 108143057 A--AAAAAA---------ATCAG-ATGAGTCACTTCTAT-----AGACAGATCATTTTCTGGTTGTTTT----AAAC---------------CATGATATGTTGCAA--AATCCATTCAAGACATTTCTCGTAATAACTGCTATTAA------------TAT
i micMur3.chr12            I 124 I 5
s proCoq1.NW_012155062v1     3544152 111 +  11683526 ---AAAAAA---------ACCAG-AGAAGTCACTTCTAT-----AGACAGATCATTTTCTGGTTGTTTT----AGAC---------------TGTGGTAAGTTGCAA--AATCCATTCAAGACATTTATCATAATAACTGTTATAAA------------TAT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3022816 112 +   4132165 A--AAATAA---------ATCAG-AGAAGTCACTTCTAT-----AGACAGTTCATTTTCTGGTTGTTTT----AAAC---------------TGTGGTCAGTTGCCA--AATCCATTCAAGACATTACTCATAATGACTGTTATAAA------------TAT
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55484590 122 +  90702639 ---AAAAAA---------AATAG-AGATGTCTTTTTTTTGTTAAAGACAAACCATTTCCTGATTTTTTTTTAAAAAA---------------ACTAATACGTTGCGAATAATCTATTTAAGACATTTCTCGTAGTAACTGCTATAAA------------tat
i mm10.chr18               C 0 C 0
s canFam3.chr11             14874756 112 +  74389097 A--ATAAAT---------TTCAGAAGAAACCACTTCTGT-----AGACAAAGAATTTTCTGGTTGCTTT----AAAC---------------TGTAGTAGGTCACTA--AATCCATTCAGGACATTTCTCatagtaactg-tataaa------------tat
i canFam3.chr11            I 10 C 0
s dasNov3.JH567306           2579582 130 +   3667625 ---AAAGCACACACACCTTTCAG-AAAAGCTACTTCCAT---------AGTATATCTTGTGTTTTTTTTTT--AAAC---------------TGTGGTAAATTGCAA--AATCTTTTCAATACATTTCTCATAATAACTGCTATCAACTATTTAATAATTAT
i dasNov3.JH567306         C 0 C 0

a score=151477.000000
s hg38.chr5_KI270796v1_alt     37115 11 +    172708 Ggaatgtttac
s panTro5.chr5             125147193 11 + 181907262 Ggaatgtttac
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126484141 11 + 183735486 Ggaatgtttac
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675617 11 +   8933513 Ggaatgtttac
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805622 11 + 163208435 Ggaatgtttac
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122791529 11 + 180051392 Ggaatgtttac
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124215202 11 + 181584905 Ggaatgtttac
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16212936 11 +  18395747 Ggaatgtttac
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5218778 11 +  26952557 Ggaatatttac
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28326472 11 +  82825804 Ggaatgtttac
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3990735 11 -   4237731 Ggaatgtttac
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      261030 11 -   1175262 Ggaatgtttac
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123599161 11 - 204313951 ggaatgtttac
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55649857 11 -  71252344 Ggaatgtttac
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1345219 11 -   1400280 Ggaatgtttac
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13137675 11 -  42888418 Ggaatgtttac
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3544263 10 +  11683526 -CAAAATTTAC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3022928 11 +   4132165 CTCACGTTAAT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55484712 11 +  90702639 caaatgtttac
i mm10.chr18               C 0 C 0
s canFam3.chr11             14874868 11 +  74389097 caaatatttac
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2579712 11 +   3667625 CACATAAttac
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60504541  5 + 108143057 I

a score=1965331.000000
s hg38.chr5_KI270796v1_alt     37126 139 +    172708 tatgtgccagatattacactaagcactcacagaca-tatttcatttaaAAC----AC---AGGACCTCCTGAATC-ta-tttctcaaatggagagtccagatccatttgttaaaacagtttagtggatcacgac-tagcatt------aaaaaaaa-----
s panTro5.chr5             125147204 139 + 181907262 tatgtgccagatattacactaagcactcacagacg-tatttcatttaaAAC----AC---AGGACCTCCTGAATC-ta-tttctcaaatggagcgtccagatccatttgttaaaacagtttagtggatcacgac-tagcatt------aaaaaaaa-----
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126484152 138 + 183735486 tatgtgccagatattacactaagcactcacagacg-tatttcatttaaAAC----AC---AGGACCTCCTGAATC-ta-tttctcaaatggagcgtccagatccatttgttaaaacagtttagtggatcacgac-tagcatt-------aaaaaaa-----
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675628 138 +   8933513 tatgtgccagatattacactaagcactcacagacg-tatttcatttaaAAC----AC---AGGACCTCCTGAATC-TA-TTTCTCAAA-GGAGAGTCCAGATCCATttgttaaaacagtttagtggatcacgac-tagcatt------aaaaaaaa-----
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805633 142 + 163208435 tgtgtgccagatattgcactaagcactcacagatg-tatttcgtttaaaac----acagaaggacctcctgaATC-ta-tttctcaaacggaaagtctagatccatttgttaaaacagtttagtcgatcatgac-tagcatt------aaaaacaa-----
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122791540 136 + 180051392 tatgtgccagatattacactaagcactca----ca-tatttcatttaaaac----acagaaggacctcctgaATC-ta-tttctcaaacagaaagtccagacctatttgttaaaacagtttagtggattatgac-tagcatt------acaaaa-------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124215213 136 + 181584905 tatgtgccagatattacactaagcactca----ca-tatttcatttaaaac----acagaaggacctcctgaATC-ta-tttctcaaacagaaagtccagacctatttgttaaaacagtttagtggattatgac-tagcatt------acaaaa-------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16212947 136 +  18395747 tatgtgccagatattacactaagcactca----ca-tatttcatttaaaac----acagaaggacctcctgaATC-ta-tttctcaaacagaaagtccagacctatttgttaaaacagtttagtggattatgac-tagcatt------acaaaa-------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5218789 136 +  26952557 tatgtgccagatattacactaagcactca----ca-tatttcatttaaaac----acagaaggacctcctgaATC-ta-tttctcaaacagaaagccgagacctatttgttaaaacagtttagtggattatgac-tagcatt------acaaaa-------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28326483 136 +  82825804 tatgtgccagatattacactaagcactca----ca-tatttcatttaaaac----acagaaggacctcctgaATC-tg-tttctcaaacgggaagtacagacctatttgttaaaacagtttagtggattatgac-taacatt------acaaaa-------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3990746 136 -   4237731 tatgtgccagatattacactaagcactca----ca-tatttcatttaaaac----acagaaggacctcctgaATC-ta-tttctcaaacagaaagtccagacctatttgttaaaacagtttagtggattatgac-tagcatt------acaaaa-------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      261041 140 -   1175262 tatgtgccagatattacactaagcactcacaggca-tatttcatttaaaac----acagaaggacctcctgaATC-ta-tttctcaaacggaaagtccagacctatttgttaaaacagtttagtagattataac-tagcatt------aaaaaa-------
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123599172 140 - 204313951 tgtgtgccagatattacactaagcactcatacatg-tatttcatttaaAAC----ACAGAAGGAACACCTGAATC----tttctcaaactgagagtccagatccatttgttaaaacagtttaatggattatgac-tagcatt------taaagaaa-----
i calJac3.chr2             C 0 I 4
s saiBol1.JH378106          55649868 141 -  71252344 tgtgtgccagatattacactaagcactcatacaag-tatttcatttaaAAC----ACAGAAGGAATACCTGAATC-tg-tttctcaaactgagagtccagat-catttgttaaaacagtttaatggattatgac-cagcatt------tttaaaaa-----
i saiBol1.JH378106         C 0 I 4
s cebCap1.NW_016107829v1     1345230 142 -   1400280 tgtgtgccagatattacactaagcacccatacatg-tatttcatttaaAAC----ATAAAAGGAACGCCTGAATC-tg-tttctcaaactgagagtccagatccatttgttaaaacagtttaatggattatgac-tagcatt------taaaaaaa-----
i cebCap1.NW_016107829v1   C 0 I 4
s aotNan1.NW_018505940v1    13137686 142 -  42888418 tgtgtgccagatattacactaagcactcatacatg-tatttcatttaaAAC----ACAGAAGGAACGCCTGAATC-tg-tttcccaaactgagagtccagatccatttgttaaaacagtttaatggattatgac-tagcatt------taaaaaaa-----
i aotNan1.NW_018505940v1   C 0 I 4
s micMur3.chr12             60504546 137 + 108143057 TATGTTCCAGATACTATACTAATCATTCACACACA-TAC-----TTAAAAT----ACAGAAGAACCTCCTGAATC-TG-TTTTTCAGACTGGGAGTCCAGATCCATTTTTTAAAATGGTTTAGTGGATTAAGAC-TAGCATT------AAAAAAAA-----
i micMur3.chr12            I 5 I 627
s proCoq1.NW_012155062v1     3544273 143 +  11683526 TATGTGCCACATTCTACACTAATGGCTCACACACG-TACTTCATTTAAAAC----ACAGAAGAACCTCCTCAATCTtg-tttttcagactgagagtccagactcatttattaaaacagtttagtggattaagac-tagcatt------aaaaaaaa-----
i proCoq1.NW_012155062v1   C 0 I 5
s otoGar3.GL873679           3022939 140 +   4132165 GGTGTGTCTGATACTCCACTAGGTACTCACGCACA-TACTTCACTTAAAAC----AC-----AACTGCCTGAATC-tg-tttttcaaactgagagttcagatcaatttgctgaaacag----gtggattgagacttagcatttaggaaaaaaaaaa-----
i otoGar3.GL873679         C 0 I 5
s mm10.chr18                55484723 142 +  90702639 ccagtggcagatgctacgctaagtacacacacact-tatttcatttaaaac----acagaagaaccTCCTGAACT-tg-tttttcaaactgaaggttcagacctatttattaaaacagtgtagtggattccaac-tggcatt------tgaaaaca-----
i mm10.chr18               C 0 C 0
s canFam3.chr11             14874879 141 +  74389097 tatgtgccagataccaaaataagcactcacacacattatttcatttaaacc----acaaaggaacctcttgaATT-TG-TTTTTCATA-TAAGGACCCAGA-CCATTTATtaaaatagtttagtggatgatcac-tggcatt------aaaaaaaa-----
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2579723 153 +   3667625 tatgtgccagaatttacactgtgcacttacacaaattatttcatttaaAACCTGAAAGAAAGAAGCACATGAATC-TGCTTTTTTCATTTGTGGTTTGAGACAAATTTATTaaaacagttttgtggattatgac-cagtatt------ttaaaatatagaa
i dasNov3.JH567306         C 0 C 0

a score=1160508.000000
s hg38.chr5_KI270796v1_alt     37265 83 +    172708 taaattagattggaaaataacatcgtgcatcatatataataatagcaaatactgcttcttaaaat-gtttgttt----cagtgtatgt
s panTro5.chr5             125147343 83 + 181907262 taaattagattggaaaataacatcgtgcatcatgtataataatagcaaatactgcttcttaaaat-gtttgttt----cagtgtatgt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126484290 83 + 183735486 taaattagattggaaaataacatcatgcatcatgtataataatagcaaatactgcttcttaaaat-gtttgttt----cagtgtatgt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675766 83 +   8933513 taaattagattggaaaataacatcgtgcatcttatataataatagcaaatactgcttcttaaaat-gtttgttt----cagtgtatgt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805775 83 + 163208435 taaattagattggaaaataacattgtgcgtcatatataataattgcaaatactgcttcttaaaat-gtttgttt----cagtgtatgt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122791676 82 + 180051392 -aaattagattggaaaagaacattgtgcatcatatataataattgcaaatactgcttcttaaaat-gtttgttt----cagtgtatgt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124215349 82 + 181584905 -aaattagattggaaaagaacattgtgcatcatatataataattgcaaatactgcttcttaaaat-gtttgttt----cagtgtatgt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16213083 82 +  18395747 -aaattagattggaaaataacattgtgcatcatatataataattgcaaatactgcttcttaaaat-gtttgttt----cagtgtatgt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5218925 82 +  26952557 -aaattagattggaaaataacattgtgcatcatacataataattgcaaatactgcttcttaaaat-gtttgttt----cagtgtatgt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28326619 82 +  82825804 -aaattagattggaaaataacattgtgcatcatatataataattgcaaatactgcttcttaaaat-gtttgttt----cagtgtatgt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3990882 82 -   4237731 -aaattagattggaaaataacattgtgcatcatatataataattgcaaatactgcttcttaaaat-gtttgttt----cagtgtatgt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      261181 82 -   1175262 -aaattagattgtaaaataacattgtgcatcatatataataattgcaaatactgcttcttaaaat-gtttcttt----cagtgtatgt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123599316 83 - 204313951 taaattagactggaaaataacattgtatatcacctgtaataattgcaaatactgcttcttaaaat-gtttgctt----cagtgtatgt
i calJac3.chr2             I 4 C 0
s saiBol1.JH378106          55650013 83 -  71252344 taaattagactggaaaataacattgtacatcacatataataattgcaaatactgcttcttaaaat-gtttgctt----cagcgtatgt
i saiBol1.JH378106         I 4 C 0
s cebCap1.NW_016107829v1     1345376 83 -   1400280 taaattagactggaaaataacattgtacatcacatataataattgcaaatactgcttcttaaaat-gtttgctt----cagcatatgt
i cebCap1.NW_016107829v1   I 4 C 0
s aotNan1.NW_018505940v1    13137832 83 -  42888418 taaattagactggaaagtaacattgcatatcacatataataattgcaaatactgcttcttaaaat-gtttgttt----cagtgtatgt
i aotNan1.NW_018505940v1   I 4 C 0
s proCoq1.NW_012155062v1     3544421 80 +  11683526 taaattatattggaaaattgcattgtgtatcacatataataa---caagtactgcttcttaaaat-atttgttt----caggatatgt
i proCoq1.NW_012155062v1   I 5 I 70
s otoGar3.GL873679           3023084 76 +   4132165 taaattaaattggagaattatagtgcatatcgcat----taa---taagtactgcttcataaaat-gtttgttt----caggatatgt
i otoGar3.GL873679         I 5 C 0
s mm10.chr18                55484865 82 +  90702639 gagatgagactggaaaatagCATCATACACT-----CAGCCATGACAAAGACTGTTTCCGAAGAT-GCTTACTGTCTACGTTGTATGT
i mm10.chr18               C 0 I 11
s canFam3.chr11             14875020 80 +  74389097 ----ttagattagaaaaaaccacagtgactcccatattgtaatgacaaatactgcttcttaaattcttttgttt----caatatatgc
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2579876 80 +   3667625 taaattaggttagaaaatagcaaagtatgttatataaagtaatgataaatacttcttcc---aat-gtttgttt----cagtgtatgt
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60504683 627 + 108143057 I

a score=661521.000000
s hg38.chr5_KI270796v1_alt     37348 68 +    172708 gcgtgtatgtg------------------tgtg----tgtacatgtgtatgcatgtgtgcacatgtact---gagtcctaatgtaaaatgtac
s panTro5.chr5             125147426 68 + 181907262 gcatgtatgtg------------------tgtg----tgtacatgtgtatgcatgtgtgcacatgtgct---gagtcctaatgtaaaatgtac
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126484373 68 + 183735486 gcgtgtatgtg------------------tgtg----tgtacatgtgtatgcatgtgtgcacatgtgct---gagtcctaatgtaaaatgtac
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675849 86 +   8933513 gcgtgtatgtgtgtgtacatgtgtatgcatgtg----tgtacatgtgtatgcatgtgtgcacatgtact---gagtcctaatgtaaaatgtac
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805858 64 + 163208435 gcatgtatg--------------------tgtg----tgtacatgtgtatgcatgtgtgcacatgta-----gagtccaaatgtaaaatgtac
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122791758 66 + 180051392 gcgtataca--------------------tgta----tgtacatgtgtatgcacgtgtgcacatgtact---gagtcctaatgtaaaaggttc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124215431 66 + 181584905 gcgtataca--------------------tgta----tgtacatgtgtatgcacgtgtgcacatgtact---gagtcctaatgtaaaaggttc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16213165 66 +  18395747 gcgtatata--------------------tgta----tgtacatgtgtatgcacgtgtgcacatgtact---gagtcctaatgtaaaaggttc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5219007 66 +  26952557 gcgtatata--------------------tgta----tgtacatgtgtatgcacgtgtgcacatgtact---gagtcctaatgtaaaaggttc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28326701 66 +  82825804 gcgtatata--------------------tgta----tgtacatgtgtatgcacgtgtgcacatgtact---gagtcctaatgtaaaaggttc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3990964 66 -   4237731 gcatatata--------------------tgta----tgtacatgtgtatgcacgtgtgcacatgtact---gagtcctaatgtaaaaggttc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      261263 66 -   1175262 gcatatata--------------------tgta----tgtacctgtgtatgcacatgtgcacatgtact---gagttctaatgtaaaaggttc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123599399 66 - 204313951 acatatata--------------------agtg----tgtacgtgtgtatgcatgtgtgcacatgtact---gagtcctaatgtaaaatgtaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55650096 66 -  71252344 gcgtattta--------------------agtg----tgtatgtgcgtatgcacgtgtgcacatttact---gagtcctaatgcaaaacgtac
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1345459 66 -   1400280 gcgtatata--------------------agtg----tgtatgtgtgtatgcacgtgtgcacatgtact---gagtcctaatgtaaaatgtac
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13137915 66 -  42888418 gcgtatata--------------------agtg----tgtatgtgtgtatgcacttgtgcacatgtact---gagtcctaatgtaaaatgtaa
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3023160 70 +   4132165 gtgaatacg--------------------tgtgcccctgtgtgtgtgcttgcaagtgtgtacatgtgct---gagtcataatgcaaaatgtat
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55484958 62 +  90702639 GTGTTTATGA-------------------tgtg----tgtgtgtgtgtgtgtgtgtgtgtgtgtgtTCTTGGGTGTACAAATATA--------
i mm10.chr18               I 11 C 0
s canFam3.chr11             14875100 46 +  74389097 --------------------------------------------ctgaatatttgtgtgtgtgtatatt---gagtcttactataaaatgtgt
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2579956 50 +   3667625 ------------------------------gtg----catgtgtatgtgtgcatgtgagcac------t---gcatcacagtgtaaaatacat
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60504683 627 + 108143057 I
e proCoq1.NW_012155062v1     3544501 70 +  11683526 I

a score=531216.000000
s hg38.chr5_KI270796v1_alt     37416 35 +    172708 tttttactgatagacacaa-ttgaaaaactt------cagaa
s panTro5.chr5             125147494 35 + 181907262 tttttactgatagacacaa-ttgaaaaactt------caaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126484441 35 + 183735486 tttttactgatagacacaa-ttgaaaaactt------caaaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675935 35 +   8933513 tttttactgatagacacaa-ttgaaaaactt------caaaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805922 35 + 163208435 tttttactgatagacacga-ttgaaaaactt------caaaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122791824 35 + 180051392 tttttacagataaacacaa-ttgaaaaactt------caaaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124215497 35 + 181584905 tttttacagatagacacaa-ttgaaaaactt------caaaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16213231 35 +  18395747 tttttacagatagacacaa-ttgaaaaactt------caaaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5219073 35 +  26952557 tttttacagatagacacaa-ttgaaaaactt------caaaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28326767 35 +  82825804 tttttacAGATAGAAACAA-TTGAAAAACTT------CAAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3991030 35 -   4237731 tttttacagatagacacaa-ttgaaaaactt------caaaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      261329 35 -   1175262 tttttactgatagacacaa-ttgaaaaactt------caaaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123599465 35 - 204313951 -ttttactgATAGACATAATTTGAAAAACTT------CAAAA
i calJac3.chr2             C 0 M 398
s saiBol1.JH378106          55650162 35 -  71252344 tttttactgatagacgcaa-ttgaaaaactt------cgaaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1345525 35 -   1400280 tttttactgatagacataa-ttgaaaaactt------caaaa
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13137981 35 -  42888418 tttttactgatagacacaa-ttgaaaaactt------caaaa
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60505310 35 + 108143057 tttttactggtggacacaa-tttaaaaactt------caaaa
i micMur3.chr12            I 627 C 0
s proCoq1.NW_012155062v1     3544571 35 +  11683526 tttttactgttagacacaa-tctaaaaactt------caaaa
i proCoq1.NW_012155062v1   I 70 C 0
s otoGar3.GL873679           3023230 35 +   4132165 tttttactgctggatgcag-ttttaacactt------caaaa
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55485020 34 +  90702639 TTTTTAAAAATAGACACAA-TT-AAAAACAC------CAAAA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14875147 27 +  74389097 tttttactgatag-------tt-aaaagctt------caaa-
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2580006 38 +   3667625 ttcttacagttagacacag-t---AACACATGGGATACAGAA
i dasNov3.JH567306         C 0 C 0

a score=2199408.000000
s hg38.chr5_KI270796v1_alt     37451 167 +    172708 gtcCTGCGCTATAATGTCATAGTATTATATTAATTTTTACAGGAAAAATAAGAACAAAAT--AAAAAAATCCAGCTTTATAATTC-GAACTTCCAA-------AGTTCCCCAATGAATTAGTTTCCAC-AGAGTTTTTAATGGAGACTAAGATAAT-------G-TTATCATTGCACGTTGCTTCC
s panTro5.chr5             125147529 167 + 181907262 gtcCTGCGCCATAATGTCATAGTATTATATTAATTTTTAGAGGAAAAATAAGAACAAAAT--AAAAAAATCCAGCTTTATAATTC-TGACTTCCAA-------AGTTTCCCAATGAATTAGTTTCCAC-AGAGTTTTTAATGGAGACTAAGATAAT-------G-TTATCATTGCACGTTGCTTCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126484476 167 + 183735486 gtcCTGCGCCATAATGTCATAGTATTATATTAATTTTTAGAGGAAAAATAAGAACAAAAT--AAAAAAATCCAGCTTTATAATTC-TGACTTCCAA-------AGTTTCCCAATGAATTAGTTTCCAC-AGAGTTTTTAATGGAGACTAAGATAAT-------G-TTATCATTGCATGTTGCTTCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1675970 167 +   8933513 gtcCTGCGCCATAATGTCATAGTATTATATTAATTTTTAGAGGAAAAATAAGAACAAAAT--AAAAAAATCCAGCTTTATAACTC-TAACTTCCAA-------AGTTCCCCAATGAATTAGTTTCCAC-AAAGTTTTTAATGGAGACTAAGATAAT-------G-TTATCATTGCACGTTGCTTCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139805957 169 + 163208435 gtcCTGCCCCATAATGTCATAGTATTATATTAATTTTTAGAGGAAAAATAAGAACAAAATAAAAAAAAATCCAGCTTTATAACTC-TTATTTCCAA-------AGTTCCCAAATGAATTAGTTTCCAC-AGAGTTTTTAATGGAGACTAAGATAAT-------G-TTATTGTTGCACGTTGCTTCC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122791859 167 + 180051392 gtactgCCCAATAATGTCATAGTATTATATTAGTTTTTAGAGGAAAAATAAGAACAAAAT--AAAAAAATCCAGCTTTATAACTC-TAACTTCCAA-------AGTTCCCAAATGAATTAGTTTTCAC-AGAGATTTTAATGGTGACTAAGATAAT-------G-TTATTGTTGCACGTTGCTTCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124215532 167 + 181584905 gtcCTGCCCAATAATGTCATAGTATTATATTAGTTTTTAGAGGAAAAATAAGAACAAAAT--AAAAAAATCCAGCTTTATAACTC-TAACTTCCAA-------AGTTCCCAAATGAATTAGTTTTCAC-AGAGATTTTAATGGTGACTAAGATAAT-------G-TTATTGTTGCACGTTGCTTCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16213266 167 +  18395747 gtcCTGCCCAATAATGTCATAGTATTATATTAGTTTTTAGAGGAAAAATAAGAACAAAAT--AAAAAAATCCAGCTTTATAACTC-TAACTTCCAA-------AGTTCCCAAATGAATTAGTTTTCAC-AGAGATTTTAATGGTGACTAAGATAAT-------G-TTATTGTTGCACGTTGCTTCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5219108 167 +  26952557 gtcCTGCCCAATAATGTCATAGTATTATATTAATTTTTAGAGGAAAAATAAGAACAAAAT--AAAAAAATCCAGCTTTATAACTC-TAACTTCCAA-------AGTTCCCAAATGAATTAGTTTTCAC-AGAGATTTTAGTGGTGACTAAGATAAT-------G-TTATTGTTGCACGTTGCTTCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28326802 167 +  82825804 GTCCTGCCCAATAATGTCATAGTATTATATTAATTTTTAGAGGAAAAATAAGAACAAAAT--AAAAAAATCCAGCTTTATAACTC-TAACTTCCAA-------AGTTCCCAAATGAATTAGTTTTCAC-AGAGATTTTAATGGTGACTAAGATAAT-------G-TTATTGTTGCACGTTGCTTCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3991065 167 -   4237731 gtcCTGCCCAATAATGTCATAGTATTATATTAATTTTTAGAGGAAAAATAAGAACAAAAT--AAAAAAGTCCAGCTTTATAACTC-TAACTTCCAA-------AGTTCCCAAATGAATTAGTTTTCAC-AGAGATTTTAATGGTGACTAAGATAAT-------G-TTATTGTTGCACGTTGCTTCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      261364 166 -   1175262 gtcCTGCCCAATAATGTCATAGTGTTATATTAATTTTTAGAGG-AAAATAAGAACAAAAT--AAAAAAATCCAGCTTTATAACTC-TAACTTCCAA-------AGTTCCCAAATGAATTAGTTTTCAC-AGAGATTTTAATGGTGACTAAGATAAT-------G-TTACTGTTGCACGTTGCTTCC
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55650197 168 -  71252344 gtcCTATCCCGTAACATCATAGTATTATATTAATTTTTAGAGGAAAAATAAGAATAAAAT-TTTAAAATTCCAGTGTTATAACTC-TAACTTGCAA-------AGTTCCCAAATGAATTAGTTTCCAC-AGAGTTTTTAATGGCGACTAAGATAAT-------G-TTATTGTTGCACGTTGTTTCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1345560 168 -   1400280 gtcCTGTCCCATAACATCATAGTATTATATTAATTTTTAGAGGAAAAATAAGAATAAAAT-TTAAAAATTCCAGCGTTATAACTC-TAACTTCCAA-------AGCTCCCAAATGAACTAGTTTCCAC-AGAGTTTTTAATGGCGACTAAGATAAT-------G-TTATTGTTGCACGTTGCTTCC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13138016 168 -  42888418 gtcCTGTCCCATAACATCATAGTATTATATTAATTTTTAGAGGAAAAATAAAAATTAAAT-TAAAAAATTCCAGCGTTATAACTC-TAACTTCCAA-------AGTTCCCAAATGAATTAGTTTCCAC-AGAGTTTTTAATGGCGACTAAGATAAT-------G-TTATTGTTGCACGTTGCTTCC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60505345 164 + 108143057 g-cTTGCCCCATAAGATAGTAGTGTTATGCTAATTTTTAGAGGAAAAATAAAAATCAAAT--AAAAAGACCCAGCTTTATAACAC-TAACTTCCTA-------AGTTCCCAGATGAATTAGTTTCCAT-GGAGTTTTTAATGG-GTCTAAGATAAT-------G-TTATTGTTGCATGCTGCT-TC
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3544606 155 +  11683526 g-cTTGCCCCATAAGATAGTAGTATTAAGTTAATTTTTAGAGGAA-----------AAAT--AAAAAGACCCAGCTTTACAACTC-TAACTTCCAA-------AGTTCCCGGATGAATTAGTTTCTAC-AGAGTTTTTAATGGCATCTAAGATGAT-------G-TTACTGTTGCATGCTGCTGCC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3023265 176 +   4132165 gccCTGCTCTATGAGATAGTAGTAATGTGTTAATTTTTTCAGGAAAAACAAAAATCAAAT--AAAAATGCCCAGATTTATAACTCTTATCTTCTAA-------GGTTTCCACATGAATTGGCTTCTCCAAGAGTTCTTTGTGGCTACTAAGATGCTGTGCAAAG-TTATTGTTGCACGTGCCTTTC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55485054 156 +  90702639 -ACCTTTCCGTAGACG--Gtattaatatattaatttttag----------------aaaa--aaaCAACCCCAGCTTGATAATTC-AAGGCATTGAAAAATTGAATTTCCCAATGCACTGATTTTCAT-AGACTTTTTCATGCTGACTAGGATACC-------ATTTTTTACTGGCCCTTGCTTCC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14875174 153 +  74389097 gccCTGCCCCATAAAGTAGTAGTATTATCTTAATTTTTAGAGGAA-----------AAGT--AAAAAGATCCAGCTTTATAA--C-TGACTTCCAA-------AGTTCTCAAATCAATTAGCTTCCAT-TGAGTTTTTAATGGTGCCTAGGATAAC-------G-TTATTGTTGAAC-TTACTTCG
i canFam3.chr11            C 0 I 4
s dasNov3.JH567306           2580044 158 +   3667625 GCCCTGCCCCATGAAGTACTGGTATC---TTAAATTTTAGAGGAAAAATAA-----AAAT--AGAAAGTTCCAGCTTTATGAATA-TAATTTCCAA-------AGTTCCCAAGTGAATTAGCTTCCAT-TGGGTTTTTAATGGCACCTGAGATGAC-------A-CTATTGTTGC-TGTTACTTCT
i dasNov3.JH567306         C 0 C 0
e calJac3.chr2             123599500 398 - 204313951 M

a score=11019024.000000
s hg38.chr5_KI270796v1_alt     37618 568 +    172708 TGTCTCTCTCATGGTTTGCATTTATTTAGCATCCAGGCAGGCCTAACAC---GGGGTGATTAAATCTCCTCCTCAGA-TCAGGCCATCTGTGCCATTGAGTAAGTGAGATACTTCAAATAAGTGAATGATGAATTCTGTTCCAGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCATTACAAATACCGTGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTCGGCAACCAGCGGAGAAAATGTCAGGATTTT-AAAAGCAAACAAATAG--------AAAAAAAAAATGCCTTCCTGCTCATCTTTCATGCTGTTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCAATGATATGC--TTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCACTTCATTTTTATTGTGTTTTAAACGGGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCCGATAATTAGGCTGGCTTCAT
s panTro5.chr5             125147696 568 + 181907262 TGTCTCTCTCATGGTTTGCATTTATTTAGCATCCAGGCAGGCCTAACAC---GGGGTGATTAAATCTCCTCCTCAGA-TCAGGCCATCTGTGCCATTGAGTAAGTGAGATACTTCAAATAAGTGAATGATGAATTCTGTTCCAGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCATTACAAATACCGTGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTCGGCAACCAGCGGAGAAAATGTCAGGATTTT-AAAAGCAAACAAATAG--------AAAAAAAAAATGCCTTCCTGCTCATCTTTCATGCTGTTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCAATGATATGC--TTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCACTTTATTTTTATTGTGTTTTAAACGGGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCCGATAATTAGGCTGGCTTCAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126484643 567 + 183735486 TGTCTCTCTCATGGTTTGCATTTATTTAGCATCCAGGCAGGCCTAACAC---GGGGTGATTAAATCTCCTCCTCAGA-TCAGGCCATCTGTGCCATTGAGTAAGTGAGATACTTCAAATAAGTGAATGATGAATTCTGTTCCAGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCATTACAAATACCGTGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTTGGCAACCAGCGGAGAAAATGTCAGGATTTT-AAAAGCAAACAAATAG---------AAAAAAAAATGCCTTCCTGCTCATCTTTCATGCTGTTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCAATGATATGC--TTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCACTTTATTTTTATTGTGTTTTAAACGGGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCCGATAATTAGGCTGGCTTCAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1676137 569 +   8933513 TGTCTCTCTCATGGTTTACATTTATTTAGCATCCAGGCAGGCCTAACAC---GGGGTGATTAAATCTCCTCCTCAGT-TCAGGCCATCTGTGCCATTGAGTAAGTGAGATACTTCAAATAAGTGAATGATGAATTCTGTTCCAGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCATTACAAATACCGTGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTCGGCAACCAGCGGAGAAAATGTCAGGATTTT-AAAAGCAAACAAATAG-------AAAAAAAAAAATGCCTTCCTGCTCATCTTTCATGCTGTTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCAATGATATGC--TTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCACTTTATTTTTATTGTGTTTTAAACGGGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCCGATAATTAGGCTGGCTTCAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139806126 572 + 163208435 TGTCTCTCTCATGGTTTGCATTTATTTTGCAACAAGGCAGGCCTAACAC---GGGGTGATTAAATCTCCTCCTCAGA-TCAGGCCATCTGTGCCATTGAGTAAGTGAGATACTTCAAATAAGTGAATGATGAATTCTGTTCCAGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCGTTACAAATACCGTGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTCGGCAACCAGCGGAGAAAATGTCAGGATTTT-aaaagcaaacaaatag----aaaaaaaaaaaaaaTGTCTTCCTGCTCGTCTTTCATGCTGTTTTGAGT---AAAACTAAGGTAGTACAAATATTTAAACAGATGGCTCAATGATATGC--TTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCACTTTATTTTTATTGTGTTTTAAACGGGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCCGATAATTAGGCTGGCTTCAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122792026 564 + 180051392 TGTCTCTCTCAGGGTTTGCATTTATTTAGCGTCAAGGCAGGCCTAACAC---GGGATGATTAAAT---CTCCTCAGA-TCAGGCCATCTGTGCCATTGAGTAAGTGAGATACTTCAAATAAG----TGATGAATTCTGTTCCGGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCGTTACAAATACCGTGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTCGGCAACCAGCGGAGAAAATGTCAGGATTTT-aaaagcaaacaaatag-----aaaaaaaaaaaaaTGCCTTCCTGCTCATCTTTCATGATGTTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCAATGATATGC--TTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCACTTTATTTTTATTGTGTTTTAAACGGGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCCCATAATTAGTCTGGCTTCAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124215699 572 + 181584905 TGTCTCTCTCAGGGTTTGCATTTATTTAGCGTCAAGGCAGGCCTAACAC---GGGATGATTAAAT---CTCCTCAGA-TCAGGCCATCTGTGCCATTGAGTAAGTGAGATACTTCAAATAAGTGAATGATGAATTCTGTTCCGGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCGTTACAAATACCGTGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTCGGCAACCAGCGGAGAAAATGTCAGGATTTT-aaaagcaaacaaatag-aaaaaaaaaaaaaaaaaTGCCTTCCTGCTCATCTTTCATGATGTTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCAATGATATGC--TTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCACTTTATTTTTATTGTGTTTTAAACGGGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCCCATAATTAGTCTGGCTTCAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16213433 566 +  18395747 TGTCTCTCTCAGGGTTTGCATTTATTTAGCGTCAAGGCAGGCCTAACAC---GGGATGATTAAAT---CTCCTCAGA-TCAGGCCATCTGTGCCATTGAGTAAGTGAGATACTTCAAATAAGTGAATGATGAATTCTGTTCCGGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCGTTACAAATACCGTGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTCGGCAACCAGCGGAGAAAATGTCAGGATTTT-AAAAGCAAACAAATAG-------AAAAAAAAAAATGCCTTCCTGCTCATCTTTCATGATGTTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCAATGATATGC--TTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCACTTTATTTTTATTGTGTTTTAAACGAGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCCCATAATTAGTCTGGCTTCAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5219275 567 +  26952557 TGTCTCTTTCAGGGTTTGCATTTATTTAGCGTCAAGGCAGGCCTAACAC---GGGATGATTAAAT---CTCCTCAGA-TCAGGCCATCTGTGCCATTGAGTAAGTGAGATACTTCAAATAAGTGAATGATGAATTCTGTTCCGGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCGTTACAAATACCGTGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTCGGCAACCAGCGGAGAAAATGTCAGGATTTT-AAAAGCAAACAAATAG------AAAAAAAAAAAATGCCTTCCTGCTCATCTTTCATGATGTTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCAATGATATGC--TTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCACTTTATTTTTATTGTGTTTTAAACGGGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCCCATAATTAGTCTGGCTTCAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28326969 563 +  82825804 TGTCTCTCTCAGGGTTTGCATTTATTTAGCGTCAAGGCAGGCCTAACAC---GGGATGATTAAAT---CTCCTCAGA-TCAGGCCATCTGTGCCATTGAGTAAGTGAGATACTTCAAATAAGTGAATGATGAATTCTGTTCTAGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCGTTACAAATACCGTGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTCGGCAACCAGTGGAGAAAATGTCAGGATTTT-AAAAGCAAACAAATAG----------AAAAAAAATGCCTTCGTGCTCATCTTTCATGATGTTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCAATGATACGC--CTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCACTTTATTTTTATTGTGTTTTAAACGGGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTTCCATAATTAGGCTGGCTTCAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3991232 566 -   4237731 CGTCTCTCTCAGGGTTTGCATTTATTTAGCGTCAAGGCAGGCCTAACAC---TGGATGATTAAAT---CTCCTCAGA-TCAGGCCATCTGTGCCATTGAGTAAGTGAGATACTTCAAATAAGTGAATGATGAATTCTGTTCCGGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCGTTACAAATACCGTGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTCGGCAACCAGCGGAGAAAATGTCAGGATTTT-AAAAGCAAACAAATAG-------AAAAAAAAAAATGCCTTCCTGCTCATCTTTCATGATGTTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCAATGATATGC--TTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCACTTTATTTTTATTGTGTTTTAAACGGGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCCCATAATTAGTCTGGCTTCAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      261530 564 -   1175262 TATCTCTCTCAGGGTTTGCATTTATTTAGCGTCAAGGCAGGCGTAACAC---GCGATGATTAAAT---CTCCTCACA-TCAGGCCATCTGTGCCATTGAGTAAGTGAGATACTTCAAATAAGTGAATGATGAATTCTGTTCCAGACTGTCCCataaaattataat-aaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCGTTACAAATACCGTGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTCGGCAACCAGCGGCGAAAATGTCAGGATTTT-AAAAGCAAACAAATAG--------AAAAAAAAAATGCCTTCCTGCTCATCTTTCATGATGTTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCGATGATATGC--TTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCACTTTATTTTTATTGTGTTTTAAATGGGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCCGATAATTAGGCTGGCTTCAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123599898 574 - 204313951 TGTCTCTCTCATGGTTTGCATTTATTTAGCATCAAGGCAGGCCTAACACAATGAGAAGAGGAAAT---CTCCTTAGA-TCAGGCCATCTGTGCTATTTTTTAAGTGAGATACTTCAAATAAATGAATGATGAATTCTGTTCCAGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAACTCGTTACAAATACCGTGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTCGGCAACCAGCGGAGAAAATGTCAGGATTTT-AAAAGCAAACAAATAG---AAAAAAAAAAAAAAAAGCCTTCCTGCTCATCTTTCATGCTGGTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCAATGATATGC-TTTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCACTTTATTTTTATTGTGTTTTAAACGGGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCCGATAATTAGGCTGGCTTCAT
i calJac3.chr2             M 398 C 0
s saiBol1.JH378106          55650365 574 -  71252344 TGTCTCTCTCATGGTTTGCATTTATTTAGCATCAAGGCAGGCCTAACAC---GGGATGATTAAAT---CTCCTTAGA-TCAGGCCATCTGTGCCATTGAGTAAGTGAGATACTTCAAATAAATGAATGATGAGTTCTGTTCCAGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCGTTACAAATACCGTGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTCGGCAACCAGCGGAGAAAATGTCAGGATTTT-aaaagcaaacaaatagaaaaaaaaaaaaaaaaaaaGCCTTCCTGCTCATCTTTCATGCTGGTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCAATGATATGC-TTTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCACTTTATTTTTATTGTGTTTTAAACGGGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCCGATAATTAGGCTGGCTTCAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1345728 566 -   1400280 TGTCTCTCTCATGGTTTGCATTTATTTAGCATCAAGGCAGGCCTAACAC---GGGGTGATTAAAT---CTCCTTAGA-TCAGGCCATCTGTGCCATTGAGTAAGTGAGATACTTCAAATAAATGAATGATGAATTCTGTTCCAGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCGTTACAAATACCGTGCTATTGATTTCAAAGGGCAGTAATTTTAGTGGAGCTCTTTCATCTGTGTTATAAATCTCGGCAACCAGCGGAGAAAATGTCAGGATTTT-AAAAGCAAACAAATAG--------AAAAAAAAAAAGCCTTCCTGCTCATCTTTCATGCTGGTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGTTCAATGATATGC-TTTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCACTTTATTTTTATTGTGTTTTAAACGGGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCCAATAATTAGGCTGGCTTCAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13138184 573 -  42888418 TGTCTCTCTCATGGTTTGCATTTATTTAGCATCAAGGCAGGCCTAACAT---AGGGTGATTAAAT---CTCCTTAGA-TCAGGCCATCTGTGCCATTGAGTAAGTGAGATACTTCAAATAAATGAATGATGAATTCTGTTCCAGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCGTTACAAATACCGTGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTCGGCAACCAGCGGAGAAAATGTCAGGATTTT-aaaagcaaacaaatag-ggaaaaaaaaaaaaaaaaGCCTTCCTGCTCATCTTTCATGCTGGTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCAATGATATGC-TTTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCACTTTATTTTTATTGTGTTTTAAACGGGCAGGGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCTGATAATTAGGCTGGCTTCAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60505509 561 + 108143057 CGGCT-CGTCGTGGTGGGCG-TTACTTAGCATC-AGGCAGCCCTAGCAC---AGGGTGATTAAAT---CTCCTCAGATTCAGGCCATCTGTGCCATTGAGTAAGTGAGATACTTCAAATAAGTGAATGATGAATTCTGTTCCAGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCGTTACAAATA-CGTGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTCGGCAACCAGCGGAGAAAATGTCAGGATTCT-AAAAGCAAACAAATAG---------AAAAAAAATTGCCTTATTGCTCATGTTTCATGCTGTTTTGAGT---AAGACGAAGGTAGCACAAATATTTAAACAGATGGCTCAATGATATGC--TTTT-TTCTTTACTAATCATAGTTATTAAAACACTCACTTTATTTTTATTGTGTTTTAAACGGGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCCGATAATTAGGCTGGCTTCAT
i micMur3.chr12            C 0 I 85
s proCoq1.NW_012155062v1     3544761 566 +  11683526 CGGCTCCGTCCTGGTTTGCGCTTGCTTAGCATCAAGGCAGCCCTAACAC---AGGGTGATTAAAT---CTCCTCCGATTCAGGCCATCTGTGCCACTGAGTAAGTGAGATACTTCAAATAAGTGAATGATGAATTCTGTTCCAGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCGTTAAAAATACCGTGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTCTGAAACCAGCGGAGAAAATGTCAGGATTTT-AAAAGCAAACAAATAG--------AAAAAAAAATCGCCTTACTGCTCATCTTTCATGCTGTTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCAATGATATGC--TTTT-TTCTTTACTAATCACAGTTATTAAAGCACTCACTTTATTTTTATTGTGTTTTAAACGGGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCACGCTGCAAATTGATTTTGATGACCTTTCACTCTCCGATAATTAGGCTGGCTTCAT
i proCoq1.NW_012155062v1   C 0 I 6
s otoGar3.GL873679           3023441 557 +   4132165 TGTCT----CCTGGTTTGCATTTACTTAGCATCAAGGCAGCCCTAACAC---AGGGTGATTAAAT---CTC----AGCTCAGGCCATCTGTGCCATGGAGTAAGTGAGATACTTCAAATAAGTGAATGATGAATTCTGTTCCAGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTATAATAAAAAGAAAGTCGTTACAAATACCATGCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCGCTTTCATCTGTGTTATAAATCTTGGCAACCAGCAGAGAAAATGTCAGGATTTT-AAAAGCAAACAAATAG---------AAAAAAAATTGCCTTACTGCTCATCTTTCACACTGTTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCAATGATATGC--TTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCACTTTATTTTTATTGTGTTTTAAATGGGCAGAGAAAATCTGAGTCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCCCATAATTAGGCTGGCTTCAT
i otoGar3.GL873679         C 0 I 6
s mm10.chr18                55485210 568 +  90702639 -CCTTCCCCCATGGCTTACATTCACGCAGCTTCAAAGCTG-CCTAACAC---AGGGTAATTAAGT---CTCCT-GGA-TTAGGCCATCTGTGCCATTGAGTAAGTGAGATGCTTCAAATAAGTGAATGATGAATTCTGTTCCAGACTGTCCCataaaattataataataataataatGAAGTGCTCCATAATAAAAAGAAAGTCGTTACAAATACCGTGCTATTGATTTCAAAGGGCAGTCATTTCGAAGGAG--CTTTCATCTGTGTTATAAATCTTGGCAACCAGCGGAGAAAATGTCAGGATTTT-AAAAGCAAACAAATAG-----GGAAAAAAAAAATCATCCCACTGTTCGTCTTTCATGCTGTTTTGAGTAAAAAAACTAAGGTAGCACAAATATTTAAACAGATGGTTCAATGATATGCTTTTTT-TTCTTTACTAATCATAGTTATTAAAGCCCTCCCTTTAGTTTTATTGTGTTTTAAACGGGCCAAGAGAATCTGAGGCTGATAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTCCACCCTGTCATAATTAGGCTGGCTCGGT
i mm10.chr18               C 0 I 6
s canFam3.chr11             14875331 573 +  74389097 TGTCTCTCTCATGGTTTGCATTTACTTAGCATCAAGGCGGCCCTAACAC---AGGGTGATTAAAT---CTCCTCAGA-TCAGGCCATCTGTGCCACTGAGTAAGCGAGATACTTCAAATAAGTGAATGATGAATTCTGTTCCAGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTCTAATAAAAAGAAAGTCGTTACAAATACTGTCCTATTGATTTCAAAGGGCAGTAATTTTAGAGGAGCTCTTTCATCTGTGTTATAAATCTCAGCAACCAGTGGAGAAAATGTCAGGATTTT-AAAAGCAAACAAATAGAAGAAAAAAAAAAAACATCGCCTCACTGCTCATCTTTCATGCTGTTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCGATGATATGC--TTTT-TTCTTTACTAATCATAGTTATTAAAGCACTCAGTTTATTTTTATTGTGTTTTAAACGAGCAGAGAAAATCTGAGTCTGCTAATGACCTTTGTACATCATGCTGCAAATTGATTTTGATGACCTTTCACTCTCCAATAATTAGGCTGGCTTCAT
i canFam3.chr11            I 4 C 0
s dasNov3.JH567306           2580202 566 +   3667625 TTTCTCTACCATGGTTCGCATTTACTTAGCATGGAGGCAGCCCTCATGT---AGGGTGATTAAAT------CTCAGA-TCAGGCCATCTGTGCCACTGAGTAAGTGAGATACTTCAAATAACTGAATGATGAATTCTGTTCCAGACTGTCCCataaaattataataaaaataataatGAAGTGCTCTCTAATAAAAAGAAAGTCGTTACAAATACTGTGCTATTGATTTCAAAGGGCAGTAATTTAAGAGGTCCTCTTTCATCTGTGTTATAAATCCAGGCTACCAGTGGAGAAAATGTCAGGATTTTAAAAAGCAAACAAATAG------GAAAAAAAAAATTGCTTCCATGCTCATCTTTCATGCTGTTTTGAGT---AAAACTAAGGTAGCACAAATATTTAAACAGATGGCTCAATGATATGC--TTTTATTCTTTACTAATCATAGTTATTAAAGCACTCACTTTAGTTTTATTGTGTTTTAAACGGGCGGGGAAAGTCTGAGTCTGCTAATGACCTTTGTACATCGTGCTGCAAATTGATTTTGATGACCTTTCACTCTCTGATAATTAGGCTGGCTTCAT
i dasNov3.JH567306         C 0 C 0

a score=428370.000000
s hg38.chr5_KI270796v1_alt     38186 29 +    172708 CTCC------CTCCCTCCCTCCACTCTCCAAGTGC
s panTro5.chr5             125148264 25 + 181907262 ----------CTCCCTCCCTCCACTCTCCAAGTGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126485210 25 + 183735486 ----------CTCCCTCCCTCCACTCTCCAAGTGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1676706 25 +   8933513 ----------CTCCCTCCCTCCACTCTCCAAGTGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139806698 35 + 163208435 GCACATTCATCTCCCTCCCTCCACTCTCCAAGTGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122792590 35 + 180051392 GCACATTCATCTCCCTCCCTCCACTCTCCAAATGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124216271 35 + 181584905 GCACATTCATCTCCCTCCCTCCACTCTCCAAGTGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16213999 35 +  18395747 GCACATTCATCTCCCTCCCTCCACTCTCCAAGTGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5219842 35 +  26952557 GCACATTCATCTCCCTCCCTCCACTCTCCAAGTGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28327532 35 +  82825804 GCACATTCATCTCCCTCCCTCCACTCTCCAAGTGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3991798 35 -   4237731 GCACATTCATCTCCCTCCCTCCACTCTCCAAGTGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      262094 35 -   1175262 GCACATTCATCTCCCTCCCTCCAATCTCCAAGTGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123600472 35 - 204313951 GCACATTCATCTCCCTCCCTCCACTCTCCAAGTGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55650939 35 -  71252344 GCACATTCATCTCCCTCCCTCCCGTCTCCAAGTGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1346294 35 -   1400280 GCACATTCATCTCCCTCCCTCCACTCTCCAAGTGC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13138757 35 -  42888418 GCACATTCATCTCCCTCCCTCCACTCTCCAAGTGC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3545333 28 +  11683526 ------TCGTCTCCCTCCCT-CGCCCTCCGAGTGC
i proCoq1.NW_012155062v1   I 6 I 45
s otoGar3.GL873679           3024004 29 +   4132165 ------TCTTCTCCCTCCCTCCGCTGTTAAAGCAC
i otoGar3.GL873679         I 6 C 0
s mm10.chr18                55485784 29 +  90702639 ------TCATCTCTTCCTCTTGGCTGACAAAGTGC
i mm10.chr18               I 6 C 0
s canFam3.chr11             14875904 34 +  74389097 GCACATTCATCTCCCTCCTCTCG-TCTCAACGTTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2580768 33 +   3667625 GCACATTCATCTCAGTCTCT--ACTCTCAAAGTGC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60506070 85 + 108143057 I

a score=565262.000000
s hg38.chr5_KI270796v1_alt     38215 43 +    172708 GTGGTGC-GGTGTTT--TTCCTGCCTGCCCCTCCAAACCCT--ATTCC
s panTro5.chr5             125148289 43 + 181907262 GTGGTGC-GGTGTTT--TTCCTGCCTGCCCCTCCAAACCCT--ATTCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126485235 43 + 183735486 GTGGTGC-GGTGTTT--TTCCTGCCTGCCCCTCCAAACCCT--ATTTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1676731 43 +   8933513 GTGGTGC-GGTGTTT--TTCCTGCCTGCCCCTCCAAACCCT--ATTCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139806733 43 + 163208435 GTGGTGC-GGTGTTT--TTCCTGCCTGCCCCTCCAAACCCT--ATTCC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122792625 43 + 180051392 ACGGTGC-GGTGTTT--CTCCTGCCTGCCCCTCCAAACCCT--ATTCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124216306 43 + 181584905 ACGCTGC-GGTGTTT--CTCCTGCCTGCCCCTCCAAACCCT--ATTCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16214034 43 +  18395747 ACGGTGC-GGTGTTT--CTCCTGCCTGCCCCTCCAAACCCT--ATTCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5219877 43 +  26952557 ACGGTGC-GGTGTTT--TTCCTGCCTGCCCCTCCAAACCCT--ATTCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28327567 43 +  82825804 ACGGTGC-GGTGTTT--TTCCTGCCTGCCCCTCCAAACCCT--ATTCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3991833 43 -   4237731 ACGGTGC-GGTGTTT--TTCCTGCCTGCCCCTCCAAACCCT--ATTCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      262129 44 -   1175262 ATGGTGCTGGTGTTT--TTCCTGCCTGCCCCTCCAAACCCT--ATTCC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123600507 43 - 204313951 GTGGTGC-GGTGTTT--CTCCTGCCTGCCCCTCCAAACCCT--CTTCC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55650974 43 -  71252344 GTGGTGC-GGTGTTT--CTCCTGCCTGCCCCTCCAAACCCT--CTTCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1346329 43 -   1400280 GTGGTGC-GGCGTTT--CTCCTGCCTGCCCCTCCAAACCCT--CTTCC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13138792 43 -  42888418 GTGGTGC-ACTGTTT--CTCCTGCCTGCCGCTCCAAACCCT--CTTCC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3024033 44 +   4132165 ATGGTGC-AGGGTTT-GTTCCTGCCACCCCCTCAAAACCCT--CTTCC
i otoGar3.GL873679         C 0 I 5
s mm10.chr18                55485813 44 +  90702639 GAGGTGC-AGCTTTC--CCTCCG-CTACCCCTCAGAGCCCTGAGTGCC
i mm10.chr18               C 0 I 3
s canFam3.chr11             14875938 43 +  74389097 GTGGTGC-AGTGTTT--TTTCTTGCCATCCCACAAAACCTT--ATTCT
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2580801 45 +   3667625 TTGGTGC-AGAGTTTTTTTCCTGCCTGCCTCTCAAAAACCT--GTTCT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60506070 85 + 108143057 I
e proCoq1.NW_012155062v1     3545361 45 +  11683526 I

a score=104324.000000
s hg38.chr5_KI270796v1_alt     38258  9 +    172708 CCTCCCCCT-----
s panTro5.chr5             125148332  9 + 181907262 CCTCCCACT-----
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126485278  9 + 183735486 CCTCCCACT-----
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1676774  9 +   8933513 CCTCCCCCT-----
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139806776  9 + 163208435 CCTCCCCCT-----
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122792668  9 + 180051392 CCTCCCCCT-----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124216349  9 + 181584905 CCTCCCCCT-----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16214077  9 +  18395747 CCTCCCCCT-----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5219920  9 +  26952557 CCTCCCCTT-----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28327610  9 +  82825804 CCTCCCCCT-----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3991876  9 -   4237731 CCTCCCCCT-----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      262173  9 -   1175262 CCTCCCCCT-----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123600550  9 - 204313951 CCTCCCCCT-----
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55651017  9 -  71252344 CCTCCCCCT-----
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1346372  9 -   1400280 CCACCCCCT-----
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13138835  9 -  42888418 CCTCCCCCT-----
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3545406  8 +  11683526 CCTCTCCC------
i proCoq1.NW_012155062v1   I 45 C 0
s otoGar3.GL873679           3024082  8 +   4132165 CCTCCTCC------
i otoGar3.GL873679         I 5 C 0
s mm10.chr18                55485860  8 +  90702639 CCTCCTCT------
i mm10.chr18               I 3 C 0
s canFam3.chr11             14875984  8 +  74389097 CCTCTCCT------
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2580846 14 +   3667625 CCTCCCCGCTTCCT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60506070 85 + 108143057 I

a score=8942247.000000
s hg38.chr5_KI270796v1_alt     38267 498 +    172708 AGCTTTGTCTCTCCCATTGCTGGATTGGGTTTCTTTCTCCTCTCTGAAAGCCACAGATTCTTGAATAAAGAATGAATAGAGGTATTTAGAGGCTGAC-AAAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGAATGATCAAATATCTGAATTGTCATGTAATTATGACCATTACAATGATGTCATTGCCATAGTCATTTGGCGATTGTGTACATTGTGTTGAAGAC--ATTACCACATTGAATTATACCTCAGTAGTTTAATGAATTTTATAAGGGTGTTTC-TTTGTGACTAATGTGAACAGATGGTAGAAGTGGAAAAGAAATAAACTATGCCTCATTTTCCTTTACATTTTCTTTG-TATTATGCTCTGAAATTAAGAACACTAGACTAACACACATT--TATACACAT--AT-TTTAAAATTATAACCTTTAAAAA-TGCA-CTTCATCAGATACCTCTAAACCCCATATT---TACTTTCTTTAGTG---TTTTTTGTTTTTGCtttttt-----a
s panTro5.chr5             125148341 500 + 181907262 AGCTTTGTCTCTCCCATTGCTGGATTGGGTTTCTTTCTCCTCTCTGAAAGCCACAGATTCTTGAATAAAGAATGAATAGAGGTATTTAGAGGCTGAC-AAAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGAATGATCAAATATCTGAATTGTCATGTAATTATGACCATTACAGTGATGTCATTGCCATAGTCATTTGGCGATTGTGTACATTGTGTTGAAGACTTATTACCACATTGAATTATACCTCAGTAGTTTAATGAATTTTATAAGGGTGTTTC-TTTGTGACTAATGTGAACAGATGGTAGAAGTGGAAAAGAAATAAACTATGCCTCATTTTCCTTTACATTTTCTTTG-TATTATGCTCTGAAATTAAGAACACTAGACTAACACACATT--TATACACAT--AT-TTTAAAATTATAACCTTTAAAAG-TGCA-CTTCATCAGATACCTCCAAACCCCATATT---TACTTTCTTTAGTC---TTTTTTGTTTTTGCtttttt-----a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126485287 500 + 183735486 AGCTTTGTCTCTCCCATTGCTGGATTGGGTTTCTTTCTCCTCTCTGAAAGCCACAGATTCTTGAATAAAGAATGAATAGAGGTATTTAGAGGCTGAC-AAAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGAATGATCAAATATCTGAATTGTCATGTAATTATGACCATTACAATGATGTCATTGCCATAGTCATTTGGCGATTGTGTACATTGTGTTGAAGACTTATTACCACATTGAATTATACCTCAGTAGTTTAATGAATTTTATAAGGGTGTTTC-TTTGTGACTAATGTGAACAGATGGTAGAAGTGGAAAAGAAATAAACTATGCCTCATTTTCCTTTACATTTTCTTTG-TATTATGCTCTGAAATTAAGAACACTAGACTAACACACATT--TATACACAT--AT-TTTAAAATTATAACCTTTAAAAA-TGCA-CTTCATCAGATACCTCCAAACCCCATATT---TACTTTCTTTAGTC---TTTTTTGTTTTTGCtttttt-----a
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1676783 499 +   8933513 AGCTTTGTCTCTCCCATTGCTGGATTGGGTTTCTTTCTCCTCTCTGAAAGCCACAGATTCTTGAATAAAGAATGAATAGAGGTATTTAGAGGCTGAC-AAAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGAATGATCAAATATCTGAATTGTCATGTAATTATGACCATTACAATGATGTCATTGCCATAGTCATTTGGCGATTGTGTACATTGTGTTGAAGACTTATTACCACATTGAATTATACCTCAGTAGTTTAATGAATTTTATAAGGGTGTTTC-TTTGTGACTAATGTGAACAGATGGTGGAAGTGGAAAAGAAATAAACTATGCCTCATTTTCCTTTACGTTTTCTTTG-TATTATGCTCTGAAATTAAGAACACTAGACTAACACACATT--TATACACAT--AT-TTT-AAATTCTAACCTTTAAAAA-TGCA-CTTCATCAGATACCTCTAAACCCCACATT---TACTTTCCTTAGTC---TTTTTTGTTTTTGCtttttt-----a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139806785 501 + 163208435 AGCTTTGTCTCTCCCATTGCTGGCTTGGGTTTCTTTCTCCTCTCTGAAAGCCATAGATTCTTGAATAAAGAATGAATAGCGGTATTTAGAGGCTGAC-AAAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGAATGATCAGATATCTGAATTGTCATGTAATTATGACCATTACAATGATGTCATTGCCACAGTCATTTGGCGATTGTGTACATTGTGTTGAAGACTTATTACCACATTGAATTATAACTCGGTAGTTTAATGAATTTTATAAGGGTGTTTC-TTTGTGACTAATGTGAACAGATGGTAGAAGTGGAAAAGAAATAAACTATGCCTCATTTTCCTTTACATTTTCTTTGCTATTATGCTCTGAAATTAAAAACACTAGACTAACACACATT--TATACACAT--AT-TTTAAAATTATAGCCTTTAAAAA-TGTA-CTTCATCAGATACCTCTAAACCCCCTATT---TACTTTCTTTAGTC---TTCTTTAGTTTTGCtttttt-----a
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122792677 501 + 180051392 AGCTTTGTCTCTCCCATTGCTGGCTTGGGTTTCTTTCTCCTCCCTGAAAGCCACAGATTCTTGAATAACAAATGAATAGAGGTATTTAGAGGCTGAC-AAAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGCATGATCAAATATCTGAATTGTCATGTAATTATGACCATTACAATGATGTCATTGCCATAGTCATTTGGTGATTGTGTACATTGTGTTGAAGACTTATTACCACATTGAATTATAACTCAGTAGTTTAATGAATTTTATAAGGGTGTTTC-TTTGTGACTAATGTGAACAGATGGTAGAAGTGGAAAAGAAATAAACTATGCCTCATTTTCCTTTACATTTTCTTTGTTATTATGCTCTGAAATTAAGAACACTAGACTAACACACATT--TACACACAT--AT-TTTTAAATTATAACCTTTAAAAA-TGCA-CTTCATCAGATACCTCTAAACCCCATATT---TACTTTCTTTAGTC---TTTTTTATTTTTGCtttttt-----g
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124216358 501 + 181584905 AGCTTTGTCTCTCCCATTGCTGGCTTGGGTTTCTTTCTCCTCCCTGAAAGCCACAGATTCTTGAATAACAAATGAATAGAGGTATTTAGAGGCTGAC-AAAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGCATGATCAAATATCTGAATTGTCATGTAATTATGACCATTACAATGATGTCATTGCCATAGTCATTTGGTGATTGTGTACATTGTGTTGAAGACTTATTACCACATTGAATTATAACTCAGTAGTTTAATGAATTTTATAAGGGTGTTTC-TTTGTGACTAATGTGAACAGATGGTACAAGTGGAAAAGAAATAAACTATGCCTCATTTTCCTTTACATTTTCTTTGTTATTATGCTCTGAAATTAAGAACACTAGACTAACACACATT--TACACACAT--AT-TTTTAAATTATAACCTTTAAAAA-TGCA-CTTCATCAGATACCTCTAAACCCCATATT---TACTTTCTTTAGTC---TTTTTTATTTTTGCtttttt-----g
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16214086 501 +  18395747 AGCTTTGTCTCTCCCATTGCTGGCTTGGGTTTCTTTCTCCTCCCTGAAAGCCACAGATTCTTGAATAACAAATGAATAGAGGTATTTAGAGGCTGAC-AAAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGCATGATCAAATATCTGAATTGTCATGTAATTATGACCATTACAATGATGTCATTGCCATAGTCATTTGGTGATTGTGTACATTGTGTTGAAGACTTATTACCACATTGAATTATAACTCAGTAGTTTAATGAATTTTATAAGGGTGTTTC-TTTGTGACTAATGTGAACAGATGGTAGAAGTGGAAAAGAAATAAACTATGCCTCATTTTCCTTTACATTTTCTTTGTTATTATGCTCTGAAATTAAGAACACTAGACTAACACACATT--TACACACAT--AT-TTTTAAATTATAACCTTTAAAAA-TGCA-CTTCATCAGATACCTCTAAACCCCATATT---TACTTTCTTTAGTC---TTTTTTATTTTTGCtttttt-----g
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5219929 501 +  26952557 AGCTTTGTCTCTCCCATTGCTGGCTTGGGTTTCTTTCTCCTCCCTGAAAGCCACAGATTCTTGAATAACAAATGAATAGAGGTATTTAGAGGCTGAC-AAAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGCATGATCAAATATCTGAATTGTCATGTAATTATGACCATTACAATGATGTCATTGCCATAGTCATTTGGTGATTGTGTACATTGTGTTGAAGACTTATTACCACATTGAATTATAACTCAGTAGTTTAATGAATTTTATAAGGGTGTTTC-TTTGTGACTAATGTGAACAGATGGTAGAAGTGGAAAAGAAATAAACTATGCCTCATTTTCCTTTACATTTTCTTTGTTATTATGCTCTGAAATTAAGAACACTAGACTAACACACATT--TACACACAT--AT-TTTTAAATTATAACCTTTAAAAA-TGCA-ATTCATCAGATACCTCTAAACCCCATATT---TACTTTCTTTAGTC---TTTTTTATTTTTGCtttttt-----g
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28327619 500 +  82825804 AGCTTTGTCTCTCCCATTGCTGGCTTGAGTTTCTTTCTCCTCCCTGAAAGCCACAGATTCTTGAATAACAAATGAATAGAGGCATTTAGAGGCTGAC-AAAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGCATGATCAAATATCTGAATTGTCATGTAATTATGACCATTACAATGATGTCATTGCCATAGTCATTTGGTGATTGTGTACATTGTGTTGAAGACTTATTACCACATTGAATTATAACTCGGTAGTTTAATGAATTTTATAAGGGTGTTTC-TTTGTGACTAATGTGAACAGATGGTAGAAGTGGAAAAGAAATAAACTATGCCTCATTTTCCTTTACATTTTCTTTGTTATTATGCTCCGAAATTAAGAACACTAGACTAACACACATT--TACACACAT--AT-TTTTAAATTATAACTTTTAAAAA-TGCA-CTTCATCAGATACCTCT-AACCCCATATT---TACTTTCTTTAGTC---TTTTTTATTTTTGCtttttt-----a
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3991885 501 -   4237731 AGCTTTGTCTCTCCCATTGCTGGCTTGGGTTTCTTTCTCCTCCCTGAAAGCCACAGATTCTTGAATAACAAATGAATAGAGGTATTTAGAGGCTGAC-AAAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGCATGATCAAATATCTGAATTGTCATGTAATTATGACCATTACAATGATGTCATTGCCATAGTCATTTGGTGATTGTGTACATTGTGTTGAAGACTTATTACCACATTGAATTATAACTCAGTAGTTTAATGAATTTTGTAAGGGTGTTTC-TTTGTGACTAATGTGAACAGATGGTAGAAGTGGAAAAGAAATAAACTATGCCTCATTTTCCTTTACATTTTCTTTGTTATTATGCTCTGAAATTAAGAACACTAGACTAACACACATT--TACACACAT--AT-TTTTAAATTATAACCTTTAAAAA-TGCA-CTTCATCAGATACCTCTAAACCCCATATT---TACTTTCTTTAGTC---TTTTTTATTTTTGCtttttt-----g
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      262182 501 -   1175262 ACCTTTGTCTCTCCCATTGCTGGCTTGGGTTTCTTTTTCCTCTCTGAAAGCCACAGATTCTTGAATAACAAATGAATAGAGGTATTTAGAGGCTGAC-AAAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGCATGATCAAATATCTGAATTGTCATGTAATTATGACCATTACAATGATGTCATTGCCATAGTCATTTGGTGATTGTGTACATTGTGTTGAAGACTTATTACCACATTGAATTATAACTCGGTAGTTTAATGAATTTTATAAGGGTGTTTC-TTTgtgactaatgtgaacagatggtagaagtggaaaagaaacaaactatgcctcatttttctttacgttttctttgttaTTTTGCTCTGAAATTAAGAACACTAGACTAACACACATT--TACACACAT--AT-TTTTAAATTATAACCTTTAAAAA-TGCA-CTTCATCAGATACCTCTAAACCCCATATT---TGCTTTCTTTAGTC---TTTTTTATTTTTGCtttttt-----a
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123600559 500 - 204313951 AGCTTTGTCTCTCCCATTGCTGGCTTGGTTTTCTCTCTCCTCCCTGAAAGCCACAGATTCTTGAATAACGAATGAATAGAGGTATTTAGAGGCTGACAAAAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGAATGATCAAATATCTGAATTGTCATGTAATTATGACCATTACCATGATGTCATTGCCATAGTCATTTGGCGATTGTGTACATTGTGTTGAAGACGTATTACCACATTGAATTATAACTCGGTAGTTTAATGAATTTTAT-AGGGTGTTTC-TTTGTGGCTAATGTGAACAGATGGTAGAAGTGAAAAAGAAATAAACTATGCCTCATTTTCCTTTACATTTTCTTTGTTATTATACTCTGAAATTAAGAACATCAGACTAACACACATT--TATACACAC--AT-TTTCAAATTATAATCTTTACAAA-TGCA-CTTCATCAGATACCTCTAAACCCCATATT---TACTTTCTTTAGTCTTTTTTT----TTTTGCtttttt-----a
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55651026 497 -  71252344 AGCTTTGTCTCTCCCATTGCTGGCTTGGGTTTCTCTCTCCTCTCTGAAAGCCACAGATTCTCGAATAAAGAATGAATAGAGGTATTTAGAGGCTAACAAAAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGAATGATCAAATATCTGAATTGTCATGTAATTATGACCATTACCATGATGTCATTGCCATAGTCATTTGGCGATTGTGTACATTGTGTTGAAGACTTATTACCACATTGAATTATAACTCGGTAGTTTAATGAATTTTAT-AGGGTGTTTC-TTTgtggctaatgtgaacagatggtagaagtgaaaaagaaataaactatgcctcattttcctttacattttctttgttaTTATGCTCTGAAATTAAGAACATCAGACTAACACACATT--TATACACAC--AT-TTTAAAATTATAATCTTTAAAAA-TGCA-CTTCATCAGTTACCTCTAAACCCCATATT---TACTTTCTTTAGTC---TTTT----TTTTGCtttttt-----a
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1346381 496 -   1400280 AGCTTTGTCTCTCCTGTTGCTGGCTTGGGTTTCTCTCTCCTCCCTGAAAGCCACAGATTCTTGAATAAAGAATGAATAGAGGTATTTAGAGGCTGACAAAAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGAATGATCAAATATCTGAATTGTCATGTAATTATGACCATTACCATGATGTCATTGCCATAGTCATTTGGCGATTGTGTACATTGTGTTGAAGACTTATTATCACATTGAATTATAACTCGGTAGTTTAATGAATTTTAT-AGGGTGTTTC-TTTgtggctaatgcgaacagatggtagaagtgaaaaagaaataaactatgcctcattttcctttacattttctttgttaTTATGCTCTGAAATTAAGAACATCAGACTAACACACATC--TATACACAC--AT-TTTAAAATTATAATCTTTACAAA-TGCA-CTTCATCAGATACCTCTAAACCCTATATT---TACTTTCTTTAGTC---TTTT----TTTT-Ctttttt-----a
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13138844 496 -  42888418 AGCTTTGTCTCTCCCATTGCTGGCTTGGGTTTCTCTCTCCTCCCTGAAAGCCACAGATTCTTGAATAAAGAATGAATAGAGGTATTTAGAGGCTGAC-AAAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGAATGATCAAATATCTGAATTGTCATGTAATTATGACCATTACCATGATGTCATTGCCATAGTCATTTGGCGATTGTGTACATTGTGTTGAAGACTTATTACCACATTGAATTATAACTCGGTAGTTTAATGAATTTTAT-AGGGTGTTTC-TTTgtggctaatgtgaacagatggtagaagtgaaaaagaaataaactatgcctcattttcctttacattttctttgttaTTATGCTCTGAAATTAGGAACATCAGACTAACACGCATT--TATACACAC--AT-TTTAAAATTACAGTCTTTACAAA-TGCA-CTTCATCAGATACCTCTAAACCCCATATT---TACTTTCTTTAGTC---TTTT----TTGTGCtttttt-----a
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60506155 493 + 108143057 AGCTTTGTCTCTCTC---GCTGGGTTGGGTACTCG---CCCCTCTGAAAGCCACAGATTCTTGAATAAAGAATGAATAGAGGTATTTAGAGGCTGAC-AAAA----------------------AAG--------AAAGAATAGTTATTTTACTGATGTTTTGAATGATCAAATATCTGAATTGTCATGTAATTATGACCCTTACAATGATGTCATTGCCACAGTCGTTTGGCGATTGTGTACATTGTGTTGAAGACTTATTACCGCATTGAATTATAACTTGGTAGTTTAATGAATTTTATAAGGGTGTTTCTTTTgtggctaatgtgaacagatggtagaagtggaaaagaaataaactatgcctcattttcctttacattttctttgttaTTATGCTCTGAAATTAAGAGAATCAGACTAACATACATT--TATACACAC--AT-TTTAAAATCATAATCTTTATAAA-TGCA-TTTTATCAAATAGCTCCAAACCCCTTATTTTCTGCTTTCCTTA----------TTTTTTTTACtttttt-----a
i micMur3.chr12            I 85 C 0
s proCoq1.NW_012155062v1     3545414 505 +  11683526 AGCTCGGCCTCTGGCACTGCTGGACTGGGTTTCCAGCCCCTCCCTGAAAGCCACGGATTCTTGAATAAAGACTGAATAGAGGTATTTAGAGGCTGAC-AAAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGAATGATCAAATATCTGAATTGTCATGTAATTATGACCATTACAATGATGCCATTGCCATAGTCATTTGGCGATTGTGTACATTGTGTTGAAGACTTATTACCACATTGAATTATAACGTGGTAGTTTAATGACTTTTATAAGGGTGTTTCTTTTGTGGCTAATGTGAACAGATGGTAGAAGTGGAAAAGAAATAAACTATGCCTCGTTTTCCTTTACATTTTCTTTGTTATTATGCTCTGAAATTAAGAGAATCAGACTAACACACATT--TATACACACATAT-TTTTAAATCATAATCTTTAAAAA-TGCA-TTGTATCAAACATCTCCAAACCTCATATTTTCTGCTTTCTTTAG-----TCTTTTTTCTTTACCttttt-----a
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3024090 507 +   4132165 AGCTTTGTCTCTCTCATCACTGGATTGAGTTTCTATCTCCTCCCTGAAAGCCACAGATTCTTGAATAGAGAATGAATAGAAGTATTTAGAGGCTGAC-AGAA----------------------AAG---------AAGAATAGTTATTTTACTGATGTTTTGAATGATCAAATATCTGAATTGTCATGTAATTATGACCGTTACAATGATGCCATTGCCATAGTCATTTGGCGATTGTGTACATTGTGTTGAAGACTTATTACCACATTGAATTATAACCAAGTAGTTCAATGAATTTTATAAGTGTGTTTC-TTTGTGGCTAATGTGAACAGATGGTGGAAGTGGAAAAGAAATAAACTATGCCTCATTTTCCTTTACATGTTCTTTGTCATTATGCGCTGAAATTAAGAGAATCAGGCTAACACACATT--TATACACACATAA-TGTTAAATTATGATCCTTAAAAAGTACA-TTTTATTAAATGTCTCCAAACCTCATATTTTCTGCCTTCTTTAAGT---TATTTTTTTTTCACtttttt-----g
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55485868 505 +  90702639 AGCTTTGGCTC-CCCATTGCTGGATCCAGCTCCCACCTATTCTCTGAAAGCCACAGACTCTTGACTACAGAGTGAATAGACCTATTTAGAGGCTGAC-AAAA----------------------AAAATAATAATAAAGAATAGTTATTTTACTGATGTTTTGAATGTTCAAATATCCAAACTGTCGAGTAATTATGACCATTACAATGATGTCATTGCCACAGTCATTTGGCGGTTGTGTACATTGTGTTGTGGACTTATTACTGCATTGAATTATAATGTGGCAATTTAATGGATTTTATAAGGGTGTTTC-TTTGTGGCTAATGTGAACAGATGGTGGAAGTGGAAAGGAAATAAACTCTGCCTCGTTTTCTTTTACATTTTCTTTG---TTATGCTCAGAAATTAAGAATGTCAGACCAACATACATTTGTATGCCCAT--GT-TTTTAAATTATAATCTTTAAAGA-GGCATTTTTGCCAGATATCTCCACGCACGGCTTT---TGCTTTCTGTACAC---TCTC----TTCAACCttttc-----a
i mm10.chr18               C 0 C 0
s canFam3.chr11             14875992 527 +  74389097 AGCTTTGTCTCCATCATTGCTGGATTGGGTTTCTATCTCTTCCCTGAAAGCCACGGATTCTTGCATAAAGAATGAATAGAGGTATTTAGAGGCTGGC-aaaaaaaaaaaaaaaaaaaaaaaaagaag---------aagaaTAGTTACTTCACTGAGGTTTTGAATGATCAAATATCTGAATTGTCATGTAATTATGACCATTACAATGATGTCATTGCCATAGTCACTTGGCAATTGTGTACATTGTGTTGAAGACTTATTACCGCACTGAATTATATCTTGGTAGTTTAATGAATTTTATAAGGGTGTTTC-TCTgtggctaatgtgaacagatggtagaagtggaaaagaaataaactatgcctcattttcctttacattttctcGGTTATTATGCTCTGAAATTAAGAACATCAGACTAACACACATT--TATACAGAC--ATATTTTAAATCATAATCTTTAAAAA-TACA--TTTGTCAGATATCCCCCAATTCCATATTTTCTGCTTTCTTTAGGC---TTAT----TTTTGTCACTTTAAAAAa
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2580860 469 +   3667625 AGTTTTGTCTGTGCAATTGCTGGATTGTATTTCTATCTCCTCCCTGAAAGCCGCAGATTTTTGAATAAAGAATG----GAGGTATTTAGAAGCTGAC-AAAA----------------------------------AAGAATAGTTATTTTACTGTTGTTTTGAATGATCAAATATCTGAATTGTCACGTAATTATGACCATTACATTTATGTCATTGCCATAGTCATTTGGGGATTGTATACATTGTCTTGAAGACTTATTGCCACATTGAAATATAACTTGGGAGTTTAATGAATTTTATAAGGGAGTTTC-TTTGTGGCTAATGTGAACAGATGGTTGACGTGTAAAAGAAATAAACTATGCCTCATTTTCCTTTACATTTTCTT---TATTATGCTCTGAAGTTAACAACATCA--CTAACACACATTTATATACACAT--GT-TTTAAAATCATAATCTTTAAAAA-TACA-TTTTATCAGATATCCCCAAATTCCATATATTCTGCTTTCTTG---------------------------------
i dasNov3.JH567306         C 0 C 0

a score=1849639.000000
s hg38.chr5_KI270796v1_alt     38765 136 +    172708 ttgtggtaaaaat-----ata-ata--ttatttattattta-agcca-ttttt--aaattcacaattcagtggcattaagtacattc-acaatattatacagccatcaccactctccgtttccagaactc-ttcatcattccaaacTTTT
s panTro5.chr5             125148841 136 + 181907262 ttgtggtaaaaat-----ata-ata--ttatttattattta-agcca-ttttt--aaatgcacaattccgtggcattaagtacattc-acaatattatacagccatcaccactatccctttccagaactc-ttcatcattccaaacTTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126485787 137 + 183735486 ttgtggtaaaaat-----ata-ata--ttatttattattta-agccatttttt--aaatgcacaattccgtggcattaagtacattc-acaatattatacagccatcaccactatccctttccagaactc-ttcatcattccaaacTTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1677282 136 +   8933513 ttgtggtaaaaat-----ata-ata--ttatttattattta-agcca-ttttt--aagtgcacaattcagtggcattaagtacattc-acaatattatacagccatcaccgctatccctttccagaactc-ttcatcattccaaacTTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139807286 137 + 163208435 ttgtggtaaaaat-----ata-ata--ttatttattattta-cgcca-ttttt--aaatgcacaattcagtggcattaagtacattc-acaatattatacagccatcaccactatccatttgcagaactcttttatcattccaaacTTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122793178 142 + 180051392 ttgtggtaaaaatatatcata-ata--ttatttatcattta-agcca-ttttt--aaatgcacaattcagtggcattaagtacattc-acaatattatacagccatcaccactatccttttccagaactctttcatcattccaaacCTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124216859 142 + 181584905 ttgtggtaaaaatatatcata-ata--ttatttatcattta-agcca-ttttt--aaatgcacaattcagtggcattaagtacattc-acaatattatacagccatcaccactatccttttccagaactctttcatcattccaaaGCTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16214587 142 +  18395747 ttgtggtaaaaatatatcata-ata--ttatttatcattta-agcca-ttttt--aaatgcacaattcagtggcattaagtacattc-acaatattatacagccatcaccactatccttttccagaactctttcatcattccaaacCTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5220430 142 +  26952557 ttgtggtaaaaatatatcata-ata--ttatttatcattta-agcca-ttttt--aaatgcacaattcagtggcattaagtacattc-acaatattatacagccatcaccactatccttttccagaactctttcatcattccaaacCTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28328119 142 +  82825804 ttgtggtaaaaatatatcata-cta--ttatttatcattta-agtca-ttttt--aaatgcacaattcagtggcattaaatacattc-acaatattatacagccatcaccactatccttttccagaactctttcatcattccaaacCTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3992386 142 -   4237731 ttgtggtaaaaatatatcata-ata--ttatttatcattta-agcca-ttttt--aaatgcacaattcagtggcattaagtacattc-acaatattatacagccatcaccactatccttttccagaactctttcatcattccaaacCTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      262683 142 -   1175262 ttgtggtaaaaatatatcata-ata--ttatttatcattta-agcca-ttttt--aaatgcacaattcagtggcattaagtacattc-acaagattatacagccatcaccactatccttttccagaactctttcatcattccaaacCTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123601059 142 - 204313951 ttgtagtaaaaatatataata-ata--gtatttatcattta-aacca-ttttt--aaaagtacaattcagtggcattaagtacattc-acaatattatacagtggttaccactagccatttccagaagtccttcatcattccaaacCTTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55651523 142 -  71252344 ttgcagtaaaaacatagaata-ata--ccatttattattta-aacca-ttttt--aaaagtacaattcagtggcattaagtacattc-ccaacattatacggcagttaccactagccatttccagaagtccttcatcattccaaacCTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1346877 142 -   1400280 ttgtggtaaaaatatataata-ata--ctacttatcattta-aacca-tcttt--aaaagtacaattcagtggtgttaagcacattc-acaatattatacagcggttaccactagccatttccagaagtccatcatcattccaaacCTTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13139340 142 -  42888418 ttgtagtaaaaatatataata-ata--ctatttatcattta-aacca-ttttt--aaaagtacaattcagtggcgttaagtacattc-acaatattatacagcggttaccactagccatttccagaagtccttcatcattccaaacCTTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60506648 135 + 108143057 ttatggtaaaaatac-------ata--ttatttatcgtttt-atcca--tttt--aaacatacaattctgtggtattaaatacattc-acagtgttgtacagccatgaccaccatccatttccagaacgttttcatcattctaaacCTGC
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3545919 136 +  11683526 ttatggtaaaaatac-------ata--ttatttaccatttt-atcca-ttttt--aagtgtacaattccgtgatattaaatacattc-gcaatgttgtacagccatcaccaccgtccatttccagaactttttcatcatcccaaacCTCT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3024597 140 +   4132165 tgatggtaaaaatat-------atgacatatttatcatttcaatcca-tttgt--gagtgtaccattctgcagtattaaatacatccaacaagggtgtgcagccatcgccactgttcatttccagaactttttcatcatcccaaaccttt
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55486373 141 +  90702639 ctgaggtgaaacggaa--agc-ata--tcacttaccatttt-cacca-ttttttaaaaggttccatttggaagcattaagcatatgc-ccagcattggaaggctctcattaccaaccttctccatattggtttca-caatccAGGTCTTT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14876519 138 +  74389097 ttatggt-aaagtatataaaacata--taatttaccattta-ac----tgctt--caatgtacagtttggttgcattaagtacattc-acaatattgtgcaaccatcgccactctccactgccaga-ctttttcatcatctcaaacCTTT
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2581329   0 +   3667625 C

a score=230700.000000
s hg38.chr5_KI270796v1_alt     38901 13 +    172708 AGACATATTTTTA
s panTro5.chr5             125148977 13 + 181907262 AGACATATTTTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126485924 13 + 183735486 AGACATATTTTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1677418 13 +   8933513 AGACATATTTTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139807423 13 + 163208435 AGACATATTTTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122793320 13 + 180051392 AGACATATTTTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124217001 13 + 181584905 AGACATATTTTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16214729 13 +  18395747 AGACATATTTTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5220572 13 +  26952557 AGACATATTTTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28328261 13 +  82825804 AGACATATTTTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3992528 13 -   4237731 AGAGATATTTTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      262825 13 -   1175262 AGACATATTTTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123601201 11 - 204313951 AGAC--ATTTTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55651665 13 -  71252344 AGACATATTTTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1347019 13 -   1400280 AGACATATTTTTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13139482 13 -  42888418 AGACATATTTTTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60506783 13 + 108143057 AGACATATTTTTA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3546055 13 +  11683526 AGACATATTTTTA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3024737 13 +   4132165 agacgtattttta
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55486514 13 +  90702639 AGACATACTTTTA
i mm10.chr18               C 0 I 363
s canFam3.chr11             14876657 13 +  74389097 AGACAGATTCTGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2581329 13 +   3667625 ACACTGATTTTTA
i dasNov3.JH567306         C 0 C 0

a score=2132847.000000
s hg38.chr5_KI270796v1_alt     38914 139 +    172708 AACAACCACACA-TTTTTAGTCCATTAGGAAACATTTCTG------------TCTTTCTTACATGAGGTTCATTAAATCATATTCTTAATATAATTGTTTATGTATGAATCCCTAAGCCTGAGGTTCATTATGAATGTATTTTCTTCAGGAT
s panTro5.chr5             125148990 139 + 181907262 AACAACCACACA-TTTTTAGTCCATTAGGAAACATTTCTG------------TCTTTCTTACATGAGGTTCATTAAATCATATTCTTAACATAATTGTTTATGTATGAATCCCTAAGCCTGAGGTTCATTATGAATGTATTTTCCTCAGGAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126485937 139 + 183735486 AACAACCACACA-TTTTTAGTCCATTAGGAAACATTTCTG------------TCTTTCTTACATGAGGTTCATTAAATCATATTCTTAACATAATTGTTTATGTATGAATCCCTAAGCCTGAGGTTCATTATGAATGTATTTTCTTCAGGAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1677431 139 +   8933513 AACAACCACACA-TTTTTAGTCCATTAGGAAACATTTCTG------------TCTTTCTTACATGAGGTTCATTAAATCATATTCTTAACATAATTGTTTATGTATGAATCCCTAAGCCTGAGGTTCATTATGAATGTATTTTCCTCAGGAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139807436 139 + 163208435 AACAACCACACA-TTTTTAGTCCATTAGGAAACGTTTCTG------------TCTTTCTTACATGAGGTTCATTAAATCATATTCTTAACGTAATTGTTTATGTATGAATCCCTAAGCCTGAGGTTCAGTATGAATGTATTTTCCTCAGGAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122793333 139 + 180051392 AACAACCACACG-TTTTTAGTCCATTAGGAAACGTTTCTG------------TCTTTCTTATGTGAGGCTCATTAAATCATATTCTTAACATAATTGTTTATGTATGAATCCCTAAGCCTGAGGTTCATTATGAATGTATTTTCCTCAGGAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124217014 139 + 181584905 AACAACCACACG-TTTTTAGTCCATTAGGAAACGTTTCTG------------TCTTTCTTATGTGAGGCTCATTAAATCATATTCTTAACATAATTGTTTATGTATGAATCCCTAAGCCTGAGGTTCATTATGAATGTATTTTCCTCAGGAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16214742 139 +  18395747 AACAACCACACG-TTTTTAGTCCATTAGGAAACGTTTCTG------------TCTTTCTTATGTGAGGCTCATTAAATCATATTCTTAACATAATTGTTTATGTATGAATCCCTAAGCCTGAGGTTCATTATGAATGTATTTTCCTCAGGAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5220585 139 +  26952557 AACAACCACACG-TTTTTAGTCCATTAGGAAACGTTTCTG------------TCTTTCTTATGTGAGGCTCATTAAATCATATTCTTAACATAATTGTTTATGTATGAATCCCTAAGCCTGAGGTTCATTATGAATGTATTTTCCTCAGTAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28328274 139 +  82825804 AACAACCACACG-TTTTTAGTCCATTAGGAAACGTTTCTG------------TCTTTCTTATGTGAGGCTCATTAAATCATATTCTTAACATAATTGTTTATGTATGAATCCCTAAGCCTGAGGTTCATTATGAATGTATTTTCCTCAGGAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3992541 139 -   4237731 AATAACCACACG-TTTTTAGTCCATTAGGAAACGTTTCTG------------TCTTTCTTATGTGAGGCTCATTAAATCATATTCTTAACATAATTGTTTATGTATGAATCCCTAAGCCTGAGGTTCATTATGAATGTATTTTCCTCAGGAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      262838 139 -   1175262 AACAACCACACG-TTTTTAGTCCATTAGGAAACATTTCTG------------TCTTTCTTATGTGAGGCTCATTAAATCATATTCTCAACATAATTGTTTATGTATGAATCCCTAAGCCTGAGGTTCGTTATGAATGTATTTTCCTCAGGAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123601212 135 - 204313951 AACAACCACACA-TTTTTATTCCATTAGGGAACATTT----------------CTTTCTTATGTGAAGTTCATTAAATCATATTCTTAACATAATTGTTTATGTATGAATCCCTAAGCCTGAGGTTAATTGTGAATGTATATTCCTCAGGAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55651678 139 -  71252344 AACAACCACACA-TTTTTATTCCATTAGGGAACATTTCTG------------CCTTTCTTATGTGATGTTCATTAAATCATATTCTTAACATAATTGTTTATGTATGAATCCCTAAGCCTGAGGTTAATTGTGAATGTATATTCCTCAGGAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1347032 139 -   1400280 AACAACCACACA-TTTTTATTCCATTAGGGAACATTTTTG------------TCTTTCTTATGTGAAGTTCATTAAATCATATTCTTAACATAATTGTTTATGAATGAATCCCTAAGCCTGAGGTTAATTGTGAATGTATATTCCTCAGGAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13139495 140 -  42888418 AACAACCACACATTTTTTATTCCATTAGGGAACATTTCTG------------TCTTTCTTACATGAAGTTCATTAAATCATATTCTTAACATAATTGTTTATGTATGAATCCCTAAGCCTGAGGTTAATTGTGAATGTATATTCCTCAGGAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60506796 150 + 108143057 AGAAACCATATA-TTTTTATTCCATTAGGGGACATTtctctctctctctctgtctttctTATATGAGGTTCATTAAATCATATTCTTAACATAATTGTTTATGTATGAATCCCTAAGCCTGAGGTTAATTAC-AATGAATTTTCCTCAGGAC
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3546068 142 +  11683526 AACAACCGTACA-TTTTTATTTCATTAGGGAACATTTCTCTCTC--------TGTGTCTTATGTGAGGTTTGTTAAATCACATTCTTAACATAATTGTTTATGTACGAATCCCTAAGCCTGAAGTTAATTAC-AATGAATTTTCCTCATGAC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3024750 147 +   4132165 aacagcaacACA-GTTTTAGTCAATTAGGGAACATCTCTTTTTCTTTCT---CATTACATATGTAAGATTCCTTAAATCCTGTTTTTAACATAATTGTTTATGTACGAATCCCTAAGCCTGAGGTTAATTAT-AATGCATTTTCCTCAGGAC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14876670 137 +  74389097 AGCAA--GTACA-TTTTTAGTCCATTAAGAAACTTCTCTC------------TCTTCCTTATGTAAGGTTCATTAAGTCATATTCTTAATATAATCATTTATACATGAACCCCTAAGTCTGAGGCTAATTATGAATGTATTTTCCTCAGCAC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2581342 127 +   3667625 AGTAACTACAT--TTTTATTTCCATTGGGAATCTTATCTC------------TCTT-CTTATATAAGGTTTAATAAATCATGCTCTTAAC----------ATGTAAAAACCCCTAAGCCTGAGGTTAATTATAAATGTATTTCTTCCAGACT
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55486527 363 +  90702639 I

a score=2081820.000000
s hg38.chr5_KI270796v1_alt     39053 143 +    172708 T--CAAGATTTCAGAGGACAGTTTATTGAGG---ACTAGTAAATCCAAGAAACTTTATAAGTGATAATAATATCTAACATTTAT-------TTCTTCTGAGAGAAGCACTAAGCTAATTACTGCACATGTTAAGGGGAAAAATTAGATAATAAAA
s panTro5.chr5             125149129 143 + 181907262 T--CAAGATTTCAGAGGACAGTTTATTGAGG---ACTAGTAAATCCAAGAAACTTTATAAGTGATAATAATATCTAACATTTAT-------TTCTTCTGAGAGAAGCACTAAGCTAATTACTGCACATGTTAAGGGGAAAAATTAGATAATAAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126486076 143 + 183735486 T--CAAGATTTCAGAGGACAGTTTATTGAGG---ACTGGTAAATCCAAGAAACTTTATAAGTGATAATAATATCTAACATTTAT-------TTCTTCTGAGAGAAGCACTAAGCTAATTACTGCACATGTTAAGGGGAAAAATTAGATAATAAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1677570 143 +   8933513 T--CAAGATTTCAGAGGACAGTTTATTGAGG---ACTAGTAAATACAAGAAACTTTATAAGTGATAATAATATCTAACATTTAT-------TTCTTCTGAGAGAAGCACTAAGCTAATTACTGCACATTTTGAGGGGAAAAATTAGATAATAAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139807575 141 + 163208435 T--CAAGATTTCAGAGGACAGTTTATTGAGA---AATAGTAAATACAAGAAACTTTATAAGTGATAGTAATATCTAACATTTAT-------TTCTTCTGAGAGAAGCACTAAGCTAATTACTG--CATGTTAAGGGGAAAAATTAGATAATAAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122793472 142 + 180051392 T--TAAGATTTCAGAGGACAGTTTATTGAGG---AATAGT-AATACAAGAAACTTGATAAGTGATAATAGTATCTAACATTTAT-------TTGTTCTGAGAGAAGCACTAAGCTAATTACTGCACATGTTAAGGGGAAAAATTGGATAATAAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124217153 142 + 181584905 T--CAAGATTTCAGAGGACAGTTTATTGAGG---AATAGT-AATACAAGAATCTTGATAAGTGATAATAGTATCTAACATTTAT-------TTGTTCTGAGAGAAGCACTAAGCTAATTACTGCACATGTTAAGGGGAGAAATTGGATAATAAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16214881 142 +  18395747 T--CAAGATTTCAGAGGACAGTTTATTGAGG---AATAGT-AATACAAGAAACTTGATAAGTGATAATAGTATCTAACATTTAT-------TTGTTCTGAGAGAAGCACTAAGCTAATTACTGCACATGTTAAGGGGAAAAATTGGATAATAAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5220724 142 +  26952557 T--CAAGATTTCAGAGGACAGTTTATTGAGG---AATAGT-AATACAAGAAACTTGATAAGTGATAATAGTATCTAACATTTAT-------TTGTTCTGAGAGAAGCACTAAGCTAATTACTGCACATGTTAAGGGGAAAAATTGGATAATAAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28328413 142 +  82825804 T--CAAGATTTCAGAGGACAGTTTACTGAGG---AATAGT-AATACAAGAAACTTGATAAGTGATAATAGTATCTAACATTTAT-------TTGTTCTGAGAGAAGCACTAAGCTAATTACTGCACATGTTAAGGGGAAAAATTGGATAATAAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3992680 142 -   4237731 T--CAAGATTTCAGAGGACAGTTTATTGAGG---AATAGT-AATACAAGAAACTTGATAAGTGATAATAGTATCTAACATTTAT-------TTGTTCTGAGAGAAGCACTAAGCTAATTACTGCACATGTTAAGGGGAAAAATTGGATAATAAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      262977 142 -   1175262 T--CAAGATTTCAGAGGACAGTTTATTGAGG---AATAGT-CATACAAGAAATTTGATAAATGATAATAATATCTAACATTTAT-------TTGTTCTGAGAGAAGCACTAAGCTAATTACTGCACATGTTAAGGGGAAAAATTGGATAATCAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123601347 142 - 204313951 T--CAGGATTTCAGAGGACAGTTTACTGAGG---AACAGA-AATACAAAAAATTTTACAGGTAATAATAATGTCTAACATTTAT-------TTATTCTGTGAGAAGCACGAATCAAATTACTATACATGTTAAGAGAAACAATTAGATACTAAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55651817 142 -  71252344 T--CAGGATTTCAGAGGACAGTTTACTGAGG---AATAGT-AATACGAGAAACTTTATAGGTGATAATAATATCTAACATTTAT-------TTATTCTGAGAGAAGCACTAATCAAATTACTATACATGTTAATAGGAAAAATTAGATACTAAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1347171 142 -   1400280 T--CAGGATTTCAGAGGACAGTTTACTGAGG---AATAGT-AATGCAAGAAACTTTATAGGTGATAATAATATCTAACATTTAT-------TTATTCTGAGAGAAGCACTAATTAAATTACTATACATGTTAAGAGGAAAAATTAGATACTAAAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13139635 142 -  42888418 T--CAGGATTTCAGAGGACAGTTTACTGAGG---AATAGT-AATACAAGAAACTTTATAGGTGATAATAATATCTAACATTTAT-------TTATTCTGAGAGAAGCACTAATCAAATTACTATACATGTTAAGAGGAAAAATTAGATACTAAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60506946 150 + 108143057 TA-TACAATTCCAGAGGATAGTTTATTGAGG---AATAAT-AATACAAGAAACTTTGCAGGTGATACtaatacctaacaattatgaagtgtttattctgagcaaagcactaagctaattactacacatgtTAAGGGGAAACATTAGGTAATCAAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3546210 153 +  11683526 TA-TAGAATTCCAGAGGATGGTTTGTTGAGGAATAATAAT-AATATAAGAAACTTTACAGGTGATACtaatatctaacaactatgaagtgtttattctgagcgaagcactaagctaattactatacatgtTAGGGGGAAAAGTTAGATAATAAAA
i proCoq1.NW_012155062v1   C 0 I 2793
s otoGar3.GL873679           3024897 135 +   4132165 TA-TAGGATT-CAGGGGACAGTTTATTGGGGG--AATAGT-AAGACAAGAAATGTTATAGGTCA---TAATATCTAACAA-----------TTATTCTGTGCAAAGCTCAAAGCTAATTACTATA-ATGTTAAGGAAGAAAACTAGATAATAAAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55486890 141 +  90702639 T--CAACATTTCAGCAGACAGCTTATTGAGG---AATTGG-------AGAAACCTCCCAAGTGGTCAGAGTAAGGAACATTTGTGAAGTGTTGATGCTCAGAAAGGCACGGAAGCGAATACTACATTTGTGAAGGGGAA--ATCAGATAATAGAT
i mm10.chr18               I 363 I 29
s canFam3.chr11             14876807 147 +  74389097 -TACGGAATTCCAGAGAATAGCTTACTGAAG---GATAGT-AGTCCAAGAAGCCTTGCAGGTGatgatag---ctaacgtttatggaacatttattttgagtgaagcaagaagctcattactgtacatgttaaagagaaaaattagatcctcaaa
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2581469 149 +   3667625 --ACAGAATTCCAGAGAACAATGTATCAAAG---AATACT-AATATAAGAAGCTTTATAGATGATaataataactaacatttattgagctttaagtctgagtaaagcactaagttaattactatacatgtTACGTGGGAAAATTAGATAAAAAAA
i dasNov3.JH567306         C 0 C 0

a score=195151.000000
s hg38.chr5_KI270796v1_alt     39196 16 +    172708 GGTCTCGTAAAACATT
s panTro5.chr5             125149272 16 + 181907262 GGTCTCGTAAAACATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126486219 16 + 183735486 GGTCTCGTAAAACATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1677713 16 +   8933513 AGTCTCGTAAAACATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139807716 16 + 163208435 GATCTCTTAAAACATT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122793614 16 + 180051392 GGTCTCTTAAAACATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124217295 16 + 181584905 GGTCTCTTAAAACATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16215023 16 +  18395747 GGTCTCTTAAAACATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5220866 16 +  26952557 GGTCTCTTAAAAGATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28328555 16 +  82825804 GGTCTCTTAAAACATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3992822 16 -   4237731 GGTCTCTTAAAACATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      263119 16 -   1175262 GGTCTCTTAAAACATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123601489 16 - 204313951 GATCTCTTAAAATGTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55651959 16 -  71252344 GGTCTCTCAAAACATT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1347313 16 -   1400280 GTTCCCTTAAAACATT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13139777 16 -  42888418 GTTCTCTTAAAACATT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60507096 16 + 108143057 GCTTGCTTGAAACCTT
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3025032 16 +   4132165 GCTTGCTTGAAACATT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55487060 16 +  90702639 CTCCTCTCAAAATATA
i mm10.chr18               I 29 C 0
s canFam3.chr11             14876954 16 +  74389097 cgctgcttacaacatc
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2581618 16 +   3667625 GATGGtttaaaatatt
i dasNov3.JH567306         C 0 I 407
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I

a score=257440.000000
s hg38.chr5_KI270796v1_alt     39212 21 +    172708 CTGTAAGGCAAAGTTGCTGtt
s panTro5.chr5             125149288 19 + 181907262 CTGCAAGGCAAAGTTGCTG--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126486235 21 + 183735486 CTGTAAGGCAAAGTTGCTGtt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1677729 21 +   8933513 CTGTAAGGCAAAGTTGCTGtt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139807732 19 + 163208435 CTGTTAGGCAAAGTTGCTG--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122793630 19 + 180051392 CTGTAAGGCAAAGTTGCTG--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124217311 19 + 181584905 CTGTAAGGCAAAGTTGCTG--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16215039 19 +  18395747 CTGTAAGGCAAAGTTGCTG--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5220882 19 +  26952557 CTGTAAGGCAAAGTTGCTG--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28328571 19 +  82825804 CTGTAAGGCAAAGTTGCTG--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3992838 19 -   4237731 CTGTAAGGCAAAGTTGCTG--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      263135 19 -   1175262 CTGTAAGGCGAAGTTGCTG--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123601505 19 - 204313951 TTGTAAGGCACAGTTGCTG--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55651975 19 -  71252344 CTGTAAGGAAAAGTTGCTG--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1347329 19 -   1400280 CTGTAAGGCAAAGTTGCTG--
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13139793 19 -  42888418 CTGTAAGGCAAAGTTGCTG--
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60507112 19 + 108143057 CCTTAAGGCAAAGTTGGTG--
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3025048 19 +   4132165 CCTTAAGGCAAAGCTGGTG--
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55487076 19 +  90702639 CCTTAAGGCAGAGTTGATG--
i mm10.chr18               C 0 C 0
s canFam3.chr11             14876970 19 +  74389097 ccttaaggcaaaggtgatg--
i canFam3.chr11            C 0 C 0
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e dasNov3.JH567306           2581634 407 +   3667625 I

a score=6857.000000
s hg38.chr5_KI270796v1_alt     39233 10 +    172708 attattatta
s panTro5.chr5             125149307  6 + 181907262 ----TTATTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126486256 10 + 183735486 attattatta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1677750 10 +   8933513 attattatta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139807751  9 + 163208435 -TTATTATTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122793649  3 + 180051392 -------TTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124217330  3 + 181584905 -------TTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16215058  3 +  18395747 -------TTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5220901  3 +  26952557 -------TTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28328590  3 +  82825804 -------TTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3992857  3 -   4237731 -------TTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      263154  3 -   1175262 -------TTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123601524  3 - 204313951 -------TTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55651994  3 -  71252344 -------TTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1347348  3 -   1400280 -------TTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13139812  3 -  42888418 -------TTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60507131  3 + 108143057 -------GTA
i micMur3.chr12            C 0 I 2924
s otoGar3.GL873679           3025067  3 +   4132165 -------TTG
i otoGar3.GL873679         C 0 I 3
s mm10.chr18                55487095  3 +  90702639 -------ATG
i mm10.chr18               C 0 I 1
s canFam3.chr11             14876989  3 +  74389097 -------tta
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2582041 10 +   3667625 ATTCATATTA
i dasNov3.JH567306         I 407 C 0
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I

a score=403444.000000
s hg38.chr5_KI270796v1_alt     39243 31 +    172708 ttattaATTTGATGTTTCCTACAAGTATATA
s panTro5.chr5             125149313 31 + 181907262 TTATTAATGTGATGTTTCCTACAAGTATATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126486266 31 + 183735486 ttattaATTTGATGTTTCCTACAAGTATATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1677760 31 +   8933513 ttattaATTTGATGTTTCCTACAAGTATATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139807760 31 + 163208435 TTATTAAGTTGATGTTTCCTACAAGTATATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122793652 31 + 180051392 TTATTAAGTTGATGTTTCCTACAAATATATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124217333 31 + 181584905 TTATTAAGTTGATGTTTCCTACAAATATATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16215061 31 +  18395747 TTATTAAGTTGATGTTTCCTACAAATATATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5220904 31 +  26952557 TTATTAAGTTGATGTTTCCTACAAATATATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28328593 31 +  82825804 TTATTAAGTTGATGTTTCCTACAAATATATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3992860 31 -   4237731 TTATTAAGCTGATGTTTCCTACAAATATATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      263157 31 -   1175262 TTATTAAGTTGATCTTTCCTACAAATATATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123601527 31 - 204313951 GTATTAAGTTGACCTTTCCTACAAGCGTATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55651997 31 -  71252344 GTATTAAGGTGACCTTTCCTACAAGTGTATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1347351 31 -   1400280 CCATTAAGTTGACCTTTCCTACAAGTGTATA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13139815 31 -  42888418 GTATTAAGTTGACCTTTCCTACAAGTGTATA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3025073 31 +   4132165 TTATTAAGTTAACCTTTCTTGCAATTATATA
i otoGar3.GL873679         I 3 I 15
s mm10.chr18                55487099 31 +  90702639 GGACAATGTTGGCCTTTTCTACAAGTATATA
i mm10.chr18               I 1 I 1290
s canFam3.chr11             14876992 31 +  74389097 ttatTAAGAAGACCTTTCCTACAAAAATATA
i canFam3.chr11            C 0 I 11
s dasNov3.JH567306           2582051 31 +   3667625 TTATTAAATTGACCTTTCCTACAAGTATGTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I

a score=1179357.000000
s hg38.chr5_KI270796v1_alt     39274 127 +    172708 ---------------TTGTGA----ACGTGAACC-----AAACCACAATAG-TAAGATCATAACCA-----G-----ACCTAGTCTTAAGGGTT--------TGCAGTTCCCTAAGTTAACTCTG--TTTTTTCCCCTTGACTA--------------------------------tt----aggattgaacccgggaaactgaaatc
s panTro5.chr5             125149344 127 + 181907262 ---------------TTGTGA----ACGTGCACC-----AAACCACAATAG-TAAGATCATAACCA-----G-----ACCTAGTCTTAAGGGTT--------TGCAGTTCCCTAAGTTAACTCTG--TTTTTTCCCCTTGACTA--------------------------------tt----aggattgaacccgggaaactgaaatc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126486297 127 + 183735486 ---------------TTGTGA----ACGTGCACC-----AAACCACAATAA-TAAGATCATAACCA-----G-----ACCTAGTCTTAAGGGTT--------TGCAGTTCCCTAAGTTAACTCTG--TTTTTTCCCCTTGACTA--------------------------------tt----aggattgaacccgggaaatggaaatc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1677791 127 +   8933513 ---------------TTGTGA----ATGTGCACC-----AAACCACAATAA-TAAGATCATAACCA-----G-----ACCTAGTCTTAAGGGTT--------TGCAGTTCCCTGCGTTAACTCTG--TTTTTTCCCCTTGACTA--------------------------------tt----aggattgaacccgggaaactgaaatc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139807791 127 + 163208435 ---------------TTGTGA----ATGTGCACC-----AAACCACAATAA-TAAGATCATAACCA-----G-----ACCTAGTCTTAAGGGTT--------TGCAGTTCCCAGTGTTAACTCTG--TTTTTTCCCCCTGACTA--------------------------------tt----aggtttgaacccgggaaactgaaatc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122793683 122 + 180051392 ---------------TTGTGA----ATGTGC---------AAACACAATAA-TAAAATCATAACCA-----G-----ACCTAGTCTTAAGAGTT--------TGCCATTCCCAGTGTT-ACTCTG--TTTTTTCCCCCTGACTA--------------------------------tt----agggttgaacccaggaaactgaaatc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124217364 122 + 181584905 ---------------TTGTGA----ATGTGC---------AAACACAATAA-TAAAATCATAACCA-----G-----ACCTAGTCTTAAGAGTT--------TGCCATTCCCAGTGTT-ACTCTG--TTTTTTCCCCCTGACTA--------------------------------tt----agggttgaacccaggaaacggaaatc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16215092 122 +  18395747 ---------------TTGTGA----ATGTGC---------AAACACAATAA-TAAAATCATAACCA-----G-----ACCTAGTCTTAAGAGTT--------TGCCATTCCCAGTGTT-ACTCTG--TTTTTTCCCCCTGACTA--------------------------------tt----agggttgaacccaggaaactgaaatc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5220935 122 +  26952557 ---------------TTGTGA----ATGTGC---------AAACACAATAA-TAAAATCATAACCA-----G-----ACCTAGTCTTAAGAGTT--------TGCCATTCCCAGTGTT-ACTCTG--TTTTTTCCCCCTGACTA--------------------------------tt----agggttgaacccaggaaactgaaatc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28328624 122 +  82825804 ---------------TTGTGA----ATGTGC---------AAACACAATAA-TAAAATCATAACCA-----G-----ACCTAGTCTTAAGAGTT--------TGCCATTCCTAGTGTT-ACTCTG--TTTTTTCCCCCTGACTA--------------------------------tt----agggttgaacccaggaaactgaaatt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3992891 122 -   4237731 ---------------TTGTGA----ATGTGC---------AAACACAATAA-TAAAATCATAACCA-----G-----ACCTAGTCTTAAGAGTT--------TGCCATTCCCAGTGTT-ACTCTG--TTTTTTCCCCCTGACTA--------------------------------tt----agggttgaacccaggaaactgaaatc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      263188 153 -   1175262 ---------------TTGTGA----ATGTGC---------AAACACAAGAA-TAAAATCATAACCA-----G-----ACCTAATCTTAAGACTT--------TGCCATTCCCAGTGTC-ACTCTG---TTTTTCCCCCTGACTATTATAAGTTATAATTCAATGTGGTAATAAGTCtt----agggttgaacccgggaaactgaaatc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123601558 134 - 204313951 ---------------TTGTGA----ATGGGCACC-----AAACCACAATAA-TAAGATCATAACCA-----G-----TCCTAGTCTTCAATATTCAGTATTATACAGTTTCCAATGTT-ACTCTG--TTTCTTTCCCTTAATTA--------------------------------TT----TGGTTTGaacccaggacactgaaatt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55652028 126 -  71252344 ---------------TTGTGA----ATGGGCACC-----AAACCACAATAA-TAAGATCATGACCA-----G-----ACCTGGTCTTCAGAGTT--------TGCAGTTTCCAGTGTT-ACTCTG--TTTTTTCCCCTTAACTA--------------------------------CT----AGGGTTGGACCTGGGAAACTGAAATT
i saiBol1.JH378106         C 0 I 140
s cebCap1.NW_016107829v1     1347382 128 -   1400280 ---------------TTGTGA----ATGGGTACC---AAAAACCACAATAA-TAAGATCATAACCA-----G-----AACTAGTCTTCAGAGTT--------TGCAGTTTCCAATGTT-ACTCTG--TTTTTTCCCCTTAACTA--------------------------------TT----AGGGTTGAACCCGGGAAACTGAAATT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13139846 128 -  42888418 ---------------TTGTGA----ATAGGCACC-----AAACCACAATAA-TAAGATCATAACCG-----G-----ACCTAGTCTTCAGAGTT--------TGCAGTTTGCAATGTT-ACTCTGTTTTTTTTCCCCTTAACTA--------------------------------TT----AGGGTTGAACCCGGGAAACTGAAATT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3025119 134 +   4132165 ---------------ACACGC----ATGTGCCCCCGCACCAACCCTAATAAGTAAGATCACGAGCAAATAGG-----ACCCA-TCTTCAAAGTG--------TGCAGATCCCAATGTT-ACTCTG--CTTCTTCCCTCTTA--G--------------------------------TC----AGAGTTGAACTAGGCAAATAGAAATC
i otoGar3.GL873679         I 15 C 0
s canFam3.chr11             14877034 131 +  74389097 ---------------TTCCAAACCTATGAGCACC-----AATCCACAACAAGTAAGGCAATAAGCA-----AACTGCACCCAGTCTTGAGAGTT--------TCTAGGTCCCACTACT-GCTCTG--TTCCTTTCCTG-----G--------------------------------TC----AGGGTTGAGCCGGGAAAACACAAATC
i canFam3.chr11            I 11 C 0
s dasNov3.JH567306           2582082 142 +   3667625 ATAACTGACTTTTTTATGTGC----AAGTTCACC-----AATCCACAAGAC-CATTAGCA-AACTA-----G-----ACCCCATCTTAAGAGTT--------TGCAGGTCCCAGTGTT-TCTCTG--CTCCTTTGC--TGACta--------------------------------ttagtcagggtacaatcaggaaaacagatgcc
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=28657.000000
s hg38.chr5_KI270796v1_alt     39401 3 +    172708 ata
s panTro5.chr5             125149471 3 + 181907262 ata
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126486424 3 + 183735486 ata
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1677918 3 +   8933513 ata
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139807918 3 + 163208435 gta
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122793805 3 + 180051392 gta
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124217486 3 + 181584905 gta
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16215214 3 +  18395747 gta
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5221057 3 +  26952557 gta
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28328746 3 +  82825804 gta
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3993013 3 -   4237731 gta
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      263341 3 -   1175262 gta
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123601692 3 - 204313951 ata
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55652294 3 -  71252344 ATA
i saiBol1.JH378106         I 140 C 0
s cebCap1.NW_016107829v1     1347510 3 -   1400280 ATA
i cebCap1.NW_016107829v1   C 0 I 153
s aotNan1.NW_018505940v1    13139974 3 -  42888418 ATA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3025253 3 +   4132165 ATA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14877165 3 +  74389097 AGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2582224 3 +   3667625 att
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=24418.000000
s hg38.chr5_KI270796v1_alt     39404 3 +    172708 cta
s panTro5.chr5             125149474 3 + 181907262 cta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126486427 3 + 183735486 cta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1677921 3 +   8933513 cta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139807921 3 + 163208435 cta
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122793808 3 + 180051392 ctc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124217489 3 + 181584905 ctc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16215217 3 +  18395747 ctc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5221060 3 +  26952557 ctc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28328749 3 +  82825804 ctc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3993016 3 -   4237731 ctc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      263344 3 -   1175262 ctc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123601695 3 - 204313951 ctg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55652297 3 -  71252344 CTG
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13139977 3 -  42888418 CTG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3025256 3 +   4132165 CTA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14877168 3 +  74389097 CTA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2582227 3 +   3667625 cta
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e cebCap1.NW_016107829v1     1347513 153 -   1400280 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=97038.000000
s hg38.chr5_KI270796v1_alt     39407 7 +    172708 tgatttt
s panTro5.chr5             125149477 7 + 181907262 tgatttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126486430 7 + 183735486 tgatttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1677924 7 +   8933513 tgatttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139807924 7 + 163208435 tgatttt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122793811 7 + 180051392 tgatttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124217492 7 + 181584905 tgatttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16215220 7 +  18395747 tgatttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5221063 7 +  26952557 tgatttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28328752 7 +  82825804 tgatttt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3993019 7 -   4237731 tgatttt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      263347 7 -   1175262 tgatttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123601698 7 - 204313951 tgatttt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55652300 7 -  71252344 TGATttt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1347666 7 -   1400280 TGATttt
i cebCap1.NW_016107829v1   I 153 C 0
s aotNan1.NW_018505940v1    13139980 7 -  42888418 TGATTtt
i aotNan1.NW_018505940v1   C 0 I 142
s otoGar3.GL873679           3025259 6 +   4132165 TGATTT-
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14877171 7 +  74389097 TGatttt
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2582230 7 +   3667625 tcatttt
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=4556.000000
s hg38.chr5_KI270796v1_alt     39414 1 +    172708 -t
s panTro5.chr5             125149484 1 + 181907262 -t
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126486437 1 + 183735486 -t
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1677931 1 +   8933513 -t
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139807931 1 + 163208435 -t
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122793818 1 + 180051392 -t
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124217499 1 + 181584905 -t
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16215227 1 +  18395747 -t
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5221070 1 +  26952557 -t
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28328759 1 +  82825804 -t
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3993026 1 -   4237731 -t
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      263354 1 -   1175262 -t
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123601705 1 - 204313951 -t
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55652307 1 -  71252344 -t
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1347673 1 -   1400280 -t
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13140129 1 -  42888418 -t
i aotNan1.NW_018505940v1   I 142 C 0
s canFam3.chr11             14877178 1 +  74389097 -t
i canFam3.chr11            C 0 I 472
s dasNov3.JH567306           2582237 1 +   3667625 a-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e otoGar3.GL873679           3025265 0 +   4132165 C
e mm10.chr18                55487130 1290 +  90702639 I

a score=3240728.000000
s hg38.chr5_KI270796v1_alt     39415 298 +    172708 aaatggagggaagccagtgcaggaagttgggcatacaagtgatagaaatcctgaaaacctgtcaggagaccctgaggcaacccaagtatgagcaacaacaggaagccact-acaaggctgaaggaccaaagtggtggtgctgtgttatgggagcccaggagtggaagtcacttcatgcaaactgaggccctgagggaggcgtaaccg------------taat--gagaaat-gcttccac----agagagacaggaagagaaataatcctgact--tctctctctgcctcatatgttttaatcttcctatgattttttt-
s panTro5.chr5             125149485 297 + 181907262 aaatggaaggaagccagtgcaggaagttgggcatacaagtgatagaaatcctgaaaagctgtcaggagaccctgaggcaacccaagtattagcaacaacaggaagccact-acgaggctgaaggaccaaagtggtggtgctgtgttatgggagcccaggagtggaagtcacttcatgcaaactgaggccctgaaggaggcgtaacca------------tgat--gagaaat-gcttccac----agagagacaggaagagaaataatcctgact--tctctctctgcctcatatgttttaatcttcctataa-tttttt-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126486438 296 + 183735486 aaatggaaggaagccagtgcaggaagttgggcatacaagtgatagaaatcctgaaaagctgtcaggagaccctgaggcaacccaagtattagcaacaacaggaagccact-acgaggctgaaggaccaaagtggtggtgctgtgttatgggagcccaggagtggaagtcacttcatgcaaactgaggccctgaaggaggcgtaacca------------tgat--gagaaat-gcttccac----agagagacaggaagagaaataatcctgact--tctctctctgcctcatatgttttaatcttcctataa--ttttt-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1677932 297 +   8933513 aaatggagggaagccagtgcaggaagttgggcatacaagtgatagaaatcctgaaaagctgtcaggagaccctgaggcaacccaagtattagcaacaacaggaagccact-acgaggctgaaggaccaaagtggtggtgctgtgttatgggagcccaggagtggaagtcacttcatgcaaactgaggccctgaaggaggcgtaacca------------tgat--gagaaat-gcttccac----agagagacaggaagagaaataatcctgact--tctctctctgcctcatatgttttaatcttcctataa-tttttt-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139807932 297 + 163208435 aagtggagggaagccagtgcaggaagttgggcattgaagtgatagaaatcctgaaaagctgtcaggagaccctgaggcaacccaagtattagcaacaacgggaagccact-atgaggctgaaggactaaagtgctggtgccgtgttacgggagcccaggagtggaagtcacttcatgcaaactgaggccctgaaggaggcgtaacca------------tgat--gagaaat-gcttccac----agagagagaggaagagaaactatcctgact--tctctctctgcctcatatgttttcaacttcctatga-tttttt-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122793819 301 + 180051392 aaatggagggaagccagtgcaggaagttgggcacacaagtgatagaaatcctgaaaagctgccaggagatcgtgaggcaacccaagtattagcaagaacaggaagcccct-accaggctgaaggaccaaagtggtggtgccatgttccgggagcccaggagtggaaatcacttcatgcaaactgaggccctgaaggaggcataacca------------tgac--gagaaat-gcttccacacacagagagagaggaagagaaataatcttgact--tctctctctgcctcacatgttttaagcttcctataa-tttttt-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124217500 301 + 181584905 aaatggagggaagccagtgcaggaagttgggcatacaagtgatagaaatcctgaaaagctgccaggagaccctgaggcaacccaagtattagcaagaacaggaagcccct-accaggctgaaggaccaaagtggtggtgccatgttccgggagcccaggagtggaaatcacttcatgcaaactgaggccctgaaggaggcataacca------------tgac--gagaaat-gcttccacacacacagagagaggaagagaaataatcttgact--tctctctctgcctcacatgttttaagcttcctataa-tttttt-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16215228 302 +  18395747 aaatggagggaagccagtgcaggaagttgggcatacaagtgatagaaatcctgaaaagctgccaggagaccctgaggcaacccaagtattagcaagaacaggaagcccctaaccaggctgaaggaccaaagtggtggtgccatgttccgggagcccaggagtggaaatcacttcatgcaaactgaggccctgaaggaggcataacca------------tgac--gagaaat-gcttccacacagagagagagaggaagagaaataatcttgact--tctctctctgcctcacatgttttaagcttcctataa-tttttt-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5221071 301 +  26952557 aaatggagggaagccagtgcaggaagttgggcatacaagtgatagaaatcctgaaaagctgccaggagaccctgaggcaacccaagtattagcaagaacaggaagcccct-accaggctgaaggaccaaagtggtggtgccatgttccgggagcccaggagtggaagtcacttcatgcaaactgaggccctgaaggaggcataacca------------tgac--gagaaat-gcttccacacacagagagagaggaagagaaataatcttgact--tctctctctgcctcacatgttttaagcttcctataa-tttttt-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28328760 301 +  82825804 aaatagagggaagccagtgtaggaagttgggcatacaagtgatagaaatcctgaaaagctgccaggagaccctgaggcaacccaagtattaacaagaacaggaagcccct-accaggctgaaggaccaaagtggtggtgccatgttccgggagcccaggagtggaagtcacttcatgcaaactgaggtcctgaaggaggcataacca------------tgac--aagaaat-gcttccacacacagagagagaggaagagaaatagtcttgact--tctctctctgcctcacatgttttaagcttcctataa-tttttt-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3993027 301 -   4237731 aaatggagggaagccagtgcaggaagttgggcatacaagggatagaaatcctgaaaagctgccaggagaccctgaggcaacccaagtattagcaagaacaggaagcccct-accaggctgaaggaccaaagtggtggtgccatgttccgggagcccaggagtggaagtcacttcatgcaaactgaggccctgaaggaggcataacca------------tgac--gagaaat-gcttccacacacagagagagaggaagagaaataatcttgact--tctctgtctgcctcacatgttttaagcttcctataa-tttttt-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      263355 301 -   1175262 aaatggagggaagccagtgcaggaagttggacatacaagtgatagaaatcctgaaaagctgccaggagaccctaaggcaacccaagtattagcaaaaacaggaagcccct-accaggccgaaggaccaaagtggtggtgcggtgttccaggagcccaggaggggaagtcacttcatgcaaactgaggccctgaaggaggcataacca------------tgac--gagaaat-gcttctacacacagagagagaggaagagaaacaatcctgact--tctccctctgcctcacatattttaagcttcctataa-tttttt-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123601706 295 - 204313951 aaatggagggaagccagtgcaggaagttgggcatacacgtgatagaaatcctgaaaagccaccaagacaccctgagaaaacccaagtattagcaacaacattcaa-cact-cccaggctgaaggaccaaagtggtggtgctgtgtcatgggagcccaggactggtggtcacttcatgcaaactgaggccctgagggaggcgtgacca------------tg-t--gagaaat-gcttccac----agtcaaagaggaggagaaatcatcctgatt--tatctctcctcgtcatatgttttaatcttcctataa-gttttt-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55652308 295 -  71252344 aaatggagggaagccagtgcaggaagttgggcataaaagtgatagaaatcctgaaaagccaccaagacaccctgaggcaacccaagtattagcaacaacattcaa-cact-cccaggctgaaggaccaaagtggtggtgctgtgtcatgggagcccaggactggaagtcacttcatgcaaactcaggccctgaaggaggcatgacca------------tg-t--gagaaat-gcttccac----agtcagagaggaggagaaatcattctgatt--tctctctcatcctcatatgttttaatcttcctacaa-cttttt-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1347674 295 -   1400280 aaatggagggaagccagtgcgggaagttgggcatacaagtgatagaaatcctcaaaagccaccaagacaccctgagacaactcaagtattagcaacaacattcaa-cact-cccaggctgaaggaccaaagtggtggtgctgtgtcatgggagcccaggactggaagtcacttcacgcaaactgagaccctgaaggaggtgtgacca------------tg-t--gagaaat-gcttccac----agtcagagaggaggagaaatcatcctgatt--tctctctcatccctgtatgttttaatcttcccacaa-cttttt-
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13140130 297 -  42888418 aaatggagggaagccagtgcaggaagttgggcatacaagtgatagaaatcctgaaaagccaccaagacaccctgaggcaacccaagtattagcaacaacattcaa-cact-cccaggctgaaggaccaaagtgatggtgctgtgtcatggaagcccaggactggaagtcacttcatgcaaactgaggccctgaaggaggcgtgacca------------tg-t--gagaaat-gcttccac----agtcagagaggaggagaaatcatcctgatttctctctctcatcctcatatgttttaatcttcctacaa-cttttt-
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3025265 258 +   4132165 ---------------------AAAAACTTGGCacacaagtgatgggaatgctaaaaatccaccaag--------cagtaacccaagtatttacaatcataggaagccact-gtt-------aggaccaaagtggtgatgca--gttactggatctcgggggtggaagtcacctcccgcgagctg-ggccatgaagaatacagagcca------------tggctggagaaat-tcttccat----gggaagagagaggaaaaagaaattctgaca--tctctttc--cttcattcattttaatctccttacac-tttcta-
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14877651 302 +  74389097 aaatagaagaaagttaatacaggaaatatggcacacaagtgatggtagtgcctaaaagccaacaggaaattgctaggcagcccgtatgtcagcaaccacagg-agccatt-acaaggttgctgggccaaagtggcaatgcaatgttaggagagcccaggggcaggagtcagctcctggaagctggagtcatgaaagagacacagccattttttggttattgtt--aaacactagctcccat----ggagag---ggaggagaaat-attctga----tctctctcttcctcatatattttaatctccttacag--ttctt-
i canFam3.chr11            I 472 C 0
s dasNov3.JH567306           2582238 288 +   3667625 aagcagagggagcttaatacagggaattggacacactgatggcagatatctgaaacaccaaagaggagattgcaaggcaacccaaatactagcaagtaaagaaagtctct-agtaggctagagaaccaaactgatgttgcagag----------ccaggggtggaagtaatctaatggaagttggagtcaggaaggCAAAAAAGCCG------------TTGTTGGAGGGAT-TCACCCAG----GGAGAGAGAGGAAGAGAAAT-GTTCTAACT--TCTCTCTTC-CTTAGTTTTTTTTTTTTTTTCttttt-ttctttt
i dasNov3.JH567306         C 0 I 8496
e micMur3.chr12             60507134 2924 + 108143057 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=876551.000000
s hg38.chr5_KI270796v1_alt     39713 84 +    172708 ccattggccagacctaaccagaagcc-ttgtgatgaggtagc-------ct-------gggacacacagtctagagggaggagcaactctttccttccc
s panTro5.chr5             125149782 84 + 181907262 ccattggccagacctaaccagaagcc-ttgtgatgaggtagc-------ct-------gggacacacagtctagagggaggagcaactgtttccttccc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126486734 84 + 183735486 ccattggccagacctaaccagaagcc-ttgtgatgaggtagc-------ct-------gggacacacagtctagagggaggagcaactctttccttccc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1678229 84 +   8933513 ccattggccagacctaaccagaagcc-ttgtgatgaggtagc-------ct-------gggacacacagtctagagggaggagcaactctttccttccc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139808229 84 + 163208435 ccattggccagacctaaccagaagcc-acatgatgaggtagc-------ct-------ggcacacagagtctagagggaggagcaactctttccttccc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122794120 84 + 180051392 ccattggccagaccaaaccagaagcc-acataatgaggtagc-------ct-------gggacacacagtctagagggaggagcaactctttccttccc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124217801 84 + 181584905 ccattggccagacctaaccagaagcc-acataatgaggtagc-------ct-------gggacacacagtctagagggaggagcaactctttccttccc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16215530 84 +  18395747 ccattggccagacctaaccagaagcc-acataatgaggtagc-------ct-------gggacacacagtctagagggaggagcaactctttccttccc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5221372 84 +  26952557 ccattggccagacctaaccagaagcc-acatgatgaggtagc-------ct-------gggacacacagtctagagggaggagcaactctttccttccc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28329061 84 +  82825804 ccattggccagacctaaccagaagcc-acatgatgaggtagc-------ct-------gggacacacagtctagagggaggagcaactctttccttccc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3993328 91 -   4237731 ccattggccagacctaaccagaagcc-acatgatgaggtagcttaaagact-------gggacacacagtctagagggaggagcaactctttccttccc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      263656 84 -   1175262 ccattggccagacttaaccagaagcc-acatgatgaggtagc-------ct-------gggacactcagtctagaaggaggagtaactctttcctttcc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123602001 84 - 204313951 ccattggccacacctaaccagaagcc-acatgatgaggtagc-------ct-------gcgaaacacatcccagagggaggagaagctcttccgtttct
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55652603 91 -  71252344 ccattggccacacctaaccagaagcc-acatgatgaggtagc-------ccagagggaggagaacacagcccagagggaggagaagctctttcgtttct
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1347969 84 -   1400280 ccactggccaagcctaaccagaagcc-acatgatgaggtagc-------ct-------gggaaacatagcccagagggaggagaagctctttcgtttct
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13140427 84 -  42888418 ccattgaccatacctaaccagaagcc-acatgatgaggtagc-------ct-------gggaaacacagcacagagtggggggaagctctttcgtttct
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3025523 82 +   4132165 ccattggacacacccatctagaagcc-acctgacctaa-atc-------ct-------ggcaagcactgtctggaagg-ggagcagcccTTTCCCTCCT
i otoGar3.GL873679         C 0 I 69
s canFam3.chr11             14877953 81 +  74389097 ctcctggaca-acccaaccagaagtcaatgtgat-aagtagc-------ct-------ggg--acacagcttgaatggaagagcaacaccccccaccac
i canFam3.chr11            C 0 I 2
e micMur3.chr12             60507134 2924 + 108143057 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e dasNov3.JH567306           2582526 8496 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=681645.000000
s hg38.chr5_KI270796v1_alt     39797 64 +    172708 ggtgtcacaaagagcagagctggagaagggcaaggaacagat---------actcggtcgaagaccagcacTA
s panTro5.chr5             125149866 64 + 181907262 ggtgtcacaaagagcagagctggagaagggcaaggaacagat---------actcggtcgaagaccagcacTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126486818 64 + 183735486 ggtgtcacaaagagcagagctggagaagggcaaggaacagat---------actcggtcgaagaccagcacTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1678313 64 +   8933513 aatgtcacaaagagcagagctggagaagggcaaggaacagat---------actcggtcgaagaccagcacTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139808313 64 + 163208435 ggtgttacaaagagcagagctggggaagggcaaggaagagat---------actgggtcaaagaccggcacTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122794204 64 + 180051392 agtgtcacaaagagcagagccggggaagggcaaagaagagat---------actgggtcaaagaccagcacTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124217885 64 + 181584905 agtgtcacaaagagcagagccggggaagggcaaagaagagat---------actgggtcaaagaccagcacTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16215614 64 +  18395747 agtgtcacaaagagcagagctggggaagggcaaagaagagat---------actgggtcaaagaccagcacTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5221456 64 +  26952557 agtgtcacaaagagcagagctggggaagggcaaagaagagat---------actgggtcaaagaccagcacTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28329145 64 +  82825804 agtgtcacaaagagcagagctggggaagggcaaagaagagat---------actgggtcaaagaccagcacTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3993419 64 -   4237731 agtgtcacaaagagcagagctggggaagggcaaagaagagat---------actgggtcaaagaccagcacTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      263740 64 -   1175262 agtgtcacaaagagcagagctggggaagggcaaagaagagat---------agtggatcaaagaccagcacTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123602085 63 - 204313951 ggtgtcacaaaga-cagagctggggaagggcaaggaagagac---------actaggtcaaagaccggcacTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55652694 64 -  71252344 gatgtcacaaggagcagagctggggaagggcaaggaagagac---------actgggtcaaagacaggcACTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1348053 64 -   1400280 ggtgtcacaaagagcagagctggggaagggcaaggaagagac---------actgggtcaaagaccggcacTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13140511 64 -  42888418 agtgtcacaaagagcagagctgcggaagggcaaggaagagac---------actgggtcaaagaccggcacTA
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14878036 73 +  74389097 ggtataacaaagaacaaagcagggggtggggtggggagggacttaagagcaactgggtcaaagactggcCCTA
i canFam3.chr11            I 2 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e otoGar3.GL873679           3025605 69 +   4132165 I
e dasNov3.JH567306           2582526 8496 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=4868100.000000
s hg38.chr5_KI270796v1_alt     39861 465 +    172708 AATTTCCAACTCAGGAAAT-----AC-----CCTCCTTTAACAAAGGC--------------------------GAAAAGAGGAAAATGTAGAACGATTGTTGGAGGAGATGAT---------------GA--------GCCGTGCTTTGAGAAAGCTTCTCAGGGAAGATGACACCTGTCAACTTTCttatctgtgaatcttttc-ttttcctccttcctgacatccaatccatagataagtcttatctgtacactccaaaacatgtttcacagccaactactt-caccacttccattgctac-catggtcct--------ctcttacttggatttttgcaatcatctccta-aatgtttttattgct---ATT--GTTCTCTTTTT-----AAAAttgaagtaaaatttacatacaatgatatgcacagattttaagtgagttttgacaaacctatctgcccatgt------------------aa-----ccaacacctt--------------------g---------------------------------atctcc-tgtgtccattcatttcagtcaaattccacccattatgtgcaaccaccattccaatttct
s panTro5.chr5             125149930 465 + 181907262 AATTTCCAAGTCAGGAAAT-----AC-----CCTCCTTTAACAAAGGC--------------------------GAAAAGAGGAAAATGTAGAACGATTGATGGAGGAAATGAT---------------GA--------GCCGTGCTTTGAGAAAGCTTCTCAGGGAAGATGACACCTGTCAACTTTCttatctgtgaatcttttc-ttttcctccttcctgacatccaatccatagataagtcttatctgtacactccaaaacatgtttcacagccaactactt-caccacttccattgctac-catggtcct--------ctcttacttggatttttgcaatcatctccta-aatgtttttattgct---ATT--GTTCTCTTTTT-----AAAAttgaagtaaaatttacatacaatgatatgcacagattttaagtgagttttgacaaacctatctgcccatgt------------------aa-----ccagcacctt--------------------g---------------------------------atctcc-tgtgtccattcatttcagtcaaattccacccgttatgtgcaaccagcattccaatttct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126486882 465 + 183735486 AATTTCCAAGTCAGGAAAT-----AC-----CCTCCTTTAACAAAGGC--------------------------GAAAAGAGGAAAATGTAGAACGATTGATGGAGGAGATGAT---------------GA--------GCCGTGCTTTGAGAAAGCTTCTCAGGGAAGATGACACCTGTCAACTTTCttatctgtgaatctttgc-ttttcctccttcctgacatccaatccatagataagtcttatctgtacactccaaaacatgtttcacagccaactactt-caccacttccattgctac-catggtcct--------ctcttacttggatttttgcaatcatctccta-aatgtttttattgct---ATT--GTTCTCTTTTT-----AAAAttgaagtaaaatttacatacaatgatatgcacagattttaagtgagttttgacaaacctatctgcccatgt------------------aa-----ccaacacctt--------------------g---------------------------------atctcc-tgtgtccattcatttcagtcaaattccacccgttatgtgcaaccaccattccaatttct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1678377 464 +   8933513 ACTTTCCAAGTCAGGAAAT-----AC-----CCTCCTTTAACAAAGGT--------------------------GAAAAGAGGAAAATGTAGAACGATTGATGGAGGAGATGAT---------------CA--------GCCGTGCTTTGAGAAAGCTTCTCAGGGAAGATGACACCTGTCAACTTTCttatctgtgaatcttt-c-ttttcctccttcctgacatccaatccatagataagtcttatctgtacactccaaaacatgtttcacagccaactactt-caccacttccattgctac-catggtcct--------ctcttacttggatttttgcaatcatctccta-aatgtttttattgct---ATT--GTTCTCTTTTT-----AAAAttgaagtaaaatttatatacaatgatatgcacagattttaagtgagttttgacaaacctatctgcccatgt------------------aa-----ccaacacctt--------------------g---------------------------------atctcc-tatgtccattcatttcagtcaaattccacccattatgtgcaaccaccattccaatttct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139808377 466 + 163208435 ACTTTCCAAGTCAGGAAAT-----AC-----CCTCCTTTAACAAAGGC--------------------------GAAAAGAGGAAAATGTAGAACGATTAATGGAGCAGATGAT---------------GA--------GTCGTGCTTTGAGAAAGCTTTTCAGGGAAGATGACACCTGTCACCTTTCttatccatgaatcttatc-ttttcctcattgccgacatccaatccatagataagtcttatctgtacactccaaaacatgtttcacagccaactactt-caccacttccactgctac-cacgatcct--------ctcttacttggatttctgcaatcatctccta-aatgtttttattgct---ATT--TTTCTCTTTTT-----AAAAttgaagtaaaatttccatacaatgatatgcacacattttaagtgagttttgacaaacctatctgcccatgt------------------aa-----ccaacacctt--------------------g---------------------------------atctccttatgtccattcaattcagtcaaattccatccattgtgggcaaccaccattccaatttct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122794268 464 + 180051392 ACTTTCCAAGTCAGGAAAT-----AC-----CCTCCTTTAACAAATAC--------------------------GAAAAGAGGAAAATGCAGAATGATTAGTGGAGGAGATGAT---------------GA--------GCCGTGTTTTGAGAAGGCTTCTCAGGGAAGATGACACCTGTCACCTTTCttatctgtgaatcttttc-ttttcctcattcctgacagccaatctgtagacaagtcttatctgtacgctgcaaaacatgtctcacagccaactactt-taccacctccattgctgc-cacgatcct--------ctt--acttggatttctgcaatcatctccta-aatgTTTATATTGCT---ATT--TTTCTCTTTTT-----AAAattgaagtaaaatttacgtacaatgatacgcacagattttaagtgacttttgactaacctatctgcccatgt------------------aa-----ccaacacctt--------------------g---------------------------------atctccttatgtccattcaattcagtcaaattccacccctcatgggcaaccaccattccaatttct
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124217949 464 + 181584905 ACTTTCCAAGTCAGGAAAT-----AC-----CCTCCTTTAACAAATAC--------------------------GAAAAGAGGAAAATGCAGAATGATTAGTGGAGGAGATGAT---------------GA--------GCCGTGTTTTGAGAAGGCTTCTCAGGGAAGATGACACCTGTCACCTTTCttatctgtgaatcttttc-ttttcctcattcctgacagccaatccgtagacaagtcttatctgtacgctgcaaaacatgtctcacagccaactactt-taccacctccattgctgc-cacgatcct--------ctt--acttggatttctgcaatcatctccta-aatgTTTATATTGCT---ATT--TTTCTCTTTTT-----AAAAttgaagtaaaatttacgtacaatgatacgcacagattttaagtgacttttgactaacctatctgcccatgt------------------aa-----ccaacacctt--------------------g---------------------------------atctccttatgtccattcaattcagtcaaattccacccctcatgggcaaccaccattccaatttct
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16215678 464 +  18395747 ACTTTCCAAGTCAGGAAAT-----AC-----CCTCCTTTAACAAATAC--------------------------GAAAAGAGGAAAATGCAGAATGATTAGTGGAGGAGATGAT---------------GA--------GCCGTGTTTTGAGAAGGCTTCTCAGGGAAGATGACACCTGTCACCTTTCttatctgtgaatcttttc-ttttcctcattcctgacagccaatccgtagacaagtcttatctgtacactctaaaacatgtctcacagccacctactt-taccacctccattgctgc-cacgatcct--------ctt--acttggatttctgcaatcatctccta-aatgTTTATATTGCT---ATT--TTTCTCTTTTT-----AAAattgaagtaaaatttacgtacaatgatacgcacagatttttagtgagttttgactaacctatctgcccatgt------------------aa-----ccaacacctt--------------------g---------------------------------atctccttatgtccattcaatttagtcaaattccacccctcatgggcaaccaccattccaatttct
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5221520 466 +  26952557 ACTTTCCAAGTCAGGAAAT-----AC-----CCTCCTTTAACAAATAC--------------------------GAAAAGAGGAAAATGCAGAATGATTAGTGGAGGAGATGAT---------------GA--------GCCGTGTTTTGAGAAGGCTTCTCAGGGAAGATGACACCTGTCACCTTTCttatctgtgaatcttttc-ttttcctcattcctgacagccaatccgtagacaagtcttatctgtacactccaaaacatgtctcacagccaactactt-taccacctccattgctac-cacgatcct--------ctctaacttggatttctgcaatcatctccta-aatgTTTATATTGCT---ATT--TTTCTCTTTTT-----AAAAttgaagtaaaaattacgtacaatgatacgcacagattttaagtgagttttgactaacctatctgcctatgt------------------aa-----ccaacacctt--------------------g---------------------------------atctccttgtgtccattcaattcagtcaaattccacccctcatgggcaaccaccattccaatttct
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28329209 463 +  82825804 ACTTTCCAAGTCAGGAAAT-----AC-----CCTCCTTTAACAAATGC--------------------------GAAAAGAGGAAAATGCAGAACGATTAGTGCAGGAGATGAT---------------GA--------GCCGTGCTTTGAGAAGACTTCTCAGGGAAGATGACATCTGTCACCTTTCttatccgtgaatcttttc-ttttcctcattcctgacacccaatccgtagacagctcttatctgtacactccaaaacatgtctcacagccaactactt-taccacctccattgctac-cacgatcct--------ctcttacttggatttctgcaatcatctccta-aatgTTTATATTGCT---ATT--TTTCTCTTTTT-----AAAAttgaagtaaaatttacgtacagtgatacgcacagattttaagtgagttttgactaacctatctgcccatgt------------------aa-----ccaacacctt--------------------g---------------------------------atctccttatgtccattcaattcagtcaaattccacccctcatgggca---accattccagtttct
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3993483 465 -   4237731 ACTTTCTAAGTCAGGAAAT-----AC-----CCTCCTTTAACAAATAC--------------------------AAAAAGAGGAAAATGCAGAATGATTAGTGGAGGAGATGAT---------------GA--------GCCGTGTTTTGAGAAGGCTTCTCAGGGAAGATGACACCTGTCACCTTTCttatctgtgaatcttttc-ttttcctcattcctgacagccaatccgtagacaagtcttatctgtacactccaaaacatgtctcacagccaactactt-taccacctccattgctac-cacgatcct--------ctctaacttggatttctgcaatcatctccta-aatgTTTATATTGCT---ATT--TTTCTCTTTTT-----AAAAttgaagtaaaatttacgtacaatgatacgcacagattttaagtgagttttgactaacctatctgcccatgt------------------aa-----ccaacacctt--------------------g---------------------------------atctccttatgtccattcaattcagtcaaattccacccctcatgggca-ccaccattccaatttct
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      263804 466 -   1175262 ACTTTCCAAGTCAGGAAAT-----AC-----CCTCCTTTAATAAATGC--------------------------GAAAAGAGGAAAATGCAGAACGATTAGTGGAGGAGATGAT---------------GA--------GCCATGCTTTGAGAAGGCTTCTCAGGGAAGATGACATCTGTCACCTTTCttatctgtgaatcttttc-ttttcctcattcatgacacccagtccgcagacaagtcttatctgtacattccaaaacatgtctcacagccaactactt-taccacctccattgctac-cacgatcct--------ctcttacttggatttctgcaatcatctccta-aatgTTTATATTGCT---Att--tttctattttt-----aaaattaaagtaaaatttacatacgatgatatgcacagattttaagtgagttttgacaaacctatctgcccatgt------------------aa-----ccaacacctt--------------------g---------------------------------atctccttatgtccattcaattcagtcaaattccacccctcatgggcaaccaccattccaatttct
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123602148 463 - 204313951 ATTTTCCAAGTCAGGAAATACT--AC-----CCTCCTTTAAC-GAGGC--------------------------GAAAAGAGGAAAATGTAGACCAGTTAATGGAGGAGACAAT---------------GA--------GCTGAGCTTTGAG--AGTTTCTCAGGGAAGATGACACCTGTCACCTTTCttatccctgaatcttttc-ttttcctcattcctgacacccgatctgtaggcaagtcttattggtacactccaaaacatgtctcctagccagctactt-taccacttctattgctac-cacaatcct--------ctcttacttggatttctgctatcatctccta-aatgtttttattgct---ATTTATTTCTCTTTTT-----AAAAttgaagtaaaatttacatacaatgatatgtacaaattt----tgagttttgacagatatacctgcccatgt------------------aa-----ccaacacc-t--------------------g---------------------------------atctccttatgctcatttaattcagtcaaattccaccccacatgggcaaccaccattccaatttct
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55652758 466 -  71252344 ACTTTCCAAGTAAGGAAATACT-AAC-----CCTCCTTTAACAAAGGC--------------------------GAAAAGAGGAAAATGTAGACCAGTTAATGTAGGAGTCAAT---------------GA--------GCCGAGCTTTGAGAAAGCTTCTCAGGGAAGATGACACCTGTCATCTTTCTTGtccctgaatcttttc-tcttcctcattcctgacacccaatctgtagacaagtcttattggtacactctaaaacatgtctcatagccagctactt-taccacctccattgctac-catgatcct--------attttacttggatttctgcaatcatctccta-aatgtttttattgct---ATTT-TTTCTCTTTTT-----AAAAttcaagtaaaatttacatgcaatgatatgcacagattt----tgagttttgaca-atatacctgcccatgt------------------aa-----ccaacacctt--------------------g---------------------------------atctccttatgcccattcaattgagtcaaattccacccctcatggtcaaccaccatttcaatttct
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1348117 466 -   1400280 ACTTTCCAAGTCGGGAAATAGT-AAC-----CCTCCTTTAACAAAGGT--------------------------GAAAAGAGGAAAATGTAGACCAGTTAATGGAGAGGACAAT---------------GA--------GCCGAGCTTTGAGAAAGCTTCTCAGGGAAGATGACACCTGTCGCCTTTCATatacctgaatcttttg-ttttcctcattcctgacacccaatccgtagacaagtcttattggtgcacgccaaaacatgtctcatggccagctactt-taccacctccattgctat-cacgatcct--------ctcttacttaggtttctacaatcatcttcta-aatgtttttattact---ATTT-TTTCTCTTTTT-----AATAttgaattaaaatttacatacaatgatatgcgcagattt----tgagttttgaca-atatacctgcccatgt------------------aa-----ccaacacctt--------------------g---------------------------------atcTCCTTATGCCCATTCAATTCAGTCAAATTCCACCCCTCATGGGCAACCACTATTCCAATTTCT
i cebCap1.NW_016107829v1   C 0 I 4584
s aotNan1.NW_018505940v1    13140575 454 -  42888418 ACTTTCCAAGTCAAGAAATACT-AAC-----CCTCCTTTAACAAAGGC--------------------------GAAAAGAGGAAAATGTAGACCAGTTAATGGAGGAGACAAT---------------GA--------GCCGAGTTTTGAGAAGGCTTCTCAGGGAAGATGACACCTGTCACCTTTCttatgcctgaatcttttc-ttttcctcattcctgacacccaatctgtggacaagtcttattggtacactctaaaacatgtctcatagccaactactt-taccacctccattgctac-cacgatcct--------ctcttacttggatttctgcaatcatctccta-aatgtttttattgct---attt-tttctcctttT-----AAAAttgaagtaaaatttacatacaatgatatgcacagattt----tgagttttgacc-------------atgt------------------aa-----ccaacacctt--------------------g---------------------------------atctccttatgcctattcaattcagtcaaattccacccctcatgggcaaccaccattccaatttct
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3025674 518 +   4132165 AACTTTTAAATCAGGAAAT-----ACCGTAACCCCCTCTGACAAAGGT--------------------------GGAAAGAGGGAATTGTAAAAAGATTTGTGGAGGAGGTGATAAGCCCCAAAGTGCAGA--------GCCGTGGCCTGAGAAAGCTTCCCCAGGAAGCCCCCATCTCTTACCTTTGTCATCCTGGAAACTTTTC----CCCACATCCCACACACCCAAGTCATACACAAGCCTTACCAGCACATCCACAAACCCACTTCATCCCCGACTACT---------GACATTGCTTC-CGTGGTTCCACCCACAACTCTTACTTGGATTTCTGTGATCACCTCCTACCATGGTTGTACTGTTTTAATT--GTCCTCTCTTT-----AAAAttgaggtaaaatttccatacaatgaaatgcacagatcttaactgag-tataagaactgtatctggccatgt------------------aa-----ctaacaccct--------------------gagcaagaaacagaactttgtattacctcggaaaatctctttatttcca-tcattttagtcaaattgcacctttcatggccaaccaccaatccaagttct
i otoGar3.GL873679         I 69 C 0
s canFam3.chr11             14878109 552 +  74389097 ACTTGCCAAATCAGGAAATTGTGAAC-----TCCCTTCCATCAAAGATGAACAGAATTAAAAAACAAGAAGAAAGAACAGAAGAAAATATAGAAAGATTGATGGAAGCCATGAT---------------GACTGTAAATGGAAAGCTTTGATAAAGCTTCCCAAAGAGGATGCCACTTTTCACCTTTATAatctttgattcctttctttttcctcattcttcacacccagtttcaaagcaaatcttttctgtattctccaatacatgtcttccatccaactactcacaccatctccattggtatgtaccatcat--------ctctcacttgaattttcacaatgatttcctaTTTTATTTAGTCTTCT---AAT--TTGTTCCTTACATAAAAAAAttaaggaacattttacatacaacaaatggcatagatct----cgaattctgataaatgtatctacccacattttatggtcaagatacacaacttttctagcaccttttcatcactctttactagaaa---------------------------------atcccctcatgtccatccagttca-ccaaatttcacttctcataggcaactaccattctacttttt
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e dasNov3.JH567306           2582526 8496 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=3307088.000000
s hg38.chr5_KI270796v1_alt     40326 347 +    172708 aacaccacagatttattgtatctgttattaaatttcacataaatagaatcgtacagtatgtatctttgcacatctggcttttttactcattata------atgtttttgagattcatccaggttgttatatgcattattagtcatgtttttgtcaatttctgattagaattccattttatgaatatactgtaatatgtttatccattctcctgttgatagacatttgga-----------------------------ttgtttcctacttt--------------------------------------ttgctatgagtaaagctattataaactttcaagtacaagtgtt----ttgggg-------------------caattagataaatccttaagagtgaaattcactgaccgtatgataaatgtagcat--ataata----
s panTro5.chr5             125150395 347 + 181907262 aacaccacagatctattgtgtctgttattaaatttcacataaatagaatcgtacagtatgtatctttgtacatctggcttttttactcattata------atgtttttgagattcatccaggttgttatatgcattattagtcatgtttttgtcaatttctgattagaattccattttatgaatatactgtaatatgtttatccattctcctgttgatagacatttgga-----------------------------ttgtttcctacttt--------------------------------------ttgctatgagtaaagctattaaaaactttcaagtagaagtgtt----tttggg-------------------caattagataaatccttaagagtgaaattcactgaccgtatgataaatgtagcat--ataata----
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126487347 347 + 183735486 aacaccacagatctattgtgtctgttattaaatttcacataaatagaatcgtacagtatgtatctttgtacatctggcttttttactcattata------atgtttttgagattcatccaggttgttatatgcattattagtcatgtttttgtcaatttctgattagaattccattttatgaatatactgtaatatgtttatccattctcctgttgatagacatttgga-----------------------------ttgtttcctacttt--------------------------------------ttgctatgagtaaagctattaaaaactttcaagtacaagtgtt----tttggg-------------------caattagataaatccttaagagtgaaattcactgaccgtatgataaatgtagcat--ataata----
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1678841 342 +   8933513 aacaccacagatttattgtgtctgttattaaatttcacataaatagaatcgtacagtatgtatctttgcacatctggcttttttactcattata------atgtttttgagattcatccaggttgttatatgcattattagtcatg-ttttgtcaatttctgattagaattccattttatgaatatactgtaatatgtt----cattctcctgttgatagacatttgga-----------------------------ttgtttcctacttt--------------------------------------ttgctatgagtaaagctattataaacttttaagtacacgtgtt----ttgggg-------------------caattagataaatccttaagagtgaaattcactgaccgtatgataaatgtagcat--ataata----
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139808843 347 + 163208435 aacaccacagatttattgtgtctgttattaaatttcacataaatagaatcgtacagtatgtatctttgcatgtctggcttttttactcattgta------atgtttttgagattcctccaggttgttatatgcattattagtcatgtttttgtccatttctgattagaattccattttatgaatatactgtaatatgtttatccattctcctgttgatagacatttgga-----------------------------ttgtttcctacttt--------------------------------------ttgcgatgagtaaagccattataaactttcaagtgcaagtgtt----ttgggg-------------------caattagataaatccctaagagtgaaactcactgatcgtatgataaatgtagcat--ataata----
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122794732 347 + 180051392 aacactacagatttattgtgtctgttactaaatttcacataaatagaatcatacagtatgtatctttgcacatctgacttttttactcattata------gtgtttctgagatccatccaagttattatatgcattattagtcatgtttttgtcaatttctgattagaattccattttatgaatatattgtaatatgtttatccattctcctgttgatagacatttgga-----------------------------ttgtttcctacttt--------------------------------------ttgctatgagtaaagctattacaaactttcaagtacaagtgtt----ttgggg-------------------caattagataaatccctcagagtgaaattcactgattatatgttaaatgtagcat--acaata----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124218413 347 + 181584905 aacactacagatttattgtgtctgttactaaatttcacataaatagaatcatacagtatgtatctttgcacatctgacttttttactcattata------gtgtttctgagatccatccaagttattatatgcattattagtcatgtttttgtcaatttctgattagaattccattttatgaatatattgtaatatgtttatccattctcctgttgatagacatttgga-----------------------------ttgtttcctacttt--------------------------------------ttgctatgagtaaagctattacaaactttcaagtacaagtgtt----ttgggg-------------------caattagataaatccctcagagtgaaattcactgattatatgttaaatgtagcat--acaata----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16216142 347 +  18395747 aacactacagatttattgtgtctgttactaaatttcacataaatagaatcatacagtatgtatctttgcacatctgacttttttactcattata------gtgtttctgagatccatccaagttattatatgcattattagtcatgtttttgtcaatttctgattagaattccattttatgaatatattgtaatatgtttatccattctcctgttgatagacatttgga-----------------------------ttgtttcctacttt--------------------------------------ttgctatgagtaaagctattacaaactttcaagtacaagtgtt----ttgggg-------------------caattagataaatccctcagagtgaaattcaccgattatatgttaaatgtagcat--acaata----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5221986 353 +  26952557 aacactacagatttattgtgtctgttactaaatttcacataaatagaatcatacagtatgtatctttgcacatctgacttttttactcattataaaaaatgagtttctgagatccatccaagttgttatatgcattattagtcatgtttttgtcaatttctgattagaattccattttatgaatatatggtaatatgtttatccattctcctgttgatagacatttgaa-----------------------------ttgtttcctacttt--------------------------------------ttgctatgagtaaagctattacaaactttcaagtacaagtgtt----ttgggg-------------------caattagataaatccctcagagtgaaattcactgattgtatgttaaatgtagtat--acaata----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28329672 347 +  82825804 aacaccacagatttattgtgtctgttattaaatttcacataaatagaatcatacagtatgtatctttgcacatctgacttttttactcattata------gtgtttctgag----atccaagttgttatatgcattattagtcatgtttttgtcaatttctgattagaattctattttatgaatatactgtaatatgtttatccattctcctgttgatagacatttgga-----------------------------ttgtttcctacttt--------------------------------------ttgctatgagtaaagctattacaaactttcaagtacaagtggggcaattgggg-------------------caattagataaatccctcagagtgaaattcactgattgtatgttaaatgtagcat--acaata----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3993948 347 -   4237731 aacactacagatttattgtgtctgttactaaatttcacataaatagaatcatacagtatgtatctttgcacatctgccttttttactcgttata------gtgtttctgagatccatccaagttgttatatgcattattagtcatgtttttgtcaatttctgattagaattccattttatgaatatattgtaatatgtttatccattctcctgttgatagacatttgga-----------------------------ttgtttcctacttt--------------------------------------ttgctatgagtaaagctattagaaactttcaagtacaagtgtt----ttgggg-------------------caattagataaatccctcagagtgaaattcactgattgtatgttaaatgtagcat--acaata----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      264270 341 -   1175262 aacaccacagatttattgtgtctgttattaaatttcacataaataaaatcatgcagtatgtatctttgcacatctgacttttttactcattata------gtgtt--tgagattcatccaagttgttatatgcattattagtcatgtttttgtcaatttctgattagaattccattttatgaatatactgtagtatgtttatccattctcctgttgatagacatttgga-----------------------------ttgtttcctagttt--------------------------------------ttgctatgagtaaagctattacaaactttcaagtacaagtgtt----ttgggg-------------------caattagataaatccctcagagtgaaagtcactgat----tgttaaatgtagcat--acaata----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123602611 345 - 204313951 aataccacaaatttattgtgtctgttattaaagtttacataaatagaatcagatagtatgtatcttttcacatctggctttcttactcagtata------atgtttttgagattcatctatattgttatgtgcattattattcatgtttttgtcaatttctgatttgaattccatgctgtgaatatactgcaatatgtttatccattctcctgttgat-gacgtttgga-----------------------------ttgtttattacttt--------------------------------------ttgctatgagtaaagatattataaactttcaagtacaagtatt----ttgagg-------------------gaactggataaatccctaagagtgaaattcactgattgcaggataaatgta-cat--attata----
i calJac3.chr2             C 0 I 38
s saiBol1.JH378106          55653224 346 -  71252344 aataccacaaatttattgtgtctgttattaaatttcacataaatagaaccatacagtatgtatcttttcacatctggcttttttactcagtata------atgtttttgagattcatctatgttgttatgtgcattattattcacgtttttgtcaatttctgattagaattccattttgtgaatatactgcaatatgtttatccattctcctattgatagacatttgga-----------------------------ttgtatactacttt--------------------------------------ttgctatgagtaaagatattataaaatttcaagtataagtgtt----ttgggg-------------------caattggataaattcctaagagtgaaattcactgattgtatgataaatgta-CAT--ATTATA----
i saiBol1.JH378106         C 0 I 2305
s aotNan1.NW_018505940v1    13141029 343 -  42888418 aataccacaaatttattgtgtctgttattaaatttcacataaatagaatcatacagtatgtatcttttcatatcttgcttttttactcagtgta------atgtttttgagattcatctatgttgttatgtgcatcgttattcatgtttttgtcaatttctgattagaattccattttgtgactatactgcaatatgtttatccatt---ctgttgatagacatttgga-----------------------------ttgtttactacttt--------------------------------------ttgctatgagtaaagatattataaactttcaagtacaagtgtt----ttgagg-------------------caattgaataaatccataagagtgaaattcactgattgtatgataaatgta-cgt--attata----
i aotNan1.NW_018505940v1   C 0 I 38
s otoGar3.GL873679           3026192 346 +   4132165 aatgccacaggtttattttatctttgattaaacttcatataaacagagtcatgcaacatgtattctctcatggct---tttttcactcaattta------gtgaa--aaaagtttatccatttag---------tcattattcacattc------atttctgattagaattctggttt-tggacacactgcgatatgtttatccattcgcctgtcgatagacatttggc-----------------------------ctgtttctgacttt--------------------------------------tcatgaagagtaaagctattataaactttcaagcacaagtgtt----tttgagagggcgtatgttttaatttctattgtgtaattccctaaaagtggaattgactgattgtgtggtaagtata-tattaactata----
i otoGar3.GL873679         C 0 I 3
s canFam3.chr11             14878661 418 +  74389097 accaccatgcatttgctttccctgttagtaaacttcatataaatagaatcatacaggatgtattctttcatact----ttgttcactcatccta------atgttcttgagagtcatccatgttgttctgtgt-------------cttttactagttttggatcagtactgcattttgtggatatactacaatatgtttactcattcccctgttgatagatatctggactagctctgggtttttttgttgttgttgtttgtttgttggtttggtttggtttgtttttgttgttgttgttgttgttattgttattatgaataaagctgttacaaattttcaagcacaagtctt----ctcagg--gatatatgttgtcatt-ctcgtgggtagattcctagaagtagaattgaccggttgtagcataaatgtatggt-aactataagaa
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e cebCap1.NW_016107829v1     1348583 4584 -   1400280 I
e dasNov3.JH567306           2582526 8496 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=1636809.000000
s hg38.chr5_KI270796v1_alt     40673 178 +    172708 aaatgctcaactgtattctgaaatgcttgtaccattttacactctcaccatcatcaatatttgagcattcaggttgctccactatcttgacaaca-tggtattaccagtattttaaatgtagctattttagagggtgtgaagtggtatcttattgaaggtttaattttcatttatctga
s panTro5.chr5             125150742 178 + 181907262 aaatgctcaactgtattctgaaatgcttgtaccattttacactctcaccatcatcaatatttgagcattcaggttgctccactatcttaacaaca-tggtaatgccagtattttaaatgtagctattttagagggtgtgaagtggtatcttattgaaggtttaatttgcatttatctga
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126487694 178 + 183735486 aaatgctcaactgtattctgaaatgcttgtaccattttacactctcaccatcatcaatatttgagcattcaggttgctccactatcttgacaaca-tggtaatgccagtattttaaatgtagctattttagagggtgtgaagtggtatcttattgagggtttaatttgcatttatctga
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1679183 178 +   8933513 aaatgctcaactgtattctgaaatgcttgtaccattttacactctcaccatcatcaatatttgagcattcaggttgctccactatcttgacaaca-tggtattgccagtattttaaatgtagctattttagagggtgtgaagtggtatcttattgaaggtttaatttgcatttatctga
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139809190 178 + 163208435 aaatgctaaactatattctgaaatgcttacaccattttacactctcaccatcatcaatatttgagcattcaggttgctccactatcttgacaaca-tggtattgccaatattttaaaggtagctattttagagggtgtgaagtggtattttattgaaggtttaatttgcatttatctga
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122795079 178 + 180051392 aaatgctaaactgtattctgaaatgcttataccattttacactctcaccatcatcaatatttgagcattcaggttgctccactatcttgacaacg-tggtattgccagtattttaaatgtagctattttagagggtgtgaagtggtgtcttattgaaggtttaatttgcatttatctga
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124218760 178 + 181584905 aaatgctaaactgtattctgaaatgcttataccattttacactctcaccatcatcaatatttgagcattcaggttgctccactatcttgacaacg-tggtattgccagtattttaaatgtagctattttagagggtgtgaagtggtgtcttattgaaggtttaatttgcatttatctga
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16216489 178 +  18395747 aaatgctaaactgtattctgaaatgcttataccattttacactctcaccatcatcagtatttgagcattcaggttgctccactatcttgacaaca-tggtattgccagtattttaaatgtagctattttagagggtgtgaagtggtgtcttattgaaggtttaatttgcatttatctga
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5222339 178 +  26952557 aaatgctaaactgtattctgaaatgcttataccattttacactctcaccatcatcaatatttgagcattcaggttgctccactatcttgacaaca-tggtattgccagtattttaaatgtagctattttagagggtgtgaagtggtgtcttattgaaggtttaatttgcatttatctga
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28330019 178 +  82825804 aaatgctaaactgtattctgaaatgcttatacccttttacactctcaccatcatcaatatttgagcattcaggttgctccactatcttgacaaca-tggtattgccagtattttaaatgtagctattttagagggtgtgaagtggtgtcttattgaaggtttaatttgcatttatctga
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3994295 178 -   4237731 aaatgctaaactgtattctgaaatgcttataccattttacactctcaccatcatcaatatttgagcattcaggttgctccactatcttgacaacg-tggtattgccagtattttaaatgtagctattttagagggtgtgaagtggtgtcttattgaaggtttaatttgcatttatctga
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      264611 178 -   1175262 aaatgctaaactgtattctgaagtgcttataccattttatactctcaccatcatcaatatttgagcattcagggtgctccactatcttgacaaca-tggtattgccagtattttaaatgtagctattttagagggtgtgaagtggtgtcttattgaaggtttaatttgcatttatctga
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123602994 179 - 204313951 aaatgctatactctattctgaaatgcttataccattttacattctcgccgtcatcaatatttgagcattcagattgctccacaatcttgacaatgttggtattgccagtattttaaatgtagctattttagagggtgtgaagtagtatcttattgaaggtttaattttcatttatctga
i calJac3.chr2             I 38 C 0
s aotNan1.NW_018505940v1    13141410 179 -  42888418 aaatgctatactctattctgacatgcttataccattttacattcttgctgtcatcaatatttgagcattcaggttgctccacaatcttgacaatgttggtattgccagtattttaaatgtagctattttagagggtgtgaagtggtatcttattgaaggtttaattttcatttatctga
i aotNan1.NW_018505940v1   I 38 C 0
s otoGar3.GL873679           3026541 174 +   4132165 aaatgctacactctttcctgaagaggttagaccattttacact----ccactaccaaaagtagagagttcaagttactgtacaatcttgacactgttggtatcaccagaatttttaat-taaccattctagaggatgtgtagtggtatcttattgtggtcttaatttgcactttcctga
i otoGar3.GL873679         I 3 C 0
s canFam3.chr11             14879079 168 +  74389097 aaacactatgctgtattctgaattggttgtaccattttacatcccctccaccagaa----------atcgaaattgttccacaaacttgaaaacattgatattaccagtattttaatt-tagccattctagaaggtgggaagtaagatctcactgtagtgttaatttgtgtttgtctga
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e cebCap1.NW_016107829v1     1348583 4584 -   1400280 I
e dasNov3.JH567306           2582526 8496 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I
e saiBol1.JH378106          55653570 2305 -  71252344 I

a score=464360.000000
s hg38.chr5_KI270796v1_alt     40851 200 +    172708 caataaataattttgagatttttatgtgctttatggccattcatatattttcttttgtgaaaggtctgttcaagtt----tttctttcttatgtat---ttgtcatttaagtgagttttagtagt--------tcttcatatattctgaatataagtcctttatcattt--atatatatataacaaatatttcttctagtctgagccttgtattttt
s panTro5.chr5             125150920 200 + 181907262 caataaacaattttgagatttttatgtgctttatggccattcatatattttcttttgtgaaaggtctgttcaagtt----tttctttcttatgtat---ttgtcatttaagtgagttttagtagt--------tcttcatatattctgaatataagtcctttatcattt--atatatatgtaacaaatatttcttctagtctgagccttgtattttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126487872 200 + 183735486 caataaacaattttgagatttttatgtgctttatggccattcatatattttcttttgtgaaacgtctgttcaagtt----tttctttcttatgtat---ttgtcatttaagtgagttttagtagt--------tcttcatatattctgaatataagtcctttatcattt--atatatatgtaacaaatatttcttctagtctgagccttgtattttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1679361 196 +   8933513 caataaacaattttgagatttttatgtgctttatggccattcatatattttcttttgtgaaaggtctgttcaagtt----tttctttcttatgtat---ttgtcgtt----tgagttttagtagt--------tcttcatatattctgaatataagtcctttatcattt--atatatacataacaaatatttcttctagtctgagccttgtattttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139809368 206 + 163208435 caataaataattttgagatttttaagtgctttatggccattcatatattttcttttgtgaaaagtcgctttaagtttttctttctttcttgtgtat---ttgtcatttaagtgagttttagtagt--------tcttcatatattctgaatataagtcctttatcatttagacatatatataacaaatatttcttctggtttgagccttgtattttt
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123603173 200 - 204313951 taataactaattttgagatttatatgtgctttatggccattcatatattttcttttttgaaaggtatgttcaagtttttgtttatgtcttatgtat---ttattatttaagtgagttttagtagt--------tctttacacattctgaatat--gtcctttattatta----atatatataacaaatatttcttctagtctgagttttgtattttt
i calJac3.chr2             C 0 C 0
s aotNan1.NW_018505940v1    13141589 199 -  42888418 caataactaattttgatatttttatatgctttatggccattcatatattttcttttgtgaaaggtatgttcaagtttttgtttatttcttatgtat---ttgtcatttaagtgagttttagtagt--------tcttcatatatt-tgaatat--gtcctttattatta----atatatataacaaatatttcttctagtctgagttttgtattttt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3026715 210 +   4132165 caatgaatgattttaagatttttacatgttttatgtctgtgtacatactttcttctgtgaaggatttgttcgagtttttgttcatttcttatgtat---ttgccttttaggtgaattttagtagttctgtagatctgtagatattctgaaagcaagtcctttatcgtct----acacgtatcacagatatttctcccagtctgaggattgtgttttt
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14879247 180 +  74389097 caatgaatgattttgagattttcatgtactcgttggccattcatatgtttcctcctgtaaagggcctgttcaagtttttgcccatttcttatctatttattgttactaaagtgagttttaatagt--------tctttatacattctaaacttaagtc-----------------------------tatttcttctagtctgagttttatattttc
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e manLeu1.NW_012103321v1     3994473   0 -   4237731 C
e chlSab2.chr23             28330197   0 +  82825804 C
e cerAty1.NW_012002512v1     5222517   0 +  26952557 C
e macNem1.NW_012012355v1    16216667   0 +  18395747 C
e macFas5.chr6             124218938   0 + 181584905 C
e rheMac8.chr6             122795257   0 + 180051392 C
e cebCap1.NW_016107829v1     1348583 4584 -   1400280 I
e dasNov3.JH567306           2582526 8496 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I
e saiBol1.JH378106          55653570 2305 -  71252344 I
e colAng1.NW_012119644v1      264789   0 -   1175262 C

a score=175224.000000
s hg38.chr5_KI270796v1_alt     41051 92 +    172708 atcttattaaagctgggttgttagg-tttaattttgctgaaatcaaatttttc-tttttttttctttcttttttcttttgtcttttatggttgg
s panTro5.chr5             125151120 92 + 181907262 atcttattaaacctggattgttagg-tttaattttgctgaaatcaaatttttc-tttttttttctttcttttttcttttgtcttttatggttgg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126488072 92 + 183735486 atcttattaaagctggattgttagg-tttaattttgctgaaatcaaatttttc-tttttttttctttcttttttcttttgtcttttatggttgg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1679557 93 +   8933513 atcttattaaagctgggttgttagg-tttaattttgctgaaatcaaatttttcttttttttttctttcttttttcttttgtcttttatggttgg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139809574 93 + 163208435 atcttattaaagctgggttgttagg-tttaatttggctgaaatcaaatttttcttttttttttctttcttttttcttttgtcttttatggttgg
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123603373 78 - 204313951 atcttcttaaagctgggttgttaggttttaattttgctgaagtcaaattattt----------------atttatttttgtcttttattgttgg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55655875 78 -  71252344 attttaaaaaagctgggttgttaggttttaactttgctgaagtcaaattattt----------------atttatttttgtattttattgttgg
i saiBol1.JH378106         I 2305 C 0
s aotNan1.NW_018505940v1    13141788 78 -  42888418 atcttcttaaagctgggttgttaggttttaacttcgctgaagtcaaattattt----------------atttatttttgtcttttattgttgg
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3026925 44 +   4132165 atcttttt-aagttgtgctgttaggttttaattttggcgaag--------ttt-----------------------------------------
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14879427 74 +  74389097 attttcttaagaccatgcttatacgttataattttgacgatctcaaattttca--------------------atttttgtcttttatggttag
i canFam3.chr11            C 0 I 39
e micMur3.chr12             60507134 2924 + 108143057 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e manLeu1.NW_012103321v1     3994473  0 -   4237731 C
e chlSab2.chr23             28330197  0 +  82825804 C
e cerAty1.NW_012002512v1     5222517  0 +  26952557 C
e macNem1.NW_012012355v1    16216667  0 +  18395747 C
e macFas5.chr6             124218938  0 + 181584905 C
e rheMac8.chr6             122795257  0 + 180051392 C
e cebCap1.NW_016107829v1     1348583 4584 -   1400280 I
e dasNov3.JH567306           2582526 8496 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I
e colAng1.NW_012119644v1      264789  0 -   1175262 C

a score=138744.000000
s hg38.chr5_KI270796v1_alt     41143  83 +    172708 tgcttaccattttc------------tttctttc------tttctttctttttgagacagaagctagctctgttacccagggtggaatgcgatggagcgat
s panTro5.chr5             125151212  77 + 181907262 tgcttactattttc------------tttctt------------tttttttttgagacagaagctagctgtgttactcagggtggaatgcgatggagcaat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126488164  77 + 183735486 tgcttactattttc------------tttctt------------tttttttttgagacagaagctagctgtgttactcagggtggaatgcgatggagcaat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1679650  88 +   8933513 tgcttact-ttttc------------tttctttcttttcttttttttttttttgagacagaagctagctctgttacccagggtggaatgcgatggagcgat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139809667  89 + 163208435 tacttactattttc------------tttctttctttttttttttttttttttgagacagaatctagccctgttacccaggatggaatgcaatggagcgat
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123603451 101 - 204313951 tgcttacgattttcttttcttttctttttttctttttttttttttttttttttaagacagagtctacttctgtcacccaggttggagtgcaatggcttgag
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55655953  76 -  71252344 tgcttactattttc-------------------------tttcttttttttttgagacagagtctacctctgtcacccaggttggagtgcaatggcgtgag
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13141866  84 -  42888418 tgcttactattttc----------------tttctttctttttttttttttttgagacagagtctacctct-tgtctgaggttggagtgcaatggcgtgag
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3026969  59 +   4132165 ---------ttttt------------------------------tttttttttgagacagagtctcactatgttaccctcagtagagtgctgtggcat---
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14879501  39 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e manLeu1.NW_012103321v1     3994473   0 -   4237731 C
e chlSab2.chr23             28330197   0 +  82825804 C
e cerAty1.NW_012002512v1     5222517   0 +  26952557 C
e macNem1.NW_012012355v1    16216667   0 +  18395747 C
e macFas5.chr6             124218938   0 + 181584905 C
e rheMac8.chr6             122795257   0 + 180051392 C
e cebCap1.NW_016107829v1     1348583 4584 -   1400280 I
e dasNov3.JH567306           2582526 8496 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I
e colAng1.NW_012119644v1      264789   0 -   1175262 C

a score=723876.000000
s hg38.chr5_KI270796v1_alt     41226 247 +    172708 cttgtctcactgcaacgtccgcctccgaggttcaaacaatttttctgcctcagcttcccgagtaactgggattacaggtgcccgccaccttgcccagctagtttttgtatttttaatagagacggg-gttttatcatgttggccaggctgatcttgaacctctgacatcaagtgatccaccctccttggcctcacaaagtgctgggattacaggcgtgagccaccgtgcctggcc--------------------ctattttctcttt-------------------------
s panTro5.chr5             125151289 247 + 181907262 cttgtctcactgcaacgtccgcctccggggctcaaaaaattcttctgcctcagcttcccgagtaactgggattacaggtgctcgccaccttgcccagctagtttttgtatttttaatagagacggg-gttttatcatgttggccaggctgatcttgaacctctgacatcaagtgatccatcctccttggcctcacaaagtgctgggattacaggcatgagccaccgtgcctggcc--------------------ctattttctcttt-------------------------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126488241 247 + 183735486 cttgtctcactgcaacgtctgcctccggggctcaaaaaattcttctgcctcagcttcccgagtaactgggattacaggtgctcgccaccttgcccagctagtttttgtatttttaatagagacggg-gttttatcatgttggccaggctgatcttgaacctctgacatcaagtgatccaacctccttggcctcacaaagtgctgggattacaggcatgagccaccgtgcctggcc--------------------ctattttctcttt-------------------------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1679738 247 +   8933513 cttgtctcactgcaatgtccgcctccggggttcaaacaattcttctgcctcagcttcccgagtaactgggattacaagtgcctgccaccttgcccagctagtttttgtatttttaatagagacggg-gttttatcatgttggccaggctgatcttgaacctctgacatcaagtgatccaccctccttggcctcacaaagtgctgggattacaggcgtgagccaccgtgcctggcc--------------------ctattttctcttt-------------------------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139809756 242 + 163208435 cttgtctcactgcaacatctgcctctggggttcaaacgattcttctgcctcagcctcc----taactgggattacaggtgcccgccaccttgcccagctagtttttgtatttttaatagagacgag-gttttatcatgttggccaggctgatcttgaacctctgacatcaagtgat-cgccctccttggcctcacaaattgctgggattacaggcgtgagccaccgtgcctggcc--------------------ctattttttcttt-------------------------
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123603552 236 - 204313951 cttggctcactgcaaccc----------gattcaaatgattcttttgtgtcagcctcctgaatagctgggattacaggcacctgccaccttacctggctagtttttgtatttttaatagacatggg-tttttatcaagttggtgaggctgatcttgaactcctgacttcaagtgatctgccctccttggcctcccaaagtgctgggattacaggcatcagccaccatgtcc-acc--------------------ctattttctcttt-------------------------
i calJac3.chr2             C 0 I 300
s saiBol1.JH378106          55656029 246 -  71252344 cttggctcactgcatcctccgctcctg-gattcaaatgattcttttgtgtcagcctcctgaatagctgggattacaggcacctgtcactttacctggctagtttttgtatttttaatagagatgggatttttatcacgttggtgaggctgatcttgaactcctgacctcaagtaatctgccctccttggcctcccaaagtgctgggattacaggcatcagccaccatgcct-gct--------------------ctattttctcttt-------------------------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1353167 246 -   1400280 cttggcttactgtaacctccgcttctgagattcaaatgattcttctgcatcagcctcctgaatagctgggattacaggcacctgccaccttacccagatagattttgtatttttaatagagatggg-tttttatcatgttggggagtatgatcttgaactcctgacctcaagtgatctgccttccttggcctcccaaagtgctgggattacagccatcagccaccatgctc-gac--------------------cTATTttctcttt-------------------------
i cebCap1.NW_016107829v1   I 4584 C 0
s aotNan1.NW_018505940v1    13141950 246 -  42888418 cttggctcactgcaacctccgcttcccggattcaaatgattcttctgcgtcagcctcctgaatagctgggattacaggcacctgccaccttacctggctagtttttgtatttttaatagagatggg-tttttatcatgttggtgaggctgatcttgaactcctgacctcaagtgatctgccctccttggcctcccaaagtgctgggattacaggcatcagccaccatgccc-gcc--------------------ctattttctcttt-------------------------
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3027028 275 +   4132165 cataactcacggcaacctcaaactcttgggttcaagctatcctcttgcctcagcct---gaatagctgggactacaggcacctgctacaatgcctggctatttt------------tagagatgag-gtct--ccctctggcttaggctggtctcaaacctacaagctcaggcaatccacttgccttggcctctaagagtgctaggattacaggcatgagccacagtgcccagccaatgaagtaaaatttaaaattttttttctcttatgggtagttcttgctatttctttct
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14879501  39 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e manLeu1.NW_012103321v1     3994473   0 -   4237731 C
e chlSab2.chr23             28330197   0 +  82825804 C
e cerAty1.NW_012002512v1     5222517   0 +  26952557 C
e macNem1.NW_012012355v1    16216667   0 +  18395747 C
e macFas5.chr6             124218938   0 + 181584905 C
e rheMac8.chr6             122795257   0 + 180051392 C
e dasNov3.JH567306           2582526 8496 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I
e colAng1.NW_012119644v1      264789   0 -   1175262 C

a score=49308.000000
s hg38.chr5_KI270796v1_alt     41473 16 +    172708 aagaaaccattgccta
s panTro5.chr5             125151536 16 + 181907262 aagaaaccattgctta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126488488 16 + 183735486 aagaaaccattgctta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1679985 16 +   8933513 aagaaaccattgccta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139809998 13 + 163208435 gagaaac---tgtata
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123604088 16 - 204313951 aagaaaccattgccta
i calJac3.chr2             I 300 C 0
s saiBol1.JH378106          55656275 16 -  71252344 aagaaaccattgccta
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1353413 16 -   1400280 aagaaatcattgccaa
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13142196 16 -  42888418 aagaaaccattgctta
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3027303 16 +   4132165 aagaaattattgccta
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14879501 39 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e manLeu1.NW_012103321v1     3994473  0 -   4237731 C
e chlSab2.chr23             28330197  0 +  82825804 C
e cerAty1.NW_012002512v1     5222517  0 +  26952557 C
e macNem1.NW_012012355v1    16216667  0 +  18395747 C
e macFas5.chr6             124218938  0 + 181584905 C
e rheMac8.chr6             122795257  0 + 180051392 C
e dasNov3.JH567306           2582526 8496 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I
e colAng1.NW_012119644v1      264789  0 -   1175262 C

a score=936526.000000
s hg38.chr5_KI270796v1_alt     41489 270 +    172708 cccca--aggccataaggatattctgttatattttcctctagaattttaag--------actttagcttttacatttaggtctatgattcatctttatttaa-tttttgtgtattatttgagaca------ggggtcaggattcatgtttctttcatacatttatccagttgttgcaatgctacttgctgaaaaaccttttttt-catattaaattccctcgatcttttgttgaataaaaaatagacctgtacgtatacacatctatttttggactctgctgttttat-------------
s panTro5.chr5             125151552 270 + 181907262 tccca--aggccataaggatattctgttatattttcctctagaattttaag--------actttagcttttacatttaggtctatgattcatcttgatttaa-tttttgtgtattatttgagaca------ggggtcaggattcatgtttctttcatacatttatccaattgttgcaatgctacttgctgaaaaaccttttttt-catattaaattcccttgatcttttgttgaataaaaaatagacctgtacgtatacacatctatttttggactctgctgttttat-------------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126488504 270 + 183735486 cccca--aggccataaggatattctgttatattttcctctagaattttaag--------actttagcttttacatttaggtttatgattcatcttgatttaa-tttttgtgtattatttgagaca------ggggtcaggattcatgtttctttcatacatttatccaattgttgcaatgctacttgctgaaaaaccttttttt-catattaaattccctcgatcttttgttgaataaaaaatagacctgtacgtatacacatctatttttggactctgctgttttat-------------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1680001 269 +   8933513 cccca--aggccataaggatattctgttatattttcctctagaattttaag--------actttagcttttacatttaggtctatgattcatcttgatttaa-tttttgtgtattatttgagaca------ggggtcaggattcatgtttctttcatacatttatccagttgttgcaatgctacttgctgaaaaaacctttttt-catattaaatcccctcgatc-tttgttgaataacaaacagacctgtacgtacacacatctatttttggactctgctgttttat-------------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139810011 270 + 163208435 cccca--aggccataatgatattctgttatattttcctctagaattttaag--------attttagcttttacctttaggtctatcattcatctctatttaa-tttttgtgtattatttgaaaca------agggtcaggattcatgtttctttcatacatttatccagttgttgcaatgctacttgctgaaaaaccttttttt-catattaaattgcctcgatcttttgttgaataaaaaatagacctgtacgtatacgcatctatttttggactctgctgttttct-------------
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123604104 256 - 204313951 cccca--aggccataaggatattctgttttattttcctttagaattttaag--------agtttaggtttta-atttaggtctatgatttatcttgatttaattttttgtgtattatttgagac--------gggtcaggatttgtgtttctttcatacatttatccagttgttgcaatgctacttgctgaaaaatcttttttc-catgttaaattgtcttgatcttttgttgtataaaa-----------acatatacacatctatatttggactctgctc-tttgt-------------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55656291 255 -  71252344 cccca--gggccataaggatattctgttatattttcctttagaattttaag--------agtttagcttttacacttaggtctatgattcatcttgatttaa-tttttgtgtattatttgagac--------gggtcaggattcatgtttctttcataaatttatccagttgttgcaatgctacttgctgaaaaatc-tttttc-catattaaattgtcttgatcttttgttggataaaa-----------acatatacacatctatttttggactctgctg-tttgt-------------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1353429 257 -   1400280 ccccaaggggccataaggatattctgtcatattttcctttagaattttaag--------agtttagtttttacatttaggtctatgattcatttcgatttaa-tatttgtgtattatttgagat--------ggatcaggattcatgtttctttcatacatttatccagttgttgccatgctacttgctcaaaaatc-tttttc-catattaaattgccttgaccttttgttggataaaa-----------acatatacacatctatttttggactctgctg-tttgt-------------
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13142212 256 -  42888418 cccca--aggccataaagatattctgttatattttcctttagaattttaag--------agtttagcttttatatttaggtctatgattcatcttgatttaa-tttttgtgtattatttgagac--------gggtcaggattcatgtttctttcatacattcatccagttgttgcaatgctacttgctgaaaaatcttttttc-catattaaattgccttgatcttttgttggataaaa-----------atataaacacatctatttttggactctgctg-tttgt-------------
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3027319 262 +   4132165 cccca--aggccatgaagataccctgttatgttttcctgggtaattttaag--------gttttagcttttatatttgtatgtacgatctatcttgacttac-tttttgtgtttcatttcagatg------gaggtcaggattcacttttctttcatacacttatccaattgttccaacactatttcctgaaaaaaatttctttgcacattaaattgcct-ggtcctttgttgaattacaaat--------atttgtgcacatctctttttagactctgctattccat-------------
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14879540 281 +  74389097 ----------ccctaaggatattctgttatgttttcctctagaagtttaagaagttaacattttagcttttacatttaggtctataatgcatcttga------tttttttgtatcacatgaaaagggaggtggagttaagactcatttttccttcatatatttgtccagtagttccaacactatttg--ggaaaagaatttttc-cacattaaattgacttggtgttctgttaaataccaaatagacccatttacaattacatatgtttttggattctatag-ttcattgaactatttttt
i canFam3.chr11            I 39 I 175
e micMur3.chr12             60507134 2924 + 108143057 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e manLeu1.NW_012103321v1     3994473   0 -   4237731 C
e chlSab2.chr23             28330197   0 +  82825804 C
e cerAty1.NW_012002512v1     5222517   0 +  26952557 C
e macNem1.NW_012012355v1    16216667   0 +  18395747 C
e macFas5.chr6             124218938   0 + 181584905 C
e rheMac8.chr6             122795257   0 + 180051392 C
e dasNov3.JH567306           2582526 8496 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I
e colAng1.NW_012119644v1      264789   0 -   1175262 C

a score=1021210.000000
s hg38.chr5_KI270796v1_alt     41759 285 +    172708 tgaactatatctctgtccttatttg-------------------tctgtaactttcttgt---------------------------------tgctgta-------------------------------------------------------ctgtagctttgtaataagtcttgaagtaagatagtgaatgttctccaactatcttcctctttttcaaagatattttagat------tttttgcatttccctgtatattctagaatcagcttgtcaatttctacataaaggccta--gttagatttctgattagacttgtatcacacgttaattt-ggggagtaattgacacctttt-catcattgagtcttcaaatccattaacacagcatatgtct
s panTro5.chr5             125151822 285 + 181907262 tgaactatatctctgtccttatttg-------------------tctgtaactttcttgt---------------------------------tgctgta-------------------------------------------------------ctgtagctttgtaataagtcttgaagtaagatagtgaatgttctccaactagcttcctctttttcaaagatattttagat------tttttgcatttccctgtatattctagaatcagcttgtcaatttctacataaaggccta--gttagatttctgattagacttgtatcacacgttaattt-ggggagtaattgacacttttt-catcattgagtcttcaaatccattaacacagcatatgtct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126488774 285 + 183735486 tgaactatatctctgtccttatttg-------------------tctgtaactttcttgt---------------------------------tgctgta-------------------------------------------------------ctgtagctttgtaataagtctttaagtaagatagtgaatgttctccaactagcttcctctttttcaaagatattatagat------tttttgcatttccctgtatattctagaatcagcttgtcaatttctacataaaggccta--gttagatttctgattagacttgtatcacacgttaattt-ggggagtaattgacacttttt-catcattgagtcttcaaatccattaacacagcatatgtct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1680270 284 +   8933513 tgaactacatctctgtccttatttg-------------------tctgtaactttcttgt---------------------------------tgctgta-------------------------------------------------------ctgtagctttgtaataagtcttgaagtaagatagtgaatgttctccaactatcttcc-ctttttcaaagatattttagat------tttttgcatttccctgtatattctagaatcagcttgtcaatttctccataaaggccta--gttagatttctgattagacttgtgtcacacattaattt-ggggagtaattgacacttttt-catcattgagtcttcaaatccattaacacagcatatgtct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139810281 284 + 163208435 tgaactatatctctgtccttatttg-------------------tctgtaactttcttgt---------------------------------tggtgta-------------------------------------------------------ctgttgctttgtaataagtcttgaagtaaggtagtgaatgttctccaactatcttcctctttttcaaagatattttagat------tttttgcatttccctgcatattctagaatcagcttgtcaatttctacataaaagccta--gttagatttctgattagacttgtatcacacattaattt-ggggag-aattgacacttttt-catcactgagccttcaaatccattaacacagcatatgtct
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123604360 282 - 204313951 tgaactatatctcggtcccta-ttg-------------------tctgtaacttccttga---------------------------------tggtgta-------------------------------------------------------caatagcttggtaataagtgttgaaatcagatagtgaatgttctccaaatatcttcctctttcacaaagagattttagat------tttttgcattttcctgtatgcgctagaatcaacttgtcaatttctacataaaagccta--gtaaga-ttatggttggacttgtatcacacattgattt-ggagag-aattgacactgttt-catcattgagccttcaaatgcattaacatagcatatgtct
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55656546 283 -  71252344 tgaactatatctctgtccttatttg-------------------tctataacttccctga---------------------------------tggtata-------------------------------------------------------cggtagctttgtaataagtgttgaaataggatagtgaatgttctccagatatcttcctcttttacaaagagattttagat------tttttgcattttcctgtatacgctagaatcaacttgtcaatttctacataaaagccta--gttaga-ttatggttggacttgtatcacacattaattt-ggagag-aattgacactgttt-catcattgagccttcaaatgcattaacatagcatatgtct
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1353686 283 -   1400280 tgaactatatctctgtccttatttg-------------------tctataacttccttga---------------------------------tggtata-------------------------------------------------------cggtagctttgtaataagtgttgaaatcagatagtgaatgttctccaaataccttcctcttttacaaagagattttagat------tttttgcattttcctgtatatgctagaatcaacttgtcaatttctacataaaagccta--gataga-ttatggttggacttgtatcacacattaattt-ggagag-aattgacactgttt-gaccattgagccttcaaatgcattaacatagcatatgtgt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13142468 283 -  42888418 tgaactatatctctgtccttatttg-------------------tctataacttccttga---------------------------------tggtgta-------------------------------------------------------cggtagctttgtaataagtgttgaaatcagatagtgagtgttctccaaatatcttcctcttttacaaagagattttagat------tttttgcattttcctgtatatgctagaatcaacttgtcaatttctacataaaagccta--gttaga-ttatggttggacttgtatcacacattaattt-tgagag-aattgacactgttt-catcattgagccttcaaatgcattaacatagcatatgcct
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3027581 388 +   4132165 ggaatcttgtctctgttctcatttaatgttttgggttttttttttcagtttcttttttgttttggccagggctgggtttgaacccgccacctctggcatatggggctggtgccctactcctttgagccataggcgccacccattcatttaacattctgtagctt--taataagtcttgaactcagataatttatgtgcttgtaccatcttctgctttttcaaggatattttagg-------tttgtgtatttccctgtaaatgctagaaacagcttgtcaatttctacataaaagccca--gttaga-ttttgattagacttgtatcatatattaattt-gaggag-aattgatgttttttacaatattgagccttccaacctgttaacatagcatatgtct
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14879996 279 +  74389097 tgaactatttttttatccttatttg-------------------tc----actttcttga---------------------------------tg-tgta-------------------------------------------------------tgacagctttgtaataagtcttgcaaagagatagtatatttcctccaatta--------tttttcaagtctattttagtttttttctttttgtactttcatataagttctagaatcaacttgtcaatttctacataaaaaaatatgattagg-ttttgattggacttgtatcacacatgaattcaggggag-aattgacactttta-catcatgaagtcttccaattgattcacatagcagatcttt
i canFam3.chr11            I 175 I 1879
e micMur3.chr12             60507134 2924 + 108143057 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e manLeu1.NW_012103321v1     3994473   0 -   4237731 C
e chlSab2.chr23             28330197   0 +  82825804 C
e cerAty1.NW_012002512v1     5222517   0 +  26952557 C
e macNem1.NW_012012355v1    16216667   0 +  18395747 C
e macFas5.chr6             124218938   0 + 181584905 C
e rheMac8.chr6             122795257   0 + 180051392 C
e dasNov3.JH567306           2582526 8496 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I
e colAng1.NW_012119644v1      264789   0 -   1175262 C

a score=204608.000000
s hg38.chr5_KI270796v1_alt     42044 61 +    172708 tagctagcttgggccgctacaacaaaatacaataaactgggtggcttataaactat-gaaat
s panTro5.chr5             125152107 61 + 181907262 tagctagcttgggccactacaacaaaatacaataaactgggtggcttataaactat-gaaat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126489059 61 + 183735486 tagctagcttgggccactacaacaaaatacaataaactgggtggcttatgaactat-gaaat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1680554 61 +   8933513 tagctagcttgggccgctacaacaaaatacaataaactgggtggcttataaactat-gaaat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139810565 60 + 163208435 tagctagcttggg-tgctacaacaaaatacaataaactgggtggcttatgaactat-gaaat
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123604642 61 - 204313951 tagctagcttggggttttataacaaactacaataaactgggtggcttataaaccat-gaaat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55656829 61 -  71252344 tagctagcttgggctgttacaacaaactacaataaactgggtggcttataaaccat-gaaat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1353969 61 -   1400280 tagctagcttgggctgttacaacaaactacaataaactgggtggcttataaaccat-gaaat
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13142751 61 -  42888418 tatctagcttgggctgttataacaaactacaatatactgggtggcttataaaccat-gaaat
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3027969 62 +   4132165 taaccagctcagtctgcaataacaaagcaccataaactgggtggcatataaatgacagaaat
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e manLeu1.NW_012103321v1     3994473  0 -   4237731 C
e chlSab2.chr23             28330197  0 +  82825804 C
e cerAty1.NW_012002512v1     5222517  0 +  26952557 C
e macNem1.NW_012012355v1    16216667  0 +  18395747 C
e macFas5.chr6             124218938  0 + 181584905 C
e rheMac8.chr6             122795257  0 + 180051392 C
e dasNov3.JH567306           2582526 8496 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I
e colAng1.NW_012119644v1      264789  0 -   1175262 C

a score=28810.000000
s hg38.chr5_KI270796v1_alt     42105 6 +    172708 ttattt
s panTro5.chr5             125152168 6 + 181907262 ttattt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126489120 6 + 183735486 ttattt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1680615 6 +   8933513 ttattt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139810625 6 + 163208435 ttattt
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123604703 6 - 204313951 ttattt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55656890 6 -  71252344 ttattt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1354030 6 -   1400280 ttattt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13142812 6 -  42888418 ttattt
i aotNan1.NW_018505940v1   C 0 I 7
s otoGar3.GL873679           3028031 6 +   4132165 ttattt
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2591022 6 +   3667625 tcattt
i dasNov3.JH567306         I 8496 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e manLeu1.NW_012103321v1     3994473 0 -   4237731 C
e chlSab2.chr23             28330197 0 +  82825804 C
e cerAty1.NW_012002512v1     5222517 0 +  26952557 C
e macNem1.NW_012012355v1    16216667 0 +  18395747 C
e macFas5.chr6             124218938 0 + 181584905 C
e rheMac8.chr6             122795257 0 + 180051392 C
e mm10.chr18                55487130 1290 +  90702639 I
e colAng1.NW_012119644v1      264789 0 -   1175262 C

a score=22227.000000
s hg38.chr5_KI270796v1_alt     42111 11 +    172708 ctcacaggtct----
s panTro5.chr5             125152174 11 + 181907262 ctcacaggtct----
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126489126 11 + 183735486 ctcacaggtct----
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1680621 10 +   8933513 ctcacaggtc-----
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139810631 11 + 163208435 ctcacaggtct----
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123604709 11 - 204313951 cacacaggtct----
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55656896 11 -  71252344 cacagaggtct----
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1354036 11 -   1400280 cacacaggtct----
i cebCap1.NW_016107829v1   C 0 C 0
s otoGar3.GL873679           3028037 11 +   4132165 ctcctagttct----
i otoGar3.GL873679         C 0 I 914
s dasNov3.JH567306           2591028 15 +   3667625 cgtacaggttgatct
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e manLeu1.NW_012103321v1     3994473  0 -   4237731 C
e chlSab2.chr23             28330197  0 +  82825804 C
e cerAty1.NW_012002512v1     5222517  0 +  26952557 C
e macNem1.NW_012012355v1    16216667  0 +  18395747 C
e macFas5.chr6             124218938  0 + 181584905 C
e rheMac8.chr6             122795257  0 + 180051392 C
e aotNan1.NW_018505940v1    13142818  7 -  42888418 I
e mm10.chr18                55487130 1290 +  90702639 I
e colAng1.NW_012119644v1      264789  0 -   1175262 C

a score=132271.000000
s hg38.chr5_KI270796v1_alt     42122 47 +    172708 gctggcAACAGGTTCTTTCAGCTTTTGTTTATCTAAAAATGCCTATT
s panTro5.chr5             125152185 47 + 181907262 gctggcAACAGGTTCTTTCAGCTTTTGTTTATCTAAAAATGTCTATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126489137 47 + 183735486 gctggcAACAGGTTCTTTCAGCTTTTGTTTATCTAAAAATGTCTATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1680631 47 +   8933513 gctggcaaCAGGTTCTTTCAGCTTTTGTTTATCTAAAAATGTCTATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139810642 47 + 163208435 gctggcAACAGGTTCTTTCAGCTTTTGTTTATCTAAAAATATCTATT
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123604720 47 - 204313951 gctggcAACAGGTTCTTTCCGCTTTTGTTTATCTAAAAATGTctatt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55656907 47 -  71252344 gctagcaaccggttctttcagcttttgtttatctaaaaatgtctatt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1354047 47 -   1400280 gCTGGCAACAGGTTCTTTAAGCTTTTGTTTACCTAAATATGTCTATT
i cebCap1.NW_016107829v1   C 0 I 15
s dasNov3.JH567306           2591043 45 +   3667625 agtggcaacagattcattcaacctttgtttaa--aaaaatgtctaat
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e manLeu1.NW_012103321v1     3994473  0 -   4237731 C
e chlSab2.chr23             28330197  0 +  82825804 C
e cerAty1.NW_012002512v1     5222517  0 +  26952557 C
e macNem1.NW_012012355v1    16216667  0 +  18395747 C
e macFas5.chr6             124218938  0 + 181584905 C
e rheMac8.chr6             122795257  0 + 180051392 C
e otoGar3.GL873679           3028048 914 +   4132165 I
e aotNan1.NW_018505940v1    13142818  7 -  42888418 I
e mm10.chr18                55487130 1290 +  90702639 I
e colAng1.NW_012119644v1      264789  0 -   1175262 C

a score=2548.000000
s hg38.chr5_KI270796v1_alt     42169 1 +    172708 T
s panTro5.chr5             125152232 1 + 181907262 T
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126489184 1 + 183735486 T
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1680678 1 +   8933513 T
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139810689 1 + 163208435 T
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123604767 1 - 204313951 t
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55656954 1 -  71252344 t
i saiBol1.JH378106         C 0 C 0
s dasNov3.JH567306           2591088 1 +   3667625 t
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e manLeu1.NW_012103321v1     3994473 0 -   4237731 C
e chlSab2.chr23             28330197 0 +  82825804 C
e cerAty1.NW_012002512v1     5222517 0 +  26952557 C
e macNem1.NW_012012355v1    16216667 0 +  18395747 C
e macFas5.chr6             124218938 0 + 181584905 C
e rheMac8.chr6             122795257 0 + 180051392 C
e otoGar3.GL873679           3028048 914 +   4132165 I
e aotNan1.NW_018505940v1    13142818 7 -  42888418 I
e cebCap1.NW_016107829v1     1354094 15 -   1400280 I
e mm10.chr18                55487130 1290 +  90702639 I
e colAng1.NW_012119644v1      264789 0 -   1175262 C

a score=90249.000000
s hg38.chr5_KI270796v1_alt     42170 14 +    172708 CATGTTACATTTAA
s panTro5.chr5             125152233 14 + 181907262 CATGTTACATTTAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126489185 14 + 183735486 CATGTTACATTTAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1680679 14 +   8933513 CATGTTACATTTAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139810690 14 + 163208435 CATGTTACATTTCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122795257 14 + 180051392 CATGTTACATTTCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124218938 14 + 181584905 CATGTTACATTTCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16216667 14 +  18395747 CATGTTACATTTCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5222517 14 +  26952557 CATGTTACATTTCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28330197 14 +  82825804 CATGTTACATTTCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3994473 14 -   4237731 CATGTTACATTTCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      264789 14 -   1175262 CATGTTACATTTCG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123604768 14 - 204313951 catgtttcctttct
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55656955 14 -  71252344 catgtttccttttt
i saiBol1.JH378106         C 0 C 0
s dasNov3.JH567306           2591089 13 +   3667625 cacATCACTTTAA-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e otoGar3.GL873679           3028048 914 +   4132165 I
e aotNan1.NW_018505940v1    13142818  7 -  42888418 I
e cebCap1.NW_016107829v1     1354094 15 -   1400280 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=721643.000000
s hg38.chr5_KI270796v1_alt     42184 78 +    172708 AAAAATGTTTTatttggaatactttgtact-------------atttatttgtattttct-cacattagaatgtgagcagtaggaggttgga
s panTro5.chr5             125152247 78 + 181907262 AAAAATGTTTGatttggaatactttgtact-------------atttatttgtattttct-cacattagaatgtgagcagtaggaggttgga
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126489199 78 + 183735486 AAAAATGTTTGatttggaatactttgtact-------------atttatttgtattttct-cacattagaatgtgagcagtaggaggttgga
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1680693 77 +   8933513 AAAAA-GTTTTATTTGGAATAGTTTGTACt-------------atttatttgtattttct-cacattagaatgtgagcagtaggaggttgga
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139810704 78 + 163208435 AAAAAAGTTTCATTTGGAACACTTCGTACt-------------atttatttgtattttct-cacattagaatgtgagcagtaggaggttgga
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122795271 78 + 180051392 AAAAACGTTTTatttggaatactttgtact-------------atttatttgtattttct-cacattagagtgtgagcagtagaaggctgga
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124218952 78 + 181584905 AAAAACGTTTTatttggaatactttgtact-------------atttatttgtattttct-cacattagagtgtgagcagtagaaggctgga
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16216681 79 +  18395747 AAAAACGTTTTatttggaatactttgtact-------------atttatttgtattttctaaacattagagtgtgagcagtagaaggctgga
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5222531 78 +  26952557 AAAAACGTTTTATTTGGAATACTTTGTACt-------------atttatttatattttct-tacattagagtgtgagcagtagaaggctgga
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28330211 78 +  82825804 AAAATCATTTTatttggaatactttgtact-------------atttatttgtactttct-cacgttagagtgtgaacagtagaaggctaga
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3994487 78 -   4237731 AAAAACGTTTTatttggaatactttgtact-------------atttatttgtattttct-cacattagagtgtgagcagtagaaggctgga
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      264803 78 -   1175262 AAAAACGTTTTatttggaatactttgtact-------------atttatttgtattttct-cacattagaatgtgagcagtagaaggctgga
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123604782 78 - 204313951 aaagacattttatttggaatactttatact-------------atttatttgtattttct-cacattagaatgtgagcagtagaaggttgga
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55656969 78 -  71252344 aaaaacgttttatttagaatactttgtACt-------------attcatttgtattttct-cacattagaatgtgagcagtagaaggttgga
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1354109 78 -   1400280 AAAAAAGTTTcatttggaatactttgtact-------------atttatttgtattttct-cacattagaatgtgagcagtagaaggctgga
i cebCap1.NW_016107829v1   I 15 C 0
s dasNov3.JH567306           2591102 91 +   3667625 TAGAAGGttttcttcagagcactttatactatcaacacatttaatttactgacatttttt-catagtagaatatgagcttcatgaggtcaga
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e otoGar3.GL873679           3028048 914 +   4132165 I
e aotNan1.NW_018505940v1    13142818  7 -  42888418 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=1036768.000000
s hg38.chr5_KI270796v1_alt     42262  96 +    172708 agccttatcttgtttac--ttctctattcactttacctggaattgtgactgccatgcagtattggccaatttgtt--------ggaagaaaagaaggaaggaagaa
s panTro5.chr5             125152325  96 + 181907262 agccttatcttgtttac--ttctctattcactttacctggaattgtgactgccatgcagtattggccaatttgtt--------ggaagaaaagaaggaaggaagaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126489277  96 + 183735486 agccttatcttgtttac--ttctctattcactttacctggaattgtgactgccatgcagtattggccaatttgtt--------ggaagaaAAGAAGGAAGGAAGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1680770  96 +   8933513 agccttatcttgtttac--ttctctattcactttacctggaattgtgactgccatgcagtattggccaatttgtt--------ggaagaaaagaaggaaggaagaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139810782  96 + 163208435 agccttatcttgtttac--ttttctattcactttacctggaattgtgactgccatgcagtaTTGGCCGATCTGTT--------GGAAGAAAAGAAGGAAGGAAGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122795349  96 + 180051392 agccttatcttgtttac--ttctctattcactttacctggaattgtgactgccattcagtattggccaatttgtt--------ggaagaaAAgaaagaaggaagaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124219030  96 + 181584905 agccttatcttgtttac--ttctctattcactttacctggaattgtgactgccattcagtaTTGGCCAATTTGTT--------ggaagaaaagaaagaaggaagaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16216760  96 +  18395747 agccttatcttgtttac--ttctctattcactttacctggaattgtgactgccattcagtattggccaatttgtt--------ggaagaaAAgaaagaaggaagaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5222609  96 +  26952557 agccttatcttgtttac--ttctctattcactttacctggaattgtgactgccattcagtattggccaatttgtt--------ggaagaaAAgaaagaaggaagaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28330289  96 +  82825804 agccttatcttgtttac--ttctctattcactttacctggaattgtgactgccattcagtaTTGGCCAATTTGTT--------ggaagaaaagaaagaaggaagaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3994565  96 -   4237731 agccttatcttgtttac--ttctctattcactttacctggaattgtgactgccattcagtattggccaatttgtt--------ggaagaaaagaaagaaggaagaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      264881  96 -   1175262 agccttatcttgtttac--ttctctattcactttacctggaattgtgactgccattcagtattggccaatttgtt--------ggaagaaaagaaagaaggaagaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123604860 106 - 204313951 agccttatcttgtttacttttctctatccactttacctggaattgtgactgccatgtagtaTTGGCCAATTTGTTAgaagtaaagaaggaaggaaggaaggaagaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55657047  96 -  71252344 agccttatcttgtttac--ttctctattcactgaacctggaattgtgactgccatgtagtattggccaatttgtt--------agaaggaaagaaGGaagaaaaaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1354187  96 -   1400280 agccttatattgtttac--ttctctattcactttacctggaattctgactgccatgtagtaTTGGCCAGTTTGTT--------AAAAGGAAAGAAGGAGGGAAGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13142825  96 -  42888418 AGCCTTATCTTGCTTAT--TTCTCTATTTACTTTACCTGAAATTGTGACTGCCATGTAGTATTGGCCGATTTGTT--------Agaaggaaagaaggaaggaagaa
i aotNan1.NW_018505940v1   I 7 C 0
s dasNov3.JH567306           2591193  87 +   3667625 atccttgtcttttttgc--ttttct-tttacttttactgg-atagtgcttggcacatagtGTTGGCCAATGAGTT--------ggaagacagaaaagaa-------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e otoGar3.GL873679           3028048 914 +   4132165 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=2638076.000000
s hg38.chr5_KI270796v1_alt     42358 236 +    172708 aaagaaaaaaagaatgg--aaaaat------------gagtagggag-gaaaagaaggaagaaaggacagaagaagagaagaaggaagaaagaaAGGAAAACGGAAGGCAAGAAAATTAATTGGCATTGC------TATTTATGGCCTCTGTGAAAATGTTTGTGTTTGGCA--GTTTCTTGAAACATCAGTTGTATTCATCTGGTGTTTGAGTGCCACAAATTAGTTTGCTTA-AAATAGCAA-TAA------------AAAATATCTGGCA
s panTro5.chr5             125152421 248 + 181907262 aaagaaaaaaagaatgg--aaaaatgaaagatggagagagtagggag-gaaaagaaggaagaaaggacagaagaagggaagaaggaagaaagaaatgaaaacggaaggcaagaaaAATAATTGGCATTGC------TATTTATGGCCTCTGTGAAAATGTTTGTATTTGGCA--GTTTCTTGAAACATCAGTTGTATTCATCTGGTGTTTGAGTGCCACAAATTAGTTTGCTTA-AAATAGCAA-TAA------------AAAATATCTGGCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126489373 246 + 183735486 AA--GAAAAAATAATGG--AAAAATGAAAGATGGAGAGAGTAGGGAG-GAAAAGAAGGAATAAAGGACAGAAGAAGGGAAGAAGGAAGAAAGAAAGGAAAACGGAAGGCAAGAAAATTAATTGGCATTGC------TATTTATGGCCTCTGTGAAAATGTTTGTATTTGGCA--GTTTCTTGAAACATCAGTTGTATTCATCTGGTGTTTGAGTGCCACAAATTAGTTTGCTTA-AAATAGCAA-TAA------------AAAATATCTGGCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1680866 247 +   8933513 aaagaaaaaaagagtgg--aaaaatgaaagatggagagagtagggag-gaaaagaaggaagaaaggacag-agaagggaagaaggaagaaagaaaggaaaacggaaggcaagaaAATTAATTGGCATTGC------TATTTATGGCCTCTGTGAAAATGTTTGTGTTTGGCA--GTTTCTTGAAACATCAGTTGTATTCATCTGGTGTTTGAGTGCCACAAATTAGTTTGCTTA-AAATAGCAA-TAA------------AAAATATCTGGCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139810878 248 + 163208435 AAA-GAAAAAAGAATGG--AAAAATGAAAGATGGAGAGAGTAGGGGGAGAAAAGAAGGAAGAAAGGACAGAAGAAGGGAAGAAGGAAGAAAGAAAGGAAAAGGGAAAGCAAGAAAATTAACTGGCATTGC------TATTTATGGCCTCTGTGAAAATGTTTGTGTTTGGCA--GTTCCTTGAAACATTAGTTGTATTCATCTGGTGTTTGAGTGTCACAAATTAGTTTGCTTA-AAATAGCAA-TAA------------AAAATACCTGGCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122795445 248 + 180051392 aaagaaaaaaagaatgg--aaaaatgaaagatggagagaggagggaa-gaaaagaaggaagaaaggacagaagaaggaaagaaggaagaaagaaaggaaaagagaaagcaagaaaATTAATTGGCATTGC------TATTTATGGCCTCTGTGAAAATGTTTGTGTTTGGCA--GTATCTTGAAACATCAGTTGTATTCATCTGGTGTTTGAGTGCCACAAATTAGTTTGCTTA-AAATAGCAA-TAA------------AAAATATCTGGCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124219126 248 + 181584905 aaagaaaaaaagaatgg--aaaaatgaaagatggagagaggagggaa-gaaaagaaggaagaaaggacagaagaaggaaagaaggaagaaagaaaggaaaagagaaagcaagaaaATTAATTGGCATTGC------TATTTATGGCCTCTGTGAAAATGTTTGTGTTTGGCA--GTATCTTGAAACATCAGTTGTATTCATCTGGTGTTTGAGTGCCACAAATTAGTTTGCTTA-AAATAGCAA-TAA------------AAAATATCTGGCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16216856 248 +  18395747 aaagaaaaaaagaacgg--aaaaatgaaagatggagagaggagggaa-gaaaagaaggaagaaaggacagaagaaggaaagaaggaagaaagaaaggaaaagagaaagcaagaaaATTAATTGGCATTGC------TATTTATGGCCTCTGTGAAAATGTTTGTGTTTGGCA--GTTTCTTGAAACATCAGTTGTATTCATCTGGTGTTTGAGTGCCACAAGTTAGTTTGCTTA-AAATAGCAA-TAA------------AAAATATCTGGCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5222705 260 +  26952557 aaagaaaaaaagaatgg--aaaaatgaaagatggagagaggagggaa-gaaaagaaggaagaaaggacagaagaaggaaagaaggaagaaagaaaggaaaagagaaagcaagaaaATTAATTGGCATTGC------TATTTATGGCCTCTGTGAAAATGTTTGTGTTTGGCA--GTTTCTTGAAACATCAGTTGTATTCATCTGGTGTTTGAGTGCCACAAATTAGTTTGCtta-aaatagcag-taaaaaatagcagttaaaatagcagGCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28330385 248 +  82825804 aaagaaaaaaagaatgg--aaaaatgaaagatggagagaggagggaa-gaaaagaaggaagaaaggacagaagaaggaaagaaggaagaaagaaaggaaaagagaaagcaagaaaATTAATTGGCATTGC------TATTTATGGCCTCTGTGAAAATGTTTGTGTTTGGCA--GTTTCTTGAAACATCAGTTGTATTCATCTGGTATTTGAGTGCCACAAATTAGTTTGCTTA-AAATAGCAA-TAA------------AAAATATCTGGCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3994661 247 -   4237731 aaagaaaaaaagaatgg--aaaaatgaaagatggagagaggagggaa-gaaaagaaggaagaaaggacagaagaaggaaagaaggaagaaag-aagggaaagagaaagcaagaaaATTAATTGGCATTGC------TATTTATGGCCTCTGTGAAAATGTTTGTGTTTGGCA--GTTTCTTGAAACATCAGCTGTATTCATCTGGTGTTTGAGTGCCACAAATTAGTTTGCTTA-AAATAGCAA-TAA------------AAAATGTCTGGCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      264977 236 -   1175262 ------------aatgg--aaaaatgaaagatggagagaagagggaa-gaaaagaaggaagaaaggacagaaaaagggaagaaggaagaaagaaaggaaaagggaaagcaagaaaATTAATTGGCATTGC------TATTTATGGCCTCTGTGAAAATGTTTGTGTTTGGCA--GTTTCCTGAAACATCAGTTGTATTCATCTGGTGTTTGAGTGCCACAAATTAGTTTGCTTA-AAATAGCAA-TAA------------AAAATATCTGGCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123604966 237 - 204313951 aaaa-------gaatggaaaaaaatgaaa----gagggaagagggag-gaaaagaaggaagaaaggacagaagaagggaagaaagaaaAAG--AATGGAAAGGGAAAGCAAGAAAATTAATTGGCCTTGT------TATTTATGGCCTCTATGAAAATGTTTGTG-TTGGCA--GTTTCTTGAAACATCAGTGGTATTCATCTGGTGTTTGAGTGCCACAAATTAGTTTGCTTA-AAATAGCAGTTAA------------AAAATACCTGGCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55657143 236 -  71252344 aaaa-------gaatgg-aaaaaatgaaa----gagggaagagggaa-gaaaagaaggaagaaaggacagaagaagggaagaaagaaaaag--aatagaaagggaaagcaagaaaATTAATTGGCCTTGC------TATTTATGGCCTCTATGAAAATGTTAGTGTTTGGCA--GTTTCTTGAAACATCAGTTGTATTCATCTGGTGTTTGAGTACCACCAATTAGTTTGCTTA-AAATAGCAG-TAA------------AAAATATCTGGCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1354283 233 -   1400280 AAAA--------AATGG-AAAAAATG--A----GAGGGAAGAGGGAA-GAAAAGAAGGAAGAAAGGACAGAAGAAGGGAAGGAAGGAAAAG--CATGGAAAGGGAAAGCAAGAAAATTAATTGGCCTTGC------TATTTGTGGCCTCTATGAAAATGTTTGTGTTTGGCA--GTTTCTTGAAACATCAGCTGTATTCATCTGGTATTTGAGTGCCACACATTAGTTTGCTTA-AAATAGCAG-TAA------------AAAATATCTGACA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13142921 240 -  42888418 aaaa---aaaagaattg-aaaaagtgaaa----gagggaagagggaa-gaaaagaagaaagaaaggacagaagaagagaagaaagaaaaag--aatggaaagggaaaGCAAGAAAATTAGTTGGCCTTGC------TATTTATGGCCTCTATGAAAATGTTTGTGTTTGGCA--GTTTCTTGAAACACCAGTTGTATTCATCTGGTGTTTGAGTGCCACAAATTAGTTTGCTTA-AAATAGCAA-TAA------------AAAATATCTGGCA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3028962 218 +   4132165 ------------aaagg--aaaaa----agatgaaggga-----gaa-gaaatgaaataaggaaggaccggagaagaaaagcaagcaaaaa-----------aggaaagaaaaATATTAATTGGCACTGC------TCTTTATGGCTTCTATGAAAGTGTTTGTGTTTGACAGTGTTTCTCGAAACATCAGTTGTATTCATCTGGTGTTTGCGTGCCACAAATTAGTTTGTTTA-AAATAGCAA-TAA------------AAAGTATCTGGCA
i otoGar3.GL873679         I 914 C 0
s dasNov3.JH567306           2591280 215 +   3667625 ------------aatga--aagagggaaagctggaaagaagaaagaa-gaatgataggaaagaaggatagaaagatgca------------------------------aagaaagTGAATTGGCACTACTATTAATATTTATGGCCTTGATGAAAATGCTTGGCTTTGACAGTGTTTCTTGAAACATCAGTTATATTCATCTGGTTTTCGAGTGGCACAAATTTGTTTGCTTACAAGTAACAA-CAA------------AAAATATCTGGCA
i dasNov3.JH567306         C 0 I 2
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=12376.000000
s hg38.chr5_KI270796v1_alt     42594 1 +    172708 A
s panTro5.chr5             125152669 1 + 181907262 A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126489619 1 + 183735486 A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1681113 1 +   8933513 A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139811126 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122795693 1 + 180051392 A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124219374 1 + 181584905 A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16217104 1 +  18395747 A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5222965 1 +  26952557 A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28330633 1 +  82825804 A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3994908 1 -   4237731 A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      265213 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123605203 1 - 204313951 A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55657379 1 -  71252344 A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1354516 1 -   1400280 A
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13143161 1 -  42888418 A
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3029180 1 +   4132165 A
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e dasNov3.JH567306           2591495 2 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=1464185.000000
s hg38.chr5_KI270796v1_alt     42595 167 +    172708 TTgctgggcactgtggcttaagtct---atgtaatca-----cattgggagactgaggcgggaggatcccttgagcccaagagctcaagaccagcgtgggccacatggcgaaactccaagtctacaaaaaa-tacaaaaattagctgggcatggtggtg----cctgtagctccagctat
s panTro5.chr5             125152670 167 + 181907262 TTgctgggcactgtggcttaagtct---atgtaatca-----cattgggagactgaggccggaggatcccttgagcccaagagctcaagaccagtgtgggccacatggcgaaactccaagtctacaaaaaa-tacaaaaattagctgggcatggtggtg----cctgtagctccagctac
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126489620 167 + 183735486 TTgctgggcactgtggcttaagtct---atgtaatca-----cattgggagactgaggccggaggatcccttgagcccaagagctcaagaccagcgtgggccacatggcgaaactccaagtctacaaaaaa-tacaaaaattagctgggcatggtggtg----cctgtagctccagctac
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1681114 167 +   8933513 Tggctgggcactgtggcttaagtct---atgtaatca-----cattgggagactgaggcgggaggatcccttgagcccaagagcttaagaccggcgtgggccacatggcgaaactccaagtctacaaaaaa-tacaaaaattagctgggcatggtggtg----cctgtagctccagctac
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139811127 171 + 163208435 Tggctgggcaccgtggcgtaagtgt---atgtaatca-----cattgggaggcggaggcagggggatcccttgagccgaagagctcaagaccagtgtgggccacatggcgaaaccccaagtctacaaaaaa-tacaaaaattagctgggcatggtggtgtgcacctgcagctccagctac
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122795694 171 + 180051392 Tggctaggcaccgtggcttaagtct---atgtgatca-----cattgggaggctgaggctggaggatcccttgagcccaggagctcaagactagcatgggccacatggcaaaaccccatctctacaaaaaa-tacaaaaattagctgggcatggtggtgcatacctgtagttccagctac
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124219375 171 + 181584905 Tggctgggcaccgtggcttaagtct---atgtgatca-----cattgggaggctgaggctggaggatcccttgagcccaggagctcaagactagcatgggccacatggcaaaaccccatctctacaaaaaa-tacaaaaattagctgggcatggtggtgcatacctgtagttccagctac
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16217105 171 +  18395747 Tggctgggcaccgtggcttaagtct---atgtgatca-----cattgggaggctgaggctggaggatcccttgagcccaggagctcaagactagcatgggccacatggcaaaaccccatctctacaaaaaa-tacaaaaattagctggttgtggtggtgcatacctgtagttccagctac
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5222966 171 +  26952557 Tggctgggcaccatggcttaagtct---atgtgatca-----cattgggaggctgaggctggaggatcccttgagcccaggagctcaagactagcatgggccacatggcaaaaccccatctctacaaaaaa-tacaaaaattagctgggcatggtggtgcatacctgtagttccagctac
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28330634 171 +  82825804 Tggctgggcaccgtggcttaagtct---atgtgatca-----cattgggaggctgaggctggaggatcccttgagcccaggagctcaagactagcatgggccacatggcaaaaccccatctctacaaaaaa-tacaaaaattagctgggcatggtggtgcatacctgtagttccagctac
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3994909 171 -   4237731 Tggctgggcaccgtggcttaagtct---atgtgatca-----cattgggaggctgaggctggaggatcccttgagcccaggagctcaagactagcatgggccacatggcaaaaccccatctctacaaaaag-tataaaaattagctgggcatggtggtgcatacctgtagttccagctac
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      265214 171 -   1175262 Tggccgggccccgtggcttaagtct---atgtgatga-----cattgggaggctgaggctggaggatcccttgaacccaggagctcaagactagcatgggccacatggcgaaacctcatctctacaaaaaa-tacaaaaattagctgggcatggtggtgcacacctgtagttccagctac
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123605204 180 - 204313951 Aggctgggcactgtggcttaagcctgtaatcctcccaatcttaattggaaggctgaggagggaggatcccttgagcccaggagttcaagagcaatgtgggcaacatggtgaaaatctgtatctacaaaaaattacaaaaattagctgtgtgtggtgatatgcacctgtacttccagctac
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55657380 165 -  71252344 Tggctgggcactgtggctcaagcctgtaatcttagca-----cattgggaggctgaggagggaggatcccttgagcccaggagttcaaaagcaatgtgggcaacatggtgaacatctgtctc----------tacaaaaattagctgcatgtggtgatacgcacctgtacttccagctac
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1354517 175 -   1400280 Cggctgggcactgtggcttaagcctgtaatcttagcc-----cattgggaggctgaagagggaggatcccttgagcctaggagttcaagagcaatgtgggcaacatggtgaaaatttatctctacaaaaaattacaaaaattagccacatgtggtgatatgcacctgtacttccagctgc
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13143162 175 -  42888418 CGCctgggcactgtggcttaagcctgtaatcttagca-----cattgggtggctgaggagggaggatcccttgagcccaggagttcaagagcaatgtgggcaacatggtgaaaatctgtctctacaaaaaattacaaaaattagctgcatgtggtgatatgcacctgtacttccagctac
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e otoGar3.GL873679           3029181   0 +   4132165 C
e dasNov3.JH567306           2591495   2 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=995992.000000
s hg38.chr5_KI270796v1_alt     42762 146 +    172708 tagggaggctgaggtgggagaatcacttgagcccaggagatggaggttgcagtgagcagagatggcgcactacactccagcctgggtacaaagcaag-acctgtctt------aaaa-------------aaaaaaT---TATAT--------------ATATATGTATACACATATGGCAAA
s panTro5.chr5             125152837 147 + 181907262 tagggaggctgaggtgggagaatcacttgagcccaggagatggaggttgcagtgagctgagatggcgcaccacactccagcctgggtacaaagcaag-acctgtctt-----aaaaa-------------aaaaaaT---TATAT--------------ATATATGTATACACATATGGCAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126489787 145 + 183735486 tagggaggctgaggtgggagaatcacttgagcccaggagatggaggttgcagtgagctgagatggcgcaccacactccagcctgggtacaaagcaag-acctgtctt-------aaa-------------aaaaaaT---TATAT--------------ATATATGTATACACATATGGCAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1681281 151 +   8933513 tagggaggctgaggt-ggagaatcacttgagcccaggagatggaggttgcagtgagctgagacggctcactacactccagcctgggtacaaagaaag-acctgtcttaaaaaaaaaa-------------aaaaaaT---TATAT--------------ATGTATGTATACACATATGGCAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139811298 151 + 163208435 tagggaggctgaggtgggagaatcacttgagcccaggaggtggaggttgcagtgagctgagatggcacactacactccagcctgagtacaaagcaag-acctgtctt----taaaaa-------------aaaaaaTACATGTAT--------------ATGTGTATATATACATATGGCAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122795865 174 + 180051392 tagggaggctgaggtgggagaatcacttgagctcaggagggggaggttgcagtgagctgagatggtgcactacactccagcttgggtacagagcaag-ccctgtctt------aaaaaaaaaaaaaaaaaaaaatata--tacatatatatatatatatatatatatatatatatatGGCAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124219546 174 + 181584905 tagggaggctgaggtgggagaatcacttgagctcaggagggggaggttgcagtgagctgagatggtgcactacactccagcttgggtacagagcaag-ccctgtctt------aaaaaaaaaaaaaaaaaaaaatata--tatatatatatatatatatatatatatatatatatatGGCAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16217276 134 +  18395747 tagggaggctgaggtgggagaatcacttgagctcaggagggggaggttgcagtgagctgagatggtgcactacactccagcttgggtacagagcaag-ccctgtctt------aaaa------------------------------------------TTATATATATATATATGTGGCAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5223137 157 +  26952557 tagggaggctgaggtgggagaatcacttgagctcaggagggggaggttgcagtgagctgagacggtgcactacactccagcttgggtacagagcaag-ccctgtctt------aaaa-------------aaaatatat-tacatatatatata-----aaaaatatatatatatatGGCAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28330805 147 +  82825804 tagggaggctgaggtgggacaatcacttgagctcaggagagggaggttgcagtgagctgagatggtgcactacactccagcttgggtacagagcaag-acctgtctt-----aaaaa-------------aaaatata--tttt---------------ttatatatatatatatatGGCAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3995080 146 -   4237731 tagggaggctgaggtgggagaatcacttgagctcaggatggggaggttgcagtgagctgagatggtgcactacactccagcttgggtacagagcaag-ccctgtctt------aaaa-------------aatatatg--tatt---------------ttatatatatatatatatGGCAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      265385 139 -   1175262 tagggaggctgaggtgggagaatcacttgagctcaggagatggaggttgcagtgagctgagatggtgcactatactccagcctgggtacagagcaag-acctgtctt------aaaa-------------aaaaaata------------------------tatatatatatatatGGCAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123605384 127 - 204313951 tagggagactgaggtgggagaatccctttggcccaggaggtgaaggttgcagtgagctgagatggcgcactgcactctagcctgggtacagaataagaccctgtctt------aaaa-----------aaaaaa---------------------------------------aTATGGCAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55657545 127 -  71252344 tagggagattgaagtgggagaatccctttggcccaggaggcagaggttgcagtgagctgagatggtacactacactccagcatgggtacagagcaaggccctgtctt------aaaa-----------ataaaa---------------------------------------aTCTGGCAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1354692 125 -   1400280 tagggagactgaggtgggagaatccctttggcccaggaggtggaggttgcagtgagctgagatggcacactacactccagcctgggcacagagcaaggccctgtctt------aaaa-------------aaaa---------------------------------------aTCTGGCAAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13143337 125 -  42888418 tagggagactgaggtgggagaatctctttggcccaggaggtggaggttgcagtgagctgagatggcacactacactccatcctgggtacagagcaaggccctgtctt------aaaa-------------aaaa---------------------------------------aaCTGGCAAA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3029181   1 +   4132165 --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e dasNov3.JH567306           2591495   2 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=936717.000000
s hg38.chr5_KI270796v1_alt     42908 84 +    172708 AAAGAGGTAAAGGAAAATGCCAAA-TATATATAAGCTTTTA-AAATTTATAATTCATTTTAAACTACA-AAAAGACAatttatgtca
s panTro5.chr5             125152984 84 + 181907262 AAAGAGGTAAAGGAAAATGCCAAA-TATATATAAGCCTTTA-GAATTTATAATTCATTTTAAACTACA-AAATGACAatttatgtca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126489932 84 + 183735486 AAAGAGGTAAAGGAAAATGCCAAA-TACATATAAGTCTTTA-AAATTTATAATTCATTTTAAACTACA-AAATGACAatttatgtca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1681432 84 +   8933513 AAAGAGGTAAAGGAAAATGCCAAA-TATATATAAGCCTTTA-AAATTTATAATTCATTTTAAACTACA-AAATGACAatttatgtca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139811449 84 + 163208435 AAAGAGGTAAAGGGAAATGCCAAA-TACATATAACCCTTTA-AAATTAATAATTCATTTTAAACTACA-AAATGACAatttatgtca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122796039 84 + 180051392 AAGAAGGTAAAGGAAAATGCCAAA-TACATATAAGCCTTTA-AAATTTATAAAACATTTTAAACTACA-AAATGACAatttatgtca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124219720 84 + 181584905 AAGAAGGTAAAGGAAAATGCCAAA-TACATATAAGCCTTTA-AAATTTATAAAACATTTTAAACTACA-AAATGACAatttatgtca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16217410 84 +  18395747 AAGAAGGTAAAGGAAAATGCCAAA-TACATATAAGCCTTTA-AAATTTATAAAACATTTTAAACTACA-AAATGACAatttatgtca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5223294 84 +  26952557 AAGGAGGTAAAGGAAAATGCCAAA-TACATGTAAGCCTTTA-AAATTTATAAAACATTTTAAACTACA-AAATGACAatttatgtca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28330952 84 +  82825804 AAGGAGGTAAAGGAAAATGCCAAA-TACATATAAGCCTTTA-AAATTTATAAAACATTTTAAACTATA-AAATGACAatttatgtca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3995226 84 -   4237731 AAGGAGGTAAAGGAAAATGCCAAA-TACATATAAGCCTTTA-AAATTTATAAAACATTTTAAACTACA-AAATGACAatttatatca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      265524 84 -   1175262 AAAGAGGTAAACAAAAATGCCAAA-TACATATAAGCCTTTA-CAATTTATAAAACATTTTAAACTACA-AAATGACAatttatgtca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123605511 84 - 204313951 AA-GAGGTAAAGGAAAATGCCAAA-TGTATATAAGCtttta-aaatttataatatattttaaaCTACATAAATGACAatttatgtca
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55657672 84 -  71252344 AA-GAGGTAAAGGAAAATGCCAAA-TACATATAAGCTTTTA-AAATTTATAATACATTTTAAAGTACAAAAATGACAatttatgtca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1354817 84 -   1400280 AA-GAGGTAAAGGAAAATGTCAAA-TGTATATAAGCTTTTA-AAATTTATAATACATTTTAAAGCACAACAATGACAatttatgtca
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13143462 84 -  42888418 AA-GAGGTAAAGGAAAATGCCAAA-TGTATATAAGCTTTTA-AAATTTATAATATATTTTAAAGTACAAAAATGACAatttatgtca
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3029182 85 +   4132165 AAGGAGGTAAAGAAAAATGCTAGT-TATATACAAGCATCCAGAAATTTATAACACATTTTAAAGCACA-AAATAACAATTTATAtta
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2591497 86 +   3667625 AAGGAAGTAAAGGAAAATGCCAAATTATATATAGGCCTCCaaaaatttataatacattttaaaatcca-aaataatattttttttta
i dasNov3.JH567306         I 2 I 2783
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=571748.000000
s hg38.chr5_KI270796v1_alt     42992 55 +    172708 actgatctgtgacaaaggtgccaaggtcacataatggagaaag----caatctcaaata
s panTro5.chr5             125153068 55 + 181907262 actgatctgtgaaaaaggtgccaaggtcacataatggagaaag----caatctcaaata
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490016 55 + 183735486 actgatctgtgacaaaggtgccaaggtcacataatggagaaag----caatctcaaata
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1681516 55 +   8933513 actgatctgtgacaaaggtgccaaggtcacataatggagaaag----caatctcaaata
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139811533 55 + 163208435 actgatctatgacaaagttgccaaggtcacataatggagaaag----caatctcaaata
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122796123 55 + 180051392 actgatctgtgacaaaggtgccaaggtcacatgatggagaaag----caatttcaatta
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124219804 55 + 181584905 actgatctgtgacaaaggtgccaaggtcacatgatggagaaag----caatttcaatta
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16217494 55 +  18395747 actgatctgtgacaaaggtgccaaggtcacatgatggagaaag----caatttcaatta
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5223378 55 +  26952557 actgatctgtgacaaaggtgccaaggtcacatgatggagaaag----caatttcaatta
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28331036 55 +  82825804 actgatctgtgacaaaggtgccaaggtcacatgatggagaaag----caatttcagtta
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3995310 55 -   4237731 actgatctgtggcaaaggtgccaaggtcacatgatgcagaaag----caatttcaatta
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      265608 55 -   1175262 actgatctgcgacaaaggtgccaaggtcacatgatggagaaag----caatatcaaata
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123605595 55 - 204313951 actgatctttgacaaaggtgccaaggtcacataataaagcaag----caatatcaaata
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55657756 55 -  71252344 actgatctttgacaaaggtgtcaaggtcacataataaagcaag----caatatcaaata
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1354901 55 -   1400280 actgatctttgacaaaggtgccaaggtcacataataaagcaag----CAATATCAAATA
i cebCap1.NW_016107829v1   C 0 I 849
s aotNan1.NW_018505940v1    13143546 55 -  42888418 accgatctttgacaaaggtgccaaggtcacataataaagcaag----caatatcaaata
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3029267 59 +   4132165 actgctctttgacaacggtgccaggatcacacaacagggaaagggaaggatcttcaata
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e dasNov3.JH567306           2591583 2783 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=9090.000000
s hg38.chr5_KI270796v1_alt     43047 1 +    172708 a
s panTro5.chr5             125153123 1 + 181907262 a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490071 1 + 183735486 a
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1681571 1 +   8933513 a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139811588 1 + 163208435 a
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122796178 1 + 180051392 a
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124219859 1 + 181584905 a
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16217549 1 +  18395747 g
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5223433 1 +  26952557 a
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28331091 1 +  82825804 a
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3995365 1 -   4237731 a
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      265663 1 -   1175262 a
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123605650 1 - 204313951 a
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55657811 1 -  71252344 a
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13143601 1 -  42888418 a
i aotNan1.NW_018505940v1   C 0 I 797
s otoGar3.GL873679           3029326 1 +   4132165 a
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e cebCap1.NW_016107829v1     1354956 849 -   1400280 I
e dasNov3.JH567306           2591583 2783 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=24737.000000
s hg38.chr5_KI270796v1_alt     43048 3 +    172708 gtg
s panTro5.chr5             125153124 3 + 181907262 gtg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490072 3 + 183735486 gtg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1681572 3 +   8933513 gtg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139811589 3 + 163208435 atg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122796179 3 + 180051392 gtg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124219860 3 + 181584905 gtg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16217550 3 +  18395747 gtg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5223434 3 +  26952557 gtg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28331092 3 +  82825804 gtg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3995366 3 -   4237731 gtg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      265664 3 -   1175262 gtg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123605651 3 - 204313951 atg
i calJac3.chr2             C 0 I 799
s saiBol1.JH378106          55657812 3 -  71252344 atg
i saiBol1.JH378106         C 0 I 840
s otoGar3.GL873679           3029327 3 +   4132165 atg
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e aotNan1.NW_018505940v1    13143602 797 -  42888418 I
e cebCap1.NW_016107829v1     1354956 849 -   1400280 I
e dasNov3.JH567306           2591583 2783 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I

a score=1196680.000000
s hg38.chr5_KI270796v1_alt     43051 200 +    172708 gtgccaggaaaatggaatatccacatgtagaaaaatgaaat--tgggccttatctcaccccatatacaaaaatcagcttaaaaatgggttaaagacttaaacacaagacctg-aaagtataaaac--gactggaagaaaacatagagggaaagcttctttgacattggtcttggcaaaatattttttaaaatatgacctgaaaat-
s panTro5.chr5             125153127 198 + 181907262 gtgccagaaaaatggaatatccacatgtagaaaaatgaaat--tgggccttatctcaccccatatacaaaaatcagcttaaaaatgggttaaagacttaaacacaagacctg-aaagtataaaac--gactggaagaaaacatagaggaaaagcttc-ttgacattggtcttggcaaaatattttttaaactatgacctgaaaa--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490075 198 + 183735486 gtgccaggaaaatggaatatccacatgtagaaaaatgaaat--tgggccttatctcaccccatatacaaaaatcagcttaaaaatgggttaaagacttaaacacaagacctg-aaagtataaaac--gactggaagaaaacatagaggaaaagcttc-ttgacattggtcttggcaaaatattttttaaactatgacctgaaaa--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1681575 198 +   8933513 gtgccaggaaaatggaatatccacatgtagaaaaatgaaat--agggccttatctcaccccatatacaaaaatcagcttaaaaatgggttaaagccttaaacacaagacctg-aaagtataaaac--gactggaagaaaacatagaggaaaagcttc-ttgacattggtcttggcaaaatattttttaaaatatgacctgaaaa--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139811592 198 + 163208435 gtgccaggaaaatggaatatccacatgtagaaaaatgaaat--tgggccttatctcaccccatatacaaaaatcagcttaaaaatgggttaaagacttaaacacaagacctg-aaactataaaat--gactggaagaaaacatagaggaaaagcttc-ttgacattggtcttggcaaaatatttttaaaaatatgaccagaaaa--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122796182 201 + 180051392 gtgccaggaaaatggaatatccacgtgcagaaaaatgaaat--tgggccttatctcactccatatacaaaaatcagcttaaaaatgggttaaagacttaaacacaagacctgtaaactataaaacatgactggaagaaaacacaggggaaatgcttc-ttgatattggtcttggcaaaatattttttaaaatacgacctgaaaa--
i rheMac8.chr6             C 0 I 12
s macFas5.chr6             124219863 201 + 181584905 gtgccaggaaaatggaatatccacgtgcagaaaaatgaaat--tgggccttatctcactccatatacaaaaatcagcttaaaaatgggttaaagacttaaacacaagacctgtaaactataaaacatgactggaagaaaacacaggggaaatgcttc-ttgatattggtcttggcaaaatattttttaaaatacgacctgaaaa--
i macFas5.chr6             C 0 I 12
s macNem1.NW_012012355v1    16217553 201 +  18395747 gtgccaggaaaatggaatatccacatgcagaaaaatgaaat--tgggccttatctcactccgtatacaaaaatcagcttaaaaatgggttaaagacttaaacacaagacctgtaaactataaaacatgactggaagaaaacacaggggaaatgcttc-ttgatattggtcttggcaaaatattttttaaaatacgacctgaaaa--
i macNem1.NW_012012355v1   C 0 I 12
s cerAty1.NW_012002512v1     5223437 201 +  26952557 gtgacaggaaaatggaatatccacgtgcagaaaaatgaaat--tgggccttatctcactctatatacaaaaatcagcttaaaaatgggttaaagacttaaacacaagacctgtaaactataaaacatgactggaagaaaacacaggggaaatgcttc-ttgatattggtcttggcaaaatattttttaaaatatgacctgaaaa--
i cerAty1.NW_012002512v1   C 0 I 12
s chlSab2.chr23             28331095 201 +  82825804 gtgccaggaaaatggaatatccatgtgcagaaaaatgaaat--tgggccttatctcaccccatatacaaaaatcagcttaaaaatgggttaaagacttaaacacaagacgtgtaaactataaaacatgactggaagaaaacacaggggaaatgcttc-ttgatattggtcttggcaaaatatttttaaaaatatgacctgaaaa--
i chlSab2.chr23            C 0 I 12
s manLeu1.NW_012103321v1     3995369 201 -   4237731 gtgccaggaaaatggaatatccatgtgcagaaaaatgaaat--tgggccttatctcactccatatacaaaaatcagcttaaaaatgggttaaagacttaaacacaagacctgtaaactataaaacatgactggaagaaaacacaggggaaatgcttc-ttgatattggtcttggcaaaatattttttaaaatacgacctgaaaa--
i manLeu1.NW_012103321v1   C 0 I 12
s colAng1.NW_012119644v1      265667 201 -   1175262 gtgccaggaaaatggaatgtccacttgcagaaaaatgaaat--tggaccttatctcaccccatatacaaaaatcagcttaaaaatgagttaaagacttaaacacgagacctgtaaactataaaacatgactggaagaaaacacaggggaaatgcttc-ttgatactggtcttggcaaaatacttttaaaaatatgacctgaaaa--
i colAng1.NW_012119644v1   C 0 I 30
s otoGar3.GL873679           3029330 193 +   4132165 gtgctgggaaaactaaatatccacacatagaaaaatgaaatacagatttttgtcttaccctacataaaaaa---aaattcaaaatgca-taaaatcataaacagaagacccc-agactgtaaaac--tactagaagaaaac--aggggaaaagcttc-ttgacattggtcttggcaaa--gatttctaggatatggccaaaaag-c
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e aotNan1.NW_018505940v1    13143602 797 -  42888418 I
e cebCap1.NW_016107829v1     1354956 849 -   1400280 I
e dasNov3.JH567306           2591583 2783 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I
e saiBol1.JH378106          55657815 840 -  71252344 I
e calJac3.chr2             123605654 799 - 204313951 I

a score=68298.000000
s hg38.chr5_KI270796v1_alt     43251 22 +    172708 atg--------------accta-aatagacaagtgag
s panTro5.chr5             125153325 21 + 181907262 gtg---------------caaa-aatagacaagtgag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490273 21 + 183735486 gtg---------------caaa-aatagacaagtgag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1681773 34 +   8933513 gtgca--gacaacaaaagcaaa-aatagacaagtgag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139811790 34 + 163208435 gtgca--gacaacaaaagcaaa-aatagacaagtgag
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122796395 22 + 180051392 --------------aaagcaaa-aataggcaagtaag
i rheMac8.chr6             I 12 C 0
s macFas5.chr6             124220076 22 + 181584905 --------------aaagcaaa-aataggcaagtaag
i macFas5.chr6             I 12 C 0
s macNem1.NW_012012355v1    16217766 22 +  18395747 --------------aaagcaaa-aataggcaagtaag
i macNem1.NW_012012355v1   I 12 C 0
s cerAty1.NW_012002512v1     5223650 22 +  26952557 --------------aaagcaaa-aataggcaagtaat
i cerAty1.NW_012002512v1   I 12 C 0
s chlSab2.chr23             28331308 22 +  82825804 --------------aaagcaaa-aataggcaagtaag
i chlSab2.chr23            I 12 C 0
s manLeu1.NW_012103321v1     3995582 22 -   4237731 --------------aaagcaaa-aataggcaagtaag
i manLeu1.NW_012103321v1   I 12 C 0
s otoGar3.GL873679           3029523 33 +   4132165 ----accgtcaacaaaagcaaacaatagacagatggg
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e aotNan1.NW_018505940v1    13143602 797 -  42888418 I
e cebCap1.NW_016107829v1     1354956 849 -   1400280 I
e dasNov3.JH567306           2591583 2783 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I
e saiBol1.JH378106          55657815 840 -  71252344 I
e calJac3.chr2             123605654 799 - 204313951 I
e colAng1.NW_012119644v1      265868 30 -   1175262 I

a score=1699817.000000
s hg38.chr5_KI270796v1_alt     43273 300 +    172708 ---ataacatcaaacta-aaaagctt---------gacagaaacaatcaacagagtcaagagacaacctacagaatgggagaaaata-ttgcaaatcatacatctgatttggagttaagatccgaa-ata---tatatgg---------aacttaatat-aaaaa-aa----------attaggaaatggtcaaataacctgcacagacatttctcaaaggaag--acacaaatggctagcaggtaatgg--aaaaaaaatgcttaacatcactaatcaaaagagaaacacaagttacaaccacaatgaaatattacctcacacctg-taagaatggcttttg----------t
s panTro5.chr5             125153346 306 + 181907262 ---ataacatcaaacta-aaaagctt---------gatggaaacaatcaacagagtgaagagacaacctacagaatgggagaaaata-ttgcaaatcatacatctgatttggagttaagatccgaa-ata---tatatggaactt----aacttaatataaaaaa-aa----------attaggaaatggtcaaataacctgcacagacatttctcaaaggaag--acacaaatggctagcaggtaatgg--aaaaaaaatgcttaacatcactaatcaaaagagaaacacaagttacaaccacagtgaaatattacctcacacctg-taagaatggcttttg----------t
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490294 305 + 183735486 ---ataacatcaaacta-aaaagctt---------gatggaaacaatcaacagagtgaagagacaacctacagaatgggagaaaata-ttgcaaatcatacatctgatttggagttaagatccgaa-ata---tatatggaactt----aacttaatat-aaaaa-aa----------attaggaaatggtcaaataacctgcacagacatttctcaaaggaag--acacaaatggctagcaggtaatgg--aaaaaaaatgcttaacatcactaatcaaaagagaaacacaagttacaaccacagtgaaatattacctcacacctg-taagaatggcttttg----------t
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1681807 305 +   8933513 ---ataacatcaaacta-aaaagctt---------gatggaaacaatcaacagagtgaagagacaacctacagaatgggagaaaata-ttgcaaatcatacatctgatttggagttaagatccgaa-ata---tatatggaactt----aacttaatat-taaaa-aa----------attaggaaatggtcagataacctgcacagacatttctcaaaggaag--acacaaatggctagcaggtaatgg--gaaaaaaatgcttaacatcactaatcaaaagagaaacacaagttacaaccacaatgaaatattacctcacacctg-taagaatggcttttg----------t
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139811824 301 + 163208435 ---ataacatcgaacta-aaaagctt---------gatggaaataatcaagagagtgaagatacaacctacagaatgggagaaaata-ttgcaaatcatacatctgatttggagttaagatccaaa-ata---tatatgg---------aacttaatat--aaaa-aa----------attaggaaatggtcaaataacctgcacagacatttctcaaaagaag--acccaaatggctagcaggtaatggaaaaaaaaaatgcttaacatcactaatcaaaagagaaacacaagttacaaccacaatgaaatattacctcacacctg-taagaatggcttttg----------t
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122796417 317 + 180051392 ---ataacatcaaactt-aaaaggtt---------gctggaaacaatcaac--agtgaagagacaacctacaaaatgggataagatatttgcaaatcatacatctgatttggggttaagatccaaa-ata---tatatggaacttaaggaacttaagattaaaaa-aa----------attaagaaatggtcaaagaaccttctcagacatttctcaaaagaag--acacaaatggctagcaggtaatg---aaaaaaaatgcttaacatcactaatcaaaagagaaacacaagttaaaaccacaatgaaatattagctcacacctg-taagaatggctTTTGTGGCTTTTG-T
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124220098 317 + 181584905 ---ataacatcaaactt-aaaaggtt---------gctggaaacaatcaac--agtgaagagacaacctacaaaatgggataagatatttgcaaatcatacatctgatttggggttaagatccaaa-ata---tatatggaacttaaggaacttaagattaaaaa-aa----------attaagaaatggtcaaagaaccttctcagacatttctcaaaagaag--acacaaatggctagcaggtaatg---aaaaaaaatgcttaacatcactaatcaaaagagaaacacaagttaaaaccacaatgaaatattagctcacacctg-taagaatggctTTTGTGGCTTTTG-T
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16217788 317 +  18395747 ---ataacatcaaactt-aaaaggtt---------gctggaaacaatcaac--agtgaagagacaacctacaaaatgggataagatatttgcaaatcatacatctgatttggggttaagatccaaa-ata---tatatggaacttaaggaacttaagattaaaaa-aa----------attaagaaatggtcaaagaaccttctcagacatttctcaaaagaag--acacaaatggctagcaggtaatg---aaaaaaaatgcttaacatcactaatcaaaagagaaacacaagttaaaaccacaatgaaatattagctcacacctg-taagaatggctTTTGTGGCTTTTG-T
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5223672 320 +  26952557 ---ataacatcaaactt-aaaaggtt---------gatggaaacaatcaac--agtgaagagacaacctacaaaatgggataagatatttgcaaatcatacatctgatttggggttaagatccaaa-ata---tatatggaacttaaagaacttaagattaaaaa-aa----------attaagaaatggtcaaagaacctcctcagacatttctcaaaagaag--acacaaatggctagcaggtaatgaaaaaaaaaaatgcttaacatcactaatcaaaagagaaacacaagttaaaaccacaatgaaatattagctcacacctg-taagaatggctTTTGTAGCTTTTG-T
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28331330 307 +  82825804 ---ataacatcaaactt-aaaaggtt---------gatggaaacaatcaac--agtgaagagacaacctacaaaatgggataagatatttgcaaatcatacatctgatttggggttaagatccaaa-ata---tatatggaac---------ttaagattaaaaa-aa----------attaagaaatggtcaaagaaccttctcagacatttctcaaaagaag--acacaaatggctagcaggtaatg----aaaaaaatgcttaacatcactaatcaaaagagaaacacaagttaaaaccacaatgaaatattagctcacacctg-taagaatggctTTTGTGGCTTTTG-T
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3995604 319 -   4237731 ---ataacatcaaactt-aaaaggtt---------gctggaaacaatcaac--agtgaagagacaacctacaaaatgggataagatatttgcaaatcatacatctgatttggggttgagatccaaa-ata---tatatggaacttaaagaagttaagattaaaaa-aa----------attaagaaatggtcaaagaaccttctcagacatttctcaaaagaag--acacaaatggctagcaggtaatg-aaaaaaaaaatgcttaacatcactaatcaaaagagaaacacaagttaaaaccacaatgaaatattagctcacacctg-taagaatggctTTTGTGGCTTTTG-T
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      265898 320 -   1175262 ---ataacatcaaacttaaaaaggtt---------gatggaaacaatcaac--agtgaagagacaacctgtaaaatgggataaaatatttgcaagtcatacatctgatttggcgttaagatccaaa-ata---tatatggaacttaaagaacttaagataaaaaacaa----------attaagaaatggtcaaagaaccttctcagacatttctcaaaagaag--acacaaatggctagcaggtgatg----aaaaaaatgcttaacatcactaatcaaaagagaaacacaagttaaacccacaatgaaatattagctcacacctgttaagaatggctTTTGTGGCTTTTGTT
i colAng1.NW_012119644v1   I 30 C 0
s otoGar3.GL873679           3029556 325 +   4132165 cctataaga---aacta-aaatgtttctgtacagaaaaggaaacaatcagtagagggaagagaaaaccaacaggatggataaaaatatttggaatccatatatcttaggaggtataaatatccaaatatattctataaagaacacaaacaactcaataacaagaa-aacaaataatccaattaaaaatgtgcaaaggatccaattagacacttctcaaaaaaagacacacaaatagctaatggataatg-----aaaaaatgctcagtgtcactaatcataagagaaatgaaaattaaaaccacaataagat--------acactta-tcagaatggtttctgt----------
i otoGar3.GL873679         C 0 I 4174
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e aotNan1.NW_018505940v1    13143602 797 -  42888418 I
e cebCap1.NW_016107829v1     1354956 849 -   1400280 I
e dasNov3.JH567306           2591583 2783 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I
e saiBol1.JH378106          55657815 840 -  71252344 I
e calJac3.chr2             123605654 799 - 204313951 I

a score=16687.000000
s hg38.chr5_KI270796v1_alt     43573 3 +    172708 aaa
s panTro5.chr5             125153652 3 + 181907262 aaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490599 3 + 183735486 aaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1682112 2 +   8933513 -aa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139812125 3 + 163208435 aaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122796734 3 + 180051392 AAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124220415 3 + 181584905 AAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16218105 3 +  18395747 AAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5223992 3 +  26952557 AAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28331637 3 +  82825804 AAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3995923 3 -   4237731 AAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      266218 3 -   1175262 AAA
i colAng1.NW_012119644v1   C 0 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e canFam3.chr11             14880275 1879 +  74389097 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e otoGar3.GL873679           3029881 4174 +   4132165 I
e aotNan1.NW_018505940v1    13143602 797 -  42888418 I
e cebCap1.NW_016107829v1     1354956 849 -   1400280 I
e dasNov3.JH567306           2591583 2783 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I
e saiBol1.JH378106          55657815 840 -  71252344 I
e calJac3.chr2             123605654 799 - 204313951 I

a score=20898.000000
s hg38.chr5_KI270796v1_alt     43576 4 +    172708 aGTG
s panTro5.chr5             125153655 4 + 181907262 aGCG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490602 4 + 183735486 aGCG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1682114 4 +   8933513 aGCG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139812128 4 + 163208435 aGCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122796737 4 + 180051392 AGCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124220418 4 + 181584905 AGCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16218108 4 +  18395747 AGCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5223995 4 +  26952557 AGCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28331640 4 +  82825804 AGCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3995926 4 -   4237731 AGCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      266221 4 -   1175262 AGCT
i colAng1.NW_012119644v1   C 0 C 0
s canFam3.chr11             14882154 4 +  74389097 AGCT
i canFam3.chr11            I 1879 C 0
e micMur3.chr12             60507134 2924 + 108143057 I
e proCoq1.NW_012155062v1     3546363 2793 +  11683526 I
e otoGar3.GL873679           3029881 4174 +   4132165 I
e aotNan1.NW_018505940v1    13143602 797 -  42888418 I
e cebCap1.NW_016107829v1     1354956 849 -   1400280 I
e dasNov3.JH567306           2591583 2783 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I
e saiBol1.JH378106          55657815 840 -  71252344 I
e calJac3.chr2             123605654 799 - 204313951 I

a score=20055.000000
s hg38.chr5_KI270796v1_alt     43580 2 +    172708 TG
s panTro5.chr5             125153659 2 + 181907262 TG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490606 2 + 183735486 TG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1682118 2 +   8933513 TG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139812132 2 + 163208435 TG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122796741 2 + 180051392 TG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124220422 2 + 181584905 TG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16218112 2 +  18395747 TG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5223999 2 +  26952557 TG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28331644 2 +  82825804 TG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3995930 2 -   4237731 TG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      266225 2 -   1175262 TG
i colAng1.NW_012119644v1   C 0 C 0
s micMur3.chr12             60510058 2 + 108143057 tg
i micMur3.chr12            I 2924 C 0
s proCoq1.NW_012155062v1     3549156 2 +  11683526 TG
i proCoq1.NW_012155062v1   I 2793 C 0
s canFam3.chr11             14882158 2 +  74389097 TG
i canFam3.chr11            C 0 C 0
e otoGar3.GL873679           3029881 4174 +   4132165 I
e aotNan1.NW_018505940v1    13143602 797 -  42888418 I
e cebCap1.NW_016107829v1     1354956 849 -   1400280 I
e dasNov3.JH567306           2591583 2783 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I
e saiBol1.JH378106          55657815 840 -  71252344 I
e calJac3.chr2             123605654 799 - 204313951 I

a score=460948.000000
s hg38.chr5_KI270796v1_alt     43582 53 +    172708 AAATACAATTTCCTTCTTTTCTCTCCAATTTTCTTTAAAATCTCTTTACTCTC
s panTro5.chr5             125153661 53 + 181907262 AAATACAATTTCCTTCTTTTCTCTCCAATTTTCTTTAAAATCTCTTTACTCTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490608 53 + 183735486 AAATACAATTTCCTTCTTTTCTCTCCAATTTTCTTTAAAATCTCTTTACTCTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1682120 52 +   8933513 AAATAC-ATTTCCTTCTTTTCTCTCCAGTTTTCTTTAAAATCTCTTTACTCTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139812134 53 + 163208435 AAATACGATTTCCTTCTTTTCTCTCTAATTTTCTTTAAAATCTCTTTACTCTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122796743 53 + 180051392 AAATACAATTTCCTTCTTTTCTCTCCAATTTTCTTTAAAATCTCTTTACTCTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124220424 53 + 181584905 AAATACAATTTCCTTCTTTTCTCTCCAATTTTCTTTAAAATCTCTTTACTCTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16218114 53 +  18395747 AAATACAATTTCCTTCTTTTCTCTCCAATTTTCTTTAAAATCTCTTTACTCTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5224001 53 +  26952557 AAATACAATTTCCTTCTTTTCTCTCCAATTTTCTTTAAAATCTCTTTACTCTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28331646 53 +  82825804 AAATACAATTTCCTTCTTTTCTCTCCAATTTTCTTTAAAATCTCTTTACTCTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3995932 53 -   4237731 AAATACAATTTCCTTCTTTTCTCTCCAATTTTCTTTAAAATCTCTTTACTCTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      266227 53 -   1175262 AAATGCAATTTCCTTCTTTTCTCTCCAATTTTCTTTAAAATCTCTTGACTCTC
i colAng1.NW_012119644v1   C 0 C 0
s micMur3.chr12             60510060 53 + 108143057 aaatgcaatctccatcttctctctcatattatcttaaaaatctgtttactccc
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3549158 53 +  11683526 AAATGCAATCCCCATCTTCTCTCTCGTATTATCTTAAAAATCTCTTTACTCCC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3034055 53 +   4132165 AAATGCAATCCCCCACTTCTCTCTCATATTACCATTAAAATCTCTTTATCCTC
i otoGar3.GL873679         I 4174 C 0
s canFam3.chr11             14882160 41 +  74389097 AAATGCAATCTCCTTCTTTTATCT------------AAATTCTCCTTAATCTT
i canFam3.chr11            C 0 C 0
e aotNan1.NW_018505940v1    13143602 797 -  42888418 I
e cebCap1.NW_016107829v1     1354956 849 -   1400280 I
e dasNov3.JH567306           2591583 2783 +   3667625 I
e mm10.chr18                55487130 1290 +  90702639 I
e saiBol1.JH378106          55657815 840 -  71252344 I
e calJac3.chr2             123605654 799 - 204313951 I

a score=94446.000000
s hg38.chr5_KI270796v1_alt     43635 11 +    172708 TAAGAGTCACC
s panTro5.chr5             125153714 10 + 181907262 TAAG-GTCACC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490661 11 + 183735486 TAAGAGTCACC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1682172 11 +   8933513 TAAGAGTCACC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139812187 11 + 163208435 TAAGAGTCACC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122796796 11 + 180051392 TAAGAGTCACC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124220477 11 + 181584905 TAAGAGTCACC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16218167 11 +  18395747 TAAGAGTCACC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5224054 11 +  26952557 TAAGAGTCACC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28331699 11 +  82825804 TAAGAGTCACC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3995985 11 -   4237731 TAAGAGTCACC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      266280 11 -   1175262 TAAGAGTCACC
i colAng1.NW_012119644v1   C 0 C 0
s micMur3.chr12             60510113 11 + 108143057 taaggctcacc
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3549211 11 +  11683526 TAACGCTCACC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3034108 11 +   4132165 TAAGGCTCACC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14882201 11 +  74389097 GATGGCTCCCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2594366 11 +   3667625 TAAAGTTCACC
i dasNov3.JH567306         I 2783 C 0
e aotNan1.NW_018505940v1    13143602 797 -  42888418 I
e cebCap1.NW_016107829v1     1354956 849 -   1400280 I
e mm10.chr18                55487130 1290 +  90702639 I
e saiBol1.JH378106          55657815 840 -  71252344 I
e calJac3.chr2             123605654 799 - 204313951 I

a score=13156.000000
s hg38.chr5_KI270796v1_alt     43646 2 +    172708 TT
s panTro5.chr5             125153724 2 + 181907262 TT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490672 2 + 183735486 TT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1682183 1 +   8933513 -T
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139812198 2 + 163208435 TT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122796807 2 + 180051392 AT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124220488 2 + 181584905 AT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16218178 2 +  18395747 AT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5224065 2 +  26952557 AT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28331710 2 +  82825804 AT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3995996 2 -   4237731 AT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      266291 2 -   1175262 TT
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55658655 2 -  71252344 TT
i saiBol1.JH378106         I 840 C 0
s cebCap1.NW_016107829v1     1355805 2 -   1400280 TT
i cebCap1.NW_016107829v1   I 849 C 0
s aotNan1.NW_018505940v1    13144399 2 -  42888418 TT
i aotNan1.NW_018505940v1   I 797 C 0
s micMur3.chr12             60510124 1 + 108143057 -t
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3549222 1 +  11683526 -T
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3034119 2 +   4132165 TT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14882212 2 +  74389097 TT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2594377 2 +   3667625 AT
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55487130 1290 +  90702639 I
e calJac3.chr2             123605654 799 - 204313951 I

a score=1448386.000000
s hg38.chr5_KI270796v1_alt     43648 102 +    172708 TTTTGAATGTTTATAGCTAGAAATAAT-----CTA------CCATT---------AGCACCTTTTCG-----------CTTTATGGTTCTTATCACTCTTTAAAATGATTTAAATATTTGGTTAAGTGAT-AAA
s panTro5.chr5             125153726 102 + 181907262 TTTTGAATGTTTATAGCTAGAAATAAT-----CTA------CCATT---------AGCACCTTTTCG-----------CTTTATGGTTCTTATTACTCTTTAAAATGATTTAAATATTTGGTTAAGTGAT-AAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490674 102 + 183735486 TTTTGAATGTTTATAGCTAGAAATAAT-----CTA------CCATT---------AGCACCTTTTCG-----------CTTTATGGTTCTTATCACTCTTTAAAATGATTTAAATATTTGGTTAAGTGAT-AAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1682184 102 +   8933513 TTTTGAATGTTTATAGCTAGAAATAAT-----CTA------CCATT---------AGCACCTTTTCG-----------CTTTATGGTTCTTATCACTCTTTAAAATGATTTAAATATTTGGTTAAGTGAT-AAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139812200 102 + 163208435 TTTTGGATGTTTATAGCTAGAAATAAT-----CTA------TCATT---------AGCACCTTTTTG-----------CTTTATGGTTCTTATCACTCTTTAAAATGATTTGAATATTTGGTTAAGTGAT-AAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122796809 107 + 180051392 TTTTGAATGTTTATAGCTAGAAATAAT-----CTA------CCAGT---------AGCACCTTTTCG--CTT----TACTTTATGGTTCCTATCACTCTTTAAAATGATTTAAATATTTGATTAAGTGAT-AAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124220490 107 + 181584905 TTTTGAATGTTTATAGCTAGAAATAAT-----CTA------CCAGT---------AGCACCTTTTCG--CTT----TACTTTATGGTTCCTATCACTCTTTAAAATGATTTAAATATTTGATTAAGTGAT-AAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16218180 107 +  18395747 TTTTGAATGTTTATAGCTAGAAATAAT-----CTA------CCAGT---------AGCACCTTTTCG--CTT----TACTTTATGGTTCCTATCACTCTTTAAAATGATTTAGATATTTGATTAAGTGAT-AAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5224067 107 +  26952557 TTTTGAATGTTTATAGCTAGAAATAAT-----CTA------CCAGT---------AGCACCTTTTTG--CTT----TACTTTATGGTTCCTATCACTCTTTAAAATGATTTAAATATTTGATTAAGTGAT-AAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28331712 107 +  82825804 TTTTGAATGTTTATAGCTAGAAATAAT-----CTA------CCAGT---------AGCACCTCTTCA--CTT----TACTTTATGGTTCCTATCACTCTTTAAAATGATATAAATATTTGATTAAGTGAT-AAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3995998 107 -   4237731 TTTTGAATGTTTATAGCTAGAAATAAT-----CTA------CCAGT---------AGCACCTTTTCG--CTT----TACTTTATGGTTCCTATCACTCTTTAAAATGATTTAAATATTTGATTAAGTGAT-AAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      266293 107 -   1175262 TTTTGAATGTTTATAGCTAGGAATAAT-----CTA------CCAGT---------AGCACCTTTTCG--CTT----TACTTTATGGTTCCTATCACTCTTTAAAATGATTTAAATATTTGATTAAGTGAT-AAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123606453 104 - 204313951 TTTTGAATGTTTATAGCTAGAAATAGT-----CTA------CCATC---------AGCACCTTTTCA--GTT----TACTTTATGGTTCTTAT---TCTTTAAAAATGAATAAATATTTGGTTAGGTGAT-AAA
i calJac3.chr2             I 799 C 0
s saiBol1.JH378106          55658657 104 -  71252344 TTTTGAATGTTGATAGCTAGAAATAGT-----CTA------CCATT---------AGCACCTTTTCA--CTT----TACTTTGTTGTTCTTAC---TCTTTAAAAATGAATAAATATTTGGTTAAGTGAT-AAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1355807 104 -   1400280 TTTTGAATGTTTATAGCTAGAAATAGT-----CTA------CCATT---------AGCACATTTTCA--CTT----TACTTTGTGGTTCTTAT---TCTTTAAAAATGATTAAATATTTGGTTAAGTGAT-AAC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13144401 104 -  42888418 TTTTGAATGTTTATAGCTAGAAATAGT-----CTA------CCGTT---------AGCACCTTTTCA--CTT----TACTTTATGGTTCTTAT---TATTTAAAAATGAATAAATATTTGGTTAAGTGAT-AAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60510125 112 + 108143057 TTCTGAATGTTTATAGCTAGAAGTAGTCCGTCCTA------CCATA---------AACACCTTTTCA--CTT----TGCTCTCTAGGTCTTATCACTCTTTAAAATGATTTAAATGTTTGATTAAGTGAT-AAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3549223 108 +  11683526 TTCTGAATGTTTATAGCTAGAAGTAATCTGTCCTA------CCATA---------AACACCTTTTCA--CTT----TACTTTCTAGGTCTTATCACTCTTTAAAATGATTTAAATAT----TTAAGTGAT-AAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3034121 113 +   4132165 TTCTGGATGTTTGTAACTGGAAGTACTCTACCCTA------CCATA---------AACACCTTTTCA--CTC----TACTTTATGAGTCTTCTCACTCTTTAAAATGTTTTAAATATTTGATTCAATGATAAAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14882214 119 +  74389097 TTTTGAATATTTGTAGCTAGAAGTAAT----TCTA------CTATTGTACACATAAGCACCTTTTTAAACTT----CACTTCATGGCAGCTATCACTCTTTAAAATGATTTCAATATATGATTAGGTGAT-AAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2594379 115 +   3667625 TTCTGAATATTTATAACTAGAAATAAT-----CTCTCTTATCCATA---------AATACCCTTTTA--CTTTATCTACTTCATGGTTCTTATCACttttaaaaataatttaaatatttgatt--gtgat-aaa
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55487130 1290 +  90702639 I

a score=216511.000000
s hg38.chr5_KI270796v1_alt     43750 13 +    172708 ATG-TTTCATATTA
s panTro5.chr5             125153828 13 + 181907262 ATA-TTTCATATTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490776 13 + 183735486 ATG-TTTCATATTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1682286 13 +   8933513 ATG-TTTCATATTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139812302 13 + 163208435 ATG-TTTCATATTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122796916 13 + 180051392 ATG-TTTCATATTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124220597 13 + 181584905 ATG-TTTCATATTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16218287 13 +  18395747 ATG-TTTCATATTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5224174 13 +  26952557 ATG-TTTCATATTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28331819 13 +  82825804 ATG-TTTCCTATTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3996105 13 -   4237731 ATG-TTTCATATTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      266400 13 -   1175262 ATG-TTTCATATTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123606557 14 - 204313951 ATGCTTTTATATTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55658761 13 -  71252344 ATG-TTTCATATTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1355911 13 -   1400280 ATG-TTTCATATTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13144505 13 -  42888418 ATG-TTTCATATTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60510237 13 + 108143057 GTA-TTTCCTATTA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3549331 13 +  11683526 ATA-TTTCATATTA
i proCoq1.NW_012155062v1   C 0 I 30
s otoGar3.GL873679           3034234 13 +   4132165 AGA-TTTTATATTA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55488420 13 +  90702639 ATG-TTCTACCTTA
i mm10.chr18               I 1290 C 0
s canFam3.chr11             14882333 13 +  74389097 ATA-TTTTCTATTA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2594494 13 +   3667625 ata-ttttatatta
i dasNov3.JH567306         C 0 C 0

a score=85830.000000
s hg38.chr5_KI270796v1_alt     43763 7 +    172708 CCCGGAT
s panTro5.chr5             125153841 7 + 181907262 CCCAGAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490789 7 + 183735486 CCCAGAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1682299 7 +   8933513 CCCGGAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139812315 7 + 163208435 CTCAGAT
i nomLeu3.chr2             C 0 I 294
s rheMac8.chr6             122796929 7 + 180051392 CTCGGAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124220610 7 + 181584905 CTCGGAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16218300 7 +  18395747 CTCGGAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5224187 7 +  26952557 CTCGGAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28331832 7 +  82825804 CTCGGAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3996118 7 -   4237731 CTCGGAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      266413 7 -   1175262 CCCGGAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123606571 7 - 204313951 CTCAGAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55658774 7 -  71252344 CTTAGAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1355924 7 -   1400280 CACAGAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13144518 7 -  42888418 CTCAGAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60510250 7 + 108143057 TTTGGGT
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3034247 7 +   4132165 TTTGGGT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55488433 7 +  90702639 CCTGGAT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14882346 7 +  74389097 TTTGAAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2594507 7 +   3667625 tttGGAT
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3549344 30 +  11683526 I

a score=233725.000000
s hg38.chr5_KI270796v1_alt     43770 22 +    172708 CTAGTCAAAT-TTTTTAATTGGC
s panTro5.chr5             125153848 22 + 181907262 CTACTCTAAT-TTTTTAATTGGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490796 22 + 183735486 CTACTCTAAT-TTTTTAATTGGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1682306 21 +   8933513 CTACTCTAAT-TTTTTAATT-GC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139812616 22 + 163208435 cTACTCTAAT-TTTTTAATTGGC
i nomLeu3.chr2             I 294 C 0
s rheMac8.chr6             122796936 22 + 180051392 CTACTCTAAT-TTTGTAATTGGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124220617 22 + 181584905 CTACTCTAAT-TTTGTAATTGGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16218307 22 +  18395747 CTACTCTAAT-TTTGTAATTGGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5224194 22 +  26952557 CTACTCTAAT-TTTGTAATTGGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28331839 22 +  82825804 CTACTCTAAT-TTTGTAATTGGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3996125 22 -   4237731 CTACTCTAAT-TTTGTAATTGGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      266420 22 -   1175262 CTACTCTAAT-TTTATAATTGGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123606578 22 - 204313951 CTATTCTGAA-TTTTTAATTGGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55658781 22 -  71252344 CTACTCTAAT-TTTTTAATTGGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1355931 22 -   1400280 CTACTCTAAT-TTTTTAATTGAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13144525 22 -  42888418 CTACTCTAAT-TTTTTAATTGGT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60510257 23 + 108143057 GTACCCCAATATTTTTTATTGGT
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3034254 23 +   4132165 TTACCTGAATTTTTTTTATGGGC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55488440 21 +  90702639 CAATTCTGAT-TCTTTACTTGG-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14882353 15 +  74389097 CTATCCCAAT-TGTAT-------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2594514 17 +   3667625 CTACCCCAAT-TTTTTAT-----
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3549344 30 +  11683526 I

a score=500264.000000
s hg38.chr5_KI270796v1_alt     43792 42 +    172708 TGGGCTGTACATTATTACACTATTT-------------------AGATATACCATGAC--TTA
s panTro5.chr5             125153870 42 + 181907262 TGGGCTGTACATTATTACACTATTT-------------------AGATATACCATGAC--TTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490818 42 + 183735486 TGGGCTGTACATTATTACACTATTT-------------------AGATATAGCATGAC--TTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1682327 42 +   8933513 TGGGCTGTACATTATTACACTATTT-------------------AGATATACCATGAC--TTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139812638 42 + 163208435 TGGGCTGTACATTATTACACTATTT-------------------AGATATACCATGAC--TTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122796958 42 + 180051392 TGGGCTGTACATTATTAGAGTATTT-------------------AGATAAACCGTGAC--TTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124220639 42 + 181584905 TGGGCTGTACATTATTAGAGTATTT-------------------AGATAAACCGTGAC--TTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16218329 42 +  18395747 TGGGCTGTACATTATTAGAGTATTT-------------------AGATAAACCGTGAC--TTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5224216 42 +  26952557 TGGGCGGTACATTATTAGAGTATTT-------------------AGATAAACTGTGAC--TCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28331861 42 +  82825804 TGGGCTGTACATTATTACAGTATTT-------------------AGATAAACCGTGAC--TTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3996147 42 -   4237731 TGGGCTGTACATTATTAGAGTATTT-------------------AGATAAACTGTGAC--TTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      266442 42 -   1175262 TGGGCTGTACATTATTACAGTATTT-------------------AGATAAACCATAAC--TTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123606600 43 - 204313951 TAGGCTGTACATTA-CACATCACGTGT-----------------AGATATACCATGAC--TTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55658803 61 -  71252344 TGGGCTGTACATTATTACACCATGTGTAGATATACCATGACATAAGATATACCATGAC--TTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1355953 61 -   1400280 TGGGCTGTGCATGATTACACCATGTGTAGATATGCCATGACTTAAGATATACCATGAC--TTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13144547 61 -  42888418 TGGGCTGTACATTATTACACCACATGTAGATATACCATGACTTAAGATATACCATGAC--TTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60510280 44 + 108143057 TGGGCTACACATGATTATACTATTT-------------------AAATATACCATAACATTTA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3549374 42 +  11683526 TGGGCTGCACATTATTATACTATTT-------------------AAATATACCATAAC--TTA
i proCoq1.NW_012155062v1   I 30 I 142
s otoGar3.GL873679           3034277 42 +   4132165 TAGGGTGCACATTATTATACGtttt-------------------aaatatttcaaaat--tta
i otoGar3.GL873679         C 0 I 4
s mm10.chr18                55488461 42 +  90702639 TCAGCTAAACATTACTTCACTATTT-------------------ATATGTACTGTAAT--TTA
i mm10.chr18               C 0 I 4
s canFam3.chr11             14882368 23 +  74389097 -------------------TTATTt-------------------agatataccacaac--ttg
i canFam3.chr11            C 0 I 4
s dasNov3.JH567306           2594531 42 +   3667625 TGAGTTGTACATTATTATACTGT---------------------AAAAATACCATAGTAATTA
i dasNov3.JH567306         C 0 C 0

a score=461129.000000
s hg38.chr5_KI270796v1_alt     43834 44 +    172708 AAACAT-----------------CT------GAGTGATATTTAAGTTATTCCCCATTTTAAAATTAT
s panTro5.chr5             125153912 44 + 181907262 AAAAAT-----------------CT------GAGTGATATTTAAGTTATTCCCCATTTTAAAATTAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490860 44 + 183735486 AAAAAT-----------------CT------GAGTGATATTTAAGTTATTCCCCATTTTAAAATTAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1682369 44 +   8933513 AAAAAT-----------------CT------GAGTGATATTTAAGTTATTCCCCATTTTAAAATTAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139812680 44 + 163208435 AAAAAT-----------------CT------GAGTGATATTTAAGTTATTCCCTGTTTTAAAATTAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122797000 44 + 180051392 ACAAAT-----------------CT------GAGTGATACCTAAGCTAGTCCCCGTTTTAAAATGAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124220681 44 + 181584905 ACAAAT-----------------CT------GAGTGATACCTAAGCTAGTCCCCGTTTTAAAATGAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16218371 44 +  18395747 ACAAAT-----------------CT------GAGTGATACCTAAGCTAGTCCCCGTTTTAAAATGAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5224258 44 +  26952557 ACAAAT-----------------CT------GAGTGATACCTAAGCTAGTCCCCATTTTAAAATGAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28331903 44 +  82825804 ACAAAT-----------------CT------GAGTGATACCTAAGCTAGTCCCCGTTTTAAAATGAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3996189 44 -   4237731 ACAAAT-----------------CT------GAGTGATACCTAAGCTAGTCCCCGTTTTAAAATGAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      266484 44 -   1175262 ACAAAT-----------------CT------GAGTGATACCTAAGCTATTCCCTGTTTTAAAATTAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123606643 42 - 204313951 AGAAGT-----------------CT------GAATGATATTTAAGTTATTCCCTGTTTAAGAATT--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55658864 42 -  71252344 AGAAAT-----------------CT------GAATGATATTTAAGTTATTCCCTCTTTTAGAATT--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1356014 42 -   1400280 AGAAAT-----------------CT------GAATGATATTTAAGTTATTCCCTCTTTTGGAAAT--
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13144608 40 -  42888418 AGAAAT-----------------CT------GAATGATATTTAAGTTATTTCCTGTTTTAGAA----
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60510324 44 + 108143057 ATAAAT-----------------CT------GAATGGTATATAAGTTGTTCCCAGTTTTAAAATTAT
i micMur3.chr12            C 0 I 142
s otoGar3.GL873679           3034323 44 +   4132165 acaaat-----------------ca------aaattttaaGTAAGTTGTTCCCAGTTTTAAAATGAT
i otoGar3.GL873679         I 4 I 14
s mm10.chr18                55488507 44 +  90702639 ACAAAT-----------------CTTTCACCAACTGGTATTTAAATGGTT----GCTTTGAAATT--
i mm10.chr18               I 4 C 0
s canFam3.chr11             14882395 50 +  74389097 atgtat-----------------ctcctactgaatgatatttaaattgttcccagtttttaaattat
i canFam3.chr11            I 4 C 0
s dasNov3.JH567306           2594573 59 +   3667625 AAAAATTATTAGATAATCTCTTATT------GAAAGGTATTT--GTTGTTTCCAGtttttaagttat
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3549416 142 +  11683526 I

a score=522540.000000
s hg38.chr5_KI270796v1_alt     43878  56 +    172708 ---CATGTTTT--AATATAattatgtatcattatgtttt------------------------------------------tatgta--------------------att------------tgtgt----------------------ttgttttt
s panTro5.chr5             125153956  56 + 181907262 ---CATGTTTT--AATATAATTATATATCATTATGTTTT------------------------------------------TATGTA--------------------ATT------------TGTGT----------------------Ttgttttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490904  56 + 183735486 ---CATGTTTT--AATATAATTATATATCATTATGTTTT------------------------------------------TAtgta--------------------att------------tgtgt----------------------ttgttttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1682413  56 +   8933513 ---CATGTTTT--AATATAATTATATATCATTATGTTTT------------------------------------------TAtgta--------------------att------------tgtgt----------------------ttgttttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139812724  56 + 163208435 ---CATGTTTT--AATATAATTATATATCATTATGTTTT------------------------------------------TACGTG--------------------ATT------------TGTAT----------------------Ttgttttt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122797044  56 + 180051392 ---CATGTTTT--AATATAATTATATATCATCATGTTTT------------------------------------------TACATA--------------------ATT------------TGTAT----------------------TTGTTTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124220725  56 + 181584905 ---CATGTTTT--AATATAATTATATATCATCATGTTTT------------------------------------------TACATA--------------------ATT------------TGTAT----------------------ttgttttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16218415  56 +  18395747 ---CATGTTTT--AATATAATTATATATCATCATGTTTT------------------------------------------TACATA--------------------ATT------------TGTGT----------------------TTGTTTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5224302  56 +  26952557 ---CATGTTTT--AATATAATTATATATCATCATGTTTT------------------------------------------TACATA--------------------ATT------------TGTAT----------------------TTGTTTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28331947  56 +  82825804 ---CATGTTTT--AATATAATTATATATCATTATATTTT------------------------------------------TACATA--------------------ATT------------TGTAT----------------------TTGTTTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3996233  56 -   4237731 ---CATGTTTT--AATATAATTATATATCATCATGTTTT------------------------------------------TACATA--------------------ATT------------TGTAT----------------------TTGTTTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      266528  56 -   1175262 ---CATGTTTT--AATATAATTATATATCATTATGTTTT------------------------------------------TACATA--------------------ATT------------TGTAT----------------------TTGTTTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123606685  53 - 204313951 ----ATTTCTT--AAtataattatatatcattatgtttt------------------------------------------tacata--------------------att------------tgtat----------------------ctgttt--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55658906  53 -  71252344 ----ATTTTTT--AAtataattatatatcattgtgtttt------------------------------------------tacata--------------------att------------tgtat----------------------ttgttt--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1356056  53 -   1400280 ----ATTTTTT--AATATAATTATATATCATTATGTTTT------------------------------------------TACATA--------------------ATT------------TGTAT----------------------TTGTTT--
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13144648  51 -  42888418 ------TTTTT--AATATAATTATATATCATTATGTTTT------------------------------------------TACATA--------------------ATT------------TGTAT----------------------TTGTTT--
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3034381 111 +   4132165 ---TATGTATTAAAATATAACTATGCATAATTATATTTTGTATAATTTTGTAATGTATTCATTACAAATGT---------ATACATATGTATTGTAATTATCTACGCATA------------TATAT----------------------TTCCTTTA
i otoGar3.GL873679         I 14 I 7
s mm10.chr18                55488551 101 +  90702639 ----ATATTTT--TATATCATTACATTTTATTACATTTC---CAAATTTTCATTTCAACTATTACAATTATTATGGGGTCTTACATACACATCA-------------TCT------------TTTCT----------------------TTGTTTTG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14882445  80 +  74389097 ---tatatttt--tgtttaattatacatcattatatttt----aaattaatatta--------------------------tataCA--------------------ATGCAGATAGGGCTATACAT----------------------TTTTTTCT
i canFam3.chr11            C 0 I 10
s dasNov3.JH567306           2594632  92 +   3667625 ttttttatttt--tatataattataCATGATTGTAtttt----aaatctctatta--------------------------taaaca--------------------ata------------tatatatacacatatgttatttcttcattgtttt-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60510368 142 + 108143057 I
e proCoq1.NW_012155062v1     3549416 142 +  11683526 I

a score=62335.000000
s hg38.chr5_KI270796v1_alt     43934 7 +    172708 aatttgt
s panTro5.chr5             125154012 7 + 181907262 aatttgt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490960 7 + 183735486 aatttgt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1682469 7 +   8933513 aatttgt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139812780 7 + 163208435 aatttgt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122797100 7 + 180051392 AATTTGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124220781 7 + 181584905 aatttgt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16218471 7 +  18395747 AATTTGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5224358 7 +  26952557 AATTTGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28332003 6 +  82825804 AATTTG-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3996289 7 -   4237731 AATTTGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      266584 7 -   1175262 AATTTGT
i colAng1.NW_012119644v1   C 0 C 0
s micMur3.chr12             60510510 7 + 108143057 AATTTGA
i micMur3.chr12            I 142 C 0
s otoGar3.GL873679           3034499 7 +   4132165 AATTTGA
i otoGar3.GL873679         I 7 C 0
s mm10.chr18                55488652 6 +  90702639 AATTTA-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14882535 7 +  74389097 AATTTGT
i canFam3.chr11            I 10 C 0
s dasNov3.JH567306           2594724 7 +   3667625 aatttga
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3549416 142 +  11683526 I
e aotNan1.NW_018505940v1    13144699 0 -  42888418 C
e cebCap1.NW_016107829v1     1356109 0 -   1400280 C
e saiBol1.JH378106          55658959 0 -  71252344 C
e calJac3.chr2             123606738 0 - 204313951 C

a score=12215214.000000
s hg38.chr5_KI270796v1_alt     43941 842 +    172708 atttgtTTCAGGGTCAGGAAAGttaagactttttcatatgctgactagctatttgtttcttttcttataaagtgccct----------------------------------------------------------cttttgttcatt-----------ga----------------------------------tgtttcttgtt-g-------------------------------------------tttg-ttttttgtgagtttgctctctgtttta--aaaatc-----aatttgtaaa-gc--tttttctctaaatttaggtaattag-----ctgtgggtcct-gtgtttcttgttt--gttaaatgctttttc-cttttgtaatgttttaagctttgctgaaa---gagtg-------ttt----tttt-----tt---tagtgttgtctaaattatc-aaatttatggtttctgaattttgtgtctgcttagaaagaccatctcca-ccctaa--gttataaataaattcagtcacgttttcatccagttctttaatggcttcattgtttactttaaatctttgctccatctggagtttatttttatctaa--gtagtgatttggagatgtggttttac-----tttttccaaatgactatatagttatcacagatttattgaaaatttt------atctttacccacactggtttgaaatgctctctttatggtaatttccgtatgtatttgggtgtgtttctggact--ttcttttccattgatgcttt-tgtgtattcctggcctattactgaagtgatatgaactgcagctttaccgtatgttttattatct-----ggtacaactcct-----tattcttcctc----tttaTA----ATCCAGCTAGTTTTATATATTTACTTTTCAGGCTACTGTAGTGACA--GTTTTATTTTGTAGATTTTAG---AG-----TGTTC---------------TTTTTTTT--CCCCAAAAG---AAATGATGATTT---AAC---ATTGAGCTCTTATTTCTAAGAACAAGATAAATTGCAATTTAT---------------------TGAAGGC
s panTro5.chr5             125154019 842 + 181907262 atttgtttcagggtcaggaaagttaagactttttcatatgctgactagctatttgtttcttttcttatgaagtgccct----------------------------------------------------------cttttgttcatt-----------ga----------------------------------tgtttcttgtt-g-------------------------------------------tttg-ttttttgtgagtttgctctctgtttta--aaaatc-----aatttgtaaa-gc--tttttccctaaatttaggtaattag-----ctgtgggtcct-gtgtttcttgttt--gttaaatgctttttc-cttttgtagtgttttaagctttgctgaaa---gagtg-------ttt----tttt-----tt---aagtgttgtctaaattatc-aaatttatggtttctgaattttgtgtctgcttagaaagaccatctcca-ccctaa--gttataaataaattcagtcacgttttcatccagttctttaatggcttcattgtttactttaaatctttgatccatctggggtttatttttatctac--gtagtgatttggagatgtggctttac-----tttttccaaatgactatatagttatcacagatttattgaaaatttt------atctttacccacactggtttgaaatgctctctttatggtaatttccgtatgtatttgggtgtgtttctggact--ttcttttccattgatgcttt-tgtgtattcctggcctattactgaagtgatatgaactgcagctttaccgtatgttttattatct-----ggtacaactcct-----tattcttcctc----tttaTA----ATCCAGCTAGTTTTATATATTTACTTTTCAGGCTACTGTAGTGACA--GTTTTATTTTGTAGATTTTAG---AG-----TGTTC---------------TTTTTTTT--CCCCCAAAG---AAATGATGATTT---AAC---ATTGAGCTCTTATTTCTAAGAACAAGATAAATTGCAATTTAT---------------------TGAAGGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126490967 843 + 183735486 atttgtTTCAGGGTCAGGAAAGTTAAGACTTTTTCATATGCTGACTAGCTATTTGTTTCTTTTCTTATAAAGTGCCCT----------------------------------------------------------CTTTTGTTCATT-----------GA----------------------------------tgtttcttgtt-g-------------------------------------------tttg-ttttttgtgagtttgctctctgttttA--AAAATC-----AATTTGTAAA-GC--TTTTTCCCTAAATTTAGGTAATTAG-----CTGTGGGTCCT-GTGTTTCTTGTTT--GCTAAAtgctttttc-cttttgtaatgttttaagctttgctgaaa---gagtgt------ttt----tttt-----tt---tagtgttgtctaaattatc-aaatttatcgtttctgaattttgtgtctgcttagaaagaccatctcca-cccgaa--gttataaataaattcagtcacgttttcatccagttctttaatggcttcattgtttactttaaatctttgatccatctggagtttatttttatctaa--gtagtgatttggagatgtggttttac-----tttttccaaatgactatatagttatcacagatttattgaaaatttt------atctttactcacactggtttgaaatgctctctttatggtaatttccgtatgtatttgggtgtgtttctggact--ttcttttccattgatgcttt-tgtgtattcctggcctattactgaagtgatatgaactgcagctttaccgtatgttttattatct-----ggtacaactcct-----tattcttcctc----tttaTA----ATCCAGCTAGTTTTATATATTTACTTTTCAGGCTACTGTAGTGACA--GTTTTATTTTGTAGATTTTAG---AG-----TGTTC---------------TTTTTTTT--CTCCCAAAG---AAATGATGATTT---AAC---ATTGAGCTCTTATTTCTAAGAACAAGATAAATTGCAATTTAT---------------------TGAAGGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1682476 841 +   8933513 atttgtTTCAGGGTCAGGAAAGTTAAGACTTTTTCATATGCTGACTAGCTATTTGTTTCTTTTCTTATAGAGTGCCCT----------------------------------------------------------CTTTTGTTCATT-----------GA----------------------------------tgtttcttgtt-g-------------------------------------------tttg-ttttttgtgagtttgctctctgttttA--AAAATC-----AATTTGTAAA-GC--TTTTTCCCTAAATTTAGGTAA-TAG-----CTGTGGGTCCT-GTGTTTCTTGTTT--GTTAAAtgctttttc-cttttgtaatgttttaagctttgctgaaa---gagtg--------tt----tttt-----tt---aagtgttgtctaaattatc-aaatttatgctttctgaattttgtgtctgcttagaaagaccatctcca-ccctaa--gttataaataaattcagtcacgttttcatccagttctttaatggcttcattgtttactttaaatctttgatccatctggagtttatttttatctaa--gtagtgatttggagatgtggctttac-----tttttccaaatgactatatagttatcacagatttattgaaaatttt------atctttacccacgctggtttgaaatgctctctttatggtaatttccgtatgtatttgggtgtgtttctggact--ttcttatccattgatgcttt-tgtgtattcctggcctattactgaagtgatatgaactgcagttttaccgtatgttttattatct-----ggtaCAACTCCT-----TATTCTTCC-C----TTTATA----ATCCACCTGGTTTTATATGTTTACTTTTCAGGCTACTGTAGTAACA--GTTTTATTTTGTAGATTTTAG---AG-----TGTTC---------------TTTTTTTTTCCCCCAAAAG---AAATGATGATTT---AAC---ATTGAGCTCTTATTTCTAAGAACAAGATAAATTGCAATTTAT---------------------TGAAGGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139812787 831 + 163208435 atttgtttcagggtcaggaaagttaagactttttcatatgctgactagctatttgtttcttttcttataaagtgccct----------------------------------------------------------cttttgttcatt-----------ga----------------------------------tgtttc---tt-g-------------------------------------------tttg-tttttcgtgagt----tctctgtttta--aaaatt-----aatttgtaaa-gc--tttttccctaaatttagataattag-----ctgtgggtcct-gtgtttctttttt--gttaaatgctttttc-cttttgtaatgttttaagctttgctgaaa---gagtg-------ttt----tttt-----tt---aagtgttgtctaaattatc-aaatttatggtttctgaattttgtgtctgcttagaaagaccatctcca-ccttaa--gttataaataaattcagtcacgttttcatccagttctttaatggcttcattgtttactttaaatctttgatccatctggagtttatttttatctaa--gtagtgatttggagatgtggctttac-----tttttccaaatgactatatagttatcagagatttattgaaaatttt------atctttacccacactggtttgaaatgctctctttacggtaatttccatatgtatttgggtgtgtttctggact--ttcttttccattgatgcttt-tgtgtattcctgtcctattactgaagtgatatgaactgcagctttaccatatgttttattatct-----ggtaCAACTCCT-----TATTCTTCCTC----CTTATA----ATCCAGCTAGTTTTATATGTTTACTTTTCAGGCTACTGTAGTAACA--GTTTTATTTTGTAGATTTTAG---AG-----TG-------------------GTTTTTT--TTCCAAAAG---AAATGATGATTT---AAC---ATTGAGCTCTTATTTCTAAGAACAAGATAAACTGCAATTTAT---------------------TGAAGGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122797107 844 + 180051392 ATGTGTTTCAGGGTCAGGAAAGTTAAGACTTTTTCATATGCTGACTAGTTATTTGTTTCTTTTCTTACAAAGT----T----------------------------------------------------------CTTTTGTTCATC-----------GA----------------------------------tgtttcttgtt-g-------------------------------------------tttg-ttttttgcgagtttgttctctgttTTA--AAAACT-----AATTTGTAAA-GC--TTTTTCCCTACATTTAGGTAATTAG-----CTGTGGGTCCT-GTGTTTCTTGTTT--GTTAAAtgctttttc-cttttgtaatgttttaagctttgctcaaa---gagtg-------ttttttatttt-----tt---aagtgttgtctaaattatc-aaatttatggtttctgaattttgtgtctgcttagaaagaccatctcca-ccctaa--gttataaataaattcagtcacgttttcatccagttctttaatggcttcattgtttactttaaatctttgatccatctggagtttatttttatctaagtgtagtgatttggagatgtggctttac-----tttttccaaatgactatacagttatcacagatttattgaaaatttt------atctttatccacactggtttgagatgctctctttatggaaatttccatatgtagttgggtgtgtttctggact--ttcttttccattgatgcttt-tgtgtattcctggcctgttattgaagtgatatgaactgcagctttaccatatgttttattatct-----ggtacaactcct-----tattcttcctc----tttaTA----ATCCAGCTAGTTT--TATGTTTACTTTTCAGGCTACTGTAGTAACA--GTTTTATTTTGTAGATTTTAG---AG-----TGTTC-------------TTTTTTTTTT--TTTCAAAAG---AAATGATGATTT---AAC---ATTGAGCTCTTATTTCTAAGAACAAGATGAATTGCAATTTAT---------------------TGAAGGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124220788 843 + 181584905 atttgtttcagggtcaggaaagttaagactttttcatatgctgactagttatttgtttcttttcttacaaagt----t----------------------------------------------------------cttttgttcatc-----------ga----------------------------------tgtttcttgtt-g-------------------------------------------tttg-ttttttgtgagtttgttctctgtttta--aaaact-----aatttgtaaa-gc--tttttccctacatttaggtaattaG-----CTGTGGGTCCT-GTGTTTCTTGTTT--GTTAAAtgctttttc-cttttgtaatgttttaagctttgctcaaa---gagtg-------ttttttatttt-----tt---aagtgttgtctaaattatc-aaatttatggtttctgaattttgtgtctgcttagaaagaccatctcca-ccctaa--gttataaataaattcagtcacgttttcatccagttctttaatggcttcattgtttactttaaatctttgatccatctggagtttatttttatctaagtgtagtgatttggagatgtggctttac-----tttttccaaatgactatacagttatcacagatttattgaaaatttt------atctttatccacactggtttgagatgctctctttatggaaatttccatatgtagttgggtgtgtttctggact--ttcttttccattgatgcttt-tgtgtattcctggcctgttattgaagtgatatgaactgcagctttaccatatgttttattatct-----ggtaCAACTCCT-----TATTCTTCCTC----TTTATA----ATCCAGCTAGTTT--TATGTTTACTTTTCAGGCTACTGTAGTAACA--GTTTTATTTTGTAGATTTTAG---AG-----TGTTC--------------TTTTTTTTT--TTTCAAAAG---AAATGATGATTT---AAC---ATTGAGCTCTTATTTCTAAGAACAAGATGAATTGCAATTTAT---------------------TGAAGGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16218478 844 +  18395747 ATTTGTTTCAGGGTCAGGAAAGTTAAGACTTTTTCATATGCTGACTAGTTATTTGTTTCTTTTCTTACAAAGT----T----------------------------------------------------------CTTTTGTTCATC-----------GA----------------------------------tgtttcttgtt-g-------------------------------------------tttgtttttttgtgagtttgttctctgttTTA--AAAACT-----AATTTGTAAA-GC--TTTTTCCCTACATTTAGGTAATTAG-----CTGTGGGTCCT-GTGTTTCTTGTTT--GTTAAAtgctttttc-cttttgtaatgttttaagctttgctcaaa---gagtg-------ttttttatttt-----tt---aagtgttgtctaaattatc-aaatttatggtttctgaattttgtgtctgcttagaaagaccatctcca-ccctaa--gttataaataaattcagtcacgttttcatccagttctttaatggcttcattgtttactttaaatctttaatccatctggagtttatttttatctaagtgtagtgatttggagatgtggctttac-----tttttccaaatgactatacagttatcacagatttattgaaaatttt------atctttatccacactggtttgagatgctctctttatggaaatttccatatgtagttgggtgtgtttctggact--ttcttttccattgatgcttt-tgtgtattcctggcctgttattgaagtgatatgaactgcagctttaccgtatgttttattatct-----ggtacaactcct-----tattcttcctc----tttaTA----ATCCAGCTAGTTT--TATGTTTACTTTTCAGGCTACTGTAGTAACA--GTTTTATTTTGTAGATTTTAG---AG-----TGTTC--------------TTTTTTTTT--TTTCAAAAG---AAATGATGATTT---AAC---ATTGAGCTCTTATTTCTAAGAACAAGATGAATTGCAATTTAT---------------------TGAAGGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5224365 846 +  26952557 ATTTGTTTCAGGGTCAGGAAAGTTAAGACTTTTTCATATGCTGACTAGTTATTTGTTTCTTTTCTTACAAAGT----T----------------------------------------------------------CTTTTGTTCATC-----------GA----------------------------------tgtttcttgtt-g-------------------------------------------tttg-ttttttgtgagtttgttctctgttttt--AAAACT-----AATTTGTAAA-GC--TTTTTCCCTGCATTTAGGTAATTAG-----CTGTGAGTCCT-GTGTTTCTTGTTT--GTTAAAtgctttttc-cttttgtaatgttttaagctttgctcaaa---aagtg-------ttttttatttt-----tt---aagtgttgtctaaattatc-aaatttatggtttctgaattttgtgtctgcttagaaagaccatctccg-ccttaa--gttataaataaattcagtcacgttttcatccagttctttaatggcttcattgtttactttaaatctttgatccatctggagtttatttttatctaagtgtagtgatttggagatgtggctttac-----tttttccaaatgactatacagttatcacagatttattgaaaatttt------atctttacccacactggtttgagatgctctctttatggaaatttccatatgtagttgggtgtgcttctggact--ttcttttccattgatgcttt-tgtgtattcctggcctattattgaagtgatatgaactgcagctttaccgtatgttttattatct-----ggtaCAACTCCT-----TATTCTTCCTC----TTTATA----ATCCAGCTAGTTTTATATGTTTACTTTTCAGGCTACTGTAGTAACA--GTTTTATTTTGTAGATTTTAA---AG-----TGTTC-------------TTTTTTTTTT--TTTCAAAAG---AAATGATGATTT---AAC---ATTGAGCTCTTATTTCTAAGAACAAGATGAATTGCAATTTAT---------------------TGAAGGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28332009 799 +  82825804 -------------------------------------------------TATTTGTTTCTTTTCTTATAAAGTGCCCT----------------------------------------------------------CTTTTGTTCATC-----------GA----------------------------------TGTTTC---TT-G-------------------------------------------TTTG-TTTTTTGTGAGTTTGTTCTCTGTTTTA--AAAATT-----AATTTGTAAA-GC--TTTTTCCCTACATTTAGGTAATTAG-----CTGTGGGTCCT-GTCTTTCTTGTTT--GTTAAATGCTTTTTC-CTTTTGTAATGTTTTAAGCTTTGCTCAAA---GAGTGT------TTTTTTATTtt-----tt---aagtgttgtctaaattatc-aaatttatggtttctgaatttggtgtctgcttagaaagaccatctccg-ccctaa--gttataaataaattcagtcacgttttcatccagttctttaatggcttcattgtttactttaaatctttgatccatctggagtttatttttatctaa--gtagtgatttggagatgtggctttac-----tttttccaaatgactatacagttatcacagatttattgaaaatttt------atctttaaccacactggtttgagatgctctctttatggaaatttccatatgtagttgggtgtgtttttggact--tccttttccattgatgcttt-tgtgtattcctggcctattattgaagtgatataaactgcagctttagcatatgttttattatct-----ggtaCAACTCCT-----TATTCTTCCTC----TTTATA----ATCCAGCTAGTTTTATATGTTTACTTTTCAGGCTACTGTAGTAACA--GTTTTATTTTATAGATTTTAG---AG-----TGTTC-----------TTTTTTTTTTTT--TCCCAAAAG---AAATGATGATTT---AAC---ATTGAGCTCTTATTTCTAAGAACAAGATAAATTGCAATTTAT---------------------TGAAAGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3996296 852 -   4237731 ATTTGTTTCAGGGTCAGGAAAGTTAAGACTTTTTCATATGCTGACTAgttatttgtttcttttcttacaaagt----t----------------------------------------------------------cttttgttcatc-----------ga----------------------------------tgtttcttgtt-g-------------------------------------------tttg-ttttttgtgagtttgttctctgttTTA--AAAACT-----AATTTGTAAA-GC--TTTTTCCCTACATTTAGGTAATTAG-----CTGTGGGTCCT-GTGTTTCTTGTTT--GTTAAAtgctttttc-cttttgtaatgttttaagctttgctgaaa---gagtg-------ttttttatttt-----tt---aagtgttgtctaaattatc-aaatttatggtttctgaattttgtgtctgcttagaaagaccatctccg-ccctaa--gttataaataaattcagtcacgttttcatccagttctttaatggcttcattgtttactttaaatctttgatccatctggagtttatttttatctaagtgtagtgatttggagatgtggctttac-----tttttccaaatgactatacagttatcacagatttattgaaaatttt------atctttacccacactggtttgagatgctctctttatggaaatttccatatgtagttgggtgtgtttctggact--ttcttttccattgatgcttt-tgtgtattcctggcctattattgaagtgatatgaactgcagctttaccgtatgttttattatct-----ggtacaactcct-----tattcttcctc----tttaTA----ATCCAGCTAGTTTTATACGTTTACTTTTCAAGCTACTGTAGTAACA--GTTTTATTTTGTAGATTTTAG---AG-----TGttct-------ttttttttttttttt--tCCCAAAAG---AAATGATGATTT---AAC---ATTGAGCTCTTATTTCTAAGAACAAGATGAATTGCAATTTAT---------------------TGAAGGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      266591 845 -   1175262 ATTTGTTTCAGGGTCAGGAAAGTTAAGACTTTTTCATATGCTGACTAGTTATTTG----TTTTCTTATAAAGTGCCCT----------------------------------------------------------CTTTTGTTCATC-----------GA----------------------------------tgtttcttgtt-g-------------------------------------------tttg-ttttttgtgagtttgttctctgttTAA--AAAATT-----AATTTGTAAA-GC--TTTTTCCCTACATTTAGGTAATTAG-----CTGTGGGTCCT-GTGTTTCTTGTTT--GTTAAAtgctttttc-cttttgtaatgttttaagctttgctcaaa---gagtg-------ttttttatttt-----tt---aagtgttgtctaaattatc-aaatttatggtttttgaattttgtgtctgcttagaaagaccatctccg-ccctaa--gttataaacaaattcagtcatgttttcatccagttctttaatggcttcattgtttactttaaatctttgatccatctggagtttatttttatctaagtgtagtgatttggagatgtggctttac-----tttttccaaatgactatatagttatcacagatttattgaaaatttt------atctttacccacactggtttgagatgctctctttatggaaatttccatatgcagttgggtgtgtttctggact--ttcttttccattgatgtttt-tgtgtattcctggcctattattgaagtgatatgaactgcagctttaccgtatgttttattatct-----ggtacaactcct-----tattcttcctc----tttaTA----ATCCAGCTAGTTTTATATGTTTACTTTTCAGGCTACTGTAGTAACA--GTTTTATTTTGTAGATTTTAG---AG-----TGTTC--------------TTTTTTTTT--TTCCAAAAG---AAATGATGATTT---AAC---ATTGAGCTCTTATTTCTAAGAACAAGATGAATTGCAATTTAT---------------------TGAAGGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123606738 836 - 204313951 --------cagtgtcaggcaagttaagacttttttatatgctgactagttatttgttccttttcttataaagtgccct----------------------------------------------------------cttttgttcatt-----------ga----------------------------------tgattcttgtt-g-------------------------------------------ttct-ttttttgtgagcttgttctctgtttta--aaaatt-----aatttgtaaa-gc--tttttGCCTAAATTTAGGTAATTAG-----TTGTGAGTCCT-GTGTTTCTTGTTA--GTTAAATGCTTTAtc-ttttcataatgtttaaagctttgctgaaa---aggtg-------ttt----tttt-----tt---aagtgttgtctaaattatc-aaatttatggtttctgaattttgtgtgtgcttagaaagaccatccccg-ccctag--gttgtaaataaattcagtcacgttttcatccagttctttaatggcttcattgtttactttaaatctttgatccatctggagtttatttttatctaa--gtagtaatttggagatgtggctttac-----tttttccaaatgactatatagttatcacagatttattgaaaaattt------atctttacccacactgatttgaaatgctctctttatggtaatttccatatgtattcgggtgtgtttctggact--ttcttttccactgatgcttt-tgtgtattcctggcctattattgaagtgatatgaactgaagctttagcatatgttttgttttct-----ggcataactcct-----tactcttcctc----tttATA----ATCCAGCTAGTTTTATATGTTTACTTTTCAGGTTAATGTAGTAACA--GTTTTAGTTTGTAGATTTTAG---AA-----CATTC-------------TTTTTTTTTT--TTCCAAAAG---AAATGATGATTT---AAC---ATTGAGCTCTTATTTCTAAGAACAAGATAAACTGCAGTTTGT---------------------TGAAGGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55658959 838 -  71252344 --------cagggtcaggaaagttaagacttttttatatgctgactagttatttgttccttttcttataaagtgctct----------------------------------------------------------cttttgtgcatt-----------ga----------------------------------tatttcttgtt---------------------------------------------tgtt-ttttttgtgagcttgttctctatTTTA--AAAATA-----AATTTGTAAA-GA--TTTTTTCCTAAATTTCGGTAATTAG-----CTGTGAATCCT-GTGTTTCTTGTTA--GTTAAATGCTTTTTC-TTTTCATAACGTTTTAAGCTTTGCTCAAA---GAGTGGTTTT--TTT----TTtt-----tt---aagtgttgtctacattatc-aaatttatggtttctgaattttgtgtgtgcttagaaagatcatcccca-ccctag--gttataaataaattcagtcacgttttcatcctgttctttaatggcttcattgtttactttaaatctttgatccatctggagtttatttttagctaa--gtagtaatttggagatgtggctttac-----tttttccaaatgactatatagttatcacagatttattgaaaaattt------atctttacccacactgatttgaaatgctctctttatgataatttccatatgtatttgagtgtgtttctggact--ttcttttccactgatgcttt-tgtatattcctggcctattattgaagtgatacgaactgaagctttatcatatgttttattttct-----ggtaCAACTCCT-----TACTCTTCCTC----TTTATA----ATCCAGCTAGTTTTATATGTTTACTTTTCAGGCTAATGTAGTAACA--GTTTTAGTTTGTAGATTTTAG---AG-----CGTAC---------------TTTTTTTC--TTCCAAAAG---AAATGATGGTTT---AAT---GTTGAGCTCTTATTTCTAAGAACAAGATAAATTGCAGTTTAT---------------------TGAAGGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1356109 838 -   1400280 --------CAGGGTCAGGAAAGTTAAGACTTTTTTATATGCTGACTAGTTATTTGTTCCTTTTCTTATAAAGTGCCTC----------------------------------------------------------CTTTTGTTCACT-----------GA----------------------------------TGTTTCTTGTT---------------------------------------------TGTT-TTTTTTGTGAGCCTGT--TCTGTTTTA--AAAATT-----AATTTGTAAA-GA--TTTTTTCCTAAATTTAGGTAACTAG-----CTGTGAGTCCT-GTGTTTCTTGTTA--GTTAAATTCTTTTTC-TTTTCATAATGTTTTAAGCTTTGCTGAAA---GGTATTCTTT--TTT----TTtt-----tt---aagtgttgcctaaattatc-aaatttatggtttctgaattttgtgtgtgcttagaaagaccatcccca-ccctag--gttatgaataaattcagtcacgttttcatcctgttctttaatggcttcattgtttactttaaatctttgatccatctggactttatttttagctaa--gtagtaatttggagatgtggctttac-----tttttccaaatgactatatagttatcacagatttattgaaaagttt------atctttacccacactgatttgaaatgctctctttacggtaatttccatatgtatttgggtgtgtttctagact--ttcttttccactgatgcttt-tgtgtattcctggcctattattgaagtgatatgaactgaagctttagcatatgttttattttct-----ggtataactcct-----tactcttcctc----tttATA----ATCCAGCTAGTTTTATATGTTTATTTTTCAGGCTAATGTAGTAACA--GTTTTAGTTTGTAGATTTTAG---AG-----CATTC-------------TTTTTTTTTT--TCCCAAAAG---AAATGATGATTT---AAC---GTTGAGCTCTTATTTCTAAGAACAAGATAAATTGCAGTTTAT---------------------TGAAGGC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13144699 838 -  42888418 --------CAGGGTCAGGAAAGttaagacttttttatatgctgactagttatttgttccttttcttataaagtgtcct----------------------------------------------------------cttttgttcatt-----------ga----------------------------------tgtttcttgct-g------------------------------------------tttgt-ttttttgtgagcttgt-ctctgtttta--aaaatt-----aatttgtaaa-gc--ttttttcctaaatttaggtaattag-----ctgtgagtcct-gtgtttcttgtta--gttaaatgctttttc-ttttcataatgttttaagctttgctgaaa---gggc--------ttt----tttt-----ttaagaagtgttgtctaaattatc-aaatttatggtttctgaattttgtgtgtgcttagaaagaccatccccg-ccctag--gttataaataaattcaatcacgttttcatccagttctttaatggcttcattgtttactttaaatctttgatccatctggagtttatttttatctaa--gtagtaatttggagatgtggctttac-----tttttccaaatgactatatagttatcacagatttattgaaaaattt------atctttacccacactgatttgaaatgctctctttatggtaatttccatatgtatttgggtgtgtttctggact--ctcttttccactgatgcttt-tgtgtattcctggcctattattgaagtgatatgaactgaagctttagcatatgttttattttct-----ggtataactcct-----tactcttcctc----tttATA----ATCCAGCTAGTTTTATATGTTTACTTTTCAGGCTAATGTAGTAGCA--GTTTTAGTTTGTAGATTTTAG---AG-----CATTC-------------TTTTTTTTTT--TTCCAAAAG---AAATGGTGATGT---AAC---GTTGAGCTCTTATTTCTAAGAACAAGATAAATTGCAGTTTAT---------------------TGAAGGC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60510517 818 + 108143057 ATTTGTTTCAGGGTCAGAAAAGTCAAGACTTTTTCATATG----CTATTTACTTG-----TTTCTTATAAAGTGCCCT----------------------------------------------------------CTTTTATTCATT-----------GA--------------------------------------TATTTTT-G-------------------------------------------CCTA-TTTTTTATGAGTTTGTTCTCTACTTTA--AAAATC-----AATCTGTAAG-GG---TTTTTTCCA----AAATTAATTAGGTCTTTTTTTTGTCCT-GTGTTTCTT------GTAAAATGCTTTTTTCTGATCATAATGTTTTGGGCtttgctgaaa---gag---------ttt----tttt-----tt---aagtattgtctaaatcatc-aaatttagggtttctgaattttgtgcctgcttagaaagatggtctccatccccag--attataaataaatttagtcatgttttcatccagtacttttgtggcttcattgtttactttaaatccttgatccatctggagtttatttttatggaa--gtagtgatttggagatgtggcttcac-----ttttgc--agtgactacattgttatcacagatttattgaaaaagtt------gtctttaccaacagtggtttaaaatgctctctttatggtatttcccatatgtatttgagtctatttctgaact--tcctcctccactgacatttt-tgtatattcctgggccactattgaagtgatcccac-tggagcttcagcatatgtttaattatct-----ggtacaactcct-----cactcttcttcataattt-------ttctagctagttttACGTGTTTATTTTCCAGGCTAATGTAGTAACGTAATTTTATTTTGTAGATTTTAG---GG-------------------------TTTTATTA--A--AAAAAG---AATTGATGACTT---AAT---GTTGAGTCCTTATTTATAGAAACAAAATAAATTATAATTTAT---------------------TGAAGGC
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3549558 832 +  11683526 ATTTGTTTCGAGGTCAGAAAAGTTAAGACTTTTTCATGTG----CCATTTACTTGTTTCCTTTCCTATAAAGTGCCCT----------------------------------------------------------CTTTTATTCATT-----------GG----------------------------------GTT-TTTTTTT-G-------------------------------------------CCTA-TTTTTTATGAGTTTGTTCTCTACTTTA--AAAATC-----AATCTGTAAG-GG--CTTTTTCCCA----AAATTAATTAGGTC--TTTTTTGTCAT-GTGTTTCTT------GTTAAATGCTTTTTT-TGTTCATAATGTTTTAGGCTTTGCTGAAA---GAGTTTTGTTTTTTT----TTtt-----tt---aactattgtctaagtcatc-aaatttatggtttctgcattttgtgcctgcttagaaagaccgtccccatccccag--gttataaataaatttagtcacattttcatccagtacttttatggcttcactgtttactttaaatctttgatccatctggagtttatttttatggaa--gcagtgatttggagacgtggctttac-----ttttcc--aatgactatattattatcacagatttattgaaaaactt------gtctttaccaacactggtttgaaatgctctctttatggtatttcccatatgtatttgagtctgtttctgaact--tcctcttccactgatacttt-tgtgtattcctgggtcattactgaagtgatctgaa--ggagatttagcatatgtttgattatct-----ggtaCAACTCCT-----TACTCTTCTTCATAATTT-------TTCTAGCTAGTTTTATGTGCTTATTTTCCAGGCTAATGTAGTAACATGGTTTTATTTTGTAGATTTTAG---AG-------------------------TTTTTTTA--G--AAAAAG---AATGGATGACTT---AAT---GTTGAGTCCTTATTTCTAAAAACAAAATAAATTGTAATTTAT---------------------TGAAGGC
i proCoq1.NW_012155062v1   I 142 C 0
s otoGar3.GL873679           3034506 815 +   4132165 ATTTGTTTCAGGGTCAGAA-----GAGACTTTTTCATATG----CTATTTAATTGTTTCTTTTCTTATAAAGGGCCCT----------------------------------------------------------CTTTTATTCATG-----------AA----------------------------------TTTATTGTTTT-G-------------------------------------------CCTA--TTTTGATGAGTTTATTCTCGACTTTG--AA---------AATCTGTAAG-GCTTTCTTTTTCTACATTAAGATAATTAAGTG--TTTTTTATTAT-GTGTTTCTT------GTTAAATGCTTTTCC-TTTTTATGATGTTTTAGCCTTTTTTGAGG---------------TTT----TTTTCCCCCtt---cactattgtctaaatcatc-aaatttatggcttctgaattttgtgcccgttcagaaagacag-ccccatccctaa--gttataaatgtatttagtcatgttttcatccagtacttttatggtttcattgtttactttaaatctttgatccatctggagtttatttttatggaa--gtagtgatttg-------cttttagt-----ttttcc--aatgactatattgttattacagatttattgaaaacttt------gactttatccacgctggtttgaagtgccgtctttatggtaatttcaatacgtatttgagtctatttctgaaat--tcctcttttacagatacgtc-cgtgcatttctgggccattattgaagtgattggaactggagctttagcatatgtttcattatct-----ggtggaactcct-----cATCTTACACT----TTT-------TTCTAGCTAGTTTTA--TGTTTATCTTCCAGGCTATTGCAGCAGCATGCTTTAATTTTGTAGATTTTAGTTTAG-------------------------TTTTTCTT--ATTTTAAAG---AATTGATAACTT---AAT---TTTGAGTCATTACTTCTAAAACTAAAATAAATTGCAATTTTT---------------------GGAAGGC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55488658 919 +  90702639 ATTTGTTTCTAGATTAGGAAAGTTGAAGCTTTTTCATATGATGAGCAG---AATGTGTTTTTCCTTATGAAATGACCTTTGGTTCCTTATCATTATTAttgaggcagagtcagtcttgctacatatctaaggctgactttgaactctt-----------aa----------------------------------tactccttgct-gagtctccccaacccttagattacaggcatgcgtcatatcatgtctgg-ctTACTATGTGTGCGTGCCTATTTTTATTAGAATTTTTGCTATTTGTAAG-GC--TGTTT--CTAAAGTAAGA-AATTAG-----GAAGGAGTGGTCACTTTTTCTGTGT--TCTCCCAGGTTTTTC-TGTTCATAAGGTCTTCAGCTGTGCTGACA---------------TTT----TTTT-----TT---CACAGTAGAATAAACAGTT-GAAGCTGTGACTTTCCAATATTGTATCTGCGTGGAAAGACCAACTccatctccag--gttataaataaattcgagcacattctcactgaatacttttatggcttcattgtttactttaaatctttgatccatctggagtttatttttatctga--gtagtg-tttggagctgtggtattacttttttttttccaaaggattgcatagttatcacagatttattgaaaacttt------gtctttatccccactagcttgaagtactctctttatggtaatggccatatgtatctaaatccatttctgaatt--gtc-CTCCCGGTGATATTTTCTATGCATTTCTAGACC-------AGGTGAGATTCATGCCTGTGCCAGC--ATGCTTTAATACCT-----CCCAGAACTGAT-----CAGTCTTCTAC----CTT--------TCTGGCTAGTTT-------TTATTTTCCAGGCTAATTTAGTAATATGCTTTTGTTTTGGAGACTTCGA---AG-----AGTTT---------------TGTTTTAT--TTTTATAGG---AAACGCAGAC-----AGC---ATCAGGTC----TTTGTAAGAATAGGTTT--TTACAATTCAT---------------------TGACGAC
i mm10.chr18               C 0 I 104
s canFam3.chr11             14882542 875 +  74389097 ATTTATTTCAAGGTCAGGAAAGTTGTGAATGTTTCATATATTAACTAC-------TTTTTTTTCTTATGAAGCATCCC----------------------------------------------------------TTTTTGTTTAGTTACTATTTAGAGG----------------------------------GGCCTATTTTT-G-------------------------------------------TATA-TTTAAGATATTTTGTATATCTATCTTA--AAAATC-----AATTTGTAAGTAT--TTTTTTTCAAGATTAAAGAAATTAG-----TT-TCTATCAC-TTATTTCTAGTTTTAGTTAAATG--TCTTC-TGTTCATAATGTTTTAGACCTTGCTGAAA---AGGT--------TTT----CCTT-----TT---AAGTGCTGTTTAAATGATC-AAAtttatggtttctgagttttgtgtctgtctagaaagttcattcccatcccaag--gttattaagaaattcagtcatgttttcatccaatacttttatggtttcattgtttattttaaattgctgatccatctggaatttatttttatgtaa--gaagtgacttgaagatgtgattctat-----tttttc-aaatgactatatagttaccacagatttattaaaaaattc------atctttacccccattagtttgagatgctctctttatgctaattcccatatgtacttgggtttatttctgaactcattctcttccgctgatatttc-tgtgtactcttgggcc--------aaaaacacaAA---------AAGCATATGTTTTATTATCT-----GGTAGAGCTCTT-----TATTTTTCTTC----TTCGGACTATTTCTAGCTAGTTTTATGTGTTTATTTTCCAGACTACTATAGTCACATGGTTTTGTTTTGTAAATTCTAC---AG-----CATTTTGTGGTTGTTATTGTTTTTGTGT--TTTTTGAAA---AATTTCTGTCTT---AACGATGTTGAGTCGTTATTTCTAGGAACAGTTTAGGTTGCATTTTTTTTTTTTTAGGTTGCATTTTAATGAAAGC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2594731 899 +   3667625 atttgtttcaaggtcaggaaggttaagacttttgcaaatgctaactagtta----tctcttttcttatgaagtgcctc----------------------------------------------------------ctcctgttcttt-----------ggcaattggatgtgtgtgtgtgtgtgtgtgtgtggctatgttttgttag-------------------------------------------attt-gtatttattagattgt--tctgttttt--gtaagt-----aatt-----a-at--ttttt--ctaaattaaggaaattaG-----TTTTTCATCAC-ATATTCCTCATTT--GTTAAGTGTGTTTTC-TTTTCATA----CTTTGGCCTTGTCAGCATTTGTGTG-------TGT----TTTT-----CT---GTGTGTTGTCAAAATTATTAAAATTCATTGTTT-tgcattttatatcttcttagaaagaccatgccta-ctccaaagattataaataaattcagtcatgtttttatctagtacttttatggcttcattgtttactttaaatctttgatccatctggagttgattttcatgtaa--gtagtaatttgaagatgtggcataat-----ttttttcaaatgactaaatagttatcacagatttattgaaaaaattcactgaatctttacccccgctgatttgaaatgcttcctgtatgctatttcccatatgtatttaggtgtctttctgaactcattctctgccattgatatatc-tgtgtattcctgggccagttttaaagttataagaactagaactttagcatatgttatatcatctgctaaggtaagtctcttcttactactcttcttc----ctcagattatctCTATCTGGTTTTATTTG-TTATTTTCCAGGTAAATGTAGTAATATGGTTTCAGTTTGTGGCTTCTAG---AGGTTGTTGTTT---------------GTTTTGTT--TTTTAAAGGAATAATTGATGTCTTTACAAT---ATTACTTCTTTATTTCCAAGAACTCAATAGGTTGGTATTTAC---------------------TGAGGAC
i dasNov3.JH567306         C 0 C 0

a score=3532537.000000
s hg38.chr5_KI270796v1_alt     44783 263 +    172708 ATACAGTATGTCTTTCCATAGATTCTGAAAAATGTTCACCTTGTAATGTCCTACACATTC----------------------------------CATATAAAGTTTGTTTTTATAAAGATCTTTCTGTTTGGGACTGTGATTGAGATCTTTTCTTCCATTATATTTTTAAAGTGGTTATTATTTATATATGAGAGTTTATATTT---ATTAACTATATAAATATCATAATGTCTTCATTTGTAACAAATTTCTAG-TTCATTCTATTTTTTCACATATGCAATTATATTATCTGTAAACAA
s panTro5.chr5             125154861 262 + 181907262 ATACAGTATGTCTTTCCATAGATTCTGAAAAATGTTCACCTTGTAATGTCCTACACATTC----------------------------------CATATAAAGTTTGTTTTTGTAAAGATCTTTCTGTTTGGGACTGTGATTGAGATCTTTTCTTCCATTATATTTTTAAATTGGTTATTATTTATATATGAGAGTTTATATTT---ATTAACTATATAAATATCATAATGTCTTCATTTGTAACAAATTTCTAG-TTCATTCTATTTTTTCACATATGCAATTATATTATCTGTAAAC-A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126491810 263 + 183735486 ATACAGTATGTCTTTCCATAGATTCTGAAAAATGTTCACCTTGTAATGTCCTACACATTC----------------------------------CATATAAAGTTTGTTTTTGTAAAGATCTTTCTGTTTGGGACTGTGATTGAGATCTTTTCTTCCATTATATTTTTAAATTGGTTATTATTTATATATGAGAGTTTATATTT---ATTAACTATATAAATATCATAATGTCTTCATTTGTAACAAATTTCTAG-TTCATTCTGTTTTTTCACATATGCAATTATATTATCTGTAAACAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1683317 262 +   8933513 ATACAGTATGTCTTTCCATAGATTCTGAAAAATGTTCACCTTGCAATGTCCTACACATTC----------------------------------CATATAGAGTTT-TTTTTGTAAAGATCTTTCTGTTTGGGACTGTGATTGAGATCTTTTCTTCCATTATATTTTTAAATTGGTTATTATTTATATATGAGAGTTTATATTT---ATTAACTATGTAAATATCATAATGTCTTCATTTGTAACAGATTTCTAG-TTCATTCTATTTTTTCACCTTTGCAATTATATTATCTGTAAACAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139813618 263 + 163208435 ATACAGTATGTCTTTCCATAGATTCTGAAAAATTTTCACCTTGTAATGTCCTACACTTTC----------------------------------CATATAAAGTTTGTTTTTGCAAAGATCTTTCTGTTTGGGACTGCGATTGAGATCTTTTCTTCCATTATATTTTTAAATTGGTTATTATTTATATATGAGAGTTTATATTT---ATTAACTATATAAATATCATAATGTCTTCATTTGTAACAGATTTCTAG-TTCATTCTATTTTTTCACATATGCAATTATATTATCTGTAAACAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122797951 263 + 180051392 ATATAGTATGTCTTTCCATAGATTGTGAAAAATTTTCACCTTGTAATGTCCTACACATTC----------------------------------TGTATAAAGTTTGTGTTTGCAAAGATCTTTCTGTTTGGGACTATGATTAAGATCTTTTCTTCCATTATATTTTTAAATTGGTTATTATTTATATATGAGAGTTTACATTT---ATTAACAATATAAATATCATAATGTCTTCATTTGTAACAAATTTCTAG-TTCATTCTCTTTTTTCATACATGCAATTATATTATCTGTAAACAA
i rheMac8.chr6             C 0 I 259
s macFas5.chr6             124221631 263 + 181584905 ATATAGTATGTCTTTCCATAGATTGTGAAAAATTTTCACCTTGTAATGTCCTACACATTC----------------------------------TGTATAAAGTTTGTGTTTGCAAAGATCTTTCTGTTTGGGACTATGATTAAGATCTTTTCTTCCATTATATTTTTAAATTGGTTATTATTTATATATGAGAGTTTACATTT---ATTAACAATATAAATATCATAATGTCTTCATTTGTAACAAATTTCTAG-TTCATTCTCTTTTTTCATACATGCAATTATATTATCTGTAAACAA
i macFas5.chr6             C 0 I 259
s macNem1.NW_012012355v1    16219322 264 +  18395747 ATATAGTATGTCTTTCCATAGATTGTGAAAAATTTTCACCTTGTAATGTCCTACACATTC----------------------------------TGTATAAAGTTTGTGTTTGCAAAGATCTTTCTGTTTGGGACTGTGATTAAGATCTTTTCTTCCATTATATTTTTAAATTGGTTATTATTTATATATGAGAGTTTACATTT---ATTAACAATATAAATATCATAATGTCTTCATTTGTAACAAATTTCTAGTTTCATTCTCTTTTTTCATACATGCAATTATATTATCTGTAAACAA
i macNem1.NW_012012355v1   C 0 I 271
s cerAty1.NW_012002512v1     5225211 263 +  26952557 ATATAGTACGTCTTTCCATAGATTCTGAAAAATTTTCACCTTGTAATGTCCTACACATTC----------------------------------TGTATAAAGTTTGTGTTTGCAAAGATCTTTCTGTTTGGGACTGTGATTGAGATCTTTTCTTCCATTATATTTTTAAATTGGTTATTATTTATATATGAGAGTTTACATTT---ATTAACAATATAAATATCATAATGTCTTCATTTGTAACAAATTTCTAG-TTCATTCTCTTTTTTCATACATGCAATTATATTATCTGTAAACAA
i cerAty1.NW_012002512v1   C 0 I 271
s chlSab2.chr23             28332808 263 +  82825804 ATATAATATGTCTTTCCATAGATTCTGAAAAATTTTCACCTTGTAATGTCCTACACATTC----------------------------------TGTATAAAGTTTGTTTTTGCAAAGATCTTTCTGTTTGGGACTGTGATTGAGATCTTTTCTTCCATTATATTTTTAAATTGGTTATTATTTATATATGACAGTTTACATTT---ATTAACAATATAAATATCATAATGTCTTCATTTGTAACAAATTTCTAG-TTCATTCTCTTTTTTAACACATGCAATTATACTATCTGTGAACAA
i chlSab2.chr23            C 0 I 276
s manLeu1.NW_012103321v1     3997148 263 -   4237731 ATATAGTATGTCTTTCCATAGATTCTGAAAAATTTTCACCTTGTAATGTCCTACACATTC----------------------------------TGTATAAAGTTTGTGTTTGCAAAGATCTTTCTGTTTGGGACTGTGATTGAGATCTTTTCTTCCATTATATTTTTAAATTGGTTATTATTTATATATGAGAGTTTACATTT---ATTAACAATATAAATATCATAATGTCTTCATTTGTAACAAATTTCTAG-TTCATTCTCTTTTTTCACACATGCAATTATATTATCTGTAAACAA
i manLeu1.NW_012103321v1   C 0 I 271
s colAng1.NW_012119644v1      267436 263 -   1175262 ATATAGTATGTCTTTCCATAGATTCTGAAAAATTTTGACCTTGTAATGTCCTATACAATC----------------------------------TGTGTAAAGTTGGTTTTTGCAAAGATCTTTCTGTTTGGGACTGTGATTGAGATCTTTTCTTCCATTATATTTTTTAATTGGTTATTATTTATATATGAGAGTTTACATTT---ATTAACAATATAAATATCATAATGTCTTCATTTGTAAAAAATTTCTAG-TTCATTCTCTTTTTTCACACATCCAATTATATTATCTGTAAACAA
i colAng1.NW_012119644v1   C 0 I 275
s calJac3.chr2             123607574 290 - 204313951 ATATAGTATGTCTCTCTATAGACTCTGAAAAATTTTCGCCTTGTAATGTCCTACACATTCTTTCTATTTATTTATTTTAATGTCCTACACATTCTATATAAAGTTTGTTTCTGCAAAGATCTTTCTATTTGGGACTATGATTGAGATATTTTCTTCCATTGtattttaaaattcatta---tttatatatgaga-tttatattt---attagctatataaatat---aatatCTTCATTTGTAACAGATTTCTAG-TTCATTCTCTTTTTTGACATATGCAATCATATTATCTGTAAATAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55659797 289 -  71252344 ATATAGTATGTCTTTCTATAGACTCTGAAAAATTTTCACCTTGTAATGTCCTAAACATTCtttttatttatttattttaatGTCCTACATATTCTATATAAAGTTTGTTTCTGCAAAGATCTTTCTATTTGGGGTTATGATTGAGATATTTTCTTCCattatattttaaaattcatta----ttatttatgaga-tttatattt---attagctatataaatat---aaCATCTTCATTTGTCACAGGTTTCTAG-TTCATTCTCTTTTTTGACATATGCAATCATATTATCTGTAAATAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1356947 293 -   1400280 ATATAGTACGTCTTTCTATAGACTCTGAAAAATTTTCACCTTGTAATGTCCTACGCATTCTTTTTATTTATTTATTTTAATGTCCTACATATTTTATATAAAGTTTGTTTCTGCAAAGATCTTTCTATTTGGGACTATGATTGAGATCTTTTCTTCCattatattttaaaattcattattatttatatatgata-tttatattt---attaGCTATATAAATAT---AATATCTTCATTTGTAACAGATTTCTAG-TTCATTCTCTTTTTTGACATATGCAATCATATTATCTGTAAATAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13145537 290 -  42888418 ATATAATATGTCTTTCTATAGACTCTGAAAAATTTTCACCTTGTAATGTCCTACACATTCTTTTTATTTATTTATTTTAATGTCCTACACATTCTATATAAAGTTTGTTTCTGTAAATATCTTTCTATTTGGGACTATGATTGAGATCTTTTCTTCCATTATATTTTAAAATTCATTATTATTTATATATGAGA-TTTATATTT---ATTAGCTATATAAATAT------ATCTTCATTTGTAACAGATTTCTAG-TTCATTCTCTTTTTTGACATATGTAATCTTATTATCTGTAAATAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60511335 245 + 108143057 ATATATTATGTCTTTCAATAGATTCTGAAAA-TTTTTTTCTTGTATTGTCCTACCCATTT----------------------------------CATAT-AATTTTGGTTCTGTAAAGATCTTTCTGCTTGGGACTACAATTGAGATCTTTTCTTTTACTGTATTTTAAAATT-------ATTTATATTTGAGAATTTATATTT---ATTAATTATGTAAATATCATATTGTCTTCATTTGTAACAGATTTC---------TTTC-TTTTTCACATTTGTAATCTTATTACCTGCAAATAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3550390 246 +  11683526 -----TTATGTCTTTCAACAGATTTTGAAAACTTTTCCCCTTGTATTGTCCTGCATATTT----------------------------------CATATAAAGTTTAGCTCTGTGAAGATCTTTCTGCTTGGGAGTACAATTGAGATATTTTCTTTTATTGTGTTTTAAAGTT-------ATTTATATATGAGAATTTATATTT-------ATTATGTAAATATCATATTGTTTTCATTTGTAACACATTTCTAG-TCCATTCTC-TTTTTCACATATGTAATCTTATTACCTGCAAATAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3035321 255 +   4132165 TCATATTGAGTCTTTTAATAGATTCTAAAAATATTTCACCTTGTATTGTCCTACACATCT----------------------------------CATATAAAATTTGGTTCTGTAAAGATCTTTCTGCTTGGAACTACAGTTGAGATCTTTTCCTTTATTGTAGTTTGAAATT-------ATTTTTACATAAGGATTTATATTT---ATTGATTATGTAACTATCATAACATCTTTATTTGTAACAGATTTCTAG-TGCATTCTC-TTTTTCACATATGCAATCATATTACCTGCAAATAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14883417 243 +  74389097 TTTTATTGTGTATTTCAATTGATAATGAAAAATTTTCACCTTATAATATCCTAGAGATTC----------------------------------CTTATAAAGTCA---------------TTGCTACTTGGGACTATGATTGAAATATTTTCTTCCACTATGCTTTT--ATTGGTTATTATTTACATATAAGAATTTATATTC---ATTGAC--TGTAAATATTATA-TGTTTCCATTTGTAATAACCTCCTAG-TTCATTCTCTTTTTTCATATATGTAATCATATTATGGGGAAGTAA
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2595630 253 +   3667625 CTTTATCATGTCTTCAAGTAGATTTTGAAACATTTTCTTCTCATAATGTCGTACAGAATC----------------------------------CTAACTAAGCTT---------TAAACAATTCTTTCTAAGACT--GAATGAGAGCTTAACTTCTATTATATTTTT-AACTGGTTATTATTTGTATATGAGAATTTATATTATCAATTAACTATGTAAAGATTATATTGTCTTCATTAGTAACGGCTTTCCAA-TTCATTATATTTTTTTACATATGTAATCATATTAACTGCAAATA-
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55489577 104 +  90702639 I

a score=1396940.000000
s hg38.chr5_KI270796v1_alt     45046 103 +    172708 CACTTTATCTTTTATTTTTAAATATTTATAATCTGTT--TCAGATTAGTATAATTGTTGGTAGT--ACTGCTCAT--------CTGGGTCCAAAATCAGATATTGCcaagttagt
s panTro5.chr5             125155123 103 + 181907262 CACTTTATCTTTTATTTTTAAATATTTATAATCTGTT--TCAGATTAGTATAATTGTTGGTAGT--ACTGCTCAT--------CTGGGTCCAAAATCAGATATTGCcaagttagt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126492073 103 + 183735486 CACTTTATCTTTTATTTTTAAATATTTATAATCTGTT--TCAGATTAGTATAATTGTTGGTAGT--ACTGCTCAT--------CTGGGTCCAAAATCAGATATTGCcaagttagt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1683579 102 +   8933513 CACTTTATCTTTTA-TTTTAAATATTTATAATCTGTT--TCAGATTAGTATAATTGTTGGTAGT--ACTGCTCAT--------CTGGGTCCAAAATCAGATATTGCcaagttagt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139813881  99 + 163208435 CACTTCATCTTTTATTTTTAAATATTCATAATCTGTT--TCAGATTAGTATAATT----GTAGT--GCTGCTTAT--------CTGGGTCCAAAATCAGATATTGCcaagttagt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122798473 102 + 180051392 cACTTTGCCTTTTATTTTTAAATATTTATCATCTGCT--TCAGATTAGTATAATTGTTGGTAGT--ACTGCTCAT--------CTGGGTCC-AAATCAgacattgccaagttagt
i rheMac8.chr6             I 259 C 0
s macFas5.chr6             124222153 102 + 181584905 cACTTTGCCTTTTATTTTTAAATATTTATCATCTGTT--TCAGATTAGTATAATTGTTGGTAGT--ACTGCTCAT--------CTGGGTCC-AAATCAgacattgccaagttagt
i macFas5.chr6             I 259 C 0
s macNem1.NW_012012355v1    16219857 102 +  18395747 cACTTTGCCTTTTATTTTTAAATATTTATCATCTGTT--TCAGATTAGTATAATTGTTGGTAGT--ACTGCTCAT--------CTGGGTCC-AAATCAgacattgccaagttagt
i macNem1.NW_012012355v1   I 271 C 0
s cerAty1.NW_012002512v1     5225745 102 +  26952557 cACTTTGCCTTTTATTTTTAAATATTTATCATCTGTT--TCAGATTAGTATAATTGTTGGTAGT--ACTGCTCAT--------CTGGGTCC-AAATCAgacattgccaagttagt
i cerAty1.NW_012002512v1   I 271 C 0
s chlSab2.chr23             28333347 102 +  82825804 cACTTTGCCTTTTATTTTTAAATATGTATCATCTGTT--TCAGATTAGTATAATTGTTGGTAGT--ACTGCTTAT--------CTGGGTCC-AAATCAgacattgccaagttagt
i chlSab2.chr23            I 276 C 0
s manLeu1.NW_012103321v1     3997682  98 -   4237731 cACTTTGCCTTTTATTTTTAAA----TATCATCTGTT--TCAGATTAGTATAATTGTTGGTAGT--ACTGCTCAT--------CTGGGTCC-AAATCAgacattgccaagttagt
i manLeu1.NW_012103321v1   I 271 C 0
s colAng1.NW_012119644v1      267974 102 -   1175262 CACTTTGCCTTTTATTTTTAAATATTTATTATCTGTT--TCAGATTAGTATAATTGTTGGTAGT--ACTGCTCAT--------CTGGGTCC-AAATCAgacattgccaagttagt
i colAng1.NW_012119644v1   I 275 C 0
s calJac3.chr2             123607864 103 - 204313951 TACTTTACCTTTTATTGTTAAATATTTATAATTTGTT--TCAGATTAGTATCGTTATTGGTAGT--ACTGCTCAT--------CTGGGTCCAAATTCAGTCATTGCCCACTTAGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55660086 103 -  71252344 CACTTTACCttttattattaaatatttataatttGTT--TCAGATTAGTATCATTATTGGTCGT--ACTGCTCAT--------CTGGGTCCAAATTCAGACATTGCCCACTTGGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1357240 103 -   1400280 CACTTTACCTTTTCTTATTAAATATTTATAATCCATT--TCAGATTAGTATCATTATTGGTAGT--ACTGGTCAT--------CTGGGTCCAAATTCAGACATTGCCCACTTAGT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13145827 103 -  42888418 CACTTTACCTTTTATTATTAAATATTTATAATCTGTT--TCAGATTAGTATCATTATTGGTAGT--ACTGCTCAT--------CTGGGTCCAAATTCAGACATTGCCCACTTAGT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60511580 102 + 108143057 TATTTGATCTTTGATTTAGAAATATTTATAATCCATT--TCAAATTAGTATAATTGTCAG-AGT--ACTGCTCAT--------CTGAGTTCAAATTCAGACACTggcaagtttgt
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3550636 102 +  11683526 TATTTGATCTTTTATTTATGAATATTTATAGTCTGTT--TCCAATTAGTATAATTGTCAG-AGT--ACCACTCAT--------CTGGGTTCAAATTCAgacattggcgagtttgt
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3035576 101 +   4132165 TATTGTACCTTTTCTTTATAGATG-TTATGGTCTGTT--TCAGGTTAGTATAACTGTCAG-TAT--GTTGCTCAC--------CTGAGTTCAAATTCAGATGTTGCcaagttaat
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14883663 105 +  74389097 TATTTT-CATTTTCTTTTCAAATGCTGATAGTCTCTTTCTCGGATTAGTATAATTGCTGATAGTAAACTGCTCAT--------CGGGGTTC-AATGCAAACATTGTCAAATTAGT
i canFam3.chr11            I 3 I 228
s dasNov3.JH567306           2595883 110 +   3667625 -TTTTTACCTTTTCTTTTCAAATATTGATCATTCGTT--TCAGATTAGTATAATTGCTGATATT--ACTGGTCATCGAATTGCCTGGGTTCAAGTTCAAACACTGCcaagttaat
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55489577 104 +  90702639 I

a score=3526048.000000
s hg38.chr5_KI270796v1_alt     45149 231 +    172708 gaaacgttctgatcctcagttttctcatctgtaaaatgctgagaagggcagcacttaccccaaagggataatataatgatccagttag-taa-gt----gtacaaagcaa-ttagcaaaatgccgagaacataataagcatttacaaatgttaatcattgttTTA-TTTTT-TCTCAAAGTTAATTACAGAGTCTAGTCTTTTATTATCATCATTAAATAATATTAATAGCAATTTTAAA
s panTro5.chr5             125155226 231 + 181907262 gaaacgttctgatcctcagttttctcatctgtaaaatgctgagaagggcagcacttaccccaaagggataatataatgatccagttag-taa-gt----gtacaaagcaa-ttagcaaaatgccgagaacataataagcatttacaaatgttaatcattgttTTA-TTTTT-TCTCAAAGTTAATTACAGAGTCTAGTCTTTTATTATCATCATTAAATAATATTAATAGCAATTTTAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126492176 231 + 183735486 gaaacgttctgatcctcagttttctcatctgtaaaatgctgagaagggcagcacttaccccaaagggataatataatgatccagttag-taa-gt----gtacaaagcaa-ttagcaaaatgccgagaacataataagcatttacaaatgttaatcattgttTTA-TTTTT-TCTCAAAGTTAATTACAGAGTCTAGTCTTTTATTATCATCATTAAATAATATTAATAGCAATTTTAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1683681 231 +   8933513 gaaacgttctgatcctcagttttctcatctgtaaaatgctgagaagggcagcacttaccccaaagggataatatgatgatccagttag-taa-gt----gtacaaagcaa-ttagcaaaatgccgagaacataataagcatttacaaatgttaatcattgttTTA-TTTTT-TCTCAAAGTTAATTGCAGAGTCTAGTCTTTTATTATCATCATTAAATAATATTAATAGCAATTTTAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139813980 231 + 163208435 gaaatgttctgatcctcagtttcctcatctgtaatatgctgagaagggcagtacttaccccaaagggataatataatgatccagttag-taa-gt----gtataaagcaa-ttagcaaaatgctaagaacataataagcatttacaaatgttaatcattgttTTA-TTTTT-TCTCAAAGTTAATTGCAGAGTCTAGACTTTTATTATCATCATTAAATAATATTAATAGCAATTTTAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122798575 232 + 180051392 gaaatgttgtgaccctcagtttcctcatctgtaaaatgctgagaagggcagtgcttacctaaaagggacaatataatgatccagttag-taatgt----gtataaagcaa-ttagcaaaatgcctagaacataataagcatttacaaatgttaatcattgttTTA-TTTTT-TCTCAAAGTTAATTGCAGAGTCTAGTCTTTTATTATCATCATTAAATAATATTAATAGCAATTTTAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124222255 232 + 181584905 gaaatgttgtgaccctcagtttcctcatctgtaaaatgctgagaagggcagtgcttacctaaaagggacaatataatgatccagttag-taatgt----gtataaagcaa-ttagcaaaatgcctagaacataataagcatttacaaatgttaatcattgttTTA-TTTTT-TCTCAAAGTTAATTGCAGAGTCTAGTCTTTTATTATCATCATTAAATAATATTAATAGCAATTTTAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16219959 232 +  18395747 gaaatgttgtgaccctcagtttcctcatctgtaaaatgctgagaagggcagtgcttacctaaaagggacaatataatgatccagttag-taatgt----gtataaagcaa-ttagcaaaatgcctagaacataataagcatttacaaatgttaatcattgttTTA-TTTTT-TCTCAAAGTTAATTGCAGAGTCTAGTCTTTTATTATCATCATTAAATAATATTAATAGCAATTTTAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5225847 232 +  26952557 gaaatgttgtgaccctcagtttcctcatctgtaaaatgctgagaagggcagtgcttacctaaaagggacaatataatgatccagttag-taatgt----atataaagcaa-ttagcaaaatgcctagaacataataagcatttacaaatgttaatcattgttTTA-TTTTT-TCTCAAAGTTAATTGCAGAGTCTAGTCTTTTATTATCATCATTAAATAATATTAATAGCAATTTTAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28333449 232 +  82825804 gaaatgttgtgaccctcagtttcctcatctgtaaaatgctgagaagggcagtgcttacctaaaagggacaatataatgatccagttag-taatgt----gtataaagcaa-ttagcaaaatgcctagaacataatatgcatttacaaatgttaatcattgttTTA-TTTTT-TCTCAAAGTTAATTGCAGAGTCTAGTCTTTTATTATCATCGTTAAATAATATTAATAGCAATTTTAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3997780 232 -   4237731 gaaatgttgtgaccctcagtttcctcatctgtaaaatgctgagaagggcagtgcttacctaaaagggacaatataatgatccagttag-taatgt----gtataaagcaa-ttagcaaaatgcctagaacataataagcatttacaaatgttaatcattgttTTA-TTTTT-TCTCAAAGTTAATTGCAGAGTCTAGTCTTTTATTATCATCATTAAATAATATTAATAGCAATTTTAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      268076 230 -   1175262 gaaatgttgtgaccctcagtttcctcatctgtaaaatgctgagaagggcattgcttacctaaaagggacaatataatgatccagttag-taatgt----gtataaagcaa-ttagcaaaatgcctagaacataataagcacttacaaatgttaatcattgttTTA-TTTTT-TCTCAAAGTTAATTGCAGAGTCTAGTCTTTTATTATCATCATTAAATAATATT--TAGCAATTTTAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123607967 231 - 204313951 GAAATATtctgatcctcggtttcctcgtctttaaaatgctgagaagggcagttcttaccc-acagggataatgtaataatccagttag-taatgt----gtataaagcaa-ttagcaaactgcctagaacataataagcatttacaaacattaatcattgttTTA-TTTTT-TCTCAGTGTTAATTGTGAAGTCTAGTCTTTTATTATCATCATTAAATAATATTAATAGCAATTTTAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55660189 232 -  71252344 GAAATGTtctgatcctcagtttccttgtctttaaaatgctgagaagggcagttcttaccc-acagggataatataatgatccagttag-taatat----gtataaagcaa-ttagcaaaatgcctagaacataataagcatttacaaatgttaatcattgttTTATTTTTT-TCTCAGTGTTAATTGTGGAGTCTAGTCTTTTATTATCATCATTAAATAATATTAATAGCAATTTTAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1357343 231 -   1400280 GAAATGTtctgatcctcagtttcctcatctttaaaatgctgagaagggcagttcttaccc-acagggataatataatgatccagttag-taatgt----gtataaagcaa-ttagcaaaatgcctagaacataataagcatttacaaatcttaatcattgttTTA-TTTTT-TCTCAGTGTTAATTGCGGAGTCTAGTCTTTTATTATCATCATTAAATAATATTAATAGCAATTTTAAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13145930 231 -  42888418 GAAATGTtctgatcctcagtttcctcatctttaaaatgctgagaagggcagttcttaccc-acagggataatataataatccagttag-taatgt----gtataaagcaa-ttagcaaaatgcctagaacataataagcatttacaaatgttaatcattgttTTA-TTTTT-TCTCAGTGTTAATTGCAGAGTCTAGTCTTTTATTATCATCATTAAATAATATTAATAGCAATTTTAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60511682 236 + 108143057 gaaacgttctgatcctcagtttcctaatctagaaaatactgagaatgatagcacttaccacatagggataatgcaaagattcagttag-caatttctaattgcaaaacaa-ttaaaaaaatgcctagaacataataagcaatcaagaatgttaatcattgttTTA-TTTTT-CCTTGAACTTAATTGCACAGTCTAGTCTTTTATTGTCATCATTAAATAATATTAATAACAACTTTAAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3550738 232 +  11683526 gaaatgttctgattctcagtttcctcatctataaaatgctgagagtgatggaacttaccacacggggataatgcaaagatccagttag-taatgt----gtgtaaagcaa-ttagcaaaatgcctagaacataataagcattcatgaatgttaatcattgttTTA-TTTTT-CCTCGAAGTTAATTGCATAGTCTAGTTTTTTATTGTCATCATTAAATAATATTAATAGCAATTTTAAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3035677 230 +   4132165 gaaatgttgtgatcctgggtttcctc-tccgtaaaatgctgagaatggtagcacttaacacacagggataatgcaaagatccaggtag-taatgt----gtatgaagcaa-ctagcaagatgcctaaaacagaatatgctttcaaaaatattattcattgcttta-tttttCCCTCAAAGTTAATTGCATAGTCTAATC--TTACTATCATCATGGAATAATATTAATAGAAATTTTATA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14883996 229 +  74389097 aaaaaGTTCTAATccttagttttctcatctgtaaaatgtagagaatagcagtatttaccctgtaagggcaatttaaagatgaaattgg-taatgt----gtacaaagcaa-ttagcaaaatgcctagaacataatacactctcaaaaatgttaattattgttTTA-TTTTT-CCTCAAAGTTAGTTAAATAGTCTCGTATTTTA---TCATCATTAAATAATGTTAATAGTCATTTTAAA
i canFam3.chr11            I 228 C 0
s dasNov3.JH567306           2595993 217 +   3667625 -taatgttctaaacctcagtgatctcatgtgtaacatgtggagaatgatagtacctaccccatagagataaagaaaagatccagttagatgatgt----atataaaaaaatttagcagaatacctagcatctaataagtgctcaaaaatgttA----------TA--TTTT-CCTAAAAATTAATTGCA-----CAGTCTTTTAAAATCCCCATTAAATAACATTAATAGCAATTTTTAT
i dasNov3.JH567306         C 0 I 410
e mm10.chr18                55489577 104 +  90702639 I

a score=486308.000000
s hg38.chr5_KI270796v1_alt     45380 33 +    172708 TGACTTTTAATGTTGATATGTGGAATGGCCTAA
s panTro5.chr5             125155457 33 + 181907262 TGACTTTTAATGTTGATATGTGGAATGGCCTAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126492407 33 + 183735486 TGACTTTTAATGTTGATATGTGGAATGGCCTAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1683912 33 +   8933513 TGACTTTTAATGTTGATATGTGGAATGGCCTAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139814211 33 + 163208435 TGACTTTCAATGTTGATATGTGGAATGGCCTAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122798807 33 + 180051392 TGACTTTCAGTGTTGATATGTGGAATGGCCTAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124222487 33 + 181584905 TGACTTTCAGTGTTGATATGTGGAATGGCCTAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16220191 33 +  18395747 TGACTTTCAGTGTTGATATGTGGAATGGCCTAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5226079 33 +  26952557 TGACTTTCAGTGTTGATATGTGGAATGGCCTAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28333681 33 +  82825804 TGACTTTCAGTGTTGATATGTGGAATGGCCTAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3998012 33 -   4237731 TGACTTTCAGTGTTGATATGTGGAATGGCCTAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      268306 33 -   1175262 TGACTTTCAATGTTGATACGTGGAATGGCCTAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123608198 22 - 204313951 TGACTTTCAGTGTTGGTATGTG-----------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55660421 33 -  71252344 TGACTTTCAGTATTATTATGTGGACTGACCCAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1357574 33 -   1400280 TGACTTTCAGTATTGGTATGTGGAATGACCTAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13146161 33 -  42888418 TGACTTTCAGTGTTGGTATGTGGAATGACCTAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60511918 25 + 108143057 TGACTTTCAATGTTGATA--------GACCTAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3550970 33 +  11683526 TGGCTTTCAATGTTGATGTGTAGAATGGCTTAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3035907 33 +   4132165 TGACTTTCAGTGTTGATGTGTGGAATGGTCTCG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14884225 33 +  74389097 TGACTTTCAATAATGATGTGTGAAATGGCCTAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2596620 33 +   3667625 tgattttcaatgttCATGTGTGGAAGGCCCTAA
i dasNov3.JH567306         I 410 C 0
e mm10.chr18                55489577 104 +  90702639 I

a score=8066266.000000
s hg38.chr5_KI270796v1_alt     45413 584 +    172708 TGGTCTATGTGCAGAG-------TATTGATTATAGTATAGTGAACATAGAGTCTAGATTTTCTAGAGCTACCACAGCGTGCAATTTTATTATTTTAAATAAAGGCAATAAATTATTATGAATCTAGATGGCACTTAATT----TTATGTT-----TCTGTGAGATATAAATATAAGTGAATTCACAAAGTGGAAAAAGAATGATGATAGTAGGAAGCTTTGATTAATATTTCATTCT-----TTAATGGAAATATTTATTACTTTGTATTTATATCCTAAATATT--------TATT--TAC--GCTT--TATCTTTCCTGATTTT---AAAAAAGTAGGCATCATACTTAGTTGACTGATCTGCAGCGTCAGTTGAGAAAATTGACAGAACCTTATATGGCGTGTTGCCCCAAAAAGACATTCAATAAATATTGTTTGAGTAAAGGCACAAATAAATAAAT--CTA----------ACGATTAAGAA--ATAAATGGACTCAGAGAGTATATATTTTTTTCCAGATTCCACAGGAT-----------GCGAGCATATGCAGTGGAAACATTGTG-TTATTCCATCCTCAGAAGAAAAGAGACAGTATTATACTTCGTCTCTTGCTAGTACAGGTAACATTCTTTATT
s panTro5.chr5             125155490 584 + 181907262 TGGTCTATGTGCAGAG-------TACTGATTATAGTATAGTGAACATAGAGTCTAGATTTTCTAGAGCTACCACAGCATGCAATTTTATTATTTTAAATAAAGGCAATAAATTATTATGAATCTAGATGGCACTTAATT----TTATGTT-----TCTGTGAGATATAAATATAAGTGAATTCACAAATTGGAAAAAGAATGATGATAGTAGGAAGCTTTGATTAATATTTCATTCT-----TTAATGGAAATATTTATTACTTTGTATTTATATCCTAAATATT--------TATT--TAC--GCTT--TATCTTTCCTGATTTT---AAAAAAGTAGGCATCATACTCAGTTGACTGATCTGCAGCGTCAGTTGAGAAAATTGACAGAACCTTATATGGTGTGTTGCCCCAAAAAGACATTCAATAAATATCGTTTGAGTAAAGGCACAAATAAATAAAC--CCA----------ACGATTAAGAA--ATAAATGGACTCAGAGAGTATATATTTTTTTCCAGATTCCACAGGAT-----------GCGAGCATATGCAGTGGAAACATTGTG-TTATTCCATCCTCAGAAGAAAAGAGACAGTATTATACTTCATCTCTTGCTAATACAGGTAACATTCTTTATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126492440 584 + 183735486 TGGTCTATGTGCAGAG-------TACTGATTATAGTATAGTGAACATAGAGTCTAGATTTTCTAGAGCTACCACGGCGTGCAATTTTATTATTTTAAATAAAGGCAATAAATTATTATGAATCTAGATGGCACTTAATT----TTATGTT-----TCTGTGAGATATAAATATAAGTGAATTCACAAATTGGAAAAAGAATGATGATAGTAGGAAGCTTTGATTAATATTTCATTCT-----TTAATGGAAATATTTATTACTTTGTATTTATATCCTAAATATT--------TATT--TAC--GCTT--TATCTTTCCTGATTTT---AAAAAAGTAGGCATCATACTCAGTTGACTGATCTGCAGCATCAGTTGAGAAAATTGACAGAACCTTATATGGTGTGTTGCCCCAAAAAGACATTCAATAAATATCGTTTGAGTAAAGGCACAAATAAATAAAC--CCA----------ACGATTAAGAA--ATAAATGGACTCAGAGAGTATATATTTTTTTCCAGATTCCACAGGAT-----------GCGAGCATATGCAGTGGAAACATTGTG-TTATTCCATCCTCAGAAGAAAAGAGACAGTATTATACTTCATCTCTTGCTAATACAGGTAACATTCTTTATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1683945 576 +   8933513 TGGTCTATGTGCAGAG-------TACTGATTATAGTATAGTGAACATATAGTCTAGATTTTCTAGAGCTACCACAGCGTGCAATTTTATTATTTTAAATAAAGGCAATAAATTATTATGAATCTAGATGGCACTTAATT----TTATGTT-----TCTGTGAGATATAAATATAAGTGAATTCACAAATTGGAA----AATGATGATAGTAGGAAGCTTTGATTAATATTTCATTCT-----TTAATGGAAATATTTATTACTTTGTATTTATATCCTAAATATT--------TATT--TAC--ACTT--TATCTTTCCTGATTTT---AAAAAAGTAGGCATCATACTCAGTTGACTGATCTGCAGTGTCAGTTGAGAAAATTGACAGAACCTTATATGGTGTGTTGCCCCAAAAAGACATTCAATAAATATCGTTTGAGTAAAGGCAC----AAATAAAC--CCA----------ACGATTAAGAA--AAAAATGGACTCAGAGAGTATATATTTTTTTCCAGATTCCACAGGAT-----------GCAAGCATATGCAGTGGAAACATTGTG-TTATTCCATCCTCAGAAGAAAAGAGACAGTATTATACTTCGTCTCTTGCTAGTACAGGTAACATTCTTTATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139814244 584 + 163208435 TGGTCTATGTGCAGAG-------TACTGATTATAGTATACTGAACATATAGTCTACATTTTCCAGAGCTACCACAGCATGCAATTTTATTATTTTAACTAAAGACAATAAATTATTATGAATCTAAATGGCACTTAATT----TTATGTT-----TCTGTGAGATATAAATATAAGTGAATTCAGAAATTGGAAAAAGAATGGTGATAGTAGGAAGCTTTGATTAGTATTTCATTCT-----TTAATGGAAATATTTATTACTTTGTATTTATATCCTAAGTCTT--------TATT--TAC--GCTT--TATCTTTCCTGATTTT---AAAAAAGTAGGCATCATACAAAGTTGACTGATCTGCAATGTCAGTTGGGAAAATTGACAGAACCTTATATGGTGTGTTGCCGCAAAAAGACATTCAATAAATATCGTTTGAGTAAAGGCACAAATAAATAAAC--CCA----------ACGATTAAGAA--ATAAATGGACTCAGAGAGTATATATTTTTTTCCAGATTCCACAGGAT-----------GCGAGCATATGCAGTGAAAACATTGTG-TTATTCCATCCTCGGAAGAAAAAAGACAGTATTATACTTCATCTCTTGGTAGTACAGGTAACATTCTTTATT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122798840 579 + 180051392 TGGTCTCTGTGCAGAG-------TACTGATTATAGTATAGTGAACATATAGTCTAGATTTTCCAGAGCTACCATAGCATGCAATTTTATTATTTTAAATAAAAACAATAAATTATTATAAATCTAAATGACACTTAATT----TTATGTT-----TCTGTGAGATATAAATATAAGTGAATTCACAAATTGGAAAAAGAATGGTGATAGTAGGAAGCTTTGATTAATATTTCATTCT-----TTTATGGAAATATTTATTACTTTTTATTTATATCATAAG------------TATT--TAC--GCTT--TATCTTTCCTGATTTT---AAAAAAGTAGACATCATATTCAGTTGACTGATCTGCAACGTCAGTTGGGAAAATTGacagaaccttatatggtgtgttgcccgaaatagacattcaataaatatcctttgaGTAAAGGTACAAATAAATAAAC--CCA----------ACGATTAGGAA--ATAAATGGACTCAGAGAGTATATA-TTTTTTCCAGATTCCACAGGAT-----------GCGAGCATATGCAGTGGAAACATTGTG-TTATTCCATCCTCAGAAGAAAAGAGACAGTATTATACTTCATCTCTTACTAGTACATGTAACATTCTTTATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124222520 579 + 181584905 TGGTCTCTGTGCAGAG-------TACTGATTATAGTATAGTGAACATATAGTCTAGATTTTCCAGAGCTACCATAGCATGCAATTTTATTATTTTAAATAAAAACAATAAATTATTATAAATCTAAATGACACTTAATT----TTATGTT-----TCTGTGAGATATAAATATAAGTGAATTCACAAATTGGAAAAAGAATGGTGATAGTAGGAAGCTTTGATTAATATTTCATTCT-----TTTATGGAAATATTTATTACTTTTTATTTATATCATAAG------------TATT--TAC--GCTT--TATCTTTCCTGATTTT---AAAAAAGTAGACATCATATTCAGTTGACTGATCTGCAACGTCAGTTGGGAAAATTGACAGAACCTTATATGGTGTGTTGCCCGAAATAGACATTCAATAAATATCCTTTGAGTAAAGGTACAAATAAATAAAC--CCA----------ACGATTAGGAA--ATAAATGGACTCAGAGAGTATATA-TTTTTTCCAGATTCCACAGGAT-----------GCGAGCATATGCAGTGGAAACATTGTG-TTATTCCATCCTCAGAAGAAAAGAGACAGTATTATACTTCATCTCTTACTAGTACATGTAACATTCTTTATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16220224 579 +  18395747 TGGTCTCTGTGCAGAG-------TACTGATTATAGTATAGTGAACATATAGTCTAGATTTTCCAGAGCTACCATAGCATGCAATTTTATTATTTTAAATAAAAACAATAAATTATTATAAATCTAAATGACACTTAATT----TTATGTT-----TCTGTGAGATATAAATATAAGTGAATTCACAAATTGGAAAAAGAATGGTGATAGTAGGAAGCTTTGATTAATATTTCATTCT-----TTTATGGAAATATTTATTACTTTTTATTTATATCATAAG------------TATT--TAC--GCTT--TATCTTTCCTGATTTT---AAAAAAGTAGACATCATATTCAGTTGACTGATCTGCAATGTCAGTTGGGAAAATTGacagaaccttatatggtgtgttgcccgaaatagacattcaataaatatcctttgaGTAAAGGTACAAATAAATAAAC--CCA----------ACGATTAGGAA--ATAAATGGACTCAGAGAGTATATA-TTTTTTCCAGATTCCACAGGAT-----------GCGAGCATATGCAGTGGAAACATTGTG-TTATTCCATCCTCAGAAGAAAAGAGACAGTATTATACTTCATCTCTTACTAGTACATGTAACATTCTTTATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5226112 579 +  26952557 TGGTCTCTGTGCAGAG-------TACTGATTATAGTATAGTGAACATATAGTCTAGATTTTCCAGAGCTACCATAGCATGCCATTTTATTATTTTAAATAAAAACAATAAATTATTATAAATTCAAATGACACTTAATT----TTATGTT-----TCTGTGAGATATAAATATAAGTGAATTCACAAATTGGAAAAAGAATGGTGATAGTAGGAACCTTTGATTAATATTTCATTCT-----TTTATGGAAATATTTATTACTTTTTATTTATATCATAAG------------TATT--TAC--GCTT--TATCTTTCCTGATTTT---AAAAAAGTAGACATCATATTCAGTTGACTGATCTGCAACGTCAGTTGGGAAAATTGacagaaccttatatggtgtgttgcccgaaatagacattcaataaatatcctttgaGTAAAGGTAAAAATAAATAAAC--CCA----------ACAATTAGGAA--ATAAATGGACTCAGAGAGTATATA-TTTTTTCCAGATTCTACAGGAT-----------GCGAGCATATGCAGTGGAAACATTGTG-TTATTCCATCCTCAGAAGAAAAGAGACAGTATTATACTTCATCTCTTACTAGTACATGTAACATTCTTTATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28333714 580 +  82825804 TGGTCTCTGTGCAGAG-------TACTGATTATAGTATATTGAACATATAGTCTAGATTTTCCAGAGCTACCATAGCATGCAATTCTATTATTTTAAATAAAAACAATAAATTATTATGAATCTAAATGACACTTAATT----TTATGTT-----TCTGTGAGATATAAATATAAGTGAATTCACAAATTGGAAAAAGAATGGTGATAGTAGGAAGCTTTGATTAATATTTCATCCT-----TTTATGGAAATATTTATTACTTTTTATTTATATCATAAG------------TATT--TAC--GCTT--TATCTTTCCTGATTTT--AAAAAAAGTAGGTATCATATTCAGTTGACTGATCTGCAACGTCAGTTGGGAAAATTGACAGAACCTTATATGGTGTGTTGCCCGAAATAGACATTCAATAAATATCCTTTGAGTAAAGGTACAAATAAATAAAC--CCA----------ACGATTAAGAA--ATAAATGGACTCAGAGAGTATATA-TTTTTTCCAGATTCCACAGGAT-----------GTGAGCATATGCAGTGGAAACATTGTG-TTATTCCATCCTCAGAAGAAAAGAGACAGTATTATACTTCATCTCTTACTAGTACATGTAACATTCTTTATT
i chlSab2.chr23            C 0 I 490
s manLeu1.NW_012103321v1     3998045 579 -   4237731 TGGTCTCTGTGCAGAG-------TACTGATTATAGTATAGTGAACATATAGTCTAGATTTTCCAGAGCTACCATAGCATGCAATTTTATTATTTTAAATAAAAACAATAAATTATTATAAATCTAAATGACACTTAATT----TTATGTT-----TCTGTGAGATATAAATATAAGTGAATTCACAAATTGGAAAAAGAATGGTGATAGTAGGAAGCtttaattaatatttcattct-----tttatggaaatatttattactttttatttatATCATAAG------------TATT--TAC--GCTT--TATCTTTCCTGATTTT---AAAAAAGTAGACATCATATTCAGCTGACTGATCTGCAACGTCAGTTGGGAAAATTGacagaaccttatatggtgtgttgcccgaaatagacattcaataaatatcctttgaGTAAAGGTAAAAATAAATAAAC--CCA----------ACGATTAGGAA--ATAAATGGACTCAGAGAGTATATA-TTTTTTCCAGATTCCACAGGAT-----------GCGAGCATATGCAGTGGAAACATTGTG-TTATTCCATCCTCAGAAGAAAAGAGACAGTATTATACTTCATCTCTTACTAGTACATGTAACATTCTTTATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      268339 583 -   1175262 TGGTCTATGTGCAGAG-------TACTGATTATAGTATAGTGAACATATAGTCTAGATTTTCCAGAGCTACCATAGCATGCAATTTTATTATTTTAAATAAAAACAATAAGTTATTATGAATCTAAATGACACTTAATTAATATTAATTA-----ATTGTGAGATATAAATATAAGTGAATTCACAAATTGGAAAAAGAATGGTGATAGTAGGAAGCTTTGATTAATATTTCATTCT-----TTAATGGAAATATTTATTACTTTTTATTTATATCATAAG------------TATT--TAT--GCTT--TATCTTTCCTGATTTT---AAAAAAGTAGGCATCATATTCAGTTGACTGATCTGCAACGTCAGTGGGGCAAATTGACAGAACCTTATATTGTGTGTTACCCCAAATAGACATTCAATAAATATTCTTTGAGTAAAGGCACAAATAAATAAAT--CCA----------ACGATTAAGAA--ATAAATGGACTCAGAGAGTATATA-TATTTTCCAGATTCCACAGGAT-----------GCGAGCATATGCAGTGGAAACATTGTA-TTATTCCATCCTCAGAAGAAAAGAGACAGTATTTTACTTCATCTCTTGCTAGTACATGTAACATTCTTTATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123608220 559 - 204313951 --GTCTATGTGCAGAT-------TATTGATTATATTATAGTGAACATATAGTCTAGATTTTCCAGAACTATCATA-CATGCAATTTTATTATTTTAAATACAGACAGTAAATTATTATGAATCTGAATGGCCCTTAGTT----TCATGTT-----TCTGTGAGCTATAAATATAAGTGAATTCATAAATTGGAAAAAGCATGGTGATAATAGGAAACTTTGATTACTGTTTCATTCT-----------------------------TATTTATATTGTAAGTATT--------TATT--TAC--GCTT--TATCTTTCCTGATTAAAAAAAAAAAGTAGGCATTATACTCAGTTGACTCATCTGCACCATCAGTTGGGAAAATTGACAGAACCTTATATGGTGTGTTGCCCCAAATAGATATTCGATAAATATCCTTTGAGTAAAAGCACAAATAAATAAGC--CCA----------ACGATTAAGAA--ATAAACGGACTCAGAGAGTATATA-TTTTTTCTAGATTCCACAGGAT-----------GTGAACATATGCAGTGGAAACATTGTG-TTATTCCATCCTCAGAAGAGAAGGGACAGTATTATACTTCATCTCTTGCTAGTACATGTAACATTCTTTAAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55660454 561 -  71252344 TAGTATATGTGCAGAA-------TATTGATTATATTATAGTGAACATATATTCTAGATTTTCCGGCACTACCGTA-CATGCTATTTTATTATTTTAAATACAGGCAATAAATTATTATGAATCTGAATGGCACTTAGTT----TTATGTT-----TCTGTGAGATATAAATATAAGTGAATTCATAAATTGAAAAAAGCATGGTGATAATAGGAAACTTTGATTACTGTTTCATTCT-----------------------------TATTTATATTGTAAGTATT--------TATT--CAC--GCTT--TATCTTTCCTGATTAAAAAAAAAAAGTAGGCATCATACTCAGTTGACTCATCTGCACCATCAGTTGGGAAAGTTGACAGAACCTTATATGGTGTGTTGCCCCAAACAGACATTCAATAAATATCCTTTGAGTAAAGGCACAAATAAATAAGC--CCA----------ACAATTAAGAA--ATAAACGGACTCAGAGGGTATATA-TTTTTTCTAGATTCCACAGGAT-----------GTGAGCATATGCGGTGGAAACATTGTG-TTATTCCATCCTCAGAAGAAAAGGGACAGTATTATACTTTATCTCTTGCTAGTACATGTAACATTCTTTAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1357607 561 -   1400280 TGGTCTATGTGCAGAA-------TATTGATTATATTATAGTGAACATATAGTCTAGATTTTCCAGAACTACCATA-CATGCAATTTTATTATTTTAAATACAGACAATAAATTATTATGAATCTGAATGGCATTTAGTT----TTATGTT-----TCCGTGAGATATAAATATAAGTGAATTCATAAATTGGAAAAAGCATGGTGATAATAGGAAACTTTGATTACTGTTTCATTCT-----------------------------TATTTATATTGTAAGTATT--------TATT--TAC--ACTT--TATCTTTCCTGATTTAAAAAAAAAAGTAGGCATCATACAAAGTTGACTTATCTGCACCATCAGTTGTGAAAACTGACAGAACGTTATATGGTGTGTTGCCCCAAACAGACATTCGATAAATATCCTTTGAGTAAAGGCACAAATAAATAAGC--CCA----------ACGATTAAGAA--ATAAACGGACTCAGAGGGTATATA-TTTTTTCTAGATTCCACAGGAT-----------GTGAGCATATGCAGTGGAAACATTGTG-TTATCCCATCCTCAGAAGAAAAGGGACAGCGTTATGCTTCACCTCTTGCTAGTACATGTAACATTCTTTAAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13146194 559 -  42888418 TGGTCTATGTGCAGAG-------TATTGATTATATTATAGTGAACATATAGTCTAGATTTTCCAGAACTACCATA-CATGCAATTTTATTATTTTAAATACAGACAATAAATTATTTTGAATCTGAATGACCCTTAGTT----TTATGTT-----TCTGTGAGATATAAATATAAGTGAATTCATAAATTTGAAAAAGCATGGTGATAATGGGAAACTTTGATTACTGTTTCATTAT-----------------------------TATTTATATTGTAAGTATT--------TATT--TAT--GCTT--TATCTTTCCTGATT-AAAAAAAAAAGTAGGCATCATACTCAGTTGACTCATCTGCACCATCTGTTGGGAAAATTGACAGAACCTTATATGGTGTGTTGCCCCAAATAGACATTTGATAAAGATGCTTTGAGTAAAGGCACAAATAAATAAGC--CCA----------ATGATTAAGAA--ATAAACGGACTCAGAGA-TATATA-TTTTTTCTAGATTCCACAGGAT-----------GTGAGCATATGCAGTGGAAACATTGTG-TTATTCCATCCTCAGAAGAAAAGAGACAGTATTATACTTCATCTCTTGCCAGTATATGTAACATTCTTTAAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60511943 586 + 108143057 TGATTTGTGTGCAGTgtatagaatatagattatagtatagtaaacatgtagtctagATTTTCCAGAGCTACCAAATCATGAAATTTTATTATTTTAAATAAAAATAATAAATTATTGTGAATCTAAATGAC----AATT----TTATGTTATGTCTTTGTGAG------ATATAAGTGAATTCACAAATTAGAAAAGGAATAATGATAGTAGGAAGTCTTGTTTTATGTTTTATTCTTAATTTTAAAGGAAATATTTATCACTGTTTATTTATATTGTAAGTATT--------TATTCATAA--GTTA--TATCTTTCCTGATA-----GAAACGGTAGGCACCATGCTCAGTGGACTCCTCTGCAGTATCAACTTGAAGAATTAACAGAACCTTCTGTGGTGTATT-TCCAAAGCAGGCATCCAATAAATATCCTTTGAGTAAAGGCACAGATAAATAAAC--CCA----------GCCATGAAGAA--ATAAATGGAATCAGAGAGTATATA-TTTTT-CCAGGTTCTATGGGGT-----------ACAAGCATATGCAGTGGAAACACTG---TTATTCTATCTTCAGAAGACAGGAGACAGTACCATACTTTATCTCTCCCTAGTACATGTAACATTCTTTAAT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3551003 580 +  11683526 TGGTCTGTGTGCAGTG-------TGTAGATTATAGTGTATTAAGCATACAGTCTGGATTTTCCAGAGCTACCAAATCATGAAATTTTATTATTTTAAATAAAAATAATAAATTATTGTGAATCTAAATGAC----AATT----TTATGTTACGTTTTTGTGAG------AGATAAGTGAATTCATAAATTAGAAAAGGAATGATGATAGTAGGAAGCCTTGTTTTATGTTTTATTCTTAATTTTAATGGAAATATTTATCACTGTTTATTTATATCATAAGTATT--------TATTTATAT--GTTA--TATCTTTCCTGATA-----GAAAAGGCAGGCACTGGGCTCAGTGGACTCCTCTGCAGCATCGATTTGAAGAATTAACAGAGTCTTCTGTGGTGTATTGTCCAAAGCAGGCATCCAATAAATATCCTTTGAGTAAAGGCACAAATAAATAACC--CCA----------ACCAT--AAGA--ATAAACGGAATCAGATAGTATATC-TTTTT-CCAGGTTCTATGGGGT-----------ACAAGCATATGCAGTGGAAACACTGTT-TTATTCTATCTTCAGAAGACAGGAGACAGTACCATACTTTATCTCTCCCTAGTACATGTAACATTCTTTAAT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3035940 565 +   4132165 -----TCTGTGCAGTG-------TATAAATAATACTACAGTAATCCTATAATCCAGATTTTCCAGAGCTACCATATCATGCAATTTTATTA-TTTAAGGAAAAACAGTACTTCATTGTGAATCTAAACAGC----ACTT----TTATGTT-----TTTGTGAA------ACATAAGTGAATTCACAAATTAGAAAAGGAATGATGATCACAGGAAGTC-----TTATGTTTTATTCTTAATGTCAATGGAAATATTTATTAGTGTTTATTGATATCACAAATATT--------TATTTGTAT--ATTA--TATCTTTCCTAAAA-----GAAAAGGGAGGCACCACGCTCAGTAGACTCATCTGCATTATGCATTTGAAATATTAACTGAAGCTTCTGTGGTGTGCTGCTTAATATAGGCATTCAATAAATATCCTTTAAGCAAAGGCACAAATAAATAAAC--CCA----------ACCATGAAGAA--ATAAATGGAATCAGAGAGTATGTA-TTTTT--CAGGTTCCAGGGGGT-----------ATAAACAAATGCAATGGAAACACCCTG-TTATTCTATCTTTAGCAGATAAGAAACAGTATCTTACTTTCTCTCTCCCTAGGACATGTAACATTCTTTAAT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55489681 576 +  90702639 TGATTTGTATGTAGTA-------CACATGTCATGGTATAGCAAACATGAACTCTAAATTGGACAGGGCTACAATATTTTTCAGTTTCATTATTTTAAGTA-AGGCCGCAAATTATTGATAAACTCAGTGGCACTTAAGT----GTATGTA-----T---TAAAAT----ATCTTAGTGGTTTTATAAATTAGAAAAAGAA----------------CTTTGATTTACATCTGATCCTCACTTGTGATAGAAATATTTATC---CTATCTTTATGTCATAAGTATTTCGTTACACATT--TACCTGCCT--TCTCTTTTCTTGTC-----GAAAAGTT--------TGCTTGATAGTCTCATTTGTATTATTAAGTTTTCAAACTGATGGAACTTTCTATCATGCACAGCTCATGATAGGC-TTTGGTAACTATTCTTTGAATAGAGACACAAAAAAATAAAC--AAGTTCTGAAGACATAATGAACAATGATAAGCAACCTCTGAGGAAGTTCA-------CCAAATTCAATAAACTTTAGTAACTCGGAGAGCACATG-AATGGACAGTGCATG-TCATTCTACCCTCACAAGATAAGAGACGTCGCCCCACAGGAGCAGGTTACAGTGTACACGACATCTTTTAAC
i mm10.chr18               I 104 C 0
s canFam3.chr11             14884258 561 +  74389097 TGGTTTATTTGTAGTG-------TAGGGATTATAGCATGATAAACGTACAGTGTAGACTTAACAGGGTTACAATATCATGCaattttattattttaaataaaGAC--TAAATTCTTGTGAAACTAAAAGTCACTTAATT----TACATTT-----TTGGTGAA------ATATGAGTGAATTCACAGATTAGAGAAAGGGTGAGGATAATGGGAAGTCTTGCATTATGTTAGATTCTTAACTTTAGTGGAAGTATTTATCACCTTATATTTGTATCATATGTATT--------GATT--TAC--ATTTTCTATCTTCCTTGATA-----GAAGACATAGGTGCCATGCTCAGTCAAATCATCTGCATGGTCAATTTGGGCAAATGACAAACACTTCTG------------------GCACATTCAATAAA-ATACTTTGGGTAATGGCACAGATAAACAAACAGTTA----------AT-ATGAAGAA--ATAAATGGAATCACAAACTATATA-TTTTT-CTAGGTTTCACAGGGT-----------CCAAGCATATGCAATAGAAACATTGTG-GTATCCCATCCTCAGCTGACAAGAAACAGTATCCTACTTCATCTGTCCATAATGCATATAACATTCTTCAAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2596653 543 +   3667625 TGATCCATGCG------------T----------CTATAGTCAACATTCAGCTTCAGTTTTCTAAGGCTAGAATATCATGTAATTTTATTATTTTCAATAAAGGCAATCAATTA-GGGGAAACTAAATGGCACTTAATT----TTACTTT-----TTTGAAAG------ATATAAGTGAATTCACAAATTGAGAAAGGAGTGGTGATAGTGAGAAGTCTTACTTTATGTTTTACTCTTAACCTTAGTGGAAAAAATTACTACTTTATATTTGTATT----GGATT--------TATC--TACATGTTT--TTTTTTCCCTGATA-----GAAAAGATACATGCCATACTCAGTTGATTCATGTCCATGGTCAATTT-GCCAATTGATAGAA-----------------CCCAAAGTAGTCATTCAATAAATACTCTTTGAATAAAAGTCCAACTAAACAAAC--CCC----------CTATGAAAAAA--ATAAATGGACTTACATACTGTTTA-TTTTG-CCAGAATTCACAGTGT-----------CCAGATATTAGCAATGGAAATGTTGTGATTATTCCATCCTCTGAAGACAGGAGA-GTTATCATACTTCATCTCTTCCTAATGTTTATAACATTCTTCAAT
i dasNov3.JH567306         C 0 C 0

a score=16273704.000000
s hg38.chr5_KI270796v1_alt     45997 907 +    172708 AAGAGAAATATATTTAATCAGGAGTCACTATGTGCAAAAACATTAA-GTAGAGGCTTAAAATGTTAAATACTCTTTCATCAAGGAAG----G-TTTTG--TTT-TTTTTTTTCCTTAATGCACATGTGTTAAATCTTACTCTAATCAGCTA---G-------T-TTTTT-TCTTTTACTCAGAGTGGAAATTGCGGGTATCTTGTTTTTACTGTAAAACCTGATTTATATGCCTCAGCTAAATGCAGAGATTTCATTTGTGAATGCTAGTCAGTGATTTATTTCATTGTTTTCTTTTTTGGACAAGTCACAGCAAAATA-----TTTTTTTTTCAAGCAGGATGGCATT---AACCTTTTCTGATTGCAAAGCCACT---CTCCTAGCAAT-ATCAATAATACTTTGTCATTTCGGTCAGTTACTTTACTACATTTGGTAAACAAATAAATACAGCCCTACATA----TCAAAAAACTAAAATGACCAGTTTGAGAATCAGCCCTTTGATAATCATCTACAACAGATTTTGGAGCCTCCGTAATATTTCAAAGAATTGGCCTTTTTCCAGTTGCTGCTGATATTGGGATTTGAGTTAATTGCCGATGCATCTCAAACA-ACAGAGC----------AGGTGCTAGTGGAAAGAACA-TTCCCTGTATTTTC-TTTGTTATTTATAGTCAGAGCTCTTCTCCACTAAACCCTTGAGCTGGCTTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAATG-------GAAAAATGCTGGCTAAAGCACCACAGCCCTACATGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAAGAATGACCTACTATCTTTCTAGTGTCCTTATCATTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACACTGGGGAGTTAAGGGCCTGTGCAGGC
s panTro5.chr5             125156074 908 + 181907262 AAGAGAAATATATTTAATCAGGGATCACTATGTGCAAAAACATTAA-GTAGAGGCTTAAAATGTTAAATACTCTTTCATCAAGGAAG----G-TTTTG--TTT-TTTTTTTTCCTTAATGCACATGTGTTAAATCTTACTCTAATCAGCTA---G-------T-TTTTT-TCTTTTACTCATAGTGGAAATTGCGGGTATCTTGTTTTTACTGTAAAACCTGATTTATATGCCTCAGCTAAATGCAGAGATTTCATTTGTAAATGCTAGTCAGTGATTTATTTCATTGTTTTCTTTTTTGGACAAGTCACAGCAAAATA----TTTTTTTTTTCAAGCAGGATGGCATT---AACCTTTTCTGATTGCAAAGCCACT---CTCCTAGCAAT-ATCAGTAATACTCTGTCATTTCGGTCAGTTACTTTACTACATTTGGTAAACAAATAAATACAGCCCTACATA----TCAAAAAACTAAAATGACCAGTTTGAGAATCAGCCCTTTGATAATCATCTACAACAGATTTTGGAGCCTCTGTAATATTTCAAAGAATTGGCCTTTTTCCAGTTGCTGCTGATATTGGGATTTGAGTTAATTGCCGATGCATCTCAAACA-ACAGAGC----------AGGTGCTAGTGGAAAGAACA-TTCCCTGTATTTTC-TTTGTTATTTATAGTCAGAGCTCTTCTCCACTAAACCCTTGAGCTGGCTTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAATG-------GAAAAATGCTGGCTAAAGCACCACAGCCCTACATGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAAGAATGACCTACTATCTTTCTAGTGTCCTTATCATTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACACTGGGGAGTTAAGGGCCTGCGCAGGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126493024 905 + 183735486 AAGAGAAATATATTTAATCAGGGATCACTATGTGCAAAAACATTAA-GTAGAGGCTTAAAATGTTAAATACTCTTTCATCAAGGAAG----G-TTTTG----T-TTTTTTTTCCTTAATGCACATGTGTTAAATCTTACTCTAATCAGCTA---G-------T-TTTTT-TCTTTTACTCATAGTGGAAATTGCGGGTATCTTGTTTTTACTGTAAAACCTGATTTATATGCCTCAGCTAAATGCAGAGATTTCATTTGTGAATGCTAGTCAGTGATTTATTTCATTGTTTTCTTTTTTGGACAAGTCACAGCAAAATA-----TTTTTTTTTCAAGCAGGATGGCATT---AACCTTTTCTGATTGCAAAGCCACT---CTCCTAGCAAT-ATCAGTAATACTCTGTCATTTCGGTCAGTTACTTTACTACATTTGGTAAACAAATAAATACAGCCCTACATA----TCAAAAAACTAAAATGACCAGTTTGAGAATCAGCCCTTTGATAATCATCTACAACAGATTTTGGAGCCTCTGTAATATTTCAAAGAATTGGCCTTTTTCCAGTTGCTGCTGATATTGGGATTTGAGTTAATTGCCGATGCATCTCAAACA-ACAGAGC----------AGGTGCTAGTGGAAAGAACA-TTCCCTGTATTTTC-TTTGTTATTTATAGTCAGAGCTCTTCTCCACTAAACCCTTGAGCTGGCTTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAATG-------GAAAAATGCTGGCTAAGGCACCACAGCCCTACATGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAAGAATGACCTACTATCTTTCTAGTGTCCTTATCATTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACACTGGGGAGTTAAGGGCCTGTGCAGGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1684521 907 +   8933513 AATAGAAATATATTTAATCAGGAGTCACTATGTGCAAAAACATTAA-GTAGAGGCTTAAAATGTTAAATACTCTTTCATCAAGGAAG----G-TTTTGTTTTT-TTTTTTTTCCTTAATGCAC--GTGTTAAATATTACTCTAATCAGCTA---G-------T-TTTTT-TCTTTTACTCATAGTGGAAATTGCGGGTATCTTGTTTTTACTGTAAAACCTGATTTATATGCTTCAGCTAAATGCAGAGATTTCATCTGTGAATGCTAGTCAGTGATTTATTTCATTGTTTTCTTTTTTGGACAAGTCACAGCAAAATA-----TTTTTTTTTCAAGCAGGATGGCATT---AACCTTTTCTGATTGCAAAGCCACT---CTCCTAGCAAT-ATCAGTAATACTCTGTCATTTCGGTCAGTTACTTTACTACATTTGATAAACAAATAAATACAGCCCTACATA----TCAAAAAAGTAAAATGACCAGTTTGAGAATCAGCCCTTTGATAATCATCTACAACAGATTTTGGAGCCTCTATAATATTTCAAAGAATTGGCCTTTTTCCAGTTCCTGCTGATATTGGGATTTGAGTTAATTGCCGATGCATCTCAAACA-ACAGAGC----------AGGTGCTAGTGGAAAGAACA-TTCCCTGTATTTTC-TTTGTTATTTATAGTCAGAGCTCTTCTCCACTAAACCCTTGAGCTGGCTTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAATG-------GAAAAATGCTGGCTAAAGCACCACAGCCCTACATGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAAGAATGACCTACTATCTTTCTAGTGTCCTTATCATTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACACTGGGGAGTTAAGGGCCGGTGCAGGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139814828 910 + 163208435 AATAGAAATATATTTAATCAGGAGTCAGTATGTGCAAAAACATTAA-GTAGAGGCTTAAAATGTTAAATACTCTTTCATCAAGGAAG----G-TTTT---TTT-TTTTTTCTGCTTAATGCACATGTGTTAAATCTTACTCTAATCAGCTA---T-------T-TTTTT-TCTTTTACTCATAGTGGAAATTGCGGATATCTTGTTTTTACTGTAAAACCTGATTTATAAGCTTCAGCTAAATGGAGAGATTTCATTTGTGAATGGTAGTCGGTGATTTATTTCATTGTTTTCTTTTTTGGACAAGTCACTGCAAAATATTTTTTTTTTTTTTCAAGCAGGATAGCATT---AACCTTTTCTGATTGCAATGCTACT---CTCCTAGCAAT-ATCAATAATACTTTGTCATTTCGGTCAGTTACTTTACTACATTTGATAAACAAATAAATACAGCCCTACATA----TCAAAAAACTGAAATGACCAGTTTGAGAATCA-CCCTTTGATAATCTTCTACAACAGATTTTGGAGCCTCTGTAATATTTCAAAGAATTGGCCTTTTTCCAGTTGCTGCTGATATTGGGATTTGAGTTAATTGCCGATGCATCTCAAACA-ACAGAGC----------AGGTGCTGGTAGAAAGAACA-TTCCCTGTATTTTC-TTTGTTATTTATAGTCAGAGCTCTTCTCCACTAAACCCTTGAGCTGGCTTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAATG-------GAAAAATGCTGGCTAAAGCACCACAGCCCTACATGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAAGAATGACCTACTATCTTTCTAGTGTCCTTATCATTTTCCCATCTGGAGAGGGCTAAACCTTACTGTACACTGGGGAGTTAAGGGCCTGTGCAGGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122799419 910 + 180051392 AAGAAAAATGTATTTAATCAGGAGTCACTGTGTGCAAAAACATTAACGTAGAGGCTTAAAATGTTAAACACTCTTTCATCAAGGAAG----G-TTTTATTTTT-TTTTTTCTCCTTATTGCACATGTGCTAAATCTTACTCTAATCAGCTA---G-------T-TTTTT-TCTTTCACTCATGGTGGAAATTGCAGATAACTTGTTTTTACTGTAAAACCTGATTTATATGCTTCAGCTAAATGCAGAGATTTCATTTATGAATGCTAGTCAGTGATTTATTTCATTGTTTTCTTTTTTGGACAAGTCACTGCAAAATA-----TTTTTTTTCCAAGCAGGATGGCATT---AACCTTTTCTGATTGCAAAGCCACT---CTCCTGGCAAT-ATCAATAATACTTTGTCATTTCTGTCAGTTACTTTACCACATTTGATAAACAAATAAATACAGCCCTAACTA----TCAAAAAACCAAAATGACCAGTTTGAGAATCAGTCCTTTGATAATCATCTACAACAGATTTTGAAGCCTCTGTCATATTTCATAGAATTGGCCTTTTTCCAGTTGCTGCTGATATTGGGATTTGAGTTAATTGCCGATGCATCTCAAACA-ACAGAGC----------AGGTGCTAGTAGAAAGAACA-TTCCTTGTGTTTTC-TTTGTTATTTATAGTCAGAGCTCTTCACCACTAAACCCTTGAGCTGGCTTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAATG-------GAAAAATGCTGGCTAAAGCACCACAGCCCTACATGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAAGAATGACCTACTATCTTTCTAGTGTCCTTATCATTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACACTGGGGAGTTAAGGGCCTGTGCAGGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124223099 910 + 181584905 AAGAAAAATGTATTTAATCAGGAGTCACTGTGTACAAAAACATTAACGTAGAGGCTTAAAATGTTAAACACTCTTTCATCAAGGAAG----G-TTTTATTTTT-TTTTTTCTCCTTATTGCACATGTGCTAAATCTTACTCTAATCAGCTA---G-------T-TTTTT-TCTTTCACTCATGGTGGAAATTGCAGATAACTTGTTTTTACTGTAAAACCTGATTTATATGCTTCAGCTAAATGCAGAGATTTCATTTATGAATGCTAGTCAGTGATTTATTTCATTGTTTTCTTTTTTGGACAAGTCACTGCAAAATA-----TTTTTTTTCCAAGCAGGATGGCATT---AACCTTTTCTGATTGCAAAGCCACT---CTCCTGGCAAT-ATCAATAATACTTTGTCATTTCTGTCAGTTACTTTACCACATTTGATAAACAAATAAATACAGCCCTACCTA----TCAAAAAACCAAAATGACCAGTTTGAGAATCAGTCCTTTGATAATCATCTACAACAGATTTTGGAGCCTCTGTCATATTTCATAGAATTGGCCTTTTTCCAGTTGCTGCTGATATTGGGATTTGAGTTAATTGCCGATGCATCTCAAACA-ACAGAGC----------AGGTGCTAGTAGAAAGAACA-TTCCTTGTGTTTTC-TTTGTTATTTATAGTCAGAGCTCTTCACCACTAAACCCTTGAGCTGGCTTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAATG-------GAAAAATGCTGGCTAAAGCACCACAGCCCTACATGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAAGAATGACCTACTATCTTTCTAGTGTCCTTATCATTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACACTGGGGAGTTAAGGGCCTGTGCAGGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16220803 910 +  18395747 AAGAAAAATGTATTTAATCAGGAGTCACTGTGTGCAAAAACATTAACGTAGAGGCTTAAAATGTTAAACACTCTTTCATCAAGGAAG----G-TTTTATTTTT-TTTTTTCTCCTTATTGCACATGTGCTAAATCTTACTCTAATCAGCTA---G-------T-TTTTT-TCTTTCACTCATGGTGGAAATTGCAGATAACTTGTTTTTACTGTAAAACCTGATTTATATGCTTCAGCTAAATGCAGAGATTTCATTTATGAATGCTAGTCAGTGATTTATTTCATTGTTTTCTTTTTTGGACAAGTCACTGCAAAATA-----TTTTTTTTCCAAGCAGGATGGCATT---AACCTTTTCTGATTGCAAAGCCACT---CTCCTGGCAAT-ATCAATAATACTTTGTCATTTCTGTCAGTTACTTTACCACATTTGATAAACAAATAAATACAGCCCTACCTA----TCAAAAAACCAAAATGACCAGTTTGAGAATCAGTCCTTTGATAATCATCTACAACAGATTTTGGAGCCTCTGTCATATTTCATAGAATTGGCCTTTTTCCAGTTGCTGCTGATATTGGGATTTGAGTTAATTGCCGATGCATCTCAAACA-ACAGAGC----------AGGTGCTAGTAGAAAGAACA-TTCCTTGTGTTTTC-TTTGTTATTTATAGTCAGAGCTCTTCACCACTAAACCCTTGAGCTGGCTTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAATG-------GAAAAATGCTGGCTAAAGCACCACAGCCCTACATGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAAGAATGACCTACTATCTTTCTAGTGTCCTTATCATTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACACTGGGGAGTTAAGGGCCTGTGCAGGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5226691 911 +  26952557 AAGAAAAATGTATTTAATCAGGAGTCACTGTGTGCAAAAACATTAATGTAGAGGCTTAAAATGTTAAACACTCTTTCATCAAGGAAG----Gttttttttttt-ttttttCTCCTTATTGCACATGTGCTAAATCTTACTCTAATCAGCTA---G-------T-TTTTT-TCTTTCACTCATGGTGGAAATTGCAGATAACTTGTTTTTACTGTAAAACCTGATTTATATGCTTCAGCTAAATGCAGAGATTTCATTTATGAATGCTAGTCAGTGATTTATTTCATTGTTTTCTTTTTTGGACAAGTCACTGCAAAATA-----TTTTTTTTCCAAGCAGGATGGCATT---AACCTTTTCTGATTGCAAAGCCACT---CTCCTGGCAAT-ATCAATAATACTTTGTCATTTCTGTCAGTTACTTTACCACATTTGATAAACAAATAAATATAGCCCTACCTA----TCAAAAAACTAAAATGACCAGTTTGAGAATCAGTCCTTTGATAATCATCTACAACAGATTTTGGAGCCTCTGTAATATTTCATAGAATTGGCCTTTTTCCAGTTGCTGCTGATATTGGGATTTGAGTTAATTGCCGATGCATCTCAAACA-ACAGAGC----------AGGTGCTCGTAGAAAGAACA-TTCCTTGTGTTTTC-TTTGTTATTTATAGTCAGAGCTCTTCACCACTAAACCCTTGAGCTGGCTTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATGAATTAAAATG-------GAAAAATGCTGGCTAAAGCACCGCAGCCCTACATGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAAGAATGACCTACTATCTTTCTAGTGTCCTTATCATTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACACTGGGGAGTTAAGGGCCTGTGCAGGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28334784 909 +  82825804 aagaaaaaTATATTTAATCAGGAGTCACTGTGTGCAAAAACATTAAGGTAGAGGCTTAAAATGTTAAATACTCTTTCATCACGGAAG----G-TTTTA-TTTT-TTTTTTCTCCTTATTGCACATGTGCTAAATCTTACTCTAATCAGCTA---G-------T-TTTTA-TCTTTCACTCATGGTGGAAATTGAAGATAACTTGTTTTTACTGTAAAACCTGATTTATATGCTTCAGCTAAATGCAGAGATTTCATTTATGAATGCTAGTCAGTGATTTATTTCATTGTTTTCTTTTTTGGACAAGTCACTACAAAATA-----TTTTTTTTCCAAGCAGGATGGCATT---AACCTTTTCTGATTGCAAAGCCACT---CTCCTGGCAAT-ATCAATAATACTTTGTCATTTCTGTCAGTTACTTTACCACATTTGATAAACAAATAAATACAGCCCTACCTA----TCAAAAAACTAAAATGACCAGTTTGAGAATCAGTCCTTTGATAATCATCTACAACAGATTTTGGAGCCTCTGTAATATTTCATAGAATTGGCCTTTTTCCAGTTGCTGCTGATATTGGGATTTGAGTTAATTGCCGATGCATCTCAAACA-ACAGAGC----------AGGTGCTAGTAGAAAGAACA-TTCCTTGTGTTTTC-TTTGTTATTTATAGTCAGAGCTCTTCACCACTAAACCCTTGAGCTGGCTTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAATG-------GAAAAATGCTGGCTAAAGCACCACAGCCCTACATGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAAGAATGACCTACTATCTTTCTAGTGTCCTTATCATTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACACTGGGGAGTTAAGGGCCTGTGCAGGC
i chlSab2.chr23            I 490 C 0
s manLeu1.NW_012103321v1     3998624 910 -   4237731 GAGAAAAATGTATTTAATAAGGAGTCACTGTGTGCAAAAACATTAACGTAGAGGCTTAAAATGTTAAACACTCTTTCATCAAGGAAG----G-TTTTATTTTT-TTTTTTCTCCTTATTGCACATGTGCTAAATCTTACTCTAATCAGCTA---G-------T-TTTTT-TCTTTCACTCATGGTGGAAATTGCAGATAACTTGTTTTTACTGTAAAACCTGATTTATATGCTTCAGCTAAATGCAGAGATTTCATTTATGAATGCTAGTCAGTGATTTATTTCATTGTTTTCTTTTTTGGACAAGTCACTGCAAAATA-----TTTTTTTTCCAAGCAGGATGGCATT---AACCTTTTCTGATTGCAAAGCCACT---CTCCTGGCAAT-ATCAATAATACTTTGTCATTTCTGTCAGTTACTTTACCACATTTGATAAACAAATAAATACAGCCCTACCTA----TCAAAAAACCAAAATGACCAGTGTGAGAATCAGTCCTTTGATAATCATCTACAACAGATTTTGGAGCCTCTGTAATATTTCATAGAATTGGCCTTTTTCCAGTTGCTGCTGATATTGGGATTTGAGTTAATTGCCGTTGCATCTCAAACA-ACAGAGC----------AGGTGCTCGTAGAAAGAACA-TTCCTTGTGTTTTC-TTTGTTATTTATAGTCAGAGCTCTTCACCACTAAACCCTTGAGCTGGCTTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATGAATTAAAATG-------GAAAAATGCTGGCTAAAGCACCGCAGCCCTACATGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAAGAATGACCTACTATCTTTCTAGTGTCCTTATCATTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACACTGGGGAGTTAAGGGCCTGTGCAGGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      268922 911 -   1175262 AAGAAAAATATATTTAATCAGAAGTCACTGTGTGCAAAAACATTAAGGTAGAGGCTTAAAATGTTAAATACTCTTTCATCAAGGAAG----G-TTTTATTTTTATTTTTTCTCCTCATTGCACATGTGCTAAATCTTACTCTAATCAGCTA---G-------T-TTTTT-TCTTTCACTCATAGTGGAAATTGCAGATAACTTGTTTTTACTGTAAAACTTGATTTATATGCTTCAGCTAAATGCAGAGATTTCATTTATGAATGCTAGTCAGTGATTTATTTCATTGTTTTCTTTTTTGGACAAGTCACTGCAAAATA-----TTTTTTTTCCAAGCAGGATGGCATT---AACCTTTTCTGATTGCAAAGCCACT---CTCCTGGCAGT-ATCAATAATACTTTGTCATTTCTGTCAGTTACTTTACCACATTTGATAAACAAATAAATACAGCCCTACATA----TCAAAAAACTAAAATGACCAGTTTGAGAATCAGTCCTTTGATAATCGTCTACAACAGATTTTGGAGCCTCTGTAATATTTCATAGAATTGGCCTTTTTCCAGTTGCTGCTGCTATTGGGATTTGAGTTAATTGCCGATGCATCTCAAACA-ACAGAGC----------AGGTGCTAGTAGAAAGAACA-TTCCTTGTATTTTC-TTTGTTATTTATAGTCAGAGCTCTTCACCACTAAACCCTTGAGCTGGCTTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAATG-------GAAAAATGCTGGCTAAAGCACCACAGCCCTACATGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAAGAATGACCTACTATCTTTCTAGTGTCCTTATCATTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACACTGGGGAGTTAAGGGCCTGTGCAGGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123608779 905 - 204313951 AAGAGAAATATATTTAATCAGGAGTCACTATGTGCAAGAACATTAA-GTAGAGGTTTAAAATGTTAAATACCTCTTCATCAAGGAAG--TTT-T------TTT-TTTTTTCTCCTTAATGCACTTGTGTTAAATCTTACTCTAATCAGCTA---G-------TGTTTTT-TCTTTTACTCATAGTGGAAATTGCAGATATCTTGTTTTTACTGTAAAACCTGATTTATATGCTTCAGCTAAATGCAGAGATTTCATTTATGAATGCTAGTCTGTGATTTATTTCATTGTTTTCTTTTTTGGACAAGTAACTGCAAAATA-----TCTTTTTTTCAAACAGGATGGTATT---AACCTTTTCTGATTGCAAAGCCACT---CTACTAGCAAT-ATCAACAATACT-TGTCATTTCTGTCAGTTACTTTATTACATTGGATAAACAAATAAATACAGCCCCACATA----TCAAAAAACTAAAATAACCAGTTTGAGAATTAGCCCTTTGATAATCATCTACAACAGATTTTGGAGCCTCTGTAATATTTCAAAGAATTGGCCTTTTTCCAGTTGCTGCTGATATTGGGATTTGAGTTAATTGCAGATGCATCTTGAACA-GCAGAGC----------AGGTGCTGGTAGAAAGAACA-TTCCCTGTATTTTC-TTTGTTATTTATGGTTGGAGTTCTTCTCCACTAAACCCTTGAGCCGGCTTTTTAGAGCCCACCGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAATG-------GAAAAATGCTGGCTAAAGCACTGCAGCCCTACACGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAGGAATGACCTATTATCTTTCTAGTGTCCTTATCATTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACGCTGGGGAGTTCAGGGCCTGTGCAGGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55661015 901 -  71252344 CAGAGAAATATATTTAATCAAGAGTCACTATGTGCAGAACCATGAA-GTAGAGGTTTAAAATGTTAAATACTCCTTCATCAAGGAAG----G-T------TTT-TTTTTTCTCCTTAATGCACTTGTGTTAAATCTTACTCTAATCAGCTA---G-------TGTTTTT-TCTTTTACTCATAGTGGAAATTGCAGATATCTTGTTTTTACTGTAAAATCTGATTTATATGCTTCAGCTAAATGCAGAGATTTCATTTATGAATGCTAGTCTGTGATTTATTTCATTGTTTTCGTTTTTGGACAAGTCACTGCAAAATA-----TC-TTTTTTCAAGTAGGATGGTATT---AACCTTTTCTGATTGCAAAGCCACT---CTACTAGCAAT-ATCAATAATACT-TGTCATTTCTGTCAGTTACTTTATTACATTTGATAAACAAATAAATACAGCCCCACATA----TCAAAAAACTAAAATAAGCAGTTTGAGAATCAACCCTTTGATAATCATCTACAACAGA-TTTGGAGCCTCTGTAATATTTCAAAGAATTGGCCTTTTTCCAGTTGCTGCTGATATTGGGATTTGAGTTAATTGCCGATGCATCTCAAACA-GCAGAGC----------AGGTGCTGGTAGAAAGAACA-TTCCCTGTATTTTC-TTTGTTATTTATAGTCGGAGTTCTTCTCCACTAAACCCTTGAGCCGGCTTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAATG-------GAAAAACGCTGGCTAAAGCACTGCAGCCCTACACGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAGGAATGACCTACTATCTTTCTAGTGTCCTTATCATTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACGCTGGGGAGTTAAGGGCCTGTGCAGGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1358168 908 -   1400280 AAGAGAAATATATTTAATCAGGAGTCACTATGTGCATAAACACTAA-GTAGAGGTTTAAAATGTTAAATACTCCTTCATCAAAGAAGGTTTT-T------TTT-TTTTTTCTCCTTAATGTACTTGGGTTAAATCTTACTCTAATCAGCTA---G-------TGTTTTT-TCTTTTACTCTTAGTGGAAATTGCAGATATCTTGTTTTTGCTGTAAAACCTGATTTATATGCTTCAGCTAAATGCAGAGATTTCATTTGTGAATGCTAGTCTGTGATTTATTTCATTGTTTTCTTTTTTGGACAAGTCACTGCAAAATA-----TCTTTTTTTCAAGCAGGATGGTATT---AACCTTTTCTGATTGCAAAGCCACT---CTACTAGCAAT-ATCAATAATACT-TGTCATTTCTGTCAGTTACTTTATTACATTTGATAAACAAATAAATACAGCCCCACATA----TCAAAAAACTAAAATAACCAGTTTGAGAATGAGCCCTTTGATAATCATCTACAATAGATTTTGGAGCCTCTGTAATATTTCAAAGAATTGGCCTTTTTCCAGTTGCTGCTGATTCTGGGATTTGAGTTAATTGCCGATGCATCTCAAACA-GCAGAGC----------AGGTGCTGGTAGAAAGAACA-TTCCCTGTATTTTCTTTTGTTATTTATGGTCGGAGTTCTTCTCCACTAAACCCTTGAGCCGGCTTTTTAGAGCCCACTGTGTAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAAAG-------GAAAAATGCTGGCTAAAGCACTGCAGCCCTACAAGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAGGAATGACCTACTATCTTTCTAGTGTCCTTATCATTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACACTGGGGAGTTAAGGGCCTGTGCAGGC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13146753 903 -  42888418 AAGAGAAATATATTTAATCAGGAGTCACTATGTGCAAAAACATTAA-GTAGAGGTTAAAAATGTTAAATACTCCTTCATCAAGGAAG----G-T------TTT-TTTTTTCTCCTTAATGCACTTGTGTTAAATCTTACTCTAATCAGCTA---G-------TGTTTTT-TCTTTTACTCATAGTGGAAATTGCAGTTATCTTGTTTTTACGGTAAAACCTGATTTATATGCTTCAGCTAAATGCAGAGATTTCATTTATGAATCCTAGTCTGTGATTTATTTCATTGTTTGCTTTTTTGGACAAGTCACTGCAAAATA-----TCTTTTTTTCAAGCAGGATGGTATT---AACCTTTTCTGATTGCAAAGCCACT---CTACTAGCAAT-ATCAATAATACT-TGTCATTTCTGTCAGTTACTTTATTACATTTGATAAACAAATAAATACAGCCCCACATA----TCAAAAAACTAAAATAACAAGTTTGAGAATCAGCCCTTTGATAATCATCTACAACAGATTTTGGAGCCTCTGTAATATTTCAAAGAATTGGCCTTTTTCCAGTTGCTGCTGATATTGGGATTTGAGTTAATTGCCGATGCATCTCAAACA-GCAGAGC----------AGGTGCTGGTAGAAAGAACA-TTCCCTGTATTTTC-TTTGTTATTTATAGTCGGAGTTCTTCTCCACTAAACCCTTGAGCTGGCTTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAATG-------GAAAAACGCTGGCTAAAGCACTACAGCCCTACACGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAGGAATGACCTACTATCTTTCTGGTGTCCTTATCATTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACGCTGGGGAGTTAAGGGCCTGTGCAGGC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60512529 901 + 108143057 AAGAGCAAGATATTTAATCAGGAACCACTATGTGCA-AAACATTGA-GTAGAGGTTTGAAATGTTAAATGCTCTTTCATCAGGGAAG----G------------TTTTTCCTCTTTAATGCACATGTGTTAAATCTTACTCTAATCAGCTA---GGTTT--TT-TTTTT-TCTTTCACTCA--GTGGAAATTGCACATAACTTGTTTTTACTGTAAAACCTGATTTATATGCTTCAGCTAAATGCAGAGATTTCATTTATGAATGCTAATCAGTGATTTATTTCATTGTTTTCCTTTTTGGACAAGTCACTGCAAAA-------ATTGTTTTTCAAGCAGGGTGGTATT---AACCTTTTCTGACTGCAAAGCCACTTTCCTCCTAGCAAT-ATCAATAATACTTTGTTATTTATGTCAGTTACTTTATTACATTTGATAAACAAATAAATACAGCCCCACATA----TCAAAAAACTAAAGTGACTAGTTTGTGGATCAGCCCTTTGATAATGATCTACAACAGATTATGGAGTCTCTGTAATATTTCAAAGAATTGGCCTTTTTCCAGTTGCTGCTGATATTGGGATTTGAGTTAATTGCCGATGCATCTCCAACA-ACAGAGC----------AGGTGCTGGTAGAAAGAACA-TTCCCTGTATTTTC-TTTGTTATTTATAGTCAGAGCTCTTCTGCACTAAACCCTTGAGCTGGATTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAACG--------AAAAATGCTGGCTAAAGCACTGTGGCCCTACATGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAAGAATGACCTACTATCTTCCTAGTGTCCTTATCGTTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACGCTGGGGAGTTAAAGGCCTGTGCAGGC
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3551583 896 +  11683526 AAGAGAAAGATATTTAATCAGGAGCCACTATGCGCA-AAACATTGA-GTAGAGGTTTGAAATGTTAAATGCTCTTTCATCAGGGAAG----G------------TTTTTTCTCCTTAATGCACATGTGTTAAATCTTACTCTAATCAGCTA---GTTTT--TT-TTTTT-TCTTTCACTCA--GTGGAAATTGCAGATAACTTGTTTTTACAGTAAAACCTGATTTATATGCTTCAGCTAAATGTAGAGATTTCATTTATGAATGCTAATCAGTAATTTATTTCATTGTTTTCCTTTTTGGACAAGTCACTGC-AAA-------ATTGTTTTTCAAGCA--GCGGTATT---AACCTTTTCTGACTGCAAAGCCACT---CTCCTAGCAGT-ATCAATAATACTTTGTTATTTCTGTCAGTTACTTTATTACATTTGATAAACAAATAAATACAGCCCCACATA----TCAAAAAACTGAAGTGACTAGTTTGTGGATCAGCCCTTTGATAATGATCTACAACAGATTATGGAGCCTCTGTAATATTTCAAAGAATTGGCCTTTTTCCAGTTGCTGCTGATATTGGGATTTGAGTTAATTGCTGATGCATCTCCAACA-ACAGAGC----------AGGTGCTGGTAGAAAGAACA-TTCCCTGTATTTTC-TTTGTTATTTATAGTCAGAGCTCTTCTGCACTAAACCCTTGAGCTGGTTTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAACG-------AAAAAATGCTGGCTAAAGCACTGTGGCCCTACATGATTCATTTTGCTGCAAGTTTCTGGCAGCTGCCCAAGAATGACCTACTATCCTCCTAGTGTCCTTATCATTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACACTGGGGAGTTAAAGGCCTGTGCAGGC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3036505 897 +   4132165 AAGAGGAAGATATTTCATCAGGAGCCAGGATGTGCA-AAACATTGA-GCAGAGGTTTGAAATGTTAAATGCTCTTTCATCAAGGAAA----G------------ATTTTTCTCCTTAATGCATATGTGTTAAATTTTACTCTAATCAGCTAGTTGGTTT--TT-TTTTT-TCTTACACTCA--GTGGAAATTGCAGATAACTTGTTTTAACTGTAAAACCTGATTTACATTCTTCAGCTAAATGCAGAGGATTCATTTATGAATGTTAATCAGTGATTTATTTCATTGTTTTCCTTTTTGGACAAGTCTCTGCAAAA-------ATTTTTTTGCAAGTAGGATGGTCTTAAAAACCTTTTCTGACTGCAAAGCCACT---CCCCTGGCAGT-ATCAATAATACTC--TCATTTCTGTCAGTTACTTTATTACATTTGATAAACAAACCAATACAGCCCCACATA----TCAAAAAACTAAAGT------------GTTCAGCCCTTTGATAATCATCGACAACAGATTCTGGAGCCTCTGTAATATTTCAAAGAATTGGCCTTTTTCCAGTTGCTGCTGATATTGGGATCTGAGTTAATTGCTGATGCATCTCAAACA-ACCGAGC----------AGGTGCTCAGAGAAAGAACA-TTCTGGGTATTTCC-TTTGTTATTTATAGTCAGAGCTC-TCTGCACTAAACCCTTGAGCTGGCTTTTTAGAACCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAATGAAAAAAAAAAAAATGCTGGCTAAAGCACTGTAGCCCTACATGATTCATTTTGCTGCAAGTTTCTGGCAGTTGCCCAAGAATGACCTACTATCTTCCTACTGTCCTTATCATTTTCCCATCTGGAAAGGGCTAAACCTTACTGTACACTGGGGAGTTAAAGGCCTGTGCAGGC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55490257 912 +  90702639 TGGAGAAAGATTTTCAATCAGGAGTCGAAACTCCCACAGA-GCTGA-GTGGATGTT--GACCGTTAAATGGACTGGCATCAAGGAAG----G-CTCTTTGACC-TTGTTTGCACATG-CACACACATGTTAAATCTT-CTCAGAACAGCTA---GGTCTTGTT-TTTCC-TCTTTCATTCACAGTGG-AATTGTACATATCTTGTTTTTCCTATATAAGCCAATTTATTTGCATCAGCTAAATGCAGGTATTTCACTTATGGATACTAGCCTGTGGTTTACTTCATT-TTTGCCTTATCAGCCAACTCACAGAGAA--------TTTTTTTTTCAAGGAAGGTGGTGCT---GGCCTTGCGTGTCTGAAGTGCCAAG---TTCC-AGCAGTAAGCAGTCAGACTC-----ACTGTATCTGTTGCTTTATTGCATTTGCTAAGCAGACAAATGCAGCCCCACAGA----GTAAAGCACTAACATGACCAATTTAGAGATTAACCCTTTGATAGTCACCTGCAGCAGGTTTTGAAGCCTCTGTAATATCTCAAAGAATTGGCCCTCTTCCAGTTGTTGGAGTTCCTGGAATTTGAGTTAGTTGTTGATGCATCTCAAGTACGCAGAGCGGGAGGGGGTGGGGGCTGGTGGAGGGAACA-GCGCCTGTATTTCC-TTTGTTATTTATAGCCAGCGTTCTTCCACACTAAACCCTTGAGCTGGCTTTTTAGAGCCCACTGTATAACAAATTCATTCACTTTCATGTCAACAAGCTCTGGCTTGATAAATTAAAACA-------GAAAAGTGCTGGCTAAAGCACCATAGCTCTACATGATTCATTTGGCTGCAAGCTCCTGGCAGCTATCCAAGAATGACCTGCTGTCTTCCCAGGGTCCTTATCATTTTCCCATCTGGAAAGGGCCGAACCTTACTGTACACTGGGGAGTTAAAGGCCTACACAGGC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14884819 892 +  74389097 AGGAGAAATATATTTAATCTGGAGCCACTATGGTACAAAAAATTGA-CTAAAGGTAGGAAGTGTTAAATGTTCTTTCATCAAGGAAG----A------------TTTTTTCCCCTTAATGCACATGTGCTACATCTTACTCTAATCAGCTA---A-------T-TTTTTGTCTTTCACTCATCGTGGAAATTGCAGAGAGCTTGCTTTTACTGTAAAACCTGATTTATATGCTTCTGCTAAATGCAGGGATTTCATTTATGAAAGCTAGTCAGTGATTTATATCATTGTTTTCCTTTTTGGACAAGTCACTACAAAATA-----ATTTTTTT-CAAGCAAGATGGTATT---AACCTTCTCTAACTTCAAAGCCACT---CTCCTAGCAGT-ATCAATATTCCTTTGTCATTTCTGTC----ACTTTATTACATTTGGTAAACAAATAAATACAGCCCCACATA----TCAAAA-ACTAAAATGACTATTTTGAGGATTAGCCCTTTGATAATCATCTACAACAGATTAAACAGCCTCTATAATATTTCAAAGAATTGGCCTTTCTCCAGTTGATACTGATATTGGGATTTGAGTTAATTGCCGGTGCATCTCCAACA-ACAGAGC----------AGGTGCTGGTAGAAAGAACAGTTCCCTGTAGTTTC---TGTTATTTATTGTCAGAGCTCTTTTGCACTAAACCCTTGAGCTGACTTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTGGGCTTGATAAATTAAAACA-------GAAAAATGCTGGCTAAAGCACCATAGCCCTACATGATTCATTTTGTTGCAAGTTTCTGGCAGCTGTCCAAGAATGACCGGCTATCTTCCTAGGGTCCTTATCATTTTCCCATCTGGAAAGGGCTGAACCTTACT-TACACTGGGGAGTTAAAGGCCTGTGCAGGC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2597196 900 +   3667625 AAGAGAAATATATTTAATCAGGAGCCAGCATGTGCA-AAACATAGA-ATAGAAGTTTGAAATGTTAAATGCTCTTTCATCAAGGAAG----A-------------TTTTCCCCCTCAAAGCACATGTGTTAAATCTTCATCTAATCAGCTA---GATT----T-TTTTT-TCTTTCACTCACAATAGAAATTGCAGATACCTTGTTTT-ACTGTTAACCCTGATTTATATGCTTCAGTTAAATGCAGAGATTTCATTTATGAGTGTTAGTCAGTGATTCATTTCATTGTTTTCCTTTTGGGGCAAGTCCCTGAAAA--------TTTTTTTCCCTAGCAATATTGTATT---AACCTTTTTTGACTGCAAAGCTACT---CTCCTAGCAGT-ATCAGTGCTCCTTTGTCATTCCTGTCaattattttattatatttgataaacaaataaatataaCCCAACGTATTTTTTAAAAAACTAAAATGACTAGCTTGAAGATTAGCCTTTTGATAATCATCTACAATAGATTATGGAACCTCTGTAATATTTCAAAGAATTGACCTTTTTCCATTTGATGCTGATATTGGGATTTCAGTTAATTGCCGATGCTTCTCAAACA-ACAGAGC----------AGGTGCTAGCAGAAAGAACA-TTCTCTGTATTTTC-TTTGTTATTTATAGTCAGAACTCTTCTGCACTAAACCCTTGAGCTGGCTTTTTAGAGCCCACTGTATAACAATTTCATTCACTTTCATGTCAACAAGCTTTGGCTTGATAAATTAAAACA-------GAAAAATGCTGGCTAAAGCACCATAGTCTTACATGATTCATTTTGCTGCAAGTGTCTGGCAGCTGCCCAAGAATGACCTGCTATCTTCCTGGTGTTCTTATCATTTTTCCATCTGGAAAGGGCTGAACCTTACTGTGCACTGGGGAGCTAAAGGCCTGTGCAGGC
i dasNov3.JH567306         C 0 M 338

a score=2111563.000000
s hg38.chr5_KI270796v1_alt     46904 137 +    172708 TGCATTTGAAGGCCATTAACAATCATAACTCTACAAATCATCACCCTCTTCCAGGCAAGGTTAGGACTACTCTATAGGATAGTTAGGAAGGTCAATATTTTACTTTTATTTAAATAAATAC-AAA--AAA---GGGCACAATG
s panTro5.chr5             125156982 137 + 181907262 TGCATTTGAAGGCCATTAACAATCATAACTCTGCAAATCATCACCCTCTTCCAGGCAAGGTTAGGACTAGTCTATAGGATAGTTAGGAAGGTCAATATTTTACTTTTATTTAAATAAATAC-AAA--AAA---GGGCACGATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126493929 137 + 183735486 TGCATTTGAAGGCCATTAACAATCATAACTCTACAAATCATCACCCTCTTCCAGGCAACGTTAGGACTAGTCTATAGGATAGTTAGGAAGGTCAATATTTTACTTTTATTTAAATAAATAC-AAA--AAA---GGGCACGATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1685428 136 +   8933513 TGCATTTGAAGGCCATTAACAATCATAACTCCACAAATCATCACCCTCTTCCAGGCAAGATTAGGACTAGTCTATAGGATAGTTAGGAAGGTCAATATTTTACTTTTATTTAAATAAATAC--AA--AAA---GGGCACAATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139815738 138 + 163208435 TGCATTTGAAGGCCATTAACAATCATAACTCTAAAAATCATCACCCTCTTCCGGGCAAGGTTAGGAGTAGTCTATAGGATAGTTAGGAAGGTCAATATTATACTTTTATTTAAATAAATACAAAA--AAA---AGGCACAATT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122800329 137 + 180051392 TGCATTTGAAGGCCATTAACAATCATAACTCTAAAAATCATCACCCTCTTCCAGGCAAGGTTAAGAGTAGTCTATAGGATACTTAGGAAGGTCACTATTTTACTTTTCTTTAAATAAATAC-AAA--AAA---GGGCACAATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224009 137 + 181584905 TGCATTTGAAGGCCATTAACAATCATAACTCTAAAAATCATCACCCTCTTCCAGGCAAGGTTAAGAGTAGTCTATAGGATACTTAGGAAGGTCACTATTTTACTTTTCTTTAAATAAATAC-AAA--AAA---GGGCACAATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16221713 137 +  18395747 TGCATTTGAAGGCCATTAACAATCATAACTCTAAAAATCATCACCCTCTTCCAGGCAAGGTTAAGAGTAGTCTATAGGATACTTAGGAAGGTCACTATTTTACTTTTCTTTAAATAAATAC-AAA--AAA---GGGCACAATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5227602 137 +  26952557 TGCATTTGAAGGCCATTAACAATCATAACTCTAAAAATCATCACCCTCTTCCAGGCAAGGTTAAGAGTAGTCTATAGGATACTTAGGAAGGTCACTATTTTACTTTTCTTTAAATAAATAC-AAA--AAA---GGGCACAATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28335693 137 +  82825804 TGCATTTGAAGGCCATTAACAATCATAACTCTAAAAATCATCACCCTCTTCCAGGCAAGGTTAAGAGTAGTCTATAGGATACTTAGGAAGGTCACTATTTTACTTTTCTTTAAATAAATAC-AAA--AAA---GGGCACAATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3999534 137 -   4237731 TGCATTTGAAGGCCATTAACAATCATAACTCTAAAAATCATCACCCTCTTCCAGGCAAGGTTAAGAGTAGTCTATAGGATACTTAGGAAGGTCACTATTTTACTTTTCTTTAAATAAATAC-AAA--AAA---GGGCACAATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      269833 137 -   1175262 TGCATTTGAAGGCCATTAACAATCATAACTCTAAAAATCATCACCCTCTTCCAGGCAAGGTTAAGAGTAGTCTATAGGATACTTAGGAAGGTCACTATTTTACTTTTCTTTAAATAAATAC-AAA--AAA---GGGCACAATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123609684 134 - 204313951 TGCATTCAAAGGCCATTAACAATCGTAACTCTAAAAATCATCACCCTCTTCCAGGCAAGGTTAAGAGTAGTCTATAGAATAGTTAGGAAGGTCaatattttacttttatttaaataaatacaaaa--aaa---GG----GATT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55661916 122 -  71252344 TGCATTCAAAGGCCATTAACAATCGTAACTCTAAAAATCATCACCCTCTTTCAGACAAGGTTAAGAGTAGTCTATAGGATAG----------------TTTACTTTTATTTAAATAAATACAAAA--AAG---GGGCACGGTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1359076 138 -   1400280 TGCATTCAAAGGTCATTAACAATCGTAACTCTAAAAATCATCACCCTCATCCAGGCAAGGTTAAGAGTAGTCTATAGGATAGTTAGGAAGGTCAATATTTTACTTTTATTTAAATAAATACAGAA--AAA---GGGCACAATT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13147656 138 -  42888418 TGCATTCAAAGGCCATTAACAATCGTAACTCTAAAAATCATCACCCTCTTCCAGGCAAGGTTAAGAGTAGTCTATAGGATAGTTAGGAAGGTCAATATTTTACTTTTATTTAAATAAATACAAAA--AAA---GGGCACAATT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60513430 136 + 108143057 TGCATTCAAAGGCCATTAACAATCATAACTCTAAAAATCATCAGCCTCTTCCAGGCAAGGTTAACAGTAGTCTATAGAATGGATAGGAAGGTCAATATTTCATTTTTATTTAAATAAATAC--AG--AAA---AGGCATGATT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3552479 136 +  11683526 TGCATTCAAAGGCCATTAACAATCATAACTCTAAAAATCATCACCCTCTTCCAGGCAAGGTTAACAGGAGTCTATAGAATGGATAGGAAGGTCAATATTTTACTTTTATTTAAATAAATAC--AA--AAA---AGGCATGGTT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3037402 139 +   4132165 TGCATTCAAAGGCCATTAACAATCATAACTCTAAAAATCATCACTCTCTTCCAGGCAAGGTTCACAGTAGTCTATCGAATAGATAGGATGGTCAATATTTTACTTGTATTTAAATAAATAC--AA--AAAAAGAGACATGATT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55491169 120 +  90702639 GGTATTCAAAGGCCATTAACAAGCATAACTCTAAAAATCATCACTCTCTTCCAGGCAAGGTTAACAGTAGTCTGTGG-----CTAGGATTGCTA-TCTTTTACTT-TATTTAAATAAGTAT-GAA--GCA-------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14885711 139 +  74389097 TGTATCCAAAGGCCATTAACAATCATAACTTTAAAAATCATCACCTTCTTTCAGGCAAGGTTAACAGTAGTCTATAGAATAGATAGGAAGGTCAGTATTTTACCTCTATTTAAATAAATAT-GAAGCAAA---TGGCAGGATT
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2598096 338 +   3667625 M

a score=838147.000000
s hg38.chr5_KI270796v1_alt     47041 59 +    172708 TCTTTAATTACCTAGGACTGCATGCTAACTCGAACCGTTAT-ATTTTTAAACATTTTGAT
s panTro5.chr5             125157119 59 + 181907262 TCTTTAATTACCTAGGACTGCATGCGAACTCCAACCATTAT-ATTTTTAAACATTTTGAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494066 59 + 183735486 TCTTTAATTACCTAGGACTGCATGCTAACTCCAACCGTTAT-ATTTTTAAACATTTTGAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1685564 59 +   8933513 TCTTTAATTGCCTAGGACTGCATGCTAACTCCAACCATTAT-ATTTTTAAACATTTTGAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139815876 59 + 163208435 TCTTTAATTACGTAGGACTGCATGCTAACTCGAACCATTAT-ATTTTTAAACATTTTGAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122800466 59 + 180051392 TCTTTAATTACCTAGGACTGCATGCTAACTCGATCCATTAT-ATTTTTAAACATTTTGAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224146 59 + 181584905 TCTTTAATTACCTAGGACTGCATGCTAACTCGATCCATTAT-ATTTTTAAACATTTTGAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16221850 59 +  18395747 TCTTTAATTACCTAGGACTGCATGCTAACTCGATCCATTAT-ATTTTTAAACATTTTGAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5227739 59 +  26952557 TCTTTAATTACCTAGGACTGCATGCTAACTCGATCCATTAT-ATTTTTAAACATTTTGAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28335830 59 +  82825804 TCTTTAATTACCTAGGACTGCATGCTAACTCGATCCATTAT-ATTTTTAAACATTTTGAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3999671 59 -   4237731 TCTTTAATTACCTAGGACTGCATGCTAACTTGATCCATTAT-ATTTTTAAACATTTTGAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      269970 59 -   1175262 TCTTTAATTACCTAGGACCGCATGCTAACTTGATCCATTAT-ATTTTTAAACATTTTGAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123609818 59 - 204313951 TCTTTAATTACCTAGGACTGCATACTAACTCAAACCATTAC-ATTTTTAAACATTCTGAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662038 32 -  71252344 TCTTAAATTACCTAGGACTGCATACTAACTCA----------------------------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1359214 59 -   1400280 TCTTAAATTACCTAGGACTGCCTACTAACTCAAACCATTAC-ATTTTTAAACATTCTGAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13147794 59 -  42888418 TCTTAAATTACCTAGGACTGCATACTAACTCAAACCATTAC-ATTTTTAAACATTCTGAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60513566 59 + 108143057 TCCTTAATAACATAGGACTGTATGCTAACTCGAACCATTAT-ATTTTTAAACTTTTTGAT
i micMur3.chr12            C 0 I 73
s proCoq1.NW_012155062v1     3552615 59 +  11683526 TCTTTAATAACATAGGACTGTATGCTAACTTGAACCATTAT-ATTTTTAAACTTTTTGAT
i proCoq1.NW_012155062v1   C 0 I 16
s otoGar3.GL873679           3037541 59 +   4132165 TCTTTAATAGCATAGGACTGCATGCTAACTCGAACCATTGT-ATTTTCAAACTTTCTGAT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55491289 46 +  90702639 -----AATTGCATAGGACTTC-------CTTGAAAGGGC-T-GTTTTTAGGCCTTTTTGT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14885850 59 +  74389097 TCTTTAATGATGTAGAACTACATGCTAACCTCAAGCACTGT-ATCTTTAGACTTTGTGTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2598442 56 +   3667625 TCTTTAATTACATAGGGCTGTACACT--CCTGAGCCATTATAATTTTTAGAC--TCTGAT
i dasNov3.JH567306         M 338 C 0

a score=337637.000000
s hg38.chr5_KI270796v1_alt     47100 36 +    172708 CTGTCTTATAATTAACCAAAGGTAATTTAGAGGAGC
s panTro5.chr5             125157178 36 + 181907262 CTGTCTTATAATTAACCAAAGGTAATTTAGAGGAGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494125 36 + 183735486 CTGTCTTATAATTAACCAAAGGTAATTTAGAGGAGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1685623 36 +   8933513 CTGTCTTATAATTAACCAAAGGTAATTTAGAGGAGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139815935 36 + 163208435 CTGTCTTATCGTTAACCAAAGGTAATTTAGGGGAGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122800525 36 + 180051392 CAGTCTTACAATTAAACAAAGGTCATTTAGAGGAGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224205 36 + 181584905 CAGTCTTACAATTAAACAAAGGTCATTTAGAGGAGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16221909 36 +  18395747 CAGTCTTACAATTAAACAAAGGTCATTTAGAGGAGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5227798 36 +  26952557 CAGTCTTACAATTAAACAAAGGTCATTTAGAGGAGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28335889 36 +  82825804 CAGTCTTATAATTAAACAAAGGTCATTTAGAGGAGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3999730 36 -   4237731 CAGTCTTACAATTAAACAAAGGTCATTTCGAGGAGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270029 36 -   1175262 CAGTCTTATAATTAAACAAAGGTAATTTAGAGGAGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123609877 36 - 204313951 CTGTCTTATAATTAACCAAAGATAATTTAGAGGAGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662070 23 -  71252344 -------------AACCAAAGATAATTTAGGGGAGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1359273 36 -   1400280 CTGTCTTATAATTAACCAAAGATAACTTACAGGAGC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13147853 36 -  42888418 CTGTCGTATAATTAACCAAAGATAATTTAGAGGAGC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3037600 16 +   4132165 CTTCCTTAGAACGAGT--------------------
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55491335 35 +  90702639 -CTTCTTAAGATTAACTAGAGGTCCTTTTGAGGGGC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14885909 36 +  74389097 CATCCTTAAAATTATCGAAAAGTGATTCTGAAGAGC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2598498 28 +   3667625 TTTTCTTAAAATTATAAAAAAA------AGAGTA--
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60513625 73 + 108143057 I
e proCoq1.NW_012155062v1     3552674 16 +  11683526 I

a score=852331.000000
s hg38.chr5_KI270796v1_alt     47136 65 +    172708 CCATCCTAAATTATGTAACTTCTGAT-ATTAGCTGTGAATTTACTA-TTAAGCTAAGTTATTTATTT
s panTro5.chr5             125157214 65 + 181907262 CCATCCTAAATTATGTAACTTCTGAT-ATTAGCTGCGAATTTACTA-TTAAGCAAAATTATTTATTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494161 65 + 183735486 CCATCCTAAATTATGTAACTTCTGAT-ATTAGCTGCGAATTTACTA-TTAAGCAAAATTATTTATTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1685659 65 +   8933513 CCATCCTAAATTATGTAACTTCTGAT-GTTAGCTGCGAATTTACTA-TTAAGCAAAATTATTTATTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139815971 65 + 163208435 CCATCCTAAATTATGTAACTTCTGAT-ATTAGCTGCGAATTTACTA-TTAAGCAAAATTACTTATTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122800561 65 + 180051392 CCATCCTAAATTATGTAACTTCTGAT-ACTAGCTGTGAATTTACTA-TTAAACAAAATTATTTATTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224241 65 + 181584905 CCATCCTAAATTATGTAACTTCTGAT-ACTAGCTGTGAATTTACTA-TTAAACAAAATTATTTATTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16221945 65 +  18395747 CCATCCTAAATTATGTAACTTCTGAT-ACTAGCTGTGAATTTACTA-TTAAACAAAATTATTTATTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5227834 65 +  26952557 CCATCCTAAATTATGTAACTTCTGAT-ACTAGCTGTGAATTTACTA-TTAAACAAAATTATTTATTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28335925 66 +  82825804 CCATCCTAAATTATGTAACTTCTGATAACGAGCTGTGAATTTACTA-TTAAACAAAATTATTTATTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3999766 65 -   4237731 CCATCCTAAATTATGTAACTTCTGAT-ACTAGCTGTGAATTTACTA-TTAAACAAAATTATTTATTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270065 65 -   1175262 CCATCCTAAATTATGTAACTTCTGAT-ACTAGCTATGAATTTACTA-TTAAACAAAATTATTTATTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123609913 65 - 204313951 CCATCCTAAATCATGTAACTTCTGAT-ATTAGCTGTGaatttatta-ttaaacaaaattatttattt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662093 65 -  71252344 CCATTCTAAATTATGTAACTTCTGAT-ATTAGCTGTGAATTTACTA-TTAAACAAAATTGTTTATTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1359309 65 -   1400280 CCATCCTTAATTATGTTACTTCTGAT-ATTAGCTGTGAATTTACTA-TTAAACAAAATTATTTATTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13147889 57 -  42888418 CCAT--------ATGAAACTTCTGAT-ATTAGCTGTGAATTTACTA-TTAAACAAAATTATTTATTC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3552690 60 +  11683526 CCATCCTAAATTAAGCAACTTCTGGT-ATTAGTTGTCAATTTACTA-TTAAAC-GAAtcattc----
i proCoq1.NW_012155062v1   I 16 C 0
s otoGar3.GL873679           3037616 62 +   4132165 TCATTCTAAATTAAGCAACTTCTGGT-ATAAGTTGTCATTTTACTATTTAAACAAAAATATTC----
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55491370 65 +  90702639 CTGTTAGAGTTTGAAGAACTTCACGC-ATTGGTTGTCTATTTACTT-TAATAAAAAAGGACTCATTT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14885945 65 +  74389097 CCATGCCAAATTAAGCAACTTCTGGT-ATTAGGTATTGGTTTACTA-TTAAGCAAAGTAATTCATTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2598526 62 +   3667625 --ATTCTAAATTAAGCATCTTTTTAA-TTTAGTTGTCAGTTTGCTA-ATAAAT-AATTTGTTAATTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60513625 73 + 108143057 I

a score=1216328.000000
s hg38.chr5_KI270796v1_alt     47201 78 +    172708 ATTCACTTAATCTTCCTTTATACAAATGGATTTTCTTTATGGAGTCATAGGTAGGATGGCTATTTTAGTGATTATTTT
s panTro5.chr5             125157279 78 + 181907262 ATTCACTTAATCTTCCTTTATACAAATGGATTTTCTTTATGGAGTCATAGGTAGGATGGCTATTTTAGTGATTATTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494226 78 + 183735486 ATTCACTTAATCTTCCTTTATACAAATGGATTTTCTTTATGGAGTCATAGGTAGGATGGCTATTTTAGTGATTATTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1685724 78 +   8933513 ATTCACTTAATCTTCCTTTATACAAATGGATTTTCTTTATGGAGTCATAGGTAGGATGGCTATTTTAGTGATTATTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816036 78 + 163208435 ATTCGCTTAACCTTCCTTTATACAAATGGATTTTCTTTATGGATTCATAGGTAGGATGGCTATTTTAGTGATTATTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122800626 78 + 180051392 ATTCACTTAATCTTCCTTTATACAAATGGATTTTCTTGAAGGAGTCATAGGTAGGATGGCTGTTCTAGTGATTATTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224306 78 + 181584905 ATTCACTTAATCTTCCTTTATACAAATGGATTTTCTTGAAGGAGTCATAGGTAGGATGGCTGTTTTAGTGATTATTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222010 78 +  18395747 ATTCACTTAATCTTCCTTTATACAAATGGATTTTCTTGAAGGAGTCATAGGTAGGATGGCTGTTTTAGTGATTATTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5227899 78 +  26952557 ATCCACTTAATCTTCCTTTATACAAATGGATTTTCTTGAAGGAGTCATAGGTAGGATGGCTGTTTTAGTGATTATTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28335991 74 +  82825804 ATTC----AATCTTCCTTTATACAAATGGATTTTCTTGAAGGAGTCATAGGTAGGATGGCTATTTTAGTGATTATTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3999831 78 -   4237731 ATTCACTTAATCTTCCTTTATACAAATGGATTTTCTTGAAGGAGTCATAGGTAGGATGGCTGTTTTAGTGATTATTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270130 78 -   1175262 ATTCACTTAATCTTCCTTTATACAAATGGATTTTCTTGAAGGAGTCATAGGCAGGATGGCTGTTTTAGTGATTATTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123609978 78 - 204313951 GTTCATCTAATCTTCCTTTATACAAATGAATTTTCTTTAAGGAGTCATAGGTAGGATAGCTATTTTAGTGATTATTTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662158 78 -  71252344 ATTCATCTAATCTTTCTTTATACAAATGGATTTTCTTTAAGGAGTCATAAGTGGGATGGCTATTTTAGTGGTTATTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1359374 78 -   1400280 ATTCATCTAATCTTCCTTTATACAAATGGATTTTCTTTAAGGAGTCATAGGTGGGATGGCTATTTTAGTGGTTATTTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13147946 78 -  42888418 GTTAATCTAATCTTCCTTTATACAAATGGATTTTCTTTAAGGAGACATAGGTAGGATGGCTATTTTAGTGATTATTTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60513698 78 + 108143057 ATTCATTTATTCTTTCTTTATACAAATGAGTTTCTTTTAAAGGGTCTTAGGTAGGATGGTTATGTTAGTAATTATTTT
i micMur3.chr12            I 73 C 0
s proCoq1.NW_012155062v1     3552750 78 +  11683526 attcatttattctttctttATACAAACGAGCTTCTTTTAAAGGGTCTTAGGTAGGATGGTTATTTTAGTAATTATTTT
i proCoq1.NW_012155062v1   C 0 I 96
s otoGar3.GL873679           3037678 78 +   4132165 ATTCATGTATTCTTTCTTTAATCAAAGGTATTTCTTTTCAAAGGTGTTAGGTAGGATGTTTATTTTAGTAATTATTTT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55491435 64 +  90702639 -----ATTACACTTCTTCTATACAGTTGGATTTCTTTGAAGAGGTCATAGGTAGAA---------TAATTATTGTTTT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14886010 70 +  74389097 --------ATTCTTCCTCTATACACCTCAATTTCTCTTAAAGGGTCTTAGGTATGATGGTTATTTTAGTAATTATTTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2598588 69 +   3667625 ---------ATTCTTCTTTATACAACTGTATTTTTCTTAAGGGGTCTTAGACAGGATGGCTATTTTAGTCATTATTTT
i dasNov3.JH567306         C 0 C 0

a score=257591.000000
s hg38.chr5_KI270796v1_alt     47279 15 +    172708 AACAATTAACTATCA
s panTro5.chr5             125157357 15 + 181907262 AACAATTAACTATCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494304 15 + 183735486 AACAATTAACTATCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1685802 15 +   8933513 AACAATTAACTATCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816114 15 + 163208435 AACAATTAACTATCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122800704 15 + 180051392 AACAATTAACTATCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224384 15 + 181584905 AACAATTAACTATCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222088 15 +  18395747 AACAATTAACTATCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5227977 15 +  26952557 AACAATTAACTATCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336065 15 +  82825804 CACAATTAACTATCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3999909 15 -   4237731 AGCAATTAACTATCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270208 15 -   1175262 AACAATTAGCTATCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610056 15 - 204313951 AACAATTAACTATCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662236 15 -  71252344 AACAATTAACTATCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1359452 15 -   1400280 AACAATTAACTATCA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148024 15 -  42888418 AACAATTAACCATCA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60513776 15 + 108143057 AACAATTAACTATCA
i micMur3.chr12            C 0 I 112
s otoGar3.GL873679           3037756 15 +   4132165 AACAATTAACTACCA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55491499 15 +  90702639 AGCAATGAACTATGA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14886080 15 +  74389097 AGCAATTAACTATCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2598657 15 +   3667625 AGCAATTAACTACCT
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3552828 96 +  11683526 I

a score=796564.000000
s hg38.chr5_KI270796v1_alt     47294 70 +    172708 AGTTGCAAAAG--CTATTAGGGAAAAA---------------TACCT---TATTTTTGAAAAGAGAGGCTAAATGATGGAAGAATCATT--A
s panTro5.chr5             125157372 70 + 181907262 AGTTGCAAAAG--CTATTAGGGAAAAA---------------TACCT---TATTTTTGAAAAGAGAGGCTAAATGATGGAAGAATCATT--A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494319 70 + 183735486 AGTTGCAAAAG--CTATTAGGGAAAAA---------------TACCT---TATTTTTGAAAAGAGAGGCTAAATGATGGAAGAATCATT--A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1685817 69 +   8933513 AGTTGCAAAAG--CTATTAGGGAAAAA---------------TACCT---TATTTTTGAAAAGAGAGGCTAAATGATGGAAGAATCA-T--A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816129 70 + 163208435 AGTTGCAAAAG--CTATTAGGGAAAAA---------------TACCT---TATTTTTGAAAAGAGAGGCTAAATGATGGGAGAATCATT--A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122800719 70 + 180051392 CGTTGCAAAAG--TTATTAGGGAAAAA---------------TACCT---TATTTTTGAAAACAGAGGCTAAATGATGAAAGAATCATT--A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224399 70 + 181584905 CGTTGCAAAAG--TTATTAGGGAAAAA---------------TACCT---TATTTTTGAAAACAGAGGCTAAATGATAGAAGAATCATT--A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222103 70 +  18395747 CGTTGCAAAAG--TTATTAGGGAAAAA---------------TACCT---TATTTTTGAAAACAGAGGCTAAATGATGGAAGAATCATT--A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5227992 70 +  26952557 CGTTGCAAAAG--TTATTAGGGAAAAA---------------TACCT---TATTTTTGAAAAGAGAGGCTAAATGATGGAAGAATCATT--A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336080 70 +  82825804 CGTTGCAAATG--TTATTAGGGAAAAA---------------TACCT---TATTTTTGAAAAGAAAGGCTAAATGATGGAAGAATCATT--A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3999924 70 -   4237731 CGTTGCAAAAG--TTATTAGGGAAAAA---------------TACCT---TATTTTTGAAAAGAGAGGCTAAATGATGGAAGAATCATT--C
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270223 69 -   1175262 AGTTGCAAAAG--TTATTAGGGAAAAA---------------TACCT---TATTTTTGAAAAGAGAGGCT-AATGATGGAAGAATCATT--A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610071 70 - 204313951 AGTTGTATAAG--TCATTAGGGAAAAA---------------TACCT---TATTTTTGAAAACAGAGGCTAAATGATGGAAGAATCATT--A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662251 70 -  71252344 AGTTGTATAAG--TTATTAGGGAAAAA---------------TAACT---TATTTTTGGAAACAGAGGCTAAATGATGAAAAAATCATT--A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1359467 70 -   1400280 AGTTGTATAAG--TTATTAGGGAAAAA---------------CACCT---TATTTTTGGAAACAGAGGCTAAATGATGGAAGAATCATT--A
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148039 70 -  42888418 AGTTGTATAAG--TTATTAGGGAAAAA---------------TACCT---TATTTTTGAGAACAGAGGCTAAATGATGGAAGAATCATT--A
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3037771 74 +   4132165 AGATATAAAGG--CAACTAAGGGAAAAAA-----------GTGAACA---TGTTTTGGGAAAGAGAGGATAAATGATAGCGGGGTAACT--A
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55491514 87 +  90702639 TAATGCCAAAG--TCACTAAGGAAAAAAAAAAACAAACAGAAAACTA---TGGTTTTGGAAAAGGTAGCTAAAATCTGCATAAACGATTTCA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14886095 76 +  74389097 GACTTCAAAGG--TCATTAAGAAAAAAAAA------------TAATTAAACATTTTTGAAAAGAAAGGCTAAATAATAGCAGCACAAGT--T
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2598672 73 +   3667625 GGATGCAAGGGCACCATTATGGAAAAAA--------------AAAGG---TATTATTGAAGAGAAAAGCTAAATGAAAGCAGACTCAGT--G
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60513791 112 + 108143057 I
e proCoq1.NW_012155062v1     3552828 96 +  11683526 I

a score=122850.000000
s hg38.chr5_KI270796v1_alt     47364 8 +    172708 TAAACTCT
s panTro5.chr5             125157442 8 + 181907262 TAAACTCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494389 8 + 183735486 TAAACTCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1685886 8 +   8933513 TAAACTCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816199 8 + 163208435 TAAACTCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122800789 8 + 180051392 TAAACTCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224469 8 + 181584905 TAAACTCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222173 8 +  18395747 TAAACTCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228062 8 +  26952557 TAAACTCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336150 8 +  82825804 TAAACTCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     3999994 8 -   4237731 TAAACTCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270292 8 -   1175262 TAAACTCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610141 8 - 204313951 TAAACTCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662321 8 -  71252344 TAAACTCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1359537 8 -   1400280 TAAACTCT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148109 8 -  42888418 TAAACTCT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3037845 8 +   4132165 TAAATTCT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55491601 8 +  90702639 TAAACTTT
i mm10.chr18               C 0 I 16
s canFam3.chr11             14886171 8 +  74389097 TAAACTCT
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60513791 112 + 108143057 I
e proCoq1.NW_012155062v1     3552828 96 +  11683526 I
e dasNov3.JH567306           2598745 0 +   3667625 C

a score=38945.000000
s hg38.chr5_KI270796v1_alt     47372 3 +    172708 AGT
s panTro5.chr5             125157450 3 + 181907262 AGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494397 3 + 183735486 AGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1685894 3 +   8933513 AGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816207 3 + 163208435 AGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122800797 3 + 180051392 AGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224477 3 + 181584905 AGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222181 3 +  18395747 AGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228070 3 +  26952557 AGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336158 3 +  82825804 AGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000002 3 -   4237731 AGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270300 3 -   1175262 AGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610149 3 - 204313951 AGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662329 3 -  71252344 AGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1359545 3 -   1400280 AGT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148117 3 -  42888418 AGT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3037853 3 +   4132165 AAT
i otoGar3.GL873679         C 0 I 3
s canFam3.chr11             14886179 3 +  74389097 AAT
i canFam3.chr11            C 0 I 3
e micMur3.chr12             60513791 112 + 108143057 I
e proCoq1.NW_012155062v1     3552828 96 +  11683526 I
e dasNov3.JH567306           2598745 0 +   3667625 C
e mm10.chr18                55491609 16 +  90702639 I

a score=1569591.000000
s hg38.chr5_KI270796v1_alt     47375 174 +    172708 TAcaagcttgtccaacccatgacccacagg------ctgcatgcagcccaggatggcttcgaatgcagtccaacacaaattcgtaaactttcttaaaacattatgag-ac--ttt----------------------------tttttttttg-ctcatcagctatcattattgtaagtgtattgtatgtgtggcccaaggcaattcttctt
s panTro5.chr5             125157453 176 + 181907262 TAcaagcttgtccaacccatgacccacagg------ctgcatgcagcccaggatggcttcgaatgcagtccaacacaaattcgtaaactttcttaaaacattatgag-acttttt----------------------------tttttttttg-ctcatcagctatcattattgtaagtgtattgtatgtgtggcccaaggcaattcttctt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494400 176 + 183735486 TAcaagcttgtccaacccatgacccacagg------ctgcatgcagcccaggatggcttcgaatgcagtccaacacaaattcgtaaactttcttaaaacattatgag-acttttt----------------------------tttttttttg-ctcatcagctatcattattgtaagtgtattgtatgtgtggcccaaggcaattcttctt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1685897 175 +   8933513 TAcaag-ttgtccaacccatgacccacagg------ctgcacgcagcccaggatggcttcgaatgcagtccaacacaaattcataaacttttttaaaacattatgag-atttttt----------------------------ttttgttttg-ctcatcagctatcattagtgtaagtgtattgtatgtgtggcccaaggcaattcttctt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816210 199 + 163208435 TAcaagcttgtccaacccatgacccacagg------ctgcatgcagcccaggatggcttcgaatgcattccaacagaaattcgtaaactttcttaaaacattatgag-atattttattt--gcggc---tttttatttatttatttttttttg-ctgataagctatcattagtgtaagtgtattgtgtgtgtggcccaaggcaattcttctt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122800800 208 + 180051392 TAcaagcttgtccaagccatgacccacagactgcatctgcatgcagcccagaatggcttcaaatgcagcccaacacaaattcgtaaactatcttaaaacattatgtg-atattttattt--gtgccttttttttttttttttttttttttttg-cccatcagctatcattagtgttagtatattgtatgtgtggcccaaggcaattcttctt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224480 202 + 181584905 TAcaagcttgtccaagccatgacccgcaga------ctgcatgcagcccagaatggcttcaaatgcagcccaacacaaattcgtaaactttcttaaaacattatgtg-atattttattt--gtgccttttttttttttttttttttttttttg-cccatcagctatcattagtgttagtatattgtatgtgtggcccaaggcaattcttctt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222184 199 +  18395747 TAcaagcttgtccaagccatgacccacaga------ctgcatgcagcccagaatggcttcaaatgcagcccaacacaaattcgtaaactttcttaaaacattatgtg-atattttattt--gtgcc---tttttttttttttttttttttttg-ctcatcagctatcattagtgttagtatattgtatgtgtggcccaaggcaattcttctt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228073 197 +  26952557 TAcaagcttgtccaagccatgacccacaga------ctgcatgcagcccagaatggcttcaaatgcagcccaacacaaattcgtaaactttcttaaaacattatgtg-atattttattt--gtggc-----tttttttttttttttctttttg-ctcatcagctatcattagtgttagtatattgtatgtgtggcccaaggcaattcttctt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336161 197 +  82825804 TAcaagcttgtccaagccatgacccacaga------ctgcatgcagcccagaatggcttcaaatgcagcccaacacaaattcgtaaactttcttaaaacattatgtg-atattttattt--gtgg------ttctttcttttttttttttttgtctcatcagctatcattagtgttagtatattgtatgtgtggcccaaggcaattcttctt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000005 190 -   4237731 TAcaagcttgtccaagccatgacccacaga------ctgcatgcagcccagaatggcttcaaatgcagcccaacacaaattcgtaaactttcttaaaacattatgtg-atattttattt--gtgg------------cttttttttttttttg-ctcatcagctatcattagtgttagtatattgtatgtgtggcccaaggcaattcttctt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270303 188 -   1175262 TAcaagcttgtccaagccacgaccctcaga------ctgcatgcagcccagaatggcttcaaatgcagcccaacacaaattcgtaaactttcttaaaacattatgtg-atattttattt--gtggc--------------ttttttttttttg-ctcatcagctatcattagtgttagtgtattgtatgtgtggcccaaggcaattcttctt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610152 184 - 204313951 TAcaagcttgtccaacccatgacccacagg------ctggatgcagcccaggatggttttgaatgtggtccaacataaatttgtaaattttcttaaaacattatgag-agttttt--tc--atggcag----------------tgttttttc-ctcattagctattgttagtgttagtgtattttatgtgtggccctaggcaattcttctt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662332 183 -  71252344 TAGaagcttgtccaacccatgacccacagg------ctggatgcagcccaggatggctttgaatgtggcccaacataaatttgtaaattttcttaaaacattatgag-atttttt--ttaaatggcaa----------------ttttttttt-ctcatcagctattgttagtgtttgtgtattttatgtgtggcccaaggcaa---ttctt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1359548 184 -   1400280 TAcaagcttgtccaacccatgacccacagg------ctggatgcaccccaggatggctttgaatgcggcccaacataaatttgtaaatttttttaaaac---atgag-atttttt--ta--atggcaatt-------------tttttttttt-ctcatcagctattgttagtgtttgtgtattttatgtgtggcccaaggcaattcttctt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148120 184 -  42888418 TAcaagcttgtccaacccatgacccatagg------ctggatgcagcccaggatggctttgaatgtggcccaacataaatttgtaaattttcttaaaacattatgagaatttttt--tt--atgacaa-----------------tttttttt-ctcatcagctattattagtgttagtatattttatgtgtggcccaaggcaattcttttt
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60513791 112 + 108143057 I
e canFam3.chr11             14886182   3 +  74389097 I
e proCoq1.NW_012155062v1     3552828  96 +  11683526 I
e otoGar3.GL873679           3037856   3 +   4132165 I
e dasNov3.JH567306           2598745   0 +   3667625 C
e mm10.chr18                55491609  16 +  90702639 I

a score=106945.000000
s hg38.chr5_KI270796v1_alt     47549 16 +    172708 ccttcc-----------------------------aCACTCCTGC
s panTro5.chr5             125157629 16 + 181907262 ccttcc-----------------------------aCACTCCTGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494576 16 + 183735486 ccttcc-----------------------------aCACTCCTGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686072 16 +   8933513 ccttcc-----------------------------aCACTCTTGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816409 16 + 163208435 tcttca-----------------------------aCACTCCTGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801008 16 + 180051392 ccttcc-----------------------------aCACTCTTGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224682 16 + 181584905 ccttcc-----------------------------aCACTCTTGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222383 16 +  18395747 ccttcc-----------------------------aCACTCTTGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228270 16 +  26952557 ccttcc-----------------------------aCACTCTTGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336358 16 +  82825804 ccttcc-----------------------------aCACTCTTGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000195 16 -   4237731 ccttcc-----------------------------aCACTCTTGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270491 16 -   1175262 ccttcc-----------------------------aCACTCCTGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610336 44 - 204313951 ccttccaatgtagcccagggaagcc-aaagtttggacacccctgC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662515 45 -  71252344 ccttccagtgtatcccagggaagccaaaagtttggacagccctgC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1359732 45 -   1400280 ccttccaatgtagcccagggaagccaaaagtttgaacacccctgC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148304 45 -  42888418 cctcccagtgtagcccagggaagccaaaagtttggacacccctgC
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2598745 15 +   3667625 CCTTCC-----------------------------AAACTCTAC-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60513791 112 + 108143057 I
e canFam3.chr11             14886182  3 +  74389097 I
e proCoq1.NW_012155062v1     3552828 96 +  11683526 I
e otoGar3.GL873679           3037856  3 +   4132165 I
e mm10.chr18                55491609 16 +  90702639 I

a score=357220.000000
s hg38.chr5_KI270796v1_alt     47565 32 +    172708 TAATTATAGCAAAGTTTTATC---ATTTAT---AAGTA
s panTro5.chr5             125157645 32 + 181907262 TAATTATAGCAAAGTTTTATC---ATTTAT---AAGTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494592 32 + 183735486 TAATTATAGCAAAGTTTTATC---ATTTAT---AAGTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686088 32 +   8933513 TAATTATAGCAAAGTTTTATC---ATTTAT---AAGTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816425 32 + 163208435 TAATTATAGCAAAGTTTTATC---ATTTAT---AAGTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801024 32 + 180051392 TAATTATGGCAAGGTTTTATT---ATTTAT---AAGTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224698 32 + 181584905 TAATTATGGCAAGGTTTTATT---ATTTAT---AAGTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222399 32 +  18395747 TAATTATGGCAAGGTTTTATT---ATTTAT---AAGTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228286 32 +  26952557 TAATTATGGCAAGGTTTTATT---ATTTAT---AAGTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336374 32 +  82825804 TAATTATGGCAAGGTTTTATT---ATTTAT---AAGTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000211 32 -   4237731 TAATTATGGCAAGGTTTTATT---ATTTAT---AAATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270507 32 -   1175262 TAATTATGGCAAAGCTTTATT---ATTTAT---AAGTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610380 32 - 204313951 TAATTATAGCAAAGTTTTATG---ATTTAT---AAGTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662560 32 -  71252344 AAATTATAGCAAAGTTTTATC---ATTTAT---AAGTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1359777 32 -   1400280 TAATTATAGCAAAGTTTTATC---AATTAT---AAGTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148349 32 -  42888418 TAATTATAGCAAAGTTTTATC---ATTTAT---AAGTA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3037859 37 +   4132165 TAATTATAGCAAAGTGTTTTTCAAATTTACTGAAGGT-
i otoGar3.GL873679         I 3 C 0
s canFam3.chr11             14886185 24 +  74389097 TAATTTTAGTAAAGTTTTAAA---GCT-----------
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2598760 32 +   3667625 TAATTATAGCAAGTTTTTGAA---ACTTAT---AAGTG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60513791 112 + 108143057 I
e proCoq1.NW_012155062v1     3552828 96 +  11683526 I
e mm10.chr18                55491609 16 +  90702639 I

a score=28524.000000
s hg38.chr5_KI270796v1_alt     47597 3 +    172708 GGG
s panTro5.chr5             125157677 3 + 181907262 GGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494624 3 + 183735486 GGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686120 3 +   8933513 GGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816457 3 + 163208435 GGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801056 3 + 180051392 GGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224730 3 + 181584905 GGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222431 3 +  18395747 GGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228318 3 +  26952557 GGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336406 3 +  82825804 GGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000243 3 -   4237731 GGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270539 3 -   1175262 GGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610412 3 - 204313951 GGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662592 3 -  71252344 GGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1359809 3 -   1400280 GGC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148381 3 -  42888418 GGC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3552924 3 +  11683526 GGG
i proCoq1.NW_012155062v1   I 96 C 0
s otoGar3.GL873679           3037896 3 +   4132165 GGT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14886209 3 +  74389097 GGT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2598792 3 +   3667625 TAC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60513791 112 + 108143057 I
e mm10.chr18                55491609 16 +  90702639 I

a score=378246.000000
s hg38.chr5_KI270796v1_alt     47600 26 +    172708 TTTCTTAACTAATACTATGTGTAGAT
s panTro5.chr5             125157680 26 + 181907262 TTTCTTAACTAACACTATGTGTAGAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494627 26 + 183735486 TTTCTTAACTAACACTATGTGTAGAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686123 26 +   8933513 TTTCTTAACTAACACTATGTGTAGAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816460 26 + 163208435 TTTCTTAACTAACACTATATGTAGAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801059 26 + 180051392 TTTCTTAACTAGCACTATTTGTAGAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224733 26 + 181584905 TTTCTTAACTAGCACTATTTGTAGAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222434 26 +  18395747 TTTCTTAACTAGCACTATTTGTAGAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228321 26 +  26952557 TTTCTTAACTAACACTATTTGTAGAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336409 26 +  82825804 TTTCTTAACTAACACTATTTGTAGAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000246 26 -   4237731 TTTCTTAACTAACACTATGTGTAGAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270542 26 -   1175262 TTTCTTAACTAACACTATTTGTGGAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610415 26 - 204313951 TTTTTAAACTAACACTATATATAGAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662595 26 -  71252344 TTTTTAAAATAACACTATATGTAGAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1359812 26 -   1400280 TTTTTAAACTAACACTATATGTAGAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148384 26 -  42888418 TTTTTAAACTAACACTATATGTAGAT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3552927 26 +  11683526 TTTCTTAACTAAGACTGTATGTAAAC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3037899 26 +   4132165 TTCCTAAACCAATACTATAAGTTGTT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55491625 26 +  90702639 TTTCTTAACTAAAACTGCGTGTAAAT
i mm10.chr18               I 16 C 0
s canFam3.chr11             14886212 26 +  74389097 TTTCTTAAGTAAGACTATATGTAGAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2598795 26 +   3667625 TTTCTTAATTAAGACTACATATAGAT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60513791 112 + 108143057 I

a score=985405.000000
s hg38.chr5_KI270796v1_alt     47626 60 +    172708 TATAAGTAAA-TTAAGTTTAAAACCTGATACTAACTGAGGATTTATCACCCAAGAAATTGT
s panTro5.chr5             125157706 60 + 181907262 TATAAGTAAA-TTAAGTTTAAAACCTGATACTAACTGAGGATTTATCACCCAAGAAATTGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494653 60 + 183735486 TATAAGTAAA-TTAAGTTTAAAACCTGATACTAACTGAGGATTTATCACCCAAGAAATTGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686149 60 +   8933513 TATAAGTAAA-TTAAGTTTAAAACCTGATACTAACTGAGGATTTATCACCCAAGAAATTGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816486 60 + 163208435 TATAAGTAAA-TTAAGTTTAAAACCTGATACTAACTGAGCATTTATCACCCAAGAAATTGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801085 60 + 180051392 TATAAGTAAA-TTAAATTTAAAACCTGATACTAACTGAGCATTTATCACCCAAGAAATTGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224759 60 + 181584905 TATAAGTAAA-TTAAATTTAAAACCTGATACTAACTGAGCATTTATCACCCAAGAAATTGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222460 60 +  18395747 TATAAGTAAA-TTAAATTTAAAACCTGATACTAACTGAGCATTTATCACCCAAGAAATTGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228347 60 +  26952557 TATAAGTAAA-TTAAGTTTAAAACCCGATACTAACTGAGCATTTATCACCCAAGAAATTGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336435 60 +  82825804 TATAAGTAAA-TTAAGTTTAAAATCTGATACTAACTGAGCACTTATCACCCAAGAAATTGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000272 60 -   4237731 TATAAGTAAA-TTAAGTTTAAAACCCGATACTAACTGAGCATTTATCACCCAAGAAATTGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270568 60 -   1175262 TATAAGTAAA-TTAAGTTTAAAACCTGATACTAACTGAGCATTTGTCACCCAAGAAATTGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610441 60 - 204313951 TATAAATACA-TTAAGTTTAAAACCTGATACTAACTTAGCATTTATTACCCGAGAAATTGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662621 60 -  71252344 TATAAATACA-TTAAGTTTAAAACCTGATACTAACTTAGCATTTATTACCCAAGAAATTGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1359838 61 -   1400280 TATAAATACATTTAAGTTTAAAGCCTGATACTAACTTAGCATTTATTACCCAAGAAATTGT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148410 60 -  42888418 TATAAATACA-TTAAGTTTAAAACCTGATACTAACTTAGCATTTATTACCCAAGAAATTGT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60513903 60 + 108143057 TATAAGTAAA-TTAATTTTAAAATGTGATACTGACTGAGCATTTATTACCCAAGGAATTAT
i micMur3.chr12            I 112 C 0
s proCoq1.NW_012155062v1     3552953 60 +  11683526 TATAAGTAAA-TTAATTTTAAAATGTGATACCGACTGAGCATTTATCACCCAAGGAATTAT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3037925 60 +   4132165 TATAACTAAG-TTAATTTTAAAATGTGATACTGATTAAGCATTTGTCACCCAAGGAATTAT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55491651 58 +  90702639 CAATTGTAAA-ATGAGTTTGGAACCT--TTCTAACTGAGCACTTACTATGCAAGGAATTAT
i mm10.chr18               C 0 I 922
s canFam3.chr11             14886238 59 +  74389097 TCAAAGTAAA-TTAAATTT-AAATGTGATACCAGTTCAGCATCTACCACCCAAGAAATTAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2598821 60 +   3667625 TCAAAGTAAA-TTAAATTTGAAATCTGATACTGACTGAGCATTTGTCACCTAGGAAATTAT
i dasNov3.JH567306         C 0 C 0

a score=214407.000000
s hg38.chr5_KI270796v1_alt     47686 15 +    172708 CGAAGCATAAATATG
s panTro5.chr5             125157766 15 + 181907262 CGAAGCATAAATATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494713 15 + 183735486 CGAAGCATAAATATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686209 15 +   8933513 CGAAGCATAAATATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816546 15 + 163208435 CGAAGCATAAATATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801145 15 + 180051392 CGAAGCATAAATATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224819 15 + 181584905 CGAAGCATAAATATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222520 15 +  18395747 CGAAGCATAAATATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228407 15 +  26952557 CGAAGCATAAATATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336495 15 +  82825804 CGAAGCATAAATATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000332 15 -   4237731 CGAAGCATAAATATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270628 15 -   1175262 AGAAGCATAAATATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610501 15 - 204313951 CAAAGCATAAACATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662681 15 -  71252344 CAAAGCATAAATATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1359899 15 -   1400280 CAAAGCATAAATATA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148470 15 -  42888418 CAAAGCATAAATATA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60513963 15 + 108143057 CAAAGCATGAACATA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3553013 15 +  11683526 CAAAGCATGAACATA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3037985 15 +   4132165 CAAAACACGGGCATA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14886297 15 +  74389097 TGAAGCCTAAACATA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2598881 15 +   3667625 CAAGGTCTGATAACA
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55491709 922 +  90702639 I

a score=1513576.000000
s hg38.chr5_KI270796v1_alt     47701 94 +    172708 AGGCTGTGAATTCTAAACAATTACAACTTTTAGGAAATGAAAGCTCCCTTGTTACTCGATATTTAAACTAACAATTTAAGGCTTTCAGCAGTGA
s panTro5.chr5             125157781 94 + 181907262 AGGCTGTGAATTCTAAACAATTACAACTTTTAGGAAATGAAAGCTCCCTTGTTACTCGATATTTAAACTAACAATTTAAGGCTTTCAGCAGTGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494728 94 + 183735486 AGGCTGTGAATTCTAAACAATTACAACTTTTAGGAAATGAAAGCTCCCTTGTTACTCGATATTTAAACTAACAATTTAAGGCTTTCAGCAGTGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686224 94 +   8933513 AGGCTGTGAATTCTAAACAATTACAACTTTTAGGAAATGAAAGCTCCCTTGTTACTCGATATTTAAACTAATAATTTAAGGCTTTCAGCAGTGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816561 94 + 163208435 AGGCTGTGAATTCTAAACAATTACAACTTTCAGGAAACGAAAGCTCCTTTGTTACTCGATATTTAAACTAACAATTTAAGGCTTTCAGCAGTGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801160 94 + 180051392 AGGCTGTGAATTCTAAACAATTATAACTTTTAGGAAATGAAAGCGCCCTTGGTACTGGATATTTAAACTAACAATTTAAGGCTTTCAGCAGTGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224834 94 + 181584905 AGGCTGTGAATTCTAAACAATTATAACTTTTAGGAAATGAAAGCGCCCTTGTTACTGGATATTTAAACTAACAATTTAAGGCTTTCAGCAGTGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222535 94 +  18395747 AGGCTGTGAATTCTAAACAATTATAACTTTTAGGAAATGAAAGCGCCCTTGTTACTGGATATTTAAACTAACAATTTAAGGCTTTCAGCAGTGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228422 94 +  26952557 AGGCTGTGAATTCTAAACAATTATAACTTTTAGGAAATGAAAGCGCCCTTGTTACTGGATATGTAAACTAACAATTTAAGGCTTTCAGCAGTGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336510 94 +  82825804 AGGCTGTGAATTCTAAACAATTATAACTTTTAGGAAATGAAAGCGCCCTTGTTACTGGATATTTAAACTAATAATTTAAGGCTTTCAGCAGTGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000347 94 -   4237731 AGGCTGTGAATTCTAAACAATTATAACTTTTAGGAAATGAAAGCGCCCTTGTTACTGGATATTTAAACTAACAATTTAAGGCTTTCAGCAGTGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270643 94 -   1175262 AGGCTATGAATTCTAAACAATTATAACTTTTAGGAAATGAAAGCGCCCTTGTTACTGGATATTTAAACTAACAATTTAAGGCTTTCAGCAGTGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610516 89 - 204313951 AGGCTGTGAATTCTAAACAATTATAACTTTTAGGAAATAAAAGCTCCCTTGTTACTCGATATT-----TAACAATTTAAGGCTTTCAGCAGTGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662696 89 -  71252344 AGGCTGTGAATTCTAAACAATTATAACTTTTAGGAAATGAAAGCTCCCTTGTTACTCGATATT-----TAACAATTTAAGGCTTTCAGCAGTGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1359914 89 -   1400280 AGGCTGTTAATTCTAAACAATTATAGCTTTTAGGAAATGAAAGCTCCCTTGTTACTCGATATT-----TAACAATTTAAGGCTTTCAGCAGTGA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148485 89 -  42888418 AGGCTGTGAATTCTAAACAATTATAACTTTCAGGAAATGAAAGCTCCCTTGTTTCTCGATATT-----TAACAATTTAAAGCTTTCAGCAGTGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60513978 93 + 108143057 AGGCTGTAAAATCTAAACAATTACAATTTTTAGGAAATGAAAGCTCCC-TATTACTAGATATTTAAACTAACTGTAGAAGGCTTTCAACGGTTA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3553028 93 +  11683526 AGGCTGTAAAATCTAAATAATTAAAATTTTTAGGAAATGAAAACTCCC-TATTACTAGATATTTAAACTAATGGTAAAAGGCTTTCAATAGTTA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3038000 93 +   4132165 AGGCTGTAAAATCTAAATAATTAAAATTTTTAGGAGATGAAAGCTCCC-CATCACTGCATATTTAAACTAACAGTATAAGGCTTTTGTCAGTTA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55492631 94 +  90702639 AGGAAGTTCACTCTAAAGCACTATAGTGTTTAGAAAGTGAAAGCCATCTTGCCACTAGGTATCTAAGCAAACAATTTAGGGCTTTTAACGTTGA
i mm10.chr18               I 922 I 274
s canFam3.chr11             14886312 94 +  74389097 AGGCTGTAAATTCTAAACAATTACAATCTTTAGAAACTGAAAGCTCCCTTATTACTGGATATTTAAAGTGAGAACTTAAAGCTTTCATCAGCTA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2598896 94 +   3667625 ATGTTGTGAATTCTGAACAATTACAATATTTAAAAACTGAAAATTCCCCTATCATTAGATATTTAAACTAAAAATTTAAAGCTCTTAACAGCTA
i dasNov3.JH567306         C 0 C 0

a score=1984180.000000
s hg38.chr5_KI270796v1_alt     47795 131 +    172708 ACTTATAATGCACGTTGGTAA-TTGTTAGTCTTGTCTC--TAAAGTGGAAAAAGATGTAGAGATGGCCAGGATCTTTGACCAGCCATCATTGC-TAGG-GTAATGAGGAAGAGCTAAACACAGAGGGCAAAGCCAA
s panTro5.chr5             125157875 131 + 181907262 ACTTATAATGCACGTTGGTAA-TTGTTAGTCTTGTCTC--TAAAGTGGAAAAAGATGTGGAGATGGCCAGGATCTTTGACCAGCCATCATTGC-TAGG-GTAATGAGGAAGAGCTAGACACAGAGGGCAAAGCCAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494822 131 + 183735486 ACTTATAATGCACGTTGGTAA-TTGTTAGTCTTGTCTC--TAAAGTGGAAAAAGATGTGGAGATGGCCAGGATCTTTGACCAGCCATCATTGC-TAGG-GTAATGAGGAAGAGCTAGACACAGAGGGCAAAGCCAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686318 131 +   8933513 ACTTATAATGCACGTTGGTAA-TTGTTAGTCTTGTCTC--TAAAGTGGAAAAAGATGTGGAGATGGCCAGGATCTTTGACCAGCCATCATTGC-TAGG-GTAATGAGGAAGAGCTAAACACAGAGGGCAAAGCCAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816655 133 + 163208435 ACTTATAATGCACGTTGGTAA-TTGTTACTCTTGTCTCTATAAAGTGGAAAAAGATGTAGCGATGGCCAGGATCTTTGACCAGCCATCATTGC-TAAG-GTAATGAGGAAGAGCTAAACACAGAGGGCAAAGCCAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801254 130 + 180051392 ACTTATAATG-ACATTGGTAA-TTGTTAGTCTTGTCTC--TAAAGTGGAAAAAGATGTAGAGATGGCCAGGATCTCTGACCAGCCATCATTGG-TAGG-GTAATGAGGAAGATCTAAACACAGAGGGCAAAGCCAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124224928 131 + 181584905 ACTTATAATGCACATTGGTAA-TTGTTAGTCTTGTCTC--TAAAGTGGAAAAAGATGTAGAGATGGCCAGGATCTCTGACCAGCCATCATTGG-TAGG-GTAATGAGGAAGATCTAAACACAGAGGGCAAAGCCAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222629 131 +  18395747 ACTTATAATGCACATTGGTAA-TTGTTAGTCTTGTCTC--TAAAGTGGAAAAAGATGTAGAGATGGCCAGGATCTCTGACCAGCCATCATTGG-TAGG-GTAATGAGGAAGATCTAAACACAGAGGGCAAAGCCAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228516 131 +  26952557 ACTTATAATGCACATTGGTAA-TTGTTAGTCTTGTCTC--TAAAGTGGAAAAAGATGTAGAGATGGCCAGGATCTCTGACCAGCCATCATTGG-TAGG-GTAATGAGGAAGATCTAAACACAGAGGGCAAAGCCAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336604 132 +  82825804 ACTTACAATGCACATTGGTAATTTGTTAGTCTTGTCTC--TAAAGTGGAAAAAGATGTAGAGATGGCCAGGATCTCTGACCAGCCATCATTGC-TAGG-GTAATGAGGAAGATCTAAACACAGAGGGCAAAGGCAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000441 131 -   4237731 ACTTATAATGCACATTGGTAA-TTGTTAGTCTTGTCTC--TAAAGTGGAAAAAGATGTAGAGATGGCCAGGATCTCTGACCAGCCATCATTGG-TAGG-GTAATGAGGAAGATCTAAACACAGAGGGCAAAGCCAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270737 131 -   1175262 ACTTATAATGCACATTGGTAA-TCGTTAGTCTTGTCTC--TAAAGTGGAAAAAGATGTAGAGATGGCCAGGATCTCTGACCAGCCATCATTGC-TAGG-GTAATGAGGAAGATCTAAACACAGAGGGCAAAGCCAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610605 131 - 204313951 ACGTATAGTGCACGTTGGTAA-TTGTTAGTCTTGTAAC--TAAAGTGGAAAAAGAAGTAGAGATGGCCAGGATCTTTGACCAGCTGTCATTGG-TAGG-GTAATGAGGAAGATCTAAACACAGAGGGCAAAGCCAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662785 131 -  71252344 ACTTATACTGCATGTTGGTAA-TTGTTAGTCTTGTAAC--TAAAGTGGAAAAAGATGTAGAGATGGCCAGGATCTTTGACCAGCTCTCACTGG-TAGG-GTAATGAGGAAGATCTAAATACAGAGGGCAAAGCCAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360003 131 -   1400280 ACTTATAGTGCATGTTGGTAA-TTGTTAGCCTTGTAAC--TAAAGTGGAAAAAGATGTAGAGATGGCCAGGATCTTTGACCAGCCGTCATTGC-TAGG-GTATTGAGGAAGATCTAAACACAGAGGGCAAAGCCAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148574 131 -  42888418 ACTTATAATGCATGTTGGTAA-TTGTTAGTCTTGTCAC--TAAAGTGGAAAAAGATGTAGAGATGGGCAGGATCTTTGACCAGCCGTCATTGC-TAGG-GTAACGAGGAAGATCTAAACACAGTGGGCAAAGCCAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60514071 130 + 108143057 ACTTATAATGCACGTTGGTGA-TTGTTAGTCTTGTCTC--CAAGGCGGAAAAAA-GGTAGAGATGACCAGAATTTTTGACTAGACACCATTGC-TAGG-GTAAGAAGCAAGATCTAAACACAGTGGGCAAAGCCAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3553121 130 +  11683526 ACTTATAATGCATGTTGGTGA-TTGTTAGTCTTGTCTC--CAAGATGGAAAAAA-TGTAGAAATGACCAGAATTTTTGACTAGCCACCATTGT-TAGC-ATAAGGAGCAAGATCTAAACACAGTGGGAAAAGCCAA
i proCoq1.NW_012155062v1   C 0 I 81
s otoGar3.GL873679           3038093 126 +   4132165 ACTTATAAGGCATGTTGGTGA-TTGTTAGTCTTGCCTC--CAAGGTGGCAGAAA----AGAGATGACC--AATTTTTGACCAACCAGCCTGGCTTAGG-GTAATGAGCAAGATCTAATCACAGAGGGCAAAGCCCA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14886406 132 +  74389097 ACTTATGATGCATATTAGTGA-TTATTAGCCTTATCTT--CAAAGCAGAAAAAAAGGTAGAGATGACCAGAATCCCTGACCAGCCCCCATTGC-CAGGTTTAATGAGCAAGGATGGAGCAGAGTGGGCAAAGCCAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2598990 128 +   3667625 --ACATAATGCGTGTTGGTGA-TTCATAGTCTTGTCTC--CAAGAT-GAGAGAGATATAGAAATGACCAGAATCCTCCACCAGCCATGATTGC-TAGA-TTAGTGTGCAAGATCCAAATGCAGTTGGTGAGGCCAA
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55492725 274 +  90702639 I

a score=149158.000000
s hg38.chr5_KI270796v1_alt     47926 11 +    172708 GCAAAATGCTC
s panTro5.chr5             125158006 11 + 181907262 GCAAAATGCTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494953 11 + 183735486 GCAAAATGCTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686449 11 +   8933513 GCAAAATGCTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816788 11 + 163208435 GCAAAATGCTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801384 11 + 180051392 GCAAAATGCTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225059 11 + 181584905 GCAAAATGCTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222760 11 +  18395747 GCAAAATGCTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228647 11 +  26952557 GCAAAATGCTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336736 11 +  82825804 GCAAAATGCCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000572 11 -   4237731 GCAAAATGCTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270868 11 -   1175262 GCAAAATGCTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610736 11 - 204313951 GCAAAATGCTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662916 11 -  71252344 GCAAAATGCTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360134 11 -   1400280 GCAAAATGCTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148705 11 -  42888418 GCAAAATGCTC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60514201 11 + 108143057 TCGAAATGCTC
i micMur3.chr12            C 0 I 70
s otoGar3.GL873679           3038219  9 +   4132165 TCAAAACGC--
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14886538 11 +  74389097 GCAAACAGCTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2599118 11 +   3667625 GCAATAGGCTC
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3553251 81 +  11683526 I
e mm10.chr18                55492725 274 +  90702639 I

a score=52581.000000
s hg38.chr5_KI270796v1_alt     47937 4 +    172708 ACTC
s panTro5.chr5             125158017 4 + 181907262 ACTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494964 4 + 183735486 ACtt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686460 4 +   8933513 ACTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816799 4 + 163208435 ACTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801395 4 + 180051392 ACTC
i rheMac8.chr6             C 0 I 23
s macFas5.chr6             124225070 4 + 181584905 ACTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222771 4 +  18395747 ACTC
i macNem1.NW_012012355v1   C 0 I 23
s cerAty1.NW_012002512v1     5228658 4 +  26952557 ACTC
i cerAty1.NW_012002512v1   C 0 I 23
s chlSab2.chr23             28336747 4 +  82825804 ACTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000583 4 -   4237731 ACTC
i manLeu1.NW_012103321v1   C 0 I 23
s colAng1.NW_012119644v1      270879 4 -   1175262 ACTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610747 4 - 204313951 ACTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662927 4 -  71252344 ACTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360145 4 -   1400280 ACTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148716 4 -  42888418 ACTC
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14886549 4 +  74389097 TCTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2599129 4 +   3667625 ACTC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60514212 70 + 108143057 I
e proCoq1.NW_012155062v1     3553251 81 +  11683526 I
e otoGar3.GL873679           3038228 0 +   4132165 C
e mm10.chr18                55492725 274 +  90702639 I

a score=182.000000
s hg38.chr5_KI270796v1_alt     47941 2 +    172708 tt
s dasNov3.JH567306           2599133 2 +   3667625 TT
i dasNov3.JH567306         C 0 I 37
e micMur3.chr12             60514212 70 + 108143057 I
e canFam3.chr11             14886553 0 +  74389097 C
e proCoq1.NW_012155062v1     3553251 81 +  11683526 I
e gorGor5.CYUI01015135v1     1686464 0 +   8933513 C
e manLeu1.NW_012103321v1     4000587 23 -   4237731 I
e chlSab2.chr23             28336751 0 +  82825804 C
e cerAty1.NW_012002512v1     5228662 23 +  26952557 I
e macNem1.NW_012012355v1    16222775 23 +  18395747 I
e macFas5.chr6             124225074 0 + 181584905 C
e rheMac8.chr6             122801399 23 + 180051392 I
e otoGar3.GL873679           3038228 0 +   4132165 C
e aotNan1.NW_018505940v1    13148720 0 -  42888418 C
e cebCap1.NW_016107829v1     1360149 0 -   1400280 C
e mm10.chr18                55492725 274 +  90702639 I
e saiBol1.JH378106          55662931 0 -  71252344 C
e calJac3.chr2             123610751 0 - 204313951 C
e colAng1.NW_012119644v1      270883 0 -   1175262 C
e nomLeu3.chr2             139816803 0 + 163208435 C
e panPan2.chr5             126494968 0 + 183735486 C
e panTro5.chr5             125158021 0 + 181907262 C

a score=-9720.000000
s hg38.chr5_KI270796v1_alt     47943 4 +    172708 tttt--
s panPan2.chr5             126494968 2 + 183735486 --ct--
i panPan2.chr5             C 0 C 0
s nomLeu3.chr2             139816803 3 + 163208435 -Ttt--
i nomLeu3.chr2             C 0 C 0
s chlSab2.chr23             28336751 3 +  82825804 -TTT--
i chlSab2.chr23            C 0 I 21
s colAng1.NW_012119644v1      270883 3 -   1175262 -TTT--
i colAng1.NW_012119644v1   C 0 I 21
s calJac3.chr2             123610751 1 - 204313951 ---T--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662931 1 -  71252344 ---T--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360149 1 -   1400280 ---T--
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148720 1 -  42888418 ---T--
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14886553 5 +  74389097 -TTTCT
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60514212 70 + 108143057 I
e proCoq1.NW_012155062v1     3553251 81 +  11683526 I
e gorGor5.CYUI01015135v1     1686464 0 +   8933513 C
e manLeu1.NW_012103321v1     4000587 23 -   4237731 I
e cerAty1.NW_012002512v1     5228662 23 +  26952557 I
e macNem1.NW_012012355v1    16222775 23 +  18395747 I
e macFas5.chr6             124225074 0 + 181584905 C
e rheMac8.chr6             122801399 23 + 180051392 I
e otoGar3.GL873679           3038228 0 +   4132165 C
e dasNov3.JH567306           2599135 37 +   3667625 I
e mm10.chr18                55492725 274 +  90702639 I
e panTro5.chr5             125158021 0 + 181907262 C

a score=-15125.000000
s hg38.chr5_KI270796v1_alt     47947 64 +    172708 ttttttttttttttttttgagatggagcctcgctctatcacccaggctggagcgcagtggcgcg-
s panTro5.chr5             125158021 62 + 181907262 --ttttttttttttttttgagacggagcctcgctctatcacccaggctagagtgcagtggcacg-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126494970 64 + 183735486 tttttttttttttttttgtagacggagcctcgctctatcacccaggctagagtgcagtggcacg-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686464 56 +   8933513 --------ttttttttttgagacggagcctcgctctatcacccaggctggagtgcagtggcacg-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816806 64 + 163208435 tttgttgtttgtttttttgagatggagccttgctctatcacccaggctggagtgcagtggcgtg-
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124225074 23 + 181584905 ---------------TTTAATAAGGAG---------------AAACATAGAAT------------
i macFas5.chr6             C 0 C 0
s calJac3.chr2             123610752 27 - 204313951 -------------------------------------TCAATAAAGGAGAAACATAGAAATAAT-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662932 26 -  71252344 -------------------------------------TCAATAAA-GAGAAACATAGAAATAAT-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360150 27 -   1400280 -------------------------------------TCAATAAAGGAGAAACATAGAAATAAT-
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148721 27 -  42888418 -------------------------------------TCAATAAAGGAGAAACATAGAAATAAT-
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3038228 25 +   4132165 --------------------------------CTTGTTTAATAAGGCAGAAAGACGT--------
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14886558 25 +  74389097 ----------------------------------------AAAAGAAGACAATATAGAGAGAAGT
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60514212 70 + 108143057 I
e proCoq1.NW_012155062v1     3553251 81 +  11683526 I
e manLeu1.NW_012103321v1     4000587 23 -   4237731 I
e chlSab2.chr23             28336754 21 +  82825804 I
e cerAty1.NW_012002512v1     5228662 23 +  26952557 I
e macNem1.NW_012012355v1    16222775 23 +  18395747 I
e rheMac8.chr6             122801399 23 + 180051392 I
e dasNov3.JH567306           2599135 37 +   3667625 I
e mm10.chr18                55492725 274 +  90702639 I
e colAng1.NW_012119644v1      270886 21 -   1175262 I

a score=213353.000000
s hg38.chr5_KI270796v1_alt     48011 21 +    172708 CAAATTATCTCCCTGCTTGCC-
s panTro5.chr5             125158083 21 + 181907262 CAAATTATCTCTCTGCTTCCC-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495034 21 + 183735486 CAAATTATCTCTCTGCTTCCC-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686520 21 +   8933513 CAAATTATCTCTCTGCTTCCC-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816870 21 + 163208435 caaattacctccctgcCTCCC-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801422 21 + 180051392 CAAATTATCTCTCTGCCTTCC-
i rheMac8.chr6             I 23 C 0
s macFas5.chr6             124225097 21 + 181584905 CAAATTATCTCTCTGCCTTCC-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222798 21 +  18395747 CAAATTATCTCTCTGCCTTCC-
i macNem1.NW_012012355v1   I 23 C 0
s cerAty1.NW_012002512v1     5228685 21 +  26952557 CAAATTATCTCTCTGCCTTCC-
i cerAty1.NW_012002512v1   I 23 C 0
s chlSab2.chr23             28336775 21 +  82825804 CAAATTATCTCTCTGCCTTCC-
i chlSab2.chr23            I 21 C 0
s manLeu1.NW_012103321v1     4000610 21 -   4237731 CAAATTATCTCTCTGCCTTCC-
i manLeu1.NW_012103321v1   I 23 C 0
s colAng1.NW_012119644v1      270907 21 -   1175262 CAAATTATCTCTCTGCCTTCC-
i colAng1.NW_012119644v1   I 21 C 0
s calJac3.chr2             123610779 21 - 204313951 CAAATTAGCTCCCTGCCTCCT-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662958 21 -  71252344 CAAATTAGCTCCCTGCCTCCT-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360177 21 -   1400280 CAAATTAGCTCCCTGCCTCCT-
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148748 21 -  42888418 CAAATTAGCTCCTTGCCTCCT-
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3038253 22 +   4132165 CAAGTTGGCTCCCTACCTCCCT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14886583 21 +  74389097 CAGGTGGACTCCCCAACCTTT-
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60514212 70 + 108143057 I
e proCoq1.NW_012155062v1     3553251 81 +  11683526 I
e dasNov3.JH567306           2599135 37 +   3667625 I
e mm10.chr18                55492725 274 +  90702639 I

a score=140144.000000
s hg38.chr5_KI270796v1_alt     48032 14 +    172708 ACCCCAAACTGGTC
s panTro5.chr5             125158104 14 + 181907262 ACCCCAAACTGGTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495055 14 + 183735486 ACCCCAAACTGGTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686541 14 +   8933513 ACCCCAAACTGGTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816891 14 + 163208435 ACCCCAAACTGGTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801443 14 + 180051392 ACCCCAAACTGGAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225118 14 + 181584905 ACCTCAAACTGGAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222819 14 +  18395747 ACCCCAAACTGGAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228706 14 +  26952557 ACCCCAAACTGGAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336796 14 +  82825804 ACCCCAAACTGGAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000631 14 -   4237731 ACCCCAAACTGGAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270928 14 -   1175262 ACCCCAAACTGGAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610800 14 - 204313951 ACCCCAAATTGGTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662979 14 -  71252344 ACCCCAAATTTGTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360198 14 -   1400280 ACCTCAAATTGGTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148769 14 -  42888418 ACCCCAAATTGGTC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3038275 14 +   4132165 GTCCCCAGTAGGTA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14886604 14 +  74389097 ACCCGAAATAGACC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2599172 14 +   3667625 GCTGTACTCATGTC
i dasNov3.JH567306         I 37 C 0
e micMur3.chr12             60514212 70 + 108143057 I
e proCoq1.NW_012155062v1     3553251 81 +  11683526 I
e mm10.chr18                55492725 274 +  90702639 I

a score=1334369.000000
s hg38.chr5_KI270796v1_alt     48046 85 +    172708 ATTTGTTTAGGAAATGTAACCACTTGCAGGGGCTGCTGGGTGGTTAGAAAAGTCCAGAAACTTGAATCTTGAATCCTGTCTGGCA
s panTro5.chr5             125158118 85 + 181907262 ATTTGTTTAGGAAATGTAACCACTTGCAGGGGCTGCTGGGTGGTTAGAAAAGTCCAGAAACTTGATTCTTGAATCCTGTCTGTCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495069 85 + 183735486 ATTTGTTTAGGAAATGTAACCACTTGCAGGGGCTGCTGGGTGGTTAGAAAAGTCCAGAAACTTGAATCTTGAATCCTGTCTGGCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686555 85 +   8933513 ATTTGTTTAGGAAATGTAACCACTTGCAGGGGCTGCTGGGTGGTTAGAAAAGTCCAGAAACTTGAACCTTGAATCCTGTCTGGCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816905 85 + 163208435 ATTTGTTTAGGAAATGTAACAACTTGCAGGGGCTGCTGGGTGGTTAGAAAAGTCCAGAAACTTGAACCGTGAATCCTGTCTGGCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801457 85 + 180051392 ATTTGTTTAGGAAATGTAACCACTTGCAGGGGCTGCTGGGTGGTTAGAAAAGTCCAGAAACTTGAACCTTGAATCCCGTCTGGCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225132 85 + 181584905 ATTTGTTTAGGAAATGTAACCACTTGCAGGGGCTGCTGGGTGGTTAGAAAAGTCCAGAAACTTGAACCTTGAATCCCGTCTGGCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222833 85 +  18395747 ATTTGTTTAGGAAATGTAACCACTTGCAGGGGCTGCTGGGTGGTTAGAAAAGTCCAGAAACTTGAACCTTGAATCCCGTCTGGCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228720 85 +  26952557 ATTTGTTTAGGAAATGTAACCACTTGCAGGGGCTGCTGGGTGGTTAGAAAAGTCCAGAAACTTGAACCTTGAATCCCGTCTGGCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336810 85 +  82825804 ATTTGTTTAGGAAATGCAACCACTTGCAGGGGCTGCTGGGTGGTTAGAAAAGTCCAGAAACTTGAACCTTGAATCCCGTCTGGCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000645 85 -   4237731 ATTTGTTTAGGAAATGTAACCACTTGCAGGGGCTGCTGGGTGGTTAGAAAAGTCCAGAAACTTGAACCTTGAATCCCGTCTGGCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      270942 85 -   1175262 ATTTGTTTAGGAAATGTAACCACTTGCAGGGGCTGCTGGGTGGTTAGAAAAGTCCAGAAACTTGAACCTTGAATCCCATCTGGCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610814 85 - 204313951 ATTGGTTTAGGAAATGTAACCACTTGTAGGGGCTGCTGGATGGTTAGAAAAGTCCAGAAACTTGAACCTTGAATTTTGTCTGGCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55662993 85 -  71252344 ATTTGTTTAGGAAATGTAACCACTTGTAGGGGCTGCTGGATGGTTAGAAAAGTTCAGGAACTCGAACCTTGAATTTTATCTGGCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360212 85 -   1400280 ATTTGTTTAGGAAATGTAACCACTTATAGGGGCTGCTGGTTGGTTGGAAAAGTCCAGAAACTTGAACCTTGAATTTTGTCTGGCA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148783 85 -  42888418 ATTTGTTTAGGAAATGTAACCACTTGTAGGGGCTGCTGGATCGTTAGAAAAGTCCAGAAACTTGAACCTTGAATTTTGTCTGGCA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60514282 85 + 108143057 ATTTGTGTAGAAAATGTAACCACTTGCAGAAGCTGCTGGGTAGTTAGAAAAATCTGGAAACTTGAACCTTGAATCCTGCCTGGCA
i micMur3.chr12            I 70 I 106
s proCoq1.NW_012155062v1     3553332 85 +  11683526 ATTTGTGTAGGAAATATAGCCACTTGCAGAAGCTGCTGGCTACTCAGAGAAGTCCAGAAACTTGAACCTTGAATCCTGCCTGGCA
i proCoq1.NW_012155062v1   I 81 C 0
s otoGar3.GL873679           3038289 79 +   4132165 ATTTGTTTAGGAAGTGTAACCACTTACAGAGG-TGCTGGGTGCCTACAGATGTCCAGAGACTTAAACCTTGAATCCTGCA-----
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14886618 85 +  74389097 ATTTGTCTAGGAAACGTTACCACTTACAGGGGCTACTGGGTGGTGAGAGAAATTTGGGAGCTTGGCCCTAGAACCTTGACTGGTG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2599186 84 +   3667625 CATTATTTAGGAAA-ACCACCACTTGCAGAGAGTTCTGGCTGGCTAGAGAAGTCCTGATATCTTGACCTTGAACCCATCCTGGCA
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55492725 274 +  90702639 I

a score=85509.000000
s hg38.chr5_KI270796v1_alt     48131 6 +    172708 ACTGAA
s panTro5.chr5             125158203 6 + 181907262 ATTGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495154 6 + 183735486 ATTGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686640 6 +   8933513 ATTGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816990 6 + 163208435 ACTGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801542 6 + 180051392 GTTGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225217 6 + 181584905 GTTGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222918 6 +  18395747 GTTGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228805 6 +  26952557 GTTGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336895 6 +  82825804 GTTGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000730 6 -   4237731 GTTGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      271027 6 -   1175262 GTTGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610899 6 - 204313951 ATTGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55663078 6 -  71252344 GTTGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360297 6 -   1400280 ATTGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148868 6 -  42888418 ATTGAA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3553417 6 +  11683526 ATTGAA
i proCoq1.NW_012155062v1   C 0 I 102
s otoGar3.GL873679           3038368 6 +   4132165 ATTGAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14886703 6 +  74389097 GTTGAA
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2599270 6 +   3667625 AATGAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60514367 106 + 108143057 I
e mm10.chr18                55492725 274 +  90702639 I

a score=737251.000000
s hg38.chr5_KI270796v1_alt     48137 65 +    172708 ACACTGGAAGGCTGCGGAGAAAAG-GAAGGGAAGAAAATGCAGTTTCAAAATTAGTGTTGCT----------GG-TA
s panTro5.chr5             125158209 65 + 181907262 ACACTGGAAGGCTGCGGAGAAAAG-GAAGGGAAGAAAATGCAGTTTCAAAATTAGTGTTGCT----------GG-TA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495160 65 + 183735486 ACACTGGAAGGCTGCGGAGAAAAG-GAAGGGAAGAAAATGCAGTTTCAAAATTAGTGTTGCT----------GG-TA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686646 65 +   8933513 ACACTGGAAGGCGGCGGAGAAAAG-GAAGGGAAGAAAATGCAGTTTCAAAATTAGTGTTGCT----------GG-TA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139816996 65 + 163208435 ACACTGGAAGGCTGTGGAGAAAAG-GAAGGGAAGAAAATGCAGTTTCAAAATTAGTGTTGCT----------GG-TA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801548 66 + 180051392 ACACTGGAAAGCTGCGGAGAAAAG-GAAGGGAAGAAAATGCAGTTTCAAAATTAGTGTTGCT----------GGTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225223 66 + 181584905 ACACTGGAAAGCTGCGGAGAAAAG-GAAGGGAAGAAAATGCAGTTTCAAAATTAGTGTTGCT----------GGTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222924 66 +  18395747 ACACTGGAAAGCTGCGGAGAAAAG-GAAGGGAAGAAAATGCAGTTTCAAAATTAGTGTTGCT----------GGTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228811 66 +  26952557 ACACTGGAAGGCTGCGGAGAAAAG-GAAGGGAAGAAAATGCAGTTTCAAAATTAGTGTTGCT----------GGTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336901 66 +  82825804 ACACTGGAAGGCTATGGAGAAAAG-GAAGGGAAGAAAATGCAGTTTCAAAATTCGTGTTGCT----------GGTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000736 66 -   4237731 ACACTGGAAGGCTGCGGAGAAAAG-GAAGGGAAGAAAATGCAGTTTCAAAATTAGTGTTGCT----------GGTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      271033 65 -   1175262 ACACTGGAAGGCTGCAGAGAAAAG-GAAGGGAAGAAAATGTAGTTTCAAAATTAGTATTGCT----------GG-TA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610905 65 - 204313951 ACACTGGAAGGCTGTGGAGACAAG-GAAGAGAAGAAAATGCAGTTTCAAAATTAGTGTTGCT----------GG-TA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55663084 61 -  71252344 ACACTGGAAGGCTGTGGAGAC-----AAGAGAAGAAAATGCAGTTTCAAAATTAGTGTTGCT----------GG-TA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360303 65 -   1400280 ACACTGGAAGGCTGTGGACACAAG-GAAGAGAAGAAAATGCAGTTTCAAAATTCGTGTTGCT----------GG-TA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148874 61 -  42888418 ACACTGGAAGGCTGTGGAGGC-----AAGAGAAGAAAATGCAGTTTCAAAATTAGTGCTGCT----------GG-TA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3038374 58 +   4132165 --------AGGCTGGAGAGGGAAGAGAAAGGAAGTAAATACAATTTCAGAATTTTCGTTGTT----------GG-AG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14886710 75 +  74389097 ACACTGGAGCGCTGTGAAGGGAGA-GGGAAGAAGAAGCTGCAATTCCAAAATCTGTGTTGCTgaggcacctggg-ta
i canFam3.chr11            I 1 I 240
s dasNov3.JH567306           2599276 62 +   3667625 ATATTGACTGGCTGGGAAGGA----GGAGGGAAGGAACTGCAACGTCACAACTTGTGTTGCT----------GG-AG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60514367 106 + 108143057 I
e proCoq1.NW_012155062v1     3553423 102 +  11683526 I
e mm10.chr18                55492725 274 +  90702639 I

a score=467002.000000
s hg38.chr5_KI270796v1_alt     48202 53 +    172708 TT--------GAA-TTCTGCCTAGAAAGATGCT--TATTTGGGGGTGGGGTGGAGGAGGTGGCA
s panTro5.chr5             125158274 52 + 181907262 TT--------GAA-TTCTGCCTAGAAAGATGCT--TATTTGGGGGTGGGGTGGAGGAGGTGGC-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495225 52 + 183735486 TT--------GAA-TTCTGCCTAGAAAGATGCT--TATTTGGGGGTGGGGTGGAGGAGGTGGC-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686711 52 +   8933513 TT--------GAA-TTCTGCCTAGAAAGATGCT--TATTTGGGGGTGGGGTGGAGGAGGTGGC-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139817061 52 + 163208435 TT--------GAA-TTCTGCCTAGAAAGATGCT--TATTTGGGGGTGGGGTGGAGGAGGTGGC-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801614 52 + 180051392 TT--------GAA-TTCTGCCTAGAAAGATGCT--TATTTGGGGGTGGGGTGGAGGAGGTGGC-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225289 52 + 181584905 TT--------GAA-TTCTGCCTAGAAAGATGCT--TATTTGGGGGTGGGGTGGAGGAGGTGGC-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16222990 52 +  18395747 TT--------GAA-TTCTGCCTAGAAAGATGCT--TATTTGGGGGTGGGGTGGAGGAGGTGGC-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228877 52 +  26952557 TT--------GAA-TTCTGCCTAGAAAGATGCT--TATTTGGGGGTGGGGTGGAGGAGGTGGC-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28336967 52 +  82825804 TT--------GAA-TTCTGCCTAGAAAGATGCT--TATTTGGGGGTGGGGTGGAGGAGGTGGC-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000802 52 -   4237731 TT--------GAA-TTCTGCCTAGAAAGATGCT--TATTTGGGGGTGGGGTGGAGGAGGTGGC-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      271098 52 -   1175262 TT--------GAA-TTCTGCCTAGAAAGATGCT--TATTTGGGGGTGGGGTGGAGGAGGTGGC-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123610970 53 - 204313951 TT--------GAAATTATGCCTTTGAAGATGCT--TATTTGCCGATGGGGTGGGAAACGTGGC-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55663145 53 -  71252344 TT--------GAACTCATGCCTCGGAAGATGCT--TATTTGCAGGTGGGGTGGGAAAGGTGGC-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360368 53 -   1400280 TT--------GAAGTTATGCCTCTGAAGATGCT--TATTTGTGGGTGGGGTGGGAAAGGTGGC-
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148935 52 -  42888418 TT--------GAAATTATGCCTCAGAAGATGCT--TATTTGTGGGTGGGG-GGGAAAGGTGGC-
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3038432 43 +   4132165 TTCATCACTGGAA-TTCTGCCTAGGTAGATGCC--CATTTAAGGGA------------------
i otoGar3.GL873679         C 0 I 2
s canFam3.chr11             14887025 35 +  74389097 TT--------GAA-TTCTGCTTAGTAAGATGCTTATATTTGGGG--------------------
i canFam3.chr11            I 240 C 0
s dasNov3.JH567306           2599338  3 +   3667625 --------------------------------T--TA---------------------------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60514367 106 + 108143057 I
e proCoq1.NW_012155062v1     3553423 102 +  11683526 I
e mm10.chr18                55492725 274 +  90702639 I

a score=149071.000000
s hg38.chr5_KI270796v1_alt     48255 15 +    172708 AAAAAACTTCCAAT-G
s panTro5.chr5             125158326 15 + 181907262 AAAAAACTTCCAAT-G
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495277 15 + 183735486 AAAAAACTTCCAAT-G
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686763 15 +   8933513 AAAAAACTTCCAAT-G
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139817113 15 + 163208435 AAAAAACTTCCAAT-G
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801666 14 + 180051392 -AAAAACTTCCAAT-G
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225341 14 + 181584905 -AAAAACTTCCAAT-G
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16223042 14 +  18395747 -AAAAACTTCCAAT-G
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228929 14 +  26952557 -AAAAACTTCCAAT-G
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28337019 14 +  82825804 -AAAAACTTCCAAT-G
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000854 14 -   4237731 -AAAAACTTCCAAT-G
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      271150 14 -   1175262 -AAAAACTTCCAAT-G
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123611023 15 - 204313951 AAAAACCTGCCAAT-G
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55663198 15 -  71252344 AAAAACCTGCCAAT-G
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360421 15 -   1400280 AAAAACCTGCCAAT-G
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13148987 16 -  42888418 AAAAACCTGCCAATGG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3553525 15 +  11683526 AAAAACCTCCCAAT-A
i proCoq1.NW_012155062v1   I 102 C 0
s otoGar3.GL873679           3038477 15 +   4132165 AAAACTCTTCCAGT-G
i otoGar3.GL873679         I 2 C 0
s canFam3.chr11             14887060 15 +  74389097 AGAACAACTCCAAG-A
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2599341  4 +   3667625 -AAAA-----------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60514367 106 + 108143057 I
e mm10.chr18                55492725 274 +  90702639 I

a score=1122443.000000
s hg38.chr5_KI270796v1_alt     48270 73 +    172708 GGATTTTGTTTTTATAAAGGTAAACTC-AAGATATAATCCTGGAATGGAAACTGAGAGTTAAATGTCTGTGAAT
s panTro5.chr5             125158341 73 + 181907262 GGATTTTGTTTTTATAAAGGTAAACTC-AAGATATAATCCTGGAATGGAAACTGAGAGTTAAATGTCTGTGAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495292 73 + 183735486 GGATTTTGTTTTTATAAAGGTAAACTC-AAGATATAATCCTGGAATGGAAACTGAGAGTTAAATGTCTGTGAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686778 72 +   8933513 GGATTTTGTTTTTATAAAGGTAAACTC-AAGAT-TAATCCTGGAATGGAAACTGAGAGTTAAATGTCTGTGAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139817128 68 + 163208435 GGATTTTGTTTTTATAAAGGTAAACTC-AAGATCTAATCC-----TGGAAACTGAGAGTTAAATATCTGTGAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801680 73 + 180051392 GGATTTTGTTTTTATAAAGGTAAACCC-AAGATCTAATCCTGGAATGGAAACTGAGGGTTAAATGTCTGTGAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225355 73 + 181584905 GGATTTTGTTTTTATAAAGGTAAACCC-AAGATCTAATCCTGGAATGGAAACTGAGGGTTAAATGTCTGTGAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16223056 73 +  18395747 GGATTTTGTTTTTATAAAGGTAAACCC-AAGATCTAATCCTGGAATGGAAACTGAGGGTTAAATGTCTGTGAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5228943 73 +  26952557 GGATTTTGTTTTTATAAAGGTAAACCC-AAGATCTAATCCTGGAATGGAAACTGAGGGTTAAATGTCTGTGAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28337033 73 +  82825804 GGATTTTGTTTTTATAAAAGTAAACCC-AAGATCTAATCCTGGAATGGAAACTGAGGGTTAAATGTCTGTGAGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000868 73 -   4237731 GGATTTTGTTTTTATAAAGGTAAACCC-AAGATCTAATCCTGGAGTGGAAACTGAGGGTTAAATGTCTGTGAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      271164 73 -   1175262 GGATTTTCTTTTTATAAAGGTAAACTC-AAGATCTAATCCTGGAATGGAAACTGAGGGTTAAATGTCTGTGAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123611038 72 - 204313951 GGATTTTGTTTTTATAAAGGTAAACTC-AAGATCTAATCCTGGAA-GGAAACTGAGAGTTAAATATCCGTGAAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55663213 72 -  71252344 GGATTTTGTTTTTATAAAGGTCAACTC-AAGATCTAATCCTGAAA-GGAAACTGAGAGTTAAATGTCTGTGAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360436 72 -   1400280 GGATTTTGTTTTTATAAAGGTAAACTC-AAGATCTAATCCTAGAA-GGAAACTGAGAGTTATATGTCTGTGAAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13149003 73 -  42888418 GGATTTTGTTTTTATAAAGGTAAACGCTAAGATCTAATCCTGGAA-GGAAACTGAGAGTTAAATGTCTGTGAAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60514473 73 + 108143057 GGATTTTGTTCATATAAAGGTAAAGCC-AAGATCTAATTCTGGAGTGGAAACTGAGAGTGAAATGTTTGCGAAT
i micMur3.chr12            I 106 I 144
s proCoq1.NW_012155062v1     3553540 73 +  11683526 GGATTTTGTTTGTATAAAGATAAAGCC-GAGATCTAATTCTGGAGTGGAAACTGAGAGTTAAATGTTTGTGAAT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3038492 67 +   4132165 AGCTTTTGTTTATA------TAAAGCC-AATATCAACTTCTAGAAAGGAAACTGAGAATTAAATGTTTGTGAAT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14887075 73 +  74389097 GGATTTTGTTTGTACAAAGATAAAGCC-TAGATCTAATTATGGAATGGAAACTGAGAGTTAAATGTCTGTGAAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2599345 66 +   3667625 -------GTTTGTATATAGGTAAAGCC-AGGATCTAATTCTGGAATGGAAATTGAGAGTTAAACTTCTGTGGAT
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55492725 274 +  90702639 I

a score=612147.000000
s hg38.chr5_KI270796v1_alt     48343 49 +    172708 AATAATGAAAGAGGTAAACGTCACGGTGAATAGAATTGAGACAGTAGGG
s panTro5.chr5             125158414 49 + 181907262 AATAATGAAAGAGGTAAACGTCACGGTGAATAGAATTGAGACAGTAGGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495365 49 + 183735486 AATAATGAAAGAGGTAAACGTCACGGTGAATAGAATTGAGACAGTAGGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686850 49 +   8933513 AATAATGAAAGAGGTAAACGTCACGGTGAATGGAATTGAGACAGTAGGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139817196 49 + 163208435 AACAATGAAAGAGGTAAACTTCACGGTAAATAGAATTGAGCCAGTACGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801753 49 + 180051392 AATAATGAAAGAGGTAAACTTCACGGTGAATAGAATTGAGCCAGGAGGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225428 49 + 181584905 AATAATGAAAGAGGTAAACTTCACGGTGAATAGAATTGAGCCAGGAGGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16223129 49 +  18395747 AATAATGAAAGAGGTAAACTTCACGGTGAATAGAATTGAGCCAGGAGGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5229016 49 +  26952557 AATAATGAAAGAGGTAAACTTCACGGTGAATAGAATTGAGCCAGGAGGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28337106 49 +  82825804 AATAATGAAAGAGGTAAACTTCACGGTGAATAGAATTGAGCCAGGAGGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000941 49 -   4237731 AATAATGAAAGAGGTAAACTTCACGGTGAATAGAATTGAGCCAGGAGGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      271237 49 -   1175262 AATAATGAAAGAGATAAACTTCACGGTGAATAGAATTGAGCCAGGAGGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123611110 49 - 204313951 AATAATGAAAGAGGTAAACTTCACTGTGAATAGAATTGAACCAGTGGAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55663285 49 -  71252344 AATAATGAAAGAAGTAAACTTCACTGTGACTAGAATTGAACCAGTGGAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360508 49 -   1400280 AATAATGAAAGAGGTAAACTTGACTGTGAATAGAATTGAACCAGTGGAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13149076 49 -  42888418 AATAATGAAAGAGGTAAACTTCACTGTGAATAGAATTGAACCAGTGGAG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3553613 49 +  11683526 AATAATGGAAGAGCTTATGTTCACTGTGGGTAGAGTTGAGCCAGGGGGG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3038559 49 +   4132165 AATAATGGAAGAGGCTGTCTCCCCTCTTGGTAGAATTGAGCCAGTGGGG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14887148 49 +  74389097 AATAATACAAGAGGTTATCTTCAGTGTGGGTGGATTTGAGCCAGTGGGG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2599411 47 +   3667625 --AAATGCAAGAGGTTATGTTCATTGTAGTTGGATTTAAGCCACTGGGG
i dasNov3.JH567306         C 0 I 35
e micMur3.chr12             60514546 144 + 108143057 I
e mm10.chr18                55492725 274 +  90702639 I

a score=1167327.000000
s hg38.chr5_KI270796v1_alt     48392 96 +    172708 -TAATTCTATACCTGTGTGGCAGATCTGAGAATGGCCTGTCAGCACCTCTGTGAGGCTTGAGACT--CAGGGTCGGGGCAGTAACTCCAGGCTAAGAA-G
s panTro5.chr5             125158463 96 + 181907262 -TAATTCTATACCTGTGTGGCAGATCTGAGAATGGCTTGTCAGCACCTCTGTGAGGCTTGAGACT--CAGGGTCGGGGCAGTAACTCCAGGCTAAGAA-G
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495414 96 + 183735486 -TAATTCTATACCTGTGTGGCAGATCTGAGAATGGCCTGTCAGCACCTCTGTGAGGCTTGAGACT--CAGGGTCGGGGCAGTAACTCCAGGCTAAGAA-G
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686899 96 +   8933513 -TAATTCTATACCTGTGTGGCAGATCTGAGAATGGCCTGTCAGCACCTCTGTGAGGCTTGAGACT--CAGGGTGGGGGCAGTAACTCCAGGCTAAGAA-G
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139817245 96 + 163208435 -TAATTCTGTACGTGTGTGGCAGATCTGAGAATGGCCTATCAGCACCTCTGTGAGGCTTGAGACT--CAGGGTGGGGGTAGTATCTCTAGGCTAAGAA-G
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801802 96 + 180051392 -TAATTCTATACCTGTGTGGCAGATCTGAGAATGGCCTATCAGCACCTCTGTGAGACTTGAGACT--CAGGGTGGGGGCAGTAACTCCAGGCTAAGAA-G
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225477 96 + 181584905 -TAATTCTATACCTGTGTGGCAGATCTGAGAATGGCCTATCAGCACCTCTGTGAGACTTGAGACT--CAGGGTGGGGGCAGTAACTCCAGGCTAAGAA-G
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16223178 96 +  18395747 -TAATTCTATACCTGTGTGGCAGATCTGAGAATGGCCTATCAGCACCTCTGTGAGACTTGAGACT--CAGGGTGGGGGCAGTAACTCCAGGCTAAGAA-G
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5229065 96 +  26952557 -TAATTCTATACCTGTGTGGCAGATCTGAGAATGGCCTATCAGCACCTCTGTGAGACTTGAGACT--CAGGGTGGGGGCAGTAACTCCAGGCTAAGAA-G
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28337155 96 +  82825804 -TAATTCTATACCTGTGTGGCAGATCTGAGAATGGCCTATCAACACCTCTGTGAGACTTGAGACT--CAGGGTGGGGGCAGTAACTCCAGGCTAAGAA-G
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4000990 96 -   4237731 -TAATTCTATACCTGTGTGGCAGATCTGAGAATGGCCTATCAGCACCTCTGTGAGACTTGAGACT--CAGGGTGGGGGCAGTAACTCCAGGCTAAGAA-G
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      271286 96 -   1175262 -TAATTCTACACCTGTGTGGCAGATCTGAGAATGGCCTATCAGCACCTCTGTGAGACTTGAGACT--CAGGGTGGGGGCAGTAACTCTGGGCTAAGAA-G
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123611159 96 - 204313951 -TAATTCCATACCTGTGTGGCAGATCTGAGAATGGCCTATTCGCATCTCCATGAGGCTTGAGACT--CAGAGAGGGAGCAGTAACTCCAGGCTAAGAA-G
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55663334 96 -  71252344 -TAATTCCATACCTGTGCGGCAGATCTAAGAATGGCCTATCCGCATCTCCGTGAGGCTTGAGACT--CAGAGAGGGAGCAGTAACTCCAGGCTAAGAA-C
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360557 96 -   1400280 -TAATTCCACACCTGTGCGGCAGATATGAGAATGGCCTATCTGCATCTCCAGGAGGCTTGAGACT--CAGAGAGGAAACAGTAACTCCAGGCTAAGAA-C
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13149125 96 -  42888418 -TAATTCCATACCTGTGCGGCAGATCTGAGAATGGCCTATCCGCATCTCCGTGAGGCTTGAGACT--CAGAGAGGGAGCAGTAACTCCAGGCTAAGAA-G
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3553662 97 +  11683526 -TAATTCTGTGCCTGTGCGGCAGGTCTGAAAATGGCATATCAGTGTCTTTGGGAGACTCAAGACTTCTGAAGTGGGGGCATTAACTCCAGGT-AAGACC-
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3038608 97 +   4132165 -CATTTCTATGCCTGTGTAGCAGATGCAAGAACAGCCTATCAGTCTGTCTATGAGGTTCAAGACTTTTGTAGCGGGAGCATTAACTCCAGGTGAAGAG--
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14887197 95 +  74389097 ATAATAATA-GTCTGGGTGGCAGGTCTGAGAATAGCCTATCAATCTCTCTGTGAGAGTCAAGACTTTGGGGGTGGGAGCATTAACTCCAGGATAAG----
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60514546 144 + 108143057 I
e dasNov3.JH567306           2599458 35 +   3667625 I
e mm10.chr18                55492725 274 +  90702639 I

a score=1558716.000000
s hg38.chr5_KI270796v1_alt     48488 105 +    172708 AATATAGTCAAAGACTCTCCCACTGCAAGGGAATT------------TTCAACTTTTCattcagtcatttaactaatattcattcactgggcacctaccttatgctgacattgtcta
s panTro5.chr5             125158559 105 + 181907262 AATATAGTCAAAGACTCTCCCACTGCAAGGGAATT------------TTCAACTTTTCattcagtcatttaactaatattcattcactgggcacctaccttatgctgacattgtcta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495510 105 + 183735486 AATATAGTCAAAGACTCTCCCGCTGCAAGGGAATT------------TTCAACTTTTCattcagtcatttaactaatattcattcactgggcacctaccttatgctgacattgtcta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1686995 105 +   8933513 AATATGGTCAAAGACTCTCCCACTGCAAGGGAATT------------TTCAACTTTTCattcagtcatttaactaatattcattcactgggcacctaccttatgctgacattgtcta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139817341 105 + 163208435 AATATAGTCAAAGACTCTCCCACTGCAAGGGAATT------------TTCAACTTTTCattcagtcatttaactaatattcattcactgggtacctaccttatgctgacattgtcta
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122801898 105 + 180051392 AATATAGTCAAAGACTCTCCCACTGCAAGGGAATT------------TTCAACTTTTCattcagtcatttgactaatattcattcattgggcacctaccttatgctgacattgtcta
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225573 105 + 181584905 AATATAGTTAAAGACTCTCCCACTGCAAGGGAATT------------TTCAACTTTTCattcagtcatttgactaatattcattcattgggcacctaccttatgctgacattgtcta
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16223274 105 +  18395747 AATATAGTCAAAGACTCTCCCACTGCAAGGGAATT------------TTCAACTTTTCattcagtcatttgactaatattcattcattgggcacctaccttatgctgacattgtcta
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5229161 105 +  26952557 AATATAGTCGAAGACTCTCCCACTGCAAGGGAATT------------TTCAACTTTTCattcagtcatttgactaatattcattcattgggcacctaccttatgctgacattgtcta
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28337251 105 +  82825804 AATATAGTCGAAGACTCTCCCACTGCAAGGGAATT------------TTCAACTTTTCattcagtcatttgactaatattcattcattgggcacctaccttatgctgacattgtcta
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4001086 105 -   4237731 AATATAGTCGAAGACTCTCCCACTGCAAGGGAATT------------TTCAACTTTTCattcagtcatttgactaatattcattcattgggcacctaccttatgctgacattgtcta
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      271382 105 -   1175262 AATATAGTCGAAGACTCTCCCACCGCAAGGGAATT------------TTCAACTTTTCattcagtcatttgactaatattcattcattgggcacctaccttatgctgacattgtcta
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123611255 105 - 204313951 AATGCAGTCAAAGACTCTCCCACTGCAAGGGAATT------------TTCAACTTTTCATTCAATCATTTAGCTAATATTCATTCATGGGGCACTTGCCTTATGCTGACATTTTCTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55663430 105 -  71252344 AATACCATCAAAGACTCTCCCACTGCAATGGAATT------------TTCGACTTTTCattcagtcatttaactaatatttattcattgggcacttaccttatgctgacgttttcta
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360653 105 -   1400280 AATACAGTCAAAGACTCTCCCACTGCAAGGGAGTT------------TTCAACTTTTCattcagtcatttaactaacattcattcattgggcacttaccttatgctgacattttcta
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13149221 105 -  42888418 AATACAGTCAAAGACTCTCCCACTGCAAGGGAATT------------TTCAACTTTTCattcagtcatttaactaatattcattcattgggcacttaccttatgctgacattttcta
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60514690 117 + 108143057 AATGTAGTCAAAGACTCTCCCACTTCAAGGTAGTTTCATTCATTCACTTCAACTTTTCattcagtcatttaactaatatgaatttactggatacctaccctgtgctgacattatcta
i micMur3.chr12            I 144 C 0
s proCoq1.NW_012155062v1     3553759 105 +  11683526 AACGTAGTCAAAGAATCTCCCACTTCAAGGTAGTT------------TTCAACTTTTCattcagtcatttaactaatattaatttactggacacctaccctgtgctgacattatcta
i proCoq1.NW_012155062v1   C 0 I 309
s otoGar3.GL873679           3038705 104 +   4132165 AATGTAGTCAAAGACTTTCCCTCTGCCAGGTAATT------------TTCAACTTCTCA-TCTGTCATTCAACTAATATTCATTTATTGGATACCTACCCTATGCTAACATTATCTA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14887292 116 +  74389097 AACATAGTCTGAGGCTCTCCTATGGCATGGGAGATGGCCTGAATCA-TGAAACTTTTTGTTCAATTGTTAAACTAATGTTCATTTGTTGGACACATACCCTGTGATGGCATTATCTA
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2599458  35 +   3667625 I
e mm10.chr18                55492725 274 +  90702639 I

a score=8295.000000
s hg38.chr5_KI270796v1_alt     48593 1 +    172708 a
s panTro5.chr5             125158664 1 + 181907262 a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495615 1 + 183735486 a
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1687100 1 +   8933513 a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139817446 1 + 163208435 a
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122802003 1 + 180051392 a
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225678 1 + 181584905 a
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16223379 1 +  18395747 a
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5229266 1 +  26952557 a
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28337356 1 +  82825804 a
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4001191 1 -   4237731 a
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      271487 1 -   1175262 a
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123611360 1 - 204313951 G
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55663535 1 -  71252344 g
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360758 1 -   1400280 g
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13149326 1 -  42888418 g
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60514807 1 + 108143057 a
i micMur3.chr12            C 0 I 125
s otoGar3.GL873679           3038809 1 +   4132165 A
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14887408 1 +  74389097 A
i canFam3.chr11            C 0 C 0
e proCoq1.NW_012155062v1     3553864 309 +  11683526 I
e dasNov3.JH567306           2599458 35 +   3667625 I
e mm10.chr18                55492725 274 +  90702639 I

a score=1294267.000000
s hg38.chr5_KI270796v1_alt     48594 134 +    172708 ctggg--caatggTCA--TAAAGAATCCTTGGGATTGGGTATGGCCCTGAG-AGTGTAAGAGCAGGAATGCTTACCTAATTTATTTCTGTTTGTTT-CTT----------------------TTCCTTT---------------------------------TCTTTTTTTCAT------------------------------------------------GTCACTTCTATACTCTTGAGC
s panTro5.chr5             125158665 135 + 181907262 ctggg--caatggTCA--TAAAGAATCCTTGGGATTGGGTATGGCCCTGAACAGTGTAAGAGCAGGAATGCTTACCTAATTTATTTCTGTTTGTTT-ATT----------------------TTCCTTT---------------------------------TCTTTTTTTCAT------------------------------------------------GTCCCTTCTGTACTCTTGAGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495616 134 + 183735486 ctggg--caatggTCA--TAAAGAATCCTTGGGATTGGGTATGGCCCTGAG-AGTGTAAGAGCAGGAATGCTTACCTAATTTATTTCTGTTTGTTT-CTT----------------------TTCCTTT---------------------------------TCTTTTTTTCAT------------------------------------------------GTCCCTTCTGTACTCTTGAGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1687101 134 +   8933513 ctggg--caatggTCA--TAAAGAATCCTTGGGATTGGGTGTGGCCCTGAG-ACTGTAAGAGCAGGAATGCTTACCTAATTTATTTCTGTTTGTTT-CTT----------------------TTCCTTT---------------------------------TCTTTTTTTCAT------------------------------------------------GTCCCTTCTGTACTCTTGAGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139817447 134 + 163208435 ctggg--caatggtca--taaagAATCTTTGGGATTGGGTATGGCCCTGAG-ACTGTAAGAGCAGGAATGCCTGCCTAGTTTATTTCTGTTTGTTT-CTT----------------------TTCCTTT---------------------------------TCTTTTTTTCAT------------------------------------------------GTCCCTTCTGTACTCTTAAGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122802004 132 + 180051392 ttggg--caatggtca--taaagAATCCTTGGGATTGGGTATGGCCCTGAG-AC--TAAGAGCAGGAATGCTTACCTAATTTATTTCTGTTTGTTT-CTT----------------------TTCCTTT---------------------------------TCTTTTTTTCAT------------------------------------------------GTCCCTTCTGTACTCTTAAGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225679 132 + 181584905 ttggg--caatggtca--taaagAATCCTTGGGATTGGGTATGGCCCTGAG-AC--TAAGAGCAGGAATGCTTACCTAATTTATTTCTGTTTGTTT-CTT----------------------TTCCTTT---------------------------------TCTTTTTTTCAT------------------------------------------------GTCCCTTCTGTACTCTTAAGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16223380 132 +  18395747 ttggg--caatggtca--taaagAATCCTTGGGATTGGGTATGGCCCTGAG-AC--TAAGAGCAGGAATGCTTACCTAATTTATTTCTGTTTGTTT-CTT----------------------TTCCTTT---------------------------------TCTTTTTTTCAT------------------------------------------------GTCCCTTCTGTACTCTTAAGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5229267 134 +  26952557 ttggg--caatggtca--taaagAATCCTTGGGATTGGGTATGGCCCTGAG-ACTGTAAGAGCAGGAATGCTTACCTAATTTATTTCTGTTTGTTT-CTT----------------------TTCCTTT---------------------------------TCTTTTTTTCAT------------------------------------------------GTCCCTTCTGTACTCTTAAGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28337357 134 +  82825804 ttggg--caatggtca--taaagAATCCTTGGGATTGGGTATGGCCCTGAG-ACTGTAAGAGCAGGAATGCTTACCTAATTTATTTCTGTTTGTTT-CTT----------------------TTCCTTT---------------------------------TCTTTTTTTCAT------------------------------------------------GTCCCTTCTGTACTCTTAAGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4001192 134 -   4237731 ttggg--caatggtca--taaagAATCCTTGGGATTGGGTATGGCCCTGAG-ACTGTAAGAGCAGGAATGCTTACCTAATTTATTTCTGTTTGTTT-CTC----------------------TTCCTTT---------------------------------TCTTTTTTTCAT------------------------------------------------GTCCCTTCTGTACTCTTAAGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      271488 126 -   1175262 ttggg--caatggtca--taaagAATCCTTGGGACTGGGTATGGCCCTGAG-AC--TAAGAGCAGGAATGCTTACCTAATTTATTTCTGTTTGTTT-CTT----------------------TTCCTTT---------------------------------TC------TCAT------------------------------------------------GTCCCTTCTGTACTCTTAAGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123611361 140 - 204313951 CTGGG--CAATGGTCA--TAAAGAATCCTTGGGATTGGGTATAGCCCAGAG-ATTGTAAGTGGAGGAATGTTTACCTAAtttttttctctttgttt-ttt----------------------ttcttttcttttc---------------------------tttttttttcat------------------------------------------------ctcccttctCTACTCTTAAGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55663536 134 -  71252344 ctggg--CAATGATCA--TAAAGAATCATTGGGATTGGGTATAGCCCAGAG-ACTGTAAGAGGAGGAATGTTTACCTAAtctttttctctttgttt-ttt----------------------ttccttt---------------------------------tctttttttCAT------------------------------------------------CTCCCTTCTGTACTCTTAAGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360759 133 -   1400280 ctggg--caatggTCA--TAAAGAATCCTTGGGATTGGGTACAGCCCAGAG-ACTGTAAGAGGGGGAATGTTTACCTAATCtttttctctttgttt-ttt----------------------tccttt----------------------------------tcttttttttAT------------------------------------------------CTCCCTTCTGTACTCTTAAGC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13149327 144 -  42888418 ctggg--TAATGGTCA--TAAAGAATCCTTGGGATTGGGTATAGTCC--AG-ACTGTAAGAGGAGGAATGTTTTCCTAAtttttttctctttgtttcttt----------------------ttcttttcttttct--------------------tcttctttttttttAAAT------------------------------------------------CTCCCTTCTGTACTC--AAGC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3038810 134 +   4132165 -TGGGATAAATGATCC--TAAAGGATCCCTGAGATTGGGTACGGTCCACAG-GCTGTAAGAGCAGGAAGTCTGACTTACATTATTTTTCATTTCTT-TCT----------------------TTCTTTA---------------------------------TC-ATGTTGCAA------------------------------------------------ATCTCAGCTTTACTTTCCAGG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14887409 222 +  74389097 --------AGGGGTAAATTAAAGAAACTTTGAAGTTGG-----------TG-GCTACAAGAGCAGGAATTCTTATGTGAATttccttccttccttc-cttccttccttccttccttccttccttccttccttccttccgtctttccgtccttcctcccttcctctcttTTTCATTCATTCATTTGCTGCCCCCATCTGTCTCTGTGTGTGTGTGTGCTGTAAGTTCCTTCACTATTCTCAAGC
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60514808 125 + 108143057 I
e proCoq1.NW_012155062v1     3553864 309 +  11683526 I
e dasNov3.JH567306           2599458  35 +   3667625 I
e mm10.chr18                55492725 274 +  90702639 I

a score=435718.000000
s hg38.chr5_KI270796v1_alt     48728 32 +    172708 TGTTACTAAAGTTTTATTAAACCCCACAGCCT
s panTro5.chr5             125158800 32 + 181907262 TGTTACTAAAGTTTTATTAAACCCCACAGCCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495750 32 + 183735486 TGTTACTAAAGTTTTATTAAACCCCACAGCCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1687235 32 +   8933513 TGTTACTAAAGTTTTATTAAACCCCACAGCCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139817581 32 + 163208435 TGTTACTAAAGTTTTATTAAACCCCACAGCCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122802136 32 + 180051392 TGTTATTAAAGTTTTATTAAACCCCACAGCCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225811 32 + 181584905 TGTTATTAAAGTTTTATTAAACCCCACAGCCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16223512 32 +  18395747 TGTTATTAAAGTTTTATTAAACCCCACAGCCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5229401 32 +  26952557 TGTTATTAAAGTTTTATTAAACCCCACAGCCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28337491 32 +  82825804 TGTTATTAAAGTTTTATTAAACCCCACAACCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4001326 32 -   4237731 TGTTATTAAAGTTTTATTAAACCCCATAGCCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      271614 32 -   1175262 TGTTATTAAAGTTTTATTAAACCCCACAGCCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123611501 31 - 204313951 TATTATTAAAGTTTTATTAAACTCCAGAGCC-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55663670 32 -  71252344 TATTATTAAAGTTTTATTAAACCCCAGAGCCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360892 32 -   1400280 TATTATTAAAGTTTTATTAAACCCCAGAGCCT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13149471 32 -  42888418 TATTATTAAAGTTTTATTAAACCCCAGAGCCT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60514933 32 + 108143057 TGTTATTAAAGTTTTATTAAATCCCACAGCCT
i micMur3.chr12            I 125 I 52
s otoGar3.GL873679           3038944 32 +   4132165 TGTTACTAAAATCTTATTAAACCCCACAGCCT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14887631 32 +  74389097 CATTAGTGAAATTGTATTAAGCCCCATAACCA
i canFam3.chr11            C 0 C 0
e proCoq1.NW_012155062v1     3553864 309 +  11683526 I
e dasNov3.JH567306           2599458 35 +   3667625 I
e mm10.chr18                55492725 274 +  90702639 I

a score=272817.000000
s hg38.chr5_KI270796v1_alt     48760 22 +    172708 TGTTGTAGATTGTGGTTAAGAA
s panTro5.chr5             125158832 22 + 181907262 TGTTGTAGATTGTGGTTAAGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495782 22 + 183735486 TGTTGTAGATTGTGGTTAAGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1687267 22 +   8933513 TGTTGTAGATTGTGGTTAAGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139817613 22 + 163208435 TGTTGTAGATTATGGTTAAGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122802168 22 + 180051392 TGTTGTAGATTGTGGTTAAGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225843 22 + 181584905 TGTTGTAGATTGTGGTTAAGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16223544 22 +  18395747 TGTTGTAGATTGTGGTTAAGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5229433 22 +  26952557 TGTTGTAGATTGTGGTTAAGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28337523 22 +  82825804 TGTTGTAGATTGTGGTTAAGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4001358 22 -   4237731 TGTTGTAGATTGTGGTTAAGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      271646 22 -   1175262 TGTTGTAGATTGTGGTTAAGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123611532 22 - 204313951 TGTTGTAGATTGTGGTTAAGAA
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55663702 22 -  71252344 TGTTGTAGATTGTGGTTAAGAA
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107829v1     1360924 22 -   1400280 TGTTGTAGATTGTGGTTAAGAA
i cebCap1.NW_016107829v1   C 0 I 1
s aotNan1.NW_018505940v1    13149503 22 -  42888418 TGTTGTAGATTGTGGTTAAGAA
i aotNan1.NW_018505940v1   C 0 I 1
s otoGar3.GL873679           3038976 22 +   4132165 TATCTCAGATTATAGATAGAAA
i otoGar3.GL873679         C 0 I 106
s canFam3.chr11             14887663 22 +  74389097 AATCTTAGATTGTGATTAGAGA
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60514965 52 + 108143057 I
e proCoq1.NW_012155062v1     3553864 309 +  11683526 I
e dasNov3.JH567306           2599458 35 +   3667625 I
e mm10.chr18                55492725 274 +  90702639 I

a score=392889.000000
s hg38.chr5_KI270796v1_alt     48782 32 +    172708 -TTTAAGAGAGGAATGTTTTTTAGCTTAAAAGC-
s panTro5.chr5             125158854 32 + 181907262 -TTTAAGAGAGGAATGTTTTTTAGCTTAAAAGC-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495804 32 + 183735486 -TTTAAGAGAGGAATGTTTTTTAGCTTAAAAGC-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1687289 32 +   8933513 -TTTAAGAGAGGAATGTTTTTTAGCTTAAAAGC-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139817635 32 + 163208435 -TTTAAGAGAGGAATGTTTTTCAGCTTAAAAGC-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122802190 32 + 180051392 -TTTAAGAGAGGAATGTTTTTCAGCTTAAAAGC-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225865 32 + 181584905 -TTTAAGAGAGGAATGTTTTTCAGCTTAAAAGC-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16223566 32 +  18395747 -TTTAAGAGAGGAATGTTTTTCAGCTTAAAAGC-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5229455 32 +  26952557 -TTTAAGAGAGGAATGTTTTTCAGCTTAAAAGC-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28337545 32 +  82825804 -TTTAAGAGAGGAATGTTTTTCAGCTTAAAAGC-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4001380 32 -   4237731 -TTTAAGAGAGGAATGTTTTTCAGCTTAAAAGC-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      271668 32 -   1175262 -TTTAAGAGAGGAATGTTTTTCAGCTTAAAAGC-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123611555 32 - 204313951 -TTTAGGAAAGGAATCTTTTTCAGCTTAAAAGC-
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55663725 32 -  71252344 -TTTAAGAGAGGAATGTTTTTCAGCTTAAAAGC-
i saiBol1.JH378106         I 1 C 0
s cebCap1.NW_016107829v1     1360947 32 -   1400280 -TTTAAGAGAGGAATGTTTTTCAGCTTAAAAGC-
i cebCap1.NW_016107829v1   I 1 C 0
s aotNan1.NW_018505940v1    13149526 32 -  42888418 -TTTAAGAGAGGAATGTTTTTCAGCTTAAAAGC-
i aotNan1.NW_018505940v1   I 1 C 0
s otoGar3.GL873679           3039104 29 +   4132165 -TTTAAGGGAGGGATGTGTTCTAGTTTAAA----
i otoGar3.GL873679         I 106 C 0
s canFam3.chr11             14887685 30 +  74389097 TTTTA----AGGAATGTTTTTCAGCTTAAAAACC
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60514965 52 + 108143057 I
e proCoq1.NW_012155062v1     3553864 309 +  11683526 I
e dasNov3.JH567306           2599458 35 +   3667625 I
e mm10.chr18                55492725 274 +  90702639 I

a score=528065.000000
s hg38.chr5_KI270796v1_alt     48814 43 +    172708 AAAGTGACATGACAATA-TAAAATT-----GCCGATATTAAGAG---AAAAA
s panTro5.chr5             125158886 43 + 181907262 AAAGTGACATGACAATA-TAAAATT-----GCTGATATTAAGAG---AAAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495836 43 + 183735486 AAAGTGACATGACAATA-TAAAATT-----GCCGATATTAAGAG---AAAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1687321 43 +   8933513 AAAGTGACATGACAATA-TAAAATT-----GCCGATATTAAGAG---AAAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139817667 43 + 163208435 AAAGTGACATGACCATA-TAAAATT-----GCTGATATTAAGAG---AAGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122802222 43 + 180051392 AAAGTGACATGACCATA-TAAAATT-----GCCGATATTAAGAG---AAAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225897 43 + 181584905 AAAGTGACATGACCATA-TAAAATT-----GCCGATATTAAGAG---AAAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16223598 43 +  18395747 AAAGTGACATGACCATA-TAAAATT-----GCCGATATTAAGAG---AAAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5229487 43 +  26952557 AAAGTGACATGACCATA-TAAAATT-----GCCGATATTAAGAG---AAAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28337577 43 +  82825804 AAAGTGACATGACCATA-TAAAATT-----GCCAATATTAAGAG---AAAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4001412 43 -   4237731 AAAGTGACATGACCATA-TAAAATT-----GCTGATATTAAGAG---AAAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      271700 43 -   1175262 AAAGTGACATGACCATA-TAAAATT-----GCCGATATTAAGAG---AAAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123611587 47 - 204313951 AAAGTGACATGATCATATTAAAATT-----GCCAATATTAAGAGAAAAAAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55663757 46 -  71252344 AAAGTAACATGACCATA-CAAAATT-----GCCAATATTAAGAGAAAAAAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1360979 44 -   1400280 CAAGTGACATGACCATA-TAAAATT-----GCCAATATTAAGAG--AAAAAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13149558 43 -  42888418 AAAGTGACATGACCATA-TAAAATT-----GCCAATATTAAGAG---AAAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60515017 42 + 108143057 AAAGTGACTTGACAATA-TAAAACT-----GCCAATATTAAGAG---AGTA-
i micMur3.chr12            I 52 C 0
s otoGar3.GL873679           3039133 46 +   4132165 AAAGTGTCTTGACCATA-TAAAATTTTATGGCCAATATTAAAAG---AGA--
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14887715 41 +  74389097 AAAGTGACTTGGCTGTA-TAAAATT-----GCCAACATTGAGAG---TGA--
i canFam3.chr11            C 0 C 0
e proCoq1.NW_012155062v1     3553864 309 +  11683526 I
e dasNov3.JH567306           2599458 35 +   3667625 I
e mm10.chr18                55492725 274 +  90702639 I

a score=2592489.000000
s hg38.chr5_KI270796v1_alt     48857 204 +    172708 AGAGAATCGTTTTATGTGATAGCAATAGATGGCCAGAAAGAATGGGGCAAGACAGCAGC---TTGCTAGAGTAACCAACAACCACAGAATAAAGCTGTGGCCCATATCAACCCTCCTCAAAAGAGTCTCAGAAATGCTTCTA-AGGAGTGCCTAAATGGCCAATACTGCCCTCAGATTTAAGCAAGTGAGGTctttttggtgcctggg
s panTro5.chr5             125158929 204 + 181907262 AGAGAATCGTTTTATGTGATAGCAATAGATGACCAGAAAGAATGGGGCAAGACACCAGC---TTGCTAGAGTAACCAACAACCACAGAATAAAGCTGTGGCCCATATCAACCCTCCTCAAAAGAGTCTCAGAAATGCTTCTA-AGGAGTGCCTAAATGGCCAATACTGCCCTCAGATTTAAGCAAGTGAGGTctttttggtgcctggg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126495879 204 + 183735486 AGAGAATCGTTTTATGTGATAGCAATAGATGGCCAGAAAGAATGGGGCAAGACACCAGC---TTGCTAGAGTAACCAACAACCACAGAATAAAGCTGTGGCCCATATCAACCCTCCTCAAAAGAGTCTCAGAAATGCTTCTA-AGGAGTGCCTAAATGGCCAATACTGCCCTCAGATTTAAGCAAGTGAGGTctttttggtgcctggg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1687364 204 +   8933513 AGAGAATCATTTTATGTGATAGCAATAGATGGCCAGAAAGAATGGGGCAAGACACCAGC---TTGCTAGAGTAACCAACAACCACAGAATAAAGCTGTGGCCCATATCAACCCTCCTCAAAAGAGTCTCAGAAATGCTTCTA-AGGAGTGCTTAAATGGCCAATACTGCCCTCAGATTTAAGCAAGTGAGGTctttttggtgcctggg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139817710 204 + 163208435 AGAGAATTATTTTATGTGATGGCAATAGATGGCCAGAAAGAATGGGGCAAGACACCAGC---TTGCTAGAGTGACCAACAACCACAGAATAAAGTTGTGGCCCATATTAATCCTCCTCAAAAGAGTCTCAGAAATGCTTCTA-AGGAGTGCCTAAATGGCTAATACTGCCCTCAGATTCAAGCAAGTGGGGTctctttggtgcctggg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122802265 202 + 180051392 AGAGAATCATTTTATGTGATAGCAATAGACGGCCAGAAAGAATGGTGCAAGACACCAGC---TTGCT--AGTGACCAACAACCACAGAATAAAATTGTGGCCCATATTAACCGTCCTCAAAAGAGTCTCAGAAGTGCTGCTA-AGGAGTGCTGAAATGGCTACTACTGCCCTCAGATTCAAGCAAGTAGGGTctctttaatgcctggg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124225940 202 + 181584905 AGAGAATCATTTTATGTGATAGCAATAGACGGCCAGAAAGAATGGTGCAAGACACCAGC---TTGCT--AGTGACCAACAACCACAGAATAAAATTGTGGCCCATATTAACCGTCCTCAAAAGAGTCTCAGAAGTGCTGCTA-AGGAGTGCTGAAATGGCTACTACTGCCCTCAGATTCAAGCAAGTAGGGTctctttaatgcctggg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16223641 202 +  18395747 AGAGAATCATTTTATGTGATAGCAATAGACGGCCAGAAAGAATGGTGCAAGACACCAGC---TTGCT--AGTGACCAACAACCACAGAATAAAATTGTGGCCCATATTAACCGTCCTCAAAAGAGTCTCAGAAGTGCTGCTA-AGGAGTGCTGAAATGGCTACTACTGCCCTCAGATTCAAGCAAGTAGGGTctctttaatgcctggg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5229530 202 +  26952557 AGAGAATCATTTTATGTGATAGCAATAGACGGCCAGAAAGAATGGTGCAAGACACCAGC---TTGCT--GGTGACCAACAACCACAGAATAAAATTGTGGCCCATATTAACCGTCCTCAAAAGAGTCTCAGAAGTGCTGCTA-AGGAGTGCGGAAATGGCTACTACTGCCCTCAGATTCAAGCAAGTAGGGTctctttaatgcctggg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28337620 205 +  82825804 AGAGAATCATTTTATGTGATAGCAATAGACGGCCAGAAAGAATGGGGCAAGACACCAGCTTGTTGCT--AGTGACCAACAACCACAGAATAAAATTATGGCCCATATTAACCGTCCTCAAAAGAGTCTCAGAAGTGCTGCTA-AGGAGTGCCAAAATGGCTACTACTGCCCTCAGATTCAAGCAAGTAAGGTctctttaatgcctggg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4001455 200 -   4237731 AGAGAATCATTTTATGTGATAGCAATAGACGGCCAGAAAGAATGGTGCAAGACACCAGC---TTGCT--AGTGACCAACAACCACAGAATAAAATTGTGGCCCGTATTAACCGTCCTCAAAAGAGTCTCAGAAGTGCTGTTA-AGGAGTGCTGAAATGGCTACTACTGCCCTCAGATTCAAGCAAGTAGGGTctc--taatgcctggg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      271743 204 -   1175262 AGAGAATCATTTTATGTGATAGTAATAGACGGCCAGAAAGAATGGGGCAAGACACCAGC---TTGCTACAGTGACCAACAACCACAGAATAAAATTGTGGCCCATATTAACCGTCCTCAAAAGAGTCTCAGAACTGCTGCTA-AGGAGTGCCTAAATGGCTACTACTGCCCTCAGATTCAAGCAAGTGGGGTctctttagtgcctggc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123611634 202 - 204313951 AGAGAGTTATTTTATGTGATGGCAGTAGACGTCCAG-AAGAAAGGGGCAAGACACAGGC---TTGCTACAGTGACCAACAACCACAGAATAAAGCTGTGGCTCATATCAACCCAATTCAAAAGAGTCTCAGAACCGCTTCTA-AAGGGTGCCTAAATGGCCAGTACTGCCCTCAGATTCAAGCAGAT-GGgtctctttcgtgcctggg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55663803 203 -  71252344 AGAGAGTCATTTTATGTTATAGCAATAGACGTCCAGAAAGAATGGGGCAAGACACAGGC---TTGCTACAGTGACCAACAACCACAGAATAAAGCTATGGCCCATATCAACCCTACTCAAAAGAGTCTCAGAAATGCTTCTA-AAGGGTGCCTAAATGGCCAGTACTGCCCTCAGATTCAAGCAGAT-GGGTctctttggtgcctgag
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1361023 203 -   1400280 GGAGAGCCATTTTATGTCATAGCAATAGATGTCCAGAAAGAATGGAGCAAGGCACAGGC---TTGCTGCAGTGACCAACAACCACAGAATAAAGCTATGGCCCATATCAACCCTACTCAAAAGAGTCTCAGAAATGCTTCTA-AAGGGTGCCTAAATGGCCCGTACTGCCCTCAGATTCAAGCAGAT-GGGTctctttggtgcctggg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13149601 202 -  42888418 AAAGAGTCGTTTTATGTGATAG-AATAGATGTCCAGAAAGAATGGGGCAAGACTCAGGC---TTGCTACAGTGACCAACAACCACAGAATAAAGCTATGGCCCATATCAACCCTACTCAAAAGAGTCTCAGAAATGCTTCTA-AAGGGTCCCTAAATGGCCAGTACTGCCCTCAGATTCAAGCAGAT-GGGTctcttaggtgcctggg
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60515059 204 + 108143057 -GAAAATCATTTTATGTGACAGCAATAGGTGGCCAGAATGAATGGGGCATGACTCAGGC---TTGCTAGGGTGACCAGTAACCACAGAACGAAGTTGTAGCATGTATTATCCTTCCCCAAGAGAGTCTCAGAAATGCCTCTAGAGGGGTGCTTAAGTGGCTAATAATGACCTCAGACTCAGGCAAGTGTGGTccctttggtgcctggg
i micMur3.chr12            C 0 I 1739
s proCoq1.NW_012155062v1     3554173 205 +  11683526 AGAAAATCATTTTATGTGATAGCAATAGATGGCCAGAAAGAATGGGGCAAGACTGGGGC---TCGCTAGGGTGACCAGTAACCACAGAAGGAAGTCACAGCGTGTATTAACCTTCCTCAAGAGAGTCTCAGAAATGCCTCTAGAGGGGTGCCTAAATGGCCAGTAATGATCTCAGACTCAGGCAAGTGGGGTccctttggtgcctggg
i proCoq1.NW_012155062v1   I 309 C 0
s otoGar3.GL873679           3039179 183 +   4132165 AGAAAATCATTTTATGTGATCACAATAGATGTCCAAATAGAATGGGGGAAGACTCAGGC---TTGCTAGGGAAACCCATAGCCACAGAACAAAGTTGTGGCATGGATTAGCCTTCCTTAAGAGAGTCTCAGAAAGACTGCTGGATGGCTGTCTAAGTGGC----------------------CAAGAGGGATccctttggtggctggg
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14887756 172 +  74389097 AGAGAATCATTTTATATGATAGCAATAGATGGCATAGATTAATGGGGCAAGATGCCAGC---TTTCTAGAGGGACCAATAACCAGAGAATAAAGTTATGGGACATAGTAGCCTTTCTCAGGAAAGTCTTAGAAATGCCTCCAGAGTAGTGCCTGA--------------------------GCAAAAGGGGTCCCTTAGGT-------
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2599458  35 +   3667625 I
e mm10.chr18                55492725 274 +  90702639 I

a score=2255703.000000
s hg38.chr5_KI270796v1_alt     49061 201 +    172708 cttggttaggccaaccgttcctttgggataaggtgacctgaatctgcaccagggatgcatgagccctggtcca-------------------------------------tg-ttttttcctttcagggtattctcccaccattttacccccaccccacctttaacaagggttgatcagatgcttctaaggagcatcaagaccctcatctatgggacatcccaggggcc--tgtgtccagg
s panTro5.chr5             125159133 201 + 181907262 cttggttaggccaaccgttcctttgggataaggtgacctgaatctgcaccagggatgcatgagccctggtcca-------------------------------------tg-ttttttcctttcagggtattctcccaccattttacccccaccccacctttaacaagggttgatcagatgcttctaaggagcatcaagaccctcatctatgggacatcccaggggcc--tgtgtccagg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126496083 201 + 183735486 cttggttaggccaaccgttcctttgggataaggtgacctgaatctgcaccagggatgcatgagccctggtcca-------------------------------------tg-ttgtttcctttcagggtattctcccaccattttacccccaccccacctttaacaagggttgatcagatgcttctaaggagcatcaagaccctcatctatgggacatcccaggggcc--tgtgtccagg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1687568 201 +   8933513 cttggttaggccaaccgttcctttgggataaggtgacctgaatctgcaccagggatgcatgagccctggtcca-------------------------------------tgtttttttcctttcagggtattctcccaccattttacccccaccccacc-ttaacaagggttgatcagatgcttctaaggagcatcaagaccctcatctatgggacatcccaggggcc--tgtgtccagg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139817914 201 + 163208435 actggttaagccaaccattcctctgggacgaggtgacctgaatctgcaccaaggacgcatgagccctggtcca-------------------------------------tg-tttttttctttcagggtattctcctaccattttacccccaccccacctgtaacaagggttgatcagttgcttctaaggagcatcaagaccctcatctatgggacatcccaggggcc--tgtgtccaga
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122802467 200 + 180051392 actggttaggccaaccattcctttgggacaaggtgacctaaatctgcaccagggacgcatgagctctggtcca-------------------------------------tg-tttttttctttcagagtattctcccaccattata-ccccaccccacctttaacaagggttgatcagatgcttctaaggagcatcatgaccctcatctatgggacatcccaggggcc--tgtgtccagg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124226142 200 + 181584905 actggttaggccaaccattcctttgggacaaggtgacctaaatctgcaccagggacgcatgagctctggtcca-------------------------------------tg-tttttttctttcagagtattctcccaccattata-ccccaccccacctttaacaagggttgatcagatgcttctaaggagcatcatgaccctcatctatgggacatcccaggggcc--tgtgtccagg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16223843 200 +  18395747 actggttaggccaaccattcctttgggacaaggtgacctaaatctgcaccagggacgcatgagctctggtcca-------------------------------------tg-tttttttctttcagagtattctcccaccattata-ccccaccccacctttaacaagggttgatcagatgcttctaaggagcatcatgaccctcatctatgggacatcccaggggcc--tgtgtccagg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5229732 200 +  26952557 actggttaggccaaccattcctttgggacaaggtgacctaaatctgcaccagggacgcatgagctctggtcca-------------------------------------tg-tttttttctttcagagtattctcccaccattata-ccccaccccacctttaacaagggttgatcagatgcttctaaggagcatcatgaccctcatctatgggacttcccaggggcc--tgtgtccagg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28337825 200 +  82825804 actggttaggccaaccattcctttgggacaaggtgacctaaatctgcaccagggacgcatgagctctggtcca-------------------------------------tg-tttttttctttcagagtattctcccaccattata-ccccaccccacctttaacaagggttgatcagatgcttctaaggagcatcatgaccctcatctatgggacatcccaggggcc--tgtgtccagg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4001655 192 -   4237731 actggttaggccaaccattcctttgggacaaggtgacctaaatctgcaccagggacgcatgagtattctccca----------------------------------------------ccattcagagtattctcccaccattata-ccccaccccacctttaacaagggttgatcagatgcttctaaggagcatcatgaccctcatctatgggacatcccaggggcc--tgtgtccagg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      271947 197 -   1175262 actagttaggccaaccattcctttgggacaaggtgacctaaatctgcaccagggacacatgagcgctggttca-------------------------------------tg-tttttttatttcagggtattctcccaccattata-ccccaccccacctttaacaagggttgatcagatgcttctaaggagcatcatgaccc---tctatgggacatcccaggggcc--tgtgtccagg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123611836 196 - 204313951 actgattaggc---ctcctcctttgggaggaggtgatctgaatctgcaccagggatgcatgagccctgctcct-------------------------------------tg-tttttttctttcagcgtattctcccaccattgtaccctcaacccacctttaacaggggttgat-agatgctcctaaggagcatcaagactctc-tctatgggatatccaaggggcc--tgtgtccagg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55664006 200 -  71252344 actggttaggccaactattcctttggcaggaggtgacctgaatctgcaccagggatgcatgagccctgctcct-------------------------------------ta-tttttttctttcagggtattctcccaccattgtaccctcaccccacctttaacaagggttgatcagatgctcctaagaagcatcaagactctc-tctgtgggatatccaaggggcc--tgtgtccagg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1361226 200 -   1400280 actggctaggccaactgctcctttgggaggaggtgacctgaatctgcaccaggggtgcatgagccctgctcct-------------------------------------tg-tttttttctttcaggatattctcccaccattgtaccctcaccccaccttcaacaagggttgatcagatgctcctaaggagcatcaagactctc-tctatgggatatccaaggggcc--tgtgtccagg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13149803 200 -  42888418 actggttaggccaactgttcctttgggagggggtgatctgaatctgcaccagggatgcatgagccctgctcct-------------------------------------tg-tttttttctttcagggtattctcccaccattgtaccctcaccccacctttaacaagggttgatcagatgctcctaaggagcatcaagactctc-tctatgggatatgcaaggggcc--tgtgtccagg
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3554378 201 +  11683526 actgaacaggccgtctgtgcctttggagtggagcgccctgagcctggaccaggaacatatgagccctggtcca-------------------------------------tg-tttttctcttttagggtgctctcccccatgtacactgccacctcatctttaacaagcgtttaccagatgctcccagggagcttcaggacactcacctatgggacatcacagggccc--tgtggccagg
i proCoq1.NW_012155062v1   C 0 I 40
s otoGar3.GL873679           3039362 195 +   4132165 actgaacaggccaactgtgcctttggggtggtgatccccgag------ccagggaagcatgagccgtggttca-------------------------------------ta-tttttctctcttggg--gcatgcactcatattcactgccacttcatctataacaaaggtttaccagatactcccaaggagcttccagacactcacttacgggccaacacgggcctctgtgtggccagg
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14887928 226 +  74389097 ---------GCCAATGATGCTGTGAGGCCGAGGCACCACGAGCTTAGAACAGAAAAGCATGAACCTTCTTTCTGGTTTTGTTGTTGTTGTCACTGTCATTGTTGTTTGTTTg-tttttctctttcaggattctctccatcctgtcta-cctcagctcacctttaacaatggttgagcagatgc-actaagaaccttcatgatcctcacctatagaac-ttccagggtcc--tgtggtcagg
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60515263 1739 + 108143057 I
e dasNov3.JH567306           2599458  35 +   3667625 I
e mm10.chr18                55492725 274 +  90702639 I

a score=384979.000000
s hg38.chr5_KI270796v1_alt     49262 50 +    172708 accttgtttccggatggtggagctatgcagag------tgc----------ttttttttttttact-
s panTro5.chr5             125159334 49 + 181907262 accctgtttccggatggtggagctatgcagag------tgc-----------tttttttttttact-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126496284 49 + 183735486 accctgtttccggatggtggagctacgcagag------tgc-----------tttttttttttact-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1687769 46 +   8933513 accctgtttccggatggtggagctatgcagag------tgc--------------ttttttttact-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139818115 60 + 163208435 acccagtttccggatggtggagctatgcagag------tgttgttgtttttttttttttttttact-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122802667 45 + 180051392 acccagtttccggatggtggagctatgcagag------tgc---------------tttgtttact-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124226342 45 + 181584905 acccagtttccggatggtggagctatgcagag------tgc---------------tttgtttact-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16224043 45 +  18395747 acccagtttccggatggtggagctatgcagag------tgc---------------tttgtttact-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5229932 45 +  26952557 acccagtttccggatggtggagctatgcagag------tgc---------------tttgtttact-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28338025 45 +  82825804 acccagtttctggatggtggagctatacagag------tgc---------------tttgtttact-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4001847 45 -   4237731 acccagtttccggatggtggagctatgcagag------tgc---------------tttgtttact-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      272144 45 -   1175262 acccagtttccggatggtggagctatgcagag------tgc---------------tttgtttact-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123612032 46 - 204313951 actcagcttccagatggtggagttatgcgaag------ttc--------------tttttttaact-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55664206 52 -  71252344 actcagcttccagatggtgcagctctgcagagtggtttttt--------------ttttttttact-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1361426 48 -   1400280 actcagcttccagatggtggagctatgtggagta----ctt--------------ttttttttact-
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13150003 46 -  42888418 actcagcttccagatggtggagctatgcggag------tgc--------------ttttttttact-
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3039557 42 +   4132165 ccccagtttcgggatgaggaaactaagtggag------cgt--------------tcccgct-----
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14888154 43 +  74389097 actcagttcccagatggtgg---cctggaaag------tag---------------attgttcccat
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60515263 1739 + 108143057 I
e proCoq1.NW_012155062v1     3554579 40 +  11683526 I
e dasNov3.JH567306           2599458 35 +   3667625 I
e mm10.chr18                55492725 274 +  90702639 I

a score=2779411.000000
s hg38.chr5_KI270796v1_alt     49312 222 +    172708 ggccagcctgctttttcca-ggcaggatcatgcagagttgggcctagagaatggtattgacaagctgacacatcctcattcacatgaggcgcagaacgatttcagcattctgtcttgcctaccatctaccgttgacttttaagtttcaaatgcatgtgaaggccatgtgttggctc--tttgagttttcaccacagcatcacctcaagtc--cagcacacaaaggtg
s panTro5.chr5             125159383 222 + 181907262 ggccagcctgctttttcca-ggcaggatcatgcagagttgggcctagagaatggtattgacaagctgacacatcctcattcacatgaggcgcagaacgatttcagcattctgtcttgcctaccatctaccgttgacttttaagtttcaaatgcatgtgaaggccatgtgttggctc--tttgagttttcaccacagcatcacctcaagtc--cagcacacaaaggtg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126496333 222 + 183735486 ggccagcctgctttttcca-ggcaggatcatgcagagttgggcctagagaatggtattgacaagctgacacatcctcattcacatgaggcgcagaacgatttcagcgttctgtcttgcctaccatctaccgttgacttttaagtttcaaatgcatgtgaaggccatgtgttggctc--tttgagttttcaccacagcatcacctcaagtc--cagcacacaaaggtg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1687815 221 +   8933513 ggccagcctgctttttcca-tgcaggatcatgcagagttgggcctagagaatggtgttgacaagctgacaca-cctcattcacatgaggcgcagaacgatttcagcattctgtcttgcctaccatctaccgttgacttttaagtttaaaatgcacgtgaaggccatgtgttggctc--tttgagttttcaccacagcatcacctcaagtc--cagcacacaaaggtg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139818175 225 + 163208435 ggccagcctgctttttcca-tgcaggatcatgcagagttgggcctagagaatgctgctgacaagctgacacatcctcattcacatgaggcacagaataatttcggcattctgtcttgcctaccatctaccgttgacttttaagtttaaaatgtatgtaaaggccatgtgttggctc-ttttgagttttcaccacagcatcacctcaagtccacagcacacaaaggtg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122802712 225 + 180051392 ggccagcctgctttttccattgcaggatcatgcagagttgggcctagagaatggtgctgacaagctgacacatcctcattcacatgaggcacagaacgatttcagcattctgtcttacctaccatctaccgttgacttttacatttaaaatgcatatgaaggccgtgtgttggctc--tttgagttttcaccacagcattacctcaagtccacagcacacaaaggtg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124226387 225 + 181584905 ggccagcctgctttttccattgcaggatcatgcagagttgggcctagagaatggtgctgacaagctgacacatcctcattcacatgaggcacagaacgatttcagcattctgtcttacctaccatctaccgttgacttttacatttaaaatgcatatgaaggccatgtgttggctc--tttgagttttcaccacagcattacctcaagtccacagcacacaaaggtg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16224088 225 +  18395747 ggccagcctgctttttccattgcaggatcatgcagagttgggcctagagaatggtgctgacaagctgacacatcctcattcacatgaggcacagaacgatttcagcattctgtcttacctaccatctaccgttgacttttacatttaaaatgcatatgaaggccatgtgttggctc--tttgagttttcaccacagcattacctcaagtccacagcacacaaaggtg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5229977 225 +  26952557 ggccagcctgctttttccattgcagaatcatgcagagttgggcctagagaatggtgctgacaagctgacacatcctcattcacatgaggcacagaacgatttcagcattctgtcttacctaccatctaccgttgacttttacatttaaaatgaatgtgaaggccatgtgttggttc--tttgagttttcaccacagcattacctcaagtccacagcacacgaaggtg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28338070 225 +  82825804 ggccagcctgctttttccattgcaggatcatgcagagttgggcctagagaatggtgctgacaagctgatacatcctcattcacatgaggcacagaacgatttcagcattctatcttgcctaccatctaccgttgacttttaaatttaaagtccatgtgaaggccatgtgttggctc--tttgagttttcaccacagcattacctcaagtccacagcacacaaaggtg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4001892 225 -   4237731 ggccagcctgctttttccattgcaggatcatgcagagttgggcctagagaatggtgctgacaagctgacacatcctcattcacatgaggcacagaacgatttcagcattctgtcttacctactatctaccgttgacttttacatttaaaatgcatatgaaggccatgtgttggctc--tttgagttttcaccacagcattacctcaagtccacagcacacaaaggtg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      272189 225 -   1175262 ggccagcctgctttttccattgcaggatcatgtagagttgggcctagagaatggtgccgacaagctgacacatcctcattcacatgaggcacagaacgatttcagcattctgtcttgcctaccatttaccgttgacttttaaatttaaaatgcatgtgaaagctatgtgttggctc--tttgagttttcaccacagcattacctcaagtccacagcacacaaaggtg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123612078 223 - 204313951 ggccagcctgctttttctg--atggggtcctgtgaagttgggcctagagaatggtgctgacaagctgacacatcctcatgcatacgaggcacagaacgatttcagcattctgtcttgcccagcatctaccactgacttttaagtttaaaatgaatgtgaaggacatgtattggctc--tttgagtttccaccacagcatcaactcaactccacagcacacaaaggtg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55664258 223 -  71252344 ggccagcctgcttttcctg--atggggtcatgtgaagttgggcctagagaatggtgctgccaagctgacacaacctcatgcacatgaggcacagaacgatttcagcattctgtcttgcccagcatctaccattgacttttaagtttaaaatgaatgtaaaagacatgtgctggccc--tttgagtttccaccactccatcacctcaagtccacagtacacaaaggtg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1361474 223 -   1400280 ggccagcctgctttttctg--atggggtcatgtgaagttgggcttagagaatggtgctgacaagctgacacatcctcatgcacatgaggcacagaacgatttcagcattctttcttgcccagcatctaccattgacttttaagtttaaaatgaatgtgaaggacatgtgttggctc--tttgagtttccaccacagcatcacctcaagtccacagcacacaaaggtg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13150049 223 -  42888418 ggccagcctgctttttctg--atggggtcatgtgaagttgggcctagagaatggtgctgagaagctgacacatcctcatgcacacgaggcacagaacaatttcagcattctgtgttgcccagcatctaccattgacttttaagtttaaaatgaatgtgaaggacatgtgttggctc--ttcgagtttccaccacagcatcacctcaagtccacagcacacaaaggtg
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3554619 224 +  11683526 ggccagcttgctatttttg-tgtgggatcatgcacaattgggcctagagaatggtgctgacatgctgacacatcttcatttatgcgagacacaggacaattttaggattctgttctacccaccgtctaccacagactttgaagtttgaagtgcgtgtgagggccacgtgttggctc--tttgagttctcaccacagtacctcctcaagcccacagcacacaagggtg
i proCoq1.NW_012155062v1   I 40 I 478
s otoGar3.GL873679           3039599 222 +   4132165 ggccagcttgctatttttg-tgagggatcatgcat-gtggggcctagagaacagtgctgacatgctgac-cctcttcatgtacatgagacataggaacattttaggcttctgttctactaaccatccacccctgacttttaagtttgaagttaaggtgagggacatatgttggctt--tttgagttcctaccatagtactacttcaagactacagcacacaagcgtg
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14888197 226 +  74389097 ggcaagcctggcatatctt-tgtgggatcatgtaaaactgagcttcgagaagggtgctggcaagctgacatgttcccactcaaatgaaacacaggatgatatcagggctctgggctactgaccacctactactgacttttgagtttgagctacatgagaaagccatggattggttccctttgagtttttaccatcatgccacctcaagtctaccgaatccaaaggtg
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60515263 1739 + 108143057 I
e dasNov3.JH567306           2599458  35 +   3667625 I
e mm10.chr18                55492725 274 +  90702639 I

a score=1633326.000000
s hg38.chr5_KI270796v1_alt     49534 165 +    172708 gtgaggggctgccat--ggtgttatttactctgtat------gtaccct---cagtggcacctaggattgtcagtccaccccctcaccaggcagtcttaggggagcggacttatctcttcagaggacagacaagtgctatgcaaagccaacaggcccttcatttgatatcctcttt
s panTro5.chr5             125159605 165 + 181907262 gtgaggggctgccat--ggtgttatttactctgtat------gtaccct---cagtggcacctaggattgtcagtccaccccctcaccaggcagtcttaggggagcggacttatctcttcagaggacagacaagtgctatgcaaagccaacaggcccttcatttgatatcctcttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126496555 165 + 183735486 gtgaggggctgccat--ggtgttatttactctgtat------gtagcct---cagtggcacctaggattgtcagtccaccccctcaccaggcagtcttaggggagcggacttatctcttcagaggacagacaagtgctatgcaaagccaacaggcccttcatttgatatcctcttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1688036 165 +   8933513 gtgaggggctgccat--ggtgttatttactctgtat------gtaacct---cagtggcacctaggattgtcagtccaccccctcaccaggcagtcttgggggaccggacttatctcttcagaggacagacaagtgctatgcaaagccaacaggcccttcatttgatatcctcttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139818400 164 + 163208435 gtga-gggctgccat--ggtgttatttactctgtat------gcacccc---cagtggcacctaggattgtcagtccaccccctcaccaggcagtcttgggggagcagacttatctcttcagaggacagacaagtgctatgcaaagccaacaggcccttcaattgatatcgtcttt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122802937 168 + 180051392 gtgaagggctgccat--ggtgttatttactctgtgt------gcacccccaccagtggtacctaggattgtcagtccaccccctcaccaggcagtcttgggggagcacacttatctctgcagaggacaggcaagtgctatgcaaagccaatgggcccttcaattgataatctcttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124226612 168 + 181584905 gtgaagggctgccat--ggtgttatttactctgtgt------gcacccccaccagtggtacctaggattgtcagtccaccccctcaccaggcagtcttgggggagcacacttatctctgcagaggacaggcaagtgctatgcaaagccaatgggcccttcaattgataatctcttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16224313 168 +  18395747 gtgaagggctgccat--ggtgttatttaccctgtgt------gcacccccaccagtggtacctaggattgtcagtccaccccctcaccaggcagtcttgggggagcacacttatctctgcagaggacaggcaagtgctatgcaaagccaatgggcccttcaattgataatctcttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5230202 168 +  26952557 gtgaagggctgccat--ggtgttatttactctgtgt------gcaccctcaccagtggtacctaggattgtcagtccaccccctcaccaggcagtcttgggggagcacacttatctctgcagaggacaggcaagtgctatgcaaagccaatgggcccttcaattgataatctcttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28338295 168 +  82825804 gtgaagggctgccat--ggtgttatttactctgtgt------gcacccccaccagtggtacataggattgtcagtctaccccctcaccaggcagtcttggggaagcacacttatctctgcagaggacaggcaagtgatatgcaaagccagtgggcccttcaactgataatctcttt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4002117 168 -   4237731 gtgaagggctgccat--ggtgttatttactctatgt------gcacccccaccagtggtacctaggattgtcagtccaccccctcaccaggcagtcttgggggagcacacttatctctgcagaggacaggcaagtgctatgcaaagccaatgggcccttcaattgataatctcttt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      272414 168 -   1175262 gtgaagggctgccat--ggtgttatttactctgtgt------gcacccccaccagtggtacctaggattgtcagtccaccccctcaccaggcagtcttgggggagcacacttatttctgcagaggacaggcaagtgctatgcaaagccaatgggcccttcaattgatatcctcttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123612301 166 - 204313951 gtgaggtggtgccatggggtattaattactctgtgt------gca-ccccaccactgacacc--ggattgtcagtccaccccctcaccaggcagtctttggaaatcaaacttacctctgcagaaggcagagaagtgctatgcaaagccaacaggcccttca-ttgctctcctctta
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55664481 167 -  71252344 gtgagggggtgccgt-gggtattatttactctgtgt------gcacccccaccagtgaccct--ggattgtcagtccaccctctcaccaggcagtctttggaaatcagacttatctctgcagaaggcagagaagtgctatgcaaagccagcagtcccttcagttgctctcctcttt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1361697 167 -   1400280 gtgagggggtgccat-gggtattatttactctgtgt------gcgcccctaccagtgacact--ggattgtcggtccaccctctcaccaggTGGTCTTTGGAAATCAGActtatctctgcagaaggcagagaagtgctatgcaaagccaacaggcctttcagttgctctcctcttt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13150272 167 -  42888418 gtgagggggtgccat-gggtattatttactctgtgt------gcacccccaccagtgacact--ggattgtcagtccaccctctcaccaggcagtctttggaaatcagacttatctctgcagaaggcagagaagtgctatgcaaagccaacaggcccttcagttgctctcctcttt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3039821 109 +   4132165 ------------------gtg---------------------gCACCCCTATCACTGGCACTCACGATGGGCCATTCACCC----------------------------cttatctctgcagaagtcagtcaggtgccaggcaaagccagtgggcccttcaatctctatcctccct
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14888423 173 +  74389097 gcaaggtggt-ccat-ggatgtgatttcctctgagtacataaacatccctgccagtagcatccagagtggtcactccaccccatcatcaggcagtc-cagaagaataggcttattgcctctgtagggaaacaggtgctacacaaagccaacaggcccttctattaacatacttctt
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60515263 1739 + 108143057 I
e proCoq1.NW_012155062v1     3554843 478 +  11683526 I
e dasNov3.JH567306           2599458  35 +   3667625 I
e mm10.chr18                55492725 274 +  90702639 I

a score=5795680.000000
s hg38.chr5_KI270796v1_alt     49699 490 +    172708 tgcttcttactgatgcagtgatgttttactcaccctggtctgtctttagctgtaccacatgaggaacagacatttcttgtgagaatgagactgttctgtccaccctacctaa-gggc-ttttgcctattgtccctgctggttgtggtatatggaagtcgagagagcagtcaacattgaaaccaatcagattataggagtgctatgattatgacctactca------gt-----tgggagatgtgtagtt--ctatgtttttacaatgtaaatttttgtatggtacatttaacatgcccagaaaacaaaacgtggttcgca-tttttttctgcataccctggatattcttgtattgtggtcgtcatcaacaaagctcagtaacgactgttgaaagggtca-ttggaagccattatccacagagagcaggagggataatgcagtggtatgactaatgatggaaccagcagtaagtgaatggtattagataattacagaggcaagaaggt
s panTro5.chr5             125159770 491 + 181907262 tgcttcttactgatgcagtgatgttttactcaccctggtctgtctttagctgtaccacatgaggaacagacatttcttgtgagaatgagactgttctgtccaccctacctaa-gggctttttgcctattgtccctgctggttgtggtatatggaagtcgagggagcagtcaacattgaaaccaatcagattataggaatgctatgattatggcctactca------gt-----tgggagatgtgtagtt--ctatgtttttacaatgtaaatttttgtatggtaaatttaacatgcccagaaaacaaaatgtggttcgca-tttttttctgcataccctggatattcttgtattgtggtcgtcatcaacaaagctcagtgacaactgttgaaagggtca-ttggaagccattatccacagagagcaggagggataatgcaatggtatgactaatgatggaaccagcagtaagtgaatggtattagataattacagaggcaagaaggt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126496720 490 + 183735486 tgcttcttactgatgcagtgatgttttactcaccctggtctgtctttagctgtaccacatgaggaacagacatttcttgtgagaatgagactgttctgtccaccctacctaa-gggc-ttttgcctattgtccctgctggttgtggtatatggaagttgagagagcagtcaacattgaaaccaatcaaattataggagtgctatgattatgacctactca------gt-----tgggagatgtgtagtt--ctatgtttttacaatgtaaatttttgtatggtaaatttaacatgcccagaaaacaaaatatggttcaca-ttttttcctgcatatcctggatattcttgtattgtggtcgtcatcaacaaagctcagtaacaactgttgaaagggtca-ttggaagccattatccacagagagcaggagggataatgcaatggtatgactaatgatggaatcagcagtaagtgaatggtattagataattacagaggcaagaaggt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1688201 490 +   8933513 tgcttcttattgatgcagtgctgttttactcaccctggtctgtctttagctgtaccacatgaggaacggacatttcttgtgagaatgagaatgttctatgcaccctacctaa-gggctttttgcttattgtccctgctggttgtggtatatggaagtcgagggagcagtcaacattgaaaccaatcagattatagga-tgctatgattatggcctactca------gt-----tgggagatgtgtagtt--ctatgtttttacaatgtaaatttttgtatggtaaatttaacatgcccagaaaacaaaatgtggttcgca-tttttttctgcataccctggatattcttgtattgtggtcgtcatcaacaaagctcagtaacaactgttgaaagggtca-ttggaagccattatccacagagagcaggagggataatgcattggtatgactaatgatggaagcagcagtaagtgaatggtattagataattacagaggcaagaaggt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139818564 490 + 163208435 tgcttcttattgatgtagtgatgttttactcaccctggtctgtctttagctgtacgacatgaggcacagacatttcttgtgagaatgagactgttctgtccaccctacctaa-aggctttttgcctattgtccctgccggttgtggtatatggaagttgaggaagcagtcaatattgaaaccaatcaaattataggaatgctatgattatgccctactca------gc-----tgggagatgtgtagtt--ctatgtttttacaatgtaaatttttgtatggcaaatttaacatgcccag-aaacaaaatgtggttcgca-tttttttctgcataccctggatattcttgtattgtggtcatcatcaacaaagctcagtaacaactgttgaaagggtca-ttggaagccattatccacagaaagcaggatggataatgcaatggtgtgactaatgatggaaccagcagtaagtgaatggtattagataattacagaggcaagaaggt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122803105 491 + 180051392 tgcttcttattgatgcggtgatgttttactcaccctgccctgtc-ttaggtgtaccacatgaggaacagacatttctggtgagaatgagactgttctgtctaccctacctaatggactttttgcctattgtccctgctggttgtggcatatggaagtcgagggagcagtcaacattgaaaccaatcaaattataggaaggctatgattatggcctactca------gt-----tgggagatgtgtagtt--ctatgtttttacaatgtaaatttttgtatggtaaatttaacatgcccagaaaacaaaatgtggttcaca-tttttttctgcataccctggatattcttttgctgtggtcatcatcaacaaagctcagtaacaattgttgaaagggtca-ttggaagccattatccacagacagcaggatggataatgcaatggtatgactaatgatggaaccagcagtaaatgaatgatattagataattacagaggcaataaggt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124226780 491 + 181584905 tgcttcttattgatgcggtgatgttttactcaccctgccctgtc-ttaggtgtaccacatgaggaacagacatttctggtgagaatgagactgttctgtctaccctacctaataggctttttgcctattgtccctgctggttgtggcatatggaagtcgagggagcagtcaacattgaaaccaatcaaattataggaaggctatgattatggcctactca------gt-----tgggagatgtgtagtt--ctatgtttttacaatgtaaatttttgtatggtaaatttaacatgcccagaaaacaaaatgtggttcaca-tttttttctgcataccctggatattcttttgctgtggtcatcatcaacaaagctcagtaacaattgttgaaagggtca-ttggaagccattatccacagacagcaggatggataatgcaatggtatgactaatgatggaaccagcagtaaatgaatgatattagataattacagaggcaataaggt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16224481 490 +  18395747 tgcttcttattgatgcggtgatgttttactcaccctgccctgtc-ttaggtgtaccacatgaggaacagacatttctggtgagaatgagactgttctgtctactctacctaa-gggctttttgcctattgtccctgctggttgtggcatatggaagtcgagggagcagtcaacattgaaaccaatcaaattataggaaggctatgattgtggcctactca------gt-----tgggagatgtgtagtt--ctatgtttttacaatgtaaatttttgtatggtaaatttaacatgcccagaaaacaaaatgtggttcaca-tttttttctgcataccctggatattcttttgctgtggtcatcatcaacaaagctcagtaacaattgttgaaagggtca-ttggaagccattatccacagacagcaggatggataatgcaatggtatgactaatgatggaaccagcagtaaatgaatgatattagataattacagaggcaataaggt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5230370 490 +  26952557 tgcttcttattgatgcggtgatgttttactcaccctgctttgtc-ttaggtgtatcacatgaggaacagacatttctggtgagaatgagactgttctgtctaccctacctaa-gggctttttgcctattgtccctgctggttgtggcatatggaagtcgagggagcagtcaacattgaaaccaatcaaattataggaatgctatgattatggcctactca------gt-----tgggagatgtgtagtt--ctatgtttttacaatgtaaatttttgtatggtaaatttaacatgcccagaaaacaaaatgtggttcaca-tttttttctaaataccctggatatttttttgttgtggtcatcatcaacaaagctcagtaacaattgttgaaagggtca-ttggaagccattatccacagacagcaggatggataatgcaatggtatgactaatgatggaaccagcagtaagtgaatgatattagataattagagaggcaataaggt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28338463 490 +  82825804 tgcttcttattgatgcggtgatgttttactcaccctggtctgtc-ttaggtgtaccacatgaggaacagacatttctggtgagaatgagactgttctgtctgccctacctaa-gggctttttgcctattgtccctgctggttgtggcataaggaagtcgagggagcagtcaacattgaaaccaatcaaattataggaatgctatgattatggcctactca------gt-----tgggagatgtgtagtt--ctatgtttttacaatgtaaatttttgtatggtaaatttaacatgcccagaaaccaaaatgtggttcaca-tttttttctgcataccctggatattcttttgttttggtcatcatcaacaaagctcagtaataattgttgaaagggtca-ttggaagccattatgcacagacagcaggatggataatgcaatggtatgactaatgatgaaaccagcagtaagtgaatgatattagataattacagaggcaataaggt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4002285 490 -   4237731 tgcttcttattgatgcggtgatgttttactcaccctgctctgtc-ttaggtgtaccacatgaggaacagacatttctggtgagaatgagactgttctgtctaccctacctaa-gggctttttgcctattgtccctgctggttgtggcatatggaagtcgagggagcagtcaacattgaaaccaatcaaattataggaatgctatgattatggcctactca------gt-----tgggagatgtgtagtt--ctatgtttttacaatgtaaatttttgtgtggtaaatttaacatgcccagaaaacaaaatgcggttcaca-tttttttctgcataccctggatattcttttgttgtggtcatcatcaacaaagctcagtaacaattgttgaaagggtca-ttggaagccattatccacagacagcaggatggataatgcaatggtatgactaatgatggaaccagcagtaagtgaatgacattagataattacagaggcaataaggt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      272582 491 -   1175262 tgcttcttattgatgcgctgatgttttactcaccctggtctgtc-ttaggtgtaccacatgaggaacagacatttctggtgagaatgagactgttctgtctaccctacctaa-gggctttttgcctattgtccctgctggttgtggcatatggaagttgagggagcagtcaacattgaaaccaatcaaattataggaatactatgattatggcctactca------gt-----tgggagatgtgtaatt--ctatgtttttacaatgtaaatttttgtatggtaaatttaacatgcccagaaaacaaaatgtggtttacattttttttctgcataccctggatattcttttgttgtggtcatcatcaacaaagctcagtaacaattgttgaaagggtca-ttggaagccattatccacagacagcaggatggataatgcaatggtatgactaatgatggagccagcagtaagtgaatgatattagataattgcagaggcaataaggt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123612467 490 - 204313951 tccgtcttattgatgtggtgatgttttactcaccctggtctgtctttaggtgtgccacatgaggaacggacacctcttgtgagaatgagactattctgtgcaccctacctgt-gggctttttgcctattgccccagctggttgtggtatatggaagtcgaaggagcagtcaacattgaaagcaatcaaagtataggaatgctatgattatgggctcctca------gt-----tgggagatatgtagtt--ctatggtttcacaatgtaaatttttgtatgttaaatttaacatgcccagaaaacaaaatggggttcaca--ttttttctgcatgccctagatattcctatattgtggttatcatcaacaaagctcagtaacaactgttgaaagggtca-ttggaaaccattgtccacagacaggaggatggatgatgcaatggtatgactaatgatggaactagctctaagtgaatggtatgaaataattacagaggcaggaaggt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55664648 492 -  71252344 tgcatcttattggtgcggtgatgttttactcaccctggtctgtctttaggtgtgccacatgaggaacggacactgcttgtgagaatgagactgttctgtgcaccccgcctgc-aggctctttgcctattgccccagctgattgtggtatacggaagtcaaaggagcagtcaacattgaaagcaatcaaattacaggaatgctatgattatgggctcctca------gt-----tgggagatgtgtagttaactatggttttacaatgtaaatttttgtatggtaaatttaacatgcccagaaaacaaaatgtggttcaca--ttttttctgcctaccctagatattcctatattgtggttatcatcaacaaagctcagtaacaacggttgaaagggtca-ttggaaaccattatccacagagaggaggctggatgatgcaatggtatgactaatgatgaaactagctgtaagtgaatggtattagataattacagaggcaggaaggt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1361864 490 -   1400280 tgcttcttattgatgcggtgatgttttactcaccctggtctgtctttaggtgtgccacatgaggaatggacacttcttgtgagaatgggactgttctgtgcaccctacctgc-gggctttttgcctgttgccccagctggttgtggtatatggaagtcgaaggagcactcaacattgaaagcaatcagattataggaatgctatgattatgggctcctca------gt-----tgggagatgtgtagtt--ctgtggttttacaatgtaaatttttgtttggtaaatttaacatgcccagaaaacgaaatgtggttcaca--ttttttctgcataccctagatattcctatattgtggttatcatcaacaaagctcagtaacaactgttggaagggtca-ttgaaaaccattatccacagagaggaggatggatgatgcaatggtatgactaatggtggaactagctgtaagtgaacggtagtagataattacagaggcaggaaggt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13150439 490 -  42888418 tgcttcttattgatgcagtgatgttttactcaccctggtctgtctttaggtgtgtcacatgaggaacggacacttcttgtgagaatgagactgttctgtacaccctacctgc-gggctttttgcttattgccccagctggttgtggtatatggaagtctaaggatcaggcaacattgaaagcaatcagattataggaatgctacgattatgggctcctca------gt-----tgggagatgtgtagtt--ctatggttttacaatgtaaatttttgtatggtaaatttaacatgcccagaaaacaaaatgtggttcaca--ttttttctgcataccctagatattcctatattgtggttgtcattaacaaagctcagtaacaactgttgaaagggtca-ttggaagccattatccacagagaggaggttggatgatgcaatggtatgactaatgatggaactagctgtaagtgaatggtattagataattacagaggcaggaaggt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3039930 390 +   4132165 tgcttccaattaatgtcatgatgctttgctcCTGCTAGCCTGCC--TATGGTCACCACAGGAGGAA---------------------------------------------A------------------------------------------------------Agtcgactatgaaagaaatcacattacaggaatgctatgatcctggcctgcagagacattgt-----tggaagatgtgtattt--ctatattttcacactgtgaatttttgtatagcaaattttacatgaccggaaagcaaaacattgttcaca---ttttcctgcacactctgggtattctcatatggcggccatatgcagcaaagcttgataacagctgttgaaagggtca-tcagaagccattatctataggcagcaggatgga--atgaggtatcataattaaggatgaaactagtagtaaattcctggtattagatatt---agagttaagaaggc
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14888596 484 +  74389097 t-cttc----tgatgtagttatattttattctccgtggtctgtcttatgctgtgccagacaaaagacagacattccttgtgagaatgagactattcttttcactctacccaataggacttttgcctactgtccctgttagttgtgatata-ggaagtcaaaggagcagtgaacattgaaagaaatcacattataggaattccgtgattacagactacaaa------ggtattatagaagatgtgttgtt--ctatgtttttatac--taaaattctatatggtaaatttaacatgaccagaaaataaagtaatgttcatg---tttccttacatactctcagtgcacatgcattgtggttct-atcaatgaaagtcagtaacaacctttgaaatggtcatttggaagccactgttcataggcaacagaatggatgattcaaggtcatgagaaatggtgaacccaatagtaaataaataagattcaggaattacagaaacaagaa---
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2599493 479 +   3667625 tgcttctgatggatgtgataatgttatattctccctggtctgtcttaaactgtgccaaacaaaatgtggactttccttgtgagaataggagtgttcctttcactccacccat-gggccttttgcctattgtccc-actagtagtggtatatggaaggcaagggaccagtcaacattgaaagaaatcacattgtagttatactgtggttacagtctacagagacatagc-----tggaagctctgttgtt--ctatatttttataccataaaattctctatggcagatttaacatgaccaggaaaca------------------ttttcctcatactctggatagccatgcattgtggtcatcctcaagaaatgtcagtgaaaaccttagagagggtca-ctggaagccagtacttacagggagcagggtggatgatgcagagccatgaataatggtgtaaccaacagtaaataagtggtattagagaattacagatgcaagaaggt
i dasNov3.JH567306         I 35 C 0
e micMur3.chr12             60515263 1739 + 108143057 I
e proCoq1.NW_012155062v1     3554843 478 +  11683526 I
e mm10.chr18                55492725 274 +  90702639 I

a score=1885552.000000
s hg38.chr5_KI270796v1_alt     50189 144 +    172708 ctatattgtttcaatacaaacagtttctaaagagcgtggcattattggtaataatgttgttgctacct--cttttctcccagtgggagat-atgaaattagacagggatggcacac--ttggcaataaag-------------------------------------------------------------------------------ggacacaagagatg---------gttct
s panTro5.chr5             125160261 144 + 181907262 ctatattgtttcaatacaaacagtttctaaagagcgtggcattattggtaataatgttgttgctacct--cttttctcccagtgggagat-atgaaattagacagggatggcacac--ttggcaataaag-------------------------------------------------------------------------------ggacacaagagatg---------gttct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126497210 144 + 183735486 ctatattgtttcaatacaaacagtttctaaagagcgtggcattattggtaataatgttgttgctacct--cttttctcccagtgggagat-atgaaattagacagggatggcacac--ttggcaataaag-------------------------------------------------------------------------------ggacacaagagatg---------gttct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1688691 143 +   8933513 ctatattgtttcaatacaaacagtttctaaagagcgtggcattattggtaataatgttgttgctacct--cttttct-ccagtgggagat-atgaaattagacagggatggcacac--ttggcaataaag-------------------------------------------------------------------------------ggacacaagagatg---------gttct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139819054 144 + 163208435 ctatattgtttcaatacaaacagtttctaaagagcatggcattattggtaataatgttgttgctacct--cttttctcccagtgggagat-atgaaattagacagggatggcacac--ttggcaataaag-------------------------------------------------------------------------------ggacacaagagatg---------gttct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122803596 141 + 180051392 ctatattgtttcaatacaaacagtttctgaagagcatggcattattgg---taatgttgttgctacct--cttttctcccagtgggagat-atgaaattagacagggatggcacac--ttgacaataaag-------------------------------------------------------------------------------ggacacaagagatg---------gttct
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124227271 141 + 181584905 ctatattggttcaatacaaacagtttctgaagagcatggcattattgg---taatgttgttgctacct--cttttctcccagtgggagat-atgaaattagacagggatggcacac--ttgacaataaag-------------------------------------------------------------------------------ggacacaagagatg---------gttct
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16224971 141 +  18395747 ctatattgtttcaatacaaacagtttctgaagagcatggcattattgg---taatgttgttgctacct--cttttctcccagtgggagat-atgaaattagacagggatggcacac--ttgacaataaag-------------------------------------------------------------------------------ggacacaagagatg---------gttct
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5230860 141 +  26952557 ctatattgtttcaatacaaacagtttctgaagagcatggcattattgg---taatgttgttgctacct--cttttctcccagtgggagat-atgaaattagacagggatggcacac--ttgacaataaag-------------------------------------------------------------------------------ggacacaagagatg---------gttct
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28338953 141 +  82825804 ctatattgtttcaatacaaacagtttctgaagagcatggcattattgg---taatgttgttgctccct--cttttctcccagtgggagat-atgaaattagacagggatgacacac--ttgacaataaag-------------------------------------------------------------------------------ggacacaagagatg---------gtcct
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4002775 141 -   4237731 ctatattgtttcaatacaaacaatttctgaagagcatggcattattgg---taatgttgttgctacct--cttttctcccagtgggagat-atgaaattagacagggatggcacac--ttgacaataaag-------------------------------------------------------------------------------ggacacaagagatg---------gttct
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      273073 141 -   1175262 ctatattgtttcaatagaaacagtttctaaagagcatggcattattgg---taatgttgttgctacct--cttttctcccagtgggagat-atgaaattagacaaggatggcacac--ttgacaataaag-------------------------------------------------------------------------------ggacacaagagatg---------gttct
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123612957 144 - 204313951 ctatattgtttcaatacaaacagtttctaaagagtatgacgttattggtaataaaagtgttgctacct--cttttctcccagtaggagat-gtgaaattagacagggatggaacac--ttgaaaataaag-------------------------------------------------------------------------------ggacacaagagata---------gttct
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55665140 144 -  71252344 ctgtattgtttccatacaaacagtttctaaagagcgtggcattattggtaataatggtgttgctacct--cttttctcccagtgggagat-atgaaattagacagggatagaacac--ttgacaataaag-------------------------------------------------------------------------------ggacacaagagatg---------gttct
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1362354 140 -   1400280 ctatattgtttcaat----acagtttctaaagaacgtggcattattggtaataatggtgttgctgcct--cttttctcccagtgggagat-atgaaattagacagggatggaacac--ttgacaataaag-------------------------------------------------------------------------------ggatacaagatatg---------gttct
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13150929 144 -  42888418 ctatattgtttcaatacaaacgatttctaaagagcatggcattgttgataataatggtgttgctacca--cttttctcccagtgggagat-atgaaatcagacagggatggaacac--ttgataataaaa-------------------------------------------------------------------------------ggacacaagagatg---------gttct
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3555321 146 +  11683526 ctatgttgttccaatactaatgatttctgaagagcatggcattgttggtaataatggtgttgctacct--cttttatcccagtgggagat-gtgaaattagatagggatggtacacatttgacaacaaaa-------------------------------------------------------------------------------ggacacaagagatg---------gttct
i proCoq1.NW_012155062v1   I 478 C 0
s otoGar3.GL873679           3040320 146 +   4132165 atatattattctaatacaaatga-ttctgaaaagtatggaattgttggcaataatggttttgctaccttcccctcccccaagtgggtgataataaaattagacaaggatgacacacctttgac-ataaag-------------------------------------------------------------------------------ggacgc-agagatg---------gttcT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14889080 135 +  74389097 ----aatgtttcaatataaagaagttctgaagagcacagcaatgtctacaataacattgttgctgtgt--cttttttctcagtgggaaat-gggacatta-----ggatggtgcat--ttgacaaaaaaa-------------------------------------------------------------------------------ggacacaaaaggta---------atact
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2599972 224 +   3667625 ctgtattgtttcaataccaataggttctgaagagcatggtattgtctttaataa--gtgttactacta--cttttctttctgtg-------aaaatattagacagggatggtgcat--ttgacaataaaagactaaagagatggctcttggacttgaacaggaagaaccaatgcctgaacattaggaagaatgcttatttgaactcactggacaaaaaacatatacatacctgttct
i dasNov3.JH567306         C 0 I 232
e micMur3.chr12             60515263 1739 + 108143057 I
e mm10.chr18                55492725 274 +  90702639 I

a score=2233018.000000
s hg38.chr5_KI270796v1_alt     50333 172 +    172708 tgtgtcctgGCTCATCT--------------------------TGGACAGCTATTATGGCTGAGGATTCTTTTAGTTT-GAGCAAATGGGCCT-AAAATCTTTGATTTCAAGTCAGTCTCATGTGTACCTTTTCCTCAGGTCTAATTCTTGACCATGGTGCTTGAGGCTATC-----------------CAGTGGTCAGAATagatgaagaaggagg
s panTro5.chr5             125160405 172 + 181907262 tgTGTCCTAGCTCATCT--------------------------TGGACAGCTATTATGGCTGAGGATTCTTTTAGTTT-GAGCAAATGGGCCT-AAAATCTTTGATTTCAAGTCGGTCTCACGTGTACCTTTTCCTCAGGTCTAATTCTTGACCATGGTGCTTGAGGCTATC-----------------CAGTGGTCAGAATagatgaagaaggagg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126497354 172 + 183735486 tgTGTCCTAGCTCATCT--------------------------TGGACAGCTATTATGGCTGAGGATTCTTTTAGTTT-GAGCAAATGGGCCT-AAAATCTTTGATTTCAAGTCAGTCTCATGTGTACCTTTTCCTCAGGTCTAATTCTTGACCATGGTGCTTGAGGCTATC-----------------CAGTGGTCAGAATagatgaagaaggagg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1688834 172 +   8933513 tgTGTCCTAGCTCATCT--------------------------TGGACAGCTATTATGGCTGAGGATTCTTTTAGTTT-GAGCAAATGGGCCT-AAAATCTTTGATTTCAAGTCAGTCTCATGTGTACCTTTTCCTCAGGTCTAATTCTTGACCATGGTGCTTGAGGCTATC-----------------CAGTGGTCAGAATagatgaagaaggagg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139819198 172 + 163208435 tgTGTCCTAGCTCATCT--------------------------TGGACAGCTATTATGCCTGGGGATTCTTTTAGTTT-GAGCAAGTGGGCCT-AAAATCTCTGATTTCAAGTCAGTCTCATGTGTACCTTTTCCTCAGGTCTAATTCTTGACCATGGTGCTTGAGGCTATC-----------------CAGTGGTCAGAATagatgaagaaggagg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122803737 172 + 180051392 tgTGTCCTACCTCATCT--------------------------TGGACAGCTATTATGGCTGAGGATTCTTTTGGTTT-GAGCAAGTGGACCT-AAAATCTTTGAATTCAAGTCAGTCTCATGTGCACCTTTTCCTCAGGTCCAATTCTTGACCATGATGCTTGAGGCTATC-----------------CAGTGGTCagaataaatgaagaaggagg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124227412 172 + 181584905 tgTGTCCTACCTCATCT--------------------------TGGACAGCTATTATGGCTGAGGATTCTTTTGGTTT-GAGCAAGTGGACCT-AAAATCTTTGAATTCAAGTCAGTCTCATGTGCACCTTTTCCTCAGGTCCAATTCTTGACCATGATGCTTGAGGCTATC-----------------CAGTGGTCagaataaatgaagaaggagg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16225112 172 +  18395747 tgTGTCCTACCTCATCT--------------------------TGGACAGCTATTATGGCTGAGGATTCTTTTGGTTT-GAGCAAGTGGACCT-AAAATCTTTGAATTCAAGTCAGTCTCATGTGCACCTTTTCCTCAGGTCCAATTCTTGACCATGATGCTTGAGGCTATC-----------------CAGTGGTCagaataaatgaagaaggagg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5231001 172 +  26952557 tgTGTCCTACCTCATCT--------------------------TGGACAGCTATTATGGCTGAGGATTCTTTTGGTTT-GAGCAAGTGGACCT-AAAATCTTTGAATTCAAGTCAGTCTCATGTGCACCTTTTCCTCAGGTCCAATTCTTGACCATGATGCTTGAGGCTATC-----------------CAGTGGTCagaataaatgaagaaggagg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28339094 172 +  82825804 tgTGTCCTACCTCATCT--------------------------TGGATAGCTATTATGGCTGAGGATTCTTTTGGTTT-GAGCAAGTGGACCT-AAAATCTTTGAATTCAAGTCAGTCTCATGTGCACATTTTCCTCAGGTCCAATTCTTGACCATGATGCTTGAGGCTATC-----------------CAGTCGTCagaataaatgaagaaggagg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4002916 172 -   4237731 tgTGTCCTACCTCATCT--------------------------TGGACAGCTATTATGGCTGAGGATTCTTTTGGTTT-GAGCAAGTGGACCT-AAAATCTTTGAATTCAAGTCAGTCTCATGTGCACCTTTTCCTCAGGTCCAACTCTTGACCATGATGCTTGAGGCTATC-----------------CAGTGGTCAgaataaatgaagaaggagg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      273214 189 -   1175262 tgTGTCCTACCTCATCC--------------------------TGGACAGCTATTATGGCTGAGGATTCTTTTGGTTT-GAGCAAGTGGACCT-AAAATCTTTGAATTCAAGTCAGTCTTACGTGTACCTTTTCCTCAGGTCCAATTCTTGGCCACAGCGCTTGAGGCTATCTTCTTCATTTATTCTGACAGTGGTCagaataaatgaagaaggagg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123613101 165 - 204313951 tgTGTCTTACCTCATCT--------------------------TGGACAGCTAGTATGACTGAGGATTCTTTTAGTTT-GAGCAAGTGGATCT-GAAATCTTTGAATTCAAGTCAGTCCCATGTGTACCGTTTCCTTAGATCTGATTCTTGACCATGGCACTTGAGGCTACC-----------------CAGTGGTCAGAAGAGATGaag-------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55665284 169 -  71252344 tgTGTCTTACCTCATCT--------------------------TGGACAAC---TATGACTGAGGATTCTTTTAGTTT-GAGCAAGTGGACCT-GAAATCTTTGAATTCAAGTCAGTCTCATGTGTACCGTTACCTTAGATCTGATTCTTGACCATGGTGCTTGAGGCTATC-----------------CAGTGGTCAGAATagatgaagtagaaga
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1362494 170 -   1400280 tgTGTCTTACCTCATCT--------------------------TGGACAGCTATTATGGCTGAGGATTCTTTTAGTTT-GAGCAAGTGGACCT-GAAGTCTTTGAATTCAAGCCAGTCTCATGTGTACTGTTTCTTTAGATCCGATTCTTGACCATGGCACTTGAGACTATC-----------------CAGTGGTCAGaaaagatgaagaagaa--
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13151073 172 -  42888418 tgTGTCTTACCTCATCT--------------------------TGGACAGCTATTTTGGCTGAGGATTCTTTTAGTTT-GAGCAAGTGGATCT-GAAATCTTTGAATTCAAGTCAGTTTCATGTGTGCCATTTCCTTAGATCCAATTCTTGACCATGGCACTTGAGGCTATC-----------------CAGTGGTCagaagagatgaagaagaaga
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3555467 198 +  11683526 tgTGGTCTAGCTTATCTTGGGCCTTACGTGGCCTGTCTCATC-TGGACAGCTGTTATGACTGAGGATTCCTTTACCTTGGATCAAGTAGACCTAAAAATCTTTGAATTCAAATCAGTTTCATGTGTATCTTTTCTTTAGGCTCAATTCTTGAACATGGCTCTTGAGGCTGTC-----------------CAGTGGTTag-atagatgaagaagaagg
i proCoq1.NW_012155062v1   C 0 I 310
s otoGar3.GL873679           3040466 199 +   4132165 GGCAGCCTAACTTACCTTGGGTGTTACAAGGCCCCTCTCATCTTGGATAGCTGTTACGGCTGAGGATTCTTTTACCTTGGATTGAGCAGACCTAAAAACCTTTGAATTCAAATCAGTCTCATGCACATCTTTTTCATTGGTCCAATTCTTGATCATGACTCTTAATGCTGCT-----------------CAGTGACCaa-agaggagaaggagaaga
i otoGar3.GL873679         C 0 I 2
s canFam3.chr11             14889215 171 +  74389097 tgtgaccAACTTTATCT--------------------------TGGACAGCTGCTATGGCTGAGGATCCCTTTAGTTTGGATCAAATGGACC--ATTATCTTTGAATTAAAATCAGCTTCATTTGCATATTTTCCTCAGGCCCATTTCTT-ATCATGGCTCTTAAGACTATC-----------------CAGTGGTCAGAAGAGAAGGGGAAGGAGA
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2600428 172 +   3667625 TGTGACTTATTTCATCT--------------------------TGGTCATTTGGACTAGCTGAGGATTCTTTTAGCTTAGGTCAAGCAGACCT-ATAATCTTTGGACTAAAGTCAGCCTCTGTTGCCTCTTCTCTTCAGGACCCCTTCTTAATCATGGCTCTTGAGGCTATT-----------------TCTATGCCagaagagac-aagaagaagg
i dasNov3.JH567306         I 232 C 0
e micMur3.chr12             60515263 1739 + 108143057 I
e mm10.chr18                55492725 274 +  90702639 I

a score=2079300.000000
s hg38.chr5_KI270796v1_alt     50505 208 +    172708 aaaagaaagaagaag--aaggaagaagaaggg-aaaaaat-taaaagaaggaggagGAACAGATA---AAGGATATACC-AAGGGGG--AAAAAAA----TGGTTCTT----CTCAAGAcaaaggtcaaacatttgaga---acttttaggggcctctgcaggctgcataaatgagtgta-cagcagatgggctg----agataataaggagcggtaggaattctgg-----------cttagtt-----------
s panTro5.chr5             125160577 206 + 181907262 aaaagaaaaaagaag--aaggaagaagaaggg-aaaaaat-taaaagaaggaggagGAACAGATA---AAGGGTATACC-AAGGGGG----AAAAA----TGGTTCTT----CCTAAGAcaaaggtcatacatttgaga---acttttaggggcctctgcaggctgcataaatgagtgta-cagcagatgggctg----agataataaggagcggtagcaattctgg-----------cttagtt-----------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126497526 205 + 183735486 aaaagaaa-aagaag--aaggaagaagaaggg--aaaaat-taaaagaaggaggagGAACAGATA---AAGGATATACC-AAGGGGG---AAAAAA----TGGTTCTT----CCTAAGAcaaaggtcaaacatttgaga---acttttaggggcctctgcaggctgcataaatgagtgta-cagcagatgggctg----agataataaggagcggtaggaattctgg-----------cttagtt-----------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1689006 209 +   8933513 aaaagaaaaaagaag--aaggaagaagaaggg-aaaaaat-taaaagaaggaggagGAACAGATA---AAGGATATACC-AAGGGGG-AAAAAAAA----TGGTTCTT----CCTAAGAcaaaggtcaaacatttgaga---acctttaggggcctctgcaggctgcataaatgagtgta-cagcagatgggctg----agataataaggagtggtaggaattctgg-----------cttagtt-----------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139819370 208 + 163208435 aaaagaaaaaagaat--aaggaagaagaaggg-aaaaaat-taaaagaaggaggagGAACAGATA---AAGGATATACC-AAGGGGA--AAAAAAA----AGATTCTT----CCTAAGACAAAGGTCAAACATTTGATA---ACCTCTAGGGGCCTCTGCGGGCTGCATAAACGAGTGTA-CAGCAGATGGGCTG----AGATAGTAAGGAGTGGTAGGAATTCTGG-----------CTTACTT-----------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122803909 207 + 180051392 aaaag---aaagaag--aaggaagaagaaggg-aaaaaat-taaaagaaggaggaagaacagataaagaagGATATACC-AAGGGGG---AAAAAA----TGGTTCTT----CCTAAGACAAAGGTCAAACATTTGAGA---ACCTCTAGGGGCCTCTGCAGGCTGCATCAATGAGTATG-CAGCAGACGGGCTG----AGATAATAAGGAGTGGTAGGAATTCTGG-----------CTTATTT-----------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124227584 208 + 181584905 aaaag---aaagaag--aaggaagaagaaggg-aaaaaat-taaaagaaggaggaagaacagataaagaagGATATACC-AAGGGGG--AAAAAAA----TGGTTCTT----CCTAAGAcaaaggtcaaacatttgaga---acctctaggggcctctgcaggctgcatcaatgagtgtg-cagcagatgggctg----agataataaggagtggtaggaattctgg-----------cttattt-----------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16225284 208 +  18395747 aaaag---aaagaag--aaggaagaagaaggg-aaaaaat-taaaagaaggaggaagaacagataaagaagGATATACC-AAGGGGG--AAAAAAA----TGGTTCTT----CCTAAGACAAAGGTCAAACATTTGAGA---ACCTCTAGGGGCCTCTGCAGGCTGCATCAATGAGTGTG-CAGCAGATGGGCTG----AGATAATAAGGAGTGGTAGGAATTCTGG-----------CTTATTT-----------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5231173 210 +  26952557 aaaag---aaagaag--aaggaagaagaaggg-aaaaaat-taaaagaaggaggaagaacagataaagaagGATATACC-AAGGGGGAAAAAAAAA----TGGTTCTT----CCTAAGACAAAGGTCAAACATTTGAGA---ACCTTTAGGGGCCTCTGCAGGCTGCATCAATGAGTGTG-CAGCAGATGGGCTG----AGATAATAAGGAGTGGTAGGAATTCTGG-----------CTTATTT-----------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28339266 210 +  82825804 aaaag---aaagaag--aaggaagaagaagggaaaaaaat-taaaagaaggaggaagaacagataaagaagGATATACC-AAGGGGG--AAAAAAAG---TGGTTCTT----CCTAAGACGAAGGTCAAACATTTGAGA---ACCTCTAGGGGCCTCTGCAGGCTGCACCAATGAGTGTG-CAGCAGATGGGCTG----AGATAATAAGGAGTGGTAGGAATTCTGG-----------CTTATTT-----------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4003088 207 -   4237731 aaaag---aaagaag--aaggaagaagaaagg-aaaaaat-taaaagaaggaggaagaacagataaagAAGGATATACC-AAGGGGG--AAAAAAA-----TGTTCTT----CCTAAGAcaaaggtcaaacatttgaga---acctctaggggcctctgcaggctgcatcaatgagtgtg-cagcagatgggctg----agataataaggagtggtaggaattctgg-----------cTTATTT-----------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      273403 212 -   1175262 aaaagaaaaaagaag--aaggaagaagaaggg-aaaaaat-taaaagaaggaggaggaacagataaagaagGATATGCC-AAGGGGG--AAAAAAAA---TGGTTCTT----CCTAAGATGAAGGTCAAACATTTGAGA---ACCTCTAGGGGCCTCTGCAGGCTGCATCAATGAGTGTG-CTGCAGGTGGGCTG----AGATAATAAGGAGTGGTAGGAATTCTGG-----------CTTATTT-----------
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123613266 215 - 204313951 --aag---aaaaaaa--aaaaaagaagaaagg-aaaaaaT-TAAGAGAAGGAGGAGAAACAGATAAAGAAGGATATACCAAAAAAAA--AAAAAACCAAACAATTCTTCCTACCTAAGAcaaaggtcaaacatttgaga---acctctaggggcctcagtaggctgcataaatgagtgta-cagcagatgggctg----agacaataaggaacgatgggaattctag-----------cttattt-----------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55665453 208 -  71252344 ataag---aaaaaag--aaggaagaagaaagg-aaaaaat-taatagaaggaggagaaacagataaagaaggaaatac--aaagggg--aaaaaACC---CAGTTCTT----CCTAAGAAAAAGGTCAATCATTTGAGA---ACTTCTagaggcctcagtaggctgcataaatgagtgta-cagcagatgggctg----agacaataaggaatgatgggaattctgg-----------cttattt-----------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1362664 210 -   1400280 --gaa---aaagaaa--aaagaagaagaaagg-aaaaaat-taagagaaggaggagaaacagataaagaaggatatacc-aagggaa--aaaaaaaaaaacagTTCTT----CATAAGAcaaaggtcaaacatttgaga---acctctaggggcctcagtaggctgcataaatgagtgta-cagcagatgggctg----aaacaataaggagcggtgggaattctgg-----------cttattt-----------
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13151245 209 -  42888418 gaaag---aaaaaag--aaggaagaagaaagg-aaaaaat-taatagaaggaggagaaacagataaagaagGAAATACC-AAGGGGA--AAAAAAAA---TGGTTCTT----CCTAAGAcaaaggtcaagcatttgaga---acctctagcggcctcagtaggctgcataaatgagtgta-cagcagatggactg----agacaataaggagtggtgggaattctgg-----------cttattt-----------
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3040667 183 +   4132165 aagag---gaagaga--agggaggaagaggag-------------------aggaaaaacaaa-----atgaaaaCACG-CAGGGAA-----GAAC----TGGTTCTT----CCTAAGGcaaggatcaaaca-ctgaga---atctgtaatggcccctggaggctgcataagtgagggcagcaggtggtggtctg----agacaagaaggaatggtgggaattctgg-----------cacatgc-----------
i otoGar3.GL873679         I 2 I 29
s canFam3.chr11             14889387 185 +  74389097 GAAGG---GATGAAGTAAATGATGAAGGAGGG-AAAAGACATTGGAGAGGGTG---------------AAAAGCATCTC-AAGGGAA-----AGAA----TGGTTCTT----CTTAACTTaggaatcaaacagttgagt---gcatctaagggacttggtaggttatataaatggg--ta-cagcttgtgggctg----agacaataaggagtggtaga------gg-----------cttacat-----------
i canFam3.chr11            I 1 I 29
s dasNov3.JH567306           2600600 190 +   3667625 ---------------------------------------------agatggaggagaataagaga-ggaaaagcatacc-aagagga--aagaaaag---aGATTCTT----TGTAAGGCAGGG------TGCTTAAGAAGTACATTTagagg-cttaggaagtcatgtgagtgaatg---cagcttgtaggctgttccaaacaataaagagtggtgggtactctggaatgggcaagccctgtctattggtgtagt
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60515263 1739 + 108143057 I
e proCoq1.NW_012155062v1     3555665 310 +  11683526 I
e mm10.chr18                55492725 274 +  90702639 I

a score=1923654.000000
s hg38.chr5_KI270796v1_alt     50713 161 +    172708 tacattgagctccaaacagttattactatgaaagatgctgggcccaattttgctaaatctttcaaattttcaagagaagct-aaaatcaaattgttaggtgaaatactactagttttaaatactggtaactaa--ttaagacactaaaagttctgtgtgaacTT
s panTro5.chr5             125160783 161 + 181907262 tacattgagctccgaacagttattactatgaaagatgctgggcccaattttgctaaatctttcaatttttcaagagaagct-aaaatcaaattgttaggtgaaatactactagttttaaatactggtaactaa--ttaagacactaaaagttctgtgtgaacTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126497731 161 + 183735486 tacattgagctccaaacagttattactatgaaagatgctgggcccaattttgctaaatctttcaaattttcaagagaagct-aaaatcaaattgttaggtgaaatactactagttttaaatactggtaactaa--ttaagacaataaaagttctgtgtgaacTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1689215 161 +   8933513 tacattgagttccaaacagttattactatgaaagatgctgggcccaattttgctaaatctttcaaatttttaagagaagct-aaaatcaaattgttaggcaaaatactactagttttaaatactggtaactaa--ttaagacactaaaagttctgtgtgaacTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139819578 161 + 163208435 TACATTGagctccaaacagttattactatgaaagatgctgggcccaattttgctaaatctttcaaattttcaagagaagct-aaaatcaaattgttaggtgaaatactactagttttaaatactggtaactaa--ttaagacattagaagttctgtgtgaacTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122804116 151 + 180051392 CA----------caaacagttattactgtgaaagatgctgggcccaattttgctaaatctttcaaatattcaagagaagct-aaaataaaatcgttaggtgaaatactactagttttaaatactggtaactaa--ttaagatgctaaaagttctgtgcAAACTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124227792 151 + 181584905 ca----------caaacagttattactgtgaaagatgctgggcccaattttgctaaatctttcaaatgttcaagagaagct-aaaataaaatcgttaggtgaaatactactagttttaaatactggtaactaa--ttaagatgctaaaagttctgtgcAAACTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16225492 151 +  18395747 CA----------CAAACAGTTATTACtgtgaaagatgctgggcccaattttgctaaatctttcaaatgttcaagagaagct-aaaataaaatcgttaggtgaaatactactagttttaaatattggtaactaa--ttAAGATGCTAAAAGTTCTGTTCGAACTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5231383 151 +  26952557 CA----------CAAACAGTTATTACtgtgaaagatgctgggcccaattttgctaaatctttcaaatgttcaagagaagct-aaaataaaatcgttaggtgaaatactactagttgtaaatactggtaactaa--ttaagatgctaaaagttctgtgcgaacTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28339476 151 +  82825804 CA----------caaacagttattactgtgaaagatgctgggcccaattttgctaaatctttcaaatgttcaagagaagct-aaaataaaatcgttaggtgaaatactactagttttaaatactggtaactaa--ttaagatgctaaaagttctgtgTAAACTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4003295 151 -   4237731 CA----------caaacagttattactgtgaaagatgctgggcccaattttgctaaatctttcaaatgttcaagagaagct-aaaataaaatcgttaggtgaaatactactagttttaaatactggtaactaa--ttaagatgctaaaagttctgtgcgaacTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      273615 161 -   1175262 CACActgagctccaaacagttattactgtgaaagatgtcgggcccaattttgctaaatctttgaaattttcaagagaagct-aaaataaaatcgttaggtgaaatactactagttttaaatactggcaactaa--ttaagatgctaaaagttctgtgcAAACGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123613481 157 - 204313951 ta----gagccctaagcagttattactatgaaagaaggtgggcccaattttgctaaatctttcaaattttcaagagaaggt-aaaatcaaatcattaggtgaaatgttactagtttgaaatactggtaactaa--tgaagacactcaaagttctgtgcggtctt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55665661 157 -  71252344 ca----gagctttaagcagttattcctatgaaagaagctgggtccaattttgctaaatctttcaaattttcaagagaaggc-aaaatcaaatcattaggtgaaatgttactagtttgaaatactagtaactaa--ttaagacactcagagttctgtgtgatctt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1362874 157 -   1400280 ta----gagccctaagcagttattactatgacagaagttgagcccaattttgctaaatctttcaaattttcaagagaaggt-aaaatcaaatcattaggtgaaatgttactagtttgaaataccggtaactaa--ttaagacactcaaagttctgtgcgatctt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13151454 157 -  42888418 ca----gagctttaagcagttattactatgaaagaagctgggcccaattttgctaaatctttcaaattttcaagagaaggt-aaaatcaaatcattaggtgaaatgttactagtttgaaatactggtaactaa--ttaagacactcaaagttctgtgcgATCTT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3555975 156 +  11683526 tacattcagctccaggcagttattaccatgaaagaagctggacccaatattgccagatcttcagatttttcaagagaggct-aaaattgaatctttaggtgaactattattagttttaaatgttggtaacc-------aaATGCGAAAAGTTCTGTGCAAACCA
i proCoq1.NW_012155062v1   I 310 C 0
s otoGar3.GL873679           3040879 161 +   4132165 tacatgcagctcgaggcaattattaccacaaaagaagctgaaccccgtattatcaaatgtttaaatttttcaatagcagct-aaaattgaaactttaggtcaactattactagttttaaatgttggtcactaa--ctaaaatgcttaaagctctgggcaaaaca
i otoGar3.GL873679         I 29 C 0
s canFam3.chr11             14889601 158 +  74389097 cacactcagctccaggc-gttattatcataaaagaagcagggcccaatatc-ctagatcttctaattttttaagat-gccc-caaattaaacttctatgtgaaatctgcgtagttttaaacattggcagttaa--tttgaatgttaaaagttctgtgcaaacca
i canFam3.chr11            I 29 C 0
s dasNov3.JH567306           2600790 164 +   3667625 cacgtccagcttcaggcacttattgccatgaaagaagctgggcccaattttgctagatcttctaagttttcaagagaaaccaaaaatcaagtctttatgtaaaatttacttattttaaaatattggtaactaattttaaagtgttaaaagttctgtCCATACCT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60515263 1739 + 108143057 I
e mm10.chr18                55492725 274 +  90702639 I

a score=3549801.000000
s hg38.chr5_KI270796v1_alt     50874 238 +    172708 TAGGAGGTGTCTGGCTCACCTACATTCAGTTTGCCAGCTTAGCCCCAAGACCTGGAGAACAGTATAGGTTGGCAAGCCAATGACACCCAAGCCTTCCAAGAACAGGGAAATCCCTGTCAAGCAGGAGAT----------ACGGCAACTTTTGGGAA-------AGGAAATAGGAAATGATATCAAGA-AATACAATCCAAAGAGAGTTGAAA--------ATCAAGCATTCTTGATTAATTCTGTTATCCCTTCTAAATCCCTG
s panTro5.chr5             125160944 238 + 181907262 TAGGAGGTGTCTGGCTCACCTACATTCAGTTTGCCAGCTTAGCCCGAAGACCTGGAGAACAGTATAGGTTGGCAAGCCAATGACACCCAAGCCTTCCAAGAACAGGGAAATCCCTGTCAAGCAGGAGAT----------ACGGCAACTTTTGGGAA-------AGGAAATAGGAAATGATATCAAGA-AATACAATCCAAAGAGAGTTGAAA--------ATCAAGCATTCTTGATTAGTTCTGTTATCCCTTCTAAATCCCTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126497892 238 + 183735486 TAGGAGGTGTCTGGCTCACCTACATTCAGTTTGCCAGCTTAGCCCGAAGACCTGGAGAACAGTATAGGTTGGCAAGCCAATGACACCCAAGCCTTCCAAGAACAGGGAAATCCTTGTCAAGCAGGAGAT----------ACGGCAACTTTTGGGAA-------AGGAAATAGGAAATGATATCAAGA-AATACAATCCAAAGAGAGTTGAAA--------ATCAAGCATTCTTGATTAGTTCTGTTATCCCTTCTAAATCCCTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1689376 238 +   8933513 TAGGAGGTGTCTGGCTTACCTACAATCAGTTTGCCAGCTCAGCCCCAAGACCTGGAGAACAGTATAGGTTGGCAAGCCAATGACACCCAAGCCTTCCAAGAACAAGGAAATCCCTGTCAAGCAGGAGAT----------ACAGCAACTTTTGGGAA-------AGGAAATAGGAAATGATATCAAGA-AATACAATCCAAAGAGAGTTGAAA--------ATCAAGCATTCTTGATTAGTTCTCTTAACCCTTCTAAATCCCTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139819739 238 + 163208435 TAGGAGGTGTCTGGCGCACCTACAATCAGTTTGCCAGCTCAGCCCCAAGACCTGGAGAACAGCATAGGTTGGCAAGCCAGTGACACCCAGGCCTTCCAAGAATGGGGAAATCCCTGTCAAGCAGGAGAT----------ACAGCAACTTTTGGGAA-------AGGAAATAGGAAATGATATCAAGA-AATACAATCCAAAGAGAGTCGAAA--------ATCAAGCATTCTTGATTAGTTCTCTTATCCCTTCTAAATCCCTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122804267 238 + 180051392 TAGGAGGTGTCTGGCTTACCTACAATCAGTTTGCCAGCTCAGCCCCAAGACCTGGAGAACCATACAGGTTGGCAAGCCAATGACACCCAAGCCTTCCAAGAACAGGGAAATCCCTGTCAAGCAGGAGAT----------ACAGCAACTTTTGGGAA-------AGGAGATCGGAAATGATACCAAGA-AATACAATCCAAAGAGAGTTGAAA--------ATCAAGCATTCTTGATTAGTTCTCTAATCCCTTCTAAATCCCTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124227943 238 + 181584905 TAGGAGGTGTCTGGCTTACCTACAATCAGTTTGCCAGCTCAGCCCCAAGACCTGGAGAACCATACAGGTTGGCAAGCCAATGACACCCAAGCCTTCCAAGAACAGGGAAATCCCTGTCAAGCAGGAGAT----------ACAGCAACTTTTGGGAA-------AGGAGATCGGAAATGATACCAAGA-AATACAATCCAAAGAGAGTTGAAA--------ATCAAGCATTCTTGATTAGTTCTCTAATCCCTTCTAAATCCCTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16225643 238 +  18395747 TAGGAGGTGTCTGGCTTACCTACAATCAGTTTGCCAGCTCAGCCCCAAGACCTGGAGAACCATACAGGTTGGCAAGCCAATGACACCCAAGCCTTCCAAGAACAGGGAAATCCCTGTCAAGCAGGAGAT----------ACAGCAACTTTTGGGAA-------AGGAGATCGGAAATGATACCAAGA-AATACAATCCAAAGAGAGTTGAAA--------ATCAAGCATTCTTGATTAGTTCTCTAATCCCTTCTAAATCCCTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5231534 238 +  26952557 TAGGAGGTGTCTGGCTCACCTACAATCAGTTTGCCAGCTCAGCCCCAAGACCTGGAGAACCATACAGGTTGGCAAGCCAATGACACCCAAGCCTTCCAAGAACAGGGAAATCCCTGTCAAGCCGGAGAT----------ACAGCAACTTTTGGGAA-------AGGAAATCGGAAATGATACCAAGA-AATACAATCCAAAGAGAGTTGAAA--------ATCAAGCATTCTTGATTAGTTCTCTAATCCCTTCTAAATCCCTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28339627 238 +  82825804 TAGGAGGTGTCTGGCTCACCTACAATCAGTTCGCCAGCTCAGCCCCAAGACCTGGAGAACCATACAGGTTGGCAAGCCAATGACACCCAAGCCTTCCAAGAACAGGGAAATCCCTGTCAAGCAGGAGAT----------ACAGCAACTTTTGGGAA-------AGGAGATCGGAAATGATACCAAGA-AATACAATCCAAAGAGAGGTGAAA--------ATCAAGCATTCTTGATTAGTTCTCTAATCCCTTCTAAATCTCTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4003446 238 -   4237731 TAGGAGGTGTCTGGCTCACCTACAATCAGTTTGCCAGCTCAGCCCCAAGACCTGGAGAACCATACAGGTTGGCAAGTCAATGACACCCAAGCCTTCCAAGAACAGGGAAATCCCTGTCAAACAGGAGAT----------ACAGCAACTTTTGGGAA-------AGGAGATCGGAAATGATACCAAGA-AATACAATCCAAAGAGAGTTGAAA--------ATCAAGCATTCTTGATTAGTTCTCTAATCCCTTCTAAATCCCTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      273776 238 -   1175262 TAGGAGGTGTCTGGCTCACCTACAATCAGTTTGCCAGCTCAGCCCCAAGACCTGGAGAACCATACAGGTTGGCAAGCCAATGACATCCAAGCCTTCCAAGAACAGGGAAATCCCTGTCAAGCAGGAGAT----------ACAGCAACTTTTGGAAA-------AGGAGATCGGAAATGATACCAAGA-AATACAATCCAAAGAGAGTTGAAA--------ATCAAGCATTCTTGATTAGTTCTCTAATCCCTTCTAAATCTGTG
i colAng1.NW_012119644v1   C 0 I 3299
s calJac3.chr2             123613638 238 - 204313951 caggaggtgtctggctcacctgcggttagtttgccagctcAGCCTCGAGACCTGGAGAACAGTACAGGTTGGCAAGCCAGTGACACCTAAGCCTTCCAAGAACAGAGAAATTCCTATCAAGCAGGAGAT----------CCAGCGACTTTTGGGAA-------AGGAAATAGGAAATGATATCAAGA-AATACAATCCAAAGGATGCTGGAA--------ATGAAGCATTCTTGATTTGTTCTTTCATCCCTTCTAAATCTCTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55665818 245 -  71252344 taggaggtgtctggctcacctgcagttagtttgcaagctcAGCCCCAAGACCTGGAGAACGGTACATGTTGGCAAGCCAACAACACCTAAGGCTTCCAAGAACAGAGAAATCCCTATCAAGCAGGAGAT----------ACAGCAACTTTTCGGAAAGGAAATAGGAAATAGGAAATGATATCAAGA-AATACAATCCAAAGAGTGTTGGAA--------ATCAAGCATTCTTGATTAGTTCTTTCATCCCTTTGAAATCTCTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1363031 238 -   1400280 taggaggtctgtggctcacctgcagttagtttgccagctcAGCCCCAAGACCTGGAGAACAGTACAGGTTGGCAAGCCAATGACACCTAAGCCTTCCAAGAACAGAGAAATCCCTATCAAGCAGGAGAT----------ACAGCAACTTTTGGGAA-------AGGAAATAGGAAATGATATCAAGA-AATACAATCCAAAGAGTGCTGGAA--------ATCAAGCATTCTTGATTAGTTCTTTCATCCCTTCTAAATCTCTG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13151611 239 -  42888418 TAGGAGGTGTCTGGCTCACCTGCAGTTAGTTTGCCAGCTCAGCCCCAAAACCTGGAGAACAGTACAGGTTGGCAAGCCAATGACACCTAAGCCTTCCAAGAACAGAGAAATCCCTATCAAGCAGGAGAT---------AACAGCAACTTTTGGGAA-------AGGAAATAGGAAATGATATCAAGA-AATACAATCCAAAGAGTGTTGGAA--------ATCAAGCATTCTTGATTAGTTCTTTCATCCCTTCTAAATCTTTG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60517002 236 + 108143057 TAGGAGGTATCCGGCTCGCCTACAGTTAGTTTGCCGGCTCAGCACCACGACCTGGAGAACAGCATAGGCG-GCAAG-CAGTGACAACTAGGCCTTCCGAGAATGGAGAAATTCCTATCAAGCTAGAGAT----------ACGTCAGCTTTGGGGAA-------AGGAAAGAGGAAATAATACCAAGA-GAGAGAGTACAAAGTGTGCTGGAA--------ATCAAGCACTCTTGATTAGTTCTCTCATCCCTTCCAAATCTCTG
i micMur3.chr12            I 1739 C 0
s proCoq1.NW_012155062v1     3556131 237 +  11683526 TAGGAGGTATCTGGCTCACCTACAGTTAGTTTGCCAGCTCAGCGCCAC-ACCTAGAGAACAACATAGGTGAGCAAGCCAACGACACCCAGGGCTGCCAAGAATGGAGAAATCTCTATCAAGCTAGAGAT----------ACATCAGCTTTTGGGAA-------AGGAAAGAGAAAATAATATCAAGA-CATAGAGTCCAAAGTGTATTGGAA--------ATCAAGCACTCTTGATTAGTTCTCTCATCCCTTCCAAATCTCTG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3041040 229 +   4132165 caggacatgtcttgctcaccca----tagtttgcTGGCTCAGTCCCGAGAACTGGAGAATGGCATAGGTGGGCAAGCCAATGCCACTGAGGCCTTCAAAGGATGGAGAAATCCCTATCAA-CAGGAAAT----------ACATGAACTTTGGGGAT-------GGGAAATAGGGAATGATATCGAG-----AGAGTCCAAAGAATATTGGAA--------ATTAAGAATTCTTGATTAGTTCTCTCATCCCTTCTAAATCTCTG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14889759 246 +  74389097 tagaatatatctggtgcccCTATAGTCAGTGTGCCAGCTAAGCTCCAAAACCTGGAGAACAGAATAGGTTCATAAACCAATGATATGTAAGCCTTCCAAGAATAAGAAAGCCCCCATCAAGCAGGAAAG----------ACTACAACTTTTGGGAG-------AGGAAAGAAGAAATGCTATCAAGA-GATGGAGTCCAAATAGTGTTGGAAATCAAACCATCAAACACTCTTGGTTAGTTCTCTCATCTATTCCCAACCTCTG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2600954 244 +   3667625 TAGAAAGTATCTGACTCCCATATTGGCAGTTTACTAACTCAGCCCTAAGATCTAGAATACATCATTGGCTGACAAGCCAAGGACACCTAAGCTTCCCAAGAATGGGGAAGTCCCTCTCAAGAAGAAGATTTCCATCTTACCACTCAAATTTAGAAG-------AGGAGAGAGGAAATTATACAGAAATGATAGAGGCCAAAGAGTATTAGAA--------ATAAG----TCTTTATT-GTTCCTTCCTCCCTTCCAAGTCTCTG
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55492725 274 +  90702639 I

a score=1642815.000000
s hg38.chr5_KI270796v1_alt     51112 122 +    172708 CTCCC-CAGCACTATGGCCCTG----GATAGC-TTTTTGCTTCTTCCTGGATGTAAAGTGGGAGAAGGGAATGTTGGAGTTTGGTGCCTTTCTGGGATAGTGAAAGACGGCCTGTGACC--------TTCAGGATG
s panTro5.chr5             125161182 122 + 181907262 CTCCC-CAGCACTATGGCCCTG----GATAGC-TTTTTGCTTCTTCCTGGATATAAAGTGGGAGAAGGGAATGTTGGAGTTTGGTGCCTTTCTGGGATAGTGAAAGATGGCCTGTGACC--------TTCAGGATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498130 122 + 183735486 CTCCC-CAGCACTATGGCCCTG----GATAGC-TTTTTGCTTCTTCCTGGATATAAAGTGGGAGAAGGGAATGTTGGAGTTTGGTGCCTTTCTGGGATAGTGAAAGACGGCCTGTGACC--------TTCAGGATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1689614 122 +   8933513 CTCCC-CAGCACCGTGACCCTG----GATAGC-TTTTTGCTTCTTCCTGGATGTAAAGTGGGAGAAGGGAATGCTGGAGTTTGGTGCCTTTCTGGGATAGTGAAAGACGGCCTGTGACC--------TTCAGGATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139819977 122 + 163208435 CTCCC-CAGCACTATGGGCCTG----GATAGC-TTTTTGCTTCTTCCTGGATGTAAAGTGGGAGAAGGGCATGGTGGGGTTTGGTCCCTTTCTGGGATAGTGAAAGACGGCCTGTGACC--------TTCAGGATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122804505 122 + 180051392 CCTGC-CAGTACTACAACCCTG----GATAGC-TTTTTGCTTCTTCCTGGATGTAAAGTGGGAGAAGGGTATGCTGGTGTTTGGTCCCTTTCTGGGATACGGAAAGTCTGCCTGTGACC--------TTCAGGATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228181 122 + 181584905 CCTGC-CAGTACTACAACCCTG----GATAGC-TTTTTGCTTCTTCCTGGATGTAAAGTGGGAGAAGGGTATGCTGGTGTTTGGTCCCTTTCTGGGATACGGAAAGTCTGCCTGTGACC--------TTCAGGATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16225881 122 +  18395747 CCTGC-CCGTACTACAACCCTG----GATAGC-TTTTTGCTTTTTCCTGGATGTAAAGTGGGAGAAGGGTATGCTGGGGTTTGGTCCCTTTCTGGGATACGGAAAGTCTGCCTGTGACC--------TTCAGGATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5231772 122 +  26952557 CCCGC-CAGCACTACAACCCTG----GATAGC-TTTTTGCTTCTTCCTGGATGTAAAGTGGGAGAAGGGTATGCTGGGGTTTGGTCCCTTTCTGGGATACGGAAAGTCTGCCTGTGACC--------TTCAGGATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28339865 122 +  82825804 CCCGC-CAGCACTACAACCCTG----GATAGC-TTTTTGCTTCTTCCTGGATGTAAAGTGGGAGAAGGGTATGCTGGGGTTTGGTCCCTTTCTGGGATACGGAAAGTCTACCTGTCACC--------TTCAGGATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4003684 122 -   4237731 CCCGC-CAGCACTACAACCCTG----GATAGC-TTTTTGCTTCTTCCTGGATGTAAAGTGGGAGAAGGGTATGCTGGGGTTTGGTCCCTTTCTGGGATACGGAAAGTCTGCCTGTGACC--------TTCAGGATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      277313 122 -   1175262 CCCCC-CAGCACTACAACCCCG----GATAGC-TTTTTGCTTCTTCCTGGATGTAAAGTGGGAGAAGGGTATGCTGGGGTTTGGTCCCTTTCTGGGATACGGAAAGTCTGCCTGTGACC--------TTCAGGATG
i colAng1.NW_012119644v1   I 3299 C 0
s calJac3.chr2             123613876 122 - 204313951 CTCCC-TAGCATGATGGTCCCT----GATAGC-TTTTTGCTTCTTCCTGGATGTAAAGTGGGAGAAGGGTATGCTGGGGTTTGGACCTTTTCTGGAATAGTGAAAGACTGCCTGTGACC--------TTCAGGATG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666063 122 -  71252344 CTCCC-TAGCATGATGGCCCCT----CATAGC-TTATTGCTTCTTCCTGGATGTAAAGTGAGAGAAGGGTCTGCTGGGGTTTGGGCCCTTTCTGGAATAGTGAAAGACTGCCTGTGACC--------TTCAGGATG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1363269 122 -   1400280 CTCCC-CAGCATGATGGCCCCT----GTTAGC-TTTTTGCTTCTTGCTGGATGTAAAGTGGGAGAAGGGTATGCTTGGGTTTGGACCCTTTCTGGAATAGTGAAAGACTGCCTGTGATC--------TTCAGAATG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13151850 123 -  42888418 CTCCCTTAGCATGATGGCCTCT----AATAGC-TCTTTGCTTCTTCCTGGATGTAAAGTGGGAGAAGGGTATGCTGGGGTTTGGACCCTTTCTGGAATAGTGAAAGACTGCCTGTGATC--------TTCAGGATG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60517238 126 + 108143057 CTTCC-TAGCACTGTGGCCCTGATCTAATGGG-GTTTTGCTTCTTCCTGGATGTAAAGTGGGAAAAGGGTGTGCTGGGATTTGGACACTTCCTGGGATAGTGACAGATTTCCTGTGACC--------TTCAGGATG
i micMur3.chr12            C 0 I 277
s proCoq1.NW_012155062v1     3556368 126 +  11683526 CTCCC-TAGCACTGTGGCCCTGATCTAATAGC-TTTTCGCTTCTTCCTGGATGTAAAGTGGGAAAAGGGTGTGCTGGGATTTGGACACTTTCTGGGATAGTGACAGATTTCCTGTGACC--------TTCAGGACG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3041269 126 +   4132165 CTCTC-CAGCACTGTGGCCCTGATCTGATTGC-TTTTTTCTTCTTCCCGAATACAAAGTGGGAAAAAGGTGTGCTGGACTTTGGACAATTTCTGGGATAGTGACATACTCCCTGTGACC--------TTCAGGTTG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14890005 132 +  74389097 CTCCT-TGGAACTGTGGCCCTAATCTGATGGC-TCTTTGCTTCTTCCTGAAAGTATAATGGGAGAAGGGTGTGCTAGAG-TTGGTCTCTTCCTGG-ATAGTAAAGAAGAGCCTGTGACTCTTTACCATCCAGGATA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2601198 120 +   3667625 ------AAGGATTAGGGCTTTGTTCTGATGGCATCTTGGCTTCTTCCTAGAAGTGAGTT--GAATAAGTTGTACTTGGTTTTGGATGCTTCCTAGGAAGGTAATGGATTCCCCTGGGCT--------TTCAAGATG
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55492725 274 +  90702639 I

a score=26046.000000
s hg38.chr5_KI270796v1_alt     51234 3 +    172708 -TTG
s panTro5.chr5             125161304 3 + 181907262 -TTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498252 3 + 183735486 -TTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1689736 3 +   8933513 -TTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820099 3 + 163208435 -TTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122804627 3 + 180051392 -TTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228303 3 + 181584905 -TTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16226003 3 +  18395747 -TTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5231894 3 +  26952557 -TTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28339987 3 +  82825804 -TTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4003806 3 -   4237731 -TTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      277435 3 -   1175262 -TTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123613998 3 - 204313951 -CTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666185 3 -  71252344 -CTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1363391 3 -   1400280 -CTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13151973 3 -  42888418 -CTG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3556494 3 +  11683526 -CTG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3041395 3 +   4132165 -CTA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14890137 3 +  74389097 -TCG
i canFam3.chr11            C 0 I 1874
s dasNov3.JH567306           2601318 3 +   3667625 TTT-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60517364 277 + 108143057 I
e mm10.chr18                55492725 274 +  90702639 I

a score=49725.000000
s hg38.chr5_KI270796v1_alt     51237 4 +    172708 TGTT
s panTro5.chr5             125161307 4 + 181907262 TGTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498255 4 + 183735486 TGTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1689739 4 +   8933513 TGTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820102 4 + 163208435 TGTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122804630 4 + 180051392 TGTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228306 4 + 181584905 TGTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16226006 4 +  18395747 TGTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5231897 4 +  26952557 TGTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28339990 4 +  82825804 TGTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4003809 4 -   4237731 TGTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      277438 4 -   1175262 TGTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123614001 4 - 204313951 TGTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666188 4 -  71252344 TGTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1363394 4 -   1400280 TGTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13151976 4 -  42888418 TGTT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3556497 4 +  11683526 CATT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3041398 4 +   4132165 CATT
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2601321 4 +   3667625 CCTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60517364 277 + 108143057 I
e canFam3.chr11             14890140 1874 +  74389097 I
e mm10.chr18                55492725 274 +  90702639 I

a score=334084.000000
s hg38.chr5_KI270796v1_alt     51241 23 +    172708 AGAGACAGGGATTGAATCTAATT
s panTro5.chr5             125161311 23 + 181907262 AGAGACAGGGATTGAATCTAATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498259 23 + 183735486 AGAGACAGGGATTGAATCTAATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1689743 23 +   8933513 AGAGACAGGGATTGAATCTAATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820106 21 + 163208435 AGAGA-AGGGA-TGAATCTAATT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122804634 23 + 180051392 AGAGACAGGGATTGAATCTAATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228310 23 + 181584905 AGAGACAGGGATTGAATCTAATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16226010 23 +  18395747 AGAGACAGGGATTGAATCTAATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5231901 23 +  26952557 AGAGACAGGGATTGAATCTAATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28339994 23 +  82825804 AGAGACAGGGATTGAATCTAATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4003813 23 -   4237731 AGAGACAGGGATTGAATCTAATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      277442 23 -   1175262 AGAGACAGGGATTGAATCTAATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123614005 23 - 204313951 AGAGATAGGGATTGAATCTAATT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666192 23 -  71252344 AGAGATAGGGATTGAATCTAATT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1363398 23 -   1400280 AGAGACAGGGTTTGAATCTAATT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13151980 23 -  42888418 AGAGACAGGGATTGAATCTAATT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3556501 23 +  11683526 AGAAATATGGATGGAATCTAATT
i proCoq1.NW_012155062v1   C 0 I 237
s otoGar3.GL873679           3041402 23 +   4132165 AGAAACATGAATTAAATCTAATT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14892014 23 +  74389097 AGAAATATAGATTGAATTTTATT
i canFam3.chr11            I 1874 C 0
s dasNov3.JH567306           2601325 23 +   3667625 AGAGATAGGGATAGAATCCAGTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60517364 277 + 108143057 I
e mm10.chr18                55492725 274 +  90702639 I

a score=880986.000000
s hg38.chr5_KI270796v1_alt     51264 83 +    172708 GCAAAGACATAATTTTTGAGGTTTTGGATGAAGAAGGATTTGGGGGAAAGTCCCCAAGGCAACTGGCCTGATGTGGACAGAAA
s panTro5.chr5             125161334 83 + 181907262 GCAAAGACATAATTTTTGAGGTTTTGGATGAAGAAGGATTTGGGGGAAAGTGCCCAAGGCAACTGGCCTGATGTGGACAGAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498282 83 + 183735486 GCAAAGACATAATTTTTGAGGTTTTGGATGAAGAAGGATTTGGGGGAAAGTCCCCAAGGCAACTGGCCTGATGTGGACAGAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1689766 83 +   8933513 GCAAAGACATAATTTTTGAGGTTTTGGATGAAGAAGGATTTGGGGGAAAGTCCCCAAGGCAACTGGCCTGATGTGGACAGAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820127 82 + 163208435 GCAAAGACATAATTTTTGAGGTTTTGGATGAAGAAGGATTTGGGGGAAAGTCCCCAAGGCAACTGGCTTGATGTAAACAG-AA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122804657 76 + 180051392 GCAAAGACATAATTTTTGAGGTTTTGGATGAAGAAGGAGTTGGGGGAAAGTCCCCAA-------GGCCTGATGTAGACAGAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228333 76 + 181584905 GCAAAGACATAATTTTTGAGGTTTTGGATGAAGAAGGAGTTGGGGGAAAGTCCCCAA-------GGCCTGATGTAGACAGAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16226033 76 +  18395747 GCAAAGACATAATTTTTGAGGTTTTGGATGAAGAAGGAGTTGGGGGAAAGTCCCCAA-------GGCCTGATGTAGACAGAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5231924 76 +  26952557 GCAAAGACATAATTTTTGAGGTTTTGGATGAAGAAGGAGTTGGGGGAAAGTCCCCAA-------GGCCTGATGTAGACAGAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28340017 76 +  82825804 GCAAAGACATAATTTTTGAGGTTTTGGATGAAGAAGGAGTTGGGGGAAAGTCCCCAA-------GGCCTGATGTAGACAGAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4003836 76 -   4237731 GCAAAGACATAATTTTTGAGGTTTTGGATGAAGAAGGAGTTGGGGGAAGGTCCCCAA-------GGTCTGATGTAGACAGAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      277465 76 -   1175262 GCAAAGACATAATTTTTGAGGTTTTGGATGAAGAGGGATTTGGGGGAAAGTCCCCAA-------GGCCTGATGTAGACAGAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123614028 83 - 204313951 GCAAAGACATAATTTTGGAGATACTGAATGAAGAAGGATTTCAGGGAAAGTCCCCAAGGTGACTGGCCTGATGTAGACAGAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666215 82 -  71252344 GCAATGACATAATTTTGGAGACATTGAATGAAGAAGGATTTC-GGGGAAGTCCCCAAGGTGACTGGTCTGATGTAGACAGAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1363421 83 -   1400280 GCAAAGACATAATTTTGGAGATATTGAATGAAGAAGGATTTCGGGGAAAGTCCCCAAGGCGATTGGCCTGATGTAGACAGAAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152003 83 -  42888418 GCAAAGACATCATTTTGGAGATACTGAATGAAGAAGGATTTTGGGGAAAGTCCCCAAGGCATCTGGCCTGATGTAGACAGAAA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3041425 83 +   4132165 TCAAAGACATCATTATTGGCCTTTTGCATGAAAAGAAATTAGGGGGATAGCTTTCAAGAAAATCTGCCTGGTGAAAAGAGAAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14892037 78 +  74389097 GGAAAGACATCATTTTGGGCTTTGGGGATGAAAAGGGA----GGAGAAAGCTCCCAAGGCAATCAGCCCATTGAAGA-AGAAA
i canFam3.chr11            C 0 I 201
s dasNov3.JH567306           2601348 83 +   3667625 GCAAAGGCATCCTTTTTGGTGTTTTTGATCGTAGAGAGATTAGGGGAAAGCCTCCAAGACAACTGGCCTAATGATGAGAGAAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60517364 277 + 108143057 I
e proCoq1.NW_012155062v1     3556524 237 +  11683526 I
e mm10.chr18                55492725 274 +  90702639 I

a score=79300.000000
s hg38.chr5_KI270796v1_alt     51347 7 +    172708 CCATTTT
s panTro5.chr5             125161417 7 + 181907262 CCATTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498365 7 + 183735486 CCATTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1689849 7 +   8933513 CCATTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820209 7 + 163208435 CCATTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122804733 7 + 180051392 CCATTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228409 7 + 181584905 CCATTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16226109 7 +  18395747 CCATTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5232000 7 +  26952557 CCATTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28340093 7 +  82825804 CCATTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4003912 7 -   4237731 CCATTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      277541 7 -   1175262 CCATTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123614111 7 - 204313951 CCATTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666297 7 -  71252344 CCATTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1363504 7 -   1400280 CCATTTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152086 7 -  42888418 CCATTTA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3041508 7 +   4132165 CAATTTA
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2601431 7 +   3667625 CAATTCA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60517364 277 + 108143057 I
e canFam3.chr11             14892115 201 +  74389097 I
e proCoq1.NW_012155062v1     3556524 237 +  11683526 I
e mm10.chr18                55492725 274 +  90702639 I

a score=492981.000000
s hg38.chr5_KI270796v1_alt     51354 41 +    172708 AAAAGCACCTCTCTTCAAGCACATGCGCTCATTGGGGC--------TCT
s panTro5.chr5             125161424 41 + 181907262 AAAAGCACCTCTCTTCAAGCACATGCGCTCATTGGGGC--------CCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498372 41 + 183735486 AAAAGCACCTCTCTTCAAGCACATGCGCTCATTGGGGC--------CCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1689856 41 +   8933513 AAAAGCAACTTTCTTCAAGCACATGCACTCAGTGGGGC--------CCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820216 41 + 163208435 AAAAGCACCTCTCTTCAAGCACATGCACTCTGTGGGGC--------TCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122804740 41 + 180051392 AAAAGCACCTCTCTTCAAGCACATGCACTCAGTGAGGC--------CCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228416 41 + 181584905 AAAAGCACCTCTCTTCAAGCACATGCACTCAGTGAGGC--------CCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16226116 41 +  18395747 AAAAGCACCTCTCTTCAAGCACATGCACTCAGTGAGGC--------CCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5232007 41 +  26952557 AAAAGCACCTCTCTTCAAGCACATGCACTCAGTGAGGC--------CCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28340100 41 +  82825804 AAAAGCACCTCTCTTCAAGCACAGGCACTCAGTGAGGC--------CCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4003919 41 -   4237731 AAAAGCACCTCTCTTCAAGCACATGCACTCAGTGAGGC--------CCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      277548 41 -   1175262 AAAAGCACCTCTCTTCAAGCACATGCACTCAGTGAGGC--------CCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123614118 41 - 204313951 AAAAGCACCTATCTTCAAGCACATGCAATCAGTGGTGC--------CCT
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55666304 41 -  71252344 AAAAGCACCTCTCTTCAAGCACATGCAATCAGTGGTGC--------CCT
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107829v1     1363511 41 -   1400280 AAAAGCACCTCTCTTCAGGCACATGCAATCAGTGGTGC--------CCT
i cebCap1.NW_016107829v1   C 0 I 178
s aotNan1.NW_018505940v1    13152093 41 -  42888418 AAAAGCACCTATCTTCAAGCACATGCAATCAGTGGTGC--------CCT
i aotNan1.NW_018505940v1   C 0 I 1
s otoGar3.GL873679           3041515 41 +   4132165 AGAATCACCCCTCTTTAAAGGCATGCACTCAGTGGGGC--------CAT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14892316 41 +  74389097 AGAATGACTCCTCTCCAAGCCAATTCACTCTGTGGGAC--------CAG
i canFam3.chr11            I 201 I 10
s dasNov3.JH567306           2601438 49 +   3667625 GGAATCAGCACTCTCCAAGCACTTGCACTCAGTGAGGCAGGACAGGCAT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60517364 277 + 108143057 I
e proCoq1.NW_012155062v1     3556524 237 +  11683526 I
e mm10.chr18                55492725 274 +  90702639 I

a score=640790.000000
s hg38.chr5_KI270796v1_alt     51395 76 +    172708 --GG-GA-AGGGTGAGGGATCAGGT--TACATTGCTCAGACTAAACCAGCCATCTTAACTACACGT--CAGTAGTTGGAGa-tat
s panTro5.chr5             125161465 72 + 181907262 --GG-GA-AGGGTGAGGGATCAGGT--TACATTGCTTAGACTAAACCAGCCATCTTAACTACACGT--CAGTAGTTGGAG-----
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498413 72 + 183735486 --GG-GA-AGGGTGAGGGATCAGGT--TACATTGCTTAGACTAAACCAGCCATCTTAACTACACGT--CAGTAGTTGGAG-----
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1689897 76 +   8933513 --GG-GA-AGGGTGAGGGATCAGGT--TACATTGCTTGGACTAAACCAGCCATCTTAACTACGCGT--CAGTAGTTGGAGa-tat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820257 75 + 163208435 --GGAGA-AGGGTGAGGGATCAGGT--TACATTGCTTGGACTAAAC--GTCATCTTAAGTACACGT--CAGTAGTTGGAGa-tat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122804781 77 + 180051392 --GGAGA-AGGGTGAGGGATTAGGT--TACATTGCCTGGACTAAACCAGCCATCTTAACTACACGT--CAGTGGTTGGAGA-TAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228457 77 + 181584905 --GGAGA-AGGGTGAGGGATTAGGT--TACATTGCCTGGACTAAACCAGCCATCTTAACTACACGT--CAGTGGTTGGAGa-tat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16226157 77 +  18395747 --GGAGA-AGGGTGAGGGATTAGGT--TACATTGCCTGGACTAAACCAGCCATCTTAACTACATGT--CAGTGGTTGGAGA-TAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5232048 77 +  26952557 --GGAGA-AGGGTGAGGGATTAGGT--TACATTGCCTGGACTAAACCAGCCATCTTAACTACACGT--CAGTAGTTGGAGA-TAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28340141 77 +  82825804 --GGAGA-AGGGTGAGGGATTAGGT--TACATTGCCTGGACTAAACCAGCCATCTTAACTACACGT--CAGTAGTTGGAGa-tat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4003960 77 -   4237731 --GGAGA-AGGGTGAGGGATTAGGT--TACATTGCCTGGACTAAACCAGCCATCTTAACTACACGT--CAGTGGTTGGAGA-TAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      277589 77 -   1175262 --GGAGA-AGGGTGAGGGATTAGGT--TACATTGCCTGGACTAAACCAGCCATCTTAACTACACGT--CAGTAGTTGGAGA-TAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123614160 68 - 204313951 ---GAGA-AGGGTGAGGGGTTAGTT--CACATTGCCTGGAGTAAACCATCCATCTTAACTACACAT--CAatata---------t
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55666346 76 -  71252344 ---GAGA-AGGGTGAGGGATTAGTT--CACATTGCCTGGACTAAACCAACCATCTTAACTACACAT--CAAtatctatcta-ttt
i saiBol1.JH378106         I 1 C 0
s aotNan1.NW_018505940v1    13152135 76 -  42888418 ---GAGA-AGGGTGAAGGATTAGTT--CACATTGCCCGGACTAAACCAGCCATCTTAACTGCACAT--CAatatatatcta-tat
i aotNan1.NW_018505940v1   I 1 C 0
s otoGar3.GL873679           3041556 77 +   4132165 ----AGAGAGGGTGAGCAATTAGGCTATATATTGTCTTGACT--ATCAGCCATCTTAACTACATAT--TAGTGGGTTGAAATTAT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14892367 71 +  74389097 ---GAGA-TGGACAAAGGATTCAAT--TACATTGCCTGGACTAAGTCAGCCAGCTTAACCACACATGCTAACAGTTA--------
i canFam3.chr11            I 10 C 0
s dasNov3.JH567306           2601487 65 +   3667625 GGAGAGA-GGGGTGAGGGGTAAAGT--TA-ATTACCTGGACTAATTCAGCTAGCTCAACTACATGT-------GTT---------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60517364 277 + 108143057 I
e proCoq1.NW_012155062v1     3556524 237 +  11683526 I
e cebCap1.NW_016107829v1     1363552 178 -   1400280 I
e mm10.chr18                55492725 274 +  90702639 I

a score=32528.000000
s hg38.chr5_KI270796v1_alt     51471 6 +    172708 atatat
s panTro5.chr5             125161537 2 + 181907262 ----at
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498485 2 + 183735486 ----at
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1689973 6 +   8933513 atatat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820332 6 + 163208435 atatat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122804858 6 + 180051392 ATATAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228534 6 + 181584905 atatat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16226234 6 +  18395747 ATATAT
i macNem1.NW_012012355v1   C 0 I 3
s chlSab2.chr23             28340218 6 +  82825804 atatat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4004037 6 -   4237731 ATATAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      277666 6 -   1175262 ATATAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123614228 6 - 204313951 aactat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666422 6 -  71252344 atctat
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13152211 6 -  42888418 atctat
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3041633 6 +   4132165 ATATAC
i otoGar3.GL873679         C 0 I 15
e micMur3.chr12             60517364 277 + 108143057 I
e canFam3.chr11             14892438 0 +  74389097 C
e proCoq1.NW_012155062v1     3556524 237 +  11683526 I
e cerAty1.NW_012002512v1     5232125 0 +  26952557 C
e cebCap1.NW_016107829v1     1363552 178 -   1400280 I
e dasNov3.JH567306           2601552 0 +   3667625 C
e mm10.chr18                55492725 274 +  90702639 I

a score=10295.000000
s hg38.chr5_KI270796v1_alt     51477 2 +    172708 at
s panTro5.chr5             125161539 2 + 181907262 at
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498487 2 + 183735486 at
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1689979 2 +   8933513 at
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820338 2 + 163208435 at
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124228540 2 + 181584905 at
i macFas5.chr6             C 0 C 0
s chlSab2.chr23             28340224 2 +  82825804 at
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4004043 2 -   4237731 AT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      277672 2 -   1175262 AT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123614234 2 - 204313951 gt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666428 2 -  71252344 tt
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13152217 2 -  42888418 at
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3041654 2 +   4132165 AT
i otoGar3.GL873679         I 15 C 0
e micMur3.chr12             60517364 277 + 108143057 I
e canFam3.chr11             14892438 0 +  74389097 C
e proCoq1.NW_012155062v1     3556524 237 +  11683526 I
e cerAty1.NW_012002512v1     5232125 0 +  26952557 C
e macNem1.NW_012012355v1    16226240 3 +  18395747 I
e rheMac8.chr6             122804864 0 + 180051392 C
e cebCap1.NW_016107829v1     1363552 178 -   1400280 I
e dasNov3.JH567306           2601552 0 +   3667625 C
e mm10.chr18                55492725 274 +  90702639 I

a score=3580.000000
s hg38.chr5_KI270796v1_alt     51479 2 +    172708 at
s panTro5.chr5             125161541 2 + 181907262 at
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498489 2 + 183735486 at
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1689981 2 +   8933513 at
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820340 2 + 163208435 at
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124228542 2 + 181584905 at
i macFas5.chr6             C 0 C 0
s chlSab2.chr23             28340226 2 +  82825804 at
i chlSab2.chr23            C 0 C 0
s calJac3.chr2             123614236 2 - 204313951 at
i calJac3.chr2             C 0 I 2
s saiBol1.JH378106          55666430 2 -  71252344 at
i saiBol1.JH378106         C 0 I 2
s aotNan1.NW_018505940v1    13152219 1 -  42888418 a-
i aotNan1.NW_018505940v1   C 0 I 1
s otoGar3.GL873679           3041656 2 +   4132165 GT
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60517364 277 + 108143057 I
e canFam3.chr11             14892438 0 +  74389097 C
e proCoq1.NW_012155062v1     3556524 237 +  11683526 I
e manLeu1.NW_012103321v1     4004045 0 -   4237731 C
e cerAty1.NW_012002512v1     5232125 0 +  26952557 C
e macNem1.NW_012012355v1    16226240 3 +  18395747 I
e rheMac8.chr6             122804864 0 + 180051392 C
e cebCap1.NW_016107829v1     1363552 178 -   1400280 I
e dasNov3.JH567306           2601552 0 +   3667625 C
e mm10.chr18                55492725 274 +  90702639 I
e colAng1.NW_012119644v1      277674 0 -   1175262 C

a score=9014.000000
s hg38.chr5_KI270796v1_alt     51481 3 +    172708 ata
s panTro5.chr5             125161543 3 + 181907262 ata
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498491 3 + 183735486 ata
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1689983 3 +   8933513 ata
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820342 3 + 163208435 ata
i nomLeu3.chr2             C 0 C 0
s chlSab2.chr23             28340228 3 +  82825804 ata
i chlSab2.chr23            C 0 I 1
s calJac3.chr2             123614240 3 - 204313951 atc
i calJac3.chr2             I 2 C 0
s saiBol1.JH378106          55666434 3 -  71252344 atc
i saiBol1.JH378106         I 2 C 0
s aotNan1.NW_018505940v1    13152221 3 -  42888418 ata
i aotNan1.NW_018505940v1   I 1 C 0
s otoGar3.GL873679           3041658 3 +   4132165 ATA
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60517364 277 + 108143057 I
e canFam3.chr11             14892438 0 +  74389097 C
e proCoq1.NW_012155062v1     3556524 237 +  11683526 I
e manLeu1.NW_012103321v1     4004045 0 -   4237731 C
e cerAty1.NW_012002512v1     5232125 0 +  26952557 C
e macNem1.NW_012012355v1    16226240 3 +  18395747 I
e macFas5.chr6             124228544 0 + 181584905 C
e rheMac8.chr6             122804864 0 + 180051392 C
e cebCap1.NW_016107829v1     1363552 178 -   1400280 I
e dasNov3.JH567306           2601552 0 +   3667625 C
e mm10.chr18                55492725 274 +  90702639 I
e colAng1.NW_012119644v1      277674 0 -   1175262 C

a score=-9208.000000
s hg38.chr5_KI270796v1_alt     51484  5 +    172708 tat--------------------------------------------------------------------at
s panTro5.chr5             125161546  5 + 181907262 tat--------------------------------------------------------------------gt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498494  5 + 183735486 tat--------------------------------------------------------------------gt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1689986  5 +   8933513 tgt--------------------------------------------------------------------at
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820345 73 + 163208435 tatatatatatGGAGTTGGAGATTATATAGTAGTTGGAGAGatatatatacatatatatatggagttggagat
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614243  5 - 204313951 tat--------------------------------------------------------------------at
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666437  5 -  71252344 tat--------------------------------------------------------------------ct
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13152224  5 -  42888418 tat--------------------------------------------------------------------ct
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3041661  5 +   4132165 TAC--------------------------------------------------------------------AT
i otoGar3.GL873679         C 0 I 216
e micMur3.chr12             60517364 277 + 108143057 I
e canFam3.chr11             14892438  0 +  74389097 C
e proCoq1.NW_012155062v1     3556524 237 +  11683526 I
e manLeu1.NW_012103321v1     4004045  0 -   4237731 C
e chlSab2.chr23             28340231  1 +  82825804 I
e cerAty1.NW_012002512v1     5232125  0 +  26952557 C
e macNem1.NW_012012355v1    16226240  3 +  18395747 I
e macFas5.chr6             124228544  0 + 181584905 C
e rheMac8.chr6             122804864  0 + 180051392 C
e cebCap1.NW_016107829v1     1363552 178 -   1400280 I
e dasNov3.JH567306           2601552  0 +   3667625 C
e mm10.chr18                55492725 274 +  90702639 I
e colAng1.NW_012119644v1      277674  0 -   1175262 C

a score=15108.000000
s hg38.chr5_KI270796v1_alt     51489 31 +    172708 atgtg------------------tatatacacatctccaa---------------------atacacgca
s panTro5.chr5             125161551 31 + 181907262 gtgta------------------tatatacacatctccaa---------------------atacacgca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498499 31 + 183735486 gtgta------------------tatatacacatctccaa---------------------atacacgca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1689991 31 +   8933513 atatg------------------tatatacacatctccaa---------------------atacacaca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820418 52 + 163208435 atgtg------------------tatatatatatatatagtagttggagatatatatatatatatacaca
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614248 43 - 204313951 atgtctccaactatcta------tatatatatatctccaa---------------------ctatatata
i calJac3.chr2             C 0 I 4
s saiBol1.JH378106          55666442 49 -  71252344 atatctccaactatctatctatctatctatatatctCCAA---------------------CTatatata
i saiBol1.JH378106         C 0 I 4
s aotNan1.NW_018505940v1    13152229 41 -  42888418 atatctccaactatc--------tatatatatacctccaa---------------------ctatatata
i aotNan1.NW_018505940v1   C 0 I 10
s canFam3.chr11             14892438 13 +  74389097 ---TG------------------TATATACTCAT------------------------------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2601552 10 +   3667625 ---------------------------------------A---------------------ATAGCTGTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60517364 277 + 108143057 I
e proCoq1.NW_012155062v1     3556524 237 +  11683526 I
e manLeu1.NW_012103321v1     4004045  0 -   4237731 C
e chlSab2.chr23             28340231  1 +  82825804 I
e cerAty1.NW_012002512v1     5232125  0 +  26952557 C
e macNem1.NW_012012355v1    16226240  3 +  18395747 I
e macFas5.chr6             124228544  0 + 181584905 C
e rheMac8.chr6             122804864  0 + 180051392 C
e otoGar3.GL873679           3041666 216 +   4132165 I
e cebCap1.NW_016107829v1     1363552 178 -   1400280 I
e mm10.chr18                55492725 274 +  90702639 I
e colAng1.NW_012119644v1      277674  0 -   1175262 C

a score=49566.000000
s hg38.chr5_KI270796v1_alt     51520 30 +    172708 cacacac----ac--------acacacacaca----------------------t-atacatata--
s panTro5.chr5             125161582 46 + 181907262 cacacac----ac--------acacacacaca------cacatatacatatactt-atacatata--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498530 52 + 183735486 cacacac----ac--------acacacacatatacatatacatatacatatacat-atacatata--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690022 34 +   8933513 cacacac----ac--------acacacacata------------------tacat-atacatata--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820470 55 + 163208435 cacacac----acccctccaaatacacacaca------cacatatacatatacataatacatata--
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614295 34 - 204313951 tatatatgcaaat--------acacacacaca----------------------t-atacatata--
i calJac3.chr2             I 4 C 0
s saiBol1.JH378106          55666495 30 -  71252344 caaatat----aa--------acacatataca----------------------t-atacatata--
i saiBol1.JH378106         I 4 C 0
s cebCap1.NW_016107829v1     1363730 30 -   1400280 caaatac----gc--------acacatataca----------------------t-atacatata--
i cebCap1.NW_016107829v1   I 178 C 0
s aotNan1.NW_018505940v1    13152280 30 -  42888418 caaatac----ac--------acacacacaca----------------------t-atatatata--
i aotNan1.NW_018505940v1   I 10 C 0
s dasNov3.JH567306           2601562 29 +   3667625 ----TAC----AC--------ACACACACACA---------------------CT-TTGTTTCTCTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60517364 277 + 108143057 I
e canFam3.chr11             14892451  0 +  74389097 C
e proCoq1.NW_012155062v1     3556524 237 +  11683526 I
e manLeu1.NW_012103321v1     4004045  0 -   4237731 C
e chlSab2.chr23             28340231  1 +  82825804 I
e cerAty1.NW_012002512v1     5232125  0 +  26952557 C
e macNem1.NW_012012355v1    16226240  3 +  18395747 I
e macFas5.chr6             124228544  0 + 181584905 C
e rheMac8.chr6             122804864  0 + 180051392 C
e otoGar3.GL873679           3041666 216 +   4132165 I
e mm10.chr18                55492725 274 +  90702639 I
e colAng1.NW_012119644v1      277674  0 -   1175262 C

a score=11410.000000
s hg38.chr5_KI270796v1_alt     51550 4 +    172708 tgca
s panTro5.chr5             125161628 4 + 181907262 tGCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498582 4 + 183735486 TGCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690056 4 +   8933513 AGCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820525 4 + 163208435 tGCA
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614329 4 - 204313951 tata
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666525 4 -  71252344 TGCa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1363760 4 -   1400280 tGCA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152310 4 -  42888418 tGCA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3556761 4 +  11683526 TGCA
i proCoq1.NW_012155062v1   I 237 C 0
s otoGar3.GL873679           3041882 2 +   4132165 TG--
i otoGar3.GL873679         I 216 C 0
s canFam3.chr11             14892451 1 +  74389097 ---A
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2601591 4 +   3667625 TGTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60517364 277 + 108143057 I
e manLeu1.NW_012103321v1     4004045 0 -   4237731 C
e chlSab2.chr23             28340231 1 +  82825804 I
e cerAty1.NW_012002512v1     5232125 0 +  26952557 C
e macNem1.NW_012012355v1    16226240 3 +  18395747 I
e macFas5.chr6             124228544 0 + 181584905 C
e rheMac8.chr6             122804864 0 + 180051392 C
e mm10.chr18                55492725 274 +  90702639 I
e colAng1.NW_012119644v1      277674 0 -   1175262 C

a score=662436.000000
s hg38.chr5_KI270796v1_alt     51554 136 +    172708 tG-------------------------------------------------AAAATTAACTATGAAATAGGTTTAATAGAGACCCTTGGGAaatcatagccaaaattgatgcggca---tttactataggctctaaggtcttttgcatg---tattaactcatttaaatttcactatagccctaaggggtt
s panTro5.chr5             125161632 136 + 181907262 TG-------------------------------------------------AAAATTAACTATGAAATAGGTTTAATAGAGACCCTTGGGAaatcatagccaaaattgatgcggca---tttactataggttctaaggtctgttgcatg---tattaactcatttaaatttcactatagccctaagcggtt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498586 136 + 183735486 TG-------------------------------------------------AAAATTAACTATGAAATAGGTTTAATAGAGACCCTTGGGAaatcatagccaaaattgatgcggca---tttactataggttctaaggtctgttgcatg---tattaactcatttaaatttcactatagccctaaggggtt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690060 135 +   8933513 TG-------------------------------------------------AAAATTAACTATGAAATAGGTTTAATAGAGACCCTT-GGAaatcatagccaaaattgatgcagca---tttactacaggttctaaggtcttttgcatg---tattaactcatttaaatttcactatagccctaaggggtt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820529 136 + 163208435 TG-------------------------------------------------GAAATTAACTATGAAATAGGTTTAATTGAGACCCTTGGGAaatcatagccaaaatcgatgcggca---tttactataggttctaaggtcttttgcatg---tattaactcatttaaatttcactatagccctaagggatt
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614333 136 - 204313951 tg---------------------------------------------tatGAAAAT----TATGAAATAGGTTTAATAGAGACCCTTGAGAaattatagccaacactgatatggca---tttactataggttctaaggtcttttgaatg---tattaactcatttaaatttcactatagccctaaggggtt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666529 179 -  71252344 tgaaaattatgaataattttgaaaaattatgaaaatatgaatttaattatgaaaat----tatgaaaaa--tttaataGAGACCCTTGAGAAAACataaacaacactgatatggca---tttactataggttctaaagtcttttgcatg---tattaactcttttaaatttccctatagcccaaaggggtt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1363764 132 -   1400280 TG-------------------------------------------------AACAT----GATGAAATAGGTTTAATAGAGACCCTTGAGAAAACatagccaacactgacagggca---tttactataggttctgaggtcttttgcatg---tattaactcatttaaatttcactatagccctaaggggtt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152314 132 -  42888418 TG-------------------------------------------------AAAAT----TATGAAATAGGTTTAATAGAGACCCTTGAGAAAACatagccaacactgatgtggca---tttactataggttctaaggtcttttgcctg---tattaactcatttaaatttcactatagccctaaggggtt
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60517641 136 + 108143057 TG-------------------------------------------------AAAGTTCACTATGAAATAGCTTTAATGGAGACTCTTGGGAAACCATAGGCAACAC--TTACGCCATC-TTTACTATAtgtcctaaggtcttttgcata---tattaactcattgaaatttcatcatagccctaggggtta
i micMur3.chr12            I 277 C 0
s proCoq1.NW_012155062v1     3556765 137 +  11683526 TG-------------------------------------------------AAAGTTAACTATGAAATACTTTTAATGGAGACTGTTGGGAaatcatagccaacac--ttatgccatcatttactatatgttctaaggtcttttgcaca---tattaactcattgaaattgcatcatagccccaggggtta
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3041884 138 +   4132165 TA-------------------------------------------------AAAGTTAATTATAAAAGAGTATTAATGGAGGGTCTTGGGATATTCTTGCCAGCACTTTTATGGCA---TTTACAATATGTCCTAAGGTCTCTTGCATATATTATTAACTCACTGAAATTTCATCATCACCCTAAGGCAT-
i otoGar3.GL873679         C 0 I 315
s canFam3.chr11             14892452 133 +  74389097 TT-------------------------------------------------GCAGTTAACTATGAAATTAGTTCAATGGAATGTTCTTGGAAAATTTAGGCAA-ACTTACATGgca---tttattatatgctccacgctcttttg-ata---tattaacccatttaattttcaacacaattctaaaggta-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2601595 136 +   3667625 TG-------------------------------------------------GAAATTAACTATGAAATAGCATTAATCGAGACCCTTGGGAaattataaccaacattttaaaaaca---tttaccgtgtgttgtaagtgcatttccata---tactaactcatttcattctcgccgtaatcctcagggaca
i dasNov3.JH567306         C 0 C 0
e manLeu1.NW_012103321v1     4004045   0 -   4237731 C
e chlSab2.chr23             28340231   1 +  82825804 I
e cerAty1.NW_012002512v1     5232125   0 +  26952557 C
e macNem1.NW_012012355v1    16226240   3 +  18395747 I
e macFas5.chr6             124228544   0 + 181584905 C
e rheMac8.chr6             122804864   0 + 180051392 C
e mm10.chr18                55492725 274 +  90702639 I
e colAng1.NW_012119644v1      277674   0 -   1175262 C

a score=527534.000000
s hg38.chr5_KI270796v1_alt     51690  92 +    172708 ggtggtatttttata---------ctcctttt---tccaggtga------------------------------------------------aaatactgatgaaaagagaaattaatcacttgcccatggtcacacagccaacaaacaggg
s panTro5.chr5             125161768  91 + 181907262 ggtggtatttttata---------ctcctttt---tccaggtga------------------------------------------------aaatactgatgaaaagagaaattaatcac-tgcccatggtcacacagccaacaaacaggg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498722  92 + 183735486 ggtggtatttttata---------ctcctttt---tccaggtga------------------------------------------------aaatactgatgaaaagagaaattaatcacttgcccatggtcacacagccaacaaacaggg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690195  92 +   8933513 ggtggtatttttata---------ctcctttt---tccaggtga------------------------------------------------aaatactgatgaaaagagaaattaatcacttgcccatggtcacacagccaacaaacaggg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820665 140 + 163208435 ggtagtatttttata---------ctcatttt---tccaggtgaaaatactgatgaaaagagaaattaatcgcttgcccatggtcacTgatgaaatactgatgaaaagagaaattaatcacttgcccatggtcacacagccaacaaacaggg
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614469  87 - 204313951 ggaggtatttttata---------ctcctttt---ttcaggtga------------------------------------------------aaatactgat-----gaaaaattaatcgtttgcccatggtcgcacagccaacaaacaggg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666708  89 -  71252344 ggagttatttttata---------ctcctttc---ttcaggtga------------------------------------------------aaatactgacaaaaagaaaaattaatcacttgcccatggtcgcacagc---caagcaagg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1363896  92 -   1400280 ggaggtatttttata---------ctcctttc---ttcaggtga------------------------------------------------aaatactgatgaaaagaaaaattaattacttgctcatggttgcacagccaacaagcaggg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152446  92 -  42888418 ggaggtatttttata---------ctcctatt---ttcaggtga------------------------------------------------aaatactgatgaaaagaaaaattaatcacttgcccatggtcacacagccaacaaacaggg
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60517777  91 + 108143057 ggtagtattttaata---------ctctttt----ttcaggtga------------------------------------------------gaaaactggtgaaaagaaaaattaatcacttgctcatgatcacacagccaacaaacaggc
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3556902  91 +  11683526 ggtagtattttaata---------ctctttt----ttcaggtga------------------------------------------------gaaaactgatgaaaagagaaattaatcacttgcccatgctcacacagccaacaaacaggg
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3042337  95 +   4132165 ggtagtatttttata---------ctccttttttgttcaggtga------------------------------------------------gaaaattgatgaaaagagaaattaatcactttctgatgttcacatagtcaacaaaagggg
i otoGar3.GL873679         I 315 C 0
s canFam3.chr11             14892585  91 +  74389097 ggcactatttttgta---------ctccttt----tacagttaa------------------------------------------------ggcaaatgaggaagtgagaaattaatcatttgcccacaatcagccagccaacaaacaggg
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2601731 101 +   3667625 ggtagtatttttatacaacttttccttttttt---ttcagttga------------------------------------------------ggagcctgaggacaagagaagttaatcccttgcccacagtcacacaggcaatgcacagag
i dasNov3.JH567306         C 0 C 0
e manLeu1.NW_012103321v1     4004045   0 -   4237731 C
e chlSab2.chr23             28340231   1 +  82825804 I
e cerAty1.NW_012002512v1     5232125   0 +  26952557 C
e macNem1.NW_012012355v1    16226240   3 +  18395747 I
e macFas5.chr6             124228544   0 + 181584905 C
e rheMac8.chr6             122804864   0 + 180051392 C
e mm10.chr18                55492725 274 +  90702639 I
e colAng1.NW_012119644v1      277674   0 -   1175262 C

a score=265315.000000
s hg38.chr5_KI270796v1_alt     51782 39 +    172708 aacccagaaaagccaggcag---gttggctgcaaagtctggg
s panTro5.chr5             125161859 39 + 181907262 aacccagaaaacccaggcag---gttggctgcaaagtctggg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498814 39 + 183735486 aacccagaaaacccaggcag---gttggctgcaaagtctggg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690287 39 +   8933513 aacccagaaaacccaggcag---gttggctgcaaagtctggg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820805 39 + 163208435 aacccagaaaacccaggcag---gttggctacaaagtctggg
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614556 39 - 204313951 aaacctgaaaacccaggcag---gttggctgcaaaatctggg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666797 39 -  71252344 aaccccgaaaacccaggcag---gttggctgcaaagtctggg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1363988 39 -   1400280 aaccccgaaaacccaggcag---tttggctgcaaagtctggg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152538 39 -  42888418 aacgcagaaaacccaggcag---gttggctgcaaagtctggg
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60517868 39 + 108143057 aacacagaagacccaggcag---gctggttgcaaagtttggg
i micMur3.chr12            C 0 I 224
s proCoq1.NW_012155062v1     3556993 39 +  11683526 aacatagaagacctaggcag---gctggctgcaaagtttggg
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3042432 39 +   4132165 aaaccagaagacccaggcag---gctggctgcaaagtctgga
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55492999 39 +  90702639 AACCCATAAATGCCATGAAG---GCTGTAGGTACTGGCTGGC
i mm10.chr18               I 274 I 3
s canFam3.chr11             14892677 39 +  74389097 aacccaggagaccaagggag---gttggctgcagagttggag
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2601832 42 +   3667625 aactgaagggacccaggcagccttctgactgcaaagcctggg
i dasNov3.JH567306         C 0 C 0
e manLeu1.NW_012103321v1     4004045  0 -   4237731 C
e chlSab2.chr23             28340231  1 +  82825804 I
e cerAty1.NW_012002512v1     5232125  0 +  26952557 C
e macNem1.NW_012012355v1    16226240  3 +  18395747 I
e macFas5.chr6             124228544  0 + 181584905 C
e rheMac8.chr6             122804864  0 + 180051392 C
e colAng1.NW_012119644v1      277674  0 -   1175262 C

a score=127311.000000
s hg38.chr5_KI270796v1_alt     51821 25 +    172708 tccataac----taGATGATTTATCTGTA
s panTro5.chr5             125161898 25 + 181907262 tccataac----taGATGATTTATCTGTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498853 25 + 183735486 tccataac----taGATGATTTATCTGTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690326 25 +   8933513 tccataac----taGATGATTTATCTGTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820844 25 + 163208435 tccgtaac----taGATGATTTATCTGTA
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614595 25 - 204313951 ttcttaac----GAGGTGATTTATCTGTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666836 25 -  71252344 tccttaac----taGGTGATTTATCTGTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364027 25 -   1400280 tccttaac----taGGTGATTCATCTGTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152577 25 -  42888418 tccttaac----taGGTGATTTATCTGTA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3557032 29 +  11683526 gcctcaaccTTACAGATGACTTATCTGTA
i proCoq1.NW_012155062v1   C 0 I 42
s otoGar3.GL873679           3042471 25 +   4132165 gcctcaac----taGATGAATTATCTGTG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55493041 25 +  90702639 ACAGTACC----TAGACCAGTTCATTGCC
i mm10.chr18               I 3 I 12
s canFam3.chr11             14892716 25 +  74389097 accttcac----caGATGATTTATTGGAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2601874 25 +   3667625 accttaac----taGATGATTTCTCTGTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60517907 224 + 108143057 I
e manLeu1.NW_012103321v1     4004045  0 -   4237731 C
e chlSab2.chr23             28340231  1 +  82825804 I
e cerAty1.NW_012002512v1     5232125  0 +  26952557 C
e macNem1.NW_012012355v1    16226240  3 +  18395747 I
e macFas5.chr6             124228544  0 + 181584905 C
e rheMac8.chr6             122804864  0 + 180051392 C
e colAng1.NW_012119644v1      277674  0 -   1175262 C

a score=203084.000000
s hg38.chr5_KI270796v1_alt     51846 48 +    172708 AGAGTGTATCTGTCTTTTCCCCGTCGATTTACTTAAGTTGTAAAATAA
s panTro5.chr5             125161923 48 + 181907262 AGAGTGTATCTGTCTTTTCCCCGTCGATTTACTTAAGTTGTAAAATAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498878 48 + 183735486 AGAGTGTATCTGTCTTTTCCCCGTCGATTTACTTAAGTTGTAAAATAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690351 48 +   8933513 AGAGTGTATCTATCTTTTCCCTGTCGATTTACGTAAGTTGTAGAATAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820869 48 + 163208435 AGAGTATATCGATCTTTTCCCTGTCGATTTACTTAAGTTGTAAAATAA
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614620 47 - 204313951 AGAGCATATCTATCTTTTCCTTGTCGATTTACTGAAGTTGTAAAAT-A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666861 43 -  71252344 AGAGCA----TATCTTTTCCTTGTGGATTTACTGAAGTTGTAAAAT-A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364052 47 -   1400280 AGAGCATATCTATCTTTTCCTTGTCGATTTACTGAAGTTGTAAAAT-A
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152602 47 -  42888418 AGAGCATATCTATCTTTTCCTTGTCGATTTACTGAAGTTGTAAAAT-A
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3042496 47 +   4132165 AAAGTACCTCTATTTTTTCAGGGGAGATTTACTTAAGTTGTAAAAT-A
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55493078 48 +  90702639 AGTGCATCTCTTTGTTTTGACTGTAGATTTATTTACATTATAAAATAA
i mm10.chr18               I 12 I 98
s canFam3.chr11             14892741 48 +  74389097 AGAGCAGATCTTTTCTTTCACTATTGATTTATTTATGTTGTAAAGCAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2601899 48 +   3667625 AAAGTACATCTATTCTTTCAATTTAGATACATTTAAATTGTAAAATAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60517907 224 + 108143057 I
e proCoq1.NW_012155062v1     3557061 42 +  11683526 I
e manLeu1.NW_012103321v1     4004045  0 -   4237731 C
e chlSab2.chr23             28340231  1 +  82825804 I
e cerAty1.NW_012002512v1     5232125  0 +  26952557 C
e macNem1.NW_012012355v1    16226240  3 +  18395747 I
e macFas5.chr6             124228544  0 + 181584905 C
e rheMac8.chr6             122804864  0 + 180051392 C
e colAng1.NW_012119644v1      277674  0 -   1175262 C

a score=38090.000000
s hg38.chr5_KI270796v1_alt     51894 9 +    172708 AAATCAACT
s panTro5.chr5             125161971 9 + 181907262 AAATCAACT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498926 9 + 183735486 AAATCAACT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690399 9 +   8933513 AAATCAACT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820917 9 + 163208435 AAATCAATG
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614667 9 - 204313951 AAATCAACG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666904 9 -  71252344 AAATCAATG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364099 9 -   1400280 AAATCAACG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152649 9 -  42888418 AAATCAACG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3042543 9 +   4132165 AAATCACCT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14892789 8 +  74389097 -AATCAACT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2601947 8 +   3667625 -AATTAGCT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60517907 224 + 108143057 I
e proCoq1.NW_012155062v1     3557061 42 +  11683526 I
e manLeu1.NW_012103321v1     4004045 0 -   4237731 C
e chlSab2.chr23             28340231 1 +  82825804 I
e cerAty1.NW_012002512v1     5232125 0 +  26952557 C
e macNem1.NW_012012355v1    16226240 3 +  18395747 I
e macFas5.chr6             124228544 0 + 181584905 C
e rheMac8.chr6             122804864 0 + 180051392 C
e mm10.chr18                55493126 98 +  90702639 I
e colAng1.NW_012119644v1      277674 0 -   1175262 C

a score=179100.000000
s hg38.chr5_KI270796v1_alt     51903 28 +    172708 GCTAATCAAGGGTGAAGAATATTAACTA
s panTro5.chr5             125161980 28 + 181907262 GCTAATCAAGGGTGAAGAATATTAACTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498935 28 + 183735486 GCCAATCAAGGGTGAAGAATATTAACTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690408 28 +   8933513 GCTAATCAAGGGTGAAGAATATTAACTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820926 28 + 163208435 GCTAATCAAGGGTGAAGAATATTAACTA
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614676 28 - 204313951 GCTAATCAAGGGTGAAGAATATTAACTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666913 28 -  71252344 GCTAATCAAGGGTGAAGAATATTTGCTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364108 28 -   1400280 GCTAATCAAGGGTGAAGAATATTAACTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152658 28 -  42888418 GCTAATCAAGGGTGAAGAATATTAACTA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3557103 28 +  11683526 GGTGACCAAGGGTGAAGAACATTGACTG
i proCoq1.NW_012155062v1   I 42 C 0
s otoGar3.GL873679           3042552 28 +   4132165 GCTAATCAAAGGTGAAGAATATTGACTA
i otoGar3.GL873679         C 0 I 1
s canFam3.chr11             14892797 28 +  74389097 GCTAATCAAGAGTGAAGAATATTGACTG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2601955 28 +   3667625 GCTAATCAGGAGTGAAGAATATTGACTG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60517907 224 + 108143057 I
e manLeu1.NW_012103321v1     4004045  0 -   4237731 C
e chlSab2.chr23             28340231  1 +  82825804 I
e cerAty1.NW_012002512v1     5232125  0 +  26952557 C
e macNem1.NW_012012355v1    16226240  3 +  18395747 I
e macFas5.chr6             124228544  0 + 181584905 C
e rheMac8.chr6             122804864  0 + 180051392 C
e mm10.chr18                55493126 98 +  90702639 I
e colAng1.NW_012119644v1      277674  0 -   1175262 C

a score=3036.000000
s hg38.chr5_KI270796v1_alt     51931 1 +    172708 G
s panTro5.chr5             125162008 1 + 181907262 G
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498963 1 + 183735486 G
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690436 1 +   8933513 G
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820954 1 + 163208435 G
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614704 1 - 204313951 G
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666941 1 -  71252344 G
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364136 1 -   1400280 G
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152686 1 -  42888418 G
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3557131 1 +  11683526 A
i proCoq1.NW_012155062v1   C 0 C 0
s canFam3.chr11             14892825 1 +  74389097 A
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2601983 1 +   3667625 A
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60517907 224 + 108143057 I
e manLeu1.NW_012103321v1     4004045 0 -   4237731 C
e chlSab2.chr23             28340231 1 +  82825804 I
e cerAty1.NW_012002512v1     5232125 0 +  26952557 C
e macNem1.NW_012012355v1    16226240 3 +  18395747 I
e macFas5.chr6             124228544 0 + 181584905 C
e rheMac8.chr6             122804864 0 + 180051392 C
e otoGar3.GL873679           3042580 1 +   4132165 I
e mm10.chr18                55493126 98 +  90702639 I
e colAng1.NW_012119644v1      277674 0 -   1175262 C

a score=176390.000000
s hg38.chr5_KI270796v1_alt     51932 38 +    172708 GGTTGGTAAATCAGAAGAAAA--GTAAGATCACCAAGTGC
s panTro5.chr5             125162009 38 + 181907262 GGTTGGTAAATCAGAAGAAAA--GTAAGATCACCAAGTTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126498964 37 + 183735486 GGTTGGTAAATCAGAAGAAAA---TAAGATCACCAAGTTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690437 38 +   8933513 GGTTGGTAAATCAGAAGAAAA--GTAAGATCACCAAGTTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820955 38 + 163208435 GGTTGGTTAATCAGAAGAAAA--GTAAGATCACCAAGTTC
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614705 38 - 204313951 GGTTGGTCAATCAGAAGAAAA--GTAAGATCACCAAGTTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666942 38 -  71252344 GGTTGGTCAATCAGAAGAAAA--GTCAGATCACCAAGTTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364137 38 -   1400280 GGTTGGTCAATCAGTAGAAAA--GTAGGATCACCAAGTTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152687 38 -  42888418 GGTTGGTCAATCAGAAGAAAA--GTAAGATCACCAAGTTC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3557132 36 +  11683526 GGTTGGTTAATCAGAAGAAAA--ATAAGACGACCAAGT--
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3042581 36 +   4132165 AGTTAATTAATCTGAAGAAAA--ATAAGGTCAGCAAGT--
i otoGar3.GL873679         I 1 C 0
s canFam3.chr11             14892826 34 +  74389097 GGTATGTTAATCAGAAGAAAA--ATAAGGTCACGAA----
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2601984 40 +   3667625 GGATGGTTTACCAGAAAAAAAAAATATGGTAAAAAATTTC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60517907 224 + 108143057 I
e manLeu1.NW_012103321v1     4004045  0 -   4237731 C
e chlSab2.chr23             28340231  1 +  82825804 I
e cerAty1.NW_012002512v1     5232125  0 +  26952557 C
e macNem1.NW_012012355v1    16226240  3 +  18395747 I
e macFas5.chr6             124228544  0 + 181584905 C
e rheMac8.chr6             122804864  0 + 180051392 C
e mm10.chr18                55493126 98 +  90702639 I
e colAng1.NW_012119644v1      277674  0 -   1175262 C

a score=645602.000000
s hg38.chr5_KI270796v1_alt     51970 124 +    172708 --TCTTTCTCAGGTTCAGATTGTTTTTTTAGCCAGGAGGCAGAGGCACTCTAGGGGAGCAGAGAGCAAAAGGACAAGTGAAATTCTTGCTATGGGAAATAATTCAGTCTTTCCTGTGTTGAGGGAA
s panTro5.chr5             125162047 124 + 181907262 --TCTTTCTCAGGTTCAGATTGTTTTTTTAGCCAGGAGGCAGAGGCACTCTAGGGGAGCAGAGAGCAAAAGGACAAGTGAAATTCTTGCTATGGGAAATAATTCAGTCTTTCCTGTGTTGAGGGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499001 124 + 183735486 --TCTTTCTCAGGTTCAGATTGTTTTTTTAGCCAGGAGGCAGAGGCACTCTAGGGGAGCAGAGAGCAAAAGGACAAGTGAAATTCTTGCTATGGGAAATAATTCAGTCTTTCCTGTGTTGAGGGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690475 123 +   8933513 --TCTTTCTCAGGTTCAGATTGTTTTTTTAGCCAGGAGGCAGAGGCACTCTAGGGGAGCAGAGAGCAAAAGGACAAGTGAAATTCTTGCTAT-GGAGATAATTCAGTCTTTCCTGTGTTGAGGGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139820993 124 + 163208435 --TCTTTCTCAGGTTCAGATTGTTTTTTGAGCCTGGAAGCAGAGGCACTCTGGGGGAGCAGAGAGCAAAAAGACAAGTGAAATTCTTGCTATGGGAAATAATTCAGTTTTTCCTGTGTTGAGGGAA
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614743 123 - 204313951 --TCTTTCTCAGATTCAGATTATTTTTC-AGCTGGGAGGCAGAGGCACTCTGTGGGAGCAGAGAGCAAAAGGACAAGTGAAATTCTTGCTGTGGGAAATAATTCAGTCTTTCCTGTGTTGAGGGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55666980 123 -  71252344 --CCTTTCTCAGATCCAGATTATTTTTC-AGCTGGGAGGCAGAGGCACTCTGTGGGAGCAGAGAGCAAAAGGACAAGTGAAATTCTTGCTGTGGGAAATAATTCAGTCTTTCCTGTGTTGAGGGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364175 122 -   1400280 --TCTTTCTCAGATTCCTATTATTTTTC-AGCTGGGA-GCAGAGGCACTCTGTGGGAGCAGACAGCTAAAGGACAAATGAAATTCTTGCTGTGGGAAATAATTCAGTCTTTCCTGTGTTGAGGGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152725 122 -  42888418 --TCTTTCTCAGATTCAGATTATTTTTC-AGCTGGGAGGCAGAGGCACTCTGTGGGAGCAGAGAGC-AAAGGACAAGTGAAATTCTTGCTGTGGGAAATAATTCAGTCTTTCCTGTGTTGAGGGAA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3557168 122 +  11683526 --TCTTTCTCAGATTCAGATTCTTTTCC-AGCCCGGAGGCAGAGGCCTTCTGTGGG-GCAGAGAGTACAGGGGCAAGTGGAATTCTCTCTGTGGGAAGTAGTGCAGTCTGTCCTGCGCCGGGGGAG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3042617 113 +   4132165 --TCTCTCTCAGACTCAGATTCTTTGTG-AGCTCAGTGGCAGA-------TGTGGG-GCAAAGAGTCCA-GGGCCAGTGGAATTCT-GCTGTGGGAAATGATGCAGTTTCTCCTATGCTGAGGGAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55493224 116 +  90702639 --TCTCTTGCAGATTC-------TCTTG-AGCCAGGAGGCCAAGATACTCTTTGAGGACACACAGGGCAAGAATGAGTTAAGTCCTGGATGTGAAAAGTGATGCAGTCTCTCCTGCATTGGCAGAA
i mm10.chr18               I 98 C 0
s canFam3.chr11             14892860 115 +  74389097 --TTCTTCTTGGATTCAGACTTTT-----AGCCAGGAGGCAGAGACACTGCATAGGAGC---GAGAGGAAGACTTAGTGTGATTCTTGCTGTGGGAGATAATTCAGTCCTTCCTGTGCTAGGAAA-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2602024 124 +   3667625 TTATTCTCTTAGATTCAGATTCTTTTT--AGCCAGGAGACAGAGATACTCTGTAGGAGCTAAGAGTTCAAGGACAAATGTAATTCTTGCTGTGGGAAATAATGCAGTCTCTCCTGTGCTAAGGGAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60517907 224 + 108143057 I
e manLeu1.NW_012103321v1     4004045   0 -   4237731 C
e chlSab2.chr23             28340231   1 +  82825804 I
e cerAty1.NW_012002512v1     5232125   0 +  26952557 C
e macNem1.NW_012012355v1    16226240   3 +  18395747 I
e macFas5.chr6             124228544   0 + 181584905 C
e rheMac8.chr6             122804864   0 + 180051392 C
e colAng1.NW_012119644v1      277674   0 -   1175262 C

a score=95296.000000
s hg38.chr5_KI270796v1_alt     52094 12 +    172708 CAGTTCAGGGAA
s panTro5.chr5             125162171 12 + 181907262 CAGTTCAGGGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499125 12 + 183735486 CAGTTCAGGGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690598 12 +   8933513 CAGTTCAGGGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821117 12 + 163208435 CAGTTCAGGGAA
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614866 12 - 204313951 CAGTTCAGGGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55667103 12 -  71252344 CAGTTCAGGGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364297 12 -   1400280 CAGTTCAGGGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152847 12 -  42888418 CCGTTCAGGGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60518131 12 + 108143057 CAGTTCAGGGAA
i micMur3.chr12            I 224 C 0
s proCoq1.NW_012155062v1     3557290 12 +  11683526 CAGTTCGGGGAA
i proCoq1.NW_012155062v1   C 0 I 105
s otoGar3.GL873679           3042730 12 +   4132165 CAGTTCAGGGAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14892975 12 +  74389097 CAGTTCGAGGAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2602148 12 +   3667625 CAATTCAGGGAA
i dasNov3.JH567306         C 0 C 0
e manLeu1.NW_012103321v1     4004045  0 -   4237731 C
e chlSab2.chr23             28340231  1 +  82825804 I
e cerAty1.NW_012002512v1     5232125  0 +  26952557 C
e macNem1.NW_012012355v1    16226240  3 +  18395747 I
e macFas5.chr6             124228544  0 + 181584905 C
e rheMac8.chr6             122804864  0 + 180051392 C
e mm10.chr18                55493340  0 +  90702639 C
e colAng1.NW_012119644v1      277674  0 -   1175262 C

a score=455459.000000
s hg38.chr5_KI270796v1_alt     52106 84 +    172708 ACTCTTGGTCACTGTGGAAGTGGTAAATTGGCCGGGAAAATTAAGCTCTTCCCTCTTATGAA---CAAAGAAGA-AGAAGCTAGTAAA
s panTro5.chr5             125162183 84 + 181907262 ACTCTTGGTCACTGTGGAAGTGGTAAATTGGCCAGGAAAATTAAGCTCTTCCCTCTTATGAA---CAAAGAAGA-AGAAGCTAGTAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499137 84 + 183735486 ACTCTTGGTCACTGTGGAAGTGGTAAATTGGCCAGGAAAATGAAGCTCTTCCCTCTTATGAA---CAAAGAAGA-AGAAGCTAGTAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690610 84 +   8933513 ACTCTTGGTCACTGTGGAAGTGGTAAATTGGCCAGGAAAATTAAGCTCTTCCCTCTTATGAA---CAAAGAAGA-AGCAGCTAGTAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821129 84 + 163208435 ACTCTTGGTCACTGTGGAAGTGGTAAATTGGCCAGGAAAATTAAGTTCTTCCCTCTTATGAA---CAAAGAAGA-AGCAGCTAGTAAA
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614878 84 - 204313951 ACTCTTGGTCACTGTGGAACTGATAAATAGGCCAGGAAAGTTAAGCTCTTCCCTTTCATAAA---CAAAGGAGA-AAAAGCTAGTAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55667115 84 -  71252344 ACTCTTGGTCACTGTGGAAGTGATAAATTGGCCAGGAAAATTAAGCTCTTCCCTTTCATAAA---CAAAGAAGC-AGCAGCTAGAAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364309 84 -   1400280 ACTCTTGGTCACTGTGGAAGCGATAAATTGGCCAGGAAAATTAAGCTCTTCCCTTTCATAAA---CGAAGAAGA-AGCAGTTAGTAAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152859 84 -  42888418 ACTCTTGGTCACTGTGGAAGTGATAAATTGGCCAGGAAAATTAAGCTGTTCCCATTTATAAA---CAAAGAAGC-AGCAGCTAGTAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60518143 84 + 108143057 AGTCCTGCTCACCGTGGAGGTGCTAAACTGGCAGAGGACATTGAGCTCGTCCCTCTGATAAA---CAAAGGAGA-ATAAGCCAGTAAA
i micMur3.chr12            C 0 I 27
s otoGar3.GL873679           3042742 84 +   4132165 ACTCTTGGTCCCTGTGGAGGTGGTAGATTGGTGGAGAACATTAAACTCTTCCCTTTAATAAA---CAAAGAAGA-ATAAGCTAGTAAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55493340 86 +  90702639 ACTCTGGTTCACTGTGGAGGTATTAAATTGACTGAG-ATATTAGCCTCTTCCTCATCATAAAATTTAAAAAAGAGATAAGCTATTAT-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14892987 77 +  74389097 ----ACAGTGACTGTGGAAGTGTTAAGTTTGCCGAAAGAACTGAACTCTTCCCTCTTCTAAG---CAAAGAACA----AGTCAATAGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2602160 82 +   3667625 ACGCTTAGTCACTATGGAGGTGTTAAATTGGCAGAGAAAATTAAACCCTTCCCTCTTATAAA---CAGAG--GA-ACAGGCTAGGAGA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3557302 105 +  11683526 I
e manLeu1.NW_012103321v1     4004045  0 -   4237731 C
e chlSab2.chr23             28340231  1 +  82825804 I
e cerAty1.NW_012002512v1     5232125  0 +  26952557 C
e macNem1.NW_012012355v1    16226240  3 +  18395747 I
e macFas5.chr6             124228544  0 + 181584905 C
e rheMac8.chr6             122804864  0 + 180051392 C
e colAng1.NW_012119644v1      277674  0 -   1175262 C

a score=116297.000000
s hg38.chr5_KI270796v1_alt     52190 30 +    172708 TTGGGGCTGAGTTAAAGTTTGGGGTAATAC
s panTro5.chr5             125162267 30 + 181907262 TTGGGGCTGAGTTAAAGTTTGGGGTAATAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499221 30 + 183735486 TTGGGGCTGAGTTAAAGTTTGGGGTAATAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690694 30 +   8933513 TTGGGGCTGAGTTAAAGTTTGGGGTAATAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821213 30 + 163208435 TTGGGGCTGAGATAAGGTTTGGGGTAATAC
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614962 30 - 204313951 CTGGGGCTGAGATGAGGTTTGGGGTAGTAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55667199 30 -  71252344 CCGGGGCTGAGATGAAGTTTGGGGTAATAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364393 30 -   1400280 CTGGGGCTGAGATGAAGTTTGGGGTAATAC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152943 28 -  42888418 C--GGGCTGAGATGAAGTTTGGGGTAATAC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3042826 30 +   4132165 CTGGAGGTGAGAAAATTTCTTTCTTTTTTT
i otoGar3.GL873679         C 0 I 6
s mm10.chr18                55493426 30 +  90702639 TCTGGGCTGGGAAAGCCTATAAGACAATAC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14893064 30 +  74389097 CTGGAGTGAAGAAAGAGTTTAGGACAATTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2602242 30 +   3667625 CTGGAGCTGAAAAATAGTTTGGGGTAATAC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60518227 27 + 108143057 I
e proCoq1.NW_012155062v1     3557302 105 +  11683526 I
e manLeu1.NW_012103321v1     4004045  0 -   4237731 C
e chlSab2.chr23             28340231  1 +  82825804 I
e cerAty1.NW_012002512v1     5232125  0 +  26952557 C
e macNem1.NW_012012355v1    16226240  3 +  18395747 I
e macFas5.chr6             124228544  0 + 181584905 C
e rheMac8.chr6             122804864  0 + 180051392 C
e colAng1.NW_012119644v1      277674  0 -   1175262 C

a score=24409.000000
s hg38.chr5_KI270796v1_alt     52220 4 +    172708 TGAG
s panTro5.chr5             125162297 4 + 181907262 TGAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499251 4 + 183735486 TGAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690724 4 +   8933513 TGAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821243 4 + 163208435 TGAG
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614992 4 - 204313951 TGAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55667229 4 -  71252344 TGAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364423 4 -   1400280 TGAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152971 4 -  42888418 CGAG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3557407 4 +  11683526 TGAA
i proCoq1.NW_012155062v1   I 105 C 0
s otoGar3.GL873679           3042862 4 +   4132165 TTAA
i otoGar3.GL873679         I 6 C 0
s mm10.chr18                55493456 4 +  90702639 TGAA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14893094 4 +  74389097 TGAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2602272 4 +   3667625 TGAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60518227 27 + 108143057 I
e manLeu1.NW_012103321v1     4004045 0 -   4237731 C
e chlSab2.chr23             28340231 1 +  82825804 I
e cerAty1.NW_012002512v1     5232125 0 +  26952557 C
e macNem1.NW_012012355v1    16226240 3 +  18395747 I
e macFas5.chr6             124228544 0 + 181584905 C
e rheMac8.chr6             122804864 0 + 180051392 C
e colAng1.NW_012119644v1      277674 0 -   1175262 C

a score=165445.000000
s hg38.chr5_KI270796v1_alt     52224 22 +    172708 GGAGAGAGAAAGTCAATTTTAG
s panTro5.chr5             125162301 22 + 181907262 GGAGAGAGAAAGACAATTTTAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499255 22 + 183735486 GGAGAGAGAAAGTCAATTTTAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690728 22 +   8933513 GGAGAGAGAAAGTCAATTTTAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821247 22 + 163208435 GGAGAGAGAAAGTCAATTTTAG
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123614996 22 - 204313951 GGAGAGAGCAAGTCAATTTTAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55667233 22 -  71252344 GGAGAGAGAAAGTCAATTTTAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364427 22 -   1400280 GGAAAGAGAAAGTCAATTTTAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152975 22 -  42888418 GGAGAGAGAAAGTCAATTTTAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60518254 22 + 108143057 GGAGAGAGAAAGTCAATTTTAG
i micMur3.chr12            I 27 C 0
s proCoq1.NW_012155062v1     3557411 22 +  11683526 GGAGAGAGAAAGTCCATTTTAG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3042866 22 +   4132165 GGGGATAGAAAGTCAACTTCAG
i otoGar3.GL873679         C 0 I 602
s mm10.chr18                55493460 22 +  90702639 GGACAGAGAAACTCAATGTCTG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14893098 22 +  74389097 GGAGAGAGAAGATCAATACTAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2602276 22 +   3667625 GGATAGAGAAAATCAGTGTGAA
i dasNov3.JH567306         C 0 C 0
e manLeu1.NW_012103321v1     4004045  0 -   4237731 C
e chlSab2.chr23             28340231  1 +  82825804 I
e cerAty1.NW_012002512v1     5232125  0 +  26952557 C
e macNem1.NW_012012355v1    16226240  3 +  18395747 I
e macFas5.chr6             124228544  0 + 181584905 C
e rheMac8.chr6             122804864  0 + 180051392 C
e colAng1.NW_012119644v1      277674  0 -   1175262 C

a score=49045.000000
s hg38.chr5_KI270796v1_alt     52246 8 +    172708 ATTAGCAG
s panTro5.chr5             125162323 8 + 181907262 ATGAGCAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499277 8 + 183735486 ATGAGCAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690750 8 +   8933513 ATTAGCAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821269 8 + 163208435 ATTAGCAG
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123615018 8 - 204313951 ATTAGCCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55667255 8 -  71252344 ATTAGCCG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364449 8 -   1400280 ATTAGCCG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13152997 8 -  42888418 ATTAGCCG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60518276 8 + 108143057 ATTAGCAG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3557433 8 +  11683526 GTTAGCAG
i proCoq1.NW_012155062v1   C 0 I 97
s otoGar3.GL873679           3043490 8 +   4132165 ATTAGCAG
i otoGar3.GL873679         I 602 C 0
s mm10.chr18                55493482 8 +  90702639 ATTGGCCA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14893120 8 +  74389097 ATAAGTAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2602298 8 +   3667625 ACAAGCAG
i dasNov3.JH567306         C 0 C 0
e manLeu1.NW_012103321v1     4004045 0 -   4237731 C
e chlSab2.chr23             28340231 1 +  82825804 I
e cerAty1.NW_012002512v1     5232125 0 +  26952557 C
e macNem1.NW_012012355v1    16226240 3 +  18395747 I
e macFas5.chr6             124228544 0 + 181584905 C
e rheMac8.chr6             122804864 0 + 180051392 C
e colAng1.NW_012119644v1      277674 0 -   1175262 C

a score=247410.000000
s hg38.chr5_KI270796v1_alt     52254 63 +    172708 ATGTCATATTGGTTGAATTTAATATTTTCCT-CTTT-GAACTCTTCTCTTTCATAGCACACTGTG
s panTro5.chr5             125162331 63 + 181907262 ATGTCATATTGGTTGAATTTAATATTTTCCT-CTTT-GAACTCTTCTCTTTCATAGCACACTGTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499285 63 + 183735486 ATGTCATATTGGTTGAATTTAATATTTTCCT-CTCT-GAACTCTTCTCTTTCATAGCACACTGTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690758 63 +   8933513 ATGTCGTATTGGTTGAATTTAATATTTTCCT-CTTT-GAACTCTTGTCTTTCATAGCACACTGTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821277 63 + 163208435 ATGTCATATTGGTTGAATTTAATATTTTCCT-CTCT-GAACTCTTCTCTTTCATAGCACATTGTG
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123615026 39 - 204313951 ATATCATAGGGGTTGAATTTAATATTTTCCT-CTTT-GAAC------------------------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55667263 63 -  71252344 ATGTCATAGTGGTTGAATTTAATATTTTCCT-CTTT-GAACTCTTCTCTTTCATAGCACACTGTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364457 63 -   1400280 ATGTCATAGTGGTTGAATTTAATATTTTCCT-CTTT-GAACTCTTCTCTTTCATAGCACACTGTG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13153005 63 -  42888418 ATGTCATAGTGGTTGAATTTAATATTTTCCT-CTTT-GAACTCTTCTCTTTCATTGCACACTGTG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60518284 64 + 108143057 GTTTTATATTGGTTGGATTTAACATTTTCCTCTTTT-GAACTCTTCTTTTTCACAGTACGCTGTG
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3043498 42 +   4132165 ATTTTAGATTAACTGGGTTTAATATTTTCCT-----------------------AGCACATTGTA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55493490 41 +  90702639 ----------AGTTAGGTTTGGTACTTTCCT-CTTT------CCTCT-------AGCACACCAAG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14893128 63 +  74389097 ATTTTGTG-TGCTTGGGATTAACATCTTGCT-CTTTAGAACTCTTCTCTTCCAAAGCACACTGTG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2602306 47 +   3667625 ATTTTGTATTGGTTAGAATT---------CT-TTTC-TAAC-------CTTCATATTATGCTATG
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3557441 97 +  11683526 I
e manLeu1.NW_012103321v1     4004045  0 -   4237731 C
e chlSab2.chr23             28340231  1 +  82825804 I
e cerAty1.NW_012002512v1     5232125  0 +  26952557 C
e macNem1.NW_012012355v1    16226240  3 +  18395747 I
e macFas5.chr6             124228544  0 + 181584905 C
e rheMac8.chr6             122804864  0 + 180051392 C
e colAng1.NW_012119644v1      277674  0 -   1175262 C

a score=24361.000000
s hg38.chr5_KI270796v1_alt     52317 2 +    172708 AT
s panTro5.chr5             125162394 2 + 181907262 AT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499348 2 + 183735486 AT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690821 2 +   8933513 AT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821340 2 + 163208435 AT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122804864 2 + 180051392 AT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228544 2 + 181584905 at
i macFas5.chr6             C 0 C 0
s cerAty1.NW_012002512v1     5232125 2 +  26952557 AT
i cerAty1.NW_012002512v1   C 0 C 0
s manLeu1.NW_012103321v1     4004045 2 -   4237731 AT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      277674 2 -   1175262 AT
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55667326 2 -  71252344 AT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364520 2 -   1400280 AT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13153068 2 -  42888418 AT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60518348 2 + 108143057 AT
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3043540 2 +   4132165 AT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55493531 2 +  90702639 AG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14893191 2 +  74389097 AT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2602353 2 +   3667625 AT
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3557441 97 +  11683526 I
e chlSab2.chr23             28340231 1 +  82825804 I
e macNem1.NW_012012355v1    16226240 3 +  18395747 I
e calJac3.chr2             123615065 0 - 204313951 C

a score=25236.000000
s hg38.chr5_KI270796v1_alt     52319 2 +    172708 AA
s panTro5.chr5             125162396 2 + 181907262 AA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499350 2 + 183735486 AA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690823 2 +   8933513 AA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821342 2 + 163208435 CA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122804866 2 + 180051392 AA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228546 2 + 181584905 aa
i macFas5.chr6             C 0 C 0
s cerAty1.NW_012002512v1     5232127 2 +  26952557 AA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28340232 2 +  82825804 AA
i chlSab2.chr23            I 1 C 0
s manLeu1.NW_012103321v1     4004047 2 -   4237731 AA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      277676 2 -   1175262 AA
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55667328 2 -  71252344 AA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364522 2 -   1400280 AA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13153070 2 -  42888418 AA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60518350 2 + 108143057 AA
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3043542 2 +   4132165 AA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55493533 2 +  90702639 AA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14893193 2 +  74389097 AA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2602355 2 +   3667625 AG
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3557441 97 +  11683526 I
e macNem1.NW_012012355v1    16226240 3 +  18395747 I
e calJac3.chr2             123615065 0 - 204313951 C

a score=1356089.000000
s hg38.chr5_KI270796v1_alt     52321 112 +    172708 ACATTAAACAAAATGTAGTTTTTCAGAAAAactgtttattgggcaactccgtttgccagt--ctctgc-gctggctttgcaggtgtgctg---tgaatcct----catacgttattattatt
s panTro5.chr5             125162398 112 + 181907262 ACATTAAACAAAATATAGTTTTTCAGAAGAactgtttattgggcaactctatttgccagt--ctctgc-actggctttgcaggtgtgctg---tgaatcct----catacgttattattatt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499352 112 + 183735486 ACATTAAACAAAATATAGTTTTTCAGAAAAactgtttattgggcaactctatttgccagt--ctctgc-actggctttgcaggtgtgctg---tgaatcct----catgtgttattattatt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690825 112 +   8933513 ACATTAAACACAATATAGTTTTTCAGAAAAactgtttattgtgcaactctatttgccaat--ctctgc-actggctttgcaggtgtgctg---tgaatcct----catatgttattattatt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821344 112 + 163208435 ATATTAAACAAAATATAGTTTTTCAGAAAAactgtttattgggcaactctatttgccgaa--ctctgc-actggctttgcaggtgtactg---tgaatcct----catatgttattattatt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122804868 112 + 180051392 ACATTAAACAAAATATAGTTTTTCAGAAAAactgtttattgggcaactttattggccaat--ctttgc-actggctttgcaggtatactg---tgaatcct----catgtgttattattatt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228548 112 + 181584905 acattaaacaaaatataGTTTTTCAGAAAAACTGTTTATTGGGCAACTTTATTGGCCAAT--CTCTGC-ACTGGCTTTGCAGGTATACTG---TGAATCCT----CATGTGTtattattatt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16226243 112 +  18395747 ACATTAAACAAAATATAGTTTTTCAGAAAAactgtttattgggcaactttattggccaat--ctctgc-actggctttgcaggtatactg---tgaatcct----catgtgttattattatt
i macNem1.NW_012012355v1   I 3 C 0
s cerAty1.NW_012002512v1     5232129 112 +  26952557 ACATTAAACAAAATATAGTTTTTCAGAAAAactgtttattgggcaactttattggccaat--ctctgc-actggctttgcaggtatactg---tgaatcct----catgtgttattattatt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28340234 112 +  82825804 ACATTAAACAAAATATAGTTTTTCAGAAAAACTGTTTATTGGGCAACTTTATTGGCCAAT--CTCTGC-ACTGGCTTTGCAGGTATACTG---TGAATCCT----CATGTGTTTttattatt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4004049 112 -   4237731 ACATTAAACAAAATATAGTTTTTCAGAAAAactgtttattgggcaactttattggccaat--ctctgc-actggctttgcaggtatactg---tgaatcct----catgtgttattattatt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      277678 112 -   1175262 ACATTAAACAAAATATAGTTTTTCAGAAAAGctgtttattgggcaactttactggccaat--ctctgc-actggctttgcaggtgtactg---tgaagcct----catatgttgttattatt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123615065  94 - 204313951 ----------------AGTTT--CAGAAAAactgtctattgggcaactctatttgccagt--ctctgc-tctggctttgcaggtgtactg---tgaatcct----catatgttattattatt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55667330 110 -  71252344 AAATTAAACAAAATATAGTTTTCCAGAAAAactgtctattgggcaactctatttgccag----tctgc-tctggctttgcaggtgtactg---tgaatcct----cagatgttattattatt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364524 112 -   1400280 ACATTAAACAAAATATAGTTTTTCAGAAAAACTGTCTATTTGGCAACTctatttgccagc--ctctgc-tctggctttgcaggtgtactg---tgaaacct----catatgttattattatt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13153072 112 -  42888418 ACATTAAACAAAATACAGTTTTTCAGAAAAactgtttattgggcaactctatttgccagt--ctctgc-tctggctttgcaggtgtactg---tgaatcct----catatgttattattatt
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60518352 107 + 108143057 ACACTAAACAAAATATAGTTTGTCAGAGTAACCATTTATTGGGCAACTCCGCTCGCCAG---CTCTGC-TCTGGCTTTGCGGGCATATTG---TTAA--------CGTgtgttatagttacc
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3043544  90 +   4132165 AC------------ATAGTTTCTCAGA------ATTTATTAGGCAATTCCATTTGCCAA---CTCTGCATTGGGCTTTGCAGGCATAGTG---Ccga--------cttaggttattattacc
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55493535 119 +  90702639 --AGACAACAAAATCAAGTGTCTTAGAGTAACTATTTATTGGGCAACACCATTGGCCAGTTCCTCTAC-ATGGAATTCACAGGTGTATTGCTCTATGACCTATGACCTAAGACACTGCTAGC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14893195 107 +  74389097 AGACT-GATAAATTACAGTTTGCCAGAATAACCATCTATT-GGCAACTCCATT-GCTGAC--CTCTGC-ACTCACCT-GCAAGCATATTG---Ccagggct----catata-tattgtcacc
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2602357  91 +   3667625 AGACTAAACAAAGTAGAATTT-----------------TTGGACACTATCATTTGCCAAT--CTCTGC-ACTGGCTTTTCAAGCTTATTG---CTAATCTT----TATACA----tattacc
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3557441  97 +  11683526 I

a score=1513179.000000
s hg38.chr5_KI270796v1_alt     52433 100 +    172708 cattttactgaggatgaagatgagactaaatttaaatgact-tgcttaagaccac--agctaataaggagctgag----------tcagaa-----------tttgcaactg--tttattgctaca
s panTro5.chr5             125162510 100 + 181907262 cattttactgaggatgaagatgagactaaatttaaatgact-tgcttaagaccac--agctaataaggagctgag----------tcagaa-----------tttgcaactg--tttattgctaca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499464 100 + 183735486 cattttactgaggatgaagatgagactaaatttaaatgact-tgcttaagaccac--agctaataaggagctgag----------tcagaa-----------tttgcaactg--tttattgctata
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1690937 100 +   8933513 cattttactgaggatgaagatgagactaaatttaaatgact-tgcttaagaccac--agctaataaggagctgag----------tcagaa-----------tttgcaactg--tttatcgctaca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821456 100 + 163208435 cattttactgatgatgaagatgagactaaatttaaatgact-tggttaagaccac--agctaataaggagctgag----------tcagaa-----------tttgcaactg--tttgttgctaca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122804980 100 + 180051392 cattttactgaggaggaagatgagactaaatttaaatgact-tgcttaagaccat--agctaataaggagctgag----------ccagaa-----------tttgcaactg--tttattgctaca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228660 100 + 181584905 cattttactgaggaggaagatgagactaaatttaaatgact-tgcttaagaccat--agctaataaggagctgag----------ccagaa-----------tttgcaactg--tttattgctaca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16226355 100 +  18395747 cattttactgaggaggaagatgagactaaatttaaatgact-tgcttaagaccat--agctaataaggagctgag----------ccagaa-----------tttgcaactg--tttattgctaca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5232241 100 +  26952557 cattttactgaggaggaagatgagactaaatataaatgact-tgcttaagaccat--agctaataaggagctgag----------ccagaa-----------tttgcaactg--tttattgctaca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28340346 100 +  82825804 cattttactgaggaggaagatgagactaaatttaaatgact-tgctcaagaccat--agctaataaggagctgag----------ccagaa-----------tttgcaactg--tttattgctaca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4004161 100 -   4237731 cattttactgaggaggaagatgagactaaatttaaatgact-tgcttaagaccat--agctaataaggagctgag----------ccagaa-----------tttgcaactg--tttattgctaca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      277790 100 -   1175262 cattttactgaggaggaagatgagactaaatttaaatgact-tgcttaagaccac--agctaataaggagctgag----------tcagaa-----------tttgcaactg--tttattgctaca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123615159 100 - 204313951 cattttacggaggaggaagatgggactaaatttaaatgact-ggcttgagaccac--agctaataaggatctgag----------tcagaa-----------tttgcaactg--ttttttgctaca
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55667440 102 -  71252344 cattttactgtggaggaagatgagactacatttaaatgact-ggcttaagaccac--agctaataaggatctgag----------tcagaa-----------tttgcaactgttttttttgctaca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364636 100 -   1400280 cattttgctaaggaggaagatgagactaaatttaaatgact-ggcttaagaccac--agctaataaggatctgag----------tcagaa-----------tttgcaactg--tttcttgctaca
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13153184 100 -  42888418 cattttactgaggaggaagatgagactaaatttaaatgact-ggcttaagaccac--agctaataaggatctgag----------tcagaa-----------tttgcaactg--ttttttgctgca
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60518459 102 + 108143057 cattttactgatggggaagatgagactcaatttaaatgatt-tccttacaaccacacagataataagtaactgag----------tcagaa-----------tttgcaactc--tttcttgctcca
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3557538 102 +  11683526 cattttactgatgaggaagatgagactcagcttaaatgatt-tccttacaaccacagagccaataaggagcggag----------ccagaa-----------tttgcaactc--tttcttgctgca
i proCoq1.NW_012155062v1   I 97 C 0
s otoGar3.GL873679           3043634 102 +   4132165 aattttactgataagaaagatgagactcaaattaactgatc-tccttaagatcatacagctaatagggagctgag----------tcagaa-----------tttggaactg--tttcttccagca
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55493654  98 +  90702639 CATCTT-CTGATGAGGAAGATGTCACTCTACTCCAATGGCTGTGTGTAAGGCCAC--A--TAGCAGAGAGCATTG----------TCAGAA-----------TTCCCAAGAC--CTTGTGGTAACA
i mm10.chr18               C 0 I 298
s canFam3.chr11             14893302 121 +  74389097 cattttattgatgggagcgctg--actcaatttacttgact-tgtttaatatcatacagctaataaggagctaagagtttgcaactcaaaaaaaaaaaaaagtttgcaactc--cttcttgcttca
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2602448  96 +   3667625 aattttatttatgaggaagctgagactcaagttaagtgact-tagtttagaacat---gttaat---ggactgag----------ttagaa-----------tttgcagctc--ctgtgtgcttca
i dasNov3.JH567306         C 0 C 0

a score=843476.000000
s hg38.chr5_KI270796v1_alt     52533 62 +    172708 aaatctgcactattttcattgAATTAATTTGACTTACTCAATCCTTATT------TATATGAAATAT---------A
s panTro5.chr5             125162610 62 + 181907262 aaatctgcactattttcattgAATTAATTTGATTTACTCAATCCTTATT------TATATGAAATAT---------A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499564 62 + 183735486 aaatctgcactattttcattgAATTAATTTGATTTACTCAATCCTTATT------TATATGAAATAT---------A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1691037 70 +   8933513 aaatctgcacta-tttcATTGAATTAATTTGATTTACTCAATCCTTATT------TATATGAAATATATTGAGCAGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821556 71 + 163208435 aaatctgcactattttcattgAATTAATTTGATTCACTCAATCCTTATT------TATATGAAATATACTGAGTAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122805080 71 + 180051392 aaacctgtactattttcattgAGTTAATTTGATTCACTCCATCCTTATT------TATATGAAATACATCGAGCAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228760 71 + 181584905 aaacctgtactattttcattgAGTTAATTTGATTCACTCCATCCTTATT------TATATGAAATACATCGAGCAGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16226455 71 +  18395747 aaacctgtactattttcattgAGTTAATTTGATTCACTCCATCCTTATT------TATATGAAATACATCGAGCAGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5232341 71 +  26952557 aaatctgtgctattttcattgAGTTAATTTGATTCACTCCATCCTTATT------TATATGAAATATATTGAGCAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28340446 71 +  82825804 aaatctgtactattttcattgAGTTAATTTGATTCACTCCATCCTTATT------TATATGAAATATATTGAGCAGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4004261 71 -   4237731 aaacctgtactattttcattgAGTTAATTTGATTCACTCCATCCTTATT------TATATGAAATATATTGAGCAGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      277890 71 -   1175262 aaatctgtactattttcattgAGTTAATTTGATTCACTCCATCCTTATT------TATATGAAATATATTGAGCAGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123615259 61 - 204313951 aaatctatgc-attttcattgAATTTATATGATTCACTCAATCCTTATT------TATATGAAATACA---------
i calJac3.chr2             C 0 I 6
s saiBol1.JH378106          55667542 62 -  71252344 aaatctgcgctattttcattgAATTAATATGATTCAGTCAATCCTTATT------TATATGACATATA---------
i saiBol1.JH378106         C 0 I 6
s cebCap1.NW_016107829v1     1364736 62 -   1400280 aaatctgcactattttcattgAATTAATATGATTCACTCAATCCTTATT------TATATGAAATATA---------
i cebCap1.NW_016107829v1   C 0 I 16
s aotNan1.NW_018505940v1    13153284 62 -  42888418 aaatctgcgctattttcattgaatcaATATGATTCACTCAATCGTTATT------TATATGAAATATA---------
i aotNan1.NW_018505940v1   C 0 I 16
s micMur3.chr12             60518561 71 + 108143057 aaatcttcactatttccattgAATTAATATGATCTGCTCAACCTTTATT------TTTATAAAATGCATTGAGCAGA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3557640 71 +  11683526 aaatcttcactatttccattgAATTAGTATGATCTGCTCAACCTTTATT------TTTATAAAATGCATTGAGCAGA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3043736 77 +   4132165 aaatctgcactatttccattgAATTAATATGATCTACTCAACGTTTATTTATTAATATATGAAATGTATTCACCAGA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14893423 58 +  74389097 aaatctgtcctctttccactgTCCTCTT----TGCACTCAACCCTTATT------TATATGAAATGCA---------
i canFam3.chr11            C 0 I 8
s dasNov3.JH567306           2602544 62 +   3667625 aaatctgtactttttccactgAATTAGTATGATACATTTAACCTGTATT------TACATAAAATGCT---------
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55493752 298 +  90702639 I

a score=35570.000000
s hg38.chr5_KI270796v1_alt     52595 7 +    172708 AAATGCT---
s panTro5.chr5             125162672 7 + 181907262 AAATGCG---
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499626 7 + 183735486 AAATGTG---
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1691107 7 +   8933513 GGATGTG---
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821627 7 + 163208435 GGATGTG---
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122805151 7 + 180051392 GGATGTG---
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228831 7 + 181584905 GGATGTG---
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16226526 7 +  18395747 GGATGTG---
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5232412 7 +  26952557 GGATGTG---
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28340517 7 +  82825804 GGATGTG---
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4004332 7 -   4237731 GGATGTG---
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      277961 7 -   1175262 GGATGTA---
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123615326 7 - 204313951 AGAGGCT---
i calJac3.chr2             I 6 I 3
s saiBol1.JH378106          55667610 7 -  71252344 AGAGGCT---
i saiBol1.JH378106         I 6 I 3
s micMur3.chr12             60518632 7 + 108143057 TGATGTG---
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3557711 7 +  11683526 TGATGTG---
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3043813 7 +   4132165 TGATATG---
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14893489 5 +  74389097 --AAGGG---
i canFam3.chr11            I 8 I 4
s dasNov3.JH567306           2602606 7 +   3667625 ---TGAGACT
i dasNov3.JH567306         C 0 C 0
e aotNan1.NW_018505940v1    13153346 16 -  42888418 I
e cebCap1.NW_016107829v1     1364798 16 -   1400280 I
e mm10.chr18                55493752 298 +  90702639 I

a score=665554.000000
s hg38.chr5_KI270796v1_alt     52602 45 +    172708 CTCCAAAGCTATTCTCTAGTTTCCCCTTCTTATGCCTCTAGCTAC
s panTro5.chr5             125162679 45 + 181907262 CTCCAAAGCTATTCTCTAGTTTCCCCTTCTTATGCCTCTAGCTAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499633 45 + 183735486 CTCCAAAGCTATTCTCTAGTTTCCCCTTCTTATGCCTCTAGCTAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1691114 45 +   8933513 CTCCAAAGCTATTCTCTAGTTTCCCCTTCTTATGCCTCTAGCTAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821634 45 + 163208435 CTCCAAAGCTATTCTCTAGTTTCCCCTTCTTATGCCTCTAGCTAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122805158 45 + 180051392 CTCCAAAACTATTCTCTAGTTTCCTCTTCTTATGTCTCTAGCTAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228838 45 + 181584905 CTCCAAAACTATTCTCTAGTTTCCTCTTCTTATGTCTCTAGCTAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16226533 45 +  18395747 CTCCAAAACTATTCTCTAGTTTCCTCTTCTTATGTCTCTAGCTAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5232419 45 +  26952557 CTCCAAAACTATTCTCTAGTTTCCCCTTCTTATGTCTCTAGCGAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28340524 45 +  82825804 CTCCAAAACTATTCTCTAGTTTCCCCTTCTTATGTCTCTAGCTAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4004339 45 -   4237731 CTCCAAAACTATTCTCTAGTTTCCTCTTCTTATGTCTCTAGCTAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      277968 45 -   1175262 CTCCAAAACTGTTCTCTAGTTTCCCCTTCTTATGTCTCTAGCTAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123615336 45 - 204313951 CTTCAAAGCTATTCTCTAGTTTCCCCTTCTTAGGACTCCAGCTAC
i calJac3.chr2             I 3 C 0
s saiBol1.JH378106          55667620 45 -  71252344 CTCCAAAGCTATTCTCTAGTTTCCCCTTCTTATGCCTCCAGCTAT
i saiBol1.JH378106         I 3 C 0
s cebCap1.NW_016107829v1     1364814 45 -   1400280 CTCCAAAGCTGTTCTCTAGTTTCCCCTTCTTATGCCTCCAGCTAC
i cebCap1.NW_016107829v1   I 16 C 0
s aotNan1.NW_018505940v1    13153362 45 -  42888418 CTCCAAAGCTATTCTCCAGTTTCCCCTTCTTATTTCTCCAGCTAC
i aotNan1.NW_018505940v1   I 16 C 0
s micMur3.chr12             60518639 45 + 108143057 CTCCAAAGCCATTCTCTGGTTTCCCCTCCTTCTGTTTCTAGCTAC
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3557718 45 +  11683526 CTCCAAAGCCATTCTCTGGTTTCCCCTCCTTCTGTCTCTAGCTAC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3043820 45 +   4132165 CTCCAAAGTTGTTCTCTTGTTTCCCTTCTGTCTACTGCTAGCTAT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14893498 45 +  74389097 CTCCAAAACTATTCTTTAGATTCCTTTCTTTACAACTCTAATTAC
i canFam3.chr11            I 4 C 0
s dasNov3.JH567306           2602613 38 +   3667625 GTTAGGTGCT----TCCAGCTTCCCCTGTCTG---CCCTAGCCAT
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55493752 298 +  90702639 I

a score=330565.000000
s hg38.chr5_KI270796v1_alt     52647 23 +    172708 TGAGCCCATACACTTT---TGTTATA
s panTro5.chr5             125162724 23 + 181907262 TGAGCCCATACACTTT---TGTTATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499678 23 + 183735486 TGAGCCCATACACTTT---TGTTATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1691159 23 +   8933513 CGAGCCCATACACTTT---TGTTATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821679 23 + 163208435 TGAGCCCATGTACTTT---TATTATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122805203 23 + 180051392 TTAGCCCATGCACTTT---TGTTATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228883 23 + 181584905 TTAGCCCATGCACTTT---TGTTATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16226578 23 +  18395747 TTAGCCCATGCACTTT---TGTTATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5232464 23 +  26952557 TTAGCCCATGCACTTT---TGTTATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28340569 23 +  82825804 TTAGCCCATGCACTTT---TGTTATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4004384 23 -   4237731 TTAGCCCATGCACTTT---TGTTATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      278013 23 -   1175262 TTAGCCCATGTACTTT---TGTTATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123615381 23 - 204313951 TGAGGCCATGAACTTT---TGTTATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55667665 23 -  71252344 GGAGCCCATGAACTTT---TGTTATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364859 23 -   1400280 TGAGCCCATGAACTTC---TGTTATA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13153407 23 -  42888418 TGAGCCCATGAACTTT---TGTTATA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60518684 23 + 108143057 TAAGCCCATGCATTTT---TCTTATA
i micMur3.chr12            C 0 I 514
s proCoq1.NW_012155062v1     3557763 23 +  11683526 TAAGCCCATGCATTTT---TCTTATA
i proCoq1.NW_012155062v1   C 0 I 528
s otoGar3.GL873679           3043865 23 +   4132165 TGAGCCCGTGCATTTT---TCTTATA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55494050 23 +  90702639 caaatccatatatgtt---tgcaata
i mm10.chr18               I 298 I 19
s canFam3.chr11             14893543 26 +  74389097 TGGGCCCATTTTTTTTGTGTGCTGTA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2602651 23 +   3667625 GGGGCCCACGCATTCA---TGTTGTG
i dasNov3.JH567306         C 0 I 2

a score=129291.000000
s hg38.chr5_KI270796v1_alt     52670 7 +    172708 ACCCTGA
s panTro5.chr5             125162747 7 + 181907262 ACCCTGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499701 7 + 183735486 ACCCTGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1691182 7 +   8933513 ACCCTGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821702 7 + 163208435 ACCCTGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122805226 7 + 180051392 ACCCTGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228906 7 + 181584905 ACCCTGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16226601 7 +  18395747 ACCCTGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5232487 7 +  26952557 ACCCTGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28340592 7 +  82825804 ACCCTGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4004407 7 -   4237731 ACCCTGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      278036 7 -   1175262 ACCCTGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123615404 7 - 204313951 ACCCTGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55667688 7 -  71252344 ACCCTGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1364882 7 -   1400280 ACCCTGA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13153430 7 -  42888418 ACCCTGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60519221 7 + 108143057 aCCCTAA
i micMur3.chr12            I 514 C 0
s proCoq1.NW_012155062v1     3558314 7 +  11683526 aCCCTGA
i proCoq1.NW_012155062v1   I 528 C 0
s otoGar3.GL873679           3043888 7 +   4132165 ATCCTta
i otoGar3.GL873679         C 0 I 531
s mm10.chr18                55494092 7 +  90702639 gccatga
i mm10.chr18               I 19 I 21
s canFam3.chr11             14893569 7 +  74389097 ATCCTAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2602676 7 +   3667625 ATCCTAA
i dasNov3.JH567306         I 2 C 0

a score=563468.000000
s hg38.chr5_KI270796v1_alt     52677 39 +    172708 ATTTTCT-----------AAGTGAT--------AAGGA---------------TGGTTTCCCAGCAAAATAAC
s panTro5.chr5             125162754 39 + 181907262 ATTTTCT-----------AAGTGAT--------AAGGA---------------TGGTTTCCCAGCAAAATAAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126499708 39 + 183735486 ATTTTCT-----------AAGTGAT--------AAGGA---------------TGGTTTCCCAGCAAAATAAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1691189 39 +   8933513 ATTGTCT-----------AAGTGAT--------AAGGA---------------TGGTTTCCCAGCAAAATAAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821709 38 + 163208435 ATTTTCT-----------AAGTGAT--------AAGGA---------------TGGTTTCCCAGCAAAATAA-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122805233 39 + 180051392 ATTTTCT-----------AAGTGAT--------AAGGA---------------TGGTTTCCCAGCAAAATAAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124228913 39 + 181584905 ATTTTCT-----------AAGTGAT--------AAGGA---------------TGGTTTCCCAGCAAAATAAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16226608 39 +  18395747 ATTTTCT-----------AAGTGAT--------AAGGA---------------TGGTTTCCCAGCAAAATAAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5232494 39 +  26952557 ATTTTCT-----------AAGTGAT--------AAGGA---------------TGGTTTCCCAGCAAAATAAC
i cerAty1.NW_012002512v1   C 0 I 211
s chlSab2.chr23             28340599 38 +  82825804 ATTTTCT-----------AAGTGAT--------AAGGA---------------TGGTTTCCCAGC-AAATAAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4004414 39 -   4237731 ATTTTCT-----------AAGTGAT--------AAGGA---------------TGGTTTCCCAGCAAAATAAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      278043 39 -   1175262 ATTTTCT-----------AAGTGAT--------AAGGA---------------TGGTTTCCCAGCAAAATAAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123615411 39 - 204313951 ATTTTCT-----------AAGTGAT--------AAGGT---------------TGGTTTCCCAGCAAAATAAC
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55667695 39 -  71252344 ATTTTCT-----------AAGCGAT--------AAGGA---------------TGGTTTCCCAGCAAAATAAC
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107829v1     1364889 39 -   1400280 ATTTTCT-----------AAGTGGT--------AAGGA---------------TGGTTTCCCAGCAAAATAAC
i cebCap1.NW_016107829v1   C 0 I 1
s aotNan1.NW_018505940v1    13153437 39 -  42888418 ATTTTCT-----------AAGTGAT--------AAGGT---------------TGATTTCCCAGCAAAATAAC
i aotNan1.NW_018505940v1   C 0 I 1
s micMur3.chr12             60519228 39 + 108143057 ACTTTCT-----------AAGTGAT--------AAAGA---------------TTGCTCCTCAACCAAATAAC
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3558321 39 +  11683526 ACTTTCT-----------AAGTGAT--------GAGGA---------------TTGTTCCCCAACAAAATAAC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3044426 36 +   4132165 AATTTCT-----------AAGGGAT--------AAGGA---------------TTATTCTCCACCAAAGC---
i otoGar3.GL873679         I 531 C 0
s mm10.chr18                55494120 73 +  90702639 agtttatgcgagggtttggagtgatgaaagggaaaggagaaatgtaattaaattactctctccaaaaaatCAC
i mm10.chr18               I 21 I 12
s canFam3.chr11             14893576 37 +  74389097 ATTTTGT------------AGTGAT---------AGGA---------------CTATTTCTCATCAAAATAAG
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2602683 39 +   3667625 ACTTTCT-----------AAGTGAC--------AAGGA---------------TTGTCCTCCAATGAAGTAAA
i dasNov3.JH567306         C 0 C 0

a score=-54723.000000
s hg38.chr5_KI270796v1_alt     52716  4 +    172708 -AG------------TG
s panTro5.chr5             125162793  4 + 181907262 -AG------------TG
i panTro5.chr5             C 0 I 8
s panPan2.chr5             126499747  4 + 183735486 -AG------------TG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1691228  4 +   8933513 -TG------------TT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821747  3 + 163208435 --G------------TG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122805272  7 + 180051392 -AG---------ttttt
i rheMac8.chr6             C 0 I 2
s macFas5.chr6             124228952  4 + 181584905 -AG------------TT
i macFas5.chr6             C 0 I 2
s macNem1.NW_012012355v1    16226647  4 +  18395747 -AG------------TT
i macNem1.NW_012012355v1   C 0 I 2
s chlSab2.chr23             28340637 16 +  82825804 -AGGttttttttttttt
i chlSab2.chr23            C 0 I 6
s manLeu1.NW_012103321v1     4004453  7 -   4237731 -AG---------ttttt
i manLeu1.NW_012103321v1   C 0 I 6
s colAng1.NW_012119644v1      278082  4 -   1175262 -AG------------tt
i colAng1.NW_012119644v1   C 0 I 16
s calJac3.chr2             123615451  3 - 204313951 -GG------------T-
i calJac3.chr2             I 1 I 4
s saiBol1.JH378106          55667735  3 -  71252344 -GG------------T-
i saiBol1.JH378106         I 1 I 4
s cebCap1.NW_016107829v1     1364929  3 -   1400280 -GG------------T-
i cebCap1.NW_016107829v1   I 1 I 4
s aotNan1.NW_018505940v1    13153477  3 -  42888418 -GG------------t-
i aotNan1.NW_018505940v1   I 1 I 4
s micMur3.chr12             60519267  4 + 108143057 -AG------------TT
i micMur3.chr12            C 0 I 1
s proCoq1.NW_012155062v1     3558360  4 +  11683526 -AG------------TT
i proCoq1.NW_012155062v1   C 0 I 1
s otoGar3.GL873679           3044462  2 +   4132165 ---------------TT
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55494205  4 +  90702639 -TG------------TT
i mm10.chr18               I 12 I 2
s canFam3.chr11             14893615  2 +  74389097 -GG--------------
i canFam3.chr11            I 2 C 0
s dasNov3.JH567306           2602722  4 +   3667625 GAG------------A-
i dasNov3.JH567306         C 0 C 0
e cerAty1.NW_012002512v1     5232533 211 +  26952557 I

a score=5861118.000000
s hg38.chr5_KI270796v1_alt     52720 410 +    172708 TTTTTT-----------------TTTC---------AATTAGGAA-TGAG-TTTACAATTACCAGACCTTCACTA----GACTAATTATCTTCTATTTAACAGG-C------TGTATCACAG-TTTTTGTAGTGGGAAATGATGGCAGATTTTAAA----AGATTATCTTAAAATTGCAATTCCTCTTTTTCTC------TCTATAGAGCATGGCAACTGGCAACTAATCAGCTCACTAAACAT-GTGGCACTCAGATTCTGCCTTCTTTAGACATTGGCCACCATCCAAAGCAATGAATAGGAAGA--TTTTTCTTACAAGTGACAGAATGCGTATTTAAAAAGTATCCATAA-AAACTTTA----TCCAGAAAAGTAACTTGCTGAATTGATAA------TATTTTTTATAGTCATGCAGTGAAGTGTATTACAC--AGAGTATTTGTACATTT---TGATAAG--ATTG--TTCTATACC
s panTro5.chr5             125162805 412 + 181907262 tttttt-----------------tttt---------AATTAGGAA-TGAG-TTTACAATTACCAGACCTTCACTA----GACTAATTATCTTCTATTTAACAGG-C------TGTATCACAG-TTTTTGTAGTGGGAAATGATGGCAGATTTTAAA----AGATTATCTTAAAATTGCAATTCCTCTTTTTCTC------TCTATAGAGCATGGCAACTGGCAGCTAATCAGCTCACTAAACAT-GTGGCACTCAGATTCTGCCTTCTTTAGACATTGGCCACCATCCAAAGCAATGAATAGGAAGA--TTTTTCTTACAAGTGACAGAATGCATATTTAAAAAGTATCCATAA-AAACTTTA----TCCAGAAAAGTAACTTGCTGAATTGATAA------TATTTTTTATAGTCATGCAGTGAAGTGTATTACACATAGAGTATTTGTACATTT---TGATAAG--ATTG--TTCTATACC
i panTro5.chr5             I 8 C 0
s panPan2.chr5             126499751 412 + 183735486 TTTTTT-----------------TTTT---------AATTAGGAA-TGAG-TTTACAATTACCAGACCTTCACTA----GACTAATTATCTTCTATTTAACAGG-C------TGTATCACAG-TTTTTGTAGTGGGAAATGATGGCAGATTTTAAA----AGATTATCTTAAAATTGCAATTCCTCTTTTTCTC------TCTATAGAGCATGGCAACTGGCAACTAATCAGCTCACTAAACAT-GTGGCACTCAGATTCTGCCTTCTTTAGACATTGGCCACCATCCAAAGCAATGAATAGGAAGA--TTTTTCTTACAAGTGACAGAATGCATATTTAAAAAGTATCCATAA-AAACTTTA----TCCAGAAAAGTAACTTGCTGAATTGATAA------TATTTTTTATAGTCATGCAGTGAAGTGTATTACACATAGAGTATTTGTACATTT---TGATAAG--ATTG--TTCTATACC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1691232 412 +   8933513 TTTTTT-----------------TTTT---------AATTAGGAA-TGAG-TTTACAATTACCAGACCTTCACTA----GACTAATTATCTTCTATTTAACAGA-C------TGTATCACAG-TTTTTGTAGTGGGAAATGATGGCAGATTTTAAA----AGATTATCTTAAAATTGCAGTTCCTCTTTTTCTC------TCTATAGAGCATGGCAACTGGCAACTAATCAGCTCACTAAACAT-GTGGCACTCAGATTCTGCCTTCTTTAGACATTGGCCACCATCCAAAGCAATGAATAGGAAGA--TTTTTCTTACAAGTGACAGAATGCATATTTAAAAAGTATCCATAA-AAACTTTA----TCCAGAAAAGTAACTTGCTGAATTGATAA------TATTTTTTATAGTCATGCAGTGAAGTGTATTAAACATAGAGTATTTGTACATTT---TGATAAG--ATTG--TTCTATACC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139821750 415 + 163208435 TTTTTT-----------------TTTT---------AATTAGGAA-TGAG-TTTACAATTACCAGACCTTCACTA----GACTAATTATCTTCTATTTAACAGG-C------TGTATCACAG-TTTTTGTAGTGGGAAATGATAGTAGATTTTAAA----AGATTATCTTAAAATTGCAATTCCTCTTTTTCTC------TCTGTGGAGCATGACAACTGGCAACTAATCAGCTCACTAAACAT-GTGGCACTCAGATTCTGCCTTCTTTAGACATTGGCCACCATCCAAAGCAATGAATAGGCAGA--TTTTTCTTACAAGTGACAGAATGCGTATTTTAAAAGTATCCATAA-AAACTTTA----TCTAGAAAAGTAACTTGCTGAATTGATAA------TATTTTTTATAGTCATGCAGTGAAGTGTATTAAACATAGAGTATTTGTATGTTTTGATGATAAG--ATTG--TTCTATACC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122805281 415 + 180051392 tttttt-----------------tttt---------AATTGGGAA-TGAG-TTTACAATTATCAGACCTTCACTA----GACTAATTATCTTCTACTTAACAGG-C------TGTATCACAG-TTTTTGTAGTGGGAAATGATAGTAGATTTTAAA----AGATTATCTTAAAATTGCAGTTCCTCTTTTTCTC------TCTATAGAGCATGGCAACTGGCAACTAATCAGCTCACTAAACAT-GTGGCGCTCAGATTCTGCCTTCTTTAGACATTGGCCACCATCCAAAGCAATAAGTAGGAAGA-TTTTTTCTTACAAGTGACAGAATGCATATTTTAAAAGTATCCATAA-AAACTTTA----TCCAGAAAAGTAACTTGCTGAATTAATAA------T-TTTGTTATAGTCATGTAGTGAAGTGTAAGAAAGATAGAGCATTTGTACCTTTTGATGATAAG--ATTG--TTCTATACC
i rheMac8.chr6             I 2 C 0
s macFas5.chr6             124228958 415 + 181584905 TTTTTT-----------------TTTA---------AATTGGGAA-TGAG-TTTACAATTATCAGACCTTCACTA----GACTAATTATCTTCTACTTAACAGG-C------TGTATCACAG-TTTTTGTAGTGGGAAATGATAGTAGATTTTAAA----AGATTATCTTAAAATTGCAGTTCCTCTTTTTCTC------TCTATAGAGCATGGCAACTGGCAACTAATCAGCTCACTAAACAT-GTGGCGCTCAGATTCTGCCTTCTTTAGACATTGGCCACCATCCAAAGCAATAAATAGGAAGA-TTTTTTCTTACAAGTGACAGAATGCATATTTTAAAAGTATCCATAA-AAACTTTA----TCCAGAAAAGTAACTTGCTGAATTAATAA------T-TTTGTTATAGTCATGTAGTGAAGTGTAAGAAAGATAGAGCATTTGTACCTTTTGATGATAAG--ATTG--TTCTATACC
i macFas5.chr6             I 2 C 0
s macNem1.NW_012012355v1    16226653 415 +  18395747 TTTTTT-----------------TTTA---------AATTGGGAA-TGAG-TTTACAATTATCAGACCTTCACTA----GACTAATTATCTTCTACTTAACAGG-C------TGTATCACAG-TTTTTGTAGTGGGAAATGATAGTAGATTTTAAA----AGATTATCTTAAAATTGCAGTTCCTCTTTTTCTC------TCTATAGAGCATGGCAACTGGCAACTAATCAGCTCACTAAACAT-GTGGCGCTCAGATTCTGCCTTCTTTAGACATTGGCCACCATCCAAAGCAATAAATAGGAAGA-TTTTTTCTTACAAGTGACAGAATGCATATTTTAAAAGTATCCATAA-AAACTTTA----TCCAGAAAAGTAACTTGCTGAATTAATAA------T-TTTGTTATAGTCATGTAGTGAAGTGTAAGAAAGATAGAGCATTTGTACCTTTTGATGATAAG--ATTG--TTCTATACC
i macNem1.NW_012012355v1   I 2 C 0
s cerAty1.NW_012002512v1     5232744 415 +  26952557 tttttT-----------------TTTA---------AATTGGGAA-TGAG-TTTACAATTATCAGACCTTCACTA----GATTAATTATCTTCTACATAACAGG-C------TGTATCACAG-TTTTTGTAGTGGGAAATGATAGTAGATTTTAAA----AGATTATCTTAAAATTGCAGTTCCTCTTTTTCTC------TCTATAGAGCATGGCAACTGGCAACTAATCAGCTCACTAAACAT-GTGGCGCTCAGATTCTGCCTTCTTTAGACATTGGCCACCATCCAAAGCAATAAATAGGAAGA-TTTTTTCTTACAAGTGACAGAATGCATATTTTAAAAGTATCCATAA-AAACTTTA----TCCAGAAAAGTAACTTGCTGAATTAATAA------T-TTTGTTATAGTCATGTAGTGAAGTGTAAGAAAGATAGAGTATTTGTACCTTTTGATGATAAG--ATTG--TTCTATACC
i cerAty1.NW_012002512v1   I 211 C 0
s chlSab2.chr23             28340659 415 +  82825804 tttttt-----------------tttt---------AATTGGGAA-TGAG-TTTACAATTATCAGACCTTCACTA----GACTAATTATCTTCTACTTAACAGG-C------TGTATCACAG-TTTTTGTAGTGGGAAATGATAGTAGATTTTAAA----AGATTATCTTAAAATTGCAGTTCCTCTTTTTCTC------TCTATAGAGCATGGCAACTGGCAACTAATCAGCTCACTAAACAT-GTGGCACTCAGATTCTGCCTTCTTTAGACATTGGCCACCATCCAAAGCAATAAATAGGAAGA-TTTTTTCTTACAAGTGACAGAATGCATATTTTAAAAGTATCCATAA-AAACTTTA----TCCAGAAAAGTAACTTGCTGAATTAATAA------T-TTTGTTATAGTCATGTAGTGAAGTGTAAGAAAGATAGAGTATTTGTACCTTTTGATGATAAG--ATTG--TTCTATACC
i chlSab2.chr23            I 6 C 0
s manLeu1.NW_012103321v1     4004466 415 -   4237731 tttttt-----------------tttA---------AATTGGGAA-TGAG-TTTACAATTATCAGACCTTCACTA----GACTAATTATCTTCTACTTAACAGG-C------TGTATCACAG-TTTTTGTAGTGGGAAATGATAGTAGATTTTAAA----AGATTATCTTAAAATTGCAGTTCCTCTTTTTCTC------TCTATAGAGCATGGCAACTGGCAACAAATCAGCTCACTAAACAT-GTGGCGCTCAGATTCTGCCTTCTTTAGACATTGGCCACCATCCAAAGCAATAAATAGGAAGA-TTTTTTCTTACAAGTGACAGAATGCATATTTTAAAAGTATCCATAA-AAACTTTA----TTCAGAAAAGTAACTTGCTGAATTAATAA------T-TTTGTTATAGTCATGTAGTGAAGTGTAAGAAAGATAGAGTATTTGTACCTTTTGATGATAAG--ATTG--TTCTATACC
i manLeu1.NW_012103321v1   I 6 C 0
s colAng1.NW_012119644v1      278102 414 -   1175262 tttttt-----------------tttA---------AATTGGGAA-TGAG-TTTATAATTACCAGACCTTCACTA----GACTAATTATCTTCTATTTAACAGG-C------TGTATCACAG-TTTTTGTAGTGGGAAATGATAGTAGATTTTAAA----AGATTATCTTAAAATTGCAGTTCCTCTTTTTCTC------TCTATAGAGCATGGCAACTGGCAACTAATCAGCTCACTAAACAT-GTGGCGCTCAGATTCTGCCTTCTTTAGACATTGGCCACCATCCAAAGCAATAAATAGGAAGA--TTTTTCTTACAAGTGACAGAATGCATATTTTAAAAGTATCCATAA-AAACTTTA----TCCAGAAAAGTAACTTGCTGAATTAATAA------T-TTTGTTATAGTCATGTAGTGAAGTGTATGAAAGACAGAGCATTTGTACCTTTTGATGATAAA--ATTG--TTCTATACC
i colAng1.NW_012119644v1   I 16 C 0
s calJac3.chr2             123615458 409 - 204313951 TTTTTT------------------------------AATTGGGAA-TGGG-TTTACAATCACCAGACCTTCTCTA----GACTAATTATCTTCTATTTAACAGG-C------TGCATCACAG-TTTTTGTAGTAGGAAATGACAGTAGATTTTAAA----AGATTATCTTAAAATTGCAATTCCTCTTTTTCTC------TCTATAGAGCATGGCAAATGGCAACTAATCAGCTCACTAAACAT-GTGCCACTCAGATTCTGCCTTCTTTAGACATTGGCCACCATCCAAAGCAATGAATA-GAAGA--TTTTTCTTTTAAGTGACAGCATGCATA-TTTAAAAGTATTCATAA-ACACTTTA----TCCAGAAAAGTAACTTGCTGAATTAATAA------TCTTTTTTATAGTCATGTATTGAAGTGTATTAAACATAGAGTGTTTGTAGCTTTTGATGATAAG--ATTG--TTCTATACA
i calJac3.chr2             I 4 C 0
s saiBol1.JH378106          55667742 416 -  71252344 TTTTTT-----------------TTTT-------TAAATTGGGAA-TGAG-TTTACAATCACCAGACCTTCTCTA----GACTAATTATCTTTTATTTAACAGG-C------TGCATCACAG-TTTTTGTAGTGGGAAATGATAGTAGATTTTAAA----AGATTATCTTAAAATTGCAGTTCCTCTTTTTCTC------TCTATAGAGCATGGCAAATGGCAACTAATCAGCTCACTAAACAT-GTGCCACTCAGATTCTGCCTTCTTTAGACATTGGCCACCATCCAAAGCAATGAATA-GAAGA--TTTTTCTTACAAGTGACAGCATGCATATTTTAAAAGTATTCATAA-AAACTTTA----TCCAGAAAAGTAACTTGCTGAATTAATAA------TGTTCTTTATAGTCATGTAGGGAAGTGTATTAAACATAGACTATTTGTAATTTTTGATGATAAG--ATTG--TTCTATACA
i saiBol1.JH378106         I 4 C 0
s cebCap1.NW_016107829v1     1364936 414 -   1400280 TTTTTT-----------------TTTT---------AATTGGGAA-TGAG-TTTACAATCACCAGACCTTCTCTA----GACTAATTATCTTCTATTTAACAGG-C------TGCATCACAG-TTTTTGTAGTGGGAAATGATAGTAGATTTTAAA----AGATTATCTTAAAATTGCAATTCCTCTTTTTCTC------TCTATAGAGCATAGCAAATGGCAAGTAATCAGCTCACTAAACAT-GTGCCACTCAGATTCTGCCTTCTTTAGACATTGGCCACCATCCAAAGCAATGAATA-GAAGA--TTTTTCTTACAAGTGACAGCATGCATATTTTAAAAGTATTCATAA-AAACTTTA----CCCAGAAAAGTAACTTGCTGAATTAATAA------TCTTTTTTATAGTCATGTAGTGAAGTGTATTAAACATAGAGTATTTGTAACTTTTGATAATAAG--ATTG--TTCTATACG
i cebCap1.NW_016107829v1   I 4 C 0
s aotNan1.NW_018505940v1    13153484 423 -  42888418 tttttt-----------------tttttttttttttAATTGGGAA-TGAG-TTTACAATCACCAGACCTTCTCTA----GACTAATTATCTTCTATTTAACAGG-C------TGTATCACAG-TTTTTGTAGTGGGAAATGATAGTAGATTTTAAA----AGATTTTCTTAAAATTGCAATTCCTCTTTTTCTC------TCTATAGAGCATGGCAAATGGCAACTAATCAGCTCACTAAACAT-GTGCCACTCAGATTCTGCCTTCTTTAGACATTGGCTACCATCCAAAGCAATGAATA-GAAGA--TTTTTCTTACAAGTGACAGCATGCATATTTTAAAAGTATTTATAA-AAACTTTA----TCCAGAAAAGTAACTTGCTGAATTAATAA------TCTTTTTTATAGTCACATAGTGAAGTGTATTAAACATAGAGTATTTGTAACTTTTGATGATAAG--ATTG--TTCTATACA
i aotNan1.NW_018505940v1   I 4 I 311
s micMur3.chr12             60519272 424 + 108143057 T--TTT-----------------TTTT-------AAAATAGGGAA-TGAGGTTCACAATTATCAGAGCTTCACTAGAATGACTACGCGTCTTTTATTTAACAGG-C------TGTATAACAG-TTTTTGTAGTGGAAAATGATAGTACATTTAAAA----AGATTATCTTAAAATTGCAATTTCTCTTCTTACT------GCCATTGAGAATGGCAACTGGCAAATAAACAGTTCACCAAATATGGTGATACTAAGATTGTGCCTTTTTCATCTATTGGCTGCCATCCAAAGCAATAAATAATAATA--TTTTTCTCACAAATGACAGAATGTATATTTTAAAAGTGTACATAAGAAACTCTA----TCCAAAAAAGTAACATGCTGGATTTATAC------CTTTTTTTTTAGTCATATATTGGGGAGTATTAAACACAGAGTATGTTTACTGTTTGATTACAAGATATTG--TTTTATACA
i micMur3.chr12            I 1 C 0
s proCoq1.NW_012155062v1     3558365 426 +  11683526 TTCTTT-----------------TTTT-------AAAATAAGGAA-TAAGGTTCACAATCATCAGAGCTTCACTAGACTGACTAAGCGTCTTTTATTTAACAGG-C------CGTATAACAG-CTTTTGTAGCGGAAAATGATAACGCATTTAAAA----AGATTATCTTAAAATTGCAATTTCTCTTCTTATC------GCTATTGAGAATGGCAACTGGCAACTACACAGTTCACCAAATGCGGTGACACTCAGATTCTGCCTTTTTCATACATTGGCTGCCATCCGAAGCAATAAATAATAATA--TTTTTCTTACAAATGACAGAATGTATATTTTAAAAGTGTACACAAGAAACTTTA----TCCAAAAAAATAACTTACTGGATTTATAG------CTTTTTTTTTAGTCATGTATTGAGGGGTATTAAACATAGAGTACCTTTACCGTTTGATTATAAGATATGA--TTTTTTACA
i proCoq1.NW_012155062v1   I 1 C 0
s otoGar3.GL873679           3044465 406 +   4132165 TTTCTT-----------------TTTT-----AAAAAATAGGAAATTAAGAGTCACAGTCATCAGAGCTTCACCA----GACTAAGTGTCTTCTATTTACCAGA-CTGTACGTGTATAATAG-TTTTTATAGATGAAAATGATAGTACATTTCAAA----AGATGATCTTAAAATTGCAATTTCTCTTCTTTTC------TCTATAAAGAATTGCAAC------------------------ATGGTGACACTCAGATTCTGCCTTTTTCAGACATTGGCTGCCATCCAAAGCAATAAATTGTAATA--TTTTTCTTACAAATGACAGAATGTATATTGTAAAACCATACACAAGAAACTTTA----TCCAAAGAATTAACTCACTGGATTCATAG------CCTTTTTTATAATCACGTGTTGAGGAGTATTAAACATAGAGCATCTGTAC-ATTTAACTATAAGATATTG--TTCTATGCA
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55494211 400 +  90702639 TTGTTG-----------------TTTT---------GACAGAGAA-TCAGAACCACAATCAT---------ACAA----GAGGATGCGCTTTCTTTTTAAGAGG-G------TTTAAAGGAG-TCTTTGCAGTGGGAACTGAGAGCAGA---GAAAACCCAGATGATC------TTGCTGTGCGCTGATTTCTCTGTGAGTCTGTAGAGAATGCCAATGAGCCACTGTTCAGG----CACAGAT-TTA-----CAGGTTCTGCCTTTATCCAAAGTTAGCC-CTACTCAGAG---TGCACAGTAGTATTTTTTTTTTATGGATGACAGAATGCATGTTGTAGAAGTACACACAGCAAAGGTCACCCTCCCCAATAAACCACTTGCTGAATTAAA----------TTTTTTTTGGTAGTGTACTGGAGTTTATTAAACATAAATGATCTTTACCCTTTGCTTGTAAG--ATGGCATTTTTGACA
i mm10.chr18               I 2 C 0
s canFam3.chr11             14893617 417 +  74389097 TGGTTTGGCCAGGGGACATGGAGTTTA---------GATAGGGAA-TGAGGTCTACCATCATCA----------A----G--------TCTACTATTTAGCAAGTC------AATGTAACTG--TTTTATGGTGGAAAATGATTGCAGGTTTTAAG----AAATTATTTTAAAATCACAATTTCCCTCCTTTTG------TCTATGAGGATTGGTGACTGACAAA----CAGTTCACTAAACATGGTGGCACTCAGACTCCCTCTTCTTTGGGCAATGGCCACCGTGCCAGACAGTATGTAATAATA--TCTTTCTTACAAATGATAGGATGCATATTTTAAAAGTCTAAACAAAAAACTCTG----CCCAAA----TAACTTGCTATATTAAAAGACTTTTTTTTTTTTGCAATGTTGTACTGAGGCATACTCTACCTAGAGTATCTTTAACTTTTGATTCTAAGATATTG--TTTTATGCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2602726 409 +   3667625 ----TT-----------------TATT---------GATAGGGAGTTGGG-TCTGCAATCATCAAACACTTAAAA----GACAGAGTATTTTCTATTTAACAAG-T------CTCATAATATTTTTTTGTAGTAGAA----ATATTAGATTAGAAA----ATACTGTCTTAAAATTATAATTTCTTCCCTCCTC------TCTGTAGAGAATG-CAATTGACAACTAAACAGTTCTCTAACATT-GTGGCACT--GATTCTTCATTCTTGAGGCATTGACTATGATCCAAAGCAAGAAGACATACTG--TTCTTTTTACAAATGACAGAAGGCATATTTTTAAATTGTACACAAGAAACTTGAC---CCCAAACAAGTAAATTTTTGGATTAGTAC------T-CCCTTTGTAGTCCTGCAGTGAGGTATATTATACATAGAATATCCTTATATTTTGGATATAAGGCATTC--TTTTATACA
i dasNov3.JH567306         C 0 C 0

a score=9903680.000000
s hg38.chr5_KI270796v1_alt     53130 668 +    172708 ATGTCTTTTTAATGATTCTTCCAAGTGC--ATCAGTCTGGTTGC-----------AAAGCTAATGGGTTGAGGTTGTCTGTGAAGAACTGGTCCAAACCCCTGGAG--AAATTCTCTGACAGCACATAGTTGAAATCCTATTATGG-CTGCTCCATAGCCAAATATTTGAGGC----ACCGATCAATGCTGGAAGTATAAGACAGAAAGAGGTGCAGAATGAGATTGAGGGCTCTTCATACAGCCTGTTGCTCTTTCACTTTTATTTGGTTGTATAAGCATTAAATAAAATT----------------TTAAA--AAGAGGAAAAGAAAACCTTGAGCCTCAAATTG-----AAAAAAAA---------------------------AAAAAA-------------------------G-TGTTTCCTCATAGGACTA-CTT----CATCTGTCAGCATCT-CTTTTATTT---CCCCTTAGTAAACCAAAACATTAGCACAGTCTTGTAGATACAAGCTACAGATTCCTCGGGGCAAATTGCACACCTTTAACTCTTTAAGGAAA--AAGAATTCTGTCCCGTAATTATTATTATGTGTCAAATTTGTTATGAAGGAACATGAACTGTGTAGCTTCTCATGAGGCACTTG----AA-G-ATTAAGGCCCTCAGTCA--AAAGG----------GAAGAGAAGAAAAGAATCAGAGTTTGCAAACTTTAAACAAAATAGAGACATCAGTATTTATTATCTGTGCATCAGTGAGATTCACAATTCTTAAAATAT
s panTro5.chr5             125163217 670 + 181907262 ATGTCTTTTTAATGATTCTTCCAAGTGC--ATCAGTCTGGTTGC-----------AAAGCTAATGGGTTGAGGTTGTCTGTGAAGAACTGGTCCAAACCCCTGGAG--AAATTCTCTGACAGCACATAGTTGAAATCCTATTATGG-CTGCTCCATAGCCAAATATTTGAGGC----ACCGATCAATGCCGGAAGTATAAGACAGAAAGAGGTGCAGAATGAGATTGAGGGCTCTTCATACTGCCTGTTGCTCTTTCACTTTTATTTGGTTGTATAAGCATTAAATAAAATT----------------TTAAA--AAGAGGAAAAGGAAACCTTTAGCCTCAAATTG---AAAAAAAAAA---------------------------AAAAAA-------------------------G-TGTTTCCTCATAGGACTA-CTT----CATCTGTCAGCATCT-CTTTTATTT---CCCCTTAGTAAACCAAAACATTAGCACAGTCTTGTAGATACAAGCTACAGATTCCTCGGGGCAAATTGCACACCTTTAACTCTTTAAGGAAA--AAGAATTCTGTCCCGTAATTATTATTATGTGTCAAATTTGTTATGAAGGAACATGAACTATGTAGCTTCTCATGAGGCACTTG----AA-G-ATTAAGGCCCTCAGTCA--AAAGG----------GAAGAGAAGAAAAGAATCAGAGTTTGCAAACTTTAAACAAAATAGAGACATCAGTATTTATTATCTGTGCATCAGTGAGATTCACAATTCTTAAAATAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126500163 667 + 183735486 ATGTCTTTTTAATGATTCTTCCAAGTGC--ATCAGTCTGTTTGC-----------AAAGCTAATGGGTTGAGGTTGTCTGTGAAGAACTGGTCCAAACCCCTGGAG--AAATTCTCTGACAGCACATAGTTGAAATCCTATTATGG-CTGCTCCATAGCCAAATATTTGAGGC----ACCGATCAATGCTGGAAGTATAAGACAGAAAGAGGTGCAGAATGAGATTGAGGGCTCTTCATACTGCCTGTTGCTCTTTCACTTTTATTTGGTTGTATAAGCATTAAATAAAATT----------------GTAAA--AAGAGGAAAAGAAAACCTTTAGCCTCAAATTG------AAAAAAA---------------------------AAAAAA-------------------------G-TGTTTCCTCATAGGACTA-CTT----CATCTGTCAGCATCT-CTTTTATTT---TCCCTTAGTAAACCAAAACATTAGCACAGTCTTGTAGATACAAGCTACAGATTCCTCGGGGCAAATTGCACACCTTTAACTCTTTAAGGAAA--AAGAATTCTGTCCCGTAATTATTATTATGTGTCAAATTTGTTATGAAGGAACATGAACTATGTAGCTTCTCATGAGGCACTTG----AA-G-ATTAAGGCCCTCAGTCA--AAAGG----------GAAGAGAAGAAAAGAATCAGAGTTTGCAAACTTTAAACAAAATAGAGACATCAGTATTTATTATCTGTGCATCAGTGAGATTCACAATTCTTAAAATAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1691644 667 +   8933513 ATGTCTTTTTAATGATTCTTCCAAGTGC--ATCAGTCTGGTTGC-----------AAAGCTAATGGGTTGAGGTTGTCTGTGAAGAACTGGTCCAAACCCCTGGAG--TAATTCTCCGACAGCACCTAGTTGAAATCCTATTATGGCCTGCTCCATAGCCAAATATTTGAGGC----ACCGATCAATGCTGGAAGTATAAGACAGAAAGAGGTGCAGAATGAGATTGA-GGTTCTTCATACTGCCTGTTGCTCTTTCACTTTTATTTGGTCGTATAAACATTAAATAAAATT----------------TTAAA--AAGAGGAAAAGAAAACCTTGAGCCTCAAATTG----------AAA---------------------------AAAAAA-------------------------G-TGTTTCCTCATAGGACTA-CTT----CATCTGTCAGCATCT-CTTTTATTT---CCCCTTAGTAAACCAAAACATTAGCACAGTCTTGTAGATACAAGCTACAGATTCCTCGGAGCAAATTGCACACCTTTAACTCTTTAAGGAAA--AATAATTCTGTCCCATAATTATTATTGTGTGTCAAATTTGTTATGAAGGAACATGAACTATGTAGCTTCTCATGAGGCACTTAGATTAA-G-ATTAAGGCCCTCAGTCA--AAAGG----------GAAGAGAAGAAAAGAATCAGAGTTTGCAAACTTTAAAACAAATAGAGACATCAGTATTTATTATCTGTGCATCAGTGAGATTCACAATTCTTAAAATAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139822165 670 + 163208435 ATGTCTTTTTAATGATTCTTCCAAGTGC--ATCAGTCTGGTTGC-----------AAAGCTAATGGGTTGAGGTTGTCTGTGAAGAACTGGTCCAAACCCCTGGAG--AAATTCTCTGACAGCACATAGTTGAAATCCTATTATGG-CTGCTCCATAGCCAAATATTTGAGGC----ACCGATCAATGCTGGAAGTATAAGACAGAAAGAGGTGCAGAACGAGATTGAGGGCTCTTCATACTGCCTGTTGCTCTTTCACTTTTATTTGGTTGTATAAGCATTAAATAAAATT----------------TTAAA--AAGAGGAAAAGAAAACCTTCAGCCTCAAATTG---AAAAAAAAAA---------------------------AAAAAA-------------------------G-CATTTCCTCATAGGACTA-CTT----TATCTGTCAGCATCA-CTTATATTT---CCCCTTAGTAAACCAAAACATTAGCACGGTCTTGTAGATACAAGCTACAGGTTCCTCGGGGCAAATTGCACACCTTTAACTCTTTAAGGAAA--AAGAATTCTGTCCCGTAATTATTATTGTGTGTCAAGTTTGTTATGAAGGAACATGAACTATATAGCTTCTCATGAGGCACTTG----AA-G-ATTAAGGCCCTCAGTCA--AAAGG----------GAAGAGAAGAGAAGAATCAGAGTTTACAAACTTTAAACAAAATAGAGACATCAGTATTTATTATCTGTGCATCAATGAGATTCACAATTCTTAAAATAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122805696 695 + 180051392 ACGTCTTTTTAATCATTCTTCCAAGTGC--ATCAGTCTGGTTGC-----------AAAGCTAATGGGTTGAGGCTGTCTGTGAAGAACTGGTCCAAACCCCTGGAG--AAATTCTCTGACAGCATGTAGTTGAAATCCTATTATGG-CTGCTCCATAGCCAAATATTTGAGGC----ACCGATCAATGCTGGAAGTATAAGACAGAAAGAGGTGCAGAATGAGATTGAGGGCTCTTCACACTGCCTGTTGCTCTTTCACTTTTATTTGGTCGTATAAGCATTAAATAAAATT----------------TTAAA--AAGAGGAAAAGAAAACCTTGAGTCTCAAATTG--aaaaaaaaaaa------------aaagaaagaaaaagaaaaaaa-------------------------G-CATTTCCTCATAGGACTA-CTT----CATCTGTCAGCATCT-CTTTTATTT---CCCCTTAGTAAACCAAAACATTAGCACAGCCTTGTAGATACAAGCTACAGATTCCTCGGGGCAAATTGCACACCTTTAACTCTTTAAGGAAA--AAGAGTTCTGTCCTGTAATTATTACTGTGTGTCAAGTTTGTTATGAAGGAACATGAACTATGTAGCTTCTCATGAGGCACTTG----AA-G-ATTAAGGCCCTCAGTCA--AAAGGAACTTGAGTAGAAGAGAAG-GAAGAATCAGAGTTTGCAAACTTTAAACAAAATAGAGACATCAGTATTTATTATCTGTGCATCAGTGAGATTCACATTTCTTAAAATAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124229373 695 + 181584905 ACGTCTTTTTAATCATTCTTCCAAGTGC--ATCAGTCTGGTTGC-----------AAAGCTAATGGGTTGAGGCTGTCTGTGAAGAACTGGTCCAAACCCCTGGAG--AAATTCTCTGACAGCATGTAGTTGAAATCCTATTATGG-CTGCTCCATAGCCAAATATTTGAGGC----ACCGATCAATGCTGGAAGTATAAGACAGAAAGAGGTGCAGAATGAGATTGAGGGCTCTTCACACTGCCTGTTGCTCTTTCACTTTTATTTGGTCGTATAAGCATTAAATAAAATT----------------TTAAA--AAGAGGAAAAGAAAACCTTGAGTCTCAAATTG--aaaaaaaaaaa------------aaagaaagaaaaagaaaaaaa-------------------------G-CATTTCCTCATAGGACTA-CTT----CATCTGTCAGCATCT-CTTTTATTT---CCCCTTAGTAAACCAAAACATTAGCACAGCCTTGTAGATACAAGCTACAGATTCCTCGGGGCAAATTGCGCACCTTTAACTCTTTAAGGAAA--AAGAGTTCTGTCCTGTAATTATTACTGTGTGTCAAGTTTGTTATGAAGGAACATGAACTATGTAGCTTCTCATGAGGCACTTG----AA-G-ATTAAGGCCCTCAGTCA--AAAGGGACTTGAGTAGAAGAGAAG-GAAGAATCAGAGTTTGCAAACTTTAAACAAAATAGAGACATCAGTATTTATTATCTGTGCATCAGTGAGATTCACATTTCTTAAAATAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16227068 694 +  18395747 ACGTCTTTTTAATCATTCTTCCAAGTGC--ATCAGTCTGGTTGC-----------AAAGCTAATGGGTTGAGGCTGTCTGTGAAGAACTGGTCCAAACCCCTGGAG--AAATTCTCTGACAGCATGTAGTTGAAATCCTATTATGG-CTGCTCCATAGCCAAATATTTGAGGC----ACCGATCAATGCTGGAAGTATAAGACAGAAAGAGGTGCAGAATGAAATTGAGGGCTCTTCACACTGCCTGTTGCTCTTTCACTTTTATTTGGTCGTATAAGCATTAAATAAAATT----------------TTAAA--AAGAGGAAAAGAAAACCTTGAGTCTCAAATTG---aaaaaaaaaa------------aaagaaagaaaaagaaaaaaa-------------------------G-CATTTCCTCATAGGACTA-CTT----CATCTGTCAGCATCT-CTTTTATTT---CCCCTTAGTAAACCAAAACATTAGCACAGCCTTGTAGATACAAGCTACAGATTCCTCGGGGCAAATTGCGCACCTTTAACTCTTTAAGGAAA--AAGAGTTCTGTCCTGTAATTATTACTGTGTGTCAAGTTTGTTATGAAGGAACATGAACTATGTAGCTTCTCATGAGGCACTTG----AA-G-ATTAAGGCCCTCAGTCA--AAAGGGACTTGAGTAGAAGAGAAG-GAAGAATCAGAGTTTGCAAACTTTAAACAAAATAGAGACATCAGTATTTATTATCTGTGCATCAGTGAGATTCACATTTCTTAAAATAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5233159 693 +  26952557 ACGTCTTTTTAATCATTCTTCCAAGTGC--ATCAGTCTGGTTGC-----------AAAGCTAATGGG-TGAGGCTGTCTGTGAAGAACTGGTCCAAACCCCTGGAG--AAATTCTCTGACAGCATGTAGTTGAAATCCTATTATGG-CTGCTCCATAGCCAAATATTTGAGGC----ACCGATCAATGCTGGAAGTATAAGACAGAAAGAGGTGCAGAATGAGATTGAGGGCTCTTCACACTGCCTGTTGCTCTTTCACTTTTATTTGGTCGTATGAGCATTAAAAAAAATT----------------TTAAA--AAGAGGAAAAGAAAACCTTGAGCCTCAAATTG---aaaaaaaaaa------------aaagaaagaaaaagaaaaaaa-------------------------G-CATTTCCTCATAGGACTA-CTT----CATCTGTCAGCATCT-CTTTTATTT---CCCCTTAGTAAACCAAAACATTAGCACAGCCTTGTAGATACAAGCTACAGATTCCTCGGGGCAAATTGCGCACCTTTAACTCTTTAAGGAAA--AAGAGTTCTGTCCTGTAATTATTACTGTGTGTCAAGTTTGTTATGAAGGAACATGAACTATGTAGCTTCTCATGAGGCACTTG----AA-G-ATTAAGGCCCTCAGTCA--AAAGGGACTTGAGTAGAAGAGAAG-GAAGAATCAGAGTTTGCAAACTTTAAACAAAATAGAGACATCAGTATTTATTATCTGTGCATCAGTGAGATTCACATTTCTTAAAATAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28341074 706 +  82825804 ACGTCTTTTTAATCATTCTTCCAAGTGC--ATCAGTCTGGTTGC-----------AAAGCTAATGGGTTAAGGCTGTCTGTGAAGAACTGGTCCAAACCCCTGGAG--AAATTCTCTGACAGCATGTAGTTGAAATCCTATTATGG-CTGCTCCATAGCCAAATATTTGAGGC----ACCGATCAATGCTGGAAGTATAAGACAGAAAAAGGTGCAGAATGAGATTGAGGGCTCTTCACACTGCCTGTTGCTCTTTCACTTTTATTTGGTCGTATAAGCATTAAATAAAATT----------------TTAAA--AAGAGGAAAAGAAAACCTTGAGCCTCAAATTG---aaaaaaaaaaaaaaaaaaaaagaaagaaagaaaaagaaaaaaa-------------------------G-CATTTCCTCATAGGACTA-CTT----CATCTGTCAGCATCT-CTTTTATTT---CCCCTTAGTAAACCAAAACATTAGCACAGCTTTGTAGATACAAGCTACAGATTCCTCGGGGCAAATTGCGCACCTTTAACTCTTTAAGGAAA--AAGAGTTCTGTCCTGTAATTATTACTGTGTGTCAAGTTTGTTATGAAGGAACATGAACTATGTAGCTTCTCATGAGGCACTTG----AA-G-ATTAAGGCCCTCAGTCA--AAAGGGACTTGAGTAGAAGAGAAG-GAAGAATCAGAGTTTGCAAACTTTAAACAAAATAGGGACATCAGTATTTATTATCTGTGCATCAGTGAGATTCACATTTCTTAAAATAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4004881 694 -   4237731 ACGTCTTTTTAATTATTCTTCCAAGTGC--ATCAGTCTGGTTGC-----------AAAGCTAATGGGTTGAGGCTGTCTGTGAAGAACTGGTCCAAACCCCTGGAG--AAATTCTCTGACAGCATGTAGTTGAAATCCTATTATGG-CTGCTCCATAGCCAAATATTTGAGGC----ACCGATCAATGCTGGAAGTATAAGACAGAAAGAGGTGCAGAATGAGATTGAGGGCTCTTCACACTGCCTGTTGCTCTTTCACTTTTATTTGGTCGTATGAGCATTAAATAAAATT----------------TTAAA--AAGAGGAAAAGAAAACCTTGAGCCTCAAATTG---aaaaaaaaaa------------aaagaaagaaaaagaaaaaaa-------------------------G-CATTTCCTCATAGGACTA-CTT----CATCTGTCAGCATCT-CTTTTATTT---CCCCTTAGTAAACCAAAACATTAGCACAGCCTTGTAGATACAAGCTACAGATTCCTCGGGGCAAATTGCGCACCTTTAACTCTTTAAGGAAA--AAGAGTTCTGTCCTGTAATTATTACTGTGTGTCAAGTTTGTTATGAAGGAACATGAACTATGTAGCTTCTCATGAGGCACTTG----AA-G-ATTAAGGCCCTCAGTCA--AAAGGGACTTGAGTAGAAGAGAAG-GAAGAATCAGAGTTTGCAAACTTTAAAAAAAATAGAGACATAAGTATTTATTATCTGTGCATCAGTGAGATTCACATTTCTTAAAATAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      278516 697 -   1175262 ATGTCTTTTTAATGATTCTTCCAAGTGC--ATCAGTCTGATTGC-----------AAAGCTAATGGGTTGAGGCTGTCTGTGAAGAACTGGTCCAAACCCCTGGAG--AAATTCTCTGACAGCACATAGTTGAAATCCTATTATGG-CTGCTCCATAGCCAAATATTTGAGGC----ACCGATCAATGCTGGAAGTATAAGACAGAAAGAGGTGCAGAATGAGATTGAGGGCTCTCCACACTGCCTGTTGCTCTTTCACTTTTATTTGGTCGTATAAGCATTAAATAAAATT----------------TTAAA--AAGAGGAAAAGAAAACCTTGAGCCTCAAATTGaaaaaaaaaaaaa------------aaagaaagaaaaagaaaaaaa-------------------------G-CATTTCCTCATAGGACTA-CTT----CATCTGTCAGCATCT-CTTTTATTT---CCCCTTAGTAAACCAAAACATTAACACAGCCTTGTAGATACAAGCTACAGATTCCTCGGGGCAAATTGCGCACCTTTAACTCTTCAAGGAAA--AAGAGTTATGTCCTATAATTATTACTGTGTGTCAAGTTTGTTATGAAGGAACATGAACTATGTAGCTTCTCATGAGGCACTTG----AA-G-ATTAAGGCCCTCAGTCA--AAAGGGACTTGAGTAGAAGAGAAG-GAAGAATCAGAGTTTGCAAACTTTAAACAAAATAGAGACATCAGTATTTATTATCTGTGCATCAGTGAGATTCACATTTCTTAAAATAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123615867 645 - 204313951 ATGTCTTTTTAATGATTCTTCCAAGTGCTTATCAGTCTGGTTGC-----------AAAGCTAATGGGTTGAGGTTGTCTGTGAAGAACTGGTCCAAACCCCTGGAG--AAATTTCCTGACAGCACATAGTTGAAAGTCTATTATGG-CTGCTCCATGGCCAAATATTTGAGGC----ACCCATCAATTCTGGAAGTATAAAACAGAATGAGGTGCAGAATGAGACTGAGGACTCTTCATACTGGCTGTTGTCCTTTCACTTTTATTTGGTTGTATAAGCATTAAATAAAATT----------------TTAAA--AAGAGGAAAAGAAAACATTGAACTTCAAATTG--------AAAAA--------------------------AAAAAAA-------------------------G-CATTTCCTCATAGGACTT-CTT----CATCTTTCAGCATCT-CTTTTATTT---CCCTTTAGTTAACCAAAGCATGAGAACAGCCTTGTAGATACAAGCTACAGGTTCCTAGGGGAAAA----------------------------------TTCCGTCCTGTAATTATTATTGTGTGTCAAGTTTGTTTTGAAGGAACCTGAACTATGTAGCCTCTTATGAGGCACTTG----AA-G-ATTAAGGCCCTTAGTCA--AAAGGGGGTTGAATAGAAGAGAAG-GAAGAATCAGAGTTTACACACTTTAAACAAAACGGAGACATCAGTATTTATTTTCTGTGCATCAGTGAGATTTATAACTCTTAAAATAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55668158 646 -  71252344 ATGTCTTTTTAATGATCCTTCCAAGTGCATATCAGTCTGGTTGC-----------AAAGCCAATGGATTGGGGTTGTCTGTGAAGAACTGGTCCAAGCCACTGGAG--AAATTTCCTGACAGCGCATGGTTGAAAGCCTATTATGG-GTGCTCCATGGCCAAATATTTGAGGC----ACCCATCAATGCTGGAAGTATAAAACAAA--GAGGTACAGAATGAGACGGAGGACTCTTCATACTGACTGTTGTCCTTTCACTTTTATTTGGTTGTATAAGCGTTAAATAAAATT----------------TTAAA--AAGAGGAAAAGAAAACATTGAACCTCAATTTG--------AAAAA-----------------------AATAAAAAAA-------------------------G-CATTTCCTCATAGGACTT-CTT----CATCTTTCAGCATCT-CTTTTATTT---CCCTTTAGTAAACCAAAACATGAGAACAGCCTTGTAGATACATGCTACAGGTTCCTAAGGGAAAA----------------------------------TTCTGTCCTGTAATTATTATTGTGTGTCAAGTTTGTTCTGAAGGAACCTGAACTATGTAGCTTCTTATGAGGAACTTG----AA-A-ATTAAGGCCCTTAGTCA--AAAGGGGCTTGAGTAGAAGAGAAG-GAAGAATCAGCGTTTACACCCTTTAAACAAAATGGAGACATCAGTATTTATTTTCTGTGCATCAGTGAGATTTATAACTCTTAAAATAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1365350 657 -   1400280 ATGTCTTTTTAATGATTCTTGCAAGTGCATATCAGTCTGGTTGC-----------AAAGCTAATGGATTGAGGTTGTCTGTGAAGAACTGGTCCAAACCCCTGGAG--AAATTTCCTGACAGCACATGGTTGAAAGCCTATCATGG-CTGCTCCATGGCTAAATACTTGAGGC----ACCCATCAATGCTGGAAGTATAAAACAGAAAGAGGTGCCGAATGAGACTGAGGACTCTTCATACTGACTGTTGTCCTTTCACTTTTATTTGGTTGTATAAGCGTTAAATAAAATT----------------TTAAA--AAGAGGAAAAGAAAACATTGAACCTCAAATTG--------aaaaa--------------aaaaaaaagaaaaaaaaaa-------------------------G-CATTTCCTCATAGGACTT-CTT----CATCTTTCAGCATCT-CTTTTATTT---CCCTTTAGTAAACCAAAACATGAGAACAGCCTTGTAGATACAAGCTACAGGTTTCTAGGGGAAAA----------------------------------TTCTGTCCTGTGATGATTATTGTGTGTCAAGTTTGTTCTGAAGGAACCTGAACTATGTAGCTTCTTAGGAGGCACTTG----AA-G-ATTAAGGCCCTTAGTCA--AAAGGGGCTTGAGTAGAAGAGAAG-GAAGAATCAGCGTTTATACACTTTAAACAAAATGGAGACATCAGTATTTATTTTCTGTGCATCAGTGAGATTTATAACTCTTAAAATAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13154218 642 -  42888418 ATGTCTTTTTAATGATTCTTCCAAGTGCATATCAATCTGGTTGC-----------AAAGCTAATGGGTTGAGGTTGTCTGTGAAGAACTGGTCCAAACCCCTGGAG--AAATTTCCTGATAGCACATAGTTGAAAGCCTATTTTGG-CTGCTCCATGGCCGAATATTTGAGGC----ACCCATCAATGCTGGAAGTATAAAACAGAAAGAGGTGCAGAATGAGACCGAGGACTCTTCATACTGACTGTTGTCCTTTCACTTTTATTTGGTTGTATAAGCGTTAAATAAAATT----------------TTTAA--AAGAGGAAAAGAAAACATCGAACCTCAAATTG--------AAAAA--------------------------AAAAAAG-------------------------G-CATTTCCTCATAGAACTT-CTT----CATCTGTCAGCATCA-CTTTTATTT---CCCTTTAGTAAACCAAAACATGAGAACAGCCTTGTAGATCTAAGCTACAGGTTCCTAGGGGAAA-------------------------------------CTGTCCTGTAATTATTATTGTGTGTCAAGTTTGTTCTGAAGGAACCTGAACTATGTAGCTTCTTATGAGGCACTTG----AA-G-ATTAAGGCCCTTAGTCA--AAAGGTGCTGGAGTAGAAGAGAAG-GAAGAATCAGAGTTTACACACTTTAAACAAAATAGAGACATCAGTATTTATTTTCTGTGCATCAGTGAGATTTATAACTCTTAAAATAT
i aotNan1.NW_018505940v1   I 311 C 0
s micMur3.chr12             60519696 663 + 108143057 ACATCTTTTTAATGATTCTTCCAAGTGC--ATCAGTCTGGTTGC-----------AAAGCTTATGGGTTGGGCTTGTCTGTGCAGAACTGGGCCAACCCCCTAGAG--AAATTCTCTGACTGCAAACAGCTGAAAACCTATTATGG-CTGCTCCACAGCCAGACATTTGAGGC----ACTGATGAGTTCTGGAAGTGCAAGAGAGGGAGAGGTGCAGGATGAGGTTGAGGGGTTTTTATACTGCAAGTTATTCTTTCACTTTGATTCAGCTCTATAGGCATTAAAGGAAATT----------------TTAAAATAAGAGGGAAAGAAACCGTTGAGCCTCAAACTG--------AAAAA--------------------------GTATCAT-------------------------G-CATTTCCTCAAAGTCCTA-CCT----TATCTGTCAGCATCT-TGTTTATTT---CTTCTTAGTAAACCAACACATTAGAACAGCCCTGTAGATGCACGCTGCAGGTTCTTAGGAGCAAATTGCATGCCTCTGACTCTATAAGGAGA--AAGAATTCTGCCCTGTAAATATTATTGTATGTC-------------AGGAGCATGAACTATCTTGCTTCTCATAGGGCACTCA----AA-G-ATTAAGGCACTCTGTCA--AAAAGGACTTGAGTAGAAGAAAAG-GGAGAATCA-AGCTTATAAACTTTAAACAAAATAAAGACATCAGTATCTATTATGTGTGCATTAGTGAAATTTAAAATTCTTAAAACAT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3558791 662 +  11683526 ATATCTTTTTAATGATTCTTCCAAGTGC--ATCAGTCCGATTGC-----------AAAGCTTATGGGTTGGGCTTGTCTGTGAAGAACTGGGCCAA-CCCCTAGAG--AAATTGCCTGACTGCACACAGTGGAGAACCTATTATGG-CTGCTCCACAGCCAGACATTTGAGGC----AC-GATGAATTCTGGAAGTGCAAGAGAGGGAGAGGTGTAGGATGAGATTGAGGGGTCTTTATACTGCTGGCTATTCTTTTGCTTTGATTTGGCTGTATAAGCATTAAAGGAAATT----------------TTAAAATAAGAGGGAAAGAAAACATTGAGCCTCAAACTG-------AAAAAA--------------------------ATATTAT-------------------------G-CATTTCCTCAAAGCCCTA-CCT----TATCTGTCAGCATCT-TGTTTATTT---CTTCTTAGTAAACCAACACGTTAGAACGGCCTCGTAGATGCATGCTACAGGTTCCTAGGGGCAAATTGCATGCCGTTGACTCTGTAAGGAGA--AAGAATTCCACCCTGTAAGTATTATTGTATGTC-------------AGGAGCATGAACTCTCTTGCTTCTCATGGGGCACTCA----AA-G-ATGAAGGCACTCAGTCA--AAAAGGACTTGAGTAGAAGAAAAG-GAAGAATCA-AGCTTATAAACTTTAAACAAAATACAGACATCAGTATTTATTATCTGTGCATTAGTCAGATTTACAATTCTTAAAAAAT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3044871 684 +   4132165 ATGTCATCTTACCGATTCTTCTAAGTAC--ATCAGTCTGGTGGC-----------AAAGCTTATGGGTTGGGGTCGTCTGTGAGGTACTGGGCCAACCCCCTAGAG--TAATTCCCTGACTGCACACAGTAGAAAACCTGTTAGGA-CTGCTCCCCAGCAAGACCCCTGAGGT----ATGGATCAATGCTAGAAGTGCAAG-GGGGAGGAGATACAGGCTGAGACTGCAGGGTCTCCATACTGCCAGTTATTCTTTTTCTTTGATTCAGTTCTATAAGCATTAAGGAAAATT----------------TTAAAGTAAAAAGAAATGAAAACATCAAGCCTCAGACTG--AAAAAAAAAAA--------------------------ATATCAT-------------------------GCCATTTCCTCAAAGCCCGG-CCTTATCTATCTGTCAACGTCT-TGTTTATTT---CTTCTTAGTAAACCAACACATTACGACAGACGTGTGGATGCAAGCTGCAGGTTCCTAGGGGCAAATTGCATGCCTTTAACTCTTTAAGGAGA--AAGAATTCTGCCCCCTAAGTATTATTGAGTGTCAGTTTAGCTAGGAAGGAGCATGAGCCAACTTGCTTCTCATGCGGCACTGG----GT-G-ACTAAGCCACTCAGCCA--TGAAGCCCTTGAGTGGAAGAAAAG-GAAGAATCA---CTTCTGAACTTTGAACAAAATAGAGACATTAGCATTTATTATCTGTGCCTCGGTGAGATTTACAATTCTTAAAATAT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55494611 654 +  90702639 --ATGTTTATAA-GATTCTTCCAAGCAA--ATCAGTCCACCTGCTTGATGGGCCAAAAGCTTGCAGG-TAGGGCTTTCTGTAAAGAGTCAGTCCAGCTCCCTAGAGAAAAATCCCCTGACTGCACACAGTTGCAAACCTCTTAGGG-CTACTCTACAGCCAAGCATTGGAGGCGGCTATTGATCAGTGCTGGGAATTCAGGAGAGGGCCAAGTGCAGGGGAAGGTTGAAGG-TCCTCCCACAGCC------------------ATGTAGCTATGGGAGCATTACAGGGATGT----------------TTAAA--AC-----AAAGAAACCACTGAGGTTCACCTTG--------AAAAT---------------------------ACAATA-------------------------T-TCTTTCCTCATAGCTCTTCCCT----CATCAATCAGCATCAGCATCGAGTTGAGCATCGAAAGCAGCTGACATATGTGAATAGACTCGTA-AGGCAAGGGGCAGGCTCATCAGACCCA-TGGCATGCC-TTAACT-----AGGAAAGTAGTGAATGTGCCCTGC---CATTACTGTG-----ATTTCCTTATGAAGGAACACTCATTACACCACTTCCC-TGAGGCACTTG----GA-GAACGGGGGCCTTCAGTCA--TAAGAAACTCTGGTAGAAGGCAGA-GAAGCATGCGAGTTTGCCGCCTTTAAGCATAACAGAGACATCAGTGTTTATTATGTGCTGGCCAGTGAGATTTACAATTCCTAAAATAT
i mm10.chr18               C 0 I 248
s canFam3.chr11             14894034 654 +  74389097 GTGGCTTTTCAGTGATTCTTCCAAGTAA--A-----------GC-----------AAAGCTTAAGTCTCAAGGTTGTCTGT---GAACGGATCCAGACCCCTAGAG--AAATTCCCTGACTGCACACAGTTGAAAACCCATTATGG-CTGCTCCACAGCCAAACATTTGAGGC----ACCGATCAATGCTGGAAGTGCAAGAGAGGGAGAG-------------CTGAGGGGTCTTAATACTGCCAGTTGTT-TTTCATCTCGATTCAGCTTTATCAGCATTAAAAGAAATTAAAACCaaaaaaaaaaaaaaa--aagaggaaaagaaaaCACTGAGTCCCAAATTG--------AAAAA------------------------------CAT-------------------------A-TCTTTCCCCATAGCCCTA-CCT----CATCTGTCAGCATCC-CATTTGGTT---CTTCTTAGTAAATTAACACATCAGAATAGCCTTGTAGATGCAAGATATAGGTTCCTAGGGACAAATAATATGCCTTTAACTCTTTAAGGGA---AAGAATGCTGCCTTAC-ATTATTATTGTGTGTCAGTTTTGTTATGAAGGAACATAAACCATCTTGCTGGACATGAGGCACTTGG---AA-G-ATTAAGGCTTTCAGCCACCAAAGA------AATGACAAAAGAG-GAGGAATCAGAGTTTAAAGACTTCAAACAAAACAGTGACATTAGTATTTATTACCTGTGCATCGCTGAGATTTACAATGCTTAAAATAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2603135 721 +   3667625 ATGTCTCTTTACTGATTTTTCCAAGTGC--ATCAGTCTGGTTAC-----------AAAGCTTACAACTTAGGGTTGTTTGCAAAGGACTGGTGCAGCCCCCTAGAG--CAATTCCCTGACTGCACATAGTTGAAAACTTATTACGG-CCAACCCACAGACAAACATTTGAAGC----ATCAATCAATGCTCGGAGTGCAAGAGAAGGAGAGTTGCAGAAGGAAGCGAAGG--CCTTAATGCCTCCAGTTGT--TTTTACTTCGATTCAGCTTCATACACACTGAAGGAAATA-----CAaaaaaaaaagtaaa--gaaaagaaaagaaaagaaaga-----aagaagaaaaagaaagaaa------------gaagaaagaaagaaaggaaaaTATTAGTCACAAATGAAAAGTATCTG-CCTTTTCTCATCGCCCTC-CCT----CATCTGTCAGCATCT-CCTTTGTTT------CTTAGTAAACCAACACATCAGTATGGCCTTGTAGATGCAAGCTATAGGCTCCTAGGGGCAAATTTTATGCCTTTAATTTTTTAAGGAGA--AAGGATGCTGCCCTGTAATTATTATTGTATGTCAGTTTTGTTGTGAAGGAACATGAACAATCTTGTTTCTCATGAGGTGCTCA----GATG-ATTAAAGCCCTCAGCCA--CAAAGGACTTGAATAG-AGAGAAG-GAAGAATCAGAGTTTAGAGCCTTCAAACAAAATAGAGACATCAGTATTTATTATCTGTACATCACTGAGATTTACAATTCTTAAAATAT
i dasNov3.JH567306         C 0 C 0

a score=5856865.000000
s hg38.chr5_KI270796v1_alt     53798 389 +    172708 GCAAGC-TAAACAGTTGTGAAGCAGATAAAAAAGACTACAAAACATCCAAAGAGATCGCTTATATTTACATATAAAAGAAATATCACATTGATGCATGTTAGCACTAATGA-TTTAAAATAC--------------------------TGAGCACAT--ATTTTCTCAAAACTA--AGAACAATTGTCATAAATTTTTAAAGTCC-TT-TA--AAATATACAGTGTCAAGGGTTATGGAAACAGCACCATAAAAGTTAATATCTTGCATATATTCAAGGAT-TAAATTTAAAATATTTGGTATTTGGAATGAGGCTAATATAACATGAAG-CTTAGGAAAAGTATGTTTGAATACAT-------------------------GAAAAATGAATGTAGAAATGAAGCCAGTGGAGGTGG-AAAAAAGCCAGGGCACA-GGAAAAAGAAAACAAAA
s panTro5.chr5             125163887 389 + 181907262 GCAAGC-TAAACAGTTGTGAAGCAGATAAAAAAGACTACAAAACATCCACAGAGATCGCTTATATTTACATATAAAAGAAATATCACATTGATGCATGTTAGCACTAATGA-TTTAAAATAC--------------------------TGAGCACAT--ATTTTCTCAAAACTA--AGAACAATCGTCAGAAATTTTTAAAGTCC-TT-TA--AAATATACAGTGTCAAGGGTTGTAGAAACAGCACCATAAAAGTTAATATCTTGCATATATTCAAGGAT-TAAATTTAAAATATTTGGTATTTGGAATGAGGCTAATATAACATGAAG-CTTAGGAAAAGTATGTTTGAATACAT-------------------------GAAAAATGAAAGTAGAAATGAAGCCAGTGGAGGTGG-AAACAAGCCAGGGCACA-GGAAAAAGAAAACAAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126500830 389 + 183735486 GCAAGC-TAAACAGTTGTGAAGCAGATAAAAAAGACTACAAAACATCCACAGAGATCGCTTATATTTACATATAAAAGAAATATCACATTGATGCATGTTAGCACTAATGA-TTTAAAATAC--------------------------TGAGCACAT--ATTTTCTCAAAACTA--AGAACAATCGTCAGAAATTTTTAAAGTCC-TT-TA--AAATATACAGTGTCAAGGGTTATAGAAACAGCACCATAAAAGTTAATATCTTGCATATATTCAAGGAT-TAAATTTAAAATATTTGGTATTTGGAATGAGGCTAATATAACATGAAG-CTTAGGAAAAGTATGTTTGAATACAT-------------------------GAAAAATGAAAGTAGAAATGAAGCCAGTGGAGGTGG-AAACAAGCCAGGGCACA-GGAAAAAGAAAACAAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1692311 389 +   8933513 GCAAGC-TAAATAGTTGTGAAGCAGATAAAAAAGACTACAAAACATCCAAAGAGATCGCTTATATTTACATATAAAAGAAATATCACATTGATGCATGTTAGCACTGATGA-TTTAAAATAC--------------------------TGAGCACAT--ATTTTCTCAAAACTA--AGAACAATCGTAAGAAATTTTTAAAGTCC-TT-TA--AAATATGCAGTGTCAAGGGTTATGGAAACAGCACCATAAAAGTTAATATCTTGCATATATTCAAGGAT-TAAATTTAAAATATTTGGTATTTGGAATGAGGCTAATATAACATGAAG-CTTAGGAAAAGTATGTTTGAATACAT-------------------------GAAAAATGAATGTAGAAATGAAGCCAGTGGAGGTGG-AAAAAAGCCAGGGCACA-GGAAAAAGAAAACAAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139822835 372 + 163208435 GCAAGC-TAAACAGTTGTGAAGCAGATAAAAAAGACTACAAAACAT--ACAGAGACCACTTATATTTACATATAAAAGAAATATCACATTGATGCATGTTAGCACTAATGA-TTTAAAATAC--------------------------TGAGCACAT--ATTTTCTCAAAACTA--AGAACAATCGTTAGAAATTTTTAAAGTCC-TT-TA--AAATATGCAGT---------------AACAACACCATAAAAGTTAATACCTTGCATATATTCAAGGAT-TAAATTAAAAATATTTGGTATTTGGAATGAGGCTAATATAACATGAAG-CTTAGGAAAAGTATGTTTGAATAAAT-------------------------GAAAAATGAATGTAGAAATGAAGCCAGTGGAGGTGG-AAAAAAGCCAGGGCACA-GGAAAAAGAAAACAAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122806391 389 + 180051392 GCAAAC-TAAACATTTGTGAAGCAGATAAAAAAGACTACAAAACATCCAAAGAAATCGCTCATATTTACATATAAAAGAAATATCCCACTGATGCATGTTAACACTAATGA-TTTAAAATAC--------------------------TGAGCACAT--ATTTTCTCAAAACTA--AGAACAATCATTAGAAATCTGTAAAGCCC-TT-TA--AAATATGCAGTGTCAAGGGTTATGGAAACAGCACTATAAAAGTTAATGTCTTGCATATATTCAAGGAT-TAAATTTAAAATATTTGGTATTTGGAATGAGGCTAATATAACATGAAG-TTTAGGAAAAGTATGTTTGAATACAT-------------------------GAAAAATGAATGTAGAAATGAAGCCAGTGGAGGTGG-AAAAAAGCCAGGGCACA-GGAAAAAGAAAACGAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124230068 389 + 181584905 GCAAAC-TAAACATTTGTGAAGCAGATAAAAAAGACTACAAAACATCCAAAGAAATCGCTCATATTTACATATAAAAGAAATATCCCACTGATGCATGTTAACACTAATGA-TTTAAAATAC--------------------------TGAGCACAT--ATTTTCTCAAAACTA--AGAACAATCATTAGAAATCTGTAAAGCCC-TT-TA--AAATATGCAGTGTCAAGGGTTATGGAAACAGCACTATAAAAGTTAATGTCTTGCATATATTCAAGGAT-TAAATTAAAAATATTTGGTATTTGGAATGAGGCTAATATAACATGAAG-CTTAGGAAAAGTATGTTTGAATACAT-------------------------GAAAAATGAATGTAGAAATGAAGCCAGTGGACGTGG-AAAAAAGCCAGGGCACA-GGAAAAAGAAAACGAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16227762 389 +  18395747 GCAAAC-TAAACATTTGTGAAGCAGATAAAAAAGACTACAAAACATCCAAAGAAATCGCTCATATTTACATACAAAAGAAATATCCCACTGATGCATGTTAACACTAATGA-TTTAAAATAC--------------------------TGAGCACAT--ATTTTCTCAAAACTA--AGAACAATCATTAGAAATTTGTAAAGCCC-TT-TA--AAATATGCAGTGTCAAGGGTTATGGAAACAGCACTATAAAAGTTAATGTCTTGCATATATTCAAGGAT-TAAATTAAAAATATTTGGTATTTGGAATGAGGCTAATATAACATGAAG-CTTAGGAAAAGTATGTTTGAATACAT-------------------------GAAAAATGAATGTAGAAATGAAGCCAGTGGAGGTGG-AAAAAAGCCAGGGCACA-GGAAAAAGAAAACGAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5233852 389 +  26952557 GCAAAC-TAAACATTTGTGAAGCAGATAAAAAAGACTACAAAACATCCAAAGAAATAGCTCATATTTACATATAAAAGAAATATCCCACTGATGCATGTTAACACTAATGA-TTTAAAATAC--------------------------TGAGCACAT--ATTTTCTCAAAACTA--AGAACAATCGTTAGAAATTTGTAAAGCCC-TT-TA--AAATATGCAGTGTCAAGGGTTATGGAAACAGCACTATAAAAGTTAATGTCTTGCATATATTCAAGGAT-TAAATTAAAAATATTTGGTATTTGGAATGAGGCTAATATAACATGAAG-CTTAGGAAAAGTATGTTTGAATACAT-------------------------GAAAAATGAATGTAGAAATGAAGCCAGTGGAAGTGG-AAAAAAGCCAGGGCACA-AGAAAAAGAAAACGAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28341780 387 +  82825804 GCAAAC-TAAACATTTGTGAAGCAGATAAAATAGACTACAAAACATCCAAAGAAATCGCTCATATTTACATATAAAAGAAATATCCCACTGATGCATGTTAACACTAATGA-TTTAAAATAC--------------------------TGAACACAT--ATTTTCTCAAAACTA--AGAACAATCGTTAG--ATTTGTAAAGCCC-TT-TA--AAATATGCAGTGTCAAGGGTTATGGAAACAGCACTATAAAAGTTAATGTCTTGCATATATTCAAGGAT-TAAATTAAAAATATTTGGTATTTGGAATGAGGCTAATATAACATGAAG-CTTAGGAAAAGTATGTTTGAATACAT-------------------------GAAAAATGAATGTAGAAATGAAGCCAGTGGAGGTGG-AAAAAAGCCAGGGCACA-GGAAAAAGAAAACGAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4005575 389 -   4237731 GCAAAC-TAAACATTTGTGAGGCAAATAAAAAAGACTACAAAACATCCAAAGAAATCGCTCATATTTACATATAAAAGAAATATCCCACTGATGCATGTTAACACTAATGA-TTTAAAATAC--------------------------TGAGCACAT--ATTTTCTCAAAACTA--AGAACAATCGTTAGAAATTTGTAAAGCCC-TT-TA--AAATATGCAGTGTCAAGGGTTATGGAAACAGCACTATAAAAGTTAATGTCTTGCATATATTCAAGGAT-TAAATTAAAAATATTTGGTATTTGGAATGAGGCTAATATAACATGAAG-CTTAGGAAAAGTATGTTTGAATACAT-------------------------GAAAAATGAATGTAGAAATGAAGCCAGTGGAGGTGG-AAAAAAGCCAGGGCACA-GGAAAAAGAAAACGAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      279213 377 -   1175262 GCAAAC-TAAACATTTGTGAAGCAGATAGAAAAGACTACGAAACATCCAAAGAAATCGCTCATATTTACATATAAAAGAAATATCCCACTGATGC------------ATGA-TTTAAAATAC--------------------------TGAGCACAT--ATTTTCTCAAAACTA--AGAACAATCATTAGAAATTTGTAAAGCCC-TT-TA--AAATATGTGGTGTCAAGGGTTATGGAAAAAGCACTATAAAAGTTAATGTCTTGCATATATTCAAGGAT-TAAATTAAAAATATTTGGTATTTAGAATGAGGCTAATATAACATGAAG-CTTAGGAAAAGTATGTTTGAATACAT-------------------------GAAAAATGAATGTAGAAATGAAGCCAGTGGAGGTGG-AAAAAAGCCAGGGCACA-AGAAAAAGAAAACGAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123616512 409 - 204313951 GCGATC-TAAACATTTGTGAAGCAGATAAAAAAGGCTACAAAACATCCAAAGAGATCGTCTATATTTACATATAAAAGAAATATCACACTGATGCATGTTAGCACTAATGA-TTTAAAATACTACTTACACTTTAAGTGGCTGTCCTGTGAGCACAT--ATTTTCTCAAAACTA--AGAACAATCATTAGAATTTTTTAAAGTTC-TT-TA--AAATATGCAGTGTCAAGGGTTATGGAAACAGCACCAT-AAAGTTAATATCTTGCATATTTTCAAGGAT-TAAATTAAAAATATTTGGTATTTGGAATGAGGCTAATATAACATGGAG-CTTAAGGAAATTATGTTTGAATATAT-------------------------GGAAAATGAACACAGAAATGAAGCCAATGGAGGTGG-AAAAAAGCCAGGGCATA-AGA-----AAAACAAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55668804 414 -  71252344 GCAGTC-TAAACATTTGTGAAGCAGATAAAAAAGGCTACAAAACATCCAAAGAGATCGTCTATATTTACATATAAAAGAAATATCACACTGATGCATGTTAGCACTAATGA-TTTCAAATACTACTTACACTTTAAGTGGCTGTCCTATGAGCACAT--ATTTTCTCAAAACTA--AGAACAATCATCAGAATTTTTTAAAGCTC-TT-TA--AAATATGCAGTGTCAAGGGTTATGGAAACAGCACCAT-AAAGTTAATATCTTGCATATTTTCAAGGAT-TAAATTACAAATATTTGGTATTTGGAAGGAAGCTAATATAACATGGAG-CCTAAGAAAAGTATGTTTGAATATAC-------------------------GGAAAATGAACACAGAAATGAAGCCAGCAGGGGTGG-AAAAAAGCCAGGGCACA-GGAAAAATAAAACAAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1366007 413 -   1400280 GCAGTC-TAAACACTTGTGAAGCAGATAAAAAAGGCTACAAAACATCCAAAGAGATCGTCTATATTTACATATAAAAGAAATATCACATTGATGCATGTTAGCACTAATGA-TTTAAAATACTACTTACACTTTAAGTGGCTGTCCTATGAGCACAT--ATTTTCTCAAAACTA--AGAACAATCATTAGAATTTTTTAAAGCTC-TT-TA--AAATATGCAGTGTCAAGGGTTATGGAAACAGCA-CAT-AAAGTTAATATCTTGCATATTTTCAAGGAT-TAAATTAGAAATATTTGGTATTTGGAATGAAGCTAATATAACATGGAG-CCTAAGAAAAGTATGTTTGAATATAT-------------------------GGAAAATGAACACAGAAATGAAGCCAGCGGAGGTGG-AAAAAAGCCAGGGCACA-GGAAAAATAAAACAAAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13154860 414 -  42888418 GCAATC-TAAACATTTGTGAAGCAGATAAAAAAGGCTACAAAACATCCAAAGAGATCGTCTATATTTACATATAAAAGAAATATCACACTGATGCATGTTAGCACTAATGA-TTTAAAATACTACTTACACTTTAAGTGGCTGTCCTATGAGCACAT--ATTTTCTCAAAACTA--AGAACAATCATTAGAATTTTTTAAAGCTC-TT-TA--AAATATGCAGTGTCAAGGGTTATGGAAACAGCACCAT-AAAGTTAATATCTTGCATATTTTCAAGGAT-TAAATTAAAAATATTTGGTATTTGGAATGAGGCTAATATAACATGGAG-CCTAAGAAAAGTACGTTTGAATATAT-------------------------GGAAAATAAACACAGAAATGAAGCCAGTGGAGGTGG-AAAAAAGCCAGGGCACA-GGAAAAATAAAACAAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60520359 412 + 108143057 GCAAGC-AAAACTTTTGTGAAGCAGAAAAAAAAAACTAAAAAGCATCCAAAGAGATTGCCCATATTAACATATAAAAGAAATATCACACTG--ACATGTTAGCACTAATGA-TTTCAAATACTACTTACACTTTAAGTGGCTGTCCTATGAATACAT--ATTTTCTCAAAACGA--AGAACAATTATTAGAATTTCTTAAAGCCATTT-TT--AAATATGCAGTGTCAAGGGTTATGGAAACAGCACCAT-GAAGTTAATATCTTGCATATATTTAAGGATCCAAATTGAAAATATTTGGTATTTGGAATGAGGCTAATATAACATGAAG-CTTAGGAGAAGCATGTTTGAACAC---------------------------AAAAAGTGAACACAGAAATGAAGCC-ATGGAGTTGGAAAAAAAGCCAGGGCaca-gaaaaaacaaaataaaa
i micMur3.chr12            C 0 I 405
s proCoq1.NW_012155062v1     3559453 414 +  11683526 GCAAGC-AAAACATTTGTGAAGCAGATAAAAAAAACTAGAAAACATCCAGAGAGATTGCCTATATTAACATATAAAAGAAATATCACACTGACACATGTTAGCATTAATGA-TTTAAAATACTACTTACACTTTAAGTGGCTGTCCTACGAGTACAT--ATTTTCTCAAAACCA--AGAACAATTATTAGAATTTCTTAAAGCCCTTT-TT--AAATATGCAGTGTCAAGGGTTATGGAAACAGCACCAT-GAAGTTAATATCTTGCATATATTTAAGGGTCCAAATTGAAAATATCTGGTATTTGGAATGAGGCTAATATAACACAAAG-CTTAGGAAAAGCA--TTTGAACACA--------------------------AAAAAACCAACACAGAAATGAAGCCAATGGGGTTGG-AAAAAAGCCAGGGCATAGGAAAAAACAAAATAAAA
i proCoq1.NW_012155062v1   C 0 I 5
s otoGar3.GL873679           3045555 441 +   4132165 GCAAGC-AAAACATTTGAGAAGCAGAT--AAAAAACTATAAAACATCCAAAGAAATCGTCAGTATTAACGTATAAAAGAAATATCACACTGATGCATGTTAGCACGAATGA-TTTAAAATACGACTTACACTTCACATGGCTGTCCTCTGAGCACATTATTTTTCTCAAAACGA--AGAACAATTATTCGGATTTCTTACAGGC--TT-TT--AAATACGGAGTGTCAAGGGTTATGAAAGCAGCACCTT-GAAGTTAATATCTTACATATATTTAAGGATCCAAATTGGAAATATTTAGTGTTTGGAATAAGGTTCATATAACATGAAC-CTGAGGAAAAACATGCTTGAACACACACATGCACGGACACACACATACACGCAAAAATGAACACAGAAATGAAGCCAGTGATGCTGGGGAAAAAGTCAGGGCATAGGAAATAACAAAACGAAG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14894688 407 +  74389097 GCAAGCAAAAACATTTGTGAAGCAGATAAAGAAGACTACAAAACATCCAAAGAGATTGCTAATATTAACACATAAAAGAAATATCACACCTAAGCATGTTAACACTAATGA-TTTAAAATACTACTTACACTTTAAGTGGCTGGCCTATGAG-ACAT--ATTTTCTCACAACC---AGGACAATTACTAGAATTTTTTTAAGTCC-TTGTT--AAATGTGCAGTGTCAAGGGTTATGGAAACAACACCA--GGATTTCATATCTTGCATACATTTAAGAATCTGAATTGAAAATACTTGGTATTTGGGATGAGGCCACTGT-ACGTGAAG-CTTAGGAAAAGCATGTTTGAATAC---------------------------AAAGAATAAACACC-AGCTGAAGCCAATGGAGGTGT-AAAAAAGCCAAAGCACA-AGAAAAATAAAACA---
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2603856 414 +   3667625 GCAAGCAAAAACATTTGTGAGGTAGATAAAGAAGATTACAAAACATCAAAAGAGATTGCTTATATTAATATATAAAAGAAATATTACCCTGAATCATATTAGCACTAATGATTTTAAAATACTACTCACAC-----GTAGCTGTCCTATGAGCACAT--ATTTTCACAAAATCAGGAAAACAATTACTAGAGATTTTTAAAAATC-TT-TGTTAAATAAGCAGTGTCAAGGGTTATGGAAACAGTACTGT-GAAATTAACATTTTATATATATTTAAGGATCTAAATAGAAAATATTTGGTATTTGAGGTGAGGCCAATAAAACATAAAGTTTTAGGAAAAACAGGTTTGAATAC---------------------------AAGGAATGAGGAGCAAAATAAAGCCAATGGAGGTAT-AAAAAATCCAGGGCACA--GAAAAATAAAACAAAA
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55495265 248 +  90702639 I

a score=1742692.000000
s hg38.chr5_KI270796v1_alt     54187 142 +    172708 TAGGAGAAGTGTATCACAT------AAAAACA--TAAATCCTCCTGTA-TTATTTGGCAGATACATAA-TTCACATTCGTTTCATTTTTT-GCAAGCCAAAATATGAATATTTTGATTTT--ACTGAAGGAGATGCTGGTAGAGCAGTTATAAAT
s panTro5.chr5             125164276 143 + 181907262 TAGGAGAAGTATATCACGT------AAAAAAA---AAATCCTCCTGTA-TTATTTGGCAGCTACATAA-TTCACATTCATTTTATTTTTT-GCAAGTCAAAATATGAATATTTTGATTTTACACTGAAGGAGATGCTGGTAGAGCAGTTATAAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126501219 144 + 183735486 TAGGAGAAGTATATCACGT------AAAAAAA--AAAATCCTCCTGTA-TTATTTGGCAGCTACATAA-TTCACATTCATTTTATTTTTT-GCAAGTCAAAATATGAATATTTTGATTTTACACTGAAGGAGATGCTGGTAGAGCAGTTATAAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1692700 144 +   8933513 TAGGAGAAGTGTATCACGT------AAAAAAAAAAAAATCCTCCTGTA-TTATTTGGCAGCTACATAA-TTCACATTCATTTTATTTTTT-GCAAGCCAAAATATGAATATTTTGATTTT--ACTGAAGGAGATGCTGGTAGAGCAGTTATAAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139823207 143 + 163208435 TGGGAGAAGTGTGTCACGT------AAAAAAA--TAAATGCTCCTGTA-TTATTTGGCAGCTACATAA-TTCACATTCATTTTATTTTTT-GCAAG-CAAAATATGAATATTTTGATTTTACACTGAAGGAGATGCTGGTAGAGCAGTTATAAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122806780 145 + 180051392 TAGGAGAAGTGTGTCACAT------AAAAAAA-TTAAATGCTCCTGTG-TTATTTGGCAGCTATGTAA-TTCACATTCATTTTATTTTTT-GCAAGCCCAAATATGAATACTTTGATTTTATACTGAAGGAGATGCTGGTAGAGCAGTTATAAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124230457 145 + 181584905 TAGGAGAAGTGTGTCACAT------AAAAAAA-TTAAATGCTCCTGTG-TTATTTGGCAGCTATGTAA-TTCACATTCATTTTATTTTTT-GCAAGCCCAAATATGAATACTTTGATTTTATACTGAAGGAGATGCTGGTAGAGCAGTTATAAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16228151 145 +  18395747 TATGAGAAGTGTGTCACAT------AAAAAAA-TTAAATGCTCCTGTA-TTATTTGGCAGCTATGTAA-TTCACATTCATTTTATTTTTT-GCAAGCCCAAATATGAATACTTTGATTTTATACTGAAGGAGATGCTGGTAGAGCAGTTATAAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5234241 142 +  26952557 T---AGAAGTGTGTCACGT------AAAAAAA-ATAAATGCTCCTGTA-TTATTTGGCAGCTATGTAA-TTCACATTCATTTTATTTTTT-GCAAGCCCAAATATGAATACTTTGATTTTATACTGAAGGAGATGCTGGTAGAGCAGTTATAAAT
i cerAty1.NW_012002512v1   C 0 I 5163
s chlSab2.chr23             28342167 145 +  82825804 TAGGAGAAGTGTGTCACGT------AAAAAAA-AAAAATGCTCCTGTA-TTATTTGGCAGCTATGTAA-TTCACATTCATTTTATTTTTT-GCAAGCCCAAATATGAATACTTTGATTTTATACTGAAGGAGATGCTGGTAGAGCAGTTATAAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4005964 144 -   4237731 TAGGAGAAGTGTGTCACGT-------AAAAAC-ATAAATGCTCCTGTA-TTATTTGGCAGCTATGTAA-TTCACATTCATTTTATTTTTT-GCAAGCCCAAATATGAATACTTTGATTTTATACTGAAGGAGATGCTGGTAGAGCAGTTATAAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      279590 145 -   1175262 TAGGAGAAGTGTGTCACGT------AAAAAAA-ATAAATGCTCCTGTA-TTATTTGGCAGCTACGTAA-TTCACATTCATTTTATTTTCT-GCAAGCCCAAATATGAATACTTTGATTTTATACTGAAGGAGATGCTGGTAGAGCAGTTATAAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123616921 143 - 204313951 TAGGAGAAGTGTGTCACAT-------AAAAAA---AAATTCTCCTGTATTTTTTTGGCAGCTACATAA-TTCATGCTCATTTCATTTATT-GCAAGCCAAAATATGAATATTTTGATTTCATACTGAAAGATATGCTGGTAGAGCAGTTATAAAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55669218 143 -  71252344 TAGGAGAAGTGTGTCATGT------AAAAAAA---AAATGCTCCTATA-TTTTTTGGCAGCTACATAA-TTCACTCTCATTTTATTTATT-GCAAGCCAAAATATGAATATTTTGATTTCATACTGAAAGAGATGCTGGTAGAGCAGTTATAAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1366420 149 -   1400280 TAGGAGAAGTGAGTCACGTAAAAAAAAAAAAA---AAATGCTCCTGTA-TTTTTTAGCAGCTATGTAA-TTCACTCTCATTTTATTTATT-GCAAGCCAATATATGAATATTTTGATTTCATACTGAAAGAGATGCTGGTAGAGCAGTTATAAAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13155274 144 -  42888418 TAGGAGGTGTGTGTCACGT-----TAAAAAAA---AAATGCTCCTGTA-TTTTTTGGCAGCTACATAA-TTCACTCTCATTTTATTTATT-GCAAGCCAAAATATGAATATTTTGATTTCATACTGAAAGAGATGCTGGTAGAGCAGTTATAAAT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3559872 146 +  11683526 TAGGAGAAATGTGCCACAT------AAAAAAC--TAAATGCTCCTGTA-TGATTTGGCAGCTACATAATTTGACATTCATTATATTTTTTTGTAGACCAAAATATGAATATTTTGATTTTAAACTAAAGAAGATTCTGGTAGAGTGGTTATAAAT
i proCoq1.NW_012155062v1   I 5 C 0
s otoGar3.GL873679           3045996 133 +   4132165 TAGGGGAAACGTGTCACAT------AAAAAAC---GAATGCTCCT-----------GCAGCTACATAA-TTGACATTCATTATATTTTTTGGTAGGCC-AAACATGAATGTTTTGATTTTAAAGTAAAGAAGATTCTGGTAGAGTAGTTATAAAT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14895095 138 +  74389097 CAGTAGAAGTGCGCCTCAC------AAAAATA-CCAA---CTTGTGGA-TTATTTATCAGCGGCGTAA-TTGGCATCC-CTTGATTGATT-G---ATCAAAATGTGAATATTTTGATTTTAAATTAAAGGAGGTGACAGTGGAGTTGTCATAAAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2604270 140 +   3667625 TAGGAGAAGTGTGTCACAA------TAAAGGC-TTTGA--CTCCTATA-CTATTTGGCAGCTATATAA-TCGATACTC--TATTTTTTTG-GTAGGTCAAAATATGGGTATTTTTATTTCAAACTAAAGGAAATATT-GTAGAGTGATTGGAAAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60520771 405 + 108143057 I
e mm10.chr18                55495265 248 +  90702639 I

a score=760173.000000
s hg38.chr5_KI270796v1_alt     54329 60 +    172708 AAG-AAAACC--GTTTAG-AGACTTTATAGTCCATGT-AAAACCTTACTGAACTTTTAAATACCG
s panTro5.chr5             125164419 60 + 181907262 AAG-AAAACC--ATTTAG-AGACTTTATAGTCCATGT-AAAACCTTACTGAACTGTTAAATACCG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126501363 60 + 183735486 AAG-AAAACC--ATTTAG-AGACTTTATAGTCCATGT-AAAACCTTACTGAACTGTTAAATACCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1692844 61 +   8933513 AAG-AAAACC--GTTTAG-AGACTTTATAGTCCATGTAAAAACCTTACTGAACTTTTAAATACCG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139823350 59 + 163208435 AAG-AAAACC--CTTTAG-AGACTTTATAGTCCGTGT-AAAACCTCACTGAACT-TTAAATACCG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122806925 60 + 180051392 AAG-AAAACC--ATTTAG-AGACTTTATAGTCCATGT-AAAACCTTACTGAACTTTTAAATAGCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124230602 60 + 181584905 AAG-AAAACC--ATTTAG-AGACTTTATAGTCCATGT-AAAACCTTACTGAACTTTTAAATAGCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16228296 60 +  18395747 AAG-AAAACC--ATTTAG-AGACTTTATAGTCCATGT-AAAACCTTACTGAACTTTTAAATAGCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5239546 60 +  26952557 AAG-AAAACC--ATTTAG-AGACTTTATAGTCCATGT-AAAACCTTACTGAACTTTTAAATAGCA
i cerAty1.NW_012002512v1   I 5163 C 0
s chlSab2.chr23             28342312 60 +  82825804 AAG-AAAACC--ATTTAG-AGACTTTATAGTCCATGT-AAAACCTTACTGAACTTTTAAATAGCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4006108 60 -   4237731 AAG-AAAACC--ATTTAG-AGACTTTATAGTCCATGT-AAAACCTTACTGAACTTTTAAATAGCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      279735 60 -   1175262 AAG-AAAACC--ATTTAG-AGACTTTATAGTCCATGT-AAAACCTTACTGAAGTTTTAAATAGCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123617064 60 - 204313951 AAG-AAAAAC--ATTTAG-ACACTTTATATTCCATGT-CAAACCTTACTGAAATTTTAAATACCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55669361 60 -  71252344 AAG-AAAACC--ATTTGG-AGACTTTATATTCCATGT-CAAACCTTACTGAACTTTTAAATACCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1366569 60 -   1400280 AAG-AAAACC--ATTTAG-AGACTTTATATTCCATGT-CAAACCTTACTGAACTTTTAAATACTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13155418 60 -  42888418 AAG-AAAACC--ATTCAG-AGACTTTATATTCCATGT-CAAACCTTACTGAACTTTTAAATACCA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3560018 61 +  11683526 AAG-AAACAG--ATTCAGAGAACTTTATATTCCATGT-AAAACATTACTGGACTTGGAAATACTA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3046129 61 +   4132165 AAGAAAACAG--AGTTAG-GGACATTACTTTCCTTGT-AAAACCTTATTGAACTTTTAAATGCCA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14895233 62 +  74389097 AGG-AAAAACAAATTTAG-ATACTTTTTCTTACATGT-AATATCTTACTGAAGTTTTTAATGCTG
i canFam3.chr11            C 0 I 223
s dasNov3.JH567306           2604410 61 +   3667625 ATG-AAAATA-AATTTAG-ATATTTTATCATCAATGT-AAAAGCCTACTGAAATCTTTAATACTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60520771 405 + 108143057 I
e mm10.chr18                55495265 248 +  90702639 I

a score=1682932.000000
s hg38.chr5_KI270796v1_alt     54389 126 +    172708 TTTTTAAAGGACTCAGTCAACCTCTGATTGTTCTTGTTCCAATTTTACCCAATCATGTAACCAGTGGCTTTGGGAGAAACTCCTTTAGAGATGTATATTTTGCAGATCAGTGACA-GAAAACAAAC--T
s panTro5.chr5             125164479 128 + 181907262 TTTTTAAAGGACTCAGTCAACCTCTGATTGTTCTTGTGCCAATTTTACCCAATCATGTAACCAGTGGCTTTGGGAGAAACTCCTTTAGAGATGTATATTTTGCAGATCAGTGACA-GAAAACAAACTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126501423 128 + 183735486 TTTTTAAAGGACTCAGTCAACCTCTGATTGTTCTTGTGCCAATTTTACCCAATCATGTAACCAGTGGCTTTGGGAGAAACTCCTTTAGAGATGTATATTTTGCAGATCAGTGACA-GAAAACAAACTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1692905 128 +   8933513 TTTTTAAAGGACTCAGTCAACCTCTGATTGTTCTTGTTCCAATTTTACCCAATCATGTAACCAATGGCTTTGGGAGAAACTCCTTTAGAGATGTATATTTTGCAGATCAGTGACA-GAAAACAAACTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139823409 128 + 163208435 TTTTTAAAGGACTCAGTCAACCTCCTATTGTTCTTGTGCCAATTTTACCCAATCATGTAACCAGTGGCTTTGGGAGAAACTCCTTTAGAGATGTATATTTTGCAGATCAGTGACA-GAAAACAAACTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122806985 128 + 180051392 TTATTAAAGGACTCAGTCAACCTCAGATTCTTCTTGTGCCAATTTTACCCAATCATGTAACCAGTGGCTTTGGGAGAAACTCCTTTAGAGATGTATATTTTGCAGATCAGTGACA-GAAAACAAACTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124230662 128 + 181584905 TTATTAAAGGACTCAGTCAACCTCAGATTCTTCTTGTGCCAATTTTACCCAATCATGTAACCAGTGGCTTTGGGAGAAACTCCTTTAGAGATGTATATTTTGCAGATCAGTGACA-GAAAACAAACTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16228356 128 +  18395747 TTATTAAAGGACTCAGTCAACCTCAGATTCTTCTTTTGCCAATTTTACCCAATCATGTAACCAGTGGCTTTGGGAGAAACTCCTTTAGAGATGTATATTTTGCAGATCAGTGACA-GAAAACAAACTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5239606 128 +  26952557 TTTTTAAAGGACTCAGTCAACCTCAGATTCTTCTTGTGCCAATTTTACCCAATCATGTAACCAGTGGCTTTGGGAGAAACTTCTTTAGAGATGTCTATTTTGCAGATCAGTGACA-GAAAACAAACTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28342372 128 +  82825804 TTTTTAAAGGACTCAGTCAACCTCAGATTCTTCTTGTGCCAATTTTACCCAATCATGTAACCAGTGGCTTTGGGAGAAACTCCTTTAGAGATGTATATTTTGCAGATCAGTGACA-GAAAACAAACTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4006168 128 -   4237731 TTTTTAAAGGACTCAGTCAACCTCAGATTCTTCTTGTGCCAATTTTACCCAATCATGTAACCAGTGGCTTTGGGAGAAACTCCTTTAGAGATGTCTATTTTGCAGATCAGTGACA-GAAAACAAACTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      279795 128 -   1175262 TTTTTAAAGGACTCAGTCAACCTCAGATTCTTCTTGTGCCAATTTTACCCAATCATGTAACCAGTGGCTTTAGGAGAAACTCCTTTAGAGATGTGTATTTTGCAGATCAGTGACA-GAAAACAAACTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123617124 126 - 204313951 TTTTTAAAGGACTTAGTCAACTTCAGATTGTTCTTGGGCCACTTTTACCCAATCATGTAACCAGT--CACTGGGAGAAACTCCTTTAGAGATGTATATTTTCGGGATCAGTGACA-GAAAACAAACTTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55669421 126 -  71252344 TTTTTAAAGGACTTAGTCAACTTCAGATTGTTCTTATGCCACTTTTACCCAATCATGGAGTCAGT--CTTTGGGAGAAACTCCTTTAGAGATGTATATTTTCGGGATCAGTGACA-GAAAACAAACTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1366629 126 -   1400280 TTTTTAAAGGACTTAGTCAACTTCAGATTGTTCCTGTGCTACTTTTACCCAATCAGGTAATCAGT--CTTTGGGAGAAACTCCTTTAGAGATGTATGTTTTCGGGATCAGTGATA-GAAAACAAACTTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13155478 126 -  42888418 TTTTTAAAGGACTTAGTCAACTTCAGATTGTTCTTGGGCCACTTTTACCCAATCATGTAATCAGT--CTTTGGGAGAAACTCCTTTAGAGATGTATATTTTTGGGATCAGTGACA-GAACACAAACTTT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3560079 126 +  11683526 TTTTTAAGGGATTTAATAAACTTGTAATTGTTTTTGTGCTGATTTTACCCAATCATCCAACTAATGTCTTTGGGAGAAATCCCTTTAGAGAGTGATATTTTGCAGATCTGTAACA-GAAAACAAACT--
i proCoq1.NW_012155062v1   C 0 I 203
s otoGar3.GL873679           3046190 112 +   4132165 TTTTTAAAGGAGTGAATAAACTTGTGATTGTTTTTGTGCTGATTTTACCCGATCATCTAACTAGTGACATTG--------------AGAGAGCAGCCATTTGCAGATCTGTAACA-GAAAACAAACT--
i otoGar3.GL873679         C 0 I 2
s canFam3.chr11             14895518 128 +  74389097 ttttttAAGAATTTAATCAACTTCTGATTGTTCTTGTGCTTATTCTCCTCAATCATCCAACCAGTGGCTTTGGGTGAAAATCCTTTAGAGAGAGATGATTTGCAGATCTGTGACAGGAAAGCAAACTT-
i canFam3.chr11            I 223 C 0
s dasNov3.JH567306           2604471 123 +   3667625 TTTTTAAAGGATGTAATCAACTTCTAATTATTCTTGTGCCTGTTCTACCCAGTCAT----CCATTTGCTTTAGGA-AAACTCCTTTGGAGTGGTGTCTTTTGCAGACCTGTGGCA-GAAACCAAACTTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60520771 405 + 108143057 I
e mm10.chr18                55495265 248 +  90702639 I

a score=417571.000000
s hg38.chr5_KI270796v1_alt     54515 33 +    172708 GCTTTTCTTTCTTGTGGTCTGCTACTACTCCTC
s panTro5.chr5             125164607 33 + 181907262 GCTTTTCTTTCTTGTGGTCTGCTCCTCCTCCTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126501551 33 + 183735486 GCTTTTCTTTCTTGTGGTCTGCTCCTCCTCCTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1693033 33 +   8933513 GCTTTTCTTTCTTGTGGTCTGCTCCTCTTCCTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139823537 33 + 163208435 GCTTTTCTTTCTTGTGGTCTGCTCCTCTTCCTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122807113 33 + 180051392 GCTTTTCTTTCTTGTGGTCTGCTCTTCTTCCTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124230790 33 + 181584905 GCTTTTCTTTCTTGTGGTCTGCTCTTCTTCCTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16228484 33 +  18395747 GCTTTTCTTTCTTGTGGTCTGCTCTTCTTCCTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5239734 33 +  26952557 GCTTTTCTTTCTTGTGGTCTGCTCTTCTTCCTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28342500 33 +  82825804 GCTTTTCTTTCTTGTGGTCTGCTCTTCTTCCTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4006296 33 -   4237731 GCTTTTCTTTCTTGTGGTCTGCTCTTCTTCCTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      279923 33 -   1175262 GTTTTTCTTTCTTGTGCTCTGCTCTTCTTCCTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123617250 33 - 204313951 GTTTTTCTATCTTTTGGTCTGCTCCTCTTCCTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55669547 33 -  71252344 GCTTTTCTATCTTTTGGTCTGCTCCTCTTCCTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1366755 33 -   1400280 GCTTTTCTATCTTTTGGTCTGTTCCTCTTCCTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13155604 33 -  42888418 GCTTTTCTATCTTTTGGTCTGCTCCTCTTCCTC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3046304 33 +   4132165 GGTCTTCTTTCTCATGATCTGCTCTTTTTCCTC
i otoGar3.GL873679         I 2 C 0
s canFam3.chr11             14895646 33 +  74389097 ACTCTTCTTTCTCATGATTTGCTCTTCCTTCTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2604594 33 +   3667625 GCTCTTCGTTTTCATGATCTCCTATTCATTCTC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60520771 405 + 108143057 I
e proCoq1.NW_012155062v1     3560205 203 +  11683526 I
e mm10.chr18                55495265 248 +  90702639 I

a score=364436.000000
s hg38.chr5_KI270796v1_alt     54548 46 +    172708 GTGTtgtattaggcagggttctctagagggatag-aactaatgg---a--at
s panTro5.chr5             125164640 46 + 181907262 ATGTtgtattaggcagggttctctagagggatag-aactaatgg---a--at
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126501584 46 + 183735486 ATGTtgtattaggcagggttctctagagggatag-aactaatgg---a--at
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1693066 49 +   8933513 GTGTtgtattaggcagggttctctagagggatagaaactaatgg---aatat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139823570 46 + 163208435 ATGTtgtattagtcagggttctctagagggatag-aactaatgg---a--at
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122807146 44 + 180051392 ATGTtgtattagtcagggttctctagaggcatag-aactaatgg---a----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124230823 44 + 181584905 ATGTtgtattagtcagggttctctagaggcatag-aactaatgg---a----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16228517 46 +  18395747 ATGTtgtattagtcagggttctctagaggcatag-aactaatgg---a--at
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5239767 44 +  26952557 ATGTtgtattagtcagggttctctagagtggtag-aactaatgg---a----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28342533 44 +  82825804 ATGTtgtattagtcagggttctctagagggatag-aactaatgg---a----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4006329 44 -   4237731 ATGTtgtattagtcagggttctctagagtgatag-aactaatgg---a----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      279956 44 -   1175262 ATGTtgtattagtcagggttctctagagggatag-aactaatgg---a----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123617283 43 - 204313951 ATGTtgtgttagtcagggttctctagaggggcag-agctcacgg--------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55669580 43 -  71252344 ATGTtgtgttagtcagggttctctagaggaacag-aactcatgg--------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1366788 46 -   1400280 ATGTtgtgttagtcagagttctctagagggacag-aactcatggaat-----
i cebCap1.NW_016107829v1   C 0 I 6
s aotNan1.NW_018505940v1    13155637 46 -  42888418 CTGTtgtgttagtcagggttctctagagggacag-aactcatggaat-----
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60520771 405 + 108143057 I
e canFam3.chr11             14895679  0 +  74389097 C
e proCoq1.NW_012155062v1     3560205 203 +  11683526 I
e otoGar3.GL873679           3046337  0 +   4132165 C
e dasNov3.JH567306           2604627  0 +   3667625 C
e mm10.chr18                55495265 248 +  90702639 I

a score=68203.000000
s hg38.chr5_KI270796v1_alt     54594 100 +    172708 atacatgtatgagtttattaagtatgaataa--atatatatgagtttattaagtatttacatacatatcagttt---------------------------attaagtatgaagtcacacaatcgcaag
s panTro5.chr5             125164686 100 + 181907262 atatatatatgagtttattaagtatgaataa--atatatatgagtttattaagtatttatatacatatgagttt---------------------------attaagtatgaagtcacacaatcacaag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126501630 127 + 183735486 atatatatatgagtttattaagtatgaaTAA--ATATATATGAGTTTATTAAGTATTTATATACATATGAGTTTATtaagtatttatatacatatgagttcattaagtatgaagtcacacaatcacaag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1693115 102 +   8933513 atatatatatgagtttgttaagtatgaataaatatatatatgagtttattaagtatttatatacatatgagttt---------------------------attaagtatgaagtcacacaatcgcaag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139823616  73 + 163208435 atatatatgtgagtttattaagtattaataa--atgtatatgagttc------------------------------------------------------attaagtattaagtcacataattgcaag
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122807190  42 + 180051392 ----at---------------------atat--atatatat------------------------------------------------------------attaagtattaagtcacacgatcgcaag
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124230867  40 + 181584905 ---------------------------atat--atatatat------------------------------------------------------------attaagtattaagtcacacgatcgcaag
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16228563  46 +  18395747 atatat---------------------atat--atatatat------------------------------------------------------------attaagtattaagtcacacgatcgcaag
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5239811  38 +  26952557 -----------------------------at--atatatat------------------------------------------------------------attaagtattaagtcacatgatcgcaag
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28342577  38 +  82825804 -----------------------------ct--atatatat------------------------------------------------------------attaagtattaagtcacacgatcgcaag
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4006373  38 -   4237731 -----------------------------at--atatatat------------------------------------------------------------attaagtattaagtcacacgatcgcaag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      280000  40 -   1175262 ---------------------------atat--atatatat------------------------------------------------------------attaagtattaagtcacatgatcgcaag
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123617326   9 - 204313951 ------------------------------------------------------------------------------------------------------------------------aatcacaaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55669623   9 -  71252344 ------------------------------------------------------------------------------------------------------------------------aatctcaga
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13155683   6 -  42888418 ---------------------------------------------------------------------------------------------------------------------------cacaaa
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60520771 405 + 108143057 I
e canFam3.chr11             14895679   0 +  74389097 C
e proCoq1.NW_012155062v1     3560205 203 +  11683526 I
e otoGar3.GL873679           3046337   0 +   4132165 C
e cebCap1.NW_016107829v1     1366834   6 -   1400280 I
e dasNov3.JH567306           2604627   0 +   3667625 C
e mm10.chr18                55495265 248 +  90702639 I

a score=3462264.000000
s hg38.chr5_KI270796v1_alt     54694 346 +    172708 gtcccacaataga----ctgcaggctgaggagcaaagagagccagtccaagttccaaaaccgaggaacttggagtccgatgttcaagggtaggaagcatccagcacaggagaaagatgtaggctgggaggctaggccagtctctctttttacatttttctgcctgctttacattctaggcatgctggcaactgattagatggtgcccacccagattaagggtgggtctgcctttcccagcccactcattcaaatgttaatcttctttggcaacaccctcacaaacacacccaggatcaataatttgtatccttcaatccaatcaggttgacacagtat-taaccatcacaT
s panTro5.chr5             125164786 350 + 181907262 gtcccacaatagactgtctgcaggctgaggagcaaagagagccagtccaagttccaaaaccgaggaacttggagtccgacgttcaagggtaggaagcatccagcacaggagaaagatgtaggctgggaggctaggccagtctctctttttacatttttctgcctgctttacattctaggcatgctggcagctgattagatggtgcccacccagattaagggtgggtctgcctttcccagcccactcattcaaatgttgatcttctttggcaacatcctcacaaacacacccaggatcaataatttgtatccttcaatccaatcaggttgacacagtat-taaccatcacaT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126501757 350 + 183735486 gtcccacaatagactgtctgcaggctgaggagcaaagagagccagtccaagttccaaaaccgaggaacttggagtccgacgttcaagggtaggaagcatccagcacaggagaaagatgtaggctgggaggctaggccagtctctctttttacatttttctgcctgctttacattctaggcatgctggcagctgattagatggtgcccacccagattaagggtgggtctgcctttcccagcccactcattcaaatgttgatcttctttggcaacatcctcacaaacacacccaggatcaataatttgtatccttcaatccaatcaggttgacacagtat-taaccatcacaT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1693217 350 +   8933513 gtcccacaatagactgtctgcaggctgaggagcaaagagagccagtccaagttccaaaaccgaggaacttggagtccgatgttcaagggtaggaagcatccagcacaggagaaagatgtaggctgggaggctaggccagtctctctttttacatttttctgcctgctttacattctaggcatgctggcagctggttagatggtgcccacccagattaagggtgggtctgcctttcccagcccactcattcaaatgttaatcctctttggcgacaccctcacaaacacacccaggatcaataatttgtatccttcaatccaattaggttgacacagtat-taaccatcacaT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139823689 350 + 163208435 gtcccacaacagactgtctgcaggctgaggagcaaggagagccagtccaagttccaaaactgaggaacatggagtctaatgttcaagggcaggaagcatccagcacaggagaaagatgtaggctgggaggctaggccagtctctcttttcacatttttctgcctgttttacattctaggcgtgctggcagctgattagctggtgcccacccagattaagcgtgggtctgcctttcccagcccactcattcaaatgttaatcttctttggcaacatcctcacaaacacacccaggatcaataatttgtatccttcaatccaatcaggttgacacagtat-taaccatcacaC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122807232 351 + 180051392 gtcccacaacagactgtctgcaggctgaggagcaaggagagctagtccaagttccaaaactgaggaacttgtagtccgatgttcaagggtaggaagcacccagcacaggagaaagatgtaggctgggaggcaagggcagtctctcttttcacatttttctgcctgctttacattctaggagtgctggcagctgattagatggtgcccacccagattaagggtgggtctgcctttcccagctcactgactcaaatgttaatcttctttggcaacaccctcacagacacacccaggatcaataatttgtatccttcaatccaatccggttgacaaagtatgtaaccatcacaC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124230907 351 + 181584905 gtcccacaacagactgtctgcaggctgaggagcaaggagagctagtccaagttccaaaactgaggaacttgtagtccgatgttcaagggtaggaagcacccagcacaggagaaagatgtaggctgggaggctagggcagtctctcttttcacatttttctgcctgctttacattctaggagtgctggcagctgattagatggtgcccacccagattaagggtgggtctgcctctcccagctcactgactcaaatgttaatcttctttggcaacaccctcacagacacacccaggatcaataatttgtatccttcaatccaatccggttgacacagtatgtaaccatcacaC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16228609 351 +  18395747 gtcccacaacagactgtctgcaggctgaggagcaaggagagctagtccaagttccaaaactgaggaacttgtagtccgatgttcaagggtaggaagcacccagcacaggagaaagatgtaggctgggaggctagggcagtctctcttttcacatttttctgcctgctttacattctaggagtgctggcagctgattagatggtgcccacccagattaagggtgggtctgcctttcccagctcactgactcaaatgttaatcttctttggcaacaccctcacagacacacccaggatcaataatttgtatccttcaatccgatcaggttgacacagtatgtaaccatcacaC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5239849 351 +  26952557 gtcccacaacagactgtctgcaggctgaggagcaaggagagctagtccaagttccaaaactgaggaacttgtagtccgatgttcaagggtaggaagcacccagcacaggagaaagatgtaggctgggaggctagggcagtctctcttttcacatttttctgcctgctttacattctaggagtgctggcagctgattagatggtgcccacccagattaagggtgggtctgcctttcccagctcactgactcaaatgttaatcttctttggcaacaccctcacagacacacccaggatcaataatttgtatccttcaatccaatcaggttgacacagtatgtaaccatcacaC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28342615 351 +  82825804 gtcccacaacagactgtctgcaggctgaggagcaaggagagctagtccaagttccaagactgaggaacttgtagtccgatgttcaagggtaggaagcatccagcacaggagaaagacgtaggctgggaggctagggcagtctctcttttcacatttttctgcctgctttacattctaggagtgctggcagctgattagatggtgctcacccagattaagggtgggtctgcctttcccagctcactgactcaaatgttaatcttctttggcaacaccctcacagacacacctaggatcaataatttgtatccttcaatccaatcaggttgacacagtatgtaaccatcacaC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4006411 351 -   4237731 gtcccacaacagactgtctgcaggctgaggagcaaggagagctagtccaagttccaaaactgaggaacttgtagtccgatgttcaagggtaggaagcacccagcacaggagaaagatgtaggctgggaggctagagcagtctctcttttcacatttttctgcctgctttacattctaggagtgctggcagctgattagatggtgcccacccagattaaggatgggtctgcctttcccagctcactgactcaaatgttaatcttctttggcaacaccctcacagacacacccaggatcaataatttgtatccttcaatccaatcaggttgacacagtatgtaaccatcacaC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      280040 351 -   1175262 gtcccacaacagcctgtctgcaggctgaggagcaaggagagctagtccaagttccaaaactgaggaacttgtagtccaatattcaagagtaggaagcatccagcacaggagaaagatgtaggctgggaggctagggcagtttctcttttcacatttttctgcctgctttacattctaggagtgctagcagctgattagatggtgcccacccagattaagggtgggtctgcctttcccagcccactgactcaaatgttaatcttctttggcaataccctcacagacacacccaggatcaataatttgtatccttcaatccaatcaggttgacacagtatttaaccatcacaC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123617335 346 - 204313951 gtcccacaatagaccatctgcaggccgaggagcagggcgagccagtccgagtttcaaaactgaagaacttgaagtccaatgtttaagggcaggaagcatccagcatgggagacagatgtagactgggaggctaggccag--tctctttccacaattttctgcctgctttacgttctaggtgtggtggcatctgattaaatggtgccgatccagattaagggtgggtctgcctttcccagcccactcattcaaacgttaatcttctttggcaacaccctcacagacacacccaggattaatactttg--tctttcaatccaattaagttgacacagtat-taatcatcacaC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55669632 344 -  71252344 gtcccacagtcgaccgtgtgcaggctgaggagcagggagagccagtccgagtttcaaaactgaagaacttggagtccaatgttcaagggcaggaagcatccagcatgagag--agatatagactgggagtctaggccag--tctctttccgcatttttctgcctgctttacattctagttgtgctggcagctgattagatggtgcccacccagattaagggtgggtctgcctttcccagcccactcattcaaacattaatcttctttggcaacaccctcacagacacagccaggatcaatactttg--tctttcaatccaattaagttgacacagtat-taatcattacaC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1366840 346 -   1400280 gtcccacaatagaccgtgtgcaggctgaggagcagggagagccagtccgagtttcaaaactgaagaacttggagtccaatgttcgagggcaggaagcatccagcatgagagacagatatagactgggagtctaggtcag--tctctttccacatttttctgcctgctttacattctaggtgtgcgggcagctgattagatggtgcccacccagattaagggtgggtctgcttttcccagcccactcattcaaacgttcatcttctttggcaacaccctcacagacacacccaggatcaatactttg--tctttcaatccaattaagttgacacagtat-taatcatcacaC
i cebCap1.NW_016107829v1   I 6 C 0
s aotNan1.NW_018505940v1    13155689 346 -  42888418 gtcccacaatagaccgtgtgcaggctgaggagcacagagagccagtctgagtttcaaaactgaagaacttggagtccaatgttcgaggacaggaagcatccagcatgagagacagatatagactgggagtcttggccag--tctcattccacatttttctgcctgctttacattcttggtgtgctggcagctgattagatggtgcccacccagattaagggtgggtctgcctttcccagcccactgattcaaacgttaatcttctttggcaacaccctcacagacacacccaggatcaatactttg--tctttcaatccaattaagttgacacagtat-taatcatcacaC
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60520771 405 + 108143057 I
e canFam3.chr11             14895679   0 +  74389097 C
e proCoq1.NW_012155062v1     3560205 203 +  11683526 I
e otoGar3.GL873679           3046337   0 +   4132165 C
e dasNov3.JH567306           2604627   0 +   3667625 C
e mm10.chr18                55495265 248 +  90702639 I

a score=15561.000000
s hg38.chr5_KI270796v1_alt     55040 1 +    172708 A
s panTro5.chr5             125165136 1 + 181907262 A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126502107 1 + 183735486 A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1693567 1 +   8933513 A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139824039 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122807583 1 + 180051392 A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124231258 1 + 181584905 A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16228960 1 +  18395747 A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5240200 1 +  26952557 A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28342966 1 +  82825804 A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4006762 1 -   4237731 A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      280391 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123617681 1 - 204313951 A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55669976 1 -  71252344 A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1367186 1 -   1400280 A
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13156035 1 -  42888418 A
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3046337 1 +   4132165 A
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14895679 1 +  74389097 A
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2604627 1 +   3667625 A
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60520771 405 + 108143057 I
e proCoq1.NW_012155062v1     3560205 203 +  11683526 I
e mm10.chr18                55495265 248 +  90702639 I

a score=436120.000000
s hg38.chr5_KI270796v1_alt     55041 30 +    172708 TGTGTTAGAGGACTCTGCAGTTATCCAAAA
s panTro5.chr5             125165137 30 + 181907262 TGTGTTAGAGGACTCTGCAGTTATCCAAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126502108 30 + 183735486 TGTGTTAGAGGACTCTGCAGTTATCCAAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1693568 30 +   8933513 TGTGTTAGAGGACTCTGCAGTTATCCAAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139824040 30 + 163208435 TGTGTTAGAGGACTCTGCAGTTATCCAAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122807584 30 + 180051392 TGTGTTAGAGGACTCTGCAGTTATCCAAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124231259 30 + 181584905 TGTGTTAGAGGACTCTGCAGTTATCCAAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16228961 30 +  18395747 TGTGTTAGAGGACTCTGCAGTTATCCAAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5240201 30 +  26952557 TGTGTTAGAGGACTCTGCAGTTATCCGAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28342967 30 +  82825804 TGTGTTAGAGGACTCTGCAGTTATCCAAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4006763 30 -   4237731 TGTGTTAGAGGACTCTGCAGTTATCCAAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      280392 30 -   1175262 TGTGTTAGAGGACTCTGCAGTTATCCAAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123617682 30 - 204313951 TATGTTAGAGGACTCAGCAGTCATCTAAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55669977 30 -  71252344 TGTGTTAGAGGACTCAGCAGTCATCTAAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1367187 30 -   1400280 TGTGTTAGAGGACTCAGCAGTCATCTAAAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13156036 30 -  42888418 TGTGTTAGAGGACTCAGCAGTCATCTAAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60521176 30 + 108143057 TGTGTTAGAGGACTCTGCAATCATCCAAAA
i micMur3.chr12            I 405 I 136
s otoGar3.GL873679           3046338 29 +   4132165 TGTGCTAGA-GACTCTGCAATTGTTCAAAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14895680 29 +  74389097 TAAGTTAGAGGGCTCTGGA-CTGCCCAAAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2604628 30 +   3667625 TGTGTAAGAGGGCTCTGCACTTGTCCAATA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3560205 203 +  11683526 I
e mm10.chr18                55495265 248 +  90702639 I

a score=1519329.000000
s hg38.chr5_KI270796v1_alt     55071 133 +    172708 CACGGAATGAG----AAAGCAGTGTTGCAGATGGCGGCATACAGAAGGGGCAGCATGTAAGAGCAATGAATATAGACTGTACTTATTGCAGGTTCGCTTTCAGGGCTGAATTTCCA---AGAAAGATGTGGATATTATTC-
s panTro5.chr5             125165167 133 + 181907262 CACGGAATGAG----AAAGCAGTGTTGCAGATGGCGGCATACAGAAGGGGCAACATGTAAGAGCAATGAATATAGACTGTACTTATTGCAGGTTCGCTTTCAGGGCTGAATTTCCA---AGAAAGATGTGGATATTATTC-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126502138 133 + 183735486 CATGGAATGAG----AAAGCAGCGTTGCAGATGGCGGCATACAGAAGGGGCAACATGTAAGAGCAATGAATATAGACTGTACTTATTGCAGGTTCGCTTTCAGGGCTGAATTTCCA---AGAAAGATGTGGATATTATTC-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1693598 137 +   8933513 CACGGAATGAGAAACAAAGCAGTGTTGCAGATGGCGGCATACAGAAGGGGCAGCATGTAAGAGCAATGAATATAGACAGTACTTATTGCAGGTTCGCTTTCAGGGCTGAATTTCCA---AGAAAGATGTGGATATTATTC-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139824070 137 + 163208435 CACAGAATGAGAAACAAAGCAGTGTTGCAGATGGCGGCATACAGAAGGGGCAGCATGTAAGAGCAATGAATATAGACTATACTTATTACAGGTTCGCTTTCAGGGCTGAATTTCCA---AGAAAGATGTGGATATTATTC-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122807614 136 + 180051392 CACA-AATGAGAAACAAAGCAGTGTTGCAGATGGCGGCATACAGAGGGGGCAGCATATAAGAGCAATGAATATAGACTGTACTTATTACAGGTTCGCTTTCAGGGCTGAATTTCCA---AGAAAGATGTGGAGATTATTC-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124231289 136 + 181584905 CACA-AATGAGAAACAAAGCAGTGTTGCAGATGGCGGCATACAGAGGGGGCAGCATATAAGAGCAATGAATATAGACTGTACTTATTACAGGTTCGCTTTCAGGGCTGAATTTCCA---AGAAAGATGTGGAGATTATTC-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16228991 136 +  18395747 CACA-AATGAGAAACAAAGCAGTGTTGCAGATGGCGGCATACAGAGGGGGCAGCATATAAGAGCAATGAATATAGACTGTACTTATTACAGGTTCGCTTTCAGGGCTGAATTTCCA---AGAAAGATGTGGATATTATTC-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5240231 136 +  26952557 CACA-AATGAGAAACAAAGCAGTGTTGCAGATGGCGGCATACAGAGGGGGCAGCATATAAGAGCAATGAATATAGACTGTACTTATTACAGGTTCGCTTTCAGGGCTGAATTTCCA---AGAAAGATGTGGATATTATTC-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28342997 136 +  82825804 CACA-AATGAGAAACAAAGCAGTGTTGCAGATGGCCGCATACAGAGGGGGCAGCATATAAGAGCAATGAATATAGACTGTACTTATTACAGGTTCGCTTTCAGGGCTGAATTTCCA---AGAAAGATGTGGATATTATTC-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4006793 136 -   4237731 CACA-AATGAGAAACAAAGCAGTGTTGCAGATGGCGGCATACAGAGGGGGCAGCATATAAGAGCAATGAATATAGACTGTACTTATTACAGGTTCGCTTTCAGGGCTGAATTTCCA---AGAAAGATGTGGATATTATTC-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      280422 137 -   1175262 CACAGAATGAGAAACAAAGCAGTGTTGCAGATGGCGGCATACAGAGGGGGCAGCATATAAGAGCAATGAATATAGACTGTACTTATTACAGGTTCGCTTTCAGGGCTGAATTTCCA---AGAAAGATGTGGATATTATTC-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123617712 136 - 204313951 CACAGGATGAGGAACAAGACAGTGCTGCAGTTGGCAGTATACA-GGGGGACAACATATAAGAGCAATGGACATAAACCATACTTATTACAGGTTCGCTTTCAGTGCAGAATTTCCA---AGAAAGCTGTGGATGTTATTC-
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55670007 136 -  71252344 CACAGAATGTGGAACAAGACATTGCTGTAGTTGGCAGCATACA-AGCGGACAACATATAAGAGCAGTGGACATAAACCATACTTATTACAGGTTCGCTTTCAGTGCAGAATTTTCA---AGAAAGATGTGGATGTTATTT-
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107829v1     1367217 136 -   1400280 CACAGAATGAGGAGCAAGACATTGCTGCAGTTGGCGGCATACA-AGGGGACAGCATATAAGAGCAATGGACATGAACCATACTTATTACAGGTTCGCTTTCAGTGCAGAATTTCCA---AGAAAGATGTGGATATTATTT-
i cebCap1.NW_016107829v1   C 0 I 1
s aotNan1.NW_018505940v1    13156066 135 -  42888418 CACAGAATGAGGAACAAGACA-TGCTGCAGTTGGCGGCATACA-AAGGGACAACACATAAGAGCAATGGACATAAACTGTACTTATTACAGGTTCGCTCTCAGTGCAGAATTTCCA---AGAAAGATGTGGATGTTATTT-
i aotNan1.NW_018505940v1   C 0 I 1
s otoGar3.GL873679           3046367 133 +   4132165 GTCAAAACGAGGAGCAGGGCAGTGTTGTAGCTGGCAGCGGACAGAGGGGGCAACATAAAAAAACCATGGATGTAAACTGTAC---TTGCAGATTC-TGTTCAGGGCCGAATTTCCA---AAAGAGATATGGATATAGATT-
i otoGar3.GL873679         C 0 I 2
s canFam3.chr11             14895709 136 +  74389097 GACAGAATGATGACCAGAGCACTGTTGCA-TTGGCAGCAGACAGACATGCCAACATACAAGAACAATAAATATAAATCTCACTGACAACAGATTTGGTTTGGGGTCTGAGTTTCCA---AGAAAGACATGAATATAGGTT-
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2604658 141 +   3667625 GACAGAACGATGGATTTGGCAGTGTTGTAGATGGCAGCACACAACAATGGTGATGTATGGGGATGATAAATACAAACTGTACTTAATATAGATTCTGTTTTGGGGCTGAATTTCTCTTTAAAAAGTTATCAATAAGAATTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60521206 136 + 108143057 I
e proCoq1.NW_012155062v1     3560205 203 +  11683526 I
e mm10.chr18                55495265 248 +  90702639 I

a score=17290.000000
s hg38.chr5_KI270796v1_alt     55204 1 +    172708 T
s panTro5.chr5             125165300 1 + 181907262 T
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126502271 1 + 183735486 T
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1693735 1 +   8933513 T
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139824207 1 + 163208435 T
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122807750 1 + 180051392 T
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124231425 1 + 181584905 T
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16229127 1 +  18395747 T
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5240367 1 +  26952557 T
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28343133 1 +  82825804 T
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4006929 1 -   4237731 T
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      280559 1 -   1175262 T
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123617849 1 - 204313951 T
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55670144 1 -  71252344 T
i saiBol1.JH378106         I 1 C 0
s cebCap1.NW_016107829v1     1367354 1 -   1400280 T
i cebCap1.NW_016107829v1   I 1 C 0
s aotNan1.NW_018505940v1    13156202 1 -  42888418 T
i aotNan1.NW_018505940v1   I 1 C 0
s proCoq1.NW_012155062v1     3560408 1 +  11683526 T
i proCoq1.NW_012155062v1   I 203 C 0
s otoGar3.GL873679           3046502 1 +   4132165 T
i otoGar3.GL873679         I 2 C 0
s canFam3.chr11             14895847 1 +  74389097 T
i canFam3.chr11            I 2 C 0
s dasNov3.JH567306           2604799 1 +   3667625 T
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60521206 136 + 108143057 I
e mm10.chr18                55495265 248 +  90702639 I

a score=5272046.000000
s hg38.chr5_KI270796v1_alt     55205 353 +    172708 CTACTTTGGGGACTGTTATTTTCCCACTTTTTTCAGAGGTTCTTCATTGTTGTCCAGATTCAGGTTATTAAGGTCAGGACTCTTCTCCTTGACTGTGAACACCACTTCGTAGCCAAGCAAGGTTTGAGGAAGACATTGACAGGCATTGTTTGTAGGGAGAGAC--TC-ATTTCTTAGGAGC-CAGACA---tgccagggactttacatgttgtagcagtcaggatcctagaaagaaacagatggcacactcaaacaggggtaagtgaggagaatttaataaagacatgctttacaaaggtgtgtgcagggttgttttagggaaactggcaaag------g----cagtg---ca-------gaactagcaaaggtaggga
s panTro5.chr5             125165301 353 + 181907262 CTACTTTGGGGACTGTTATTTTCCCACTTTTTTCAGAGGTTCTTCATTGTTGTCCAGATTCAGGTTATTAAGGTCAGGACTCTTCTCCTTGACTGTGAACACCACTTCGTAGCCAAGCAAGGTTTGAGGAAGACATTGACAGGCATTGTTTGTAGGGAGAGAC--TC-ATTTCTTAGGAGC-CAGACA---tgccagggactttacatgttgtggcagtcaggatcctagaaagaaacagatggcacactcaaacaggggtaagtgaggagaatttaataaagacatgctttacaaaggtgtgtgcagggttgttttagggaaactggcaaag------g----cagtg---ca-------gaactagcaaaggtaggga
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126502272 353 + 183735486 CTACTTTGGGGACTGTTATTTTCCCACTTTTTTCAGAGGTTCTTCATTGTTGTCCAGATTCAGGTTATTAAGGTCAGGACTCTTCTCCTTGACTGTGAACACCACTTCATAGCCAAGCAAGGTTTGAGGAAGACATTGACAGGCATTGTTTGTAGGGAGAAAC--TC-ATTTCTTAGGAGC-CAGACA---tgccagggactttacatgttgtggcagtcaggatcctagaaagaaacagatggcacactcaaacaggggtaagtgaggagaatttaataaagatatgctttacaaaggtgtgtgcagggttgttttagggaaactggcaaag------g----cagtg---ca-------gaactagcaaaggtaggga
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1693736 359 +   8933513 CTACTTTGGGGACTGTTATTTTCCTACTTTTTTCAGAGGTTCTTCATTGTTGTCCAGATTCAGGTTATTGAGGTCAGGACTCTTCTCCTTGACTGTGAACACCACTTTGTAGCCAAGCAAGGTTTGAGGAAGACATTGACAGGCGTTGTTTGTACGGAGAAAC--TC-ATTTCTTAGGAGC-CAGACA---TGCCAGGGACTTTACATGTtgtagcagtcaggatcctagaaagaaacagatggcacactcaaacaggggtaagtgaggagaatttaataaagagatgctttacaaaggtgtgtgcagggttattttagggaaactggcaaaggatgttg----cagtg---ca-------gaactagcaaaggtaggga
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139824208 361 + 163208435 CTACTCTGGGGACTGTTATTTTCCCACTTTTTTCAGAGATTCTTCACTGTTGTCCAGATTCAGTTTATTAAGTTCAGGAGTCTTCTCCTTGACTGTGAACACCACTTTGTAGCCAAGCAAGGTTTGAGGAAGACGTTGACAGGCATTGTTTGTAGGGAGAaactgtc-atttcttaggagc-cagata---tgccagggactttacatgttgtagcagtcaggatcctagaaagaaacagatggcacactcaaacaggggtaagtgtggagaatttaataaagagatgctttacaaaggtgtgtgcagggttgttttagggaaactggcaaaggatgttg----cagtg---ca-------gaactggcaaaggtaggga
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122807751 361 + 180051392 CTACTTTGGGGACCGTTATTTTCCCACTTTTTTCAGAGGTTCTTCGTTGTTGTACAGATTCAGGTTATCAAGGTCAGGACTCTTCTCCTTGACTGTGAACACCACTTTGCAGCCAAGAAAGGTTTGAGGAAGACATTGGCAGGCATTGTTTGTAGGGAGAaactgtc-atttcttaggagc-caggca---tgccagggacttgacatgttgtggcagtcaggatcctagaaggaaacagatggcacgctcaaacaggggtaactgaggagaatttaataaagagatgctttacaaaggtgtgtgcagggtttatttagggaaactggcaaaggatgttg----cagtg---ca-------gaactagcaaaggttggga
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124231426 361 + 181584905 CTACTTTGGGGACCGTTATTTTCCCACTTTTTTCAGAGGTTCTTCGTTGTTGTACAGATTCAGGTTATCAAGGTCAGGACTCTTCTCCTTGACTGTGAACACCACTTTGCAGCCAAGAAAGGTTTGAGGAAGACATTGGCAGGCATTGTTTGTAGGGAGAaactgtc-atttcttaggagc-caggca---tgccagggacttgacatgttgtggcagtcaggatcctagaaggaaacagatggcacgctcaaacaggggtaactgaggagaatttaataaagagatgctttacaaaggtgtgtgcagggtttatttagggaaactggcaaaggatgttg----cagtg---ca-------gaactagcaaaggttggga
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16229128 361 +  18395747 CTACTTTGGGGACCGTTATTTTCCCACTTTTTTCAGAGGTTCTTCATTGTTGTACAGATTCAGGTTATCAAGGTCAGGACTCTTCTCCTTGACTGTGAACACCACTTTGCAGCCAAGAAAGGTTTGAGGAAGACATTGGCAGGCAGTGTTTGTAGGGAGAaactgtc-atttcttaggagc-caggca---tgccagggacttgacatgttgtggcagtcaggatcctagaaggaaacagatggcacactcaaacaggggtaactgaggagaatttaataaagagatgctttagaaaggtgtgtgcagggtttttttagggaaactggcaaaggatgttg----cagtg---ca-------gaactagcaaaggttggga
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5240368 355 +  26952557 CTACTTTGGGGACTGTTATTTTCCTACTTTTTTCAGAGGTTCTTCATTGTTGTACAGATTCAGGTTATCAAGGTCAGGACTCTTCTCCTTGACTGTGAACACCACTTTGCAGCCAAGAAAGGTTTGAGGAAGACATTGGCAGGCATTGTTTGTAGGGAGAaactctc-atttcttaggagc-caggca---tgccagggactttacatgttgtggcagtcaggatcctagaaggaaacagatggcacactcaaacaggagtaactgaggagaatttaataaagagatgctttacaaaggtgtgtgcagggttgttttagggaaactggc------tgttg----caatg---ca-------gaactagcaaaggttggga
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28343134 360 +  82825804 CTACTTTGGGGACCGTTATTTTCCCACTTTTTTCCGAGGTTCTTCATTGTTGTACAGATTCAGGTTATCAAGGTCAGGACTCTTCTCCTTGACTGTGAACACCACTTTGCAGCCAAGAAAGGTTTGAGGAAGACATTGGCAGGCATTGTTTGTAGGGAGAAACTGTC-ATTTCTTAGGAGC-CAGGCA---TGCCTGGGACTTTACATATtgtggcagt-aggatcctagaaagaaacagatggcacactcaaacaggggtaactgaggagaatttaataaagagatgctttacaaaggtgtgtgcagggttgttttagggaaactggcaaaggatgttg----cagtg---ca-------gaactagcaaaggttggga
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4006930 361 -   4237731 CTACTTTGGGGACCGTTATTTTCCCACTTTTTTCAGAGGTTCTTCATTGTTGTACAGATTCAGGTTATCAAGGTCAGGACTCTTCTCCTTGACTGTGAACACCACTTTGCAGCCAAGAAAGGTTTGAGGAAGACATTGGCAGGCATTGTTTGTAGGGAGAaactgtc-atttcttaggagc-caggca---tgccagggactttacatgttgtggcagtcaggatcctagaaggaaacagatggcacactcaaacaggggtaactgaggagaatttaataaagagatgctttacaaaggtgtgtgcagggttgttttagggaaactggcaaaggatgttg----caatg---ca-------gaactagcaaaggttggga
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      280560 358 -   1175262 CTACTTTGGGGACTGTTATTTTCCCACTTTTTTCAGAGGTTCTTCATTGTTGTACAGATTCAGGTTATAAAGGTCAGGACTCTT---CTTGACTGTGAACACCACTTTGCAGCCAAGAAAGGTTTGAGGAAGGCATTGGCAGGCGTTGTTTGTAGGGAGAAAGTGTC-ATTTCTTAGGAGC-CGGGCA---TGCCAGGGACTTTACATGTtgtggcagtcaggatcctagaaagaaacaggtggcacactcaaacaggggtaactgaagagaatttaataaagagatgctttacaaaggtgtgtgcagggttgttttagggaaactagcaaaggatgttg----cagtg---ca-------gaactagcaaacgttggga
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123617850 343 - 204313951 CTACTTTGGGGACTGTTATTTTCCCAC-TTTTTCAAAGGTTCTACATTGTGGTCCAGATTCCGGATATCAAGGTCAGGACTTTTCTCCTTGACTGCGAACAACACCCTGTAGCCAAGCAAGGTTTGAGGAAGACATTGGCAGGCATTGTGTGGAGG---------------------GAGC-CAGGCA---TGCCAGGGACTTTACATGCtgtagcagtcaggatcctagaaagaaacagatggcacgctcaaacaggggtaactgaggagaatttaatagagagatgctttacaaaggtgtgtacaggattgttttagggaatctggcaaaggatgctggagtgagtg---ca-------gaactagcaaagacaggg-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55670145 359 -  71252344 CAATTTTGGGGACTGTTATTTTCCCAG-TTTTTCAAAGGTTCTACATTGTGGTCCAGATTCAGGTTATCAAGGTCAGGACTTTTCTTCTTGACTGTGAACAACACCCTGTAGCCAAGCAAGGTTTGAGGAAGACATTGGCAGGCATTGTTTGTAGGGAGAAAC--TC-ATTTCTTAAGAGC-CAGGCA---TGCCAAGGACTTTACATGCtgtagcagtcaggatcctagaaagaaacagatggcacactcaaacaggggtaactgaggagaatttaatagagagatgctttacaaaggtgtgtgcagggttgtttcagggaatctggcaaaggatgttggtatgagtg---ca-------gaactagcaaag--aggg-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1367355 361 -   1400280 CTACTTTGGGGACTGTTATTTTCCCAC-TTTTTCAAAGGTTCTACATTGTGGTCCAGATTCAGGTTATCAAGGTCAAGACTTTTCTCCTTCACCGTGAACAACACCCTGTAGCCAAGCAAGGTTTGAGGAAAACATTGGCAGGCATTGTTTGTAGGGAGAAAC--TC-ATGTCTTAGGAGC-CAGGCA---TGCCAGGGACTTTACATGCtgtagcagtcaggatcctagaaagaaacagatggcactctcaaacaggggtaactgaggagaatttaatagagagatgctttacaaagttgtgtgcagggttgttttagggaatctggcaaaggatgttggagtgagtg---ca-------gaactagcaaagataggg-
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13156203 361 -  42888418 CTATTTTGGGGGCTGTTATTTTTCCAC-TTTTTCAAAGGTTCTACATTGTGGTCCAGATTCAGGTTATCAAGGTCAGGACTTTTCTCCTTGACTGTGAACAATACCCTGTAGCCAAGCAAGGTTTGAGGAAGACATTGGCAGGCATTGTTTGTAGGGAGAAAC--TC-ATTTCTTAGGAGC-CAGGCA---TGCCAGGGACTTTACATGCtgtagcagtcaggatcctagaaagaaacagatggcacactcaaacaggggtaactgaggagaatttaatagagagatgctttacaaaggtgtgtgcagggttgttttagggaatctggcaaaggatgttggagtgagtg---ca-------gaactaggaaagataggg-
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60521342 358 + 108143057 CTACTATGGGGACTATTATTTTTCCAC-TTTTTCAGAGGTTCTGCCTTATTGTCCAGATTCAGGTTATCAGAATCGGGACTGTTCTCCTGTACTGTGAACACTACCCTATAGCCAGGCAAGGTTTGAGGAAGTCTTTGGCAGTCGTTGTTTTTAGGGAGAAAC--TC-ATTTGTTAGGAGC-TAGGCG---TGCCAGGGACTTTACATGCTGTCGcagtcaggatcctggaaagaaacagatggtgcactcaaacaggggtaattgaggagattctaataaaaagactacttacaaagatgtgtgcaggattgttttagggaaactagcaaaggatgttg----cagtg---ca-------cgactagcaacagtagaga
i micMur3.chr12            I 136 I 115
s proCoq1.NW_012155062v1     3560409 358 +  11683526 CTACTATGGGGACTATTCTTTTTCCAC-TTTTTCAGAGGTTCTACATTATTATCCAGATTCAGGTTATCAGAATCAGGACTTTTCTCCTGTACTGTGAACACCACCCTATAACCAGGCAAGGTTTGAGGAACTCATTGGCAGGCGTTGTTTTTAGGGAGAAAC--Tc-atttgttaggagc-taggcg---tgccagggactttacatgctgtagcagtcaggatactagaaagaaacagatggtgcactcaaacaggggtaattgaggagactttaacaaaaagactacttacaaagacgtgtgcaggattgtttcagggaaactagcaaaggttgttg----cagtg---ca-------ggactagcaacagcagaga
i proCoq1.NW_012155062v1   C 0 I 49
s otoGar3.GL873679           3046503 356 +   4132165 CTACTATGGGGACTATTATTTTTCCAT-TTTATCAGA-GTTCTATATTGCTGTCCAGATTCAGGTTATCAGCAGCGGGACTTTTCTCCTTTACTGTGAAGACCACCCTATAGCCAGACAAGGTTTGAGGAAGCTACTGGCAGGCATTGTTTTTAGGGAGAAAC--TC-ATTTGTTAGGAGCTTGGGCA---TGCCAGGGACTTTACATGGTGCGGcagtcagggtcctggaaagaaacagatggtgcactcaaacaggggtaatcgaggacactttaat-aaaagactatttacaaagatgcgtgcaggattcttttagggaaactagcaaaggatgttg----cagtg---tg-------agactatcaaccgtaggg-
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14895848 360 +  74389097 CCACTTTAGGGAATGTTATTTTCCCAC-TTCTTCAGACATTCTCTATTATTGTCCAGATTCATATTCCTAAGGTCAGAACTCTTCCCTTTAATTGTGAGCACCACCCCATAGGCAGGCAATGCTTGAGGAACTTATTGGCAAGCATTGTTTTTAGGGATTCAC--TCTATTTATTTGGAGG-caggcacagtgctggggactttacgtgttgtaccacttaggatcctcaaaacaaacagatgccatgctcaaacggggctaattgaggaaatctgaataaaagggctatttatgaaggggtctttggggcta---tagagaga--aacaagggatgttg----cagtgcatca-------agactagcaacagtagaga
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2604800 366 +   3667625 CTACTTTGGGGAATATTATTTACCCAA-GTATTTAAAGGTTCTACATTATTGCCCAGATTCAGGTTTTCAAGGTCAGGGTGCTTCTCTTTTACTGTGAACACCACCTTACACGCAGGCAATGCTTGAGGAAGTCATTGGCAGGTGTTGTTT-TAGGAAGGAGATCTC-GTGTATTTGAAGC-CAGGCATCATGCCAAGGACTTCAAATGTtgtggcagtcaggatcctagaaagaaacagatggcacacttgaacagaggtaat---ggagaatttaataaagggactatttaaaagggatggtgcagggttgttttaagaaagccagtggggtatgttg----caggg---catgtggtgtagatgacagggatagtca
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55495265 248 +  90702639 I

a score=442319.000000
s hg38.chr5_KI270796v1_alt     55558 46 +    172708 --agccttgagca-----ccaaagcaccaggagat-------ggagcagctggagtactc
s panTro5.chr5             125165654 46 + 181907262 --agccttgagca-----ccaaagcaccaggagat-------ggagcagctggagtactc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126502625 46 + 183735486 --agccttgagca-----ccaaagcaccaggagat-------ggagcagctggagtactc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1694095 46 +   8933513 --agccttgagca-----ccaaagcaccaggagat-------gaagcagctggagtactc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139824569 46 + 163208435 --agccttgagca-----ccaaagcaccaggagat-------ggagcagctggagtaatc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122808112 46 + 180051392 --agccttgagca-----ccaaagcaccaggagat-------ggagcagctgtagtaatc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124231787 46 + 181584905 --agccttgagca-----ccaaagcaccaggagat-------ggagcagctgtagtaatc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16229489 46 +  18395747 --agccttgagca-----ccaaagcaccaggagat-------ggagcagcggtagtaatc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5240723 46 +  26952557 --agccttgagca-----ccaaagcaccaggagat-------ggagcagctgtagtaatc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28343494 46 +  82825804 --agccttgagca-----ccaaagcaccgggagat-------ggagcagctggagtaatc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4007291 46 -   4237731 --agccttgagca-----ccaaagcaccaggagat-------ggagcagctgtagtaatc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      280918 46 -   1175262 --agccttgagca-----ccaaagcaccaggagat-------ggagcagctgtagtaatc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123618193 45 - 204313951 --agccttgagta-----ccaaagcaccaggagac-------ggagaagct-gaggaacc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55670504 46 -  71252344 --agccttgagta-----ccaaagtaccaggagac-------ggagcagctggaggaacc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1367716 46 -   1400280 --aaccttgcgta-----ccaaagtaccaggagac-------agagcaactggaggaacc
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13156564 45 -  42888418 --agccttgagta-----ccaaagcaccaggagac-------ggagaagct-gaggaacc
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3046859 51 +   4132165 --agctttgactaactgctcatagcatccgaggac-------agagtagctagcaaaacc
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14896208 33 +  74389097 ---gcctttccca-----ttccgacacttcgaagc-------agaacc------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2605166 55 +   3667625 ggtgccttaccac-----cccaggcttcaagggacatgggagggagaaactagtggaacc
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60521700 115 + 108143057 I
e proCoq1.NW_012155062v1     3560767 49 +  11683526 I
e mm10.chr18                55495265 248 +  90702639 I

a score=825833.000000
s hg38.chr5_KI270796v1_alt     55604 67 +    172708 cagagagag-aaggggcttcttaacaaaagctatgaccttcaataggttggcacagtttacctagaga
s panTro5.chr5             125165700 67 + 181907262 cagagagag-aaggggcttcttaacaaaagctatgaccttcaataggttggcacagtttacctagaga
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126502671 67 + 183735486 cagagagag-aaggggcttcttaacaaaagctatgaccttcaataggttggcacagtttacctagaga
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1694141 67 +   8933513 cagagagag-aaggggcttcttaacaaaagctatgaccttcaataggttggcaccatttacctagaga
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139824615 66 + 163208435 cagagagag-aaggggcttcttaacaaaagctctgaccttcaataggttggcacagttttgct-gaga
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122808158 67 + 180051392 cagagagag-aagaggcttcttaacaaaagctatgaccttcaataggttggcacagtttgcccacaga
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124231833 67 + 181584905 cagagagag-aagaggcttcttaacaaaagctatgaccttcaataggttggcacagtttgcccacaga
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16229535 67 +  18395747 cagagagag-aagaggcttcttaacaaaagctatgaccttcaataggttggcacagtttgcccacaga
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5240769 67 +  26952557 cagagagag-aagaggcttcttaacaaaagctatgaccttcaataggttggcacagtttgcccacaga
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28343540 67 +  82825804 cagagagag-aggaggcttcttaacaaaagctatgaccttcaataggttggcacagtttacccacaga
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4007337 67 -   4237731 cagagagac-aagaggcttcttaacaaaagctatgaccttcaataggttggcacagtttgcccacaga
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      280964 67 -   1175262 cagagagag-aagaggcttcttaacagaagctgtgaccttcaataggttggcacagtttacccacaga
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123618238 63 - 204313951 ctaag-----aagggacttttttacaaaagctataaccttcaataggttggcgcagtttgcccagaga
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55670550 63 -  71252344 cagag-----aagggacttcttaacaaaagctatgatcttcaataggttggcacagtttacccagaga
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1367762 63 -   1400280 cagag-----aagggacttcttaacaaaagctatgatcttcaataggttggcatagtttacccagaca
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13156609 63 -  42888418 cagag-----aagggacttcttaacaaaagctatgatcttcaataggttggcacagtttacccagaga
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3560816 66 +  11683526 cggagggag-aaggggctccttaagaagagctgtgaccttcaacagattgatggagttcacccatag-
i proCoq1.NW_012155062v1   I 49 C 0
s otoGar3.GL873679           3046910 67 +   4132165 cagggagag-aaggggcttcttaatacaagctgtggtcctcagaagattgatgtagttcacccacaga
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14896241 68 +  74389097 cagagggagaaagaggctgcttacccagaactgcagccttcagtagattgatgcaatttgcccacagg
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2605221 65 +   3667625 --cagacag-aagggactacttgacaaggactgcaatcctctgcaaatggatgtagttcacccgtgga
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60521700 115 + 108143057 I
e mm10.chr18                55495265 248 +  90702639 I

a score=2794793.000000
s hg38.chr5_KI270796v1_alt     55671 191 +    172708 agaccaagca---aaagaacgggggaaatcaatatcctgactacgcttttctgtcttctcaaaatccttttggtctcttccatctgccactccaagctagaagccagagggcaaggttgcccattgatttagttgataaatgtcagctatctagagcacagaagagtgtagaagatgggcaagtagaattggag
s panTro5.chr5             125165767 191 + 181907262 agacccagca---aaagaacgggggaaatcaatatcctgactacgctttcctgtcttctcaaaatccttttggtctcttccatctgccactccaagctagaagccagagggcaaggttgcccattgatttagttgataaatgtcagctatctagagcacagaagagtgtagaagatgggcaagtagaattggag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126502738 191 + 183735486 agacccagca---aaagaacgggggaaatcaatatcctgactacgctttcctgtcttctcaaaatccttttggtctcttccatctgccactccaagctagaagccagagggcaaggttgcccattgatttagttgataaatgtcagctatctagagcacagaagagtgtagaagatgggcaagtagaattggag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1694208 191 +   8933513 ggacccagca---aaagaacgggggaaatcaatatcctgactacgctttcctgtcttctcaaaatccttttggtctcttctatctgccactccaagctagaagccagagggcaagattgcccattgatttagttgataaatgtcagctatctagagcacagaagagtgtggaagatgggcaagtagaattggag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139824681 191 + 163208435 aaacccagca---aaagaatggggaaaatcagtatcctgattatgctttcctgtcttcttaaaatccttttggtctcttctatctgccactccaagcaagaagccagagggcaaggttgtccattgatttagttgataaatgtcagctatctagagcacagaagagtgtagaagatgggcaagtagaattggag
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122808225 189 + 180051392 agacccagca---agagaacgggggaaatcaatatcctgactacactttcctgtcttttcaaaatccttctggtctcttctatctgccactccaagctagaagccagagggcaaggttgcccattgatttagttgataaatgtcagctatctagagtacagaaga--gtagaagatgggcaagtagaattggag
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124231900 189 + 181584905 agacccagca---agagaacgggggaaatcaatatcctgactacactttcctgtcttttcaaaatccttttggtctcttctatctgccactccaagctagaagccagagggcaaggttgcccattgatttagttgataaatgtcagctatctagagtacagaaga--gtagaagatgggcaagtagaattggag
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16229602 189 +  18395747 agacccagca---agagaacgggggaaatcaatatcctgactacactttcctgtcttttcaaaatccttttggtctcttctatctgccactccaagctagaagccagagggcaaggttgcccattgatttagttgataaatgtcagctatctagagtacagaaga--gtagaagatgggcaagtagaattggag
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5240836 189 +  26952557 agatccagca---agagaacgggggaaatcaatatcctgactacactttcctgtcttttcaaaatccttttggtctcttctatctgccactccaagctagaagccagagggcaaggttgcccattgatttagttgataaatgtcagctatctagagtacagaaga--gtagaagatgggcaagtagaattggag
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28343607 189 +  82825804 agactcagca---agagaacgggggaaatcaatatcctgactacactttcctgtcttttcaaaatccttttggtctcttctatctgccactccaagctagaagccagagggcaaggttgcccattgatttagttgataaatgtcagctatctagagtacagaaga--gtagaagatgggcaagtagaattggag
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4007404 189 -   4237731 agacccagca---agagaacgggggaaatcaatatcctgactacactttcctgtcttttcaaaatccttttggtctcttctatctgccactccaagctagaagccagagggcaaggttgcccattgatttagttgataaatgtcagctatctagagtacagaaga--gtagaagatgggcaagtagaattggag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      281031 191 -   1175262 agacccagca---agagaacgggggaaatcaatatcctgactacaccttcctgtcttttcgaaatccttttggtctcttctatctgccactccaagctagaagccggagggcaaggttgcccattgatttcgttgatgaatgtcagctatctagagcacagaagagtgtagaagatgggcaagtagaagtggag
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123618301 191 - 204313951 agacccagca---agagaatgggggaaattgatatcctgactatactgtcctatcttctcaaaattcttttgttcttttctatctgccactctaagctagaagccagaaggccaggttgcctattgatttagttggtaaatgtcagctctctagggcacagaagggtgtagatgaccggcaagtggaattgaag
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55670613 191 -  71252344 agacccagca---agagaacgggggaaatcaatatcctgactatactatcctatcttctcaaaatccttttgttcttttctatctgccactctaagctagaagccagaaggccaggttgcctattgatttagttgataaatgtcagctctctagagcacagaagggtgtagatgacaggcaagtggaattgaag
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1367825 191 -   1400280 agacccagca---agagaacgggggaaatcaatatcttgactatactatcctatcttctcaaaatccttttgttcttttctatctgccactctaagctagaagccagaaggccaggttgcctattgattgagttgataaatgtcagctctctagagcacagaagggtatggatgacgggcaagtagaattgaag
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13156672 191 -  42888418 agacccagca---agagaatgggggaaatcaatatcctgactatactatcctatcttctcaaaatccttttgttcttttctatctgccactctaagctagaagccagaaggccaggttgcctattgatttagttgataaatgtcagctctctagagcacagaagggtgtagatgacgggcaagtggaattgaag
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60521815 193 + 108143057 agacctagcagggagcgaactggggaaataaatatcctgtctacaccctcctgtcttctcaaaatctttttggtgtcttctatctgccagtccaagctagaagccaaagggcaaggtcgcccattgattcagttgataaatgccaactacctatagcacag-agggtgtagaagatggaagagtagatttgcag
i micMur3.chr12            I 115 I 23
s proCoq1.NW_012155062v1     3560882 194 +  11683526 agacctagcagagagagaacgggggaaataaatatcctgtctacactctcctgtcttctcaaaatccttttggtgtcttctatctgccagtccaagctagaagccaaagggcaaggttgcccattgattcagtggataaatgtcagctacctatagcagagaagggtgtagaagatggaagagtagatttggag
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3046977 192 +   4132165 -cacctagcagggagagacctggggaaataaatattttcactacactctcatgtcttctcaaaatcctttcggtgtcttcgatctgccaatccaagctagaagccagagggcaaggctgcctgttgattcggttggtacatgtcagctacctac-tcacagaagggtgtggacggtggaggaatagttctggag
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14896309 189 +  74389097 -gatggagcagggagacaatggaagaaatcagtaccctgacttcactctcttgttttcctatatttcttctgctgctctctatccaccaagctaggccagaaggcagagggcaagactgtccatagatttagttgataaatgtcaa----ccagggcacagaaaagtgtataaggggagaaagtggatttggag
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2605286 162 +   3667625 -aagctagca---g------ggaagaaat-------------------ttctgccttctcaaattcctttcgctgtgttctattggtcaaagggacacacaagtcggtaggcaagattgtccattgagttagttga-aaatgtcagctactcagggcacagaagt--ataggtgatgggagagtagatttggag
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55495265 248 +  90702639 I

a score=339427.000000
s hg38.chr5_KI270796v1_alt     55862 40 +    172708 aaggaaatgaagaatatctagaataagtg-ttgcacagggg
s panTro5.chr5             125165958 40 + 181907262 aaggaaatgaagaatatctagaataaatg-ttgcacagggg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126502929 40 + 183735486 aaggaaatgaagaatatctagaataaatg-ttgcacagggg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1694399 40 +   8933513 aaggaaatgaagaatatctagaacaAATG-TTGCACAGGGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139824872 40 + 163208435 aaggaaatgaagaatacctagaataaatg-ttgcgcagggg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122808414 40 + 180051392 aaggaaatgaagaatatctagaataaatg-ttgcacaaggg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124232089 40 + 181584905 aaggaaatgaagaatatctagaataaatg-ttgcacaaggg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16229791 40 +  18395747 aaggaaatgaagaatatctagaataaatg-ttgcacaaggg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5241025 40 +  26952557 aaggaaatgaagaatatctagaataaatg-ttgcacaaggg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28343796 40 +  82825804 aaggaaatgaagaatatctagAATAAATG-TTGCACAAGGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4007593 40 -   4237731 aaggaaatgaagaatatctagaataaatg-ttgcacaaggg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      281222 40 -   1175262 aaggaaatgaagaatatctagAATAAATA-TTGCACAAGGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123618492 40 - 204313951 aaggaaatgaaaaatatcTGGAATAATTG-ACACACAAAGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55670804 41 -  71252344 aaggaaatgaaaagtatcTGGAATAATTGAACACACAAAGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1368016 40 -   1400280 aaggaaatgaaaaatatcTGGAATAATTG-ACACACAAAGG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13156863 40 -  42888418 aaggaaatgaaaaatatcTGGAATAATTG-ACACACAAAGG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3561076 24 +  11683526 gggtagaaagagaatatccaacac-----------------
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3047169 24 +   4132165 gggcctatacagaatatccaatac-----------------
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14896498 25 +  74389097 gagcaagtggagaatagccaacata----------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2605448 23 +   3667625 actcaaatgggaaatatccaaca------------------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60522008 23 + 108143057 I
e mm10.chr18                55495265 248 +  90702639 I

a score=1416318.000000
s hg38.chr5_KI270796v1_alt     55902 97 +    172708 acataacatctcac--tcaccctttaccatatcctaataagaaacacattactaatatctgcagtttat-gcttaggaaaacttaaatccagaaggtcaa
s panTro5.chr5             125165998 97 + 181907262 acataacatctcac--tcaccctttaccatatcctaataagaaacacattactaatatctgcagtttat-gcttaggaaaacttaaatccagaaggtcaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126502969 97 + 183735486 acataacatctcac--tcaccctttaccatatcctaataagaaacacattactaatatctgcagtttat-gcttaggaaaacttaaatccagaaggtcaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1694439 97 +   8933513 ACATAACatctcac--tcaccctttaccatatcctaataagaaacacattactaatatctgcagtttat-gcttaggaaaacttaaatccagaaggttaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139824912 97 + 163208435 acataacatctcac--tcaccctttaccatatcctaataagaaacacattactagtatctgcagtttgt-gcttaggaaaacttaaatccagaaggtcaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122808454 97 + 180051392 gcataacatctcac--tcaccttttaccatagcctaataagaaatacattactaatatctgcagtttat-gcttaggaaaacttagatccagaaggtcaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124232129 97 + 181584905 gcataacatctcac--tcaccttttaccatagcctaataagaaatacattactaatatctgcagtttat-gcttaggaaaacttagatccagaaggtcaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16229831 97 +  18395747 gcataacatctcac--tcaccttttaccatagcctaataagaaatacattactaatatctgcagtttat-gcttaggaaaacttagatccagaaggtcaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5241065 97 +  26952557 gcataacatctcac--tcaccttttaccatagcctaataagaagtacattactaatatctgcagtttat-gcttaggaaaacttagatccagaaggtcaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28343836 93 +  82825804 GCATAACAT----C--TCACCTTttaccatagcctaataagaaatacattactaatatctgcagtttat-gcttaggaaaacttagatccagaaggtcaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4007633 97 -   4237731 gcataacatctcac--tcaccttttaccatagcctaataagaaatacattactaatatctgcagtttat-gcttaggaaaacttagatccagaaggtcaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      281262 97 -   1175262 GCATAACatctcac--tcaccttttaccatagcctaataagaaatacattactaatatctgcagtttat-gcttaggaaaacttagatctagaaggtcaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123618532 97 - 204313951 ACATAACatcttac--tcacccttgactgtatcctaataagaaagacattacaaacatctgcagcttat-gcttaggaaaacttaaatcgagaaggtcga
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55670845 95 -  71252344 ACATAACATCTTCC--TCACCCTTGACCGTatcctaataagaaagacattactaacatctgcagtttat-gcttaggataac--aaatccagaaggtcga
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1368056 97 -   1400280 ACATAACatcttac--tcacccttgaccgtatcctaataagaaagacattactaacatctgcagtttat-gcttaggaaaacttaaatccagaaggtcga
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13156903 96 -  42888418 ACATAACatcttac--tcacccttgacc-tatcctaataagaaagacattactaacatctgcagtttat-gcttaggaaaacttaaatccagaaggtcga
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60522031 97 + 108143057 aCATAACAGctcac--tcagtccttaccacattctaataagaaagacattactaacatctgcaatttat-ggctagggaaacttaaattcggaaggccaa
i micMur3.chr12            I 23 C 0
s proCoq1.NW_012155062v1     3561100 97 +  11683526 acataacatctcac--tcactccttagaacatcctaataagaaagacattattaacacctgcaattttc-ggctagggaaacttgaattcggaaggccaa
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3047193 99 +   4132165 aCACAACatctcatcgtccctcattaccacatcctagtgaaaaagacactgttaacatctgaaatttat-agctaaggaaacttaaattcagaagaccaa
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14896523 95 +  74389097 -cataacatctcgc--tcaccc-tcaccacatcctcataagccatacattaccaacatctgcaatttat-gtttagggaaagttaagttcagaaggtcag
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2605471 95 +   3667625 -caTAACatcttgt--tcactcttgtccacctcttaatgagaaagatgctattaacaccgataatttgtggtttaggggaaa--aagttcagagggtcaa
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55495265 248 +  90702639 I

a score=211662.000000
s hg38.chr5_KI270796v1_alt     55999 15 +    172708 ggaa--tttttacaaga
s panTro5.chr5             125166095 15 + 181907262 ggaa--tttttacaaga
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126503066 15 + 183735486 ggaa--tttttacaaga
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1694536 15 +   8933513 ggaa--tttttacaaga
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139825009 16 + 163208435 ggaag-tttttacaaga
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122808551 16 + 180051392 ggaac-tttttacaaga
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124232226 16 + 181584905 ggaac-tttttacaaga
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16229928 16 +  18395747 ggaac-tttttacaaga
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5241162 16 +  26952557 ggaac-tttttacaaga
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28343929 16 +  82825804 ggaac-tttttacaaga
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4007730 17 -   4237731 ggaacttttttacaaga
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      281359 16 -   1175262 ggaac-tttttacaaga
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123618629 16 - 204313951 ggaac-tttttacaaga
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55670940 16 -  71252344 ggaac-tttttataaga
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1368153 16 -   1400280 ggaac-tttttacaaga
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13156999 16 -  42888418 ggaac-tttttacgaga
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60522128 15 + 108143057 tgaa--cttatgcaagg
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3561197 15 +  11683526 ggaa--cttgtgcaagg
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3047292 15 +   4132165 ggaa--gttttgcaagg
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55495513 15 +  90702639 GGAA--CTTTTACAAGA
i mm10.chr18               I 248 C 0
s canFam3.chr11             14896618 15 +  74389097 ggga--ttttcacaaga
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2605566 15 +   3667625 ggaa--cttgggcaaga
i dasNov3.JH567306         C 0 C 0

a score=630531.000000
s hg38.chr5_KI270796v1_alt     56014 48 +    172708 acacacaggt-----aataagtgacagcaccaatattgaaatctaggtcttct
s panTro5.chr5             125166110 48 + 181907262 acacgcaggt-----aataagtgacagcaccaatattgaaatctaggtcttct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126503081 48 + 183735486 acacgcaggt-----aataagtgacagcaccaatattgaaatctaggtcttct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1694551 48 +   8933513 acacacaggt-----aataagtgacagcaccaatattgaaatctaggtcttct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139825025 48 + 163208435 acacacaggt-----aataagtgacagcaccagtattgaaatctaggtcttat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122808567 48 + 180051392 acacacagtt-----aataggtgacagcatcaatattgaaatctaggtctttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124232242 48 + 181584905 acacacagtt-----aataggtgacagcatcaatattgaaatctaggtctttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16229944 48 +  18395747 acacacagtt-----aataggtgacagcatcaatattgaaatctaggtctttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5241178 48 +  26952557 acacacagtt-----aataggtgacagcatcaatattgaattctaggtctttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28343945 48 +  82825804 acacacagtt-----aataggtgacagcatcaatattgaaatctaggtctttt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4007747 48 -   4237731 acacacagtt-----aataggtgacagcatcaatattgaaatctaggtctttt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      281375 48 -   1175262 acacacaggt-----aataggtgacagcatcgatattgaaatctaggtctttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123618645 48 - 204313951 acacacatgt-----aatacgtgacagtatcaatattgaaatcaaggtcttct
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55670956 48 -  71252344 acacacatgt-----aatacatggcagtaccaatattgaaatctaggtcttct
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13157015 48 -  42888418 acacacatgt-----aatacgtgacagtaccaatattgaaatctaggtcttct
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60522143 48 + 108143057 acacacaggt-----aataagtgatagtgccaaaattgaaacttaggtcttct
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3561212 48 +  11683526 acacacaggt-----aataagtgatagcaccaaaactgaaacttaggtcttct
i proCoq1.NW_012155062v1   C 0 I 329
s otoGar3.GL873679           3047307 53 +   4132165 acacacagctaaatgaatgagtgagggcaccagaattgaaacttaggtcttct
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55495528 20 +  90702639 GCATACAGGT-----GATAAGTACT----------------------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14896633 48 +  74389097 atacacagat-----aataaatgatagaatgaagatagaaacctagagcttct
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2605581 48 +   3667625 acatgcaagt-----aataaatcacagcaccaagattgaagcctagcgcttct
i dasNov3.JH567306         C 0 C 0
e cebCap1.NW_016107829v1     1368169  0 -   1400280 C

a score=37502.000000
s hg38.chr5_KI270796v1_alt     56062 3 +    172708 caa
s panTro5.chr5             125166158 3 + 181907262 caa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126503129 3 + 183735486 caa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1694599 3 +   8933513 caa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139825073 3 + 163208435 caa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122808615 3 + 180051392 caa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124232290 3 + 181584905 caa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16229992 3 +  18395747 caa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5241226 3 +  26952557 caa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28343993 3 +  82825804 caa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4007795 3 -   4237731 caa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      281423 3 -   1175262 caa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123618693 3 - 204313951 caa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55671004 3 -  71252344 caa
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13157063 3 -  42888418 caa
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60522191 3 + 108143057 caa
i micMur3.chr12            C 0 I 325
s otoGar3.GL873679           3047360 3 +   4132165 caa
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55495548 2 +  90702639 TA-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14896681 3 +  74389097 caa
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2605629 3 +   3667625 cac
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3561260 329 +  11683526 I
e cebCap1.NW_016107829v1     1368169 0 -   1400280 C

a score=2694538.000000
s hg38.chr5_KI270796v1_alt     56065 298 +    172708 tctaaacc----tttttttttccTTTTTTAAAGAAAAA-------ACTATATGAAGTTTCTCACAGGAAAGTG--AG---------------AGGGTTGGTGGGGGTCGG-----AAAT-AAAAGCAC-AAGAAATGGGAGAAAAACAAGACTAGG--GAACAAATGTAACT-atatttactgagcactggctatgccccaggcactggtttaagctttt----tatattcagcatcccataga---tcttc---tca---actctatgaaccaggtactggtatccctg-tttag-agaggaggaagcagaccctta-gaagactcagtaag-tcaacagggtcactcaggc
s panTro5.chr5             125166161 298 + 181907262 tctaaacc----tttttttttccTGTTTTAAAGAAAAA-------ACTATATGAAGTTTCTCATAGGAAAGTG--AG---------------AGGGTTGGTGGGGGTCGG-----AAAT-AAAAGCAC-AAGAAATGGGAGAAAAACAAGACTAGG--GAACAAATGTAACT-atatttactgagcactggctatgccccaggcactggtttaagctttt----tatattcagcatcccataga---tcttc---tca---actctatgaaccaggtactggtatccctg-tttag-agaggaggaagcagaccctta-gaagactcagtaag-tcaacagggtcactcaggc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126503132 296 + 183735486 tctaaacc-----ttttttttccTGTTTTAAAG-AAAA-------ACTATATGAAGTTTCTCATAGGAAAGTG--AG---------------AGGGTTGGTGGGGGTCGG-----AAAT-AAAAGCAC-AAGAAATGGGAGAAAAACAAGACTAGG--GAACAAATGTAACT-atatttactgagcactggctatgccccaggcactggtttaagctttt----tatattcagcatcccataga---tcttc---tca---actctatgaaccaggtactggtatccctg-tttag-agaggaagaagcagaccctta-gaagactcagtaag-tcaacagggtcactcaggc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1694602 293 +   8933513 tctaaacc-----ttttttcttCTTTTTTAA---AAAA-------ACTATATGAAGTTTCTCATAGGAAAGTG--AG---------------AGGGTTGGTGGGGGTCGG-----AAAT-AAAAGCAC-AAGAAATGGGAGAAAAACAAGACTAGG--GGACAAATGtaact-atatttactgagcactggctatgccccaggcactggtttaagc-ttt----tatattcagcatcccataga---tcttc---tca---gctctatgaaccaggtactggtatccctg-tttag-agaggaggaagcagaccctta-gaagactcagtaag-tcaacagggtcactcaggc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139825076 297 + 163208435 tctaaacc----ttttttttttcTTTTTTGAAA-AAAA-------ACTATATGAAGTTTCTCATAGGAAAGTG--AG---------------AGGGTTGGTGGGGGTCGG-----AAAT-AAAAGCAC-AAGAAATGGGAGAAAAACAAGACTAGG--GGACAAATGTAACT-GTatttaccgagcactggctatgccccaggcactggtttaagctttt----tatgttcagcatcccataga---tcttc---tca---actatatgaactaggtactggtatccctg-tttag-agaagaggaagcagacccgta-gaagactcagtaag-tcaacagggtcactcaggc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122808618 301 + 180051392 tctaaacctttttttttttTTTCTTTTTTTAAA-AAAA-------ATTATATGAAATTTCTCATAGGAAAGTG--AG---------------AGGGTTGGTGGGGGTCGG-----AAAT-GAAAGCAC-AAGAAATGGTAGAAAAACAAGTCTAGG--GGACAAATGTAACT-atacttattaagcactggctatgccccaggcactggtttaagctttt----catgttcagcatcccatgga---tcttg---tca---actatacgaaataggtactggcatccctg-tttag-ggaggaggaagcagaccctta-gaagactcagtaag-tcatcagggtcactcaggc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124232293 298 + 181584905 tctaaacc---tttttttttttcTTTTTTTAAA-AAAA-------ATTATATGAAGTTTCTCATAGGAAAGTG--AG---------------AGGGTTGGTGGGGGTCGG-----AAAT-GAAAGCAC-AAGAAATGGTAGAAAAACAAGTCTAGG--GGACAAATGTAACT-atacttattaagcactggctatgccccaggcactggtttaagctttt----catgttcagcatctcatgga---tcttg---tca---actatacgaaataggtactggcatccctg-tttag-ggaggaggaagcagaccctta-gaagactcagtaag-tcatcagggtcactcaggc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16229995 298 +  18395747 tctaaacc---ttttttttttcTTTTTTTAAAA-AAAA-------ATTATATGAAGTTTCTCATAGGAAAGTG--AG---------------AGGGTTGGTGGGGGTCGG-----AAAT-GAAAGCAC-AAGAAATGGTAGAAAAACAAGTCTAGG--GGAGAAATGTAACT-atacttattaagcactggctatgccccaggcactggtttaagctttt----catgttcagcatcccatgga---tcttg---tca---actatacgaaataggtactggcatccctg-tttag-ggaggaggaagcagaccctta-gaagactcagtaag-tcatcagggtcactcaggc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5241229 298 +  26952557 tctaaacc---ttttttttttcTTTTTTTAAAA-AAAA-------ATTATATGAAGTTTCTCATAGGAAAGGG--AG---------------AGGGTTGGTGGGGGTCGG-----AAAT-GAAAGCAC-AAGAAATGGTAGAAAAACAAGTCTAGG--GGACAAATGTAACT-atacttattaagcactggctatgccccaggcactggtttaagctttt----tatgttcagcatcccatgga---tcttg---tca---actatacgaaataggtactggcatccctg-tttag-ggaggaggaagcagaccctta-gaagactcagtgag-tcatcagggtcactcaggc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28343996 299 +  82825804 tctaaacc--tttttttttttccTTTTTTTAAA-AAAA-------ATTATATGAAGTTTCTCATAGGAAAGTG--AG---------------AGGGTT-ATGAGGGTCGG-----AAAT-GAAAGCACAAAAAAATGGTAGAAAAACAAGTCTAGG--GGACAAATGTAACT-atacttattgagcactggctatgccccaggcactggtttaagctttt----tatgttcagcatcccatgga---tcttg---tca---actaaatgaaataggtactggcatccctg-tttag-agaggaggaagcagaccctta-gaagactcagtaag-tcatcagggtcactcaggc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4007798 296 -   4237731 tctaaacc--ttttttttttcTTTTTTTTTTTT-AAAA----------ATATGAAGTTTCTCATAGGAAAGTG--AG---------------AGGGTTGGTGGGGGTCGG-----AAAT-GAAAGCAC-AAGAAATGGTAGAAAAACAAGTCTAGG--GGACAAATGTAACT-atacttattaagcactggctatgccccaggcactggtttaagctttt----tatgttcagcatcccatgga---tcttg---tca---actatacgaaataggtactggcatccctg-tttag-ggaggaggaagcagaccctta-gaagactcagtaag-tcatcagggtcactcaggc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      281426 298 -   1175262 tctaaacc---tttttttttcTTTTTTTTAAAA-AAAA-------GTTATATGAAGTTTCTCATAGGAAAGTG--AG---------------AGGGTTGGTGGGGGTCAG-----AAAT-GAAAGCAC-AAGAAATGGTAGAAAAACAAGTCTAGG--GGACAAATGTAACT-atacttattgagcactggctatgccccaggcactggtttaagctttt----tatgttcagcatcccgtgga---tcttg---tca---agtatatgaaataggtactggtatccctg-tttag-agaggaggaagcagaccctta-gaagactcagtaag-tcatcagggtcactcaggc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123618696 304 - 204313951 tccaaaca-----ttttttttttctctTTTAAA-AAAATTAGTCTACTCTATGAAATTTCTCATTGGGAAGTGAAAA---------------AGGGTTGGTGGGCGTAAA-----AAAT-AAAAGCAC-AAGAAATGGCAGAAAAACAAGAGTAGG--GAACAAACGTAACT-acacttattgcgcactggctatgtcccaggtactggtttaagctctt----tatgttcaacatcccattaa---tcttc---tct---attctatgaactaggtactagcatccctg-tttag-agaggaggaagcaaaacc-ta-gaagactcagtaag-tcgtcagggtcactgaggc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55671007 304 -  71252344 tcgaaact-----ttttttttctctTTTAAAAA-AAAATTAGTCTACTATATGAAATTTCTCATTGGAAAGTGAAAA---------------AGGGTTGGTGGGTATAGG-----AAAT-AAAAGCAC-AAGAAATGGGAGAAAAGCAAGAGTAGG--GGACAAATGTGACT-acacttcttgtgcactggctatcccccaggcactggtttaagccttt----tatgttcagcatcctgttaa---tcttc---tca---gctgtatgaactaggtactagcatccctg-tttag-agaggaggaagcaaaacc-tg-gaagactcagtaag-tcatcagggtcactgaggc
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13157066 301 -  42888418 tccaaaCA-----TTTTTT---TCTCTTTAAAA-AAAATTAGTCTACTATATGAAATTTCTCATTGGAAAGTGAAAA---------------AGGGTTGGTGGGTGTAGG-----AAAT-AAAAGCAC-AAGAAATGGGAGAAAAACAAGAGTAGG--GTACCAACataact-acactaactgcgcactggctatgccccaggcactggtttaagctttt----tatgttcagcatcccattaa---tcttc---tca---actctatgaactaggtactagcatccctg-tttag-agaggaggaagcaaaacc-ta-gaagacccagtaag-tcgtgagtgtcactgaggc
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3047363 290 +   4132165 gccaaagc---------------TGTTTTGCTA-TAAA----TCTACTTTTTGATGTTTCTCATAAGAAAGTGAGAA---------------AGGGTTGGTGGGAGTTGG-----AAATGAAAAATAT-AAGAAATAAGTGAGAAA-AAAAGTAGGAAAGAAAAAAGTGACT-ATGCAtaccgagcact---tatgtcccaggtgttggcttaagctttt----taagtgcaagagctcgcaaa---tcctctcatca---gctacacgaactaggtactggtatccctgctttat-agaagaggaaacag--cttca-gaagacttagtaag-tcatcaaggtcatccag--
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55495550 250 +  90702639 ------------TTTGCTTTCCCCGCTCTATAA-ATCC-------ATTTTATGCAGTTT-TTACAGGAAAGTG--AG---------------AAGGACCACGAATGTT-------AAGC-AAGAGAAG-AGGAATTCATA-----------TTAGG-----------------ATGTGTAGTGAGTTCGGGCTGAGCCTCCAGCACTCCCTAAAGCTCCT-------GCTCAAATTCT---------TCTTA---TCG---ACT--GTGAGTTGCACAATCTCATCGTTA-TCTCTCAGAGTTAGAAGGATGGCATAA-AAAGA-TCAAGGGG-TCACCAGGACTACTCAGGT
i mm10.chr18               C 0 I 45
s canFam3.chr11             14896684 243 +  74389097 tccaaagc---tgctccctcccccgccccCAGC-AATA------------------CTCCCC----------------------------------------------------------CCAAGAAC-AG-------------AACAAGGGTAGG--CAAAGAAAGCagctgacacctactgagcactggctatgccccagccattgctttaagctttaaaaaaatgtgcaggatcgcatcagctctctca---tca---gctatatgaattaggtactctcatctcat-ttctc-agaggaggaaggtg----tgt-gaagatcgagtaag-ttatcagggttggccagcc
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2605632 322 +   3667625 tctaaagc-----ttttgtttgtttccCCATAA-GCCT-------ATTTCATGAAGTTTTTCATAGGAATCTG--AGGAAAGGTTATGGTGCAGGATTGAGGGAGGTGGGATGGAAAAG-CAAGGCAC-AAGGAATAGGAGAAAAACAAATGTAGG--AAa-atagatagctggcatgtattaagtgctggctatgttccaggcactgtttaaagctttt----tatataaataatcccattaa---tcctc---tcatggactgtgtgaattaggtactgttgtacccactttac-agaagaagaaatggaaccttaggaagactgagtatgtttctcagtgtcacacagcc
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60522194 325 + 108143057 I
e proCoq1.NW_012155062v1     3561260 329 +  11683526 I
e cebCap1.NW_016107829v1     1368169   0 -   1400280 C

a score=420528.000000
s hg38.chr5_KI270796v1_alt     56363 35 +    172708 agaa--agcagtagactcagaactggaacctatgtag
s panTro5.chr5             125166459 35 + 181907262 agaa--agcagtagactcagaactggaacctatgtat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126503428 35 + 183735486 agaa--agcagtagactcagaactggaacctatgtag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1694895 35 +   8933513 agaa--agtagtagactcagaactggaacctatgtag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139825373 35 + 163208435 agaa--agtagtagactcagaactggaacctatgtag
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122808919 35 + 180051392 agaa--agtagtagactcagaactggaacccatgtag
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124232591 35 + 181584905 agaa--agtagtagactcagaactggaacccatgtag
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16230293 35 +  18395747 agaa--agtagtagactcagaactggaacccatgtag
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5241527 35 +  26952557 agaa--agtagtagactcagaactggaacccatgtag
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28344295 35 +  82825804 agaa--agtagtagactcagaactggaacccatgtag
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4008094 35 -   4237731 agaa--agtagtagactcagaactggaacccatgtag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      281724 35 -   1175262 agaa--agtagtagactcagaactggaacctatgtag
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123619000 35 - 204313951 agaa--agtggtagactcagaatggaaacctatgtaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55671311 35 -  71252344 agaa--agtggtagactcagaattgaaacctttgtaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1368169 35 -   1400280 agaa--agtggtagactcagaattgaaacctatgtaa
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13157367 35 -  42888418 agaa--agtggtagactcagaattgaaacctatgtaa
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3047653 23 +   4132165 ------agtagtagactcagaatttgagc--------
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55495845 35 +  90702639 agcagcagcagcaACCTCAGG--TTGAACTTAAGTAG
i mm10.chr18               I 45 C 0
s canFam3.chr11             14896927 29 +  74389097 agca--agtagtagaatc------tcaacctgtgcag
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2605954 35 +   3667625 agca--agtgatagactcaggttctgaacctatatag
i dasNov3.JH567306         C 0 I 4
e micMur3.chr12             60522194 325 + 108143057 I
e proCoq1.NW_012155062v1     3561260 329 +  11683526 I

a score=771709.000000
s hg38.chr5_KI270796v1_alt     56398 59 +    172708 attctagaattcat-actcctaacaattaaattataGAGAATGTGGA----TGGGAAAAA--AGAA--------------------
s panTro5.chr5             125166494 59 + 181907262 attctagaattcat-actcctaacaattaaattataGAGAATGTGGA----TGGGAAAAA--AGAA--------------------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126503463 59 + 183735486 attctagaattcat-actcctaacaattaaattataGAGAATGTGGA----TGGGAAAAA--AGAA--------------------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1694930 59 +   8933513 attctagaattcat-actcctaacacttaaattataGAGAATGTGGA----CGGGAAAAA--AGAA--------------------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139825408 59 + 163208435 attctagaattcat-acttctaacaattaaattatacAGAATGTGGA----GGGGAAAAA--AGAA--------------------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122808954 59 + 180051392 attccagaattcat-actcctaacaattaaattataGAGAATGTGGA----GGGGAAAAA--AGAA--------------------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124232626 59 + 181584905 attccagaattcat-actcctaacaattaaattataGAGAATGTGGA----GGGGAAAAA--AGAA--------------------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16230328 59 +  18395747 attccagaattcat-actcctaacaattaaattataGAGAATGTGGA----GGGGAAAAA--AGAA--------------------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5241562 58 +  26952557 attccagaattcat-actcctaacaattaaattataGAGAATGTGGA----GGGGAAAAA--AG-A--------------------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28344330 59 +  82825804 attccagaattcat-actcctaacaattaaattataGAGAATGTGGA----GGGGAAAAC--AAGA--------------------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4008129 59 -   4237731 attccagaattcat-actcctaacaattaaattataGAGAATGTGGA----GGGGAAAAA--AGAA--------------------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      281759 59 -   1175262 attctagaattcat-actcctaacaattaaattataGAGAATGTGGA----GGGGAAAAA--AGAA--------------------
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123619035 61 - 204313951 atcctagaattcat-acccctaacaattaaattataGAGAATGTGAA----GGGAAAAAGACAAAA--------------------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55671346 60 -  71252344 atcctagaattcataactcctaacaattaaattataGAGAAGGTGGA----GGGAAAAAG--AGAA--------------------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1368204 59 -   1400280 atcctagaattcat-actcctaacaattaaattataGAGAATGTGGA----GGGAAAAAG--AGAA--------------------
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13157402 59 -  42888418 atcctagaattcat-actcataacaattaaattataGAGAATGTGGA----GGGAAAAAG--AGAA--------------------
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3561589 59 +  11683526 aTTCTAGAGCTCAT-ATTCCTAATAATTGAATTGCAGAGAATGTGGA----AGGaaaaaa--agaa--------------------
i proCoq1.NW_012155062v1   I 329 C 0
s otoGar3.GL873679           3047676 49 +   4132165 ----------tcaT-ACTCGCAACAATTAAATTGTAGAGAATGTGGA----AGGAAAAGG--AAAA--------------------
i otoGar3.GL873679         C 0 M 633
s mm10.chr18                55495880 59 +  90702639 ATGCTTCAGCTCAT-AGTCCTAACAATTACATTATAGAGATTATGAA----GGCAGGATG--AGAA--------------------
i mm10.chr18               C 0 I 6
s canFam3.chr11             14896956 61 +  74389097 attct-gggctcAC-ACTTTTAGCAATGAAATCAGAGGAAATGAGGGAGGTGGGGGAAAG--ACA---------------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2605993 75 +   3667625 attccaaggctcAC-AGCCTTAACA----AATTATTTAGAATTTGAA----ATTAAAAAC--AAAATGAAACAAACATAAACAGGA
i dasNov3.JH567306         I 4 C 0
e micMur3.chr12             60522194 325 + 108143057 I

a score=23127.000000
s hg38.chr5_KI270796v1_alt     56457 3 +    172708 -AAA
s panTro5.chr5             125166553 3 + 181907262 -AAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126503522 3 + 183735486 -AAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1694989 3 +   8933513 -AAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139825467 3 + 163208435 -AAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122809013 3 + 180051392 -AAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124232685 3 + 181584905 -AAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16230387 3 +  18395747 -AAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5241620 3 +  26952557 -AAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28344389 3 +  82825804 -AAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4008188 3 -   4237731 -AAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      281818 3 -   1175262 -AAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123619096 3 - 204313951 -AAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55671406 3 -  71252344 -AAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1368263 3 -   1400280 -AAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13157461 3 -  42888418 -AAA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3561648 3 +  11683526 -aaa
i proCoq1.NW_012155062v1   C 0 I 4
s mm10.chr18                55495945 2 +  90702639 --GG
i mm10.chr18               I 6 I 1
s canFam3.chr11             14897017 3 +  74389097 -AGA
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2606068 3 +   3667625 TGA-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60522194 325 + 108143057 I
e otoGar3.GL873679           3047725 633 +   4132165 M

a score=1580593.000000
s hg38.chr5_KI270796v1_alt     56460 118 +    172708 AAAAA--GTCTGAGTGTCTGGCAAAATTGTCCCA-AACTCTCAG----GTATCCTAAATGC-TTTTTCTTAATATAGTAAGATCA--------CTCTTTT-CTTTCTGT----------------------------TTCCGTTCTGTTCACTTTGCTATTTA
s panTro5.chr5             125166556 120 + 181907262 AAAAAATGTCTGAGTGTCTGGCAAAATTGTCCCA-AACTCTCAG----GTATCCTAAATGC-TTTTTCTTAATATAGTAAGATCA--------CTCTTTT-CTTTCTGT----------------------------TTCCATTCTGTTCACTTTCCTATTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126503525 118 + 183735486 AAAAT--GTCTGAGTGCCTGGCAAAATTGTCCCA-AACTCTCAG----GTATCCTAAATGC-TTTTTCTTAATATAGTAAGATCA--------CTCTTTT-CTTTCTGT----------------------------TTCCATTCTGTTCACTTTCCTATTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1694992 117 +   8933513 AAAT---GTCTGAGTGTCTGGCAAAATTGTCCCA-AACTCTCAG----GTATCCTAAATGC-TTTTTCTTAATATAGTAAGATCA--------CTCTTTT-CTTTCTGT----------------------------TTCCATTCTGTTCACTTTGCTATTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139825470 116 + 163208435 AAT----GTCTGAGTATCTGGCAAAATTGTTCCG-AACTCTCAG----GTATCCTACGTGC-TTTTTCTTAATATAGTGAGGTCA--------CTCTTTT-CTTTCTGT----------------------------TTCTATTCTGTTCACCTTGCTGTTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122809016 119 + 180051392 AAAAAT-GTCTGAGTGTCTGGCAAAATTGTCCCA-AACTCTCAG----GCATCCTAAATGC-TTTTTCTTGATATAGTAAGATCA--------CTCTTTT-CTTTCTGT----------------------------TTCTATTCTGTTCATTTTGCTATTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124232688 119 + 181584905 AAAAAT-GTCTGAGTGTCTGGCAAAATTGTCCCA-AACTCTCAG----GCATCCTAAATGC-TTTTTCTTAATATAGTAAGATCA--------CTCTTTT-CTTTCTGT----------------------------TTCTATTCTGTTCATTTTGCTATTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16230390 119 +  18395747 AAAAAT-GTCTGAGTGTCTGGCAAAATTGTCCCA-AACTCTCAG----GCATCCGAAATGC-TTTTTCTTAATATAGTAAGATCA--------CTCTTTT-CTTTCTGT----------------------------TTCTATTCTGTTCATTTTGCTATTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5241623 119 +  26952557 AAAAAT-GTCTGAGTGTCTGGCAAAATTGTCCCA-AACTCTCAG----GCATCCTAAATGC-TTTTTCTTAATATAGTAAGATCA--------CTCTTTT-CTTTCCAT----------------------------TTCTATTCTGTTCATTTTGCTATTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28344392 119 +  82825804 AAAAAT-GTCTGAGTGTCTGGCAAAATTGTCCCA-AACTCTCAG----GCATCCTAAATGC-TTTTTCTTAATATAGTAAGATCA--------CTCTTTT-CTTTCTGT----------------------------TTCTATTCTGTTCATTTTGCTATTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4008191 119 -   4237731 AAAAAT-GTCTGAGTGTCTGGCAAAATTGTCCCA-AACTCTCAG----GCATCCTAAATGC-TTTTTCTTAATATAGTACGATCA--------CTCTTTT-CTTTCTGT----------------------------TTCTATTCTGTTCATTTTGCTATTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      281821 113 -   1175262 A-------TATGAGTGTCTGGCAAAGTTGTCCCA-AACTCTCAG----GCATCCTAAATGC-TTTTTCTTAATATAGTAAGATCA--------CTCTTTT-CTTTCTGT----------------------------TTCTATTCTGTTCATTTTGCTATTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123619099 117 - 204313951 AAAAA--GCCCGAGTGTCTGACATAATTGTCCCA-CGCTCTCAG----GTTTCCTAAATGC-TTTTTCTTGATATAGTAAGATCA--------CT-GTTT-CTCTCTGT----------------------------TTCTATACTGTTCATTTTGCTATTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55671409 118 -  71252344 AAAAT--GTCTGAGTGTCTGGCATAATTGTCCCA-AACTCTCAG----GTTTCCTAAATGC-TTTCCCTTGATACAGTGAGATCA--------CTCTTTT-CTTTCTGT----------------------------TTCTACACTGTTCATTTTGCGATTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1368266 118 -   1400280 AAAAA--GTCTGAGTGTCTGGCATAATTATCCCA-AACTCTCAG----GTTTCCTAAATGC-TTTTTCTTGATATAGTAAGATCA--------CTCTTTT-CTTTCTGT----------------------------TTCTATAGTGTTCATTTTGCTCTTTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13157464 118 -  42888418 AAAAT--GTCTGAGTGTCTGGCATAATTGTCCCA-AACTCTCAG----GTTTCCTAAATGC-TTTTTCTTGATATAGTAAGATCG--------CTCTTTT-CTTTCTAT----------------------------TTCTATACTGTTCATTTTGCTATTTA
i aotNan1.NW_018505940v1   C 0 I 59
s micMur3.chr12             60522519 118 + 108143057 AAAAA--TTCTGAGTGTCTGGCATAAGTACCCTG-AACCCTTAA----GTGTCCTAAATGC-TTTTTCTTAATATAGCCAAATCA--------CTTTTTT-CTTTCTGT----------------------------TTCTTGTCTGTTCATTTCACTATTCA
i micMur3.chr12            I 325 C 0
s proCoq1.NW_012155062v1     3561655 118 +  11683526 aaaaa--TTCTGAGTGTCTGGCGTAAGTACCCTG-AACCCTTAG----GTGTCCTAAATGC-TTTTTCTTAATATAGCCAAATCA--------CTTTTTT-ATTTCTGT----------------------------TTCTTGTCTGTTCATTTCACTATTCA
i proCoq1.NW_012155062v1   I 4 C 0
s mm10.chr18                55495948 156 +  90702639 AAGAA--GTCTTGGTGACCTCTACAACTGTGCCA-CATCCCCAGGGAAGTATCCCAAA-GA-GTTATCTTAATACAGCCAAGTCACATTTCCCCTCTTTT-AGTTTTGTTGttgttttttgtttgtttgtttgtttgttcgtttctgtttgttGTGCTATAA-
i mm10.chr18               I 1 C 0
s canFam3.chr11             14897023 118 +  74389097 AAGGA--GTCTGAGTGTCTGGCATGATTGCCCAA-AACTCTCAG----GTGTTCTAAATGC-TTTCTCTTGACACAGGCAAATCA--------CTTTTTT-CTTCCTAT----------------------------CTCTTTTATGTTCATTTTGCTATTCA
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2606071 121 +   3667625 AGGAA--ACTTGAGAATCTGGTACAACTGCCTTAGAACTCTTAG----TTGTCCTAGAAGCTTTTTTCTTGATACAGGCAAATCA--------TTTTTTTCCTTTCTGT----------------------------TACTTTTCTCTTCATTTTACTATTCA
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3047725 633 +   4132165 M

a score=52647.000000
s hg38.chr5_KI270796v1_alt     56578 4 +    172708 --TGTG
s panTro5.chr5             125166676 4 + 181907262 --TGTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126503643 4 + 183735486 --TGTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1695109 4 +   8933513 --TGTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139825586 4 + 163208435 --TGTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122809135 4 + 180051392 --TGTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124232807 4 + 181584905 --TGTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16230509 4 +  18395747 --TGTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5241742 4 +  26952557 --TGTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28344511 4 +  82825804 --TGTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4008310 4 -   4237731 --TGTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      281934 4 -   1175262 --TGTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123619216 4 - 204313951 --TGTG
i calJac3.chr2             C 0 I 48
s saiBol1.JH378106          55671527 4 -  71252344 --TGTG
i saiBol1.JH378106         C 0 I 49
s cebCap1.NW_016107829v1     1368384 4 -   1400280 --TGTG
i cebCap1.NW_016107829v1   C 0 I 49
s micMur3.chr12             60522637 4 + 108143057 --TGTG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3561773 4 +  11683526 --TGTG
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55496104 4 +  90702639 --TGTA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14897141 4 +  74389097 --AGTG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2606192 4 +   3667625 CCTG--
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3047725 633 +   4132165 M
e aotNan1.NW_018505940v1    13157582 59 -  42888418 I

a score=439368.000000
s hg38.chr5_KI270796v1_alt     56582 33 +    172708 TTATAACATCG---AA-GGTGATGATGGTGGCAGAAA
s panTro5.chr5             125166680 33 + 181907262 TTATAACATCG---AA-GGTGATGATGGTGGCAGAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126503647 33 + 183735486 TTATAACATCG---AA-GGTGATGATGGTGGCAGAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1695113 33 +   8933513 TTATAACATCG---AA-GGTGATGATGGTGGCAGAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139825590 33 + 163208435 TTAGAACATCG---AA-AGTGAAGATGGTGGCAGAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122809139 33 + 180051392 TTACAATGTCG---AA-GTTGATGATGGTGGCAGAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124232811 33 + 181584905 TTACAACGTCG---AA-GTTGATGATGGTGGCAGAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16230513 33 +  18395747 TTACAACGTCG---AA-GTTGATGATGGTGGCAGAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5241746 33 +  26952557 TTATAACGTCG---AA-GTTGATGATGGTGGCAGAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28344515 29 +  82825804 TTATAACGTCG---AA-GTTGATGATGGTGGC----A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4008314 33 -   4237731 TTATAACGTCG---AA-GTTGATGATGGTGGCAGAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      281938 33 -   1175262 TTATAACATCG---AA-GTTGATGATGGTGGCAGAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123619268 30 - 204313951 TCACAACATCA---AA-GG---TGATGGTGGCAGAAA
i calJac3.chr2             I 48 C 0
s saiBol1.JH378106          55671580 33 -  71252344 TCATAACATCA---AA-GGCGATGATGGTGGCAGAAA
i saiBol1.JH378106         I 49 C 0
s cebCap1.NW_016107829v1     1368437 33 -   1400280 TCGTAACATCA---AA-GGTAATGATGGTGGCAGAAA
i cebCap1.NW_016107829v1   I 49 C 0
s aotNan1.NW_018505940v1    13157641 33 -  42888418 TCATAACATCA---AA-GGTGATGATGGTGGCAGAAA
i aotNan1.NW_018505940v1   I 59 C 0
s micMur3.chr12             60522641 34 + 108143057 TTATAACGTCA---GTGGGTGATCATGGTGGCAGAAA
i micMur3.chr12            C 0 I 20
s proCoq1.NW_012155062v1     3561777 33 +  11683526 TTATAATGTCA---GT-GGTGATCATGGTGGTAGAAA
i proCoq1.NW_012155062v1   C 0 I 20
s mm10.chr18                55496108 36 +  90702639 TTAGAATGTCATCTGT-GATGGTGATGGTGGAAGAAA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14897145 33 +  74389097 TTATAGTGTCA---AT-GGTGATGACAGTGGCGCAAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2606196 33 +   3667625 CTTTAATGTTG---GT-GGTGATGATGGTGGCAGAAA
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3047725 633 +   4132165 M

a score=190931.000000
s hg38.chr5_KI270796v1_alt     56615 18 +    172708 GAAGGACATAAAT-GCAAC
s panTro5.chr5             125166713 18 + 181907262 GAAGGACATCAAT-GCAAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126503680 18 + 183735486 GAAGGACATCAAT-GCAAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1695146 18 +   8933513 GAAGGACATAAAT-GCAAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139825623 18 + 163208435 GAAGGACATAAAT-GCAAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122809172 18 + 180051392 GAAGGACATAAAT-GCAAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124232844 18 + 181584905 GAAGGACATAAAT-GCAAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16230546 18 +  18395747 GAAGGACATAAAT-GCAAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5241779 18 +  26952557 GAAGGACATAAAT-GCAGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28344544 18 +  82825804 GAAGGACATAAAT-GCAAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4008347 18 -   4237731 GAAGGACATAAAT-GCAAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      281971 18 -   1175262 GAAGGACATAAAT-GCAAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123619298 18 - 204313951 GAAGGACATAACT-GCAGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55671613 18 -  71252344 GAAGGACATAACT-GCAGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1368470 18 -   1400280 GAAGGACATAACT-GCAGT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13157674 18 -  42888418 GGAGGACATAACT-GCAGT
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55496144 18 +  90702639 AAGAGAAACAAAC-TCAAT
i mm10.chr18               C 0 I 29
s canFam3.chr11             14897178 12 +  74389097 --AGGA----AAT-GGAGC
i canFam3.chr11            C 0 I 4
s dasNov3.JH567306           2606229 18 +   3667625 -AAGGACATGAATCTCAGT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60522675 20 + 108143057 I
e proCoq1.NW_012155062v1     3561810 20 +  11683526 I
e otoGar3.GL873679           3047725 633 +   4132165 M

a score=1268800.000000
s hg38.chr5_KI270796v1_alt     56633 102 +    172708 TTGGGCCATTTTTTTA-------------------TTTTGGGAAAAACTGTGCATATCCGAAAGGAatattcaaatctgaattcaccatattcc--------ctcttaaatgtactcctctttatatat
s panTro5.chr5             125166731 102 + 181907262 TTGGGCCATTTTTTTA-------------------TTTTGGGAAAAACTGTGCATATCCGAAAGGcatattcaaatctgaattcaccatattcc--------ctcttaaatgtactcctctttatatat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126503698 102 + 183735486 TTGGGCCATTTTTTTA-------------------TTTTGGGAAAAACTGTGCATATCCGAAAGGcatattcaaatctgaattcaccatattcc--------ctcttaaatgtactcctctttatatat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1695164 102 +   8933513 TTGGGCCATTTTTTTA-------------------TTTTGGGAAAAACTGTGCATATCCGAAAGGcatattcaaatctgaattcaccatattcc--------ctcttaaatgtactcctctttatatgt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139825641 102 + 163208435 TTGGGCCATTTTTTAA-------------------TTTTGGGAACAACTGTGCATATCTGAAAGGTatattcaaatctgaattcaccatattcc--------ctcttcaatgtactcctctttatatat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122809190 102 + 180051392 TTGGGCCCTTGTGTTA-------------------TTTTGGGAACAACTGTGCATATCTGAAAGGcatattcaaatctgaattcactatattcc--------ctcttaaatatactcctctttatatat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124232862 102 + 181584905 TTGGGCCCTTGTGTTA-------------------TTTTGGGAACAACTGTGCATATCTGAAAGGcatattcaaatctgaattcactatattcc--------ctcttaaatatactcctctttatatat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16230564 102 +  18395747 TTGGGCCCTTGTGTTA-------------------TTTTGGGAACAACTGTGCATATCTGAAAGGcatattcaaatctgaattcactatattcc--------ctcttaaatatactcctctttatatat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5241797 102 +  26952557 TTGGGCCCTTGTGTTA-------------------TTTTGGGAACAACTGTGCATATCTGAAAGGcatattcaaatctgaattcactatattcc--------ctcttaaatatactcctctttatatat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28344562 101 +  82825804 TTGGGCCCTTGTGTTA--------------------TTTGGGAACAACTGTGCATATCTGAAAGGcatattcaaatctgaattcactatattcc--------ctcttaaatatactcctctttatatat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4008365 102 -   4237731 TTGGGCCCTTGTGTTA-------------------TTTTGGGAACAACTGTGCATATCTGAAAGGcatattcaaatctgaattcactatattcc--------ctcttaaatatactcatctttatatat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      281989 102 -   1175262 TTGGGCCATTGTGTTA-------------------TTTTGGTAACAACTGTGCATATCTGAAAGGcattttcaaatctgaattcaccatattcc--------ctcttaaatatactcctctttatatat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123619316  99 - 204313951 TTGGGCCATTTTGTTA-------------------TTTTGAG---AACTGtgggtatctgaaaagcatattcaaatctgaattcaccagattcc--------ctcttaaatgtacttgtttttacatat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55671631 102 -  71252344 TTGGGCCATTTTGTTA-------------------TTTTGAGAACAACTGtggatatctgaaaagcatattcaaatctgaattcactgtagtcc--------ctcttaaatgtactcgtttttacataa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1368488 102 -   1400280 TTGGGCCATTTTGTTA-------------------TTTTGAGAACAACTGtggatatctgaaaagcatattcaaatctgaattccccatattcc--------ctcttaaatgtactcgtttttacatat
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13157692 102 -  42888418 TTGGGCCATTTTGTTA-------------------TTTTGAGAACAACTGtggatatctgaaaagcatattcaaatctgagttcaccatattcc--------ctcttaaatgtcctcatttttacatat
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60522695 102 + 108143057 TTGGTGAATGTTGTTA-------------------TTTTAGGGACAGTTGTACTTATTTGAGAGGcatcttcaaatctgaattcatcacattct--------ctcttaaactcacttctcctcttatac
i micMur3.chr12            I 20 C 0
s proCoq1.NW_012155062v1     3561830  99 +  11683526 TTGGGGAATGTTGTTA-------------------TTTGGGGGACACTTGTGCTTATTTGAGAGGCATATTCAAATCTGAATTCGCCGTATTCC--------CTCTTAAACTTACTT---ATCTTATAC
i proCoq1.NW_012155062v1   I 20 C 0
s mm10.chr18                55496191  92 +  90702639 ttgttttgttttgtttgtttgtttgtttgttttgtttTTAGGATGATCCATGCTTATCTAAGAGG------------------------ATACC--------TGTCTAAACACAATCCTC-----ATAT
i mm10.chr18               I 29 C 0
s canFam3.chr11             14897194 110 +  74389097 TTCAGGCTCTTTATTA-------------------TTTTGGGAACTCTTATGCAAATCTGACAGAGGCAGTCAAAGCTGAATTCACCACATCCCCTCGACTTCTCTTACATGCTCTCTCATTTATTTAT
i canFam3.chr11            I 4 I 176
s dasNov3.JH567306           2606247 102 +   3667625 TTAGGCCACTTTATTA-------------------TTTTGTGAACAgcttttcaaatctaaaagatatatccaaagctaaatccgtcatatttc--------ctctgaaatcctccccttctcttcaat
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3047725 633 +   4132165 M

a score=732146.000000
s hg38.chr5_KI270796v1_alt     56735 53 +    172708 gctccctc-aattaatggcacaatctaca-ttttattcttaccaaaaacctggga-
s panTro5.chr5             125166833 53 + 181907262 gctccctc-aattaatggcacaatctaca-ttttattcttaccaaaaacctggaa-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126503800 53 + 183735486 gctccctc-aattaatggcacaatctaca-ttttattcttaccaaaaacctggaa-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1695266 53 +   8933513 gctccctc-aattaatggcacaatctaca-ttttattcttaccaaaaacctggaa-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139825743 53 + 163208435 gctccctc-aattaatggcacaatctact-ttttattcttaccaaaaacctggaa-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122809292 53 + 180051392 gctccctc-aattaatggcacaatctaca-ttttattcttaccaaaaacctGGCA-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124232964 53 + 181584905 gctccctc-aattaatggcacaatctaca-ttttattcttaccaaaaacctGGCA-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16230666 53 +  18395747 gctccctc-aatgaatggcacaatctaca-ttttattcttaccaaaaacctGGCA-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5241899 53 +  26952557 gctccctc-aattaatggcacaatctaca-ttttattcttaccaaaaacctGGCA-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28344663 53 +  82825804 gctccctc-aattaatggcacaatctaca-ttttattcttaccaaaaacctGGCA-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4008467 53 -   4237731 gctccctc-aattaatggcacaatctaca-ttttattcttaccaaaaacctGGCA-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      282091 53 -   1175262 actccctc-aattaatggcacaatctaca-ttttattcttaccaaaaacctGGCA-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123619415 52 - 204313951 gcaccctc-aattaatggcacgatctaca-tttcattcttacc-aaaacctggca-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55671733 53 -  71252344 gcaccctc-aattaatggcacgatctaca-tttcattcttatcaaaaacctggca-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1368590 53 -   1400280 gcaccctc-aattaatgggatgatctaca-tttcattcttatcaaaaacctggca-
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13157794 53 -  42888418 gcaccctc-aattaatggcacgatctaca-tttcattcttaccaaaaacctggca-
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60522797 53 + 108143057 tcgctctc-aattagtggcacaatctacc-tttTATCTTTAACAAAACACTGGTT-
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3561929 53 +  11683526 GTGCTCTC-AATTAGTGACACAATCTAAC-TTTCATCTTTACCAAAACACTGGCT-
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55496283 55 +  90702639 ATCCCTTCAAAGTAATGCCACAGCCTGAATTTTTACCACCACCAAAAACATAGGT-
i mm10.chr18               C 0 I 1
s canFam3.chr11             14897480 53 +  74389097 GCTCTCTC-ACTTAATGGCACAATCTACT-TTTTGTTATCTACAAAAACCTGAGC-
i canFam3.chr11            I 176 I 1
s dasNov3.JH567306           2606349 53 +   3667625 gttctctc-aattaatggca-aatctact-ttccctcttcttcaaaaaccttggta
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3047725 633 +   4132165 M

a score=1359937.000000
s hg38.chr5_KI270796v1_alt     56788 104 +    172708 CTTTCTCAtattatta-tattgctattattattTACTAGATT--CCTCTGAATGATTC-TTTAAA--ATCA-----------------CTTTCTATTATTCTGAAAGCACTGCAGCCCTTTTTAGAA
s panTro5.chr5             125166886 104 + 181907262 CTTTCTCATATTATTA-TATTGCTATTATGATTTACTAGATT--CCTCTGAATGATTC-TTTAAA--ATCA-----------------CTTTCTATTATTCTGAAAGCACTGCAGCCCTTTTTAGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126503853 104 + 183735486 CTTTCTCATATTATTA-TATTGCTATTATGATTTACTAGATT--CCTCTGAATGATTC-TTTAAA--ATCA-----------------CTTTCTATTATTCTGAAAGCACTGCAGCCCTTTTTAGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1695319 104 +   8933513 CTTTCTCAtattatta-tattgctattattattTACTAGATT--CCTCTGAATGATTG-TTTAAA--ATCA-----------------CTTTCTATTATTCTGAAAGCACTGCAGCTCTTTTTAGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139825796 104 + 163208435 CTTTCTCAtattatta-tattgctattattattTACTAGATT--CCTCTGAATGATTC-TTTAAA--ATCA-----------------CTTTCTATTATTCTGAAAGCACTGCATCCTTTTTTAGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122809345 103 + 180051392 CCTTCTCATATT-TTA-AATTGCTATTATTATTTACCAGATT--CCTCTGGATGATTC-TGTAAA--ATCA-----------------CTTTCTATTATTCTGAAAGCACTGCATCCCTTTTTAGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124233017 103 + 181584905 CCTTCTCATATT-TTA-AATTGCTATTATTATTTACCAGATT--CCTCTGGATGATTC-TCTAAA--ATCA-----------------CTTTCTATTATTCTGAAAGCACTGCATCCCTTTTTAGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16230719 103 +  18395747 CCTTCTCATATT-TTA-AATTGCTATTATTATTTACCAGATT--CCTCTGGATGATTC-TCTAAA--ATCA-----------------CTTTCTATTATTCTGAAAGCACTGCATCCCTTTTTAGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5241952 103 +  26952557 CCTTCTCATATT-TTA-AATTGCTATTATTATTTACCAGTTT--CCTCTGGATGATTC-TCTAAA--ATCA-----------------CTTTCTATTATTCTGAAAGCACTGCATCCCTTTTTAGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28344716 103 +  82825804 CCTTCTCATATT-TTA-AATTGCTATTATTATTTACCAGATT--CCTCTGGATGATTC-TCTAAA--ATCA-----------------CTTTCTATTATTCTGAAAGCACTGCATCCCTTTTTAGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4008520 103 -   4237731 CCTTCTCATATT-TTA-AATTGCTGTTATTATTTACCAGATT--CCTCTGGATGATTC-TCTAAA--ATCA-----------------CTTTCTATTATTCTGAAAGCACTGCATCCCTTTTTAGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      282144 104 -   1175262 CCTTCTCATATTACTA-TATTGCTATTATTATTTACCAGATT--CCTCTGGATGATTC-TTTAAA--ATCA-----------------CTTTCTATTATTCTGAAAGCCCTGCATCCCTTTTTAGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123619467 104 - 204313951 tcatcTCGTATTATTA-TATTCCTATTATTATTTACTAGATT--TCTCTGAATAATCC-TTTAAA--ATCA-----------------CTTCATATTATTTTGAAAGCAGCACATCCCTTTTTAGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55671786 102 -  71252344 tcatcTCGTATTAATA-TATTGCTATTATTATTTACTAGATT--TCTCTGAATGATTC-TTTAAA--ATCA-----------------CTT--TATTATTTTGAAAGCAGCACACTCCTTTTTAGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1368643 104 -   1400280 tcatcTCATATTATTA-TATTACTATTCTTATTTACAAGATT--TCTCTGAAAGATTC-TTTAAA--ATCA-----------------CTTTATATCATTTTGAAAGCAGGACATCCCTTTGTAGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13157847 104 -  42888418 tcatcTCGtattatta-tattactattattattTACTAGATT--TCTCTGAATGATTC-TTCAAA--ATCA-----------------CTTTATATTATTTTGAAAGCAGCACATCCCTTTTTAGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60522850 106 + 108143057 CCTTTATACattatta-tattactattattatttattGGATTCCCCTTTGAGTGATTA-TTTAAA--ATTA-----------------CTTTATGTCATTCTGAAACCACTGCATCCCTTTTTAGAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3561982 104 +  11683526 CCTTTTCCTATCATTA-TCTTACTATTATTATTTACTG--CTTTCCTCTGAGTGATTA-TTTAAA--ATTA-----------------CTTTATGTCATTCTGAAACCACTGCATCCCTTTTTAGAA
i proCoq1.NW_012155062v1   C 0 I 733
s otoGar3.GL873679           3048362 100 +   4132165 CCTTTCCATATTATTA-TCTGACTAGTATTATTTACTGGATTCCTCTTTGAATGATTC-TTTAAA--TTTA-----------------CTTTAAATCTTCCTGAAACCACTGCA------TTTAGAA
i otoGar3.GL873679         M 633 C 0
s mm10.chr18                55496339 104 +  90702639 GCTACCTACATGATTA-TATTCGGGTTGCTATTTACTAGAGT--CTTCT-AGTGATTA-AAAAGATCATCA-----------------CTAATTGACATCCT-AAAGCAACATCACCCATCTTAGGA
i mm10.chr18               I 1 C 0
s canFam3.chr11             14897534 118 +  74389097 CCTTCCCATACT------GTTGCTATTATTATTTACTGGACTCTTCTTTGAGAGATTC-TTTAAA--ATTCTAACTATATACTCTGTTCTCTGTGTAATTTTAAAAGCACTCTAATCTTTCTTGGGA
i canFam3.chr11            I 1 I 1
s dasNov3.JH567306           2606402 108 +   3667625 ccttctcatactattattattattattattattttctggacttttctctGAGCAATTCTTTTAAA--ATTA-----------------CCCTATACTGTTCTAATAATATTATATACTTTTAAATGA
i dasNov3.JH567306         C 0 C 0

a score=1426879.000000
s hg38.chr5_KI270796v1_alt     56892 115 +    172708 TATGTGTTGTGCTTCTTTGAAATT------GTTTAG----------------------------------------------------------------------TTATATATGTCTATTATcaggcactgtgtcttttgcagctacttttcagtccccagta----tgatgcctggtacatagtagtgcttca
s panTro5.chr5             125166990 115 + 181907262 TATTTGTTGTGCTTCTTTGAAATT------GTTTAG----------------------------------------------------------------------TTATATATGTCTATTATcaggcactgtgtcttttgcagctacttttcagtccccagta----tgatgcctggtacatagtagtgcttca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126503957 115 + 183735486 TATTTGTTGTGCTTCTTTGAAATT------GTTTAG----------------------------------------------------------------------TTATATATGTCTATTATcaggcactgtgtcttttgcagctacttttcagtccccagta----tgatgcctggtacatagtagtgcttca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1695423 115 +   8933513 TATTTGTTGTGCTTCTTTGAAATT------GTTTAG----------------------------------------------------------------------TTATATATGTCTATTATcaggcactgtgtcttttgcagctacttttcagtccccagta----tgatgcctggtacatagtagtgcttca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139825900 115 + 163208435 CATTTATTGCGCTCCTTTGAAATC------GTTTAG----------------------------------------------------------------------TTATATATGTCTATTatcaggcactgtatcttttgcagctacttttcagtccccaata----tgatgcctggtacatagtagtgcttca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122809448 112 + 180051392 TATTTATTGCACTCCTTTGAAATC------GTGTAG----------------------------------------------------------------------TTATATATGTCTATTATcaggcactgtgtcttttgcagttacttttcagtccccaata----tgatgcttggtacat---agtgcctca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124233120 112 + 181584905 TATTTATTGCACTCCTTTGAAATC------GTGTAG----------------------------------------------------------------------TTATATATGTCTATTATcaggcactgtgtcttttgcagttacttttcagtccccaata----tgatgcttggtacat---agtgcctca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16230822 112 +  18395747 TATTTATTGCACTCCTTTGAAATC------GTGTAG----------------------------------------------------------------------TTATATATGTCTATTATcaggcactgtgtcttttgcagttacttttcagtccccaata----tgatgcttggtacat---agtgcctca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5242055 112 +  26952557 TATTTATTGCACTCCTTTGAAATC------GTGTAG----------------------------------------------------------------------TTATATATGTCTATTATcaggcactgtgtcttttgcagttacttttcagtccccagta----tgatgtttggtacat---agtgcctca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28344819 112 +  82825804 TATTTATTGCACTCCTTTGAAATC------GTGTAG----------------------------------------------------------------------TTATATATGTCTATTATcaggcactgtgtcttttgcagttacttttcagtccccaata----tgacgcttggtacac---agtgcctca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4008623 112 -   4237731 TATTTATTGCACTCCTTTGAAATC------GTGTAG----------------------------------------------------------------------TTATATATGTCTATTATcaggcactgtgtcttttgcagttacttttcagtccccaata----tgatgcttggtacat---agtgcctca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      282248 114 -   1175262 TATTTATTGCACTCCTTTGAAGTC------GTGTAG----------------------------------------------------------------------TTATATATGTCTATTACcaggcactgtgtc-tttgcagttacttttcagtccccaata----tgatgcttggtacatagcagtgcctca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123619571 119 - 204313951 TATTTATTGCACTCCTTTAAAATC------ATGTAG----------------------------------------------------------------------CTGTATATGTCTATCATTaggcactgtgtcttttgcagttactttttagtccctaataaatatgatgcctggtacatagtagtgcctca
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55671888 119 -  71252344 TATTTATTGCACACCTTTAAAATC------ATATAA----------------------------------------------------------------------CTATATATGTTTATTATTaggcactgtgtcttttgcagttactttttagtccctaataaatatgatgcctggtacatagtagtgcctca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1368747 118 -   1400280 TATTTATTGCACTCCTTTAAAATC------ATGTAG----------------------------------------------------------------------CTATGTATGTCTATTATTaggcaccgtgtcttttgcag-tactttttagtccctaataaatatgatgcctggtacatagtagtgcctca
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13157951 119 -  42888418 TATTTATTGCACTCCTTTAAAATT------AGGTAG----------------------------------------------------------------------CTATATATGTCTATTATTaggcactgtgtcttttgcagttactttttagtccctaataaatgtgatgcctggtacatagtagtgcctca
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60522956 115 + 108143057 TATTTATTGCACTCCTTTGCCGTC------ATGGAG----------------------------------------------------------------------ATATGTATATCTGTTatcaggcactatgttttttgctattgctttctagtccccagtg----tggtgcctggtacacagcagtgcctcg
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3048462 115 +   4132165 TATTTATTGCACACCTTTGCCATC------ATGGAG----------------------------------------------------------------------ATAGGTATACCTGTTATcagacactgtgctttttcgtgttcctttctagtcctcagtg----tggcacctgctagataatagttcttca
i otoGar3.GL873679         C 0 I 614
s mm10.chr18                55496443 106 +  90702639 TACATATTACAGTCCTTTGAAATC------ACTGTG----------------------------------------------------------------------GTACTCATATAGACCA-CGGGCATTGTGTCTTCTGCTGT--------GGTACCCAGGA----TGGTGCACAGTCCATAATGACACCTCA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14897653 180 +  74389097 TATTTATTGCACTCCTTTGAAATC------ATGGAAATCTATGTAATTATATCCATATAGGTATTGAGATCCCTGATATATATCATCCGCATGAGTGTATATCTGCATACATGTGTCTGTAACCAGGTACTACATCTTCTGCGCCTCCACCCCGGtcttctgtg---------ctgggtacatagtagtgcctca
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2606510 121 +   3667625 TATTTATCACTGTCCTTTGTAATCATGGGTGTGTGT----------------------------------------------------------------------GTGTGTGTGTCTATTTgcaggcaccatgtcttatgcagttgcttccctgatcccagca----tggtacctggaacatagtagttcctca
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3562086 733 +  11683526 I

a score=214683.000000
s hg38.chr5_KI270796v1_alt     57007 15 +    172708 ataagtggtttttga
s panTro5.chr5             125167105 15 + 181907262 ataagtggtttttga
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126504072 15 + 183735486 ataagtggtttttga
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1695538 15 +   8933513 ataagtggtttttga
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139826015 15 + 163208435 ataaatggtttttga
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122809560 15 + 180051392 ataaatggtctttga
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124233232 15 + 181584905 ataaatggtctttga
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16230934 15 +  18395747 ataaatggtctttga
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5242167 15 +  26952557 ataaatggtctttga
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28344931 15 +  82825804 ataaatggtctttga
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4008735 15 -   4237731 ataaatggtctttga
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      282362 15 -   1175262 ataaatggcctttga
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123619690 15 - 204313951 ataaatggtttttga
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55672007 15 -  71252344 ataaatggtttttga
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1368865 15 -   1400280 ataaatggtttttgg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13158070 15 -  42888418 ataaaaggtttttga
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60523071 15 + 108143057 ataaatggtctctga
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3049191 14 +   4132165 ACAGGTGG-CAGTAA
i otoGar3.GL873679         I 614 I 1
s mm10.chr18                55496549 15 +  90702639 GTAAATGATGTTTGA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14897833 15 +  74389097 ataaatagttcttga
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2606631 15 +   3667625 ataaatgctttttga
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3562086 733 +  11683526 I

a score=37171.000000
s hg38.chr5_KI270796v1_alt     57022 2 +    172708 at
s panTro5.chr5             125167120 2 + 181907262 at
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126504087 2 + 183735486 at
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1695553 2 +   8933513 at
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139826030 2 + 163208435 at
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122809575 2 + 180051392 at
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124233247 2 + 181584905 at
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16230949 2 +  18395747 at
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5242182 2 +  26952557 at
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28344946 2 +  82825804 at
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4008750 2 -   4237731 at
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      282377 2 -   1175262 at
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123619705 2 - 204313951 at
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55672022 2 -  71252344 at
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1368880 2 -   1400280 at
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13158085 2 -  42888418 at
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60523086 2 + 108143057 at
i micMur3.chr12            C 0 I 617
s proCoq1.NW_012155062v1     3562819 2 +  11683526 AT
i proCoq1.NW_012155062v1   I 733 C 0
s otoGar3.GL873679           3049206 2 +   4132165 AC
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55496564 2 +  90702639 AT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14897848 2 +  74389097 ac
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2606646 2 +   3667625 at
i dasNov3.JH567306         C 0 C 0

a score=37670.000000
s hg38.chr5_KI270796v1_alt     57024 2 +    172708 ga
s panTro5.chr5             125167122 2 + 181907262 ga
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126504089 2 + 183735486 ga
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1695555 2 +   8933513 ga
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139826032 2 + 163208435 ga
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122809577 2 + 180051392 ga
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124233249 2 + 181584905 ga
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16230951 2 +  18395747 ga
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5242184 2 +  26952557 ga
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28344948 2 +  82825804 ga
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4008752 2 -   4237731 ga
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      282379 2 -   1175262 ga
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123619707 2 - 204313951 ga
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55672024 2 -  71252344 ga
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1368882 2 -   1400280 ga
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13158087 2 -  42888418 ga
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3562821 2 +  11683526 GG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3049208 2 +   4132165 GA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55496566 2 +  90702639 GA
i mm10.chr18               C 0 I 5
s canFam3.chr11             14897850 2 +  74389097 ga
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2606648 2 +   3667625 ga
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60523088 617 + 108143057 I

a score=7874247.000000
s hg38.chr5_KI270796v1_alt     57026 453 +    172708 ccaaatGGAAATCGGGCCTCTGTAACTTCTCTGT-GTAATAGAAAGCATCTGACTTGCAGTGAGCATATTGAGAAATGGATGTCTCAGATTTTCCAGCCTTTCTCTCCTAGCAAAGGCCAGATAA---GGCTGTGATAGTCTGACTTCC-TTTTTGTTGCTTTTGATGTCTCACCTGATGTAAGCCCTGCTGCTTTTTAAAATGTCAGACTGACTTGGAGTCAACTCTTTGATTTGCT-GTTTCGTGGGGTTTGCAGATCCTGAGTTAGGTGCATTTTGATTCTCTCTGTTTTTATTTCCATGAACTCTTCCAGAGGACATGGGTCAGGAAGACTTCAAGGTTAACTGATGACTAACTGGCA---TT-TTCAACCAACAAGACTATGTTTTTAAACTTGCAAATACATTGGACAGCTAGTC-AAATGTTTTGGCACTTGTCCCTATTATTAGTAATGACTTAAA
s panTro5.chr5             125167124 453 + 181907262 ccaaatGGAAATTGGGCCTCTGTAACTTCTCTGT-GTAATAGAAAGCATCTGACTTGCAGTGAACATATTGAGAAATGGATGTCTCAGATTTTCCAGCCTTTCTCTCCTAGCAAAGGCCAGATAA---GGCTGTGATAGCCTGACTTCC-TTTTTGTTGCTTTTGATGTCTCACCTGATGTAAGCCCTGCTGCTTTTTAAAATGTCAGACTGACTTGGAGTCAACCCTTTGATTTGCT-GTTTCGTGGGGTTTGCAGATCCTGAGTTAGGTGCATTTTGATTCTCTCTGTTTTTATTTCCATGAACTCTTCCAGAGGACATGGGTCAGGAAGACTTCAAGGTTAACTGATGACTAACTGGCA---TT-TTCAACCAACAAGACTATATTTTTAAACTTGCAAATACATTGGACAGCTAGTC-AAATGTTTTGGCACTTGTCCCTATTATTAGTAATGACTTAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126504091 453 + 183735486 ccaaatGGAAATTGGGCTTCTGTAACTTCTCTGT-GTAATAGAAAGCATCTGACTTGCAGTGAACATATTGAGAAATGGATGTCTCAGATTTTCCAGCCTTTCTCTCCTAGCAAAGGCCAGATAA---GGCTGTGATAGCCTGACTTCC-TTTTTGTTGCTTTTGATGTCTCACCTGATGTAAGCCCTGCTGCTTTTTAAAATGTCAGACTGACTTGGAGTCAACCCTTTGATTTGCT-GTTTCGTGGGGTTTGCAGATCCTGAGTTAGGTGCATTTTGATTCTCTCTGTTTTTATTTCCATGAACTCTTCCAGAGGACATGGGTCAGGAAGACTTCAAGGTTAACTGATGACTAACTGGCA---TT-TTCAACCAACAAGACTATATTTTTAAACTTGCAAATACATTGGACAGCTAGTC-AAATGTTTTGGCACTTGTCCCTATTATTAGTAATGACTTAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1695557 453 +   8933513 ccaaatGGAAATTGGGCCTCTGTAACTTCTCTGT-GTAACAGAAAGCATCTGACTTGCAGTGAACATATTGAGAAATGGATGTCTCAGATTTTCCAGCCTTTCTCTCCTAGCAAAGGCCAGATAA---GGCTGTGATAGCCTGACTTCC-TTTTTGTTGCTTTTGATGTCTCACCTGATGTAAGCCCTGCTGCTTTTTAAAATGTCAGACTGACTTGGAGTCAACCCTTTGATTTGCT-GTTTTGTGGGGTTTGCAGATCCTGAGTTAGGTGCATTTTGATTCTCTCTGTTTTTATTTCCATGAACTCTTCCAGAGGACATGGGTCAGGAAGACTTCAAGGTTAACTGATGACTAACTGGCA---TT-TTCAACCAACAAGACTATATTTTTAAACTTGCAAATACATTGGACAGCTAGTC-AAATGTTTTGGCACTTGTCCCTATTATTAGTAATGACTTAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139826034 452 + 163208435 ccaaatGGAAATTGGGCCTCTGTAACTTCTCTGT-GTAATAGAAAGCATCTGACTTGCAGTGAACATATTGAGAAATGGATGTCTCAGATTTTCCAGCCTTTCTCTCCTAGCAAAGGCCAGATAA---GGCTGTGATAGCCTGACTTCC-TTTTTGTTGCTTTTGATGTCTCACCTGATGTAAGCCCTGCTG-TTTTTCAAATGTCAGACTGACTTGGAGTCAACCCTTTGATTTGCT-GTTTCGTGTGGTTTGCAGATCCTGAGTTAGGTGCATTTTGATTCTCTCTGTTTTTATTTCCATGAACTCTTCCAGAGGACATGGGTCAGGAAGATTTCAAGGTTAACTGATGACTAACTGGCA---TT-TTCAACCAACAAGACTATATTTTTAAACTTGCAAATACATTGGACAGCTAGTC-AAATGATTTGGCACTTGTCCCTATTATTAGTAATGATTTAAA
i nomLeu3.chr2             C 0 I 26
s rheMac8.chr6             122809579 452 + 180051392 ccaaatGGAAATTGGGCCTCTGTAACTTCTCTGT-GTAATGGAAAGTATCTGACTTGTGGTGAACATATTGAGAAAAGGATGTCTCAGATTTTCCAGCCTTTCTCTCCTAGCAAAGGCCAGATAA---GGTTGTGATTGCCTAACTTCC-TTTTTGTTGCTTTTGATGTCTCACCTGATGTAAGCCTTGCTG-TTTTTCAAATGTCAGACTGACTTGGAGTCAACCCTTTGATTTGCT-GTTTCGTGGGGTTTGCAGATCCTGAGTTAGGTGCATTTTGATTCTCTGTGTTTTTATTTCCATGAACTCTTCCAGAGGACGTGGGTCAGGAAGACTTCAAGGTTAACCGATGACTAACTGGCA---TT-TTCAACCAACAAGACTATATTTTTAAACTTGCAAATACATTGGACAGCTAGTG-AAATGTTTTGGCACTTGTCACTATTATTAGTAATGATTTAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124233251 452 + 181584905 ccaaatGGAAATTGGGCCTCTGTAACTTCTCTGT-GTAATGGAAAGTATCTGACTTGTGGTGAACATATTGAGAAAAGGATGTCTCAGATTTTCCAGCCTTTCTCTCCTAGCAAAGGCCAGATAA---GGTTGTGATTGCCTAACTTCC-TTTTTGTTGCTTTTGATGTCTCACCTGATGTAAGCCCTGCTG-TTTTTCAAATGTCAGACTGACTTGGAGTCAACCCTTTGATTTGCT-GTTTCGTGGGGTTTGCAGATCCTGAGTTAGGTGCATTTTGATTCTCTGTGTTTTTATTTCCATGAACTCTTCCAGAGGACATGGGTCAGGAAGACTTCAAGGTTAACCGATGACTAACTGGCA---TT-TTCAACCAACAAGACTATATTTTTAAACTTGCAAAAACATTGGACAGCTAGTG-AAATGTTTTGGCACTTGTCACTATTATTAGTAATGATTTAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16230953 452 +  18395747 ccaaatGGAAATTGGGCCTCTGTAACTTCTCTGT-GTAATGGAAAGTATCTGACTTGTGGTGAACATATTGAGAAAAGGATGTCTCAGATTTTCCAGCCTTTCTCTCCTAGCAAAGGCCAGATAA---GGTTGTGATTGCCTAACTTCC-TTTTTGTTGCTTTTGATGTCTCACCTGATGTAAGCCCTGCTG-TTTTTCAAATGTCAGACTGACTTGGAGTCAACCCTTTGATTTGCT-GTTTCGTGGGGTTTGCAGATCCTGAGTTAGGTGCATTTTGATTCTCTGTGTTTTTATTTCCATGAACTCTTCCAGAGGACATGGGTCAGGAAGACTTCAAGGTTAACCGATGACTAACTGGCA---TT-TTCAACCAACAAGACTATATTTTTAAACTTGCAAATACATTGGACAGCTAGTG-AAATGTTTTGGCACTTGTCACTATTATTAGTAATGATTTAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5242186 452 +  26952557 ccaaatGGAAATTGGGCCTCTGTAACTTCTCTGT-GTAATGGAAAGTATCTGACTTGTGGTGAACATATTGAGAAAAGGATATCTCAGATTTTCCAGCCTTTCTCTCCTAGCAAAGGCCAGATAA---GGCTGTGATTGCCTAACTTCC-TTTTTGTTGCTTTTGATGTCTCACCTGATGTAAGCCCTGCTG-TTTTTCAAATGTCAGACTGACTTGGAGTCAACCCTTTGATTTGCT-GTTTCGTGGGGTTTGCAGATCCTGAGTTAGGTGCATTTTGATTCTCTGTGTTTTTATTTCCATGAACTCTTCCAGAGGACATGGGTCAGGAAGACTTCAAGGTTAACCGATGACTAACTGGCA---TT-TTCAACCAACAAGACTATATTTTTAAACTTGCAAATACATTGGACAGCTAGTG-AAATGTTTTGGCACTTGTCACTATTATTAGTAATGATTTAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28344950 452 +  82825804 ccaaatGGAAATTGGGCCTCTGTAACTTCTCTGT-GTAATGGAAAGTATCTGACTTGTGGTGAACATATTGAGAAAAGGATGTCTCAGATTTTCCAGCCTTTCTCTCCTAGCAAAGGCCAGATAA---GGCTGTGATTGCCTAACTTCC-TTTTTGTTGCTTTTGATGTCTCACCTGATGTAAGCCCTGCTG-TTTTTCAAATGTCAGACTGACTTGGAGTCAACCCTTTGATTTGCT-CTTTCGTGGGGTTTGCAGATCCTCAGTTAGGTGCATTTTGATTCTCTGTGTTTTTATTTCCATGAACTCTTCCAGAGGACATGGGTCAGGAAGATTTCAAGGTTAACCGATGACTAACTGGCA---TT-TTCAACCAACAAGACTATATTTTTAAACTTGCAAATACATTGGACAGCTAGTG-AAATGTTTTGGCACTTGTCACTATTATTAGTAATGATTTAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4008754 449 -   4237731 ccaaatGGAAATTGGGCCTCTGTAACTTCTCTGT-GTAATGGAAAGTATCTGACTTGTGGTGAACATATTGAGAAAAGGATGTCTCAGATTTTCCAGCCTTTCTCTCCTAGCAAAGGCCAGATAA---GGCTGTGATTGCCTAACTTCC-TTTTTGTTGCTTTTGATGTCTCACCTGATGTAAGCCCTGCTG-TTTTTCAAATGTCAGACTGACTTGGAGTCAACCCTTTGATTTGCT-GTTTTGTGGGGTTTGCAGATCCTGAGTTAGGTGCATTTTGATTCTCTGTGTTTTTATTTCCATGAACTCTTCCAGAGGACATGGGTCAGGAAGACTTCAAGGTTAACCGATGACTAACTGGCA---TT-TTCAAC---CAAGACTATATTTTTAAACTTGCAAATACATTGGACAGCTAGTG-AAATGTTTTGGCACTTGTCACTATTATTAGTAATGATTTAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      282381 452 -   1175262 ccaaatGGAAATTGGGCCTCTGTAACTTCTCTGT-GTAATGGAAAGCATCTGACTTGTGGTGAACATATTGAGAAATGGATGTCTCAGATTTTCCAGCCTTCCTCTCCTAGCAAAGGCCAGATAA---GGCTGTGATTGCCTGACTTCC-TTTTTGTTGCTTTTGATGTCTCACCTGATGTAAGCCCTGCTG-TTTCTCAAATGTCAGACTGACTTGGAGTCAACCCTTTGATTTGCT-GTTTCGTGGGGTTTGCAGATCCTGAGTTAGGTGCATTTTGATTCTCTGTGTTTTTATTTCCATGAACTCTTCCAGAGGACATGGGTCAGGAAGACCTCAAGGTTAACTGATGACTAACTGGCA---TT-TTCAACCAACAAGACTATATTTTTAAACTTGCAAATACATTGGACAGCTAGTC-AAATGTTTTGGCACTTGTCACTATTATTAGTAATGATTTAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123619709 452 - 204313951 ccaaatGGAAATTGAACGTCTGTAATTTCTCTGT-GTAATAGAAAGCATCTGATTTGTGGTGGACATATTGAGAAATGTATGTCTCAGATTTTCCACCCTTTCTTTCCTATCAAAGGCCAGGTAA---GGCTGTGATTGCCTGACTTCC-TTTTTGTTGCTTTTGATGTCTCACCTGATGTAAGCCCTGCTG-TTTTTTAAATGTCAGACTGAGTTGGAGTCAACTCTTTGATTTGCT-GTTTCGTGGGGTTTGCAGATCCTGAGTTAGGTACATTTTGATTCTCTCTGTTTTTATTTCCATGAACTCTTCCAGAGAACATGGGTCAGAAAGACTGCAAGGTTAACTGACAACTAACTGACA---TT-TTCAGCCAATAAGACTATATTTTTAAACTCACAAATACTTTGGACAGCTAGAC-AAATGTTTTGGCACTTGTTCCTATTATTAGTAATGATTTAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55672026 452 -  71252344 ccaaatGGAAATTGGACCTCTGTAATTTCTCTGT-GTAATAGAGAGCATCTAACTTGTGGTGGACATATTGAGAAATGGATGTCTCAGATTCTCCACCCTTTCTTTCCTAGCAAAGACCAGATAA---GGCTGTGATTGCCTGACTTCC-TTTGTGTTGCTTTTGATGTCTCACCTGATGTAAGCCCTGCTG-TTTTTCAAATGTCAGACTGACTTGGAATCAACCCTTTGATTTGCT-GTTTCGTGGGGTTTGCAGATCCTGAGTTAGGTACATTTTGATTCTCTCTGTTTTTATTTCCATGAACTCTTCCAGAGGACATGGGTCAGAAAGACTTCAAGGTTAACTGACAACTAACTGACA---TT-TTCAACCAACAAGACTATATTTTTAAACTCACAAATACTTTGGACAGCTAGTC-AAATGTTTTGGCACTTGTTCCTATTACTAGTAATGATTTAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1368884 452 -   1400280 ccaaatGGAAATTGGACCTCTGTAATTTCTCTGT-GTAATAGAAAGCATCTGACTTGTGGTGGACATATTGAGAAACGGATGTCTCAGATTTTCCACCCTTTCTTTCCTAGCAAAGGCCAGATAA---GGATGTGATTGCCTGACTTCC-TTTTTGTTTCCTTTGATGTCTCACCTGATGTAAGCCCTGCTG-TTTTTCAAATGTCAGACTGACTTGGAGTCAACCCTTTGATTTGCT-GTTTCGTGGGGTTTGCAGATCCTGAGTTAGGTACATTTTGATTCTCTCTGTTTTTATTTCCATGAACTCTTCCAGAGGACATGGATCAGAAAGACTTCAAGGTTAACTGACAACTAACTGACA---TT-TTCAACCAACAAGACTATATTTTCAAACTCACAAATACTTTGGACAGCTAGTC-AAATATTTTGGCACTTGTTCCTATTATTAGTAATGATTTAAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13158089 452 -  42888418 ccaaatGGAAATTGGACCTCTGTAATTTCTCTGT-GTAACAGAAAGCATCTGACTTGTGGTAGACATACTGAGAAATGGATGTCTCAGATTTTCCACCCTTTCTTTCCTAGCAAAGGCCAGATAA---GGCTGAGATTGCCTGACTTCC-TTTTTGTTGCTTTTGATGTCTCACCTGATGTAAGCCCTGCTG-TTTTTCAAATGTCAGACTGACTTGGAGTCAACCCTTTGATTTGCT-GTTTCGTGGGGTTTGCAGATCCTGAGTTAGGTACATTTTGATTCTCTCTGTTTTTATTTCCATGAACTCTTCCAGAGGACATGGGTCAGAAGGACTTCAAGGTTAACTGACAGCTAACTGACA---TT-TTCAACCAACAGGACTATATTTTTAAACTCACAAATACTTTGGACAGCTAGTC-AAATGTTTTGGCACTTGTTCCTATTATTAGTAATGATTTAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60523705 449 + 108143057 CCAAATGGAAATTGGGCCTCTGTAACATCTCTGG-GTAACAGGAAGCATTTAATTTGCCATGAACATGTTGAGAAATGGATGCCTCAGATTTTTAAGCCTTTCTTTCCTAGCAAAGGCCAGGTAA---GGCTGTGATTGCCTGAGTTCC-CCTTTGTTTCCTTTGATATCTCACCTGATGTAAGCCCTGCTG-CTTTTCAAATGTCAGGCTGACTGGAAGCCAATGCTTTGATTTGCT-GTTTCATGGGGCTTGCAGATACTGAGTTAGGTGCATTTTGATTCTCTTTGTTTCTATTTCCATGAACTCTTCCAGAGGGCATGAGTCAGAAAGACCTTAAGGTTAACTGATATCTAAATGGCA---TT-TTCAAT---CAAGACTGTATTTTTAAACTCTCAAATACTTTGGACAGCTAGTC-AAATGTTTTGGCACTTGTCTCTATCATTAGTAATGATTTAAA
i micMur3.chr12            I 617 C 0
s proCoq1.NW_012155062v1     3562823 449 +  11683526 CCAAATGGAAACTGGGCCTCTGTAACTTCCCTGG-GTAACAGGAAGCATTGCATTTGCCATGAATATGTTGAGAAATCGATGCCTCAGATATTTCAGCCTTTCTTTCCTAGCAAAGGCCAGGTAA---GGTTGTGATTGCCCGAGTTCC-TTTTTGTTTCCTTTGATATCTCACCTGATGTAAGCCCTGCTG-CTTTTCAAATGTCAGGCTGACTTGGAGCCAATGCTTTGATTTGCT-GTTTCATGGGGCTTGCAGACACTGAGTTAGGTGCATTTTGATGCTCTTTGTTTCTATTTCCATGAACTCTTCCAGAGGGCATGGGTCAAAAAGACCTCAAGGTTAACTGATATCTAAATGGCA---TT-TTCAAT---CAAGACCGTATTTTTAAACTCTCAAATACTCTGGACAGCTAGTC-AAATGTTTTGGCACTTGTCTCTATCATTAGTAATGATTTAAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3049210 452 +   4132165 CCAGATGGAAACTGGGCCTCTCTGGCTTCTCTGG-GTAATAGGAAGCATTTGATTTGCTATGAACATGTTGAGAAATGGATGCCTGGGACTTTTCAGCCTTTCTTTCTCAGCAAAGTCCAAGTGGACCGACTGTGATTGCCTGAGTTCC-TTTTCTTTTCTTTTGATATCTCACCTGATATAAGCCCTGCTG-TTTTTCAAATGTCAGGCTGACTTGGAGCCAGCCCTTTGATTTGCT-GTTTCATGGGGCTGGCAGGTACTGAGTGAGGTGCATTTTGATTCTCTTTGTTTCTATTTCCATGGACTCTTCTAGAGGACATGGGTCAAAAAGACCTCAAGGTTAACGGATACTTAAATGGCA---TT-TTCAAT---CAAGACTGTATTTTTAAACTCTCTAATACTTTGGACAGCTAGTC-AAATGTTTTGGCACTTGTCTCTATCATTAGTAATGATTTAAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55496573 430 +  90702639 CCAGGCTGA----GGGTTTCTGTAAGTTCTCTAT-GTAATAGGAAGCATTGGACTGGCTTTGAGCTCACTGGGTGACAGATGCCTCTGATTTCCCATCATTTCTTCGCCTACAAAGGCCAGGTGA---AGCTGTGATCATCCGACTTCC------------TTTGATATCTTACTGGATCTAAGTCCCACCG-TTCTTCAAACTTCACGCTGACTTTGAGTTAG-GTTTTCATTTGCC-ATTTCACAGGATTCGCTGATACTGAGTTAGACACCTTTAGAGTC----TGTTTCTGTTTTCATGAACCTTTCTAGA---TATGGGTCAGGAATACCTCCAGGATAGCTGACACCTAACTGGCA---TT-TTCAATCAACTAAACTATATTTTTAAACTCTCAAATACTGTGGTCAGCTGGTCAAAATGTTTTAGTAGTTATCCCTGTCATTAGTAATGATGTGAA
i mm10.chr18               I 5 I 1
s canFam3.chr11             14897852 448 +  74389097 CCCAATGGAAATTGGGCTTCTGTAACTTCTCGGTCGTGTACGAGAGCATTAGACTTG-------AATACTGAGAAATGGATGCCTCAAATTTTCCAGGTTTTCTCTCCTAGCAAAGGCCAGGTAA---GGAGGCAATTGCCTGACTTTCTTTTTTGTTTTCTTTGATATCATACCTGATGTCAGCCCTGCTG-TTCTTCAAATGTCAGACTGTCTTGGAGCTGATCCTTTGATATTCTCTTTTCATGGGGTTTGCAGCTACTGAGTTAGGTGCATTTTGATTCTCTTTGTTTCTATTTTCATGAACTCTTTTAGAGGACAGTGGTCAGAAAGTCCTCAAGGTTAACTGACACCTAAATGGCATTTTT-TTCAACCAACAAGACTGTATTTTGAAACTCTCAAATGTTTTGGACATCCAGTC-AAATGTTTTGACACTTGTCCCGATCAT---TAATGATTTCAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2606650 436 +   3667625 ctaaatGGAATTTGGACTTCTGTAACTTCTCTGT-GTAGATGAAAGTATTTGACGTTGTATGAACGTAGTGAGAAATGGATGCCTTAGATTTGCCAGCCTTTCTTCCCTAGCAAAGGCTAGGTAA---AGCTGCTATTGCCTGACTTCCTTTTTTGTTTCCTTTGATATCTCACCTGATGTTAGCCCTGCTG-TTCTTCAAATGTCAGACTGACTTGGAGCCAATCCTTTGATAAGCT-GTTTCATGGGGTTTTCAGATACTGAGTTAGGTGCATTTTGATTCTCTTTGTTTCTATTTTCATGAACTCTTCTAGA------------------CCTCAAGGTTAACTGACATCTAAATGGCA---TTCTTCAATCAACAAGACAATGTTTCTAAACTCTCAAATGCTTTGGACACTTAGTC-AAATGCTTTGGCGCTTGTTCTCATCATTACTAATAATTTAAA
i dasNov3.JH567306         C 0 C 0

a score=221406.000000
s hg38.chr5_KI270796v1_alt     57479 14 +    172708 ACCAGAGGTGTTGG
s panTro5.chr5             125167577 14 + 181907262 ACCAGAGGTGTTGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126504544 14 + 183735486 ACCAGAGGTGTTGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1696010 14 +   8933513 ACCAGAGGTGTTGG
i gorGor5.CYUI01015135v1   C 0 C 0
s rheMac8.chr6             122810031 14 + 180051392 ACCAGAGGTGTTGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124233703 14 + 181584905 ACCAGAGGTGTTGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16231405 14 +  18395747 ACCAGAGGTGTTGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5242638 14 +  26952557 ACCAGAGGTGTTGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28345402 14 +  82825804 ATCAGAGGTGTTGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4009203 14 -   4237731 ACCAGAGGTGTTGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      282833 14 -   1175262 ACCAGAGGTGTTGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123620161 14 - 204313951 ACCTGAGGTGTTGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55672478 14 -  71252344 ACCTGAGGTGTTGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1369336 14 -   1400280 ACCTGAGGTGTTGG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13158541 14 -  42888418 ACCTGAGGTATTTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60524154 14 + 108143057 ACCAGAGGTGTTGG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3563272 14 +  11683526 ACCAGAGGTGATGG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3049662 14 +   4132165 ACCAGAGGTGTTGG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55497004 14 +  90702639 ACCACAGGGGTTGG
i mm10.chr18               I 1 C 0
s canFam3.chr11             14898300 14 +  74389097 ACCAGAGTGGTCGG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2607086 14 +   3667625 ACCAGAGTGGTTGG
i dasNov3.JH567306         C 0 C 0
e nomLeu3.chr2             139826486 26 + 163208435 I

a score=10299610.000000
s hg38.chr5_KI270796v1_alt     57493 670 +    172708 CGAAGAATTCTTGAATTGAAGGTACCAAAGTAGAGTTTCTTTAAGGTCAATGAACGTAAAGGAAAAGGCTTTTGCTTCCAATGGAGGTGTGCACAGCTTGCACTGAAGA---AAGAAGCATGTGAGGCTACACTCTCCA-----------------------------GGCTTT-------------------TAATGCTACTTAAA-ATGTCTTTTCTGCCACAGAGGTAGATGCATTCCAAAtctc--tctctgtttct----c--tctctt----------tc-------------------------CTACAATGATAAT--TTTCACTGGTGCTCAACTTATCTTTCTGCCAGCCATCTTGCTGAGAAAAGA-GCCCAGCCCCTC-AGCACCGCCTGGGCACTGTAGC-TTTTGTTTCTAGTGGATTGTTTTCTCT----G-----ATGGCAACCTCTTGTCTT------------------GAACTGACATTCTGCCCTGCTCACTGCTCCCAGTGTCCTCTGTTATATCAACATCTGCAGCAGCTGCTGCTTCTT-TGGCTGA-AAAGTCTCAATGTTTGCCTTTAAAATGTCATTCCTTCACCTCTCTCAGTACTCAGACTTACTCATCAGTTTGTTTCCAGTTGTCCTCAAATGTGTTCAGAATAAA-TGATGCACAAAGGACAGTTTAAACATAGCAAAGCAGCTGTAGGCAAGGCATCTCCAGCT-------CACC-GGGCTATTCTTTCATAATAAAATGTGTCACATTGTCATTCGAATGTGTCTCTGGCACAGA
s panTro5.chr5             125167591 670 + 181907262 CAAAGAATTCTTGAATTGAAGGTACCAAAGTAGAGTTTCTTTAAGGTCAATGAACATAAAGCAAAAGGCTTTTGCTTCCAATGGAGGTGTGCACAGCTTGCACTGAAGA---AAGAAGCATGTGAGGCTACACTCTCCA-----------------------------GGCTTT-------------------TAATGCTACTTAAA-ATGTCTTTTCTGCCACAGAGGTAGATGCATTCCAAAtctc--tctctgtttct----c--tctctt----------tc-------------------------CTACAATGATAAT--TTTCACTGGTGCTCAACTTATCTTTCTGCCAGCCATCTTGCTGAGAAAAGA-GCCCAGCCCCTC-AGCACCGCCTGGGCACTGTAGC-TTTTGTTTCTAGTGGATTGTTTTCTCT----G-----ATGGCAACCTCTCGTCTT------------------GAACTGACATTCTGCCCTGCTCACTGCTCCCAGTGTCCTCTGTTATATCAACATCTGTAGCAGCTGCTGGTTCTT-TGGCTGA-AAAGTCTCAATGTTTGCCTTTAAAATGTCATTCCTTCACCTCTCTCAGTACTCAGACTTACTCATCAGTTTGTTTCCAGTTGTCCTCAAATGTGTTCAGAATAAA-TGATGCACAAAGGACGGTTTAAACATAGCAAAGCAGCTGTAGGCAAGGCATCTCCAGCT-------CACC-GGGCTATTCTTTCATAATAAAATGTGTCACATTGTCATTCGAATGTGTCTCTGGCACAGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126504558 670 + 183735486 CAAAGAATTCTTGAATTGAAGGTACCAAAGTAGAGTTTCTTTAAGGTCAATGAACATAAAGCAAAAGGCTTTTGCTTCCAATGGAGGTGTGCACAGCTTGCACTGAAGA---AAGAAGCATGTGAGGCTACACTCTCCA-----------------------------GGCTTT-------------------TAATGCTACTTAAA-ATGTCTTTTCTGCCACAGAGGTAGATGCATTCCAAAtctc--tctctgtttct----c--tctctt----------tc-------------------------CTACAATGATAAT--TTTCACTGGTGCTCAACTTATCTTTCTGCCAGCCATCTTGCTGAGAAAAGA-GCCCAGCCCCTC-AGCACCGCCTGGGCACTGTAGC-TTTTGTTTCTAGTGGATTGTTTTCTCT----G-----ATGGCAACCTCTCGTCTT------------------GAACTGACATTCTGCCCTGCTCACTGCTCCCAGTGTCCTCTGTTATATCAACATCTGTAGCAGCTGCTGGTTCTT-TGGCTGA-AAAGTCTCAATGTTTGCCTTTAAAATGTCATTCCTTCACCTCTCTCAGTACTCAGACTTACTCATCAGTTTGTTTCCAGTTGTCCTCAAATGTGTTCAGAATAAA-TGATGCACAAAGGACAGTTTAAACATAGCAAAGCAGCTGTAGGCAAGGCATCTCCAGCT-------CACC-GGGCTATTCTTTCATAATAAAATGTGTCACATTGTCATTCGAATGTGTCTCTGGCACAGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1696024 669 +   8933513 CAAAGAATTCTTGAATTGAAGGTACCAAAGTAGAGTTTCTTTAAGGTCAATGAACATAAAGCAAAAGCCTTTTGCTTCCAATGGAGGTGTGCACAGCTTGCACTGAAGA---AAGAAGCATGTGAGGCTACACTCTCCA-----------------------------GGCTTT-------------------TAATGCTACTTAAA-ATGTCTTTTCTGCCACAGAGGTAGATGCATTCCAAAtctc--tctctgtttct----c--tctctt----------tc-------------------------CTACAATGATAAT--TTTCACTGGTGCTCAACTTATCTTTCTGCCAGCCATCTTGCTGAGAAAAGG-GCCCAGCCCCTC-AGCACCGCCT-GGCACTGTAGC-TTTTGTTTCTAGTGGATTGTTTTCTCT----G-----ATGGCAACCTCTTGTCTT------------------GAACCGACATTCTGCCCTGCTCACTGCTCCCAGTGTCCTCTGTTATATCAACATCTGTAGCAGCTGCTGCTTCTT-TGGCTGA-AAAGTCTCAATGTTTGCCTTTAAAATGTCATTCCTTCACCTCTCTCAGTACTCAGACTTACTCATCAGTTTGTTTCCAGTTGTCCTCAAATGTGTTCAGAATAAA-TGATGCACAAAGGACAGTTTAAACATAGCAAAGCAGCTGTAGGCAAGGCATCTCCAGCT-------CACC-GGGCTATTCTTTCATAATAAAATGTGTCACATTGTCATTCGAATGTGTCTCTGGCACAGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139826512 668 + 163208435 CAAAGAATTCTTGAATTGAAGGTACCAAAGTAGAGTTTCTTTAAGGTCAATGAACATAAAGCAAAAGCCTTTTGCTTGCAATGGAGGTGTGCACAGCTTGCACTGAAGA---AAGAAGCATGTGAGGCTACACTCTCCA-----------------------------GGCTTT-------------------GAATGCTACTTAAA-ATGTCTTTTCTGCCACAGAGGTAGATGCATTCCAAAtctc--tctctctctct----c--tctctctctctctctGTC-------------------------CTACAATGATAA---TTTCATTGGTGCTCAACTTACCTTTCTGCTAGCCATCTTGCTGAGAAAAGA-GCCCAGGC------------TCTGGGCACTGTAGC-TCTGGTTTCTAGTGGATTGTTTGCTCT----G-----ATGGCAATCTCTTGTCTT------------------GAACTGACATTCTGCCCTGCTCACTGCTCCCAGTGTCATCTGTTATATCAGCATCTGTAGCAGCTGCTGCTTCTT-TGGCTGA-AAAGTCTCAATGTTTGCCTTTAAAATGTCATTCCTTCACCTCTCTCAGTACTCAGACTTACTCATCAGTTTGTTTCCAGTTGTCCTGAAATGTGTTCAGAATAAA-TGATGCACAAAGGACAGTTTAAACATAGCGAAGCAGCTGTAGGCAAGGCATCTCCAGCT-------CACC-GGGCTATTCTTTCATAATAAAATGTGTCACATTGTCATTTGAATGTGTCTCTGGCACAGG
i nomLeu3.chr2             I 26 C 0
s rheMac8.chr6             122810045 670 + 180051392 CAAATAATCCTTGAATTAAAGGTATCAAAGTAGAGTTTCTTTAAGGTCAATGAACATAAAGCAAAAGCCTTTTGCTTCCAATGGAGGTGTGCACAGCTTGCACTGAAGA---AAGAAGCATATGAGGCTACACTCTTCA-----------------------------GGCTTT-------------------GAATGCTACTTAAA-ATGTCTTTTCTGCCACAAAGGTAGATGCATTCCAAAtctc--tctgtgtctct----c--tctgtc----------tc-------------------------CTACAATGGTAAT--TTTCATTGGTGCTCAACTTATCTTTCTGCTAGCCAACTTGCTGAGAAAAGA-GCCCAGCCCCTC-AGCACTGCCTGGGCACTGTAGC--TTTGTTTCTAGTGGATTGTTTTCTCT----G-----ATGGCAACCTCTTGTCTT------------------GAACTGACATTCCACTCTGCTCACTGCTCCCAGTGTCATCTGTTATATTAGCATCTGTAGCAGCTGCTGCTTCTTCTGGCTCA-AAAGTCTTAATGTTTGCCTTGAAAATGTCATTCCTTCACCTCTCTCAGTACTCAGACTTACTCATCAGTTTGTTTCCAGTTGTCCTCAAATGTGTTCAGAATAAA-TGATGCACAGAGGACAATTTAAGCATAGCAAAGCAGCTGTAGGCAAGGCATCTGCAGCT-------CACC-GGGCTATTCTTTCATAATAAAATGTGTCACATTGTCATTTGAATGTGTCTCTGGCACAGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124233717 670 + 181584905 CAAATAATTCTTGAATTAAAGGTATCAAAGTAGAGTTTCTTTAAGGTCAATGAACATAAAGCAAAAGCCTTTTGCTTCCAATGGAGGTGTACACAGCTTGCACTGAAGA---AAGAAGCATATGAGGCTACACTCTTCA-----------------------------GGCTTT-------------------GAATGCTACTTAAA-ATGTCTTTTCTGCCACAAAGGTAGATGCATTCCAAAtctc--tctgtgtctct----c--tctgtc----------tc-------------------------CTACAATGGTAAT--TTTCATTGGTGCTCAACTTATCTTTCTGCTAGCCAACTTGCTGAGAAAAGA-GCCCAGCCCCTC-AGCACTGCCTGGGCACTGTAGC--TTTGTTTCTAGTGGATTGTTTTCTCT----G-----ATGGCAACCTCTTGTCTT------------------GAACTGACATTCCACTCTGCTCACTGCTCCCAGTGTCATCTGTTATATTAGCATCTGTAGCAGCTGCTGCTTCTTCTGGCTCA-AAAGTCTTAATGTTTGCCTTGAAAATGTCATTCCTTCACCTCTCTCAGTACTCAGACTTACTCATCAGTTTGTTTCCAGTTGTCCTCAAATGTGTTCGGAATAAA-TGATGCACAGAGGACAATTTAAGCATAGCAAAGCAGCTGTAGGCAAGGCATCTGCAGCT-------CACC-GGGCTATTCTTTCATAATAAAATGTGTCACATTGTCATTTGAATGTGTCTCTGGCACAGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16231419 670 +  18395747 CAAATAATTCTTGAATTAAAGGTATCAAAGTAGAGTTTCTTTAAGGTCAATGAACATAAAGCAAAAGCCTTTTGCTTCCAATGGAGGTGTGCACAGCTTGCACTGAAGA---AAGAAGCATATGAGGCTACACTCTTCA-----------------------------GGCTTT-------------------GAATGCTACTTAAA-ATGTCTTTTCTGCCACAAAGGTAGATGCATTCCAAAtctc--tctgtgtctct----c--tctgtc----------tc-------------------------CTACAATGGTAAT--TTTCATTGGTGCTCAACTTATCTTTCTGCTAGCCAACTTGCTGAGAAAAGA-GCCCAGCCCCTC-AGCACTGCCTGGGCACTGTAGC--TTTGTTTCTAGTGGATTGTTTTCTCT----G-----ATGGCAACCTCTTGTCTT------------------GAACTGACATTCCACTCTGCTCACTGCTCCCAGTGTCATCTGTTATATTAGCATCTGTAGCAGCTGCTGCTTCTTCTGGCTCA-AAAGTCTTAATGTTTGCCTTGAAAATGTCATTCCTTCACCTCTCTCAGTACTCAGACTTACTCATCAGTTTGTTTCCAGTTGTCCTCAAATGTGTTCAGAATAAA-TGATGCACAGAGGACAATTTAAGCATAGCAAAGCAGCTGTAGGCAAGGCATCTGCAGCT-------CACC-GGGCTATTCTTTCATAATAAAATGTGTCACATTGTCATTTGAATGTGTCTCTGGCACAGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5242652 670 +  26952557 CAAATAATTCTTGAATTAAAGGTATCAAAGTAGAGTTTCTTTAAGGTCAATGAACATAAAGCAAAAGCCTTTTGCTTCCAATGGAGGTGTGCACAGCTTGTACTGAAGA---AAGAAGCATATGAGGCTACACTCCTCA-----------------------------GGCTTT-------------------GAATGCTACTTAAA-ATGTCTTTTCTGCCACAGAAGTAGATGCATTCCAAAtctc--tctgtatctct----c--tctgtc----------tc-------------------------CCACAATGGTAAT--TTTCATTGGTGCTCAACTTATCTTTCTGCTAGCCAACTTGCTGAGAAAAGA-GCCCAGCCCCTC-AGCACTGCCTGGGCACTGTAGC--TTTGTTTCTAGTGGATTGTTTTCTCT----G-----ATGGCAACCTCTTGTCTT------------------GAACTGGCATTCCACTCTGCTTACTGCTCCCAGTGTCATCTGTTATATTAGCATCTGTAGCAGCTGCTGCTTCTTCTGGCTCA-AAAGTCTTAATGTTTGCCTTGAAAATGTCATTCCTTCACCTCTCTCAGTACTCAGACTTACTCATCAGTTTGTTTCCAGTTGTCCTCAAATGTGTTCAGAATAAA-TGATGCACAAAGGACAATTTAAGCATAGCAAAGCAGCTGTAGGCAAGGCATCTCCAGGT-------CACC-AGGCTGTTCTTTCATAATAAAATGTGTCACATTGTCATTTGAATGTGTCTCTGGCACAGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28345416 671 +  82825804 CAAATAATTCTTGAATTAAAGGTATCAAAGTAGAGTTTCTTTAAGGTCAATGAACATAAAGCAAAAGGCTTTTGCTTCCAATGGAGGTGTGCACAGCTTGCACTGAAGA---AAGAAGCATATGAGGCTACACTCTTCA-----------------------------GGCTTT-------------------GAATGCTACTTAAA-ATGTCTTTTCTGCCACAGAAGTAGATGCATTCCAAAtctc--tctctgtctct----c--tctgtc----------tc-------------------------CTACAATGGTAAT--TTTCATTGGTGCTCAACTTATCGTTCTGCTAGCCAACTTGCTGAGAAAAGA-GCCCAGACCCTC-AGCACTGCCTGGGCACTGTAGC-TTTTGTTTCTAGTGGATTGTTTTCTCT----G-----ATGGTAACCTCTTGTCTT------------------GAACTGACATTCCACTCTGCTCACTGCTCCCAGTGTCATCTGTTATATTAGCATCTGTAGCAGCTGCTGCTTCTTCTGGCTGA-AAAGTCTTAATGTTTGCCTTTAAAATGTCATTCCTTCACCTCTCTCAGTACTCAGACTTACTCATCAGTTTGTTTCCAGTTGTCCTCAAATGTGTTCAGAATAAA-TGATGCACAAAGGACAATTTAAACATAGCAAAGCAGCTGTAGGCAAGGCATCTCCAGCT-------CACC-GGGCTCTTCTTTCATAATAAAATGTGTCACATTGTCATTTGAATGTGTCTCTGGCACAGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4009217 670 -   4237731 CAAATAATTCTTGAATTAAAGGTATCAAAGTAGAGTTTCTTTAAGGTCAATGAACATAAAGCAAAAGCCTTTTGCTTCCAATGGAGGTGTGCACAGCTTGCACTGAAGA---AAGAAGCATATGAGGCTACACTCTTCA-----------------------------GGCTTT-------------------GAATGCTACTTAAA-CTGTCTTTTCTGCCACAGAAGTAGATGCATTCCAAAtctc--tctgtgtctct----c--tctgtc----------tc-------------------------CTACAATGGTAAT--TTTCATTGGTGCTCAACTTATCTTTCTGCTAACCAACTTGCTGAGAAAAGA-GCCCAGCCCCTC-AGCACTGCCTGGGCACTGCAGC--TTTGTTTCTAGTGGATTGTTTTCTCT----G-----ATGGCAACCTCTTGTCTT------------------GAACTGACATTCCACTCTGCTCACTGCTCCCAGTGTCATCTGTTATATTAGCATCTGTAGCAGCTGCTGCTTCTTCTGGCTCA-AAAGTCTTAATGCTTGCCTTGAAAATGTCATTCCTTCACCTCTCTCAGTACTCAGACTTGCTCATCAGTTTGTTTCCAGTTGTCCTCAAATGTGTTCAGAATAAA-TGATGCACAAAGGACAATTTAAGCATAGCAAAGCAGCTGTAGGCAAGGCATCTGCAGCT-------CACC-GGGCTATTCTTTCATAATAAAATGTGTCACATTGTCATTTGAATGTGTCTCTGGCACAGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      282847 671 -   1175262 CAAATAATTCTTGAATTAAAAGTATCAAAGTAGAGTTTCTTTAAGGTCAATGAACATAAAGCAAAAGCCTTTTGCTTCCAATGGCGGTGTGCACAGCTTGCACTGAAGA---AAGAACCATATGAGGCTACACTCTTCA-----------------------------GGCTTT-------------------GAATGCTACTTAAA-ATGTCTTTTCTGCCACAGAGGTAGATGCATTCCAAAtctc--tctctgtctct----c--tctgtc----------tc-------------------------CTACAATGGTAAT--TTTCATCGGTGCTCAACTTATCTTTCTGCTAGCCAGCTTGCTGAGAAAAGA-GCCCAGCCCCTC-AGCACTGCCTGGGCACTGTAGC-TTTTGTTTCTAGTGGATTGTTTTCTCT----G-----GTGGCAACCTCTTGTCTT------------------GAACCGACATTCCACTCTGCTCACTGCTCCCAGTGTCATCTGTTATATTAGCATCTGTAGCAGCTGCTGCTGCTTCTGGCTGA-AAAGTCTTAATGTTTGCCTTGAAAATGTCATTCCTTCACCTCTCTCAGTACTCAGACTTACTCATCAGTTTGTTTCCAGTTGTCCTCAAATGTGTTCAGAATAAA-TGATGCACAAAGGACAGTTTAAACATAGCAAAGCAGCTGTAGGCAAGGCATCTCCAGCT-------CACC-GGGCTATTCTTTCATAATAAAATGTGTCACGTTGTCATTTGAATGTGTCTCTGGCACAGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123620175 685 - 204313951 CAAAGAATTCTTGAATTAAAGGTACCAAAGTAGAGCTTTTTTAAGATCAATGAACATAAAGCAAAAGCCTTTTGCTTCCAAAGGAGTTATGCACAGCTTACACTG-------AAGAAGCATGTGAGGTTACACTGTTCA-----------------------------GGCTTT-------------------GGATGCTACTTAAA-ATGTCTTTTCTGCCACAGAGGTAGATGCATCCCAAATCTCTTTCTTTGTCTCT----C--TCTCTC----------TC-------------------------CTGCAATGATAAT--TTTCTTTGGTGCTCAACTTATCTTTCTGTTATTTATCTTGCTGAGAAAAGA-GCCCAGCCCCTC-AGCACTGCCTGGGCACTGTAGC-TTTTGTTTCTAGTGGATTGCTTTCTCT----G-----ATGGCAACCTCTGGTCTTTCCATTTCAGGTGGAATGAAACTGACATTCCACCCTGCTCACTGCTCCCCATGTCATCCATTATATCAGCATCTGTAGCAGTTGGTGCTGCTCCTGGCTGA-AAAGTCTCAGTGTTTGCCTTTAAAATGTCATTCCTTCACGTCTCTCA-TACTCAGACTTACTCATCAGTTTGTTTCCAGTTGTCCTCAAATGTGTTCAGAATAAA-TGATGCACAAAGGACAGTTTAAACATAGCAAAGCAGCTACAGGCAAGGCATCTCCAGCT-------CACT-GGGCTATTC-TTCTTAATAAAAAGTGTTGCATTGTCATTTGAATGTGTCTCTGGCACAGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55672492 684 -  71252344 CAAAGAATTCTTAAATTAAAGGTACCGAAGTAGAGTTTCTTTAAGGTCAACGAACAAAAAGCAAAAGCCTTTTGCTTCCACAGGAGGTGCGCACAGCTTGCATTG-------AAGAAGCCTGTGAGGCTACACTCTTCA-----------------------------GGTTTT-------------------GGATGCTACTTAAA-ATGTCTTTTCTGCCGCAGAGGTAGATGCCTTCCAGATCTCTTTCTTTGTCTCC----C--TCTCTC----------TC-------------------------CTGCAATGATAAT--TTTCACTGGTGCTCCACTTATCTTTCTGTTATTTATCTTGCTGAGAAAAGA-GCCCAACCCCTC-AGCACTGCCTGGGCACTGTAGC-TTTTGTTTCTAGTGGATTGCTTTCTTT----G-----ATGGCAACCTCTGGTCTTTCCATTACAGGTGGAATGAAACTGACATTGCACTGTGCTCACTGCTCCCCGTGTCATCTGTTATATCAGCATCTGTAGCAGCTGGTGCTGCTTCTGGCTGA-AAAGTCT--GTGTTTGCCTTTAAAATGTCATTCCTTCACCTCTCTCAGTACTCAGACTTACTCATCAGTTTGTTTCCAGTTGTCCTCAAATGTGTTCAGAATAAA-TGATGCACAAAGGACAGTTTAAACATAGCAAAGCAGCTACAGGCAAGGCATCTCCAGCT-------CACT-GGGCTGTTC-TTCTTAATAAAAAGTGTTGCATTGTCATTTGAATGTGTCTCTGGCACAGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1369350 727 -   1400280 CAAAGAATTCTTGAATTAAAGGTACCGAAGTAGAGTTTCTTTAAGGTCAATGAACATAAAGCAAAAGCCTTTTGCTTCCAAAGGAGGTGTGCACAGCTTGCATTG-------AAGAAGCATGTGAGGCTACACTCTTCATCCAAAGCCTGAAGAGTGTAGCCTCACATGTCttttttttttttttttttttAAAGACATTCTTTAAA-ATGTCTTTTCTGCCGCAGAGGTAGATGCATTCCAAATCTCTTTCTTTGTCTCC--------CTCTT----------TC-------------------------CTGCAATGATAAT--TTTCCTTGGTGCTCAACT--CCTTTCTGTTATTTATCTTGCTGAGAAAAGA-ACCCAGCCCCTC-AACACTGCCTCGGCACTGTGGC-TTTTGTTTCTAGTGGATTGTTTTCTCT----G-----ATGGCAGCCTTTCGTCTTTCCATTACAGGTGGAATGAAACTGACATTCCACCCTGCTCACCGCTCCCCATGTCATCCGTTATATCAGCATCTGTAGCAGCTGGTGCTGCTTCTGGCTAA-AAAGTCTCAGTGTTTGCCTTTAAAATGTCATTCCTTCACCTCTCTCAGTACTCAGACTCACTCATCAGTTTGTTTCCAGTTGTCCTCAAATGTGTTCAGAATTAA-TGATGCGCAAAGGACAGTTTAAACATAGCAAAGCAGCTACAGGCAAGGCATCTCCAGCT-------CACT-GGGCTA----TTCTTAATAAAAAGTGTCGCATTGTCATTTGAACGTGTCTCTGGCGCAGG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13158555 690 -  42888418 GCAAGAATTCTTGAATTAAAGGTACCAAAGTAGAGTTTCTTTAAGGTCAATGAACATAAAGCAAAAGCCTTTTGCTTCCAAAGGAGGTGTGCACAGCTTGCACTG-------AAGAAGCATGCAAGGCTACACTCTTCA-----------------------------GGCTTT-------------------GGATGCTACTTAAA-ATGTCTTTTCTGCCACAGAGGTAGATGCATTCCAAAtctctttctttgtctctctctc--tctctc----------tc-------------------------CTGCAATGATAAT--TTTCATTGGTGTTCAACTTATCTTTCTGTTATTTATCTTGCTGAGAAAAGA-GCCCAGCCCCTC-AGCACTGCCTGGGCACTGTAGC-TTTTGTTTCTAGTGGATTGCTTTCTCT----G-----ATGGCAACCTCTCGTCTTTCCGTTTCAGGTGGAATGAAACTGACATTCCACCCTGCTCACTGCTCCCCGTGTCATCCGTTATATCAGCATCTGTAGCAGCTGGTGCTGCTTCTGGCTGA-AAAGTCTCAGTGTTTGCCTTGAAAATGCCATTCCTTCACCTCTCTCAGTACTCAGACTTACTCATCGGTTTGTTTCCAGTTGTCCTCAAATGTGTTCAGAATAAA-TGATGCACAAAGGACAGTTTAAATGTAGCAAAGCAGCTACAGGCAAGGCATCTCCAGCT-------CACT-GGGCCATTC-TTCTTAATAAAAAGTGTCGCATTGTCTTTTGAATGTGTCTCTGGCACAGG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60524168 669 + 108143057 CAAGGAATTCTTGAATCAAAGGTACCAAAGTGGAGTTCTTTTAAGGTCACTGAACATAAAGCAAAATCCTTTAGCTTCCAAAGGAGGCGTGCACAGCTAGCTCTGAAGA---AAGAAGCTTATGGGGCGACACTCTTCA-----------------------------GGCTTC-------------------GAATGCTACTTAAA-ATGTCTCTTCTGCCACAGAGGCAGATGCATTCTAAA------TCTCTGTCTCT----C--ACCCTC----------TC---------ACTGCCTTTTTCTCTGCTATGATGATAAT--TTTCCTTGGTTCTCAGCTTATCTTTCCGCCAACCATCTTGCT-GGAGAAGA-GCTTGGCCCCTC-CGCACCGCCTGGGCG-TGTAGC-TTTCGTGTTTAGTGGATTGTTTTCTCT----G-----ATGGCAACCTCTCATCTT------------------GAACTGACATTCCACTCCGCTCACTGCTCCCAATGTCATCTGTTATATT------TGTAGCAGCTGCTGCTGC-TCTGGCTGA-GAAGTCTCAGTGTTTGCCTTTAAAATGTCATTTCTTCACCTCTCTCAATATTCAGACTTACTCTTCAGTTTGTTTTCAGCTGCCCTCAAATGTGCTAAGAATAAA-TGATGCACAAAGGACAGTTTAAACACAACAAATTAGCCACAGGCGAGGCATCTCCAGTC-------CACA-GGGCGGTTCTTCCTTAACAACAAGTGTTGCATTGTCATTTAAAT-----GCTGGCACAAG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3563286 681 +  11683526 CAAGGAATTCTTGAATCAAAGGTACCAAAGTAGAGTTTCTTTAAGGTCGCTGAACATGAAGCAAAATCCTTTAGCTTCCAAAGGAGGTGTGCAGAGCTAGCTCTGAAGA---AAGAAGCTTATGGGGCTACACTCTACA-----------------------------GGCTTT-------------------GAATGCTGTGTAAC-GTGTCTCTTCTGCCACGGAGGCAGACGCATTCTAAAtctc--tctctgtctct----c-tcccctc----------tc---------tctctctttttctctGCTATAATGATAAT--TTTCATTGGTTCTCAGCTTATCTTTCAGCCAGCCATCTTGCTGGGAGAAGA-ACTTGTCCCCTC-GGCACTGCCTGGGCA-TGTAGC-TTTTGTGTTTAGTGGATTGTTTTCTGT----G-----ATGGCAGCCTCTCTTCTT------------------GAACTGACATTCCACTCCGCTCACTGCTCCCAATGTCATCTGTTATATT------TGTAGCAGCTGCTGCTTCTTCTGGCTGA-GAAGTCTCAGTGTTTGCTTTTAAAATGTCATTTCTTCACCTCTCTCAATATTCAGACTTACTCATCAGTTTGTTTTCAGCTGCCCTCAAATGTGCTAAGAATAAA-TGATGCACAGAGGACAGTTTAAACACAACAAAGTAGCCACAGGCGAGGAATCTCCAGTT-------CACA-GGGCTGTTCTTCCTTAACAACAAGTGTTGCATTGCCATTTAAATGCATGGCTGGCACAAG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3049676 684 +   4132165 CAAGGAATTCTTGAATCAAAAGTACTAAAGCAGAGTTTCTTTAAGGTCACTGAACATAAAGCAAAATCCCTTAGCATCCAAAGGAGGCGTGTGCAGCTTGCTCTGAAGA------AAGCGCAT-GGGCTACACTCTTCA-----------------------------GGC-TC-------------------AGATGCTACGTGAA-ATGTCTCTTCTGCTGTAAAGGCACATGCATTCTAAA------TCTCTCCCTCT----CGCTCCTTC----------TCGTCTTCCCATCTCCCTTTTTCTCTGCTATAATGATCAT--TTTCATCAGCCCTCAGCTTCCTTTGCAGCCAGACATCTTCCTGAGAAAAGA-ACTTGGCCCCTT-GGCACCGCCTGGGCA-TGTAGC-GATTGTGTTTAGTGGATTGTTTTCCCCGATGG-----ATGGCAACCTCTCATCTC------------------AAACCAACATTCCACTCCACTCACTGCTCCCAATGTCATCCGTTCTGTC------TGTAGCAGCTGCTGCT---TCTGGCTGA-GAAGTCTCAGTGTTTGCCTTTAAAATGTCATTTCTTCACCTCTCTCAATATTCAGACTTATTCATCGGTTTGTTTTCAGCTGCCCTCAAATGTGCGAAGAATAAA-TGATGTACAAAGGACAGTTTAAACCCAACAAAGTAGCCGCAGGAGAGGCACTGCCAGTT-------CACAGGGGCTGTTTTTCCCTAACGACAAGTGTTGCATTGTCATTTAAATACGTGGCTGGCACAGG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55497018 656 +  90702639 CAAAGACTTCTTGAATCAAAGGCACCCAAGCAGAGGTCGTTGAAGGCCATCTAGCATGAAGCCAGCTCCTTTAGCTTCCAAAAGTGACAAACATAGCTTGC-TTGGAGA---AAGGAGCTTGTG-GGTTCCATTTGCCT-----------------------------AG-----------------------GCATGGTGGTTGCT-GTGATGTCTCTGGACTTGACGCAGAAGTGTTCCACATCTC----------GAA----C--TTTCTC----------TC-------------------------TTACAGCAGTG----TTTGTTTGGCACTAAGCTTTTTCTTCCGCCAGCCTTCTAGCTGAGAAGC----CTCAGCCCCCCTCTCACCATCTGAGCACCTCAGGTTTTCATCTTGAGTAGATTGTTTTCTCT----C-----TCAGCCACCTCTCATCTT------------------GAACTGACATTCCCCTCTGCTCCTTGCTCCCTGTGTCATCCATTATGCCAGCATCTGTAACAGCTGTGGCTTTCGCTGACTGAGAAAGCTTTAGTGTTTGCCTTTAAAATGTCATTCCTTCACCCCTCTCAACAGTCAGACT--CCCCTCAGTTTGTTCCTGGCTCCCCTCACATGCAGAGAGAACAAACTGA--CACCAAGGACTGTCTAAACACGGCAAAGCAGCTGGAGGCGGGGCGAATTCAGTTTCTCATCCTCT-GGGCTGATCTTCTCTAACAA---GTGTTGCCTTGTCGTTTAGACACATTTCTGGCCCAGA
i mm10.chr18               C 0 I 93
s canFam3.chr11             14898314 612 +  74389097 CAAAGGATTCTTGAATCAAAGGTACCAAAGTAGAGTTTCTTTAAGGTCACTGAACATAAAGCAGTATCTTTTAGCTTCCAAAAGAGGTGTGCACAGCTTGCTCTGAAGAGAACAGCAGCACAT-AGGCTCTACTCTTCA-----------------------------GATTTG-------------------GAATGCTACTTACA-ATGTGTCCTCTGCCACAGAGACAGAAGCCTTCGAAACCAA--CCTCTCTCTCT----C--CCCACC----------CC-------------------------CCCCCCCG-------CCTCCCTGTGTCCTA--TTATGTCTCAGCAAGCCATCTTGCTGAGAGAAGA--------------AG------CTGGGTGCTGTAGC----------------------ATCTGT----G-----GGGGCGGCCTTTCCCACC------------------GAACTGGCATTCCACCCCAAGTGCTGTTCCCAGTGGCCTCCTCTCCATAGGCATCCGTAGCAGCTGCAGCTTCTTCTGGCTCA-AAGGACCCCATGTTTGCCTTTAAAATGTCATTCCTTCACCTCTCTCAATATTCAGACGCACTCATCAGTTTGTTTCCAGCTGCCCTCAAATGTATTCAGAATAAA-TGGTGCACGAAGGACAGTTTAAACTCAGCAAA---------------GCATCTCCAGTT-------CACC-GGGCTGTTCTTCCTTACCAACAAGTGTTGTATTGTCATGTAAATGCGTTTCTGGCACTGG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2607100 647 +   3667625 CAAAGCATTCTCGAATCAAAGATAACAAAGTGGAGTTCCTTTAAGGTCACTGAACATAAAGCCAAGGCCTTTAGCTTCCAAAGGAGTTGTGCACAGCTTGCTCTGAAGA---AAGAAGCACATCA-GCTATATT--TCA-----------------------------GGCTTA-------------------CAGTGCTAGGTAAATGTCTCTTCTTTTTTACCAAGGTCCAAGCATTCTAAA--------------TCT----C--TCTCTC----------TA-------------------------GTATAATGATAATAATTCATTTGGTGATCACCTTACTGTTCAGCCAGCTATCTTGCCGAGAGGAGAAGCCAAGCTACTC-TGCACCACCTGGGTGCTGTGGC-ACTCATGCTTAGTGGGAAGCTGCCTCT----GTATGTATGGCAGCTTCTCATCTT------------------GCATTGACATTCTACC----------TTCCCAATGTCATTGGTTATATCAGCATCTGTAGCAGCTGCTGCTGCTTCTGACTGA-AAAGTCTCAATGTTTGCCTTTAAAATGTCATTCCTTCACCTCTCTCAATATTCAGACTCACTCATCAGTTCGTTCCCAGCTGCCCTCAAATGTGTTCAGAATAAA-TGATGCACAAAGGACAGTCTAAACACAGCTAAGCAGTTGTAGGCAAGGCATCTTCAGTT-------CACT-G-----CTCTTCCTTAACAA---GTGCTGCATTGTCATTTAAATGTGTTTCTGGCACAGG
i dasNov3.JH567306         C 0 C 0

a score=1387165.000000
s hg38.chr5_KI270796v1_alt     58163 93 +    172708 AGACACT-GGCTGTGTATCAGCTGTGGCAATAACAACATGTTTAGTGGTTGCCAAGCCAAGAG-GG-AAAAAA--GATTAAATGAAGAAGGTGTAGAA
s panTro5.chr5             125168261 93 + 181907262 AGACACT-GGCTGTGTATCAGCTGTGGCAATAACAACATGTTTAGTGGTTGCCAAGCCAAGAG-GG-AAAAAA--GATTAAATGAAGAAGGTGTAGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126505228 93 + 183735486 AGACACT-GGCTGTGTATCAGCTGTGGCAATAACAACATGTTTAGTGGTTGCCAAGCCAAGAG-GG-AAAAAA--GATTAAATGAAGAAGGTGTAGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1696693 94 +   8933513 AGACACT-GGCTGTGTATCAGCTGTGGCAATAACAACATGTTTAGTGGTTGCCAAGCAAAGAG-GGAAAAAAA--GATTAAATGAAGAAGGTGTAGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139827180 93 + 163208435 AGACACT-GGCTGTGTATCTGCTGTGGCAATAACAACATGTTTAGTGGTTGCCAAGCAAAGAG-GG-AAAAAA--GATTAAATGAAGAAGGTGTAGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122810715 93 + 180051392 AGACACT-GGCTGTGTATCTGCTGTGGCAATAACAACATGTTTAGTGGTTGCCAAGCAAAGAG-GG-AAAAAA--GATTAAATGAAGAAGGTGTAGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124234387 93 + 181584905 AGACACT-GGCTGTGTATCTGCTGTGGCAATAACAACATGTTTAGTGGTTGCCAAGCAAAGAG-GG-AAAAAA--GATTAAATGAAGAAGGTGTAGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16232089 93 +  18395747 AGACACT-GGCTGTGTATCTGCTGTGGCAATAACAACATGTTTAGTGGTTGCCAAGCAAAGAG-GG-AAAAAA--GATTAAATGAAGAAGGTGTAGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5243322 93 +  26952557 AGACGCT-GGCTCTGTATCTGCTGTGGCAATAACAACATGTTTAGTGGTTGCCAAGCAAAGAG-GG-AAAAAA--GATTAAATGAAGAAGGTGTAGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28346087 93 +  82825804 AGACACT-GGCTCTGTATCTGCTGTGGCAATAACAACATGTTTAGTGGTTGCCAAGCAAAGAG-GG-AAAAAA--GATTAAATGAAGAAGGTGTAGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4009887 93 -   4237731 AGACACT-GACTGTGTATCTGCTGTGGCAATAACAACATGTTTAGTGGTTGCCAAGCAAAGAG-GG-AAAAAA--GATTAAATGAAGAAGGTGTAGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      283518 93 -   1175262 AGACGCT-GGCTGTGTATCTGCTGTGGCAATAACAACATGTTTAGTGGTTGCCAAGCAAAGAG-GG-AAAAAA--GATTAAATGAAGAAGATGTAGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123620860 94 - 204313951 AGACACT-GGCTGTGTATGTGCTGTGGCAATAACAGCATGTTTAGTGGTTGTCAAGCAAAGAG-GG-AAGAAAA-GATTAGATGACAAAGGTTTAGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55673176 95 -  71252344 AGACACT-GGCTGTGTATGTGCTGTGGCAATAACAGCATGTTTAGTGGTTGCCAAGCAAAGAG-GG-AAAAAAACGATTAGATGATAAAAGTTTAGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1370077 93 -   1400280 AGACACT-GGCTGTGTATGTGCTGTGGCAATAACAGCATGTTTAGTGGTTGTCAAGCAAAGAG-GG-AAAAAA--GATTAGATGACAAAGGTTTAGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13159245 94 -  42888418 AGACACT-GGCCGTGTATGTGCTGTGGCAATAACAGCATGTTTAGTGGTTGTCAAGCAAAGAG-GT-AAAAAAA-GATTAGATGACAAAGGTTTAGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60524837 92 + 108143057 ACACACT-GGCTGTTT-TCTGCTGTAGCAATAACAGCATGTTTACTGGTTGCCAGGCAAAGAG-GG-AAAAAA--GATTAGATGAAGTATGTGTAGAA
i micMur3.chr12            C 0 I 1408
s proCoq1.NW_012155062v1     3563967 92 +  11683526 ACACACT-GGCTATTT-TCTGCGGTAGCAGTAAGAGCATGTTTACTGGTTGCTAGGAAAAGAG-GG-AAAAAA--GATTAGATGAAGTATGTGTAGAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3050360 91 +   4132165 ACACACTCTGCTGTTTATCTCCTGTAGCAAGAAGAACATGTTTAGAGGTTGCCAGG---AGAA-GG-AAAAAA--GATCAGATGAAGTGGGTGGAGAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14898926 93 +  74389097 AGACATT-GGCTGTGTATCTGCTTTGGCAACTGAAGAATGTTCCACGGTTGCCGGGCAAAGAGTAG-AGAAAG--GAGTAGATGAAGAAGCT-TAGAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2607747 92 +   3667625 ACAGGCT-GGCTATGTGTCTGCTTTGGCAATAACAGAATGTTTAGTGGTTGCCAGGCAAAGAG-A--AGAAAA--AAGCAGATGAAGAAGGCATAGAA
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55497674 93 +  90702639 I

a score=95066.000000
s hg38.chr5_KI270796v1_alt     58256  9 +    172708 -AGATCAGTT
s panTro5.chr5             125168354  9 + 181907262 -AGATCAGTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126505321  9 + 183735486 -AGATCAGTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1696787  9 +   8933513 -AGATCAGTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139827273  9 + 163208435 -AGATCAGTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122810808  9 + 180051392 -AGATCAGTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124234480  9 + 181584905 -AGATCAGTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16232182  9 +  18395747 -AGATCAGTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5243415  9 +  26952557 -AGATCAGTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28346180  9 +  82825804 -AGATCAGTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4009980  9 -   4237731 -ACATCAGTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      283611  9 -   1175262 -AGATCAGTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123620954  9 - 204313951 -AGGTCAGTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55673271  9 -  71252344 -AGGTCAGTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1370170  9 -   1400280 -AGGTCACTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13159339  9 -  42888418 -AGGTCAGTT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3564059  9 +  11683526 -TGATCAGTT
i proCoq1.NW_012155062v1   C 0 I 1299
s otoGar3.GL873679           3050451  5 +   4132165 -TTATC----
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14899019  9 +  74389097 -TGACAGGTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2607839 10 +   3667625 TGTTTCAGTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e mm10.chr18                55497674 93 +  90702639 I

a score=310074.000000
s hg38.chr5_KI270796v1_alt     58265 25 +    172708 AATGTGAGTTGC-CTTCCTTTGCTTT
s panTro5.chr5             125168363 25 + 181907262 AATGTGAGTTGC-CTTCCTTTGCTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126505330 25 + 183735486 AATGTGAGTTGC-CTTCCTTTGCTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1696796 25 +   8933513 AATGTGAGTTGC-CTTCCTTTGCTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139827282 25 + 163208435 AATGTGAGTTGC-CTTCCTTTGCTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122810817 25 + 180051392 AATATGAGTTGC-CTTCCTTTGCTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124234489 25 + 181584905 AATATGAGTTGC-CTTCCTTTGCTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16232191 24 +  18395747 AATATGA-TTGC-CTTCCTTTGCTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5243424 25 +  26952557 AATGTGAGTTGC-CTTCCTTTGCTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28346189 25 +  82825804 AATATGAGTTGC-CTTCCTTTGCTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4009989 25 -   4237731 AATATGAGTTGC-CTTCCTTTGCTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      283620 25 -   1175262 AATATGAGTTGC-CTTCCTTTGCTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123620963 25 - 204313951 AATATAAGTTGC-CTTCTTTTGCTTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55673280 25 -  71252344 AATATGAGCTGC-CCTCTTTTGCTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1370179 25 -   1400280 AATATGAGTTGC-CTTCTTTTGCTTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13159348 25 -  42888418 AATATGAGTTGA-TTTCTTTTGCTTT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3050456 19 +   4132165 ------AGTTGC-CCTCCTTTGCATT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14899028 26 +  74389097 AATGAGAGCTGCTTTTCCTCTGTTTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2607849 25 +   3667625 AATGTGGGTTGC-CTTGCTTTTGTTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e mm10.chr18                55497674 93 +  90702639 I

a score=86607.000000
s hg38.chr5_KI270796v1_alt     58290 8 +    172708 TTCCTAAA
s panTro5.chr5             125168388 8 + 181907262 TTCCTAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126505355 8 + 183735486 TTCCTAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1696821 8 +   8933513 TTCCTAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139827307 8 + 163208435 TTCCTAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122810842 8 + 180051392 TTCCTAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124234514 8 + 181584905 TTCCTAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16232215 8 +  18395747 TTCCTAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5243449 8 +  26952557 TTCCTAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28346214 8 +  82825804 TTCCTAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4010014 8 -   4237731 TTCCTAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      283645 8 -   1175262 TTCCTAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123620988 8 - 204313951 TTCCTAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55673305 8 -  71252344 TTCCTAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1370204 8 -   1400280 TTCCTAAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13159373 8 -  42888418 TTCCTAAA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3050475 8 +   4132165 TTAAAAAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14899054 8 +  74389097 CTTTTCAA
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e dasNov3.JH567306           2607874 0 +   3667625 C
e mm10.chr18                55497674 93 +  90702639 I

a score=284908.000000
s hg38.chr5_KI270796v1_alt     58298 31 +    172708 TTTAACTTTCAAAA--ATGTTGTTTATAACTGA
s panTro5.chr5             125168396 31 + 181907262 TTTAACTTTCAAAA--ATGTTGTTTATAACTGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126505363 31 + 183735486 TTTAACTTTCAAAA--ATGTTGTTTATAACTGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1696829 31 +   8933513 TTTAACTTTTAAAA--ATGTTGTTTATAACTGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139827315 31 + 163208435 TTTAACTTTTAAAA--ATGTTGTTTATAACTGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122810850 31 + 180051392 TGTAACTTTAAAAA--ATGTTGTTTATAACTGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124234522 31 + 181584905 TGTAACTTTTAAAA--ATGTTGTTTATAACTGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16232223 31 +  18395747 TGTAACTTTTAAAA--ATGTTGTTTATAACTGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5243457 28 +  26952557 TTT---TTTTTTAA--ATGTTGTTTATAATTGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28346222 28 +  82825804 TTT---TTTTTTAA--ATGTTGTTTATAATTGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4010022 31 -   4237731 TGTAACTTTTAAAA--ATGTTGTTTATAACTGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      283653 31 -   1175262 TGTAACTTTTAAAA--ATGTTGTTTATAATTGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123620996 31 - 204313951 TTTAACTTTGAAAA--ATTTTGTTTATAACTGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55673313 31 -  71252344 TTTAACTTTGAAAA--ATTTTGCTTATAACTGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1370212 31 -   1400280 TTTAACTTTGAAAA--ATTTTGTTTATAACTGA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13159381 31 -  42888418 TTTAACTTTGAAAA--ATTTTGTTTGTAGCTGA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3050483 33 +   4132165 TGTAACCTTTAAAAACATTTTGCTTATggctga
i otoGar3.GL873679         C 0 I 235
e micMur3.chr12             60524929 1408 + 108143057 I
e canFam3.chr11             14899062  0 +  74389097 C
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e dasNov3.JH567306           2607874  0 +   3667625 C
e mm10.chr18                55497674 93 +  90702639 I

a score=2138733.000000
s hg38.chr5_KI270796v1_alt     58329 250 +    172708 CACATGATAAtttattcatctt-attttattattttattttatttttattttac-tttaagttctgggatatatgtgcagaatgtgcaggtttgttccagaga--tatacttgtgccatggtggtttgctgcacctatcaacctatcacctgggttttaagccctgcatgcattaggtatttgtcctaatgctctccctccccttg-tctcccactcgctgactggccttggtgtgtaatgttcccctccctg----tg
s panTro5.chr5             125168427 250 + 181907262 CACATGATAATTTATTCATTTT-ATTTTATTATTTTAttttatttttattttac-tttaagttctgggatatatgtgcagaatgtgcaggtttgttccagaga--tatacttgtgccatggtggtttgctgcacctatcaacctgtcacctgggttttaagccctgcatgcattaggtatttgtcctaatgctctccctccccttg-tctcccactcgctgactggccttggtgtgtaatgttcccctccctg----tg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126505394 250 + 183735486 CACATGATAATTTATTCATTTT-ATTTTATTATTTTAttttatttttattttac-tttaagttctgggatatatgtgcagaatgtgcaggtttgttccagaga--tatacttgtgccatggtggtttgctgcacctatcaacctgtcacctgggttttaagccctgcatgcattaggtatttgtcctaatgctctccctccccttg-tctcccactcgctgactggccttggtgtgtaatgttcccctccctg----tg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1696860 250 +   8933513 CACATGATAATTTATTCATTTT-ATTTTATTATTTTAttttatttttattttac-tttaagttctgggatatatgtgcagaatgtgcaggtttgttacataga--tatacatgtgccatggtggtttgctacacctatcaacctgtcacctgggttttaagccctgcatgcattaggtatttgtcctaatgctctccctccccttg-tctcccactcgctgactggccctggtgtgtaatgttcccgtccctg----tg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139827346 251 + 163208435 CACATGATAATTTATTCATTTTAATTTTATTATTTTAttttatttttattttac-tttaagttctgggacacatgtgcagaatgtgcaggtttgttacataga--tatacatgcgccatggtggtttgctgcacctatcaacctgtcacctaggttttaagccccgcttgcattcggtatttgtcctaatgctctccctccccttg-tctcccatccgctgactggccctggtgtgtgatgctcccctccctg----tg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122810881 238 + 180051392 CACGTGATAA---------------TTTATTTTATTAttttatttttattttgc-tttaagttctgggatacatgtgcagaatgtgcaggtttgttacataggtatatatatgtgccatggtggtttgctgcacctatcaacctgtcatctaggtcttaaaccacgcatgcattagatatttgtcctaatgctccccctccccttg-tctcccacccactgactggccctggtgtgtgatgttcccctccctg----tg
i rheMac8.chr6             C 0 I 6
s macFas5.chr6             124234553 236 + 181584905 CACGTGATAA---------------tttattttattattttatttttattttgc-tttaagttctgggatacatgtgcagaatgtgcaggtttgttacatagg--tatatatgtgccatggtggtttgctgcacctatcaacctgtcatctaggttttaaaccacgcatgcattagatatttgtcctaatgctccccctccccttg-tctcccacccactgactggccctggtgtgtgatgttcccctccctg----tg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16232254 246 +  18395747 CACGTGATAAtttatt----tt-attttattttattattttatttttattttGc-tttaagttctgggatacatgtgcagaatgtgcaggtttgttacatagg--tatatatgtgccatggtggtttgctgcacctatcaacctgtcatctaggttttaaaccacgcatgcattagatatttgtcctaatgctccccctccccttg-tctcccacccactgactggccctggtgtgtgatgttcccctccctg----tg
i macNem1.NW_012012355v1   C 0 I 6
s cerAty1.NW_012002512v1     5243485 243 +  26952557 CATGTGATAATTTATT----TT-ACTTTATTTTATTAttttattttaattttac-tttaagctctgggatacatgtgcagaatgtgcaggtatgttacatagg--tatatatgtgccacggtggtttgctgcacctatcaaactgtcatctaggttttaagccccgcatgcattagatatttgtcctcatgctctccctccccttg-tctcccacccactgactggccctggtgt---atgttcccctccctg----tg
i cerAty1.NW_012002512v1   C 0 I 6
s chlSab2.chr23             28346250 246 +  82825804 CATGTGATAATTTGTT----TT-ACTTTATTTTATTAttttatttttattttac-tttaagctctgggatacatgtgcagaatgtgcaggtatgttacatagg--tatatatgtgccatggtggtttgctgcacctatcaacctgtcatctaggttttaagccccgcatgcattagttatttgtcctcatgctctccctccccttg-tctcccacccactgactggccctggtgtgtgatgttcccctccctg----tg
i chlSab2.chr23            C 0 I 6
s manLeu1.NW_012103321v1     4010053 238 -   4237731 CACGTGATAATTTATT----TT-ATT--------TTAttttatttttattttgc-tttaagttctgggatacatgtgcagaatgtgcaggtttgttacatagg--tatatatgtgccatggtggtttgctgcacctatcaacctgtcatctaggttttaaaccccgcatgcattagatatttgtcctaatgctccccctccccttg-tctcccacccactgactggccctggtgtgtgatgttcccctccctg----tg
i manLeu1.NW_012103321v1   C 0 I 6
s colAng1.NW_012119644v1      283684 241 -   1175262 CATGTGAtaatttat----------tttattttattattttatttttattttgc-tttaagttctgggatacatgtgcagaatgcgcaggtatgttacatagg--tatatatgtgccatggtggtttgctgcacctctcaacctgtcatctaggttttaaaccccacatgcattagatatttgtcctaatgctctccgtccccttg-tctcccacccactgactggccctggtgtgtgctgttcccctccctg----tg
i colAng1.NW_012119644v1   C 0 I 8
s calJac3.chr2             123621027 240 - 204313951 CACATGATAAttt----------attttatttaattattttatttttattttac-tttaagttctgggatacatgtgcagaacatgcaggtttgttacatagg--tatacatgtgccatggtggtttgctgcacctatcaacccgtcatctaggctttaagccctgcatgcattatctatttgtgctaatgctctccctctccttgtccccttcccccccgactggccctagtatgtgatgtttccctccctg------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55673344 238 -  71252344 CACATGATAAttt----------attttatttaattattttatttttattttac-tttaagttctgggacacatgtgcagaacacgcaggtttgttacatagg--tgtacgtgtgccatggtggtttgctgcacctatcaacccatcatctaggctttaagccctgcatacatcagctgtttgtcctaatgctctccctccccttg--ctctttccccacaactggccccagtatgtgatgtttccctccctg------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1370243 236 -   1400280 CACATGATAA---------------TTTATTTAATTAttttatttttattttac-tttaagttctgggatacatgtgcacaacatgcaggtttgttacatagg--catacatgtgccacggtggtttgctgcacctatcaacccatcatctaggctttaagccctgcatgcattagctatttgtcctaatgctctccctccccttg-cccctttcccccctactgaccccggtatgtgatgtttccctccctgta----
i cebCap1.NW_016107829v1   C 0 I 6
s aotNan1.NW_018505940v1    13159412 240 -  42888418 CACGTGATAAttt----------attttatttaattattttatttttattttacttttaagttctgggatacatgtgcaggacctgcaggtttgttacatagg--tatacatgtgccac-gtggtttgctgcacccatcaa-ccatcatctaggctttaagccctgcatgcattagctatttgtcctaatgctctccctccccttg-cccccttcccctcaactggccctggtttgtgatgtttccctccctg--tg--
i aotNan1.NW_018505940v1   C 0 I 6
e micMur3.chr12             60524929 1408 + 108143057 I
e canFam3.chr11             14899062   0 +  74389097 C
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e otoGar3.GL873679           3050516 235 +   4132165 I
e dasNov3.JH567306           2607874   0 +   3667625 C
e mm10.chr18                55497674  93 +  90702639 I

a score=6551.000000
s hg38.chr5_KI270796v1_alt     58579 24 +    172708 ATAATTTTACATGTTTACA---TTTTT
s panTro5.chr5             125168677 24 + 181907262 ATAATTTTACATGTTTACA---TTTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126505644 24 + 183735486 ATAATTTTACATGTTTATA---TTTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1697110 25 +   8933513 ATAATTTTACATGTTTACA--TTTTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139827597 27 + 163208435 ATAATTTCACATGTCTACATGTTTTTT
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124234789  6 + 181584905 -----ttcaga----------------
i macFas5.chr6             C 0 C 0
s calJac3.chr2             123621267  8 - 204313951 -----------tgttcaga--------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55673582  8 -  71252344 -----------tgttcaga--------
i saiBol1.JH378106         C 0 C 0
s otoGar3.GL873679           3050751 24 +   4132165 atatatatatatatttata---ttttg
i otoGar3.GL873679         I 235 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e canFam3.chr11             14899062  0 +  74389097 C
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e manLeu1.NW_012103321v1     4010291  6 -   4237731 I
e chlSab2.chr23             28346496  6 +  82825804 I
e cerAty1.NW_012002512v1     5243728  6 +  26952557 I
e macNem1.NW_012012355v1    16232500  6 +  18395747 I
e rheMac8.chr6             122811119  6 + 180051392 I
e aotNan1.NW_018505940v1    13159652  6 -  42888418 I
e cebCap1.NW_016107829v1     1370479  6 -   1400280 I
e dasNov3.JH567306           2607874  0 +   3667625 C
e mm10.chr18                55497674 93 +  90702639 I
e colAng1.NW_012119644v1      283925  8 -   1175262 I

a score=6213.000000
s hg38.chr5_KI270796v1_alt     58603 2 +    172708 -Ta
s panTro5.chr5             125168701 2 + 181907262 -Ta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126505668 2 + 183735486 -Ta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1697135 2 +   8933513 -Ta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139827624 2 + 163208435 -ta
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122811125 2 + 180051392 -ca
i rheMac8.chr6             I 6 C 0
s macFas5.chr6             124234795 2 + 181584905 -ca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16232506 2 +  18395747 -ca
i macNem1.NW_012012355v1   I 6 C 0
s cerAty1.NW_012002512v1     5243734 2 +  26952557 -ca
i cerAty1.NW_012002512v1   I 6 C 0
s chlSab2.chr23             28346502 2 +  82825804 -ca
i chlSab2.chr23            I 6 C 0
s manLeu1.NW_012103321v1     4010297 2 -   4237731 -ca
i manLeu1.NW_012103321v1   I 6 C 0
s calJac3.chr2             123621275 2 - 204313951 -ca
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55673590 2 -  71252344 -ca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1370485 2 -   1400280 -ta
i cebCap1.NW_016107829v1   I 6 C 0
s aotNan1.NW_018505940v1    13159658 2 -  42888418 -ca
i aotNan1.NW_018505940v1   I 6 C 0
s otoGar3.GL873679           3050775 2 +   4132165 tt-
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e canFam3.chr11             14899062 0 +  74389097 C
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e dasNov3.JH567306           2607874 0 +   3667625 C
e mm10.chr18                55497674 93 +  90702639 I
e colAng1.NW_012119644v1      283925 8 -   1175262 I

a score=7434119.000000
s hg38.chr5_KI270796v1_alt     58605 742 +    172708 -------catgataattttacatgtttatggggtacaatgtgatgttttaatacccctgtatattgtataatgattgagtttgggtagatagcatagccatcacttcaaacatttataatttctttgtagtgatgacattcaagatcctc--------------------------------------------------------------------------------------------------------------------tttgttagctgccttgaaaaatataatagatttttattaactatagtcaccctactatgtaatagaacactggaatatattcttcctacctaactgtaactttgtacttaatcactctttcctcca-----------------cccctcctaagcctctggtaatcactcttctataatctctacttgcatgagatcaactttttaagattccgtttattagtgagatcatgtggtatttgttttt------ctggcttatttcacttaacataatgtcctccaggttcatcca-tgttgccacagatggaaggatttcattctttttaatggttaaacagtattccattgtgcatatagaccacatttgctttatcctttcttctgctgaagaatatttgg-----ttccatctcttggctattgtgagtagtgctgcaataaacacgggggtacagatctctctttgacatgctgatttcatttcctttgcatatatacccagaaatgggattgctacatcatatggtagttctatttttaatgttttcaggaagccctattctg-ttttccataatagctatactaatttacactaaca-caaaaatgtataagagttctcctttct
s panTro5.chr5             125168703 742 + 181907262 -------catgataattttacatgtttatggggtacaatgtgatgttttaatacccctgtatattgtataatgattgagtttgggtagatagcatagccatcacttcaaacatttataatttctttgtagtgatgacattcaagatcctc--------------------------------------------------------------------------------------------------------------------tttgttagctgccttgaaaaatataatagatttttattaactatagtcaccctactatgtaatagaacactggaatatattcttcctacctaactgtaactttgtactcaatcacgctttcctcca-----------------cccctcctaagcctctggtaatcactcttctataatctctacttgcatgagatcaactttttaagattccgtttattagtgagatcatgtggtatttgttttt------ctggcttatttcacttaacataatgtcctccaggttcatcca-tgttgccacagatggaaggatttcattctttttaatggttaaacagtattccattgtgtatatagaccacatttgctttatcctttcttctgctgaagaatatttgg-----ttccatctcttggctattgtgagtagtgctgcaataaacacgggggtacagatctctctttgacatgctgatttcatttcctttgcatatatacccagaaatgggattgctacatcatatggtagttctgtttttaatgttttcaggaagccctattctg-ttttccataatagctatgctaatttacactccca-caaaaatgtataagagttctcctttct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126505670 742 + 183735486 -------catgataattttacatgtttatggggtacagtgtgatgttttaatacccctgtatattgtataatgattgagtttgggtagatagcatagccatcacttcaaacatttataatttctttgtagtgatgacattcaagatcctc--------------------------------------------------------------------------------------------------------------------tttgttagctgccttgaaaaatataatagatttttattaactatagtcaccctactatgtaatagaacactggaatatattcttcctacctaacggtaactttgtactcaatcactctttcctcca-----------------cccctcctaagcctctggtaatcactcttctataatctctacttgcatgagatcaactttttaagattccgtttattagtgagatcatgtggtatttgttttt------ctggcttatttcacttaacataatgtcctccaggttcatcca-tgttgccacagatggaaggatttcattctttttaatggttaaacagtattccattgtgtatatagaccacatttgctttatcctttcttctgctgaagaatatttgg-----ttccatctcttggctattgtgagtagtgctgcaataaacacgggggtacagatctctctttgacatgctgatttcatttcctttgcatatatacccagaaatgggattgctacatcatatggtagttctgtttttaatgttttcaggaagccctattctg-ttttccataatagctatgctaatttacactccca-caaaaatgtataagagttctcctttct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1697137 741 +   8933513 -------catgataattttacatgtttatggggtacaatgtgatgttttaatacccctgtatattgtataatgattgaatttgggtagatagcatagccatcacttcaaacatttataatttctttgtggtgatgacattcaagatcctc--------------------------------------------------------------------------------------------------------------------ttt-ttagctgccttgaaaaatataatacatttttattaactgtagtcaccctactatgtaatagaacactggaatatattcttcctacctaactgtaactttgtactcaatcactctttcctcca-----------------cccctcctaagcctctggtaatcactcttctataatctctacttgcatgagatcaactttttaagattccatttattagtgagatcatgtggtatttgttttt------ctggcttatttcacttaacatagtgtcctccaggttcatcca-tgttgccacagatagaaggatttcattctttttaatggttaaacagtattccattgtgtatatagaccacatttgctttaccctttcttctgttgaagaatatttgg-----ttccatctcttggctattgtgagtagtgctgcaataaacacgggggtacagatctctctttgacatgctgatttcatttcctttgcatatatacccagaaatgggattgctgcatcatatggtagttctatttttaatgttttcaggaagccctattcta-ttttccataatagctatactaatttacactccca-caaaaatgtataagagttctccttttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139827626 745 + 163208435 -------catgataattttacatgtttatggggtacaatgtgatgttttaatacccctgtatattgtataatgattgagtttgggtagatagcatagccatcacttcaaacatttataatttctttgtggtgatgacattcaagatcctc--------------------------------------------------------------------------------------------------------------------ttttttagctgccttgaaaaatatgacacatttttattaactatagtcaccctgctatgtaatagaacactggaatatattcttcctaccttactgtaactttgtactcaatccctctttcctcca-----------------cccctcccaagcctcagttaatcactcttctatcatctctacttgcatgagatcagctttttaagattc----tattagtgaggtcatgtggtatttgtttttctgtgcctggctcatttcacttaacataatgtcttccaggttcatcga-tgttgccacagatggaaggatttcattatttttaatggttaaacagtattccattgtgtatatagaccacatttgctttatcctttcttctgttgaagaatatttgg-----ttccatctcttggctattgtgagtagtcctgcaataaacacgggggtacagatctctctttgacatgctgatttcatttcctttgcatatatacccagaaatgggattgctgcatcatatggtagttctatttttaatgttttcaggaaaccctattcta-ttttccataatagctatactaatttacactcccaccaaaaatgtataagagttctcctttct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122811127 741 + 180051392 -------caggataattttacatgtttatggggtacaatgtgatgttttaatacccctgtttattgtataatgattgaatttgggtagatagcatatctatcacttcaaacatttataatttctttgtggtgatgacattcaagatcctc--------------------------------------------------------------------------------------------------------------------atttttagccaccttgaaaaatataatacatttttattaactgtagtcaccctagtatgtaatagaacactggaatatattcttcctatccaactgtaactttgtactcgtctactcttacctcca-----------------ctcctcccaagcctctggtaatcactcttctataatctctactt--ctgaggtcaacttttaaagattccgtctattagtgagatcatggggtatttgtttttctgtgcctggcttatttcacttaacataatgtcctccaggttcatcca-tgttgccacagatggaaggctttcattcttttttatggttaaac-gtatcccattgtgtatatagaccatatttgctttaccctttcttctgttgaagaatatttaggtcaattccatctcttggctattgtgactagtgctgcaataa----------acagatctctctttgacatgctgactttatttcctttgcatatatgcccagaaatgggattgctgcatcatatggtagttctatttttaatgttttcaggaagccttatactg-ttttccataatagctatactaatttacactccaaacaaaaatgtgtaacagttctcctttct
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124234797 741 + 181584905 -------caggataattttacatgtttatggggtacaatgtgatgttttaatacccctgtttattgtataatgattgaatttgggtagatagcatatctatcacttcaaacatttataatttctttgtggtgatgacattcaagatcctc--------------------------------------------------------------------------------------------------------------------atttttagccaccttgaaaaatataatacatttttattaactgtagtcaccctagtatgtaatagaacactggaatatattcttcctatccaactgtaactttgtactcgtctactcttacctcca-----------------ctcctcccaagcctctggtaatcactcttctataatctctactt--ctgaggtcaacttttaaagattccgtctattagtgagatcatggggtatttgtttttctgtgcctggcttatttcacttaacataatgtcctccaggttcatcca-tgttgccacagatggaaggctttcattcttttttatggttaaac-gtatcccattgtgtatatagaccatatttgctttaccctttcttctgttgaagaatatttaggtcaattccatctcttggctattgtgactagtgctgcaataa----------acagatctctctttgacatgctgactttatttcctttgcatatatgcccagaaatgggattgctgcatcatatggtagttctatttttaatgttttcaggaagccctatactg-ttttccataatagctatactaatttacactccaaacaaaaatgtgtaacagttctcctttct
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16232508 741 +  18395747 -------caggataattttacatgtttatggggtacaatgtgatgttttaatacccctgtttattgtataatgattgaatttgggtagatagcatatctatcacttcaaacatttataatttctttgtggtgatgacattcaagatcctc--------------------------------------------------------------------------------------------------------------------atttttagctaccttgaaaaatataatacatttttattaactgtagtcaccctagtatgtaatagaacactggaatatattcttcctatccaactgtaactttgtactcgtctactcttacctcca-----------------ctcctcccaagcctctggtaatcactcttctataatctctactt--ctgaggtcaacttttaaagattccgtctattagtgagatcatgtggtatttgtttttctgtgcctggcttatttcacttaacataatgtcctccaggttcatcca-tgttgccacagatggaaggctttcattcttttttatggttaaac-gtatcccattgtgtatatagaccatatttgctttaccctttcttctgttgaagaatatttaggtcaattccatctcttggctattgtgactagtgctgcaataa----------acagatctctctttgacatgctgactttatttcctttgcatatatgcccagaaatgggattgctgcatcatatggtagttctatttttaatgttttcaggaagccctatactg-ttttccataatagctatactaatttacactccaaacaaaaatgtgtaacagttctcctttct
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5243736 738 +  26952557 -------caggataattttacatgtttatggg---caatgtgatgttttaatacccctgtatattgtataatgattgagtttgggtagatagcatatatatcacttcaaacatttataatttctttgtggtgatgacattcaagatcctc--------------------------------------------------------------------------------------------------------------------atttttggctatcttgaaaaatataatacatttttattaactgtagtcaccctagtatgtaatagaacactggaatatattcttcctatccaactgtaactttgtactcatctactcttacctcca-----------------cccctcccaagcctctggtaatcactcttctataatctctactt--ctgaggtcaacttttaaagattccgtctattagtgagatcatgtggtatttgtttttctgtgcctggcttatctcacttaacataacgtcctccaggttcatcca-tgttgccacagatggaaggctttcattcttttttatggttaaac-gtattccattgtatacatagaccacatttgctttaccctttcttctgttgaagaatatttaggttgattccatatcttggctgttgtgactagtgctgcaataa----------acagatctctctttgacatgctgactttatttcctttgcatatatgcccagaaatgggattgctgcatcatatggtagttctatttttaatgttttcaggaagccctatacta-ttttccataatagctgtactaatttacgctcccaacaaaaatgtgtaacagttctcctttct
i cerAty1.NW_012002512v1   C 0 I 7111
s chlSab2.chr23             28346504 738 +  82825804 -------caggataattttacatgtttatgag---caatgtgatgttttaatacccctgtatattgtataatgattgagtttgggtagatagcatatctatcacttcaaacatttataatttctttgtggtgatgacattcaagatcctc--------------------------------------------------------------------------------------------------------------------atttttggctatcttgaaaaatataatacatttttattaactgtagtcaccctagtatgtaatggaacactggaatatattcttcctatccaactgtaactttgtactcgtctactcttacctcca-----------------cccctcccaagcctctggtaatcactcttctataatctctactt--ctgaggtcaacttttaaagattccgtctattagtgagatcatgtggtatttgttttgctgtgcctggcttatttcacttaacataatgtcctccaggttcatcca-tgttgccacagatggaaggctttcattcttttttatggttaaac-gtatcccattgtgtatatagaccatatttgctttactctttcttctgttgaagaatatttaggtcgattccatctcttggctattgtgactagtgctgcaataa----------acagatctctctttgacatgctgactttacttcctttgcatatatgcccagaaatgggattgctgcatcatatggtagttctatttttaatgttttcaggaagccctatacta-ttttccataatagctatactaatttacactcccaacaaaaatgtgtaacagttctcctttct
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4010299 741 -   4237731 -------caggataattttacatgtttatggggtacaatgtgatgttttaatacccctgtttattctataatgattgaatttgggtaaatagcacatctatcacttcaaacatttataatttctttgtggtgatgacattcaagatcctc--------------------------------------------------------------------------------------------------------------------atttttagctaccttgaaaaatataatacatttttattaactgtagtcaccctagtatgtaatagaacactggaatatattcttcctatccaactgtaactttgtactcatctactcttacctcca-----------------cccctcccaagcctctggtaatcactcttctataatctctactt--ctgaggtcaacttttaaagattccatctattagtgagatcatgtggtatttgtttttctgtgcctggcttatttcacttaacataatgtcctccaggttcatcca-tgttgccacagatggaaggctttcattcttttttatggttaaac-gtatcccattgtgtatatagaccatatttgctttaccctttcttctgttgaagaatatttaggtcaattccatctcttggctattgtgactagtgctgcaataa----------acagatctctctttgacatgctgactttatttcctttgcatatatgcccagaaatgggattgctgcatcatatggtagttctatttttaatgttttcaggaagccctatacta-ttttccataatagctatactaatttacactccgaacaaaaatgtgtaacagttctcctttct
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      283933 742 -   1175262 -------caggataattttacatgtttatggggtacaatgtgatgttttaatacccctgtatattgtataatgattgagtttgggtagatagcatatctatcacttcaaacatttataatttctttgtggtgatgacattcaagatcctc--------------------------------------------------------------------------------------------------------------------atttttagctaccttgaaaaatataatacatttttattaactgtagtcaccctagtatgtaatagaacactggaatatattcttcctctccaactgtaactttgtactcatctactcttacctcca-----------------cccctcccaagcctctggtaatcactcttctataatctctactt--ctgaggtcaacttttaaagattcagtctattagtgagatcatgtggtatttgtttttctgtgcctggcttatttcacttaacataatgtcctgcaggttcatcca-tgttgccacagatggaaggttttcattcttttttatggttaaac-atattccattgtgtatatagaccacatttggtttaccctttcttctgttgaagaatatttaggttgattccatctcttggctattgtgactagtgctgcaataa----------atagatctctctttgacatgctgactttatttcttttgcatatatgcccagaaatgggattgctgcatcatatggtagttctatttttaatgtttgcaggaagccctatactatttttccgtaatagctatactaatttacactcccaacaaaaatatgtaacagttctcctttct
i colAng1.NW_012119644v1   I 8 C 0
s calJac3.chr2             123621277 753 - 204313951 -------catgataattttacatgtttatagggtacaatgtaatattttaatacccctgtatattgtataatgattgagtttgattagatagcatatccatcacttcaaacatttatcatttctttgtggtgatgacatgcaagatcctc--------------------------------------------------------------------------------------------------------------------ttttttagctaccttaagaaatagaatacatttttattagctgtagtcaccctactatgtaatagaacactggaatatattcttcccatctaactgtaattctgtacacatctactctttccacca-----------------accctcccaagcctctggtaatcacttttatatcatttctacttccacgagatcaactttt-aagattctgtctattagtgagatcatgtggtatttgtttttctgtgcctggcttatttcactcaacataataccctccaggttcaccca-tgttctcacagatggaaggatttcattgttttttatggttacacagtattccattgtgtatatagagcacatttgccatatcctctcatctgttgaagaacatttgggttgattccatctcttggctattgtgagtagtaccgcagtaaccatcatggtacagacctctctctgacacaatcattgcatttcctttgcatatatacccagaaatgggattgctgcattatatagtagttctattttaaatgttttcaggaagccttatacta-tttttcataatagcggtactaatttacactcccaacaaaaatgtgtaggagttctcctttct
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55673592 751 -  71252344 -------cataatactattacatgtttatggggtacaatgtgatattttaatacccctgtatattgtataatgatcgagtttgattagatagcatatccatcacttcaaacatttatcatttctttgtggtgatgaaattcaaggtcctc--------------------------------------------------------------------------------------------------------------------ttttttagctaccttgaaaaatagaatacatttttattagctgtagtcaccctactctgtaatagaacactggaatagattgttcccatctaattgtaactccgtactcatttactctttcctcca-----------------accctcccaaacctctggtaatcacttttatataatttctacttccacgagatcaactttt-aagattctgtctattagtgaggtcatgtggtatttgcttttctgtacctggcttatttcactgaacataatatcctccaggttcatcca-tgttgccacagatggaaggatttcattcttttttatggttacacagtattccattgtgtatatggagcacatttgccatatcctctcttctgttgaagaatatttgggttgagtccatctcttggctattgtgagtagtactgcagtaaccatgggggtatag--ctctctctgacataatcattgcatttccgttgcatatatacccagaaatgggattgctgcatcatatagtagttctatgttaaatgttttcaggaagccttatacta-tttttcataatagctgtactaatttacactcccaacaaaaatgtgtaagatatctcctttct
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1370487 736 -   1400280 -------catgataattttacatgtttattgggtacaatgtaatgttttaataaccctgtatattgtataatgattgagtttgattagatagcatatctgtcacttcaaacatttatcatttctttgtggtgatgacattcaagatcctc--------------------------------------------------------------------------------------------------------------------ttttttagctaccttaaaaaatataatacattttgattagctgtagtcaccctactatgtaatagaacactggaatatattgtttgcatctgattgtaactctgtactcatctactccttcctcca-----------------accctcccaagtctctggtaataccttttctataatttctacttccacgagatcaactttt-aagattctgtccattagtgagatcatgtggtatttgtttttctgggcctggcttatttcatttaacataataacctccaggttcatcca-tgttgccacagatggaaggatttcattcttttttatggttacacagtattccattgtgtatatagagcacatttgccatatcctctcatctgctgaagaatgtttgggttgattccatctcttggctatt---------------gtaaccacgggggcacag--ctctctctgacataatcattgcatttcctttgcatatatacccagaaatgggattgctgcatcatatagtagttctattttaaatgttttcaggaagccttatacta-tttttcataatagctgtactaatttacactcccagcaaaaatgtgtaagagttctcctttct
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13159660 753 -  42888418 -------catgataattttacatgtttatggggtacaatgtgatgttttaatacccctgtatattgtataatgatcgagtttgattagatggcatatctatcacttcaaacatttatcatttctttgtggtgatgacattcaagatcctc--------------------------------------------------------------------------------------------------------------------ttttttagctaccttgaaaaatataatacatttttattagctgtaatcaccctactatgtaatagaacaccagaatatattcttcccatctaattgtaactctgtactcatctactctttcctcca-----------------accctcccaagcctctggtaatcacttttctataattcctacttccatgagatcaactttt-aagattctatctaatagtgagttcatgtggtatttgtttttctgtgcctggcttatttcacttaacataatatcctccaggttcgtcca-tgttgccacagatggaaggatttcattcttttttttggttaaacagtattccattgcgtatatagaacacatttgccatctcctctcatctgttgaagaatatttgggttgattccatctcttggctattgcgagtagtactgcagtaaccatggggggacagatctctctctgacataatcattgcatttcctttgcatatatacccagaaatgggattgctgcatcatatagttattctattttaaatgttttcaggaaaccttatacta-tttttcataatagctgtactaatttacactcccaacaaaaatgtgtaagagttctcctttct
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3050777 858 +   4132165 tataatcaatcataattgtacatttttatggagtgcagtatgatatttcaatacatatatatgtagaata-----tgaaattaggtagttataatagccatcatctcaaacatttatcatttctttgtggtgataatattgaagacttccggggtggtgcctgtggctcatggagtagggcaccggccccatgtgctagaggtggtgggttcaaacccagccctggccaaaaaaaaaaaagtaaaaaaaaaatattgaagacttccttttatacctatcttgaaatacgt-----atttcgatgagctatcatcatcctgctgtgtgataaaatactggaacatattcttcctatctaactgtgactttgtgcccattgatcagtttctccccgtgcacctctctgtctctccttcctagtctttgggaaccactattctactttctgtgtct--atgagatcagtgtttttacgctccatgtatgagtgacatcattgaggatctgtgtttctgtgcctggcttatttcacttcacatgacaccc------tttatccacttttgcctcaaatgacaggatttcacccttttctacggctgaatagtattctgttgtgtacacagaccacacttgctttgtcctttcctttcttgagagatatttggggtgatttcatcccttggctattgtgaatagtgccacaataaacgtgagggtggagatagcccttctctgtactgatgtc---------------gtgttcagaagcagt-ttgctacatcat-tagtagctttatttttaattttttgaggaaattttattttg-ttttctttaatgactgtactgattcacatttctaccaacagggtataagtgccccctttt--
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e canFam3.chr11             14899062   0 +  74389097 C
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e dasNov3.JH567306           2607874   0 +   3667625 C
e mm10.chr18                55497674  93 +  90702639 I

a score=34920.000000
s hg38.chr5_KI270796v1_alt     59347 3 +    172708 ctg
s panTro5.chr5             125169445 3 + 181907262 ctg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126506412 3 + 183735486 ctg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1697878 3 +   8933513 ctg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139828371 3 + 163208435 ctg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122811868 3 + 180051392 ctg
i rheMac8.chr6             C 0 I 6134
s macFas5.chr6             124235538 3 + 181584905 ctg
i macFas5.chr6             C 0 I 6
s macNem1.NW_012012355v1    16233249 3 +  18395747 ctg
i macNem1.NW_012012355v1   C 0 I 6305
s chlSab2.chr23             28347242 3 +  82825804 ctg
i chlSab2.chr23            C 0 I 6128
s manLeu1.NW_012103321v1     4011040 3 -   4237731 ctg
i manLeu1.NW_012103321v1   C 0 I 8533
s colAng1.NW_012119644v1      284675 3 -   1175262 ctg
i colAng1.NW_012119644v1   C 0 I 6257
s calJac3.chr2             123622030 3 - 204313951 ctg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55674343 3 -  71252344 ctg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1371223 3 -   1400280 ctg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13160413 3 -  42888418 ctg
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3051635 3 +   4132165 ctg
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e canFam3.chr11             14899062 0 +  74389097 C
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e cerAty1.NW_012002512v1     5244474 7111 +  26952557 I
e dasNov3.JH567306           2607874 0 +   3667625 C
e mm10.chr18                55497674 93 +  90702639 I

a score=56449.000000
s hg38.chr5_KI270796v1_alt     59350 14 +    172708 tacccttgccagca
s panTro5.chr5             125169448 14 + 181907262 catgcttgccagca
i panTro5.chr5             C 0 I 5
s panPan2.chr5             126506415 14 + 183735486 catgcttgccagca
i panPan2.chr5             C 0 I 6
s gorGor5.CYUI01015135v1     1697881 14 +   8933513 catccttgccagca
i gorGor5.CYUI01015135v1   C 0 I 3
s nomLeu3.chr2             139828374 14 + 163208435 catccttgccagca
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124235547 14 + 181584905 catccttgccagca
i macFas5.chr6             I 6 C 0
s calJac3.chr2             123622033 14 - 204313951 catccttgccagca
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55674346 14 -  71252344 catccttgccagca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1371226 14 -   1400280 catcctagccagca
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13160416 14 -  42888418 cacccttgtcagca
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3051638 14 +   4132165 caccctatacagca
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e canFam3.chr11             14899062  0 +  74389097 C
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e manLeu1.NW_012103321v1     4011043 8533 -   4237731 I
e chlSab2.chr23             28347245 6128 +  82825804 I
e cerAty1.NW_012002512v1     5244474 7111 +  26952557 I
e macNem1.NW_012012355v1    16233252 6305 +  18395747 I
e rheMac8.chr6             122811871 6134 + 180051392 I
e dasNov3.JH567306           2607874  0 +   3667625 C
e mm10.chr18                55497674 93 +  90702639 I
e colAng1.NW_012119644v1      284678 6257 -   1175262 I

a score=13381.000000
s hg38.chr5_KI270796v1_alt     59364 3 +    172708 ttt-
s panTro5.chr5             125169467 3 + 181907262 ttt-
i panTro5.chr5             I 5 C 0
s panPan2.chr5             126506435 3 + 183735486 ttt-
i panPan2.chr5             I 6 C 0
s gorGor5.CYUI01015135v1     1697898 3 +   8933513 ttt-
i gorGor5.CYUI01015135v1   I 3 C 0
s nomLeu3.chr2             139828388 2 + 163208435 -tt-
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124235561 3 + 181584905 ttt-
i macFas5.chr6             C 0 C 0
s cerAty1.NW_012002512v1     5251585 3 +  26952557 ttt-
i cerAty1.NW_012002512v1   I 7111 C 0
s colAng1.NW_012119644v1      290935 3 -   1175262 TTT-
i colAng1.NW_012119644v1   I 6257 C 0
s calJac3.chr2             123622047 3 - 204313951 ttt-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55674360 3 -  71252344 ttt-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1371240 3 -   1400280 ttt-
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13160430 3 -  42888418 ttt-
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3051652 3 +   4132165 -tta
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e canFam3.chr11             14899062 0 +  74389097 C
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e manLeu1.NW_012103321v1     4011043 8533 -   4237731 I
e chlSab2.chr23             28347245 6128 +  82825804 I
e macNem1.NW_012012355v1    16233252 6305 +  18395747 I
e rheMac8.chr6             122811871 6134 + 180051392 I
e dasNov3.JH567306           2607874 0 +   3667625 C
e mm10.chr18                55497674 93 +  90702639 I

a score=14976.000000
s hg38.chr5_KI270796v1_alt     59367 2 +    172708 tt
s panTro5.chr5             125169470 2 + 181907262 tt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126506438 2 + 183735486 tt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1697901 2 +   8933513 tt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139828390 2 + 163208435 tt
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124235564 2 + 181584905 tt
i macFas5.chr6             C 0 I 6108
s cerAty1.NW_012002512v1     5251588 2 +  26952557 tt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28353373 2 +  82825804 TT
i chlSab2.chr23            I 6128 C 0
s colAng1.NW_012119644v1      290938 2 -   1175262 TC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123622050 2 - 204313951 tt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55674363 2 -  71252344 tt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1371243 2 -   1400280 tt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13160433 2 -  42888418 tt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3051655 2 +   4132165 tt
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e canFam3.chr11             14899062 0 +  74389097 C
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e manLeu1.NW_012103321v1     4011043 8533 -   4237731 I
e macNem1.NW_012012355v1    16233252 6305 +  18395747 I
e rheMac8.chr6             122811871 6134 + 180051392 I
e dasNov3.JH567306           2607874 0 +   3667625 C
e mm10.chr18                55497674 93 +  90702639 I

a score=6695.000000
s hg38.chr5_KI270796v1_alt     59369 1 +    172708 t
s panTro5.chr5             125169472 1 + 181907262 t
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126506440 1 + 183735486 t
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1697903 1 +   8933513 t
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139828392 1 + 163208435 t
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124241674 1 + 181584905 C
i macFas5.chr6             I 6108 C 0
s cerAty1.NW_012002512v1     5251590 1 +  26952557 t
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28353375 1 +  82825804 T
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      290940 1 -   1175262 T
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123622052 1 - 204313951 t
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55674365 1 -  71252344 t
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1371245 1 -   1400280 t
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13160435 1 -  42888418 t
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3051657 1 +   4132165 t
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e canFam3.chr11             14899062 0 +  74389097 C
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e manLeu1.NW_012103321v1     4011043 8533 -   4237731 I
e macNem1.NW_012012355v1    16233252 6305 +  18395747 I
e rheMac8.chr6             122811871 6134 + 180051392 I
e dasNov3.JH567306           2607874 0 +   3667625 C
e mm10.chr18                55497674 93 +  90702639 I

a score=4880.000000
s hg38.chr5_KI270796v1_alt     59370 2 +    172708 tt-
s panTro5.chr5             125169473 2 + 181907262 tt-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126506441 2 + 183735486 tt-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1697904 2 +   8933513 tt-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139828393 2 + 163208435 tt-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122818005 1 + 180051392 -T-
i rheMac8.chr6             I 6134 C 0
s macFas5.chr6             124241675 1 + 181584905 -T-
i macFas5.chr6             C 0 C 0
s cerAty1.NW_012002512v1     5251591 1 +  26952557 -t-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28353376 1 +  82825804 -T-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4019576 1 -   4237731 -T-
i manLeu1.NW_012103321v1   I 8533 C 0
s colAng1.NW_012119644v1      290941 1 -   1175262 -T-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123622053 2 - 204313951 tt-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55674366 2 -  71252344 ct-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1371246 2 -   1400280 tt-
i cebCap1.NW_016107829v1   C 0 I 6681
s aotNan1.NW_018505940v1    13160436 2 -  42888418 tt-
i aotNan1.NW_018505940v1   C 0 I 6651
s otoGar3.GL873679           3051658 2 +   4132165 -tc
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e canFam3.chr11             14899062 0 +  74389097 C
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e macNem1.NW_012012355v1    16233252 6305 +  18395747 I
e dasNov3.JH567306           2607874 0 +   3667625 C
e mm10.chr18                55497674 93 +  90702639 I

a score=19077.000000
s hg38.chr5_KI270796v1_alt     59372 5 +    172708 ttttt
s panTro5.chr5             125169475 5 + 181907262 ttttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126506443 5 + 183735486 ttttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1697906 5 +   8933513 ttttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139828395 5 + 163208435 ttgtt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122818006 5 + 180051392 TTTTT
i rheMac8.chr6             C 0 I 1
s macFas5.chr6             124241676 5 + 181584905 TTTTT
i macFas5.chr6             C 0 I 1
s cerAty1.NW_012002512v1     5251592 5 +  26952557 ttttt
i cerAty1.NW_012002512v1   C 0 I 1
s chlSab2.chr23             28353377 5 +  82825804 TTTTT
i chlSab2.chr23            C 0 I 1
s manLeu1.NW_012103321v1     4019577 5 -   4237731 TTTTT
i manLeu1.NW_012103321v1   C 0 I 1
s colAng1.NW_012119644v1      290942 5 -   1175262 TTTTT
i colAng1.NW_012119644v1   C 0 I 1
s calJac3.chr2             123622055 3 - 204313951 -tgt-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55674368 3 -  71252344 -tgt-
i saiBol1.JH378106         C 0 C 0
s otoGar3.GL873679           3051660 5 +   4132165 ttttt
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e canFam3.chr11             14899062 0 +  74389097 C
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e macNem1.NW_012012355v1    16233252 6305 +  18395747 I
e aotNan1.NW_018505940v1    13160438 6651 -  42888418 I
e cebCap1.NW_016107829v1     1371248 6681 -   1400280 I
e dasNov3.JH567306           2607874 0 +   3667625 C
e mm10.chr18                55497674 93 +  90702639 I

a score=1125710.000000
s hg38.chr5_KI270796v1_alt     59377 200 +    172708 tgtcttattgtagtagcccttctaactttgagaacttggagtttgatgttcaaggataggaagcatccagcacaggagaaagac--aggctgagaggctaggccagtctctcttctcatgtagtaagatgatattactatctcactgtggttttgatttgcatttgcctgatga-ttaatgatgctgagca-ttttt-------atgtgtg
s panTro5.chr5             125169480 200 + 181907262 tgtcttattgtagtagcccttctaactttgagaacttggagtctgatgttcaaggataggaagcatccagcacaggagaaagac--aggctgagaggctaggccagtctctcttctcatgtagtaagatgatattactatctcactgtggttttgttttgcatttgcctgatga-ttaatgatgctgagca-ttttt-------atatgtg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126506448 200 + 183735486 tgtcttattgtagtagcccttctaactttgagaacttggagtctgatgttcaaggataggaagcatccagcacaggagaaagac--aggctgagaggctaggccagtctctcttctcatgtagtaagatgatattactatctcactgtggttttgttttgcatttgcctgatga-ttaatgatgctgagca-ttttt-------atatgtg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1697911 202 +   8933513 tgtcttatcgtagtagcccttctaactttaagaacttggagtctgatgttcaaggataggaagcatccagcacaggagaaacacataggctgagaggctaggccagtctctcttctcatgtagtaagatgatattactatttcattgtggttttgatttgcatttgcctgatga-ttaatgatgctgagca-ttttt-------atatgtg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139828400 202 + 163208435 tttcttatcgtagtagcccttctaactttgagaacttggagtctgatgttcaaggataggaagcatccagcacaggagaaagacataggctgataggctaggccagtctctcttgtcacatagtaagataatattactatctcactgtggttttgatttgcatttgcctgatgt-ttaatgatcctgagca-ttttt-------atatgtg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122818012 203 + 180051392 TGTCTTATCATAGTAGCCCTTCTAACTtggagaacttcaagtccgatg-tcaaggatatgtagcattcagcacaggagtaagacgtaggctgggaggctaggccagtctctcttctcacatAGTAAAATGATATTACtatttcactgtaattttgatttgcatttgcctgatga-ttaatgacgttgagca-tttttt-----tatttgtg
i rheMac8.chr6             I 1 C 0
s macFas5.chr6             124241682 203 + 181584905 TGTCTTATCATAGTAGCCCTTCTAACTtggagaacttcaagtccgatg-tcaaggatatgtagcattcagcacaggagtaagacgtaggctgggaggctaggccagtctctcttctcacatAGTAAAATGATATTACtatttcactgtaattttgatttgcatttgcctgatga-ttaatgacgttgagca-tttttt-----tatttgtg
i macFas5.chr6             I 1 C 0
s macNem1.NW_012012355v1    16239557 203 +  18395747 TGTCTTATCATAGTAGCCCTTCTAACTtggagaacttcaagtccgatg-tcaaggatatgtagcattcagcacaggagaaagacgtaggctgggaggctaggccagtctctcttctcacatAGTAAAATGATATTACtatttcactgtagttttgattttcatttgcctgatga-ttaatgacgttgagca-tttttt-----tatttgtg
i macNem1.NW_012012355v1   I 6305 C 0
s cerAty1.NW_012002512v1     5251598 204 +  26952557 TGTCTTATCATAGTAGCCCTTCTAACTtggagaacttcgagtccgatgttcaaggatatgaagcattcagcacaggagaaagacgtaggctgggaagctaggccagtctctcttctcacatAgtaaaatgatattaccatttcactgtagttttgatttgcatttgcctgatga-ttaatgacgttgagca-ttttta-----aatatgtg
i cerAty1.NW_012002512v1   I 1 C 0
s chlSab2.chr23             28353383 204 +  82825804 TGTCTTATCATAGTAGCCCTTCTAACTtggagaacttcgagtccgatgttcaaggatattacgcattcagcacaggagaaagacgtaggctgggaagctaggccagtctctcttctcacatAGTAAAATGATATTACtatctcactgtagttttgatttgcatttgcctgatga-ttaatgacgttgagca-tttttt-----tatatgtg
i chlSab2.chr23            I 1 C 0
s manLeu1.NW_012103321v1     4019583 203 -   4237731 TATCTTATTATAGTAGCCCTTCTAACTtggagaacttcaagtccgatg-tcaaggatatatagcattcagcacaggagaaagacgtaggctgggaggctaggccagtctctcttctcacatAGTAAAATGATATTACtatttcactgtagttttgatttgcatttgcctgatga-ttaatgacgttgagca-tttttt-----tatttgtg
i manLeu1.NW_012103321v1   I 1 C 0
s colAng1.NW_012119644v1      290948 205 -   1175262 TGTCTTATCGTAGTAGCCCTTCTAACTtggagaacttcgagtctgatgttcaaggatatgaagcattcagcacaggagaaatacgtaggctgagaggctaggccagtctctcttctcacatAGTAAAATGATATTACtatctcactgtagttttgatttgcatttgcctgatga-ttaatgatgttgagcattttttt-----tatatgtg
i colAng1.NW_012119644v1   I 1 C 0
s calJac3.chr2             123622058 112 - 204313951 --tcttatcataatagccattctaactt--------------------------------------------------------------------------------------------taggaagatgatattactatttcatcgtggttttgatttgcatttgcctgatgatttagtcatgtacggca-ttttgt----aaatatgtg
i calJac3.chr2             C 0 I 6864
s saiBol1.JH378106          55674371 112 -  71252344 --tcttatcataacagcccttctaactt--------------------------------------------------------------------------------------------taggaagatgacattactatttcattgtggttttgatttggatttgtctgataatttagtgatgttcagca-ttttat----aaatatgtg
i saiBol1.JH378106         C 0 C 0
s otoGar3.GL873679           3051665 106 +   4132165 --------gataatagccattcaggtcaggtgaact-----------------------------------------------------------------------------------------agatgatag----atttcgtcgtgactttaacttgaattttcctgatga-taggtgacgttgagca-tttcgttaaaaaaattg--
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e canFam3.chr11             14899062   0 +  74389097 C
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e aotNan1.NW_018505940v1    13160438 6651 -  42888418 I
e cebCap1.NW_016107829v1     1371248 6681 -   1400280 I
e dasNov3.JH567306           2607874   0 +   3667625 C
e mm10.chr18                55497674  93 +  90702639 I

a score=182057.000000
s hg38.chr5_KI270796v1_alt     59577 19 +    172708 ctggcctttt-----tattcttct
s panTro5.chr5             125169680 19 + 181907262 ctggcctttt-----tattcttct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126506648 19 + 183735486 ctcgcctttt-----tattcttct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1698113 19 +   8933513 ctggcctttt-----tattcttct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139828602 19 + 163208435 ctggcctttt-----tattcttct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122818215 19 + 180051392 ctggcctttt-----tatccctct
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124241885 19 + 181584905 ctggcctttt-----tatccctct
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16239760 19 +  18395747 ctggcctttt-----tatccctct
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5251802 19 +  26952557 ctggcctttt-----tattcttct
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28353587 19 +  82825804 ctggcctttt-----tattcttct
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4019786 19 -   4237731 ctggcctttt-----tatccttct
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      291153 16 -   1175262 ctggcatttt-----tat---tct
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123629034 19 - 204313951 Ctggcctttt-----tattcttcc
i calJac3.chr2             I 6864 C 0
s saiBol1.JH378106          55674483 19 -  71252344 ctggcctttt-----tattctttt
i saiBol1.JH378106         C 0 I 6092
s cebCap1.NW_016107829v1     1377929 19 -   1400280 CTGGCCTTTT-----TAttcttcc
i cebCap1.NW_016107829v1   I 6681 C 0
s aotNan1.NW_018505940v1    13167089 19 -  42888418 Ctggcatttt-----tattcttcc
i aotNan1.NW_018505940v1   I 6651 C 0
s otoGar3.GL873679           3051771 24 +   4132165 ttggctatctgtatgttttcttct
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e canFam3.chr11             14899062  0 +  74389097 C
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e dasNov3.JH567306           2607874  0 +   3667625 C
e mm10.chr18                55497674 93 +  90702639 I

a score=2835152.000000
s hg38.chr5_KI270796v1_alt     59596 315 +    172708 gagaaatttctattcagatcatttgcccattttt---ag--------a-----------------ttagttgtttcagttccttatatattttggatattaacccctaattagatgtatgacttcgaagtattt--tttcccattctgtaggttgtcttttcactctgttgattactatttttgctgtgcagaagc-tttttagtttgatgtaatcccatttgtctatgtttgcttttgttgcctgtgcttttgaagttgtat--ccaagaaatccttttccagtcccatatcacaaagtgtttcctctgtgttttcttccagtagcttctagcagttgtagtttcag
s panTro5.chr5             125169699 315 + 181907262 gagaaatttctattcagatcatttgcccattttt---ag--------a-----------------ttagttgtttcagttccttatatattttggatattaacccctaattagatgtatgacttcgaagtattt--tttcccattctgtaggttgtcttttcactctgttgattactatttttgctgtgcagaagc-tttttagtttgatgtaatcccatttgtctatgtttgcttttgttgcctgtgcttttgaagttgtat--ccaagaaatccttttccagtcccatatcacaaagtgtttcctctgtgttttcttccagtagcttctagcagttgtagtttcag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126506667 315 + 183735486 gagaaatttctattcagatcatttgcccattttt---ag--------a-----------------ttagttgtttcagttccttatatattttggatattaacccctaattagatgtatgacttcgaagtattt--tttcccattctgtaggttgtcttttcactctgttgattactatttttgctgtgcagaagc-tttttagtttgatgtaatcccatttgtctatgtttgcttttgttgcctgtgcttttgaagttgtat--ccaagaaatccttttccagtcccatatcacaaagtgtttcctctgtgttttcttccagtagcttctagcagttgtagtttcag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1698132 314 +   8933513 gagaaatttctattcagatcatttgcccattttt---ag--------a-----------------ttagttgtttcagttccttatatattttggatattaa-ccctaaatagatgtatgacttggaagtattt--tttcccattctgtaggttgtcttttcactctgttgattactatttttgctgtgcagaagc-tttttagtttgatgtaatcccatttgtctatatttgcttttgttgcctgtgcttttgaagttgtat--ctaagaaatccttttccagtcccatatcacaaagtgtttcctctgtgttttcttccagtagcttctagcagttgtagtttcag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139828621 312 + 163208435 gagaaatttctattcagatcatttgcccattttt---aaattagatta-----------------ttagttgtttcatttccttatatattttggatattaacccctaattagatgtatgacttggaagtattt--tttctcattctgtaggttgtcttttcactctgttgattactatttttgctgtgcagaagc-cttttagtttgatgtaatcccatttgtctatatttgcttttgttgcctgtgcttttgaagttgtat--ccaagaaatccttttccagtctcatatcacaga-----------gtgttttcttttagtagcttctagcagttgtagtttcag
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122818234 323 + 180051392 gagaaatttctattcagatcacttacccattttt---aaattagatta-----------------ttagttgtttcagttccttatatattttggatattaacccctgattagatgtatgggttggaagtattt--tttcccgttctgtaggttgtctgttcactctgttggttgctatttttgctgtgcagacgc-cttttagttttatgtaatcccatttgtctatatttgcttttgttgcctgtgcttttgaagttgtat--ctaagaaatcctttcccagtccaatatcatgaagtgtttcctctgtgttttcttctagtagtttctagtagttgtagttttgg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124241904 323 + 181584905 gagaaatttctattcagatcacttacccattttt---aaattagatta-----------------ttagttgtttcagttccttatatattttggatattaacccctgattagatgtatgggttggaagtattt--tttcccgttctgtaggttgtctgttcactctgttggttgctatttttgctgtgcagacgc-cttttagttttatgtaatcccatttgtctatatttgcttttgttgcctgtgcttttgaagttgtat--ctaagaaatcctttcccagtccaatatcatgaagtgtttcctctgtgttttcttctagtagtttctagtagttgtagttttgg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16239779 323 +  18395747 gagaaatttctattcagatcacttacccattttt---aaattagatta-----------------ttagttgtttcagttccttatatattttggatattaacccctgattagatgtatgggttggaagtattt--tttcccgttctgtaggttgtctgttcactctgttgattgctatttttgctgtgcagatgc-cttttagttttatgtaatcccatttgtctatatttgcttttgttgcctgtgcttttgaagttgtat--ctaggaaatcctttcccagtccaatatcatgaagtgtttcctctgtgttttcttctagtagtttctagtagttgtagttttgg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5251821 323 +  26952557 gagaaatttctattcagatcatttacccattttt---aaattagatta-----------------ttagttgtttctgttccttatatattttggatattaacccctgattagatgtatgggttggaagtattt--tttcccgttctgtaggttgtctgttcactctgttgattgctatttttgctgtgcagacgc-tttttagttttatgtaatcccatttgtctatatttgcttttgttgcctgtgcttttgaagttgtat--ctaagaaatcctttcccagtccaatatcacgaagtgtttcctctgtgttttattctagtagtttctagtagttgtagttttgg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28353606 323 +  82825804 gagaaatttctattcagatcatttacccattttt---aaattagatta-----------------ttagttgtttctgttccttatatattttggatattaacccctgattagatgtatgggttggaagtattt--tttcccgttctgtaggttgtctgttcactctgttgattgctatttttgctgtgcagacgc-tttttagttttatgtaatcccacttgtctatatttgcttttgttgcctgtgcttttgaagttgtat--ctaagaaatcctttcccagtccaatatcacgaagtgtttcctctgtgttttcttctagtagtttctagtagttgtagttttgg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4019805 323 -   4237731 gagaaatttctattcagatcacttacccattttt---aaattagatta-----------------ttagttgtttcagttccttatatattttggatattaacccctgattagatgtatgggttggaagtattt--tttcccgttctgtaggttgtctgttcactctgttgattgctgtttttgctgtgcagatgc-cttttagttttatgtaatcccatttgtctatatttgcttttgttgactgtgcttttgaagttgtat--ctaagaaatcctttcccagtccaatatcatgaagtgtttcctctgtgttttcttctagtagtttctagtagttgtagttttgg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      291169 323 -   1175262 gagaaatttctattcagatcatttacccattttt---aaattagatta-----------------ttagttttttcagttccttatatattttggatattaacccctgattagatgtatgggttggaagtattt--tttcccgttctgtaggttgtctgttcactctgttgattgctatttttgctgtgcagacgc-tttttagttttatgtaatcccatttgtctatatttgcttttgttgcctgtgcttttgaagttgtat--ttaagaaatcctttcccagtccaatatcacgaagtgtttcctctgtgttttcttctagtagtttctagtagttatagttttgg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123629053 323 - 204313951 aaaaaatttctgttcagattatttatccattttt---aaattagattg-----------------ttagttgtttcaattccttatatattttggatattaacacctaattatatatatggtttgcaagtattttctttcccattctgtagattgtctcttcactctgttgattgctattttttctgtgcacatgc-tttttagttttatgtaatcctatatgtctatatttacttttgttgcctgtgcttttgaagttgtat--ccaagaaattctttcccagtccaataccataaaatgtttcccctgggttttcttctagtagcttcTA--AGTAGTTGTTTTAT
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1377948 323 -   1400280 aagaaatttctgttgagattatttatccattttt---aaattagattg-----------------ttagttgtttcagttccttatatattttggatattaacagctaattagatgtatggtgtggaagtctattctttcccattctgtagattgtctcttcactctgttgattgctgttttctctgtgcacatgc-tttttagtttgatgtaatcctatttgtctatatttacttttgttgcctgtgcttttcaagttgtat--ccaagaaatcctttcccagtccaatatcataaaatgtttcccctggtttttcttctagtaccttcTA--AGTAGTTGTTTTGT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13167108 323 -  42888418 aagaaatttctgttcagattatttatccattttt---aaattagattg-----------------ttagttgtttcagttccttatatattttggatattaacagctaattagatgtatggtttggaagtattttctttcccattctgtagattgtctcttcactctgttgattgctattttttctgtgcacatgc-tttttagtttgatgtaatcctatttgtgtatagttacttttgttgcctgtgcttttgaagttgtat--ccaagaaatcctttcccagtccaatatcgtaaaatatttcccctgggttttcttctagtagcttcTA--AGTAGTTGTTTTGT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3051795 316 +   4132165 gagaaacgactgttcaggtctttggtccttgtttgaaaaattggattatatgttttgggggctactgagttatgtgagttccttgtatattct-gatactaatcctttgtcagatgcatcgtttgcaaatcttt--tctcccattctgtaggttgtcccttcactctagtaattggtttctttgctgtatggaggcttttttaggttgacgtaa--ccatttgtctatgttcacttttgttgctcgtgcttttaaagtcttatgccaaagaaatcctttctagctccaatgtcaagaagcacttcctctatgttttcttTC---------------------------
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e canFam3.chr11             14899062   0 +  74389097 C
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e dasNov3.JH567306           2607874   0 +   3667625 C
e mm10.chr18                55497674  93 +  90702639 I
e saiBol1.JH378106          55674502 6092 -  71252344 I

a score=42198.000000
s hg38.chr5_KI270796v1_alt     59911 5 +    172708 ttctt
s panTro5.chr5             125170014 5 + 181907262 ttctt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126506982 5 + 183735486 ttctt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1698446 5 +   8933513 ttctt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139828933 5 + 163208435 ttctt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122818557 5 + 180051392 ttctt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124242227 5 + 181584905 ttctt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16240102 5 +  18395747 ttctt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5252144 5 +  26952557 ttctt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28353929 5 +  82825804 ttctt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4020128 5 -   4237731 ttctt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      291492 5 -   1175262 ttctt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123629376 5 - 204313951 TATTT
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1378271 5 -   1400280 TATTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13167431 5 -  42888418 TATTT
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2607874 5 +   3667625 TTCTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e canFam3.chr11             14899062 0 +  74389097 C
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e otoGar3.GL873679           3052111 0 +   4132165 C
e mm10.chr18                55497674 93 +  90702639 I
e saiBol1.JH378106          55674502 6092 -  71252344 I

a score=25976.000000
s hg38.chr5_KI270796v1_alt     59916 2 +    172708 TC
s panTro5.chr5             125170019 2 + 181907262 TC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126506987 2 + 183735486 TC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1698451 2 +   8933513 TC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139828938 2 + 163208435 TC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122818562 2 + 180051392 TC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124242232 2 + 181584905 TC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16240107 2 +  18395747 TC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5252149 2 +  26952557 TC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28353934 2 +  82825804 TC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4020133 2 -   4237731 TC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      291497 2 -   1175262 TC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123629381 2 - 204313951 TC
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1378276 2 -   1400280 TC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13167436 2 -  42888418 TC
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14899062 2 +  74389097 TC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2607879 2 +   3667625 TC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e proCoq1.NW_012155062v1     3564068 1299 +  11683526 I
e otoGar3.GL873679           3052111 0 +   4132165 C
e mm10.chr18                55497674 93 +  90702639 I
e saiBol1.JH378106          55674502 6092 -  71252344 I

a score=117871.000000
s hg38.chr5_KI270796v1_alt     59918 10 +    172708 TCACTGTCCT
s panTro5.chr5             125170021 10 + 181907262 TCACTGTCCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126506989 10 + 183735486 TCACTGTCCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1698453 10 +   8933513 TCACTGTCCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139828940 10 + 163208435 TCACTGTCCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122818564 10 + 180051392 TCACTCTCCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124242234 10 + 181584905 TCACTCTCCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16240109 10 +  18395747 TCACTCTCCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5252151 10 +  26952557 TCACTGTCCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28353936 10 +  82825804 TCACTGTCCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4020135 10 -   4237731 TCACTCTCCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      291499 10 -   1175262 TCACTGTCCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123629383 10 - 204313951 TCACTCTCCT
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1378278 10 -   1400280 TCACTCTCCT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13167438 10 -  42888418 TCACTCTCCT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3565367 10 +  11683526 TCACTGTCCC
i proCoq1.NW_012155062v1   I 1299 C 0
s otoGar3.GL873679           3052111 10 +   4132165 TCACTATCTC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14899064  9 +  74389097 TCACCGCCC-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2607881 10 +   3667625 TCACGGTCCC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e mm10.chr18                55497674 93 +  90702639 I
e saiBol1.JH378106          55674502 6092 -  71252344 I

a score=528171.000000
s hg38.chr5_KI270796v1_alt     59928 46 +    172708 CATTATCAAGTTGGCCTTAACCATGGCAAAAAGCTAGTAATTTATC
s panTro5.chr5             125170031 46 + 181907262 CATTATCAAGTTGGCCTTAACCATGGCAAAAAGCTAGTAATTTATC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126506999 46 + 183735486 CATTATCAAGTTGGCCTTAACCATGGCAAAAATCTAGTAATTTATC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1698463 46 +   8933513 CATTATCAAGTTGGCCTTAACCATGGCAAAAAGCTAGGAATTTATC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139828950 43 + 163208435 CATTATCAAGTTGGCCTTAACCATGGCAAAAAGTT---AATTTATC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122818574 45 + 180051392 CATTATCAAGTTGGCCTTAACCATGG-AAAAAGCTAGTAATTTATC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124242244 45 + 181584905 CATTATCAAGTTGGCCTTAACCATGG-AAAAAGCTAGTAATTTATC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16240119 45 +  18395747 CATTATCAAGTTGGCCTTAACCATGG-AAAAAGCTAGTAATTTATC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5252161 45 +  26952557 CATTATCAAGTTGGCCTTAACCATGG-AAAAAGCTAGTAATTTATC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28353946 45 +  82825804 CATTATCAAGCTGGCCTTAACCATGG-AAAAAGCTAGTAATTTATC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4020145 45 -   4237731 CATTATCAAGTTGGCCTTAACCATGG-AAAAAGCTAGTAATTTATC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      291509 45 -   1175262 CATTATCAAGTTGGCCTTAACCATGG-AAAAAGCTAGTAATTTATC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123629393 46 - 204313951 CATTATCAAGTTGAGCTTAACCATGACAAAAAGCTAGTAATTTATC
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1378288 46 -   1400280 CATTATCAAGTTGAGCTTAACCATGGCAAAAAGCTAGTAATTTATC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13167448 46 -  42888418 CATTATCAAGTTGAGCTTAACCATGGCAAAAAGCTAGTAATTTATC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3565377 46 +  11683526 TCTTATTAAGTTGGGCTTTACCATGGCAAAATTCTAGTAATTTATC
i proCoq1.NW_012155062v1   C 0 I 23
s otoGar3.GL873679           3052121 32 +   4132165 T--------------ATTTACAGTGGAAAAATTCAAGTACTTTACC
i otoGar3.GL873679         C 0 I 4
s mm10.chr18                55497767 45 +  90702639 CATTGTCAGATTGAG-TTCGTCAAGGTCAAAAGCAAGCTATTTGTC
i mm10.chr18               I 93 C 0
s canFam3.chr11             14899073 45 +  74389097 -ATCATCAAGTTAGGCTTTACCAAGGCCAAAACCTAGTACTGTCTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2607891 46 +   3667625 CATCATCAAGCAGGGCTTAACCAAGGCAGAAAGCTAGTAATTTATC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e saiBol1.JH378106          55674502 6092 -  71252344 I

a score=160419.000000
s hg38.chr5_KI270796v1_alt     59974 20 +    172708 TCTTGCCTGCCAATACTTTG---
s panTro5.chr5             125170077 20 + 181907262 TCTTGCCTGCCAATGCTTTC---
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126507045 20 + 183735486 TCTTGCCTGCCAATGCTTTC---
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1698509 20 +   8933513 TCTTGCCTGCCAATACTTTC---
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139828993 20 + 163208435 TCTTGCCTGCCAATACCTTC---
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122818619 20 + 180051392 TCTTGCTTGCCAACACCTTC---
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124242289 20 + 181584905 TCTTGCTTGCCAACACCTTC---
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16240164 20 +  18395747 TCTTGCTTGCCAACACCTTC---
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5252206 20 +  26952557 TCTTGCTTGCCAAGACTTTC---
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28353991 20 +  82825804 TCTTGCTTGCCAACACTTTC---
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4020190 20 -   4237731 TCTTGCTTGCCAACACCTTC---
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      291554 20 -   1175262 TCTTGCTTGCCAACACCTTC---
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123629439 20 - 204313951 TGTTGCCTGCCAACATCTTC---
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1378334 20 -   1400280 TGTTGCCTGCCAGCATCTTC---
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13167494 20 -  42888418 TTTTGCCTGCCAACATCTTC---
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3052157 20 +   4132165 TCCCTCATTTTAACACCTTC---
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55497812 18 +  90702639 --CTGGCCCACGGTGCGTCC---
i mm10.chr18               C 0 I 3
s canFam3.chr11             14899118 11 +  74389097 TCTTCCCCGCC------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2607937 23 +   3667625 TCTTCCCTGCCCACAATAGCATC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60524929 1408 + 108143057 I
e proCoq1.NW_012155062v1     3565423 23 +  11683526 I
e saiBol1.JH378106          55674502 6092 -  71252344 I

a score=15561.000000
s hg38.chr5_KI270796v1_alt     59994 1 +    172708 A
s panTro5.chr5             125170097 1 + 181907262 A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126507065 1 + 183735486 A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1698529 1 +   8933513 A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139829013 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122818639 1 + 180051392 A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124242309 1 + 181584905 A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16240184 1 +  18395747 A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5252226 1 +  26952557 A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28354011 1 +  82825804 A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4020210 1 -   4237731 A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      291574 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123629459 1 - 204313951 A
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1378354 1 -   1400280 A
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13167514 1 -  42888418 A
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60526337 1 + 108143057 A
i micMur3.chr12            I 1408 C 0
s otoGar3.GL873679           3052177 1 +   4132165 A
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55497833 1 +  90702639 A
i mm10.chr18               I 3 C 0
s dasNov3.JH567306           2607960 1 +   3667625 A
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14899129 0 +  74389097 C
e proCoq1.NW_012155062v1     3565423 23 +  11683526 I
e saiBol1.JH378106          55674502 6092 -  71252344 I

a score=2539843.000000
s hg38.chr5_KI270796v1_alt     59995 196 +    172708 CCATTTCTCTCCA-TGGCATCTTTGCACCTTAACCACATTGAAGGCT----------------------------TGCTTAGACTTCTCAAGTTCAGTGTTTTACCATCTTGGAAATTAGAATATGGTAAGACCAATGGAAAC---TTTTTTT------GTGAAATATCA-----ATTACCATACATATATGAGGTATTATCATGCAGTAAGCATGCTGAAACCTCACTCAG-----------AATTCAA--------------
s panTro5.chr5             125170098 196 + 181907262 CCATTTCTCTCCA-TGGCATCTTTGCACCTTAACCACATTGAAGGCT----------------------------TGCTTAGACTTCTCAAGTTCAGTGTTTTACCATCTTGGAAATTAGAATATGGTAAGACCAATGGAAAC---TTTTTTT------GTGAAATATCA-----ATTACCATACACATATGAGGTATTATCATGCAGTAAGCATGCTGAAACCTCACTCAG-----------AATTCAA--------------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126507066 196 + 183735486 CCATTTCTCTCCA-TGGCATCTTTGCACCTTAACCACATTGAAGGCT----------------------------TGCTTAGACTTCTCAAGTTCAGTGTTTTACCATCTTGGAAATTAGAATATGGTAAGACCAATGGAAAC---TTTTTTT------GTGAAATATCA-----ATTACCATACACATATGAGGTATTATCATGCAGTAAGCATGCTGAAACCTCACTCAG-----------AATTCAA--------------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1698530 196 +   8933513 CCATTTCTCTCCA-TGGCATCTTTGCACCTTAACCACATTGAAGGCT----------------------------TGCTTAGACTTCTCAAGTTCAGTGTTTTACCATCTTGGAAATTAGAATATGGTAAGACCAATGGAAAC---TTTTTTT------GTGAAATATCA-----ATTACCATACATATATGAGGTATTATCAGGCAGTAAGCATGCTGAAACCTCACTCAG-----------AATTCAA--------------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139829014 197 + 163208435 CCATTTCTCTCCA-CGGCATCTTTGCACCCTAACCACATTGAAGGCT----------------------------TGCTCAGACTTCTCAAGTTCAGTGTTTTACCATCTTGGAAATTAGAATATGGTAAGACCAGTGGAAAA---GTTTTTT-----AGTGAAATATCA-----ATTACCATACAAATATGAGGTATTGTCATGCAGTAAGCATGCTGAAACCTCACTCAG-----------AATTCAA--------------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122818640 197 + 180051392 CCATTTCTCTCCA-GGGCATCCTCGCCCCTTAACCACATTGAAGCCT----------------------------TGCTCAAACTTCTCAAGTTCAGTGTTTTACCATCTTGGAAATTAGAATATGGTAAGGCCAGTGGAAAA---GTTTTTT-----AGTGAAGTATCA-----ATTACCATACAAATATGAGGTATAATCACACAGAAAGCGTGCTGAAACCTCACTCAG-----------AATTCAA--------------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124242310 197 + 181584905 CCATTTCTCTCCA-GGGCATCCTCGCCCCTTAACCACATTGAAGCCT----------------------------TGCTCAAACTTCTCAAGTTCAGTGTTTTACCATCTTGGAAATTAGAATATGGTAAGGCCAGTGGAAAA---GTTTTTT-----AGTGAAGTATCA-----ATTACCATACAAATATGAGGTATAATCACACAGAAAGCATGCTGAAACCTCACTCAG-----------AATTCAA--------------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16240185 196 +  18395747 CCATTTCTCTCCA-GGGCATCCTCGCCCCTTAACCACATTGAAGCCT----------------------------TGCTCAAACTTCTCAAGTTCAGTG-TTTACCATCTTGGAAATTAGAATATGGTAAGGCCAGTGGAAAA---GTTTTTT-----AGTGAAGTATCA-----ATTACCATACAAATATGAGGTATAATCACACAGAACGTGTGCTGAAACCTCACTCAG-----------AATTCAA--------------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5252227 197 +  26952557 CCATTTCTCTCCA-GGGCATCCTTGCCCCTTAACCACATTGAAGCCT----------------------------TGCTCAAACTTCTCAAGTTCAGTATTTTACCATCTTGGAAATTAGAATACGGTAAGGCCAGTGGAAAA---GTTTTTT-----AGTGAAGTATCA-----ATTACCATACAAATATGAGGTATAATCACACAGAAAGCATGCTGAAACCTCACTCAG-----------AATTCAA--------------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28354012 197 +  82825804 CCATTTCTCTCCA-GGGCATCCTTGCCCCTTAACCACATTGAAGCCT----------------------------TGCTCAAACTTCTCAAGTTCAGTGTTTTACCATCTTGGAAATTAGAATACGGTAAGGCCAGTGGAAAA---GTTTTTT-----AGTGAAGTATCA-----ATTACCATACAAATATGAGGTATAATCATACAGAAAGCATGCTGAAACCTCACTCAG-----------AATTCAA--------------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4020211 197 -   4237731 CCATTTCTCTCCA-GGGCATCCTCGCCCCTTAACCACATTGAAGCCT----------------------------TGCTCAAACTTCTCAAGTTCAGTGTTTTACCATCTTGGAAATTAGAATACGGTAAGGCCAGTGGAAAA---GTTTTTT-----AGTGAAGTATCA-----ATTACCATACAAATATGAGGTATAATCACACAGAAAGCATGCTGAAACCTCACTCAG-----------AATTCAA--------------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      291575 197 -   1175262 CCATTTCTCTCCA-GGGCATCCTTACCCCTTAACCACATTGAAGCCT----------------------------TGCTCAAACTTCTCAAGTTCAGTGTTTTACCATCTTGGAAATTAGAATATGGTAAGGCCAGTGGAAAA---GTTTTTT-----AGTGAAGTATCA-----ATTACCATACAAATATGAGGTATAATCACACAGAAAGCATGCTGAAACTTCACTCAG-----------AATTCAA--------------
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123629460 197 - 204313951 CCATTTCTCTCCA-TGGCATCCTCGCACCTTAACCACATTTAAGTCT----------------------------TGCTCAAAATTCTCAAGTTCAATGTCTTACCATCTTGAAAACTAAAATGCGATAAGGCCAATTGAAAA---GTTTTTT-----AGTGAAATACGA-----ATTACCATACAAATATGAGGTATCATCATGCAGTAAGCATGCCAAAACCTCACTCAG-----------AGTTTGA--------------
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1378355 196 -   1400280 CCATTTCTCTCCA-TGGCATCCTTGTACCTTAACCACATTTAAGTCT----------------------------TGCTCAAAATTCTCAAGTTCGGTGTCTTACCATCTTGGAAACTAGAATGCAATAAAGCCAATGGAAAA---GTTTTTT-----AGTGAAATACTG-----ATTACCATAC-AATATGAGGTATCATCATGCAGTAAGCATGCCAAAACCTCACTCAG-----------AGTTTGA--------------
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13167515 197 -  42888418 CCATTTCTCTCCG-TGGCATCCTTGCATCTTAACCACATTTAAGTCT----------------------------TGCTCAAAATTCTCAAGTTCAATGTCTTACCATCTTGGAAATTATAATGCAATAAGGCCAATTGTAAA---GTTTTTT-----AGTGAAATACTA-----ATTACCATACAAATATGATGTATCATCGTGCAGTAAGCATGCCAAAACCTCACTCAG-----------AGTTTGA--------------
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60526338 199 + 108143057 CCATTTCTCTCCA-TGGCATCTTTGCACCATGACCACATTTAAGTCT----------------------------TGCTGAAGGTTCTCAAGTTCAGTATTTTATCATCTTGGAAATTAGGATATGATAAGGCTAATGGAAAA---TATTTTT---TGTGTGAAATATGA-----ATTACTATACAAATATGAGGTATTACTATGTAGTAAGAATGCCAAAATATCACTCAG-----------AATTTAG--------------
i micMur3.chr12            C 0 I 17
s proCoq1.NW_012155062v1     3565446 203 +  11683526 CCATTTCTCTCCATTGGCACCTTTGCACCATGACCACATTTAAGTCT----------------------------TGCTGAAGATTCTCAAGTTCAGTATTTTATCATCTTTTAAATTAGGATATGATAAGGCCAATGGAAAA---GATTTTTTTGTGTGTGAAATATGA-----ATTATCATACAAATATGAGGTATTACCATGTAGTAAGCATGCCAAAATATCACCCAG-----------AATTTAG--------------
i proCoq1.NW_012155062v1   I 23 I 17
s otoGar3.GL873679           3052178 221 +   4132165 TCCTTTCTCTCCA-TGGCATCTTTGCCCTGTGTGGACACTTAAGTCTATTGTTCTCAACAAGTTCTCAACTTGAGAACTTAAGGTTCTCAAGTTCTGTATTTTATTATCTTGGAAATTAGAATGCGATAAGGCCAATGGAAA-------TTTTATTTGTGTG-----TGA-----ATTACCATACACTTATGAGATCTTACCATGCAGTAAGCATGCCAAATTATCACCCAG-----------AATTTAG--------------
i otoGar3.GL873679         C 0 I 12
s mm10.chr18                55497834 204 +  90702639 CCCCTGCCTTCCA-TTA---TCTTGCACCTTAACCACAAT-ACGTTT----------------------------TGCTTAAGTTTTTCAAGGTCTATCTTGTATCACGTTGGAAATT---ATATAATTAGGCCAACTGAAGG---AATTTTT-------CGAACCATCATATATGTTACCATACAAATATGAGGTTCTGTCAGGCAAGAAACATGCTACAATTCTACCTAGCTAACATTTAAAATTTAA--------------
i mm10.chr18               C 0 I 48
s canFam3.chr11             14899129 194 +  74389097 -CCTTTCTCTCGA-TGGCATACTTGCACCATGATCATATT-AAGTCT----------------------------CCCTCAAGATTCTCAAGTTCGGTATTGGATTGTTTTGGAAATGAAAATATGATAAAGCCATTGTTAAAGGGGCTTTTT-----TGTGCAATATGA-----GTTAGCATG-AAATATGAG---TTAGTGTGCAGTGAGCATAGAAGAATCTCACCTAG-----------AATTTCA--------------
i canFam3.chr11            C 0 I 14
s dasNov3.JH567306           2607961 209 +   3667625 CCATTTCTCTCCA-TGGCATCCTGGCAACTTGACCACTTT-AAGTCC----------------------------TATTCAAGATTCTCAAGTTTGGCATTTTATCATCTTGGAAATTAGAATATCCTAAGGTCTTTGGAAAA---GCTTTTG------GTGAAAAATAA-----ATTACCATACAAATATGAAATATTTCAGTGCTGTAAGCATGCCAATATCTAATCCAG-----------AATTTAACTCTGACAATTCTA
i dasNov3.JH567306         C 0 C 0
e saiBol1.JH378106          55674502 6092 -  71252344 I

a score=81899.000000
s hg38.chr5_KI270796v1_alt     60191 7 +    172708 ACATGGT
s panTro5.chr5             125170294 7 + 181907262 ACATGGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126507262 7 + 183735486 ACATGGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1698726 7 +   8933513 ACATGGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139829211 7 + 163208435 ACATGGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122818837 7 + 180051392 ACATGGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124242507 7 + 181584905 ACATGGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16240381 7 +  18395747 ACATGGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5252424 7 +  26952557 ACATGGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28354209 7 +  82825804 ACATGGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4020408 7 -   4237731 ACATGGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      291772 7 -   1175262 ACGTGGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123629657 6 - 204313951 A-ATGGT
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1378551 7 -   1400280 ACATGGT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13167712 7 -  42888418 ACATGGT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3052411 7 +   4132165 AAATACT
i otoGar3.GL873679         I 12 C 0
s mm10.chr18                55498086 7 +  90702639 acatgag
i mm10.chr18               I 48 C 0
s canFam3.chr11             14899337 7 +  74389097 ATATGGT
i canFam3.chr11            I 14 C 0
s dasNov3.JH567306           2608170 7 +   3667625 ATATGGT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60526537 17 + 108143057 I
e proCoq1.NW_012155062v1     3565649 17 +  11683526 I
e saiBol1.JH378106          55674502 6092 -  71252344 I

a score=133297.000000
s hg38.chr5_KI270796v1_alt     60198 11 +    172708 CTCTTCTTCGG
s panTro5.chr5             125170301 11 + 181907262 CTCTTCTTCGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126507269 11 + 183735486 CTCTTCTTCGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1698733 11 +   8933513 CTCTTCTTCGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139829218 11 + 163208435 CTCCTCTTCGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122818844 11 + 180051392 CTCTTCCCCAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124242514 11 + 181584905 CTCTTCCCCAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16240388 11 +  18395747 CTCTTCCTCAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5252431 11 +  26952557 CTCTTCCTCAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28354216 11 +  82825804 CTCTTCCTCAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4020415 11 -   4237731 CTCTTCCTCAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      291779 11 -   1175262 CTCTTCCTCAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123629663 11 - 204313951 TTCTTCCTCAG
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1378558 11 -   1400280 CTCTTCCTCAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13167719 11 -  42888418 CTCTTCCTCAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60526554 11 + 108143057 CTCTTCTGTAG
i micMur3.chr12            I 17 C 0
s proCoq1.NW_012155062v1     3565666 11 +  11683526 CTCTTCTGTAG
i proCoq1.NW_012155062v1   I 17 C 0
s otoGar3.GL873679           3052418 10 +   4132165 CTCTTATA-AG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55498093 11 +  90702639 ctcaatttctg
i mm10.chr18               C 0 I 167
s canFam3.chr11             14899344 11 +  74389097 CTCTTCTGCAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2608177 11 +   3667625 CTCATCCACAG
i dasNov3.JH567306         C 0 C 0
e saiBol1.JH378106          55674502 6092 -  71252344 I

a score=247259.000000
s hg38.chr5_KI270796v1_alt     60209 17 +    172708 GCATAAGAACAACGTAG
s panTro5.chr5             125170312 17 + 181907262 GCATAAGAACAATGTAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126507280 17 + 183735486 GCATAAGAACAATGTAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1698744 17 +   8933513 GCATAAGAACAATGTAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139829229 17 + 163208435 GCATAAGAACGATGTAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122818855 17 + 180051392 GCATAAGAACAATGTAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124242525 17 + 181584905 GCATAAGAACAATGTAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16240399 17 +  18395747 GCATAAGAACAATGTAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5252442 17 +  26952557 GCATAAGAACAATGTAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28354227 17 +  82825804 GCATAAGAACAATGTAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4020426 17 -   4237731 GCATAAGAACAATGTAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      291790 17 -   1175262 GCATAAGAACAATGTAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123629674 17 - 204313951 GCATAAGAACAATGTAG
i calJac3.chr2             C 0 I 5953
s cebCap1.NW_016107829v1     1378569 17 -   1400280 GCATAAGAAAAATGTAG
i cebCap1.NW_016107829v1   C 0 I 5963
s aotNan1.NW_018505940v1    13167730 17 -  42888418 GCATAAGAACAATGTGG
i aotNan1.NW_018505940v1   C 0 I 7155
s micMur3.chr12             60526565 17 + 108143057 GCATAAAAGCAATATAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3565677 17 +  11683526 GCATAAGAGCAATGTAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3052428 17 +   4132165 CCGTAAGAACAATGCAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14899355 17 +  74389097 GCTTAAGAATAATGTAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2608188 17 +   3667625 GTAAAAGAACAACTCAG
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55498104 167 +  90702639 I
e saiBol1.JH378106          55674502 6092 -  71252344 I

a score=21000.000000
s hg38.chr5_KI270796v1_alt     60226 1 +    172708 C
s panTro5.chr5             125170329 1 + 181907262 C
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126507297 1 + 183735486 C
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1698761 1 +   8933513 C
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139829246 1 + 163208435 C
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122818872 1 + 180051392 C
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124242542 1 + 181584905 C
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16240416 1 +  18395747 C
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5252459 1 +  26952557 C
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28354244 1 +  82825804 C
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4020443 1 -   4237731 C
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      291807 1 -   1175262 C
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123635644 1 - 204313951 C
i calJac3.chr2             I 5953 C 0
s saiBol1.JH378106          55680594 1 -  71252344 C
i saiBol1.JH378106         I 6092 C 0
s cebCap1.NW_016107829v1     1384549 1 -   1400280 C
i cebCap1.NW_016107829v1   I 5963 C 0
s aotNan1.NW_018505940v1    13174902 1 -  42888418 C
i aotNan1.NW_018505940v1   I 7155 C 0
s micMur3.chr12             60526582 1 + 108143057 C
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3565694 1 +  11683526 C
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3052445 1 +   4132165 C
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14899372 1 +  74389097 C
i canFam3.chr11            C 0 I 29
s dasNov3.JH567306           2608205 1 +   3667625 C
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55498104 167 +  90702639 I

a score=7404961.000000
s hg38.chr5_KI270796v1_alt     60227 507 +    172708 TCAATTTATATTTTTTAAA------------------------GCATTAAGTT----AACTTATTaaagtgac-attgctacctcactg-cca-ctagggcatg-attttg-attatttttctagtggctaattgatgagtaaaatagatacatttccactgtgtggtctgcctcttccatgatctatttgc---ctcatggttagctagggttaagggttcagtctgtggcc-aag---agtagggtgaagccatatgacccatttaggttttaaatctatcacttcaacgtcatAAAAAATAA---CTA-ACCACAAACACAGGCATTAGAAAGTAAAATTCCCATCCTGGCATGTTCAGTCTTAACTTTTGAGATCAAAGGAGTTGCAAAATAATTA-TATTTTT-ACGCCTGTATCACTCCACAAAAGTCGTCTCGTGCTCTTTGTTAATATGCTTCA--AATAAG-A-AAACATCAGCCTGC-CTTTTATTGCTatag----agcaaacattgtgtacttctttctatgtactaaaagct-ttacttaa----------------------------------------------------------------------------------------------------at-gccctgt--
s panTro5.chr5             125170330 507 + 181907262 TCAATTTATATTTTTTAAA------------------------GCATTAAGTT----AACTTATTaaaatgac-attgctacctcgctg-cca-ctagggcatg-attttg-attatttttctagtggctaattgatgagtaatatagatacatttccactgtgtggtctgcctctttcatgatctatttgc---ctcatggttagctagggttaagggttcagtctgtggcc-aag---agtagggtgaagccatatgacccatttaggttttaaatctatcacttcaacgtcatAAAAAATAA---CTA-ACCACAAACACAGGCATTAGAAAGTAAAATTCCCATCCTGGCATGTTCAGTCTTAACTTTTGAGATCAAAGGAGTTGCAAAATAATTA-TATTTTT-ACGCCTAAATCACTCCACAAAAGTCATCTCATGCTGTTTGTTAATATGCTTCA--AATAAG-A-AAACATCAGCCTGC-CTTTTATTGCTGtag----agcaaacattgtgtacttcttgctatgtactaaaagct-ttacttaa----------------------------------------------------------------------------------------------------at-gccctgt--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126507298 507 + 183735486 TCAATTTATATTTTTTAAA------------------------GCATTAAGTT----AACTTATTaaaatgac-attgctacctcactg-cca-ctagggcatg-attttg-attatttttctagtggctaattgatgagtaatatagatacatttccactgtgtggtctgcctctttcatgatctatttgc---ctcatggttagctagggttaagggttcagtctgtggcc-aag---agtagggtgaagccatatgacccatttaggttttaaatctatcacttcaacgtcatAAAAAATAA---CTA-ACCACAAACACAGGCATTAGAAAGTAAAATTCCCATCCTGGCATGTTCAGTCTTAACTTTTGAGATCAAAGGAGTTGCAAAATAATTA-TATTTTT-ACGCCTAAATCACTCCACAAAAGTCATCTCATGCTGTTTGTTAATATGCTTCA--AATAAG-A-AAACATCAGCCTGC-CTTTTATTGCTGtag----agcaaacattgtgtacttcttgctatgtactaaaagct-ttacttaa----------------------------------------------------------------------------------------------------at-gccctgt--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1698762 507 +   8933513 TCAATTTATATTTTTTAAA------------------------GCATTAAGTT----AACTTATTaaaatgac-attgctacctcactg-cca-ctagggcatg-attttgaattatttttctagtggctaattgatgagtaatatagatacatttccactgtgtggtctgcctctttcatgatctatttgc---ctcatggttagctagggttaagggttcagtctgtggcc-aag---agtagggtgaagccatatgacccatttaggttttaaacctatcacttcaacgtcatAAAAAATAA---CTA-ACCACAAACACAGGCATTAGAAAGTAAAATTCCCATCCTGGCATGTTCAGTCTTAACTTTTGAGATCAAAGGAGTTGCAAAATAATTA-TATTTTT-AAGCCTAAATCACTCCAC-AAAGTCGTCTCGTGCTCTTTGTTAATATGCTTCA--AATAAG-A-AAACATCAGCCTGC-CTTTTATTGCTatag----agcaaacattgtgtacttcttgctatgtactaaaagct-ttacttaa----------------------------------------------------------------------------------------------------at-gccctgt--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139829247 508 + 163208435 TCAATTTATATTTTTTAAA------------------------GCATTAAGTT----AACTTATTaaaatgac-attgctacctcactg-cca-ctagggcatg-attttgaattatttttctagtggctaattgatgagtaatatacgtacatttccactgtgtggtctgcctcgttcatgatctatttgc---ctcatggttagctagggttaagggttcagtctgtggcc-aag---agtagggtgaagccatatgacccattttggttttaaacctatcacttcaacgtcatAAAAAATAA---CTA-ACCACAAACATAGGCTTTAGAAAGTAAAATTCCCATCCTGGCATGTTCAGTCTTAACTTTTGACATCAAGGGAGTTACAAAATAATAT-TTTTTTT-AAGGCTAAATCACTCCACAAAAGTTGTCTCGTGCTCTTTGTTAATATGCTTCA--AATAAG-A-AAACATCAGCCTGC-CTTTTATTGCTatag----agcaaacattgtgtacttcttgctatgtactaaaagct-ttacttaa----------------------------------------------------------------------------------------------------at-gctctgt--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122818873 506 + 180051392 TCAATTTATATTTTTTAAA------------------------GCATTAAAAT----AACTTATTaaaatgac-attgctgcctcactg-cca-ctagggcatg-attctgaattatttttctagtggctaattgatgagtaataaagatagttttccactgtgtggtctgcctttttcatgatctgcttgc---ctcatggttagctagggctaagagttcaatctgtggcc-aag---ggtagggtgaagctatatgacccgtttaggttttaaacctatcacttccacgtcatCCAAAATAA---CTA-ACCACAAACACAGGCATTCGAAAGTAAAATTCCCATCCTGGTATGTTCAGTCTTAACTTTTGAGATCAGA-GAGTTGCAAAATAATCATTTTTTTAAAAGTCTAAATTACTCTGCAAAAGTTGTCTTGTGCTCTTTGTTAATATGCTTCA--AATAAG-A----CATCAGCCTGC-CTTCTATTGCTatag----agcaaacattgtgtacttcttgctatgtactaaaagct-tcacttaa----------------------------------------------------------------------------------------------------at-gcactgt--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124242543 508 + 181584905 TCAATTTATATTTTTTAAA------------------------GCATTAAAAT----AACTTATTaaaatgac-attgctgcctcactg-cca-ctagggcatg-attctgaattatttttctagtggctaattgatgagtaataaagacagttttccactgtgtggtctgcctttttcatgatctgcttgc---ctcatggttagctagggctaagagttcaatctgtggcc-aag---ggtagggtgaagctatatgacccgtttaggttttaaacctatcacttccacgtcatCCAAAATAA---CTA-ACCACAAACACAGGCATTCGAAAGTAAAATTCCCATCCTGGTATGTTCAGTCTTAACTTTTGAGATCAGA-GAGTTGCAAAATAATCA-TTTTTTTAAAGTCTAAATTACTCTGCAAAAGTTGTCTTGTGCTCTTTGTTAATATGCTTCA--AATAAG-A-CATCATCAGCCTGC-CTTCTATTGCTatag----agcaaacattgtgtacttcttgctatgtactaaaagct-tcacttaa----------------------------------------------------------------------------------------------------at-gcactgt--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16240417 509 +  18395747 TCAATTTATATTTTTTAAA------------------------GCATTAAATT----AACTTATTaaaatgac-attgctgcctcactg-cca-ctagggcatg-attctgaattatttttctagtggctaattgatgagtaataaagatagttttccactgtgtggtctgcctttttcatgatctgcttgc---cttatggttagctagggctaagagttcaatctgtggcc-aag---ggtagggtgaagctatatgacccGTTTAGGTTTTAAACCTATCACTTCCACGTCATCCAAAATAA---CTA-ACCACAAACGCAGGCATTCTAAAGTAAAATTCCCATCCTGGTATGTTCAGTCTTAACTTTTGGGATCAGA-GAGTTGCAAAATAATCATTTTTTTTAAAGTCTAAATTACTCCGCAAAAGTTGTCTTGTGCTCTTTGTTAATATGCTTCA--AATAAG-A-CATCATCAGCCTGC-CTTCTATTGCTatag----agcaaacattgtgtacttcttgctatgtactaaaagct-tcacttaa----------------------------------------------------------------------------------------------------at-gcactgt--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5252460 508 +  26952557 TCAATTTATATTTTTTAAA------------------------GCATTAAATT----AACTTATTaaaatgac-attgctatctcactg-cca-ctagggcatg-attttgaattacttttctagtggctaattgatgagtaataaagatacttttccactgtgtggtctgcctttttcacgatctgttcgc---ctcacggttagctagggctaagagttcagtctgtggcc-aag---ggtagggtgaagctatatgacccatttaggttttaaacctatcacttCCACGTTATCAAAAATAA---CTA-ACCACAAACACAGGCACTAGAAAGTAAAATTCCCATCCTGGTATGTTCAGTCTTAACTTTTGAGATCAGA-GAGTTGCAAAATAATCA-TTTTTTAAAAGTCTAAATTACTCCACAAAAGTTGTCTTGTGCTCTTTGTTAATATGCTTCA--AATAAG-A-AATCATCAGCCTGC-CTTCTATTGCTatag----agcaaacattgtgtacttcttgctatgtactaaaagct-ttacttaa----------------------------------------------------------------------------------------------------at-gcactgt--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28354245 508 +  82825804 TCAATTTATATTTTTTAAA------------------------GCATTAAATT----AACTTATTaaaatgac-attgctatctcactg-cca-ctagggcatg-attttgaattatttttctagtggctaattgatgagtaataaagatacttttccactgtgtggtctgcctttttcatgatctgttcac---ctcatggttagctagggctaagagttcagtctgtggcc-aag---ggtaggatgaagctatatgacccatttaggttttaaacctgtcacttccacgtcatCAAAAATAA---CTA-ACCACAAACACAGGCATTAGAAAGTAAAATTCCCATCCTGGTATGTTCAGTCTTAACTTTTGAGATCAGA-GAGTTGCAAAATAATCA-TTTTTTTAAAGTCTAAATTACTCCACAAAAGTTGTCTTGTGCTCTTTGTTAATATGCTTCA--AATAAG-A-AATAATCAGCCTGC-cttctattgctatag----agcaaacattgtgtacttcttgctatgtactaaaagct-tcacttaa----------------------------------------------------------------------------------------------------at-gtattgt--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4020444 509 -   4237731 TCAATTTATATTTTTTAAA------------------------GCATTAAATT----AACTTATTaaaatgac-attgctgcctcactg-cca-ctagggcatg-attctgaattatttttctagtggcttattgatgagtaataaagatacttttccactgtgtggtctgcctttttcatgatctgtttgc---ctcatggttagctagggctaagagttcaatctgtggcc-aag---ggtagggtgaagctatatgacccgtttaggttttaaacctatcacttccacgtcatCAAAAATAA---CTA-ACCACAAACACAGGCATTAGAAAGTAAAATTCCCATCCTGGTATGTTCAGTCTTAACTTTTGAGATCAGA-GAGTTGCAAAATAATCATTTTTTTTAAAGTCTAAATTACTCCGCAAAAGTTGTCTTGTGCTCTTTGTTAATATGCTTCA--AATAAG-A-CATCATCAGCCTGC-CTTCTATTGCTatag----agcaaacattgtgtacttcttgctatgtactaaaagct-tcacttaa----------------------------------------------------------------------------------------------------at-gcactgt--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      291808 501 -   1175262 TCAATGTATATTTTTTAAA------------------------GCATTAAATT----AACTTATTaaaatgac-attgctacctcactg-cca-ctagggcatg-attttgaactatttttctagtggctaattgatgagtaagaaagatacttttccactgtgtggtctgcctttttcatgatctgtttgc---ctcatggttagctagggctaagagttcagtctgtggcc-aag---ggtagggtgaagctatatgacccatttaggttttaaacctatcacttCCATGTCATCAAAAACAA---CTA-ACCACAAACACAGGCATTAGAAAGTAAAATTCCCACCCTGGTGTGTTCAGTCTTAACTTTTGAGATCAGA-GAGTTGTAAAACAATCA-TTTTTTAAAAGTCTAAATTACTCCACAAAAGTTGTCTTGTGCTCTTTGTTAATATGCTTCA--AATAAG-A-AATCATCAGCCTGC-CTTCTGTTGCTATAG----AGCAAAC-------ACTTcttgctatgtactaaaaact-tcacttaa----------------------------------------------------------------------------------------------------at-gcactgt--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123635645 508 - 204313951 TCAATTTGTAGTTTTTAAA------------------------GCATTAAATT----AACTTATTAAAACATC-ATTGCTACCTTACTG-CCA-CTAGGGCATG-ATTTTGAATTACTTTTCTAGTGGCTAATTGATGAGTAACATAGATACATTTCCATTGTGTGGTCTGCCTCTTTTGTGATCTATTTGC---CTCATGGTTAGCTAGGGCTAAGGGTTTAGTCTGGGGCC-AAG---AGTAGAGTGAAGCCACATGACCCATTTAAGCTTTAAACCTATCACTTCAACATCATCGAAAATAA--CCTA-ACCACAAGCATAGGCATTGGAAAGTAAAATTCCCATCCTGGTATGTTCAGTCTTAACTTTTGAGATCAAGGGAGTTGCAAAATAATTA-TTTTTTT-AAGCCTAAATCACTCCAC-AAAGTTGTCTGGTACTCTTTGTTAATATGCTTCA--AATAAG-A-AAACATCAGCCTGC-CTTTTACTGCTATAC----AGCAAACAATGTGTACTTcttgctatgtactaaaagtg-ttatttaa----------------------------------------------------------------------------------------------------at-gcactgt--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55680595 496 -  71252344 TCAATTTGTATTTTTTAAA------------------------GCATTAAATT----AACTTATTaaaatgac-attgctacctcactg-cca-ctagggcatg-attttgaattacttttctagtggctaactgatgagtaacgtagatacatttccactgtgtggtctgcctcttttgtgatctgtttgt---ctcatggttagctagggctaacagtttagtctggggcc-aag---aggagggtgaagccgcatgacccatttaggctttaaacctatcagttcaacgtcatgaaaaataa--tcta-accaCAAACATAGGCATTGGAAAGTAAAATGCCCA-----------TCAGTCTTAACTTCTGAGATCAAGGGAGTTGCAAAATAATCG-TTTTTTA-AAGCCCAAATCACTCCAC-AAAGTTGTCTGGTCCTCTTTGTTAATATGCTTCA--AATAAG-A-AAACATCAGCTTGC-CTTTTATTGCTATAC----AGCAAACAATGTGtacttcttgctatgtact-gaagtg-ttacttaa----------------------------------------------------------------------------------------------------at-gcactgt--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1384550 508 -   1400280 TCAATTTGTATTTTTTAAA------------------------GCATTAAATG----AACTTATTaaaatgac-attcctacctcactg-cca-ctagggcatg-attttgaattacttttctagtggctaattgatgagtaacgtagatacatttccactgtgtggcctgcctcttttgtgatctatttgc---ctcatggttagctagggctaagggtttagtctggggcc-aag---agtagggtaaagccacatgacccatttaggctttaaacctatgacttcaacattatcaaaaataa--ccta-accaCAAACATAGGCATTGGAAAGTAAAATTCCCATGCTGGTATGTTCAGTCTTAATTTTTGAGATCAAGGGAGTTGCAAAATAATCA-TTTTTTT-AAGCCTAAAACACTCCAC-AAAGTTGTCTGGTGCTCTTTGTTAATATGCTTCA--AATAAG-A-AAACATCAGCCTGC-CTTTTATTGCTGTAC----AGCAAACAATGTGTACTTcttgctatgtactaaaagtg-ttatttaa----------------------------------------------------------------------------------------------------at-gcacggt--
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13174903 505 -  42888418 TCAATTTGTATTTTTTAAA------------------------GCATTAAATT----AACTTATTaaaatgac-attgctacctcactg-cca-ctagggcatg-attttgaattacttttctagtggctaattgatgagtaatgaagatacattttcactgtgtggtctgcctcttttgtgatctatttgc---ctcatggttagctagggctaagggtttagtctggggcc-aag---agtagggtgaagccacatgacccatttaggctttaaacccatcacttcaacatcatcaaaaataa--ccta-accGCAAACATAGGCATTGGAAAGTAAAATTCCCATCCTGGTATGTTCAGTCTTAACTTTTGAGATCAAGGGAGTTGCAAAATAATCA-TTTTTTT-AAGCCTAAATCACTCCAC-AAAGTTGTCTGGTGCTCTTTGTTAATATGCTTCA--AATAAG-A-AAACATCAGACTGC-CTTTTACTGCTATGC----AGCAAACAATGTGTACTTCTTGCTGtgtactaaaagtg-ttatttaa----------------------------------------------------------------------------------------------------at-gcac-----
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60526583 487 + 108143057 TCAATTGATA-TTTTTAAA------------------------GCATTAAATT----AACTTATTaaaatgac-atcaccacctcactg--ca-ctaggacaag-attttgaattatttttctaatggctaatcggtgagtaatggagatacatttccactgtgtggtctgcctcct-------------gccttctcatggttagccaagactgagggttt-gtctgtggcc-aag---agcagagtgaagtcaaatgactcatttaggctttgaacctttcaattcaacctcTGTTGAAATAT---CAA-ACCACAAACATAGTCATTAGAAAGTAAAGTTTCCTTCCTGGTAAGTTCAGTCTTAACTTTTGAGATCAAGGGAGCTGAAAAATAATCA-TTTATTT-ATGACTAAATCACTCTATAAAAGTTGTCATGTGCTTTTCATATATATGCTTCA--AATAAG-A-AAAAATCAGCCTGC-TTTACATTGCTataataacagcacacattgtttacctcttgctatgtacta-------------aa----------------------------------------------------------------------------------------------------at-gcactgt--
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3565695 491 +  11683526 TCAATTTATA-TTTTTAAA------------------------GCATTAAATT----AACTTATTaaaataac-atcaccacctcactg-tca-ctaggacaag-attttgaattatttttctagtggctaatcgatgagtaatgcagatacatttccactgtgtggtctgcctcct-------------gc---atcatggttagccaaggctga--------cctgtggcc-aag---agcagagtgaagccacatgactcatttaggctttaaaactatcaattcaacctctttTGAAATAT---CAA-ACCACAAACATAGTCATTAGAAAGTAAAGTTTCCTTCCTGGTAAGTTCAGTCTTAACTTTTGAGATCAAGAGAGTTGAAAAATAATAA-TTTATTT-AAGCCTAAATCGCTCTGTAAAAGTTGTCCTGTGCTTTTCATTAATATGCTTCA--AATAAGAA-AAAAATAAGCCTGC-TTTTTATTGGTATaatcatagcaaacattgtatacttcttgttatgtactaaaagct-ttacttaa----------------------------------------------------------------------------------------------------at-acactgt--
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3052446 495 +   4132165 TCAATTTATA-TATTTAAA------------------------GCATTAAACT-----ATTTATTaaaatggt-atcactacctccctaccca-ctaggacaga-attttgagttatttttctagtggctaattgatgagtaatgcatatacatttccaccctgtggtctgccccct-------------gc---ctcatggtgagcgaaagctgagggtttagtctgtaacc-aag---agcagagcaaagccacatgacccatttagactttaaatctatcacttcaacctcTACAGAAATAT---CTC-ACCACAAACATGGTCATTAAAAAGTGAAGTTTCCTTTCTGGTAAACTCAATCTTAACTTTTGAGATCAAGGAAGCTGAAAAATAATCA-TTCATTT-AAGCCTAAATCACTCTATAAAAGCTGCCCTGTGCTTTTCATTAATATGCTTCA--AATAAG-A-AAA---TAGCCTGC-TTCTTATTGCTGGAATCATagtgcacactgtgtacttcttactatgtactgaaagct-atacttga----------------------------------------------------------------------------------------------------at-gcactgt--
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55498271 514 +  90702639 TCAATTCTTTTTTTTTTAATTCAAGTTCAGTCTTCTACTACAGGCATAAGAGTATGAACCTTGGTCAATTTACAATCACTATTGCAGTG-GCGTTTAGGATCTG-CCCTTGAGTTATCCTTCTA-TGGTTAACTGATGTGTGAT--AGACAAAGTTCAGCTGTGTGGTTTGTTGTTCTCATGATCCCtttgc---ctcacgcttagccagggctgagcggttcatctgtggct-aagagcagcagggtgaagttacgtgacccatgccttcattaagcctgtcacttcaaccccatcagAAATAA---CTAGGCTTCAAGTATAATCTCTACAAAGTAAAGTACCCATCCTGGGAAACTTAAGCCTTATTCTGCATATCAAGAGAGT-------CAACCA-GTCTTTAAAAGTGCAGATTATCCAAGAAAAGTCAGCCTGT--------TGGATGT-CTTCATCAACAAG-A-AAATAGTAA-------TTATTTTAGTGTGA----GAGAAACACAG-------CATGCCACACACTACAGCTTCTTACAAGA----------------------------------------------------------------------------------------------------AG-GCACTGA--
i mm10.chr18               I 167 C 0
s canFam3.chr11             14899402 606 +  74389097 TCAGTTTCTAATTTTTAAA------------------------GCATTAAATT----CACTTATTaaaatgac-atcactgcctcgctg-cca-ttagggcatg-actttgaattatttttctagtggctaattgacgagtaatgcagataggtttgcactgtgtggtctgcctccttcatgatccatttgc---ctcatggttagggagggctgaaggct--atctttggcc-aag---agcagaatgaatccacaggacccatttaggcattaaacctatcatttc-acttcattagcaatactttcta-accaCAAACACGGTCTTCAGAAAGTAAAGTTTCCATCCTG-----TTTAGTCTTAATTTTTGAGATTAA--GAGAAACAAAAAAACAT-TTTTTTA-GAGCCTAAATCACTCCATAAAAATTGTCTTACTTTCTTCATAAACGTGGTTCA--CATAAG-A-AAACATTAACTTGCTTTTTTATTGTTATAATCACAATAAACATTGTATAGCTCTTGCTATGTACTAAAAGGT-TCACTTAAAAGTAGTTggggcacctggatggcacagtcacttaggtgttagaactcttggttttggctcaggtcatgatctcagggttgtgggatagagacccacgtcaa-gccctgt--
i canFam3.chr11            I 29 I 153
s dasNov3.JH567306           2608206 513 +   3667625 TCAACTTATAATTTTTAAA------------------------GCATTAAATC----CAGTTATTAAAATGAT-ATCACAACCTCGCAG-CAA-Ctagggtatgaactttgagttatttttctagtggttaagtggtgagtaacacagatacagttccattgtgtgatctacctccttcatgacccatttgc---ctcatgttta-ccagggtttag-gctcagtctgtggccaaag---agcaggatgaagctacttgacccatttgggcattttacctatcacttcaacctcactagaactat---tta-accaCAGACATAGACATTAGAAGGTAAAGTTCCTATCCTGGTAAATTCGGTCTTAATCTTTGAGATCAAAGAAGTGGAAAAATGA----TATTTTT-AAGCCTAAATCACCCCTTAAAAATTGCCCTGCTCACTTGATTAATATGTTTAA--AATAAG-ACAATTATTGGCCTGC-TTTTTATTGCTATaatcacaataaacattatatagcttttgctatgtactaaatgca-ttactgaa----------------------------------------------------------------------------------------------------agaacactaagt
i dasNov3.JH567306         C 0 C 0

a score=2929943.000000
s hg38.chr5_KI270796v1_alt     60734 242 +    172708 g-ttaaattgg---ttattccctac-----aaagctctacgaaatagctattattccagtattacagatggataaactgaggcatatagaga---------------ttaaata--------------acatgataagtggtagaactggtattta-----agctgaag------------------------------------------------------------------------------------------ctg--tagctgcaaagacta------tgaccac-tatgcaatcctgctcTCTA----------------------------CCCCCAGTGATC-TTGAG--CTACTGCCATCTG---CAACAAGCA--------CAGAC---------TTGCTTTCTCCTTTTATTTTTCC-TTTTT
s panTro5.chr5             125170837 245 + 181907262 g-ttaaattgg---ttattccctac-----aaagctctacgaaatagctattattccagtattacagatggataaactgaggcatatagaga---------------ttaaata--------------acatgataagtggtagaactggtattta-----agctgaag------------------------------------------------------------------------------------------ctg--tagctgcaaagacta------tgaccac-tatgcaatcctgctcTCTA----------------------------CCCCCAGTGATC-TTGAA--CTACTGCCATCTGCAACAACAAGCA--------CAGAC---------TTGCTTTCTCCTTTTATTTTTCC-TTTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126507805 245 + 183735486 g-ttaaattgg---ttattccctac-----aaagctctacgaaatagctattattccagtattacagatggataaactgaggcatatagaga---------------ttaaata--------------acatgataagtggtagaactggtattta-----agctgaag------------------------------------------------------------------------------------------ctg--tagctgcaaagacta------tgaccac-tatgcaatcctgctcTCTA----------------------------CCCCCAGTGATC-TTGAA--CTACTGCCATCTGCAACAACAAGCA--------CAGAC---------TTGCTTTCTCCTTTTATTTTTCC-TTTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1699269 245 +   8933513 g-ttaaattgg---ttattccctac-----aaagctctacgaaatagctattattccagtattacagatgtataaactgaggcatatagaga---------------ttaaata--------------acatgataagtggtagaactggtattta-----agctgaag------------------------------------------------------------------------------------------ctg--tagttgcaaagacta------tgaccac-tatgcaatcctgctctcca----------------------------cccccagtgttc-ttgag--ctactgcCATCTGCAACAACAAGCA--------TAGAC---------TTGCTTTCTCCTTTTATTTTTCC-TTTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139829755 245 + 163208435 g-ttaaattga---ttattccttac-----aaagctctatgaaatagctattattccagtattacagatggataaactgaggcatatagaga---------------ttaaata--------------acatgataagtggtagaactggtattga-----agctgaag------------------------------------------------------------------------------------------ctg--tagctgcaaagacta------tgaccac-tatgccatcctgctctcca----------------------------cccccagtgatc-ttgag--ccactgcCATCTGCAACAACAAGCA--------CAGAC---------TTGCTTTCTCCTTTTATTTTTCC-TTTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122819379 253 + 180051392 a-ttaaattag---ttattccttactaatttaagctctacaaaatagctattattccagcattatagatggataaacggaggcatatagaga---------------ctaagta--------------acatgataagtggtagaactggtattgc-atgcagctgaag------------------------------------------------------------------------------------------ctg--tagctgcaaagacta------tgaccac-tccgcagtcctgCTCTCCA----------------------------CCCCCAGTGATC-TTGAG--CTACTGCCATCTGCAACAACAAGCA--------CAGAC---------TTGCTTTCTCCTTTTG-TTTTCC-TTTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124243051 253 + 181584905 a-ttaaattag---ttattccttactaatttaagctctacaaaatagctattattccagcattatagatggataaacggaggcatatagaga---------------ctaagta--------------acatgataagtggtagaactggtattgc-atgcagctgaag------------------------------------------------------------------------------------------ctg--tagctgcaaagacta------tgACCAC-TCCGCAGTCCTGCTTTCCA----------------------------CCCCCAGTGATC-TTGAG--CTACTGCCATCTGCAACAACAAGCA--------CAGAC---------TTGCTTTCTCCTTTTG-TTTTCC-TTTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16240926 254 +  18395747 a-ttaaattag---ttattccttactaatttaagctctacaaaatagctattattccagcattatagatggataaacggaggcatatagaga---------------ctaagta--------------acatgataagtggtagaactggtattgc-atgcagctgaag------------------------------------------------------------------------------------------ctg--tagctgcaaagacta------tgaccac-tccgcagtcctgctctcca----------------------------ccccCAGTGATC-TTGAG--CTATTGCCATCTGCAACAACAAGCA--------CAGAC---------TTGCTTTCTCCTTTTGTTTTTCC-TTTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5252968 246 +  26952557 a-ttaaattag---ttattccttac-----aaagttctacgaaatagctattattccagtattacagatgaataaactgaggcatatagaga---------------t----ta--------------aCATGATAAGTGGTAGAACTGGTATTGCTATGCAGCTGAAG------------------------------------------------------------------------------------------CTG--TAGCCGCAAAGACTA------TGACCAC-TCCGCAGTCCTGCTCTCCA----------------------------CTCCCAGTGATC-TTGAG--CTACTGCCATCTGCAACAAGCAGCA--------CAGAC---------TTGCTTTCTCCTTTTGTTCTTCC-TTTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28354753 249 +  82825804 a-ttaaattag---ttattccttac-----aaagctctacgaaatagctattattccagtattacagatggataaactgaggcatatagaga---------------ttaagta--------------acatgataagtggtagaactggtattgc-atgcagctgaag------------------------------------------------------------------------------------------ctg--tagctgcaaagacta------tgaccac-tctgcagtcctgCTCTCCA----------------------------CCCCCAGTGATC-TTGAG--CTACTGCCATCTGCAACAACAAGCA--------CAGAC---------TTGCTTTCTCCTTTTGTTCTTCC-TTTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4020953 254 -   4237731 a-ttaaattag---ttattccttactaatttaagctctacaaaatagctattattccagcattatagatggataaacggaggcatatagaga---------------ttaagta--------------acatgataagtggtagaactggtattgc-atgcagctgaag------------------------------------------------------------------------------------------ctg--tagctgcaaagacta------tgaccac-tccgcagtcctgctctcca----------------------------ccccCAGTGATC-TTGAG--CTACTGCCATCTGCAACAACAAGCA--------CAGAC---------TTGCTTTCTCCTTTTGTTTTTCC-TTTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      292309 246 -   1175262 a-ttaaatgag---ttattccttac-----aaagctctacgaaatagctattactccagtattacagatggataaacggaggcatatagaga---------------tgaagta--------------atatgataggtggcagaactggtattgc-----agctgaag------------------------------------------------------------------------------------------ctg--tggctgcaaagacta------tggccac-tctgcagtcctgCTCTCCA----------------------------CCCCCAGTGATC-TGGAG--CTACTGCCATCTGCAACAACAAGCA--------CAGAC---------TTGCTTTCTCCTTTTGTTTTTCCTTTTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123636153 255 - 204313951 g------ttag---ttgtattttac-----aaagttctacgaaatagctattattccagtattacaaatggataaactgaggcatgtagaga---------------ttaagtagattgcctagtg--acatggcaagtggtagaactggtatttc-----ggctaaag------------------------------------------------------------------------------------------ctg--tagctgcaaagactatgctcttgaccac-tgtgctaccctgCTCTTCC-----------------------------CCCTGGTGATC-TTGAG--CTACTGCCATCTGCAACAAGCAGCA--------CACAC---------TTGCTTTCTCCTTTTACTTCTTT-TTT--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55681091 259 -  71252344 g------ttag---ttattttttac-----aaagctccatgaaatagctattattccagtattacaaatagataaactgaggcatgtagtga---------------tcaagtagattgcctagtg--acatggcaagtggtagaactggtattta-----ggctgaag------------------------------------------------------------------------------------------ctg--tagctgcaaagactgtgctcttgaccac-tgtgctatCCCACTCTTCC---------------------------CTCCCCGGTGATC-TTGAG--CTACTGCCATCTGTAACAAGCAGCA--------CACAC---------Ttgctttctccttttacttcttc-ttttt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1385058 286 -   1400280 g------ttag---ttattttttac-----aaagctctacgaaatagctattattccagtattacaaatgaataaactgaggcatgtggaga---------------ttaagtagattgcctagtg--acatggcaagtggtagaactggtattta-----ggctgaag------------------------------------------------------------------------------------------ctg--tagctgccaagactatgctcttgaccac-tgtgctatcctgCTCTTCCCCCCACGGTGATCTTGAGTGCTCTTCCCCCCACGGTGATC-TTGAG--CTACTGCCATCTGCAACAAGCAGCG--------CAGGC---------TTGCTTTCTCCTTTTACTTCTCC-GTTTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13175408 255 -  42888418 -------ttag---ttattttttac-----aaagctctatgaaatagctattattccagtattacaaatggataaactgaggcatgtagaga---------------ttaggtagattgcctagtg--acatggcaagaggtagaactggtattta-----ggctgaag------------------------------------------------------------------------------------------ctg--tagatgcaaagactctgctcttgaccac-tgtgctatcctgCTCTTCC----------------------------TCCCCGGTGATC-TTGAG--CTACTGCCATCTGCAACAAGCAGCA--------CAGGC---------TTGATTTCtccttttacttcttt-ttt--
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60527070 268 + 108143057 g-ttaaagtag---taattccttac-----aaagctctatgaaatagctattactccagtgttattgatagggaaactgaggcacatagaaa---------------tgaagtaaattacccagtaacacacagtaagtggtagaaccagtatttg-----atctaaag------------------------------------------------------------------------------------------ctg--tagctgaaaaaactatgctctgggccac-tatgctatactgCTCCCCT----------------------------TCCCCATTGATC-TTGAA--CTACCACTGTCCGCAACA---AGCA--------CAGACTAAT---ACTTGCTTTCTGCTCCCACTTTTCA-TTTTT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3566186 268 +  11683526 g-ttaaagtag---taattccttac-----aaagctctatgaaatagctattattccagcattattgatggggaaactgaggcacatagaga---------------tgaagtagattacccagtaacacacagtaagtggtagaaccagtatttg-----atctaaag------------------------------------------------------------------------------------------ctg--tagctgcaaagactaagctcttgaccac-tatgctatactgCTCCCCT----------------------------CTCCCATTGATC-TTGAA--CTACCACTGTCTGCAACA---AGCA--------CGGACTAGT---ATTTGCTTTCTCCTTCCACTTTTTC-TTTTT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3052941 247 +   4132165 g-t-----gag---ttagtccttac-----aaagttctatg-----------attcctctatcattgatggggaaactgagggacatagtga---------------taaagcagattgcccagtaacacacagtaagtggtagaactggtgcctg-----acctgaag------------------------------------------------------------------------------------------ccg--tagctgccaaga-----ttcttgacaacttgcactaccctgc-ccccc----------------------------cgCCCACTGACC-TTGAA--CTACTACCATTTGCAATA---AGCA--------CAGACCAAT---ACTTGCTTTCTTCTTCCACGTTTCC-TTTTT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55498785 363 +  90702639 GATTAAACTAG---TTAT-CTTTAT-----AAATACCCCTGAGCTAGTAA-------AGCATCGcaagtgggtaaactgaggcccacagaaggttccctggtttgctttccatagctcatccagtgacatagagtacgtggtagagtaagggttca-----aGATGAGGCTTggggcaagcgatggcactcatcggtagagcgcttgagtgggccatcctaggttcaatccccagcacccccaaaaaaGTAAGATGGACCTA--CAGCGGCAGGGATCATGT---TGACTAC-TGGGCTACACTTCCCCCTT----------------------------TCCACACTGACC-TTGGACTCTACTCCCACTGGCAGCAAGCAAC---------CAGATCAGTAGGACTGGCTTCCTCATTC-------CC-TTTGT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14900161 262 +  74389097 G-TTAAattaaattttaatccttac-----aaagttctatgaaatagctgtttttctagggttacaggtggggaaactgacccgcgaagtga---------------ttctgtagattgcccactgacagatgatgagtggtggaactgg-attta-----agctgagg------------------------------------------------------------------------------------------ctg--caggtgcagagaccgtgctcttgaccat-catgctatcctgtTCCCCA----------------------------TACCCATGGATC-TTGAA--ATACCAACAGAGGCAACAACAAACA---------ACAT---------GTACTGTCTCC----AACTTTTT-GTTTT
i canFam3.chr11            I 153 C 0
s dasNov3.JH567306           2608719 222 +   3667625 g-ttaaattag---ttattcctgat-----aaaactctgtgagatagctgttattccagtattagagatggggaaagtaagg--------AG---------------TTA---------------------------------------------------AGCCGAGG------------------------------------------------------------------------------------------CTGGCTGACTGCAAGGACCAAGCTCTTGATCAT-GATGCTGGACTGCTCCCCG----------------------------TCTCCACTGATCTTTTAA--CTACCACCATCAGCAACAACAAGCAAGTGGGTCAATAC---------ATtctttctccttctgttctttc-tctct
i dasNov3.JH567306         C 0 I 870

a score=1153759.000000
s hg38.chr5_KI270796v1_alt     60976 80 +    172708 TGTCATGATTCTATGTAttcat----ggtccaattcaaatgtcagctctctc-aatcactttgcctggcaccttcacccaaatag
s panTro5.chr5             125171082 80 + 181907262 TGTCATGATTCTATGTAttcat----ggtccaattcaaatgtcagctctctc-aatcactttgcctgggaccttcacccaaatag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508050 80 + 183735486 TGTCATGATTCTATGTAttcat----ggtccaattcaaatgtcagctctctc-aatcactttgcctgggaccttcacccaaatag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1699514 80 +   8933513 TGTCATGATTCTATGTAttcat----ggtccaattcaaatgtcagctctctc-aatcactttgcctgggaccctcacccaaatag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139830000 74 + 163208435 TGTCATGATTCTAC-TAT---------GTCCAATTCAAATGTCAGCTCTCTC-AATCACTTTGCCTGGGACCCTCACCGAGATAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122819632 80 + 180051392 TGTCATGATTCTATCCAGTCAT----GGTCCAATTCAAATGTCAGCTCTCTC-AATCGCTTTGCCTGAGACCCTCACCCAAATAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124243304 80 + 181584905 TGTCATGATTCTATCCAGTCAT----GGTCCAATTCAAATGTCAGCTCTCTC-AATCGCTTTGCCTGAGACCCTCACCCAAATAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16241180 80 +  18395747 TGTCATGATTCTATCCAGtcat----ggtccaattcaaatgtcagctctctc-aatcgctttgcctgagaccctcacccaaatag
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5253214 80 +  26952557 TGTCATGATTCTGtccattcat----ggtccaattcaaatgtcagctctctc-aatcgctttgcctgggaccctcacccaaatag
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28355002 80 +  82825804 TGTCATGATTCTGTCCATTCAT----GGTCCAATTCAAATGTCAGCTCTCTC-AATCGCTTTGCCTGGGACCCTCACCCAAATAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4021207 80 -   4237731 TGTCATGATTCTatccattcat----ggtccaattcaaatgtcagctctctc-aatcgctttgcctgggaccctcacccaaatag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      292555 80 -   1175262 TGTCATGATTCTatccattcat----ggtccaattcaaatgtcagctctctc-aatcgctttgcctgggaccctcacccaaatag
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123636408 79 - 204313951 -GTCATGATTCTACACATTCAT----GGTCCAATTCAAATGTCACCTCTCTC-AATCGCTTTGCCTGGGACCCTCACCCAAATAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55681350 80 -  71252344 ggtcatgattctatacattcat----ggtccaattcaaatgtcacctctctc-aatcactttgcctgggaccctcacccaaatag
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1385344 79 -   1400280 TGTTATTATTCTACACATTCAT----GGTCCAATTCAAATGTCAGCTTTCTC-AATTACTTTGCCTGGGACCCTCACCCAAA-AG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13175663 79 -  42888418 -gtcaagattctacacattcat----ggtccaattcaaatgtcacctctctc-aatcgctttgcctgagaccctcacccaAATAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60527338 80 + 108143057 TGTCATGATCCTAAGAAGtcat----ggtccaactcaaatgtcagctgtctc-aatcactttgcctgagatccttgcccaattag
i micMur3.chr12            C 0 I 9
s proCoq1.NW_012155062v1     3566454 80 +  11683526 TGTCATGATGCTAAGCAGtcat----ggtccaactcaaatgtcagctttctc-aatcactttgcctgagatcctcacccagatag
i proCoq1.NW_012155062v1   C 0 I 9
s otoGar3.GL873679           3053188 80 +   4132165 TGTCATGATCCTAAGCACtcat----ggtccagctcaaatgtcagctctctc-aatcactttgcctgcagaactcacctaaagag
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55499148 58 +  90702639 TTTCAAAATTCTGATCCCTCAT--------------------------CTTC-AGTCACTTTTACTGAAACCCTCAACCAAAGGG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14900423 85 +  74389097 TGTTGTGATTCTAAGCATTAGTTAGTGATCCAACTCAAATGTCAGCTTTTTCTATTCACTTTGCCTGAGATCTTCACACAAATAA
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2608941 870 +   3667625 I

a score=113973.000000
s hg38.chr5_KI270796v1_alt     61056 11 +    172708 taattataata
s panTro5.chr5             125171162 11 + 181907262 taattataata
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508130 11 + 183735486 taattataata
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1699594 11 +   8933513 taattataata
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139830074 11 + 163208435 TAATTGTAATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122819712 11 + 180051392 TAATTATAATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124243384 11 + 181584905 TAATTATAATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16241260 11 +  18395747 taattataata
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5253294 11 +  26952557 taattataata
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28355082 11 +  82825804 TAATTATAATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4021287 11 -   4237731 taattataata
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      292635 11 -   1175262 taattataata
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123636487 11 - 204313951 TAATTACAATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55681430 11 -  71252344 taattataata
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1385423 11 -   1400280 TAATTACAGTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13175742 11 -  42888418 TAATTATAATA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3053268  4 +   4132165 ----tatc---
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55499206 11 +  90702639 TAATTGTAGTT
i mm10.chr18               C 0 I 1
s canFam3.chr11             14900508 10 +  74389097 TAATTATAGC-
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60527418  9 + 108143057 I
e proCoq1.NW_012155062v1     3566534  9 +  11683526 I
e dasNov3.JH567306           2608941 870 +   3667625 I

a score=357117.000000
s hg38.chr5_KI270796v1_alt     61067 28 +    172708 --gtttatcagtattcccatagtac------tttat
s panTro5.chr5             125171173 28 + 181907262 --gtttatcagtattcccatagtac------tttat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508141 28 + 183735486 --gtttatcagtattcccatagtac------tttat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1699605 28 +   8933513 --gtttaccagtattctcatagtac------tttat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139830085 28 + 163208435 --GTTTATCAGTATTCCCATAGTAC------TTTAT
i nomLeu3.chr2             C 0 I 316
s rheMac8.chr6             122819723 28 + 180051392 --GTTTATCAGTATTCCCATAGTAC------TTTAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124243395 28 + 181584905 --GTTTATCAGTATTCCCATAGTAC------TTTAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16241271 28 +  18395747 --gtttatcagtattcccatagtac------tttat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5253305 28 +  26952557 --gtttatcagtattcccatagtac------tttat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28355093 34 +  82825804 --GTTTATCAGTATTCCCATACTTTCTTTTATTTAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4021298 28 -   4237731 --gtttatcagtattcccatagtac------tttat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      292646 28 -   1175262 --gtttatcagtattcccatagtac------tttat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123636498 28 - 204313951 --GTTTATCAGTATTCCCATAGCAC------TTCAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55681441 28 -  71252344 --gtttattggtattcccatagcac------ttcat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1385434 28 -   1400280 --GTTTATCAGTATTCCCATAGCAC------TTTAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13175753 28 -  42888418 --GTTTATCAGTATTCCCAAAGCAC------TTCAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60527427 28 + 108143057 --gttcatcagtattcccatagcac------attat
i micMur3.chr12            I 9 C 0
s proCoq1.NW_012155062v1     3566543 28 +  11683526 --gttcatcagtattcccatagcac------attgt
i proCoq1.NW_012155062v1   I 9 C 0
s otoGar3.GL873679           3053272 27 +   4132165 ---ctcatcactgttctcatagcaa------gttat
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55499218 25 +  90702639 --CTGTCTCAGTAGTC-CATACCAG------CCT--
i mm10.chr18               I 1 C 0
s canFam3.chr11             14900518 22 +  74389097 CTATATATCAATATTTC--------------TTTAT
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2608941 870 +   3667625 I

a score=973548.000000
s hg38.chr5_KI270796v1_alt     61095 71 +    172708 tctttcttttatcttgacaccatatactaatgcagat-attcatctatgtctctttctttccta-gcaggctg-
s panTro5.chr5             125171201 71 + 181907262 tctttcttttatcttgacaccatatactaatgcagat-attcatctatgtctctttctttccta-gcaggctg-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508169 71 + 183735486 tctttcttttatcttgacaccatatactaatgcagat-attcatctatgtctctttctttccta-gcaggctg-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1699633 71 +   8933513 tctttcttttatcttgacaccatatactaatgcagat-actcacctatgtctctttgtttccta-gcaggctg-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139830429 71 + 163208435 TCTTTCTTTTATCTTGACACCATATACTAATGCAGAT-ATTCATCTATGTCTCTTTCTTTCCTA-GCAGGCTG-
i nomLeu3.chr2             I 316 C 0
s rheMac8.chr6             122819751 72 + 180051392 TCTTTCTTTTATCTTGACACCATATACTAATGCAGATAATTCATCTATGTCTGTTTCTTTCCTA-GCAGGCTG-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124243423 72 + 181584905 TCTTTCTTTTATCTTGACACCATATACTAATGCAGATAATTCATCTATGTCTGTTTCTTTCCTA-GCAGGCTG-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16241299 72 +  18395747 tctttcttttatcttgacaccatatactaatgcacataattcatctatgtctgtttctttccta-gcaggctg-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5253333 71 +  26952557 tctttcttttatcttgacaccatatactaatgcagat-attcatctatgtctgtttctttccta-gcaggctg-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28355127 71 +  82825804 TCTTTCTTTTATCTTGACACCATATACTAATGCAGAT-ATTCATCTATGTCTGTTTCTTTCCTA-GCAGGCTG-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4021326 72 -   4237731 tctttctttcatcttgacaccatatactaatgcagataattcatctatgtctgtttctttccta-gcaggctg-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      292674 71 -   1175262 tctttcttttatcttgacaccatatactaatgcagat-attcatctatgtctgtttctttccta-gcaggctg-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123636526 70 - 204313951 TCTTTCTTTTATCTTGACACCATATACTAATGCAGAT-ATTTATCTGTG--TCTTTCTTTCCTATTTAGGCTG-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55681469 72 -  71252344 tctttcttttatcttaccaccatatagtaatgcagat-atttatctgtgtctctttctttcctatttaggctg-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1385462 70 -   1400280 TCTTTCTTTTATCTTGACACCATATACTAATGCAGAT-ATTTATCTGTG--TCTTTCTTTCCTATTTAGGCTG-
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13175781 72 -  42888418 TCTTTCTTTTATCTTGACACCATATACTAATGCAGAT-ATTTATCTGTGTCTCTTTCTTTCCTATTTAGGCTG-
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60527455 70 + 108143057 tcattcttttattttgacactatatactaatataggt-atttattt-tgtctctttctctccta-ctaggctg-
i micMur3.chr12            C 0 I 357
s proCoq1.NW_012155062v1     3566571 71 +  11683526 tcattcttttattttgacactatttactaatacaggtaatttattt-tgtctctttctttctta-ctaggctg-
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3053299 70 +   4132165 tagttcttttatcttgacactacatattaaggcaggt-atttcttt-ttcatctttcttttcta-ctacactg-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55499243 71 +  90702639 TCTCACTCTTATGTTGATGCTTTGTTTTAAACTAGAT-TTTTGTTGGTTTCTCCTTCTTTATTC-TTAGGCTG-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14900540 72 +  74389097 TCATGCTTTTATTTTGAAACTATATACTAATACAGGT-ATTTGTTTATGTCTCTTTCTTTCCTA-TTAAGCTTG
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2608941 870 +   3667625 I

a score=1684074.000000
s hg38.chr5_KI270796v1_alt     61166 134 +    172708 ggaacaacagagttgttacatcttatatttccagaatctata-taacatctggcctatagtaagaactcaataatgatttattacattaa----attgaaATAAAATAGTTGATACTGGG-------CCTTAGTATGAATctga----aa
s panTro5.chr5             125171272 134 + 181907262 ggaacaacagagttgttacatcttatatttccagaatctata-taacatctggcctatagtaagaactcaataatgatttattacattaa----attgaaATAAAATAGTTGATACTGGG-------CCTTAGTATGAATctga----aa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508240 134 + 183735486 ggaacaacagagttgttacatcttatatttccagaatctata-taacatctggcctatagtaagaactcaataatgatttattacattaa----attgaaATAAAATAGTTGATACTGGG-------CCTTAGTATGAATctga----aa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1699704 134 +   8933513 ggaacaacagagttgttacatcttatatttccagaatctata-taacatctggcctatagtaaggactcaataatgatttattacattaa----attgaaATAAAATAGTTGATACTGGG-------CCTTAGTATGAATctga----aa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139830500 134 + 163208435 GGAACAACAGAGTTGTTACATCTtatatttccagaatctata-taacatctggcctatagtaagaactcaataatgatttattacattaa----attgaaATAAAATAGTTGATACTGGG-------CCTTAGTATGAATctga----aa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122819823 131 + 180051392 GGAACCACAGAGttgttacatcctgtatttccagaatctgta-taacatctggcctatagt---aactcaataatgatttattacattaa----attgaaATAAAATAGTTGACACTGGG-------CCTTAGTATGAATCTGA----AA
i rheMac8.chr6             C 0 I 211
s macFas5.chr6             124243495 134 + 181584905 GGAACCACAGAGttgttacatcctgtatttccagaatctata-taacatctggcctatagtaagaactcaataatgatttattacattaa----attgaaATAAAATAGTTGACACTGGG-------CCTTAGTATGAATCTGA----AA
i macFas5.chr6             C 0 I 208
s macNem1.NW_012012355v1    16241371 134 +  18395747 ggaaccacagagttgttacatcctgtatttccagaatctata-taacatctggcctatagtaagaactcaataatgatttattacattaa----attgaaATAAAATAGTTGACACTGGG-------CCTTAGTATGAATCTGA----AA
i macNem1.NW_012012355v1   C 0 I 211
s cerAty1.NW_012002512v1     5253404 134 +  26952557 ggaaccacggagttgttacatcctgtatttccagaatctata-taacacctggcctatagtaagaactcaataatgatttattacattaa----attgaaATAAAATAGTTGACACTGGG-------CCTTAGTATGAATCTGA----AA
i cerAty1.NW_012002512v1   C 0 I 219
s chlSab2.chr23             28355198 134 +  82825804 GGAACCACAGAGttgttacatcctgtatttccagaatctata-taacatctggcctatagtaagaactcaataatgatttattacattaa----attgaaATAAAATAGTTGACACTGGG-------CCTTAGTATGAATCTGA----AA
i chlSab2.chr23            C 0 I 212
s manLeu1.NW_012103321v1     4021398 134 -   4237731 ggaaccacagagttgttacatcctgtatttccagaatctata-taacatctggcctatagtaagaactcaataatgatttattacattaa----attgaaGTAAAATAGTTGACACTGGG-------CCTTAGTATGAATCTGa----aa
i manLeu1.NW_012103321v1   C 0 I 211
s colAng1.NW_012119644v1      292745 134 -   1175262 ggaaccacagagttgttacatcctgtatttccagaatctgta-taacatctggcgtatagtaagaactcaataatgatttcttacattaa----attgaaATAAAATAGTTGACACTGGG-------CCTTAGTATGAATCTGa----aa
i colAng1.NW_012119644v1   C 0 I 223
s calJac3.chr2             123636596 132 - 204313951 GGAACCACAGAGTTCTTACATCCTCTAGTTCCAGAATCTATA-TAACCTCTGGTCTATAGTAAGAACTCAATACTGatttattatattaa----attgaaataaaataGTTCATACTGGG-------CCTTAGTATGAATCTGA------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55681541 132 -  71252344 ggaactatagagttcttacatcctctagttccagaatctata-taacatctggcctgtagtaagaactcaatactgatttattacattaa----attgaaATAAAATAGTTGACACTGGG-------CCTTAGTATGAATCTGA------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1385532 134 -   1400280 GGAACCACAGAGTTCTTACATCCTTTAGTTCCAGAATCTATA-TAACATCTGACCTATAGTAAGAACTCAATCCTGATTTATTACATTAA----ATTGAAATAAAATAGTTGATACTGGG-------CCTTAGTTTGAATCTGAAA----
i cebCap1.NW_016107829v1   C 0 I 210
s aotNan1.NW_018505940v1    13175853 134 -  42888418 GGAACCACAGAGTTCTTACATCCTCTAGTTCCAGAATCTACA-TAACATCTGGCCTGTAGTAAGAACTCAATACTGATTTATTACATTAA----ACTTAAATAAAATAGTTGATACTGGG-------CCTTAGTATGGATCTGA--AA--
i aotNan1.NW_018505940v1   C 0 I 210
s proCoq1.NW_012155062v1     3566642 133 +  11683526 aggaccatacactggtcacatc-tatatttctagaatctaca-cagtatctggcctatagtaagaacccaatactaatttattaaatTGG----ATCTAAATATAATAGTTGATATTGAG-------CTTTAGTATGAATATGA----AA
i proCoq1.NW_012155062v1   C 0 I 240
s otoGar3.GL873679           3053369 125 +   4132165 aggaccacatagtggtcaca---------tctagaatctatg-cagaatctggcctatagtaagatctcaatagtaatgtattgaatTGT----ACCTGAATAAAATAGTTGAGACTTGG-------CTTTAGTATGAATCTGA----AA
i otoGar3.GL873679         C 0 I 1611
s mm10.chr18                55499314 136 +  90702639 -TGGCCATAAAA--GCTGCATG-TGTATTAACAGGATCTGCACTGGGTTCTGGTATAAACAAAGAGTTCAATACTGACTGATTT--TTGA----CCCTCAATAAAATAGCTGCTAGTAGGACTTTTACTTTAATCTGAATATGA----AA
i mm10.chr18               C 0 I 89
s canFam3.chr11             14900612 135 +  74389097 GGCAATGCTGGGTTCATAT---TTGTATTTCTAGAATCTAAA-CAGATTTTAGCCTTCAGTTAGAACTCAATATTGATTTATTAAATTAATTGGATCTAAATAAAATAGTTGATACTGTA-------TCTGCATATGAATCTGA----AA
i canFam3.chr11            C 0 I 24
e micMur3.chr12             60527525 357 + 108143057 I
e dasNov3.JH567306           2608941 870 +   3667625 I

a score=12171.000000
s hg38.chr5_KI270796v1_alt     61300 24 +    172708 ---------------------------------------------------------------------cataactgaaacatatctgaaaca
s panTro5.chr5             125171406 24 + 181907262 ---------------------------------------------------------------------cataactgaaacatatctgaaaca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508374 24 + 183735486 ---------------------------------------------------------------------cataactgaaacatatctgaaaca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1699838 24 +   8933513 ---------------------------------------------------------------------cataactgaaacatatctgaaaca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139830634 24 + 163208435 ---------------------------------------------------------------------cataactgaaacatatctgaaaca
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123636728 21 - 204313951 ------------------------------------------------------------------------AAATGAAAAAAAAAATAAAAG
i calJac3.chr2             C 0 I 6
s saiBol1.JH378106          55681673 21 -  71252344 ------------------------------------------------------------------------AAATGAAAAAAATATAAAAAA
i saiBol1.JH378106         C 0 I 6
s canFam3.chr11             14900771 93 +  74389097 TATAGCTGAGTATTACTGTATTGCAATACAGAAACTATTCATTTGGTTTACTGAATATATATTTAGTACCAAAATTTGAACAGGTTTGAAAAT
i canFam3.chr11            I 24 C 0
e micMur3.chr12             60527525 357 + 108143057 I
e proCoq1.NW_012155062v1     3566775 240 +  11683526 I
e manLeu1.NW_012103321v1     4021532 211 -   4237731 I
e chlSab2.chr23             28355332 212 +  82825804 I
e cerAty1.NW_012002512v1     5253538 219 +  26952557 I
e macNem1.NW_012012355v1    16241505 211 +  18395747 I
e macFas5.chr6             124243629 208 + 181584905 I
e rheMac8.chr6             122819954 211 + 180051392 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e aotNan1.NW_018505940v1    13175987 210 -  42888418 I
e cebCap1.NW_016107829v1     1385666 210 -   1400280 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I
e colAng1.NW_012119644v1      292879 223 -   1175262 I

a score=6679.000000
s hg38.chr5_KI270796v1_alt     61324 3 +    172708 taa
s panTro5.chr5             125171430 3 + 181907262 taa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508398 3 + 183735486 taa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1699862 3 +   8933513 taa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139830658 3 + 163208435 taa
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124243837 3 + 181584905 TAT
i macFas5.chr6             I 208 C 0
s calJac3.chr2             123636755 3 - 204313951 TAG
i calJac3.chr2             I 6 C 0
s saiBol1.JH378106          55681700 3 -  71252344 TAG
i saiBol1.JH378106         I 6 C 0
s canFam3.chr11             14900864 3 +  74389097 TAA
i canFam3.chr11            C 0 I 83
e micMur3.chr12             60527525 357 + 108143057 I
e proCoq1.NW_012155062v1     3566775 240 +  11683526 I
e manLeu1.NW_012103321v1     4021532 211 -   4237731 I
e chlSab2.chr23             28355332 212 +  82825804 I
e cerAty1.NW_012002512v1     5253538 219 +  26952557 I
e macNem1.NW_012012355v1    16241505 211 +  18395747 I
e rheMac8.chr6             122819954 211 + 180051392 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e aotNan1.NW_018505940v1    13175987 210 -  42888418 I
e cebCap1.NW_016107829v1     1385666 210 -   1400280 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I
e colAng1.NW_012119644v1      292879 223 -   1175262 I

a score=26447.000000
s hg38.chr5_KI270796v1_alt     61327 3 +    172708 ttg
s panTro5.chr5             125171433 3 + 181907262 ttg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508401 3 + 183735486 ttg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1699865 3 +   8933513 ttg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139830661 3 + 163208435 TTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122820165 3 + 180051392 TTG
i rheMac8.chr6             I 211 C 0
s macFas5.chr6             124243840 3 + 181584905 TTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16241716 3 +  18395747 TTG
i macNem1.NW_012012355v1   I 211 C 0
s cerAty1.NW_012002512v1     5253757 3 +  26952557 TTG
i cerAty1.NW_012002512v1   I 219 C 0
s chlSab2.chr23             28355544 3 +  82825804 TTG
i chlSab2.chr23            I 212 C 0
s manLeu1.NW_012103321v1     4021743 3 -   4237731 TTG
i manLeu1.NW_012103321v1   I 211 C 0
s colAng1.NW_012119644v1      293102 3 -   1175262 TTG
i colAng1.NW_012119644v1   I 223 C 0
s calJac3.chr2             123636758 3 - 204313951 CTG
i calJac3.chr2             C 0 I 46
s saiBol1.JH378106          55681703 3 -  71252344 CTG
i saiBol1.JH378106         C 0 I 179
s canFam3.chr11             14900950 3 +  74389097 TTG
i canFam3.chr11            I 83 C 0
e micMur3.chr12             60527525 357 + 108143057 I
e proCoq1.NW_012155062v1     3566775 240 +  11683526 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e aotNan1.NW_018505940v1    13175987 210 -  42888418 I
e cebCap1.NW_016107829v1     1385666 210 -   1400280 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I

a score=270285.000000
s hg38.chr5_KI270796v1_alt     61330 30 +    172708 taacatatctg-------aaaACTTCATTAAATGTT--C
s panTro5.chr5             125171436 30 + 181907262 taacatatctg-------aaaATTTCATTAAATGTT--C
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508404 30 + 183735486 taacatatctg-------aaaATTTCATTAAATGTT--C
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1699868 30 +   8933513 taacatatctg-------aaaACTTCATTAAACATT--C
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139830664 30 + 163208435 TAACGTATCTG-------AAAATTTCATTAAATGTT--A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122820168 30 + 180051392 TAACATATCTG-------AAAACttcattaaatttt--a
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124243843 30 + 181584905 TAACATATCTG-------AAAACttcattaaatttt--a
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16241719 30 +  18395747 TAACATATCTG-------AAAACttcattaaatttt--a
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5253760 30 +  26952557 TAACATATCTG-------AAAACTTCATTAAATGTT--A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28355547 30 +  82825804 TAACATATCTG-------AAAACTTCATTAAATGTT--A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4021746 30 -   4237731 TAACATATCTG-------AAAACttcattaaatttt--a
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      293105 30 -   1175262 TAACATATCTG-------AAAACTTCATTAAATGTT--A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123636807 37 - 204313951 --ATATGTATTTAGTACCAAAACTTGAGCAGGTGTGCAA
i calJac3.chr2             I 46 C 0
s saiBol1.JH378106          55681885 30 -  71252344 TAACATGTCTG-------AAAACTTCATTAAATATT--A
i saiBol1.JH378106         I 179 C 0
s cebCap1.NW_016107829v1     1385876 30 -   1400280 TAACATATCTG-------AAAACTTCATTAAATGTT--A
i cebCap1.NW_016107829v1   I 210 C 0
s aotNan1.NW_018505940v1    13176197 30 -  42888418 TAACATATCTG-------AAAATTTCATTAAATGTT--A
i aotNan1.NW_018505940v1   I 210 C 0
s canFam3.chr11             14900953 30 +  74389097 TAAAATACCCA-------CAAACTTTATTAAAACAT--A
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60527525 357 + 108143057 I
e proCoq1.NW_012155062v1     3566775 240 +  11683526 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I

a score=1062030.000000
s hg38.chr5_KI270796v1_alt     61360  83 +    172708 TTT-----------------------CATTTT------------------------------ACTTTGCCAAATGCCAGTCTGGTTACAAGCTGACACAGTTATACCATAGAGTTTAAAGTTGAAAGCAAAATGAT
s panTro5.chr5             125171466  83 + 181907262 TTT-----------------------CATTTT------------------------------ATTTTGCCAAATGCCAGTCTGGTTACAAGCTGACACAGTTATACCATAGAGTTTAAAGTTGAAAGCAAAATGAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508434  83 + 183735486 TTT-----------------------CATTTT------------------------------ATTTTGCCAAATGCCAGTCTGGTTACAAGCTGACACAGTTATACCATAGAGTTTAAAGTTGAAAGCAAAATGAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1699898  83 +   8933513 TTT-----------------------CATTTT------------------------------ACTTTGCCAAATGCCACTCTGGTTACAAGCTGACACAGTTATACCACAGAGTTTAAAGTTGAAAGCAAAATGAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139830694  83 + 163208435 TTT-----------------------CATTTT------------------------------ACTTTGCCAAATGCCAGTCTGGTTACAAGCTGACACAGTTATACCATAGAGTTTAAAGCTGAAAGCAAAATGAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122820198  83 + 180051392 ttt-----------------------catttc------------------------------acttTGCCACATGCCAGTCTGGTAACAAGCTGACACACTTATACCATAGAGTTTAAAGTTGAAAGCAAAATGAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124243873  83 + 181584905 ttt-----------------------catttc------------------------------acttTGCCACATGCCAGTCTGGTAACAAGCTGACACACTTATACCATAGAGTTTAAAGTTGAAAGCAAAATGAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16241749  83 +  18395747 ttt-----------------------catttc------------------------------acttTGCCACATGCCAGTCTGGTAACAAGCTGACACACTTATACCATAGAGTTTAAAGTTGAAAGCAAAATGAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5253790  83 +  26952557 TTT-----------------------CATTTC------------------------------ACTTTGCCACATGCCAGTCTGGTTATAAGCTGACACACTTATACCATAGAGTTTAAAGTTGAAAGCAAAATGAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28355577  83 +  82825804 TTT-----------------------CATTTC------------------------------ACTTTGCCACATGCCAGTCTGGTTACAAGCTGACACACTTATACCATAGAGTTTAAAGTTGAAAGCAAAATGAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4021776  83 -   4237731 ttt-----------------------catttc------------------------------acttTGCCACATGCCAGTCTGGTTACAAGCTGACACACTTATACCATAGAGTTTAAAGTTGAAAGCAAAATGAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      293135  83 -   1175262 TTT-----------------------CATTTC------------------------------ACTTTGCCACATGCCAGTCTGGTTACAAGCTGACACACTTATACCATAGAGTTTAAAGTTGAAAGCAAAATGAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123636844 136 - 204313951 TTTAAGGTGGAGTGGGGAGGGAGTAACATCTTCACTTCTTGATCTGAAGGGGTCTTGGGGAAAATTTGTCAAATGTCAGTATAGTTATAAGCTGACACAGTTATATCATAGAGTTTAAAGCTGAAAGCAAAATTAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55681915  78 -  71252344 TTT-----------------------CATTTT------------------------------ACTTTGTCAAATGTCAGTATAGTTACAAACTGATACAGTT-----ATAGAGTTTAAAGTTGAAAGCAAAATTAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1385906  83 -   1400280 TTT-----------------------CATTTT------------------------------ACTTTGTCAAATGTCAGTATAGTTACAAGCTGACACAGTTATATCATAGAGTTTAAAGTTGAAAGCGAAATTAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13176227  78 -  42888418 TTT-----------------------CATTTT------------------------------ACTTTGTCAAATGTCAGTATAGTTACAAGCTGACACAGTT-----ATAGAGTTTAAAGTTGAAAGCAAAATTAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60527882  83 + 108143057 TTT-----------------------CATTCT------------------------------ACTTTGCCAAATGCCAGTGTGGTTACAAGCTGACACAGTTACGCCATAGAGCTTAAAGTTGAAAGCAAAATGAT
i micMur3.chr12            I 357 I 111
s proCoq1.NW_012155062v1     3567015  83 +  11683526 TTT-----------------------CATTCT------------------------------ACTTTGCCAAATGCCAGTGTGGTTACAAGCTGACACAGTTATGCCATAGAGCTTAAAGTTGAAAGCAAAATGGT
i proCoq1.NW_012155062v1   I 240 C 0
s canFam3.chr11             14900983  83 +  74389097 TTT-----------------------CATTCT------------------------------ACTTTGTCAAATGCCAGCTTGGTTGCAAGCTGACACAGTTAGGTCATATAGTTTAACATTTAAAGTAAAATGAT
i canFam3.chr11            C 0 C 0
e otoGar3.GL873679           3053494 1611 +   4132165 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450  89 +  90702639 I

a score=2167454.000000
s hg38.chr5_KI270796v1_alt     61443 201 +    172708 TTTGTGTCTTCCTTGATTATGGCTTCCTCAGTGCACTGTTATG-AAAAAAGTCGATTGTATG-TTTCCTGCTAGCCTTTTTCCTTCAGTGTAGCTCCC-TATGTGCATGGAGTGGGTCACATATG---TTTTCTCCATGTTGCTGGTATGCTTTGGAC-ATGGACATCACCATGAGTAGTATCTGTCTCTCTAACTAT---CCATCATCAT
s panTro5.chr5             125171549 204 + 181907262 TTTGTGTCTTCCTTGATTATGGCTTCCTCAGTGCACTGTTATG-AAAAAAGTCGATTGTATG-TTTCCTGCTAGTCTTTTTCCTTCAGTGTAGCTCCC-CATGTGCATGGAGTGGGTCACATATGTCTTCTTCTCCACGTTGCTGGTATGCTTTGGAC-ATGGACATCATCATGAGTAGTATCTGTCTCTCTAGCTAT---CCATCATCAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508517 204 + 183735486 TTTGTGTCTTCCTTGATTATGGCTTCCTCAGTGCACTGTTATG-AAAAAAGTCGATTGTATG-TTTCCTGCTAGCCTTTTTCCTTCAGTGTAGCTCCC-CATGTGCATGGAGTGGGTCACATATGTCTTCTTCTCCACGTTGCTGGTATGCTTTGGAC-ATGGACATCATCATGAGTAGTATCTGTCTCTCTAGCTAT---CCATCATCAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1699981 204 +   8933513 TTTGTGTCTTCCTTGATTACGGCTTCCTCAGTGCACTGTTATG-AAAAAAGTCGATTGTATG-TTTCCTGCTAGCCTGTTTCCTTCAGTGCAGCTCCC-CATGTGCAGGGAGTGGGTCACATATGTCTTCTTCTCCATGTTGCTGGTATGCTTTGGAC-ATGGACATTATCATGAGTAGTATCTGTCTCTCTAGCTAT---CCATCATCAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139830777 204 + 163208435 TTTGTGTCTTCCTTGATTATGGTTGCCTCAATGTACTGCTATG-AAAAAAGTCGTTTGTATG-TTTCCTGCTAGCCTTTTTCCTTTGGTGCAGCTCCC-CACTTGAATGGAGTGGGTCACATATGTCTTCTTCTCCATGTTGCTGGTATGCTTTGGAC-ATGGACATCATCATGAGTAGTATCTGTCTCTCTAGCTAT---CCATCATCAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122820281 202 + 180051392 TTTCTGTCTTCCTTGATTATGGCTGCCTCAGTGTACTGTTATG-AAAAAAGTCGATTGTATG-TTTCCTGCTAGCCTTTTTCCTTCAGTGCAGCTCCC-CACGTGCATGGAGTGGGTCACACATGTCTTCTTCTCCATGTTGCTGGTGTGCTTTGGAC-ATGGATTTCATCATGGGTAGTATCTG--TCTCTAGCTAT---CCATCATCAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124243956 202 + 181584905 TTTCTGTCTTCCTTGATTATGGCTGCCTCAGTGTACTGTTATG-AAAAAAGTCGATTGTATG-TTTCCTGCTAGCCTTTTTCCTTCAGTGCAGCTCCC-CACGTGCATGGAGTGGGTCACACATGTCTTCTTCTCCATGTTGCTGGTGTGCTTTGGAC-ATGGATTTCATCATGGGTAGTATCTG--TCTCTAGCTAT---CCATCATCAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16241832 203 +  18395747 TTTCTGTCTTCCTTGATTATGGCTGCCTCAGTGTACTGTTATGAAAAAAAGTCGATTGTATG-TTTCCTGCTAGCCTTTTTCCTTCAGTGCAGCTCCC-CACATGCATGGAGTGGGTCACACATGTCTTCTTCTCCATGTTGCTGGTGTGCTTTGAAC-ATGGATTTCATCATGGGTAGTATCTG--TCTCTAGCTAT---CCATCATCAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5253873 199 +  26952557 TTTATGTCTTCCTTGATTATGGCTGCCTCAGTGTACTGTTATG-AAAAAAGTCGATTGTATG-TTTCCTGCTAGCCTTTTTCCTTCAGTGCAGTTCCC-CACGTGCATGGAGTGGGTCACACATG---TCTTCTCCATGTTGCTGGTGTGCTTTGGAC-ATGGATATCATCATGGGTAGTATCTG--TCTTTAGCTAT---CCATCATCAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28355660 202 +  82825804 TTTATGTCTTCCTTGATTATGGCTGGCCCAGTGTACTGTTATG-AAAAAGGTCGACTGTATG-TTTCCTGCTAGCCTTTTTCCTTCAGTGCAGTTCCC-CACATGCATGGAGTGGGTCACACATGTCTTCTTCTCCATGTTGCTGGTGTGCTTTGGAC-ATGGATATCATCATGGGTAGTATCTG--TCTTTAGCTAT---CCATCATCAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4021859 202 -   4237731 TTTATCTCTTCCTTGATTATGGCTGCCTCAGTGTACTGTTATG-AAAAAAGTCGATTGTATG-TTTCCTGCTAGCCTTTTTCCTTCAGTGCAGCTCCC-CACATGCATGGAGTGGGTCACACATGTCTTCTTCTCCATGTTGCTGGTGTGCTTTGGAC-ATGGATTTCATCATGGGTAGTATCTG--TCTCTAGCTAT---ACATCATCAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      293218 203 -   1175262 TTTATGTCTTCCTTGATTATGGCTGCCTCAGTGTACTGTTACG-AAAAAAGTCGATTGTATG-TTTCCTGCTAGCCTTTTTCCTTCAGTGCAGCTCCC-CACGTGCATGGAGTGGGTCACACATGTCTTCTTTTCCATGTTGCTGGTGTGCTTTGGACAATGGATATCATCATGGGTAGTATCCG--TCTCTAGCTAT---CCATCATCAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123636980 207 - 204313951 TTTATATCTTTTCTGATTATGGCTACCTCAGTGTACTGTTATG-AAAAAAGTCAATTGTATG-TTTCCTGCTAGCCTTTATCCTTCAGTACAGCTCTC-TGTGTGCATGGAGTGGGTCACATATGTCTTCTTCTCTGTGTTGTTGGTATGATTTGGGC-ATGGAAATCATCATAAGTGGCATCTGTCTCTCTAGCTATTCATCATCATCAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55681993 204 -  71252344 TCTGTGTCTATTCTCATTATGGCTATCTCAGCGTACTGTTATG-AAAAAAGTCTATTGTATG-CTTCCTGCTAGCCTTTATCCTTCAGTACAGCTCCC-CGTGTGCATGGAGTGGGTCACGTATGTCTTCTTCTCCATGTTGTTGGTATGATTTGGAC-ACGGACATCATCATGAGTGGTATCTGTCTCTCTACATAT---CCATCATCAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1385989 204 -   1400280 TGTGTGTCTTTTCTCATTATGGCTTCCTCAGCATACTGTTATG-AAAAAAGTCGATTGTATG-CTTCCTGCTAGGCTTTATCCTTCAGTACAGCTCCC-CGTGTGCATGGAGTGCGTCACATATGTCTTCTTCTCTGTGTTGTTGGTATGATTTGGAC-ATGGACATCATCATGAGTGGTAACTGTCTCTCTACCTAT---CCATCATCAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13176305 204 -  42888418 TTTATGTCTTTTCTGATTCTGGCTACCTCAGTGTACTGTTATG-AAAAAAGTTGATTGTATG-TTTCCTGTTAGCCTTTATCCTTCAGTACAGCTCCC-CATGTGCATGGAGTGGGTCACATATGTCTTCTTCTCCGTGTTGTCGGTATGATTTGGAC-ATGGACATCATCATGAGTGGTATCTGTCTCTCTAGCTAT---CCATCATCAT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3567098 180 +  11683526 GATGTGTCTTCCCTGATTGTG-----------------------GCAAAAGCAGACTGTATG-TTTTCTGCTGGCCTTTATCCTTCACTGCAGCCTCC-CACATGCATAAAGTGGATGACA-GCATTTTCTTCCCCATGTTGCTGGTATGCTTTGGGC-ATAGACAACATCA-GACTGGTATCTGTCTCTCCTTCTAT---CCATTGTTAT
i proCoq1.NW_012155062v1   C 0 I 58
s canFam3.chr11             14901066 189 +  74389097 TATTTGCCCTCCTTGATAGTGGCTGCCTTACAAAACTGCTATG-AAAAAGGCAGAGTGTATGCTTTTATGCTGGCCTCTCTTCTTCAGTGTAGCCCCCTCACATGCACAAACTGAACCAGG-ATGTTTTCTTCTCCATATAGCTGGTATGCCTTGGGC-ATGAATCC--------ATACTATCTG--------GAGAT---CCATCATTAT
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60527965 111 + 108143057 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450  89 +  90702639 I

a score=268499.000000
s hg38.chr5_KI270796v1_alt     61644 26 +    172708 ---GTCACAT-TAGACTTTAGTAAGTCCTC
s panTro5.chr5             125171753 26 + 181907262 ---CTCACAT-TAGACTTTAGTAAGTCCTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508721 26 + 183735486 ---CTCACAT-TAGACTTTAGTAAGTCCTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700185 26 +   8933513 ---CTCACAT-TAGACTTTAGTAAGTCCTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139830981 26 + 163208435 ---CTCACAT-TAGACTTTAGTAAGTCCTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122820483 26 + 180051392 ---CTCACTT-TAGACATTAGTAAGTCCTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124244158 26 + 181584905 ---CTCACTT-TAGACATTAGTAAGTCCTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242035 26 +  18395747 ---CTCACTT-TAGACATTAGTAAGTCCTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5254072 26 +  26952557 ---CTCACTT-TAGACATTAGTAAGTCCTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28355862 26 +  82825804 ---CTCACTT-TAGACATTAGTAAGTCCTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4022061 26 -   4237731 ---CTCACTT-TAGACATTAGTAAGTCCTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      293421 26 -   1175262 ---CTCACTT-TAGACATTAGTAAGTCCTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123637187 26 - 204313951 ---CACACAT-TAGACATTAGTAAGTCCTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55682197 26 -  71252344 ---CTCACAT-TAGACATTAGTAAGTCTTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1386193 26 -   1400280 ---TACTCAT-TAGACATTAGTAAGTCCTC
i cebCap1.NW_016107829v1   C 0 I 94
s aotNan1.NW_018505940v1    13176509 26 -  42888418 ---CACACAT-TAGACATTAGTAAGTCCTC
i aotNan1.NW_018505940v1   C 0 I 1735
s canFam3.chr11             14901255 30 +  74389097 ATCCTCACATCTAGACATAAGCAAGTCCTC
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60527965 111 + 108143057 I
e proCoq1.NW_012155062v1     3567278 58 +  11683526 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I

a score=49423.000000
s hg38.chr5_KI270796v1_alt     61670 15 +    172708 GTAAAGGC-ATAGAAA
s panTro5.chr5             125171779 13 + 181907262 GCAAAGGC-ATAGA--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508747 12 + 183735486 GCAAAGGC-ATAG---
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700211 15 +   8933513 CCAAAGGC-GTAGAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831007 15 + 163208435 CCCAAGGT-GTAGAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122820509 16 + 180051392 CCAAAGGAGGTCGAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124244184 16 + 181584905 CCAAAGGAGGTCGAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242061 16 +  18395747 CCAAAGGAGGTCGAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5254098 16 +  26952557 CCAAAGGAGGTTGaaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28355888 16 +  82825804 TCAAAGGAGGTTGaaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4022087 16 -   4237731 CCAAAGGAGGTTGaaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      293447 16 -   1175262 CCAAAGGAGGTCGAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123637213 16 - 204313951 CCAAAAGAGATaagaa
i calJac3.chr2             C 0 I 68
s saiBol1.JH378106          55682223 16 -  71252344 CCAAAAGAGTTaagaa
i saiBol1.JH378106         C 0 I 31
s canFam3.chr11             14901285 15 +  74389097 CCAAAGGG-ATTGACA
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60527965 111 + 108143057 I
e proCoq1.NW_012155062v1     3567278 58 +  11683526 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e aotNan1.NW_018505940v1    13176535 1735 -  42888418 I
e cebCap1.NW_016107829v1     1386219 94 -   1400280 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I

a score=18995.000000
s hg38.chr5_KI270796v1_alt     61685 11 +    172708 AG----------AAAAAAAAA--
s panTro5.chr5             125171792  9 + 181907262 ------------AAAAAAAAA--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508759  9 + 183735486 ------------AAAAAAAAA--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700226 12 +   8933513 AG---------AAAAAAAAAA--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831022 10 + 163208435 A-----------GAAAAAAAA--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122820525 15 + 180051392 AG------AAAAAAAAAACAA--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124244200 15 + 181584905 AG------AAAAAAAAAACAA--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242077 14 +  18395747 AG-------AAAAAAAAACAA--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5254114 21 +  26952557 agaaaaaaaaaaaaaaaacaa--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28355904 18 +  82825804 ag---aaaaaaaaaaaaaaaa--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4022103 18 -   4237731 ag---aaaaaaaaaaaaacaa--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      293463 14 -   1175262 AG-------AAAAAAAAACAA--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123637297 11 - 204313951 ----------agaaagaaaga--
i calJac3.chr2             I 68 C 0
s saiBol1.JH378106          55682270 11 -  71252344 ----------agaaagaaaga--
i saiBol1.JH378106         I 31 C 0
s cebCap1.NW_016107829v1     1386313 11 -   1400280 ----------agaaagaaaga--
i cebCap1.NW_016107829v1   I 94 C 0
s canFam3.chr11             14901300 12 +  74389097 -----------ATGAAGATAACT
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60527965 111 + 108143057 I
e proCoq1.NW_012155062v1     3567278 58 +  11683526 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e aotNan1.NW_018505940v1    13176535 1735 -  42888418 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I

a score=32383.000000
s hg38.chr5_KI270796v1_alt     61696 3 +    172708 AGC
s panTro5.chr5             125171801 3 + 181907262 AGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508768 3 + 183735486 AGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700238 3 +   8933513 AGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831032 3 + 163208435 AGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122820540 3 + 180051392 AGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124244215 3 + 181584905 AGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242091 3 +  18395747 AGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5254135 3 +  26952557 aGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28355922 3 +  82825804 aGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4022121 3 -   4237731 aGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      293477 3 -   1175262 AGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123637308 3 - 204313951 GAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55682281 3 -  71252344 GGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1386324 3 -   1400280 GGC
i cebCap1.NW_016107829v1   C 0 C 0
s proCoq1.NW_012155062v1     3567336 3 +  11683526 AGC
i proCoq1.NW_012155062v1   I 58 C 0
s canFam3.chr11             14901312 3 +  74389097 AGC
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60527965 111 + 108143057 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e aotNan1.NW_018505940v1    13176535 1735 -  42888418 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I

a score=401974.000000
s hg38.chr5_KI270796v1_alt     61699 36 +    172708 AATCCCATCTCCTTGAAGAGAAGATTTCATTTATGC
s panTro5.chr5             125171804 36 + 181907262 AATCCCATCTCCTTGAAGAGAAGATTTCACTTATGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508771 36 + 183735486 AATCCCATCTCCTTGAAGAGAAGATTTCACTTATGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700241 36 +   8933513 AATCCCGTCTCCTTGAAGAGAAGATTTCATTTATGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831035 31 + 163208435 AATCCCATCTCCTC-----GAAGATTTCATTTATGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122820543 36 + 180051392 AATCCAATCTCCTTGAAGAGAGGATTTCATTTATGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124244218 36 + 181584905 AATCCAATCTCCTTGAAGAGAGGATTTCATTTATGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242094 36 +  18395747 AATCCAATCTCCTTGAAGAGAGGATTTCATTTATGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5254138 36 +  26952557 AATCCAATCTCCTTGAAGAGAAGATTTCATTTATGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28355925 36 +  82825804 AATCCAATCTCCTTGAAGAGAAGATTTCATTTATGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4022124 36 -   4237731 AATCCAATCTTCTTGAAGAGAAGATTTCATTTATGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      293480 36 -   1175262 AGTCCAATCTCCTTGAAGAGAAGATTTCGTTTATGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123637311 36 - 204313951 AATCCCATCTCCTTAAAGAGAAGATTTCATTTGTTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55682284 36 -  71252344 AATCCCATCTCCTTAAAGAGAAGATTTCATTTATAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1386327 36 -   1400280 AATCCCATCTCCTTAAAGAGAAGACTTCATTTATGC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13178270 36 -  42888418 AATCCCATCTCCTTAAAAAGAAGATTTCATTTATGC
i aotNan1.NW_018505940v1   I 1735 C 0
s proCoq1.NW_012155062v1     3567339 36 +  11683526 AATCCCTTTTCCTTAAAGAGAAGATTGCATTTATGC
i proCoq1.NW_012155062v1   C 0 C 0
s canFam3.chr11             14901315 36 +  74389097 AAATCCTGCTCTCTAAAGAGAAGACTGAGTTTACAT
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60527965 111 + 108143057 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I

a score=816867.000000
s hg38.chr5_KI270796v1_alt     61735 64 +    172708 TTGAAGATGTAATTGACAGTTACCCTATATTGGTCAATGATGGGCATTCAACTtcctctctttt
s panTro5.chr5             125171840 64 + 181907262 TTGAAGATGTAATTGACAGTTACCCTATATTGGTCAATGATGGGCATTCAACTttctctctttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508807 64 + 183735486 TTGAAGATGTAATTGACAGTTACCCTATATTGGTCAATGATGGGCATTCAACTttctctctttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700277 64 +   8933513 TTGAAGATGTAATTGACAGTTACCCTATATTGGTCAATGATGGGCATTCAACTtcctctctttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831066 64 + 163208435 TTGAAGATGTAATTGACAGTTACCCTATATTGGTCAATGATGGGCATTCAACTtcctctctttt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122820579 61 + 180051392 TTGAAGATGTAATT---AGTTACCCTATACTGGTCAATGATGGGCATTCAACTtcctctctttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124244254 61 + 181584905 TTGAAGATGTAATT---AGTTACCCTATACTGGTCAATGACGGGCATTCAACTtcctctctttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242130 61 +  18395747 TTGAAGATGTAATT---AGTTACCCTATACTGGTCAATGACGGGCATTCAACTtcctctctttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5254174 63 +  26952557 TTGAAGATGTAATT-ACAGTTACCTTATACTGGTCAATGACGGGCATTCAACTtcctctctttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28355961 63 +  82825804 TTGAAGATGTAATT-ACAGTTACCCTATACTGGTGAATGACGGGCATTCAACTtcctctctttt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4022160 63 -   4237731 TTGAAGATGTAATT-ACAGTTACCCTATACTGGTCAATGACGGGCATTCAACTtcctctctttt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      293516 62 -   1175262 TTG-AGATGTAATT-ACAGTTACCCTATACTGGTCAATGATGGGCATTCAACTtcctctctttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123637347 64 - 204313951 TTGAAGATGTAATTGACAGCTACCCAGTACTGGTCAATGATGAGCATTCAACTttctctctttt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55682320 61 -  71252344 TT-AAGATGTAATTGACAGCTACCCTATACTTGTCAGTGATGAGCATTCAActttctctttt--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1386363 64 -   1400280 TTGAAGATGTAATTGACAGCTACCCTATGCTGGTCAATGAAGAGCATTCAACTttctctctttt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13178306 64 -  42888418 TTGAAGATGTAATTGACAGCTACCCTATACTGGTCAGTGATGAGTATTCAACTttctctctttt
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60528076 64 + 108143057 TTGAAGATGTGACTGGCAGTTACCCTCTACTGGTCAAGGATGGGCATTCAACTTCCTCTCTTTT
i micMur3.chr12            I 111 I 224
s proCoq1.NW_012155062v1     3567375 64 +  11683526 TTGAAGATGTGATTGGCAGTTACCCTACACTGGTCAATGAAGGGCATTCAACTtcctctctttt
i proCoq1.NW_012155062v1   C 0 C 0
s canFam3.chr11             14901351 64 +  74389097 TTGAGAATATAATTGACAGTTACCCTATACGGGTCAATGATGGGCTTTCAATAttctctttttc
i canFam3.chr11            C 0 C 0
e otoGar3.GL873679           3053494 1611 +   4132165 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I

a score=2926812.000000
s hg38.chr5_KI270796v1_alt     61799 254 +    172708 aatcattttccacaaccattccatcaccaagatatgtcagcaaaaccttcatgatatatcttaaacctgaccaattttgtactactaccactctagtccctctcttgtctgaactcatatttgttatagaataactttcctaacttgctgtctggttttcattcttgatgaaatagtctccacctgcaatcacagtg---agaacttgaaattgtaaattaaagcatgtcactcctctgttttca-----aacctccattgg
s panTro5.chr5             125171904 253 + 181907262 aatcattttccacatccattccatcaccaagatatgtcagcaaaaccttcatgatatatcttaaacctgaccaattttgtactactaccactctagtccctctcttgtctgaactcatatttgttataaaataacttttctaacttgctgtctggttttcattcttgatg-tctattctccacctgcaaccacagtg---agaacttgaaattgtaaattaaagcatgtcactcctctgttttca-----aacctccattgg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126508871 252 + 183735486 aatcattttccacatccattccatcaccaagatatgtcagcaaaaccttcatgatatatcttaaacctgaccaattttgtactactaccactctagtccctctcttgtctgaactcatatttgttataaaataacttttctaacttgctgtctggttttcattcttgatg-tctattctccacctgcaaccacagtg---agaacttgaaattgtaaattaaagcatgtcactcctctgttttca-----aacctcca-tgg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700341 256 +   8933513 aatcattttccacatccattccatcaccaagatatgtcagcaaaaccttcatgatatatcttaaacctgaccaattttgtactgctaccactctagtccctctgttgtctgaactcatatttgttataaaataacttttctaacttgctgtctggttttcattcttgatg-tctattctccacctgcgaccacagtgagaagaacttgaaattgtaaattaaagcatgtcactcctctgttttca-----aacctccattgg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831130 253 + 163208435 aatcattttccacatccattccatcaccaagatatgtcagcaaaaccttcatgatatatcttaaacctgaccaattttgtactactaccaccctagtccctctcttgtgtgaacttttatttgttataaaataacttttctaacttgccgtctggttttcattcttgatg-tctattctccacctgcaaccacagtg---agaacttgaaattgtaaattaaagtgtgtcactcctctgttttca-----agcctccattgg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122820640 253 + 180051392 aatcattttccacatccatttcgtcaccaagatatgtcagcaaaaccttcatgatatatcttaaacctgaccaattttgtgctactaccaccctagtccctctcttgtctgaacttatatttattataaaataacttttctaacttgccttctggctttcattcttgata-tctattctccacctgcaaccacagtg---agaacttgaaattgtaaatcaaagcatgtcactcctctgttttca-----aacctccattgg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124244315 253 + 181584905 aatcattttccacatccatttcgtcaccaagatatgtcagcaaaaccttcatgatatatcttaaacctgaccaattttgtgctactaccaccctagtccctctcttgtctgaacttatatttattataaaataacttttctaacttgccttctggctttcattcttgata-tctattctccacctgcaaccacagtg---agaacttgaaattgtaaatcaaagcatgtcactcctctgttttca-----aacctccattgg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242191 253 +  18395747 aatcattttccacatccatttcgtcaccaagatatgtcagcaaaaccttcatgatatatcttaaacctgaccaattttgtgctactaccaccctagtccctctcttgtctgaacttatatttattataaaataacttttctaacttgccttctggctttcattcttgata-tctattctccacctgcaaccacagtg---agaacttgaaattgtaaatcaaagcatgtcactcctctgttttca-----aacctccattgg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5254237 253 +  26952557 aatcattttccacatccatgtcgtcaccaagatatgtcagcaaaaccttcataatatatcttaaacctgaccaattttgtgctactaccaccctagtccctctcttgtctgaacttatatttattatgaaataacttttctaacttgccttctggctttcattctcgatg-tctattctccacctgcaaccacagtg---agaacttgaaattgtaaatcaaagcatgtcactcctctgttttca-----aacttccattgg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28356024 253 +  82825804 aatcattttccacatccatttcgtcaccaagatatgtcagcaaaaccttcataatatatcttaaacctgaccaattttgtgctactaccaccctagtccctctcttgtctgaacttatatttattatgaaatagcttttctaacttgccttctggctttcattcttgatg-tctattctccacctgcaaccacagtg---agaacttgaaattgtaaatcaaagcatgtcactcctctgttttca-----aacctccattgg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4022223 253 -   4237731 aatcattttccacatccatttcgtcaccaagatatgtcagcaaaaccttcatgatatatcttaaacctgaccaattttgtgctactaccaccctagtccctctcttgtctgaacttatatttattataaaataacttttctaacttgccttctggctttcattcttgata-tctattctccacctgcaaccacagtg---agaacttgaaattgtaaatcaaagcatgtcactcctctgttttca-----aacctccattgg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      293578 253 -   1175262 aatcattttccacatccattttgtcaccaagatatgtcagcaaaaccttcatgatatatcttaaacctgaccaattttgtgctgctgccaccctagtccctctcttgtctgaacttatatttcttataaaataacttttctaacttgccttctggctttcattgttgatg-tctgttctccacctgcaaccacagtg---agaacttgaaattgtaaatcaaagcatgtcactcctctgttttca-----aacttccattgg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123637411 252 - 204313951 aatagttttccacatcaattccatcaccaagatacctcagcaaaaccttcaagatatatcttaaacctgatcaatttcgtactactaccttcctagtccctctcttgtctgaacttatatttgttataaaataacttt-ctaacttgccttttggctttcattcttgatg-tctattctccacctgcaactgaagtg---gaaacttgaaattgtaaatcaaagcatgttgctcctctgatttca-----aacctccattgg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55682381 247 -  71252344 ----gttttccgcatccattccgtcaccaaggcatgtcagcaaaaccttcaagatatatcttaaacctgaccaattttgtacttctaccatcctagtccctctcttgtctgaacttatatttgttataaaataacttt-ctaacttgccttttggctttcattcttgatg-tctattctccacctgcagccagagtg---g-aacttgaaattgtaaatcaaagtatgtcgctcctctgatttca-----aacctccattgg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1386427 252 -   1400280 aatcgttttccgcatccattgcatcaccaaggcatgtcagcaaagccttcaagatatatcttaaacctgaccaattttgtactactaccatcctagtccctctcttgtctgaacttatatttattataaaataacttt-ctaacttgccttttggctttcattcttgatg-tctattctccacctgcaaccagagtg---gagacttgaaattgtaaatcaaagcatgtcacttctctgatttga-----aacctccactgg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13178370 252 -  42888418 aattgttttccacatcaattccatcaccaagacatttcaacaaaaccttcaagatatatcttaaacctgaccaattttgtactgctatcatcctagtccctctcttgtctgaacttatatttgttgtaaaataacttt-ctaacttgccttttggctttcatttttgatg-tctattctccacctgcaaccagagtg---gaaacttgaaattgtaaatcaaagcatgttgctcctctgatttca-----aacttccattgg
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3567439 236 +  11683526 ---------cctcatc--------cagcaagacatatcagcaaaaccttcaaaatatattctaaacctgtccacttttgtactactaccaccccggtccatctcttgtctaaacttacatttgttatacaataacttttctcacttgccttctggctttcattctcgatc-tctattctctagctgcaaccagaatg---agaacttgaaattgtaaatcaaaacatgtccttcttctgttttca-----gtcctccatggg
i proCoq1.NW_012155062v1   C 0 C 0
s canFam3.chr11             14901415 242 +  74389097 ccttattttccacatacattccatcaggaagacatgtcagca---------------atcctaaatcctaccacatttttacaactatcactctggtccatctcttgcctgaatgtttatttgctatacaaaaatgactctaacttaccttctggctttcacttttgaaa-tctgtcctctaacttccacca-agtg---ttaacttgaaattgtaaataaaatcacatcactccttggttttcattgactgtcttcactgg
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60528140 224 + 108143057 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450  89 +  90702639 I

a score=23880.000000
s hg38.chr5_KI270796v1_alt     62053 2 +    172708 ct
s panTro5.chr5             125172157 2 + 181907262 ct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509123 2 + 183735486 ct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700597 2 +   8933513 ct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831383 2 + 163208435 ct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122820893 2 + 180051392 ct
i rheMac8.chr6             C 0 I 72
s macFas5.chr6             124244568 2 + 181584905 ct
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242444 2 +  18395747 ct
i macNem1.NW_012012355v1   C 0 I 57
s cerAty1.NW_012002512v1     5254490 2 +  26952557 ct
i cerAty1.NW_012002512v1   C 0 I 98
s chlSab2.chr23             28356277 2 +  82825804 ct
i chlSab2.chr23            C 0 I 83
s manLeu1.NW_012103321v1     4022476 2 -   4237731 ct
i manLeu1.NW_012103321v1   C 0 I 704
s colAng1.NW_012119644v1      293831 2 -   1175262 ct
i colAng1.NW_012119644v1   C 0 I 91
s calJac3.chr2             123637663 2 - 204313951 ct
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1386679 2 -   1400280 ct
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13178622 2 -  42888418 ct
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3567675 2 +  11683526 tt
i proCoq1.NW_012155062v1   C 0 C 0
s canFam3.chr11             14901657 2 +  74389097 ct
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60528140 224 + 108143057 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I
e saiBol1.JH378106          55682628 0 -  71252344 C

a score=4719.000000
s hg38.chr5_KI270796v1_alt     62055 2 +    172708 tc
s panTro5.chr5             125172159 2 + 181907262 tc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509125 2 + 183735486 cc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700599 2 +   8933513 tc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831385 2 + 163208435 tc
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123637665 2 - 204313951 tt
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1386681 2 -   1400280 tt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13178624 2 -  42888418 tt
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3567677 2 +  11683526 tc
i proCoq1.NW_012155062v1   C 0 C 0
s canFam3.chr11             14901659 2 +  74389097 tc
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60528140 224 + 108143057 I
e manLeu1.NW_012103321v1     4022478 704 -   4237731 I
e chlSab2.chr23             28356279 83 +  82825804 I
e cerAty1.NW_012002512v1     5254492 98 +  26952557 I
e macNem1.NW_012012355v1    16242446 57 +  18395747 I
e macFas5.chr6             124244570 0 + 181584905 C
e rheMac8.chr6             122820895 72 + 180051392 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I
e saiBol1.JH378106          55682628 0 -  71252344 C
e colAng1.NW_012119644v1      293833 91 -   1175262 I

a score=2552.000000
s hg38.chr5_KI270796v1_alt     62057 1 +    172708 c
s panTro5.chr5             125172161 1 + 181907262 c
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509127 1 + 183735486 c
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700601 1 +   8933513 c
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831387 1 + 163208435 c
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123637667 1 - 204313951 c
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1386683 1 -   1400280 c
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13178626 1 -  42888418 c
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14901661 1 +  74389097 t
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60528140 224 + 108143057 I
e proCoq1.NW_012155062v1     3567679 0 +  11683526 C
e manLeu1.NW_012103321v1     4022478 704 -   4237731 I
e chlSab2.chr23             28356279 83 +  82825804 I
e cerAty1.NW_012002512v1     5254492 98 +  26952557 I
e macNem1.NW_012012355v1    16242446 57 +  18395747 I
e macFas5.chr6             124244570 0 + 181584905 C
e rheMac8.chr6             122820895 72 + 180051392 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I
e saiBol1.JH378106          55682628 0 -  71252344 C
e colAng1.NW_012119644v1      293833 91 -   1175262 I

a score=3641.000000
s hg38.chr5_KI270796v1_alt     62058 2 +    172708 tt
s panTro5.chr5             125172162 2 + 181907262 tt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509128 2 + 183735486 tc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700602 2 +   8933513 tt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831388 2 + 163208435 tc
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123637668 2 - 204313951 tt
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1386684 2 -   1400280 tt
i cebCap1.NW_016107829v1   C 0 I 22
s aotNan1.NW_018505940v1    13178627 2 -  42888418 tt
i aotNan1.NW_018505940v1   C 0 I 22
e micMur3.chr12             60528140 224 + 108143057 I
e canFam3.chr11             14901662 0 +  74389097 C
e proCoq1.NW_012155062v1     3567679 0 +  11683526 C
e manLeu1.NW_012103321v1     4022478 704 -   4237731 I
e chlSab2.chr23             28356279 83 +  82825804 I
e cerAty1.NW_012002512v1     5254492 98 +  26952557 I
e macNem1.NW_012012355v1    16242446 57 +  18395747 I
e macFas5.chr6             124244570 0 + 181584905 C
e rheMac8.chr6             122820895 72 + 180051392 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I
e saiBol1.JH378106          55682628 0 -  71252344 C
e colAng1.NW_012119644v1      293833 91 -   1175262 I

a score=62211.000000
s hg38.chr5_KI270796v1_alt     62060 61 +    172708 cctccctccctccctc-------------------------ccttccttccttcctttcttccttccttcct---ctctttccttcttt
s panTro5.chr5             125172164 77 + 181907262 cctccctccctccctc--------ccttcctt-cctttcttccttccttccttccttccttccttccttcct---ctctttccttcttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509130 88 + 183735486 cctccctccctccctccctccctccctccctc-cctccctccctccctcccttcctttcttccttccttccttccttccttccttcctt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700604 73 +   8933513 cctccctccctccgtc------------cctc-ccttccttccttccttccttcctttcttccttccttcct---ctctttccttcctt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831390 86 + 163208435 cctccctccctccctcccttccttccttcctctctttccttccttccttcttttcttccttccttccttcct---ctctgtctttcctt
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123637670 63 - 204313951 ----ccttccttcctt-----------------ccttccttcct-ccttccttccttccttccttccttcc----ctcttttcttcttt
i calJac3.chr2             C 0 C 0
e micMur3.chr12             60528140 224 + 108143057 I
e canFam3.chr11             14901662  0 +  74389097 C
e proCoq1.NW_012155062v1     3567679  0 +  11683526 C
e manLeu1.NW_012103321v1     4022478 704 -   4237731 I
e chlSab2.chr23             28356279 83 +  82825804 I
e cerAty1.NW_012002512v1     5254492 98 +  26952557 I
e macNem1.NW_012012355v1    16242446 57 +  18395747 I
e macFas5.chr6             124244570  0 + 181584905 C
e rheMac8.chr6             122820895 72 + 180051392 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e aotNan1.NW_018505940v1    13178629 22 -  42888418 I
e cebCap1.NW_016107829v1     1386686 22 -   1400280 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I
e saiBol1.JH378106          55682628  0 -  71252344 C
e colAng1.NW_012119644v1      293833 91 -   1175262 I

a score=25930.000000
s hg38.chr5_KI270796v1_alt     62121  57 +    172708 ccttcct-----tccctccttcc-tct----------ctctttccttccttcc-------------------------------------ttcctctctgtctttccttc
s panTro5.chr5             125172241  56 + 181907262 cctt-ct-----tccctccttcc-tct----------ctctttccttcctccc-------------------------------------ttcctctctgtctttccttc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509218 104 + 183735486 ccttcct-----tccttccttcc-tcttcttcccttccttttccctttcttcccccttccctttcctctcctctttttcccttccttcttttcctctctgtctttccttc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700677  53 +   8933513 c----ct-----tccctccttcc-tct----------ctctttccttccttcc-------------------------------------tctctgtctttccttccttc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831476  62 + 163208435 ccttcctctctgtccttccttccttct----------ttccttccttctttcc-------------------------------------ttccttcct-tccttccttc
i nomLeu3.chr2             C 0 C 0
e micMur3.chr12             60528140 224 + 108143057 I
e canFam3.chr11             14901662   0 +  74389097 C
e proCoq1.NW_012155062v1     3567679   0 +  11683526 C
e manLeu1.NW_012103321v1     4022478 704 -   4237731 I
e chlSab2.chr23             28356279  83 +  82825804 I
e cerAty1.NW_012002512v1     5254492  98 +  26952557 I
e macNem1.NW_012012355v1    16242446  57 +  18395747 I
e macFas5.chr6             124244570   0 + 181584905 C
e rheMac8.chr6             122820895  72 + 180051392 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e aotNan1.NW_018505940v1    13178629  22 -  42888418 I
e cebCap1.NW_016107829v1     1386686  22 -   1400280 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450  89 +  90702639 I
e saiBol1.JH378106          55682628   0 -  71252344 C
e calJac3.chr2             123637733   0 - 204313951 C
e colAng1.NW_012119644v1      293833  91 -   1175262 I

a score=74851.000000
s hg38.chr5_KI270796v1_alt     62178  88 +    172708 cttccttcctttcttcc-----------------ttccttcctctctgtctttccttcctttcttcccttct-tccttccttcctttcttccttcctatccttcat
s panTro5.chr5             125172297  97 + 181907262 ctttcttccttccttcctctctg--------tctttccttccttcctgtctttccttcctttcttcccttct-tccttccttcctttcttccttcctctccttcat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509322  97 + 183735486 ctttcttccttccttcctctctg--------tctttccttccttcctgtctttccttcctttcttcccttct-tccttccttcctttcttccttcctctccttcat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700730  89 +   8933513 cttccttcctttcttcc-----------------ttccttcctctctgtctttccttccttccttcctctctgtctttccttcctttcttccttcctctccttcat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831538 101 + 163208435 cttcctcccttccttcctctctgtctttccttctttccttcctctctgtctttccttccttccttcccttct-----tccttccttttttccttcctctccttcat
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124244570  73 + 181584905 cttgctctctctcGCGC-----------------Gctctctctctctgtctcccccccctcccctccctccc-tccctccctcctttcctt---------------
i macFas5.chr6             C 0 C 0
e micMur3.chr12             60528140 224 + 108143057 I
e canFam3.chr11             14901662   0 +  74389097 C
e proCoq1.NW_012155062v1     3567679   0 +  11683526 C
e manLeu1.NW_012103321v1     4022478 704 -   4237731 I
e chlSab2.chr23             28356279  83 +  82825804 I
e cerAty1.NW_012002512v1     5254492  98 +  26952557 I
e macNem1.NW_012012355v1    16242446  57 +  18395747 I
e rheMac8.chr6             122820895  72 + 180051392 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e aotNan1.NW_018505940v1    13178629  22 -  42888418 I
e cebCap1.NW_016107829v1     1386686  22 -   1400280 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450  89 +  90702639 I
e saiBol1.JH378106          55682628   0 -  71252344 C
e calJac3.chr2             123637733   0 - 204313951 C
e colAng1.NW_012119644v1      293833  91 -   1175262 I

a score=2865.000000
s hg38.chr5_KI270796v1_alt     62266 2 +    172708 tc
s panTro5.chr5             125172394 2 + 181907262 tc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509419 2 + 183735486 tc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700819 2 +   8933513 tc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831639 2 + 163208435 tc
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123637733 2 - 204313951 tc
i calJac3.chr2             C 0 C 0
e micMur3.chr12             60528140 224 + 108143057 I
e canFam3.chr11             14901662 0 +  74389097 C
e proCoq1.NW_012155062v1     3567679 0 +  11683526 C
e manLeu1.NW_012103321v1     4022478 704 -   4237731 I
e chlSab2.chr23             28356279 83 +  82825804 I
e cerAty1.NW_012002512v1     5254492 98 +  26952557 I
e macNem1.NW_012012355v1    16242446 57 +  18395747 I
e macFas5.chr6             124244643 0 + 181584905 C
e rheMac8.chr6             122820895 72 + 180051392 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e aotNan1.NW_018505940v1    13178629 22 -  42888418 I
e cebCap1.NW_016107829v1     1386686 22 -   1400280 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I
e saiBol1.JH378106          55682628 0 -  71252344 C
e colAng1.NW_012119644v1      293833 91 -   1175262 I

a score=-637.000000
s hg38.chr5_KI270796v1_alt     62268 1 +    172708 g
s panTro5.chr5             125172396 1 + 181907262 a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509421 1 + 183735486 a
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700821 1 +   8933513 c
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831641 1 + 163208435 c
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122820967 1 + 180051392 g
i rheMac8.chr6             I 72 C 0
s macFas5.chr6             124244643 1 + 181584905 g
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242503 1 +  18395747 g
i macNem1.NW_012012355v1   I 57 C 0
s manLeu1.NW_012103321v1     4023182 1 -   4237731 g
i manLeu1.NW_012103321v1   I 704 C 0
s calJac3.chr2             123637735 1 - 204313951 g
i calJac3.chr2             C 0 C 0
e micMur3.chr12             60528140 224 + 108143057 I
e canFam3.chr11             14901662 0 +  74389097 C
e proCoq1.NW_012155062v1     3567679 0 +  11683526 C
e chlSab2.chr23             28356279 83 +  82825804 I
e cerAty1.NW_012002512v1     5254492 98 +  26952557 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e aotNan1.NW_018505940v1    13178629 22 -  42888418 I
e cebCap1.NW_016107829v1     1386686 22 -   1400280 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I
e saiBol1.JH378106          55682628 0 -  71252344 C
e colAng1.NW_012119644v1      293833 91 -   1175262 I

a score=38875.000000
s hg38.chr5_KI270796v1_alt     62269 10 +    172708 -ttccttcatt
s panTro5.chr5             125172397 10 + 181907262 -ttccttcatt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509422 10 + 183735486 -ttccttcatt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700822 10 +   8933513 -ttccttcatt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831642 10 + 163208435 -ttccttcatt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122820968 10 + 180051392 -ttctttcttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124244644 10 + 181584905 -ttctttcttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242504 10 +  18395747 -ttctttcttt
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28356362 10 +  82825804 -ttctttcttt
i chlSab2.chr23            I 83 C 0
s manLeu1.NW_012103321v1     4023183 10 -   4237731 -ttctttcttt
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123637736 11 - 204313951 tttcttttctt
i calJac3.chr2             C 0 C 0
e micMur3.chr12             60528140 224 + 108143057 I
e canFam3.chr11             14901662  0 +  74389097 C
e proCoq1.NW_012155062v1     3567679  0 +  11683526 C
e cerAty1.NW_012002512v1     5254492 98 +  26952557 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e aotNan1.NW_018505940v1    13178629 22 -  42888418 I
e cebCap1.NW_016107829v1     1386686 22 -   1400280 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I
e saiBol1.JH378106          55682628  0 -  71252344 C
e colAng1.NW_012119644v1      293833 91 -   1175262 I

a score=20922.000000
s hg38.chr5_KI270796v1_alt     62279 5 +    172708 ctttc
s panTro5.chr5             125172407 5 + 181907262 ctttc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509432 5 + 183735486 ctttc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700832 5 +   8933513 ctttc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831652 5 + 163208435 ctttc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122820978 5 + 180051392 cttct
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124244654 5 + 181584905 cttct
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242514 5 +  18395747 cttct
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28356372 5 +  82825804 cttct
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4023193 5 -   4237731 cttct
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123637747 5 - 204313951 ttttc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55682628 5 -  71252344 ctttc
i saiBol1.JH378106         C 0 C 0
e micMur3.chr12             60528140 224 + 108143057 I
e canFam3.chr11             14901662 0 +  74389097 C
e proCoq1.NW_012155062v1     3567679 0 +  11683526 C
e cerAty1.NW_012002512v1     5254492 98 +  26952557 I
e otoGar3.GL873679           3053494 1611 +   4132165 I
e aotNan1.NW_018505940v1    13178629 22 -  42888418 I
e cebCap1.NW_016107829v1     1386686 22 -   1400280 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I
e colAng1.NW_012119644v1      293833 91 -   1175262 I

a score=46868.000000
s hg38.chr5_KI270796v1_alt     62284 10 +    172708 ttctt-tc-ttt
s panTro5.chr5             125172412 10 + 181907262 ttctt-tc-ttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509437 11 + 183735486 ttcttctc-ttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700837  9 +   8933513 ttctt-tc--tt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831657 11 + 163208435 ttgtt-tctttt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122820983 10 + 180051392 ttctt-tc-ctt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124244659 10 + 181584905 ttctt-tc-ctt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242519 10 +  18395747 ttctt-tc-ttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5254590 10 +  26952557 ttctt-tc-ctt
i cerAty1.NW_012002512v1   I 98 C 0
s chlSab2.chr23             28356377 10 +  82825804 ttctt-tc-ctt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4023198 10 -   4237731 ttctt-tc-ctt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      293924 10 -   1175262 ttctt-tc-ctt
i colAng1.NW_012119644v1   I 91 C 0
s calJac3.chr2             123637752 10 - 204313951 ttttc-tt-ttc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55682633 10 -  71252344 tttct-tt-ttc
i saiBol1.JH378106         C 0 C 0
e micMur3.chr12             60528140 224 + 108143057 I
e canFam3.chr11             14901662  0 +  74389097 C
e proCoq1.NW_012155062v1     3567679  0 +  11683526 C
e otoGar3.GL873679           3053494 1611 +   4132165 I
e aotNan1.NW_018505940v1    13178629 22 -  42888418 I
e cebCap1.NW_016107829v1     1386686 22 -   1400280 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450 89 +  90702639 I

a score=2366552.000000
s hg38.chr5_KI270796v1_alt     62294 249 +    172708 tttttgagatggaatcttgctctgtcacccaggctggagtgcagtggcacagtcttggctcactgcaacctccacctcccaggttcaagcagttctgc---ctcagcctcctgaatagctggaattataggcaagtgccgccatgcccagctaattttatatttttagtagagatggggtttcaccatgttggccaggctggtcttgaattcctgacttcaggtgatccacccaacttggcccctcaaaatg
s panTro5.chr5             125172422 249 + 181907262 tttttgagatggagtcttgctctgtcacccaggctggagtgcaatggcacagtcttggcttactgcaacctccacctcccaggttcaagcagttctgc---ctcagcctcctgaatagctggaattataggcaagtgccgccatgcccagctaattttatatttttagtagagatggggtttcaccatgttggccaggctggtcttgaattcctgacctcaggcgatccacccaccttggcctctcaaaatg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509448 249 + 183735486 tttttgagatggagtcttgctctgtcacccaggctggagtgcaatggcacagtcttggcttactgcaacctccacctcccaggttcaagcagttctgc---ctcagcctcctgaatagctggaattataggcaagtgccgccatgcccagctaattttatatttttagtagagatggggtttcaccatgttggccaggctggtcttgaattcctgacctcaggcgatccacccaccttggcctctcaaaata
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1700846 249 +   8933513 tttttgagatagagtcttgctctgtcacacaggctggagtgcaatggcacagtcttggctcactgcaacctccacctcccaggttcaagcagttctgc---ctcagcctcctgaatagctggaattataggcaagtgctgccatgcccagctaattttatatttttagtagagatggggtttcaccatgttggccaggctggtcttgaattcctgacctcaggtgatccacccgccttggcctctcaaaatg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831668 249 + 163208435 tttttgagatggaatcttgttctgtcatccagtctggagtgcaatggcacagtcttggctcactgcaacctccacctctcaggttccagcagttctgc---ctcagcctcctgaatagctggaattataggcaagtgccaccatgcccagctaattttatatttttagtagagatggggtttcaccatattggccaggctggtcttgaattcctgacctcaggtgatccatccaccttggcctctcaaaatg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122820993 251 + 180051392 tttttgagatggagtcttgctttgtcacccaggctggagtgcaatggcacagtctcagctcactgcaacctccgcctcctgggttcaagcagttccccag-cgtagcctcctgaatagctggaattacaggcaggtgccaccatgcccggctaattttgtatttttagtagagatggggtttcaccatattggccagggtggtcttgaattcctaacctcaggtgatccacctgccttggcctcccaaaatg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124244669 251 + 181584905 tttttgagatggagtcttgctttgtcacccaggctggagtgcaatggcacagtctcagctcactgcaacctccgcctcctgggttcaagcagttccccag-cgtagcctcctgaatagctggaattacaggcaggtgccaccatgcccggctaattttgtatttttagtagagatggggtttcaccatattggccagggtggtcttgaattcctaacctcaggtgatccacctgccttggcctcccaaaatg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242529 251 +  18395747 tttttgagatggagtcttgctttgtcacccaggctggagtgcaatggcgtagtctcagctcactgcaacctccgcctcctgggttcaagcagttccccag-cttagcctcctgaatagctggaattacaggcaggtgccaccatgcccggctaattttgtatttttagtagagatggggtttcaccatattggccagggtggtcttgaattcctaacctcaggtgatccacctgccttggcctcccaaaatg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5254600 251 +  26952557 tttttgagatggagtcttgctctgtcacccaggctggagtgcaatggcacagtctcagctcactgcaacctctgcctcctgggttcaagcagttccccag-cttagcctcctgaatagctggaattacaggcaagtgccaccatacccggctaattttgtaattttagtagagatggggtttcaccatgttggccagggtggtcttgaattcctaatctcaggtgatccacccaccttggcctcccaaaatg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28356387 251 +  82825804 tttttgagatggagtcttgctctgtcacccaggctggagtgcaatggcacagtctcagctcactgcaacctccgcctcctgggttcaagcagttctccag-cttagcctcctgaatagctggaattacaggcaagtgccaccatacccggctaattttgcatttttagtagagatggggtttcaccatgttggccagggtggtcttgaattcctaatctcaggtgatccacccaccttggcctcccaaaatg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4023208 251 -   4237731 tttttgagatggagtcttgctttgtcacccaggctggagtgcaatggcacagtctcagctcactgcaacctctgcctcctgggttcaagcagtaccccag-cttagcctcctgaatagctggaattacaggcaggtgccaccatgcccggctaattttgtatttttagtagagatgaggtttcaccatattggccagggtggtcttgaattcctaacctcaggtgatccacctgccttggcctcccaaaatg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      293934 251 -   1175262 tttttgagatggagtcttgctctgtcacccaggctggagtgcaatggcacagtctcagctcactgcaacctccgcctcctgggttcaagcagttccccag-cttagcctcctgaatagctggaattacaggcaagtgccaccatgcccggctaattttgtatttttagtagagatggggtttcaccatgtcggccagggtggtcttgaattcctaacttcaggtgatccacccgccttggcctcccaaaatg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123637762 249 - 204313951 tttttgagatggagtctcgctccatcacccagtctggagtgcaacgtcacgatcttggctcactgcaacctctaccttccaggttcaagcagttctcctgcttcagtcccctgaataggtggaattataagcatacatcaccacacctggctaattttg---tattagtagagatggggtttcaccacgttggcctggctggtcttaaactcctgacctcaggtgatccacctgccatggcctcccaaagtg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55682643 252 -  71252344 tttttgagatggagtctcgctctgttacccagtctggagtgcagtgtcacgatctcagctcactgcaaccttcgcctcccaggttcaagcggttctcctgcttcagtctcctgaatagctggaattataagcatgcaccaccacgcccagctaattttgggtttttagtagagacggggtttcaccatgttggcccagctggtcttaaactcctgacctcaggtgatccccttgccttggcctcccaaaatg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1386708 252 -   1400280 tttttgagatggaatcttgctctatcactcagtctggagtgcaatgtcatgatctcggctcactgcaacctccacctccaaggttcaagcagttctcctgcttcagtctcctgaatagctggaattataagcatgcaccaccacgcctggctaattttgtgtttttagtagagatggggtttcaccacgttggcgtagctggtcttaaactcctgacctcaggtgatccccccgccttggcctcccaaagtg
i cebCap1.NW_016107829v1   I 22 C 0
s aotNan1.NW_018505940v1    13178651 252 -  42888418 tttttgagatgaagtctcactctatcactcagtctggagtgcaatgtcatgatctcggctcactgcaacttccacctcccaggttcaagcagttctcctgcttcagtctcctgaatagctggaattataagcatgcaccaccacgcctggcaaattttgtgtttttagtagagatggggtttcaccacgttggcctggctggtcttaaactcctgatctcaggtgattcaactgctatggcctcccaaagtg
i aotNan1.NW_018505940v1   I 22 C 0
e micMur3.chr12             60528140 224 + 108143057 I
e canFam3.chr11             14901662   0 +  74389097 C
e proCoq1.NW_012155062v1     3567679   0 +  11683526 C
e otoGar3.GL873679           3053494 1611 +   4132165 I
e dasNov3.JH567306           2608941 870 +   3667625 I
e mm10.chr18                55499450  89 +  90702639 I

a score=231828.000000
s hg38.chr5_KI270796v1_alt     62543 25 +    172708 ttgggattacaggtgtgagccacca---
s panTro5.chr5             125172671 25 + 181907262 ttgggattacaggtgtgagccacca---
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509697 25 + 183735486 ttgggattacaggtgtgagccacca---
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1701095 25 +   8933513 ttgggattacaggtgtgagccacca---
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831917 25 + 163208435 ttgggattacaggcgtgagccacca---
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122821244 25 + 180051392 ttgggattagaggcatgagccaccg---
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124244920 25 + 181584905 ttgggattagaggcatgagccaccg---
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242780 25 +  18395747 ttgggattagaggcatgagccaccg---
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5254851 25 +  26952557 ttgggattacaggcgtgagccaccg---
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28356638 25 +  82825804 ttgggattacaggcgtgagccaccg---
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4023459 25 -   4237731 ttgggattagaggcgtgagccaccg---
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      294185 25 -   1175262 ttgagattacaggcgtgagccaccg---
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123638011 25 - 204313951 tcaggattacgggcgtgagctgctg---
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55682895 25 -  71252344 ttgggattgcaggtgtgagccactg---
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1386960 25 -   1400280 ttgggattacaggcgtgagccactg---
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13178903 25 -  42888418 ttgggactacaggcgtgagccactg---
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2609811 28 +   3667625 ttgagattgtaaatcagatcatataaca
i dasNov3.JH567306         I 870 C 0
e micMur3.chr12             60528140 224 + 108143057 I
e canFam3.chr11             14901662  0 +  74389097 C
e proCoq1.NW_012155062v1     3567679  0 +  11683526 C
e otoGar3.GL873679           3053494 1611 +   4132165 I
e mm10.chr18                55499450 89 +  90702639 I

a score=160729.000000
s hg38.chr5_KI270796v1_alt     62568 15 +    172708 cccctggcctcaacc
s panTro5.chr5             125172696 15 + 181907262 cccctggcctcaacc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509722 15 + 183735486 cccctggcctcaacc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1701120 15 +   8933513 cccctggcctcaacc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831942 15 + 163208435 cccctggcctgaacc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122821269 15 + 180051392 tacctggcctcaacc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124244945 15 + 181584905 tacctggcctcaacc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242805 15 +  18395747 tacctggcctcaacc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5254876 15 +  26952557 cacctggcctcaacc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28356663 15 +  82825804 cacctggcctcaacc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4023484 15 -   4237731 tacctggcctcaacc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      294210 15 -   1175262 cacctggcctcaacc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123638036 15 - 204313951 cacctggccTCAGTc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55682920 15 -  71252344 cacctggcctcaatc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1386985 15 -   1400280 cacctggcctcaatc
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13178928 15 -  42888418 cacctggcctcaatc
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3055105 15 +   4132165 cctctgttttcaggc
i otoGar3.GL873679         I 1611 I 1
s dasNov3.JH567306           2609839 15 +   3667625 cctctgttttcaatc
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60528140 224 + 108143057 I
e canFam3.chr11             14901662  0 +  74389097 C
e proCoq1.NW_012155062v1     3567679  0 +  11683526 C
e mm10.chr18                55499450 89 +  90702639 I

a score=149337.000000
s hg38.chr5_KI270796v1_alt     62583 12 +    172708 -tccattggcttt
s panTro5.chr5             125172711 12 + 181907262 -tccactggcttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509737 12 + 183735486 -tccattggcttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1701135 12 +   8933513 -tccattgacttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831957 12 + 163208435 -tccattggcttt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122821284 12 + 180051392 -tccaatggcttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124244960 12 + 181584905 -tccaatggcttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242820 12 +  18395747 -tccaatggcttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5254891 12 +  26952557 -tccattggcttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28356678 12 +  82825804 -tccattggcttt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4023499 12 -   4237731 -tccaatggcttt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      294225 12 -   1175262 -tccattggcttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123638051 12 - 204313951 -tccattggcttt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55682935 12 -  71252344 -tccattggcttt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1387000 12 -   1400280 -tccactggcttt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13178943 12 -  42888418 -ttcattggcttt
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60528364 12 + 108143057 -tccattggtttc
i micMur3.chr12            I 224 C 0
s otoGar3.GL873679           3055121 12 +   4132165 -tccattcatttc
i otoGar3.GL873679         I 1 C 0
s dasNov3.JH567306           2609854 13 +   3667625 tgccattgccttc
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14901662  0 +  74389097 C
e proCoq1.NW_012155062v1     3567679  0 +  11683526 C
e mm10.chr18                55499450 89 +  90702639 I

a score=33801.000000
s hg38.chr5_KI270796v1_alt     62595 2 +    172708 ca
s panTro5.chr5             125172723 2 + 181907262 ca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509749 2 + 183735486 ca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1701147 2 +   8933513 ca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831969 2 + 163208435 ca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122821296 2 + 180051392 ca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124244972 2 + 181584905 ca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242832 2 +  18395747 ca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5254903 2 +  26952557 ca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28356690 2 +  82825804 ca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4023511 2 -   4237731 ca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      294237 2 -   1175262 ca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123638063 2 - 204313951 ca
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55682947 2 -  71252344 ca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1387012 2 -   1400280 ca
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13178955 2 -  42888418 ca
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60528376 2 + 108143057 ca
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3567679 2 +  11683526 ca
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3055133 2 +   4132165 ta
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2609867 2 +   3667625 ca
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14901662 0 +  74389097 C
e mm10.chr18                55499450 89 +  90702639 I

a score=268572.000000
s hg38.chr5_KI270796v1_alt     62597 17 +    172708 tcacacttagaataatg
s panTro5.chr5             125172725 17 + 181907262 tcacacttagaataatg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509751 17 + 183735486 tcacacttagaataatg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1701149 17 +   8933513 tcacacttagaataatg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831971 17 + 163208435 tcacacttagaatgatg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122821298 17 + 180051392 tcacacttagaataatg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124244974 17 + 181584905 tcacacttagaataatg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242834 17 +  18395747 tcacacttagaataacg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5254905 17 +  26952557 tcacacttagaataatg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28356692 17 +  82825804 tcacacttagaataatg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4023513 17 -   4237731 tcacacttagaataatg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      294239 17 -   1175262 tcacacttagaataatg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123638065 17 - 204313951 tcacacttcgaataatg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55682949 17 -  71252344 tcacacttcaaataatg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1387014 17 -   1400280 tcacacttcgaataatg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13178957 17 -  42888418 tcacacttcgaataatg
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60528378 17 + 108143057 tcacacttagaataaaa
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3567681 17 +  11683526 tcacacttagaataaaa
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3055135 17 +   4132165 ccacacttagaatgaaa
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14901662 17 +  74389097 tcacccttagaataaaa
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2609869 17 +   3667625 tgacacttagactaaaa
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55499450 89 +  90702639 I

a score=1745539.000000
s hg38.chr5_KI270796v1_alt     62614 114 +    172708 tccaaagtc-----attaccatagctctacatgacttgaccctggctgtcccttcaaactcactttctaccactctactacttcctcacaccacgaaacgtaaactgacttctctgatg
s panTro5.chr5             125172742 114 + 181907262 tccaaagtc-----attaccatagctctacatgacttgagcctggctgtcccttcaaactcactttctaccactctactacttcctcacaccacgaaacataaactggcttctctgatg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509768 114 + 183735486 tccaaagtc-----attaccatagctctacatgacttgagcctggctgtcccttcaaactcactttctaccactctactacttcctcacaccacgaaacataaactggcttctctgatg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1701166 114 +   8933513 tccaaagtc-----attaccatagctctacatgacttgaccctggctgtcccttcaaactcactttctaccactctactacttcctcacaccacgaaacataaactggcttctctgatg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139831988 114 + 163208435 tccaaagtc-----attaccatagctctacgtgacttgaccctggctgacccttcaaacttactttctaccactctactacttgctcacaccatgaaacataaactggcttctctgatg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122821315 114 + 180051392 tccaaagtc-----attaccatagctctacatgacttgaccctggctgtcccttcaaactcactttctaccactctaccacttgctcacaccatgaaacataaactggcttctctgatg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124244991 114 + 181584905 tccaaagtc-----attaccatagctctacatgacttgaccctggctgtcccttcaaactcactttctaccactctaccacttgctcacaccatgaaacataaactggcttctctgatg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242851 114 +  18395747 tccaaagtc-----attaccatagctctacatgacttgaccctggctgtcccttcaaactcactttctaccactctaccacttgctcacaccatgaaacataaactggcttctctgatg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5254922 106 +  26952557 tccaaagtc-----attaccatagctctacatgacttgaccctggctgtcccttcaaac------tctaccactctaccacttgctcacaccacgaaac--aaactggcttctctgatg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28356709 112 +  82825804 tccaaagtc-----attaccatagctctacatgacttgaccctgactgtcccttcaaactcactgtctaccactctaccacttgctcacaccacgaaac--aaactggcttctctgatg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4023530 114 -   4237731 tccaaagtc-----attaccatagctctacatgacttgaccctggctgtcccttcaaactcactttctaccactctaccacttgctcacaccatgaaacataaactggcttctctgatg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      294256 112 -   1175262 tccaaagtc-----attaccatagctctacatgacttgaccctggctgtcccttcaaactcactttctaccactctaccacttgctcacaccacgaaac--aaactggcttctctgatg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123638082 114 - 204313951 tccaaagtc-----attaccatatccctgcatgacttgaccctggctgtttcttcaaactcactttctaccactctaccatttgctcataccacgaaacgtaagctggcttctatgatg
i calJac3.chr2             C 0 I 8
s saiBol1.JH378106          55682966 114 -  71252344 tccaaagtc-----attaccatagccctacatgacttgaccctggctgtttcttcaaactcactttctaccactctaccacttgctcataccatgaaacataaactggcttccatgatg
i saiBol1.JH378106         C 0 I 8
s cebCap1.NW_016107829v1     1387031 110 -   1400280 tccaaagtc-----attaccatagccctacatgacttgaccctggctgtttcttcaaactcaccttccaccactctaccacttgctcataccatgaa----aaactggcgtctatgatg
i cebCap1.NW_016107829v1   C 0 I 8
s aotNan1.NW_018505940v1    13178974 114 -  42888418 tccaaagtc-----attaccatagccctacatgacttgaccctggctgtttcttcaaactcactttctaccactctaccacttgctcataccatgaaacataaactggcttctatgatg
i aotNan1.NW_018505940v1   C 0 I 5068
s micMur3.chr12             60528395 114 + 108143057 cccaaagtc-----attaccgtagcccttcatgacttgattctagctgtcctttcaaactcactttctaccactctgccccctgctcacaccactagagatacactggcttctttgatg
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3567698 114 +  11683526 cccgaagtc-----attaccatagcccttcatgacttgattctggctatcgcttcaaactcactttctaccactctgccccctgctcacaccactagagagacactggcttctttgatg
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3055152 117 +   4132165 ttcaaatttttaaaattaccataacctttca--acttgacccttcctatcctttcagactcattttccacccctctgccacttgcttacaccagtagaaataaactggcttctttgatg
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55499539  96 +  90702639 TTCAAAATC-----ACTAACAAAACCATTTAAAATAtgaccctggctgt------------------taccacaccatctcttgatcccacaactggagacactctggcttctctgact
i mm10.chr18               I 89 C 0
s canFam3.chr11             14901679 112 +  74389097 tccaaatac-----attactgtaggctcatatgatttgaccctggccatcccttcaaact--cttctttcctctccaactcttactctttgccctagaattacactggcttcattggtg
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2609886 109 +   3667625 tccaaagtc-----attcccatagcccttca-----tagccctggctcttcctccagactcactttctgccattctaccacttgctcacaacactgaagataccctgacttatttgatg
i dasNov3.JH567306         C 0 C 0

a score=1228036.000000
s hg38.chr5_KI270796v1_alt     62728 84 +    172708 ttcc-tagaacttgtcaaagacattcttaacccagggcctttgtacctgccattaggaccctctgcctgggatactcttgccccg
s panTro5.chr5             125172856 84 + 181907262 ttcc-tagaacttgtcaaagacattcttaacccagggcctttgtacctgccattaggaccctctgcctgggatactcttgccccg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509882 84 + 183735486 ttcc-tagaacttgtcaaagacattcttaacccagggcctttgtacctgccattaggaccctctgcctgggatactcttgccccg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1701280 84 +   8933513 ttcc-tagaacttgtcaaagacattcttaacccagggcctttgtacctgccattcggaccctctgcctgggatactcttgccccg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139832102 84 + 163208435 ttcc-tagaacttgtcaaagacactcttaacccagggcctttgtacctgccattcagaccctctgcctggaatactcttgccccg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122821429 83 + 180051392 tt-c-tagaactcgtcaaagacattcttaagcccaggcctttgtacctgccattcagaccctctgcctggaatactcttgctcca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124245105 83 + 181584905 tt-c-tagaactcgtcaaagacattcttaagcccaggcctttgtacctgccattcagaccctctgcctggaatactcttgctcca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16242965 83 +  18395747 tt-c-tagaactcgtcaaagacattcttaagcccaggcctttgtgcctgccattcagaccctctgcctggaatactcttgctcca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5255028 84 +  26952557 ttcc-tagaacttgtcaaagacattcttaagcccaggcctttgtgcctgccattcagaccctctgcctggaatactcttgctcca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28356821 84 +  82825804 tt-cttagaacttgtcaaagacattcttaagcccaggcctttgtacctgccattcagaccctctgcctggaatactcttgctcca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4023644 83 -   4237731 tt-c-tagaactcgtcaaagacattcttaagcccaggcctttgtacctgccattcagaccctctgcctggaatactcttgctcca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      294368 84 -   1175262 ttcc-tagaacttgtcaaagacattcttaagcccaggcctttgtacctgccattcagaccctctgcctggaatactcttgctcca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123638204 84 - 204313951 tgtc-tagaacttgtcaaagatgttcttaacccagggccttagtacctgctattcagaacctcggcccggaatactcttgccctg
i calJac3.chr2             I 8 C 0
s saiBol1.JH378106          55683088 84 -  71252344 tgtc-tagaacttgtcaaagacattctcaacccagggcctttgtacctgctattcagaacctcggcctggaatactctcgtcccg
i saiBol1.JH378106         I 8 C 0
s cebCap1.NW_016107829v1     1387149 84 -   1400280 tgtc-tagaacttatcaaagacattcttaacccagggcctttgtacctgctattcagaacctcggcctggaatactcttgccccg
i cebCap1.NW_016107829v1   I 8 C 0
s aotNan1.NW_018505940v1    13184156 84 -  42888418 tgtc-tagaacttgtcaaagacattcttaacccggggcctttgtacctgctattcagaacctcggcccggaatactcttgccccg
i aotNan1.NW_018505940v1   I 5068 C 0
s micMur3.chr12             60528509 83 + 108143057 ttcc-ttgaacttgtcaagcacattcttagtccatggcctttgtgcttgccctccagaccctct-cctggaatgctcttgctcca
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3567812 84 +  11683526 ttcc-ttgaacttgtcaaacacattcttgttccatggcctttgtacttgccctccagaccctctgcctgcaatgctcttgctcca
i proCoq1.NW_012155062v1   C 0 I 34
s otoGar3.GL873679           3055269 84 +   4132165 ttcc-tcgaacttgtcaaaaatatttctattccgtggcctttgtatctgccctacagaccctctttctgaaatattcttgccccg
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55499635 81 +  90702639 tttc-ttgaatgtgtcaaacacacttgtatgccagtggtttgatacttgccctcaaag---tctgcctggaactctcttttccca
i mm10.chr18               C 0 C 0
s canFam3.chr11             14901791 83 +  74389097 ttcc-ttgaatatgtcagacaca-tcttattccagggcgtttgaatgtgcctcccaggatctctgcatggaatcctcttgcccca
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2609995 84 +   3667625 tttc-ttgaacatgccaaacacattcttattccagggtctttgcattcaaccttcaggctctctgcctggaatgctctcatcctg
i dasNov3.JH567306         C 0 C 0

a score=406141.000000
s hg38.chr5_KI270796v1_alt     62812 41 +    172708 catatt--cagtgttcact-tctgtttaatttgtcaatttgtcc---
s panTro5.chr5             125172940 33 + 181907262 catatt--cagtgttcgct-tctgttt--------aatttgtcc---
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509966 33 + 183735486 catatt--cagtgttcgct-tctgttt--------aatttgtcc---
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1701364 33 +   8933513 catatt--cagtatttgct-tctgttt--------aatttgtcc---
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139832186 33 + 163208435 catatt--cagtgttcgct-tctgttt--------aatttgtcc---
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122821512 35 + 180051392 cacattcacagtgttcact-tctgttt--------aatttgtct---
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124245188 35 + 181584905 cacattcacagtgttcact-tcTGTTT--------AATTTGTCT---
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16243048 35 +  18395747 cacattcacagtgttcact-tctgttt--------aatttgtct---
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5255112 35 +  26952557 tacattcacagtgtttgct-tctgttt--------aatttgtcc---
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28356905 35 +  82825804 cacattcacagtgttcact-tcTGTTT--------AATTTGTCC---
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4023727 35 -   4237731 cacattcacagtgttcact-tctgttt--------aatttgtct---
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      294452 35 -   1175262 cacattcacagcgttcgct-tctgttt--------aatttgtcc---
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123638288 35 - 204313951 tacattcacaatgtttgct-tctgttt--------aatttgtcc---
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55683172 35 -  71252344 taaattcacagtgtttgct-tctgttt--------aatttgtcc---
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1387233 35 -   1400280 tacattcacagtgttagct-tctgttt--------aatttgtcc---
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13184240 35 -  42888418 tacattcacaatgttcgct-tctgttt--------aatttgtcc---
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60528592 35 + 108143057 cacattcacagtgttttct-cctactt--------aatttgtca---
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3055353 35 +   4132165 cacattcacaatgtttgtt-tctgctt--------aatttatca---
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55499716 17 +  90702639 ------------------c-cctgcac--------aatctgtca---
i mm10.chr18               C 0 I 1
s canFam3.chr11             14901874 35 +  74389097 catactcatgatgttcact-cctgttt--------aattcatca---
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2610079 39 +   3667625 catagttgccatgtttactacctgtta--------catttgtcactg
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3567896 34 +  11683526 I

a score=4480510.000000
s hg38.chr5_KI270796v1_alt     62853 333 +    172708 ctatgccagaaag--tagc-ttgtctaaaaatatttat-ctcagacatactctat-tcccttac-ttac-ttta-------------tctttcttcacagca------ttttga----tttgtttattatgcg-------------------ttttctactagaatgtaaatgctctgagatcaaggactgc-tttgttcataattttattcctagcagatac------atatggtacat--agtagatagtcaataaatatgtgttgaataagtgaaATTTAATTTAGTTCTAGACCTAACATATGGGCTCTTA-ATAGCAT-----CTTTGCTTAAGTGT----TGGAAAATTTGAGTTGCTCAATTTCAACAACTACTAGTAACCTTTCAGGAAAATT
s panTro5.chr5             125172973 329 + 181907262 ctgtgccagaaag--tagc-ttgtctaaaaatatttat-ctcagacgtactctat-tcccttac-ttac-ttta-------------tctttcttcacagta------ttttga----tttgtttattatgtg-------------------ttttctactagaatgtaaatgctctgagatcaaggactgc-tttgttcataattttattcctagcagatac------atatggtacat--agtagat----aataaatatgtgttgaataagtgCAATTTAATTTAGTTCTAGACCTAACATATGGGCTCTTA-ATAGCAT-----CTTTGCTTAAGTGT----TGGAAAATTTGAGTTGCTCAATTTCAACAACTACTAGTAACCTTTCAGGAAAATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126509999 329 + 183735486 ctgtgccagaaag--tagc-ttgtctaaaaatatttat-ctcagacgtactctat-tcccttac-ttac-ttta-------------tctttcttcacagta------ttttga----tttgtttattatgtg-------------------ttttctactagaatgtaaatgctctgagatcaaggactgc-tttgttcataattttattcctagcagatac------atatggtacat--agtagat----aataaatatgtgttgaataagtgCAATTTAATTTAGTTCTAGACCTAACATATGGGCTCTTA-ATAGCAT-----CTTTGCTTAAGTGT----TGGAAAATTTGAGTTGCTCAATTTCAACAACTACTAGTAACCTTTCAGGAAAATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1701397 333 +   8933513 ctgtgccagaaag--tagc-ttgtctaaaaatatttat-ctcagacatactctat-tcccttac-ttac-ttta-------------tctttcttcacagta------ttttga----tttgtttattatgcg-------------------ttttctactagaatgtaaatgctctgagatcaaggactgc-tttgttcataattttattcctagcagatac------atatggtacat--agtagatagtcaataaatatgtgttgaataagtgCAATTTAATTTAGTTCTAGACCTAACATATGGGCTCTTA-ATAGCAT-----CTTTGCTTAAGTGT----TGGAAAATTTGAGTTGCTCAATTTCAACAACTACTAGTAACCTTTCAGGAATATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139832219 333 + 163208435 ctgtgccagaaag--tagc-ttgtctaaaaatatttct-ctcagacatactctat-tcccttac-tttc-ttta-------------tctttcttcacagta------ttttga----tttgtttattatgtg-------------------ttttctactagaatgtaaatgctctgagatcaaggactgc-tttgttcataattttattcccagcagatac------atttggtacat--agtagatagtcaataaatatgtgttgaataagtgCAATTTAACTTAGTTCTAGACCTAACATATGGGCTCTTA-ATAGCAT-----CTTTGCTTGAGTGT----TGGAAAATTTGAGTTGCTCAATTTCGACAACTACTAGTAACCTTTCAGGAAAATT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122821547 332 + 180051392 ctgtgccagaaag--tagc-ttgtctaaaaatatttct-ttcagacatactctat-tcccttac-tgaa-ctt--------------tctttcttcacagta------ttttga----tttgtctattgtgca-------------------ttttctactagaatgtaaacactctgagatcaaggactgc-cttgttcatcattttattcctagcagatac------atatggtacat--aatagatagtcaataaatatatgttgaataagtgCAATTTAATTTAGTTCTAGATCTAACATATGGGTTCTTA-ACAGCAT-----CTTTGCTTAAGTGT----TGGAAAATTTGAGTTGCTCAATTTCAACAACTGCTAGTGACCTTTTAGGAAAATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124245223 332 + 181584905 CTGTGCCAGAAAG--TAGC-TTGTCTAAAAATATTTCT-TTCAGACATActctat-tcccttac-tgaa-ctt--------------tctttcttcacagta------ttttga----tttgtctattgtgca-------------------ttttctactagaatgtaaacactctgagatcaaggactgc-cttgttcatcattttattcctagcagatac------atatggtacat--aatagatagtcaataaatatatgttgaataagtgCAATTTAATTTAGTTCTAGATCTAACATATGGGTTCTTA-ACAGCAT-----CTTTGCTTAAGTGT----TGGAAAATTTGAGTTGCTCAATTTCAACAACTGCTAGTGACCTTTTAGGAAAATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16243083 330 +  18395747 ctgtgccagaaag--tagc-ttgtctaaaaatatttct-ttcagacatactctat-tcccttac-tgaa-ctt--------------tctttcttcacagta------ttttga----tttgtctattatgca-------------------ttttctactagaatgtaaacactc--agatcaaggactgc-cttgttcatcattttattcctagcagatac------atatggtacat--aatagatagtcaataaatatatgttgaataagtgCAATTTAATTTAGTTCTAGATCTAACATATGGGTTCTTA-ACAGCAT-----CTTTGCTTAAGTGT----TGGAAAATTTGAGTTGCTCAATTTCAACAACTGCTAGTGACCTTTTAGGAAAATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5255147 332 +  26952557 ctgtgccagaaag--tagc-ttgtctaaaaatatttct-ttgagacatactctat-tcccttac-tgaa-ctt--------------tctttcttcacagta------ttttta----tttgttgattatgca-------------------ttttctactagaatgtgaacactctgagatcaaggactgc-tttgttcatcattttattcctagcagatac------atatggtacat--agtagatagtcaataaatatatgttgaataagtgCAATTTAATTTAGTTCTAGATCTAACATATGGGTTCTTA-ATAGCAT-----CTTTGCTTAAGTGT----TGGAAAATTTGAGTTGCTCAATTTCAACAACTGCTAGTAACCTTTTAGGAAAATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28356940 332 +  82825804 CTGTGCCAGAAAG--TAGC-TTGTCTAAAAATATTTCT-TTCAGACATACTCTAT-TCCCTTAC-TTAA-CTT--------------TCTTTCTTCACAgta------ttttga----tttgtttattatgca-------------------ttttctactagaatgtgaacactctgagatcaaggactgc-tttgttcatcattttattcctagcagatac------atatggtacat--agtagatagtcaataaatatatgttgaataagtgCAATTTAATTTAGTTCTAGATCTAACATATGGGTTCTTA-ATAGCAT-----CTTTGCTTAAGTGT----TGGAAAATTTGAGTTGTTCAATTTCAACAACTGCTAGTAACCTTTTAGGAAAATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4023762 332 -   4237731 ctgtgccagaaag--tagc-ttgtctaaaaatatttct-ttcagacatactctat-tcccttac-tgaa-ctt--------------tctttcttcacagta------ttttga----tttgtctattatgca-------------------ttttctactagaatgtaaacactctgagatcaaggactgc-tttgttcatcattttattcctagcagatac------gtatggtacat--aatagatagtcaataaatatatgttgaataagtgCAATTTAATTTAGTTCTAGATCTAACATATGGGTTCTTA-ATAGCAT-----CTTTGCTTAAGTGT----TGGAAAATTTGAGTTGCTCAATTTCAACAACTGCTAGTGACCTTTTAGGAAAATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      294487 332 -   1175262 ctgtgccagaaag--tagc-ttgtctaaaaatatttct-ttcagatatactctat-tcccttac-tgaa-ctt--------------tctttcttcacagta------ttttga----tttgtttattatgca-------------------ttttctactagaatataaacactctgagatcaaggactgt-ttggttcatcattttattcctagcagatac------atatggtacat--agtagatagtcaataaatatatgttgaataagtACAAGTTAATTTAGTTCTAGATCTAACATATGGGTTCTTA-ATAGCAT-----CTTTGCTTAAACGT----TGGAAAATTTGAGTTGCTCAATTTCAACAACTGCTAGTAACCTTTTAGGAAAATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123638323 338 - 204313951 ctctgccagaaaa--tagc-ttgtctaaaaatattttt-cccatacatactccat-ttccttac-ttac-ttta-------------tctttcttcacagta------ttttgatttgtttgtttattatgtg-------------------tcttatactagaatgtatacttcctgagatcaaggactgcttttgttcgtcatttttttcctagcaggtac------ctgtggtacat--agtagacagtcaaaaaatatgtgttgaataaatgcatTTTAATTTAGTTTTAGATCTAACATTGGAGTTCTTA-GTAGCAT-----CTGTGCTTAAGTGT----TGGAAAATTTGAGTTGCTCAATCTCAACAACTACTAGTAACCTTTTAGGAATGTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55683207 337 -  71252344 ctgtgccagaaag--tagc-ttgtctaaaaatatttct-ctcatacatactctat-tactttac-ttac-ttca-------------tctttcttcacagta------ttttgatttatttgtttattatctg-------------------tcttctactagaatttaaactccctgagatcaaggactgc-tttgttcatcattttattcctagcagatac------atgtggtacat--agtagatagtcaaaaaatatgtgttgaataaatgcatTTTAATTTAGTTCTAGATCTAGCATTGGAGTTCTTA-GTAGCAT-----CTATGCTTAAGTGT----TGGAAAATTTGAGTTGCTCAATTTCAACAGCTACTAGTAACCTTTTAGGAATGTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1387268 337 -   1400280 ctgtgccagaaag--tagc-ttatctaaaaatatttct-ctcatacatactctat-tcctttac-ttac-ttta-------------tttctcttcacagta------ttttgatttgtttgtttattatgtg-------------------tcttctactagaatttaagctccctgagatcaaggactgc-tttgttcatcattttattcctagcagatac------atatggtacat--agtagatagtcaaaaaatatgtgttgaataaatgcatTTTAATTTAGTTCTAGATCTAATACTGGAGTTCTTA-GTAGCAT-----CTATGCTTAAGTGT----TGGAAAATTTGAGTTGTTCAATTTCAACAGCTACTAGTAACCTTTTAGGAATGTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13184275 337 -  42888418 ctgtgccagaaag--tagc-ttgtctaaaaatatttct-ttcatacatactctat-tcctttac-ttactttta-------------tctttcctcacagta------ttttgatttgtttgtttattatgtg-------------------tcttctactagaatttaaactctctgagatcaaggactgc-tttgttcatcattttattcccagca-atac------atatggtacat--agtagatagtcaaaaaatatgtgttgaataaatgcatTTTAATTTAGTTCTAGATCTAACATTGGAGTTCTTA-GTAGCAT-----CTATGCTTAAGTGT----TGGAAAATTTGAGTTGCTTAATTTCAACAACTACTAGTAACCTTTTAGGAATGTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60528627 318 + 108143057 ccatgtcagaagc--tagc-ttgtctaaaaatacagctgtccagtcacactctat-ttccttac------ttta-------------tctttcttcacagtg-------tttgg----tttatttatcgtcca-------------------tcttatactagagtgtaaactctctgagatccaggactgt------tcatcattttaaccctagcaggtac------atgtggcatatgaag-------tcaattaatatttgtttaataaatgaaATTAAATTTAGTTCTATACCTAATACATGAGTTCTAA-GTAGCAT-----TTCTGCTT-AGTGC----TATGACATTTGAGTGGCTGAATTTCAATAACTTCTAGTCACCTTTTGGGAAAATT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3567930 325 +  11683526 ccatgtcagaaac--tggc-ttgtctaaaaatacagctctccagtcacactctat-ttccttac------ttta-------------tctttcttcacagtg-------tttag----tttatttattgtcca-------------------tcttacactagagtgtaaactctatgagatccaggactgg------tcatcattttaaccctagcaggtac------atgtagcatatatagtaggtactcaattaacatttgttgaataaatgaaATTAAATTTAGTTCTATACCTAATATATGAGTTCTAA-GTAGCAT-----TTCTGCTT-ACTGC----TGTGAAATGTGAGTGGCTCAATTTCAATAACTTCTAGTCACCTTTTGGGAAAATT
i proCoq1.NW_012155062v1   I 34 I 91
s otoGar3.GL873679           3055388 323 +   4132165 ccctgtcagaaag--taga--tgtctaaaaattcccctcctcagcctcactctatattcctaac------ttta-------------tttttcttcagtgt--------tttag----tttatttattgtaca-------------------tcttattcaagaatgtaaactctctaatatccagcactgt------tcatcattttatccctagccagtac------atgtggtctat--agtcagtattcaattagtatttgttgaataaatgaaATTCAGTTTAGTTCTAGACCTA--ACATGAGTTCTGA-GTAGTAT-----TTCTGCTT-TATGCTTTATGTGAAATCTGTGTGACTTAATTTTAACCACTACTAGTCACCTTTTAGGAAAAT-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55499734 351 +  90702639 acatgtctgaagccttacc-ttgtataacaatgcacct-ccctgccacactccct-tccctttc-ctac-catatctgcatgtctactcctttatcacaggt------ctttaatttattagtttattgtctg-------------------tgttatactagagtgttaactttctgaagtcaaggagtct-tttgttcatcatgttatccatagcagataa------atatggcatca--agtaggtaattaataaatgcttattgagtgaataaaATTCAATTTACTTGTAGATCCCTGGTATAAGTTCTAA-AACATATTGTGACCCTTCTT-GGTCC----TGTGAGTCCTGCGGC-CTTACCTTCAGAAACCATT----GCCTTTGGGGGGGAAT
i mm10.chr18               I 1 C 0
s canFam3.chr11             14901909 301 +  74389097 ccattttagaaag--cacctttttctaaaaatactattccccagtcaccctctat-tcccctat-ttgc-ttca-------------tcttt-----------------tttga-------------taacag-------------------tcttctactggaatgtaagttctc--aagttaaggactgt---tgttcatcattttatctctagcagataa------atatgggacat--agtaggtaatcaatacctatttgtggaatgaatgaaAT---ACCTAGT-------CTAAGATATGAGTTTTTAGAAAGCAT-----CTCTGTTT-AGTAC----AGTGAAATTTGAATGGTTCAATTTCAATAATTACTAGTAACATTTTAGGAAAATT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2610118 342 +   3667625 ----atcagaagc--tacc-tt---ta------------tagggtctcactctct-tcccttatgttac-tgaa-------------tctttcttcacagtaattatgtattta----tttattaattataaaacagataagaataaattgtttgtctcctaga---caaactctctgagatcaaaggatgcttttgtttatc-ctttatccctagtacatacaacagaatctgactctt--agtaggtaatcaataaatacttgtcaaatgaatg-aatTTAATCTAGTTCAAGATCTAAGATATGAGTTTTAG-GTAGCAG-----CTCTGTTT-AATGC----TGTGACATCTGAATGGTCCAATTTCAATTACTGCTATTAAGATTTTAGGAACATT
i dasNov3.JH567306         C 0 C 0

a score=946465.000000
s hg38.chr5_KI270796v1_alt     63186 81 +    172708 GTTGCAAATA-CTTAGTTCTTTAGATTTTGAAGAATGTT-ACTGATATAGGAATAAAACAAAA---------------GATTTACAG--ACAGAGCAATG
s panTro5.chr5             125173302 81 + 181907262 GTTGCAAATA-CTTAGTTCTTTAGATTTTGAAGAATGTT-ACTAATATAGGAATAAAACAAAA---------------GATTTACAG--ACAGAGCAATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126510328 81 + 183735486 GTTGCAAATA-CTTAGTTCTTTAGATTTTGAAGAATGTT-ACTGATATAGGAATAAAACAAAA---------------GATTTACAG--ACAGAGCAATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1701730 81 +   8933513 GTTGCAAATA-CTTAGTTCTTTAGATTTTGAAGAATGTT-ACTGATATAGGAATAAAACAAAA---------------GATTTACAG--ACAGAGCAATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139832552 84 + 163208435 GTTGCAAATA-CTTAGTTCTTTAGTTTTTGAAGAATGTT-ACTGATATAGGAATAAAACAAAAGAT------------GATTTACAG--ACAGAGCAATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122821879 84 + 180051392 GTTGCAAATA-CTTAGTTCTTTAGTTTTTGAAGAATGTT-ACTGATATAGAAATAAAACAAAAGAT------------GATTTACAG--ACAGAGCAGTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124245555 84 + 181584905 GTTGCAAATA-CTTAGTTCTTTAGTTTTTGAAGAATGTT-ACTGATATAGAAATAAAACAAAAGAT------------GATTTACAG--ACAGAGCAGTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16243413 84 +  18395747 GTTGCAAATA-CTTAGTTCTTTAGTTTTTGAAGAATGTT-ACTGATATAGAAATAAAACAAAAGAT------------GATTTACAG--ACAGAGCAGTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5255479 84 +  26952557 GTTGCAAATA-CTTAGTTCTTTAGTTTTTGAAGAATGTT-ACTGATATAGAAATAAAACAAAAGAT------------GATTTACAG--ACAGAGCAGTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28357272 84 +  82825804 GTTGCAAATA-CTTAGTTCTTCAGTTTTTGAAGAATGTT-ACTGATATAGAAATAAAACAAAAGAT------------GATTTACAG--ACAGAGCAGTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4024094 84 -   4237731 GTTGCAAATA-CTTAGTTCTTTAGTTTTTGAAGAATGTT-ACTGATATAGAAATAAAACAAAAGAT------------GATTTACAG--ACAGAGCAGTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      294819 84 -   1175262 GTTGCAAATA-CTTAGTTCTTTAGTTTTTGAAGAATGTT-ACTGATATAGAAATAAAACAAAAGAT------------GATTTACAG--ACAGAGCAGTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123638661 84 - 204313951 TCTGGAAATATTTTAGATTTTCAGTTTTTGAAGAATGTT-ACTGATATAGAAATAAAACAAAAGAT------------AA-TTAGAG--ACAGAGCAAGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55683544 85 -  71252344 TCTGGAAATATTTTAGATTTTTAGTTTTTGAAGAATGTT-ACTGATAAAGAAATAAAACAAAAGAT------------AATTTACAG--GCAGAGCAGGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1387605 80 -   1400280 TCTGGAAATATTTTAGATTTTTAGTTTTTGAAGAATGTT-ACTGATATAGAAAT-----AAAAGAT------------AATTTACAG--ACAGAGCAAAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13184612 85 -  42888418 TCTGGAAATATTTTAGATTTTCCATTTTTGAAGAATGTT-ACTGATATAGAAATAAAACAAAAGAT------------AATTTACag--acagagtaagg
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60528945 88 + 108143057 --------CA-CTTATTTCTCTACTCTTTGAAGAATGTTAACTGATATAGAAGTAGAACAAAAGATGGTCTGTGTATAGATTTAAGG--ACACAGCAAT-
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3055711 86 +   4132165 ------------GCATTTATTTAGTCTGTAAAGAATATTAACTAACATGGAGACAGAACAAAAGATGATCTGGGTATAGATTTAGGG--ACACAGGAATG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55500085 76 +  90702639 TTCAGGGATA-TTCATTTCCTTGGTCTTT-AAGAATGTG-TCTG-TACAGAAGT--------AGAT------------TAACTACAGGTACACGGCAATT
i mm10.chr18               C 0 I 2
s canFam3.chr11             14902210 94 +  74389097 CATGAAAATA-TTAATTTCTTTAGTTTTTGAAGAACATT-ACTGACACAG-AATAGAACAAAA-ATGATTTGGATATGGATTTAGGG--ACATAGCAATA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2610460 98 +   3667625 CATGTAAATA-TTCATATCTTTAGTCTTTGAAGTATGTT-TCTGCCATAGAAGTAGAATAAAAGGTGACTTGGATATAGATTCAGAGACACAGAGAAATG
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3568255 91 +  11683526 I

a score=2772823.000000
s hg38.chr5_KI270796v1_alt     63267 196 +    172708 GAGAGA--GTAATTGGAAAAGA---------GAAAGAT---------GGA-------------GTTCTTATTGTTTTCAACAATTTAAAGTGTGAATACTGTGTTGAACCACTTTGCATATAAAGATCCACTGAAACCTTGTTAATATGACTGATAAAAATGATAGGAATAGAT-ATTTAGATCTTTTTAAGCCTCAGTT-------AGTAGCCAGTAGATTTGAGGTAATGCCTTA
s panTro5.chr5             125173383 196 + 181907262 GAGAGA--GTAATTGGAAAAGA---------GAAAGAT---------GGA-------------GTTCTTATTTTTTTCAACAATTTAAAGTGTGAATACTGTGTTGAGCCACTTTGCATATAAAGATCCACTGAAACCTTGTTAATATGACTGATAAAAATGATAGGAATAGAT-ATTTAGATCTTTTTAAGCCTCAGTT-------AGTAGCCAGTAGATGTGAGGTAATGCCTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126510409 196 + 183735486 GAGAGA--GTAATTGGAAAAGA---------GAAAGAT---------GGA-------------GTTCTTATTTTTTTCAACAATTTAAAGTGTGAATACTGTGTTGAGCCACTTTGCATATAAAGATCCACTGAAACCTTGTTAATATGACTGATAAAAATGATAGGAATAGAT-ATTTAGATCTTTTTAAGCCTCAGTT-------AGTAGCCAGTAGATTTGAGGTAATGCCTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1701811 196 +   8933513 GAGAGA--GTAATTGGAAAAGA---------GAAAGAT---------GGA-------------GTTCTTATTGTTTTCAACAATTTAAAGTGTGAATACTGTGTTGAACCACTTTGCATATAAAGATCCACTGAAATCTTGTTAATATGACTGATAAAAATGATAGGAATAGAT-ATTTAGATCTTTTTAAGCCTCAGTT-------AGTAGCCAGTAGATTTGAGGTAATGCTTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139832636 196 + 163208435 GAGAGA--GTAATTGGAAAAGA---------GAAAGAT---------GGA-------------GTTCTTATTGTTTTCAACAATTTAAAGTGTGGATACTGTGTTGAACCACTTTGCATGTAAAGATCCACTGAAACCTTATTAATATGACTGATAAAAGTGATAGGAATAGAT-ATTTAGATCTTTTTAAGCCTCAGTT-------AGTAGTCAGCAGATTTGAGGTAATGCTTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122821963 198 + 180051392 GAGAGAGGGTAATTGGAAAAGA---------GAAAGAT---------GGA-------------GTTTTTATTGTTTTCAACAATTTAAAGTGTGAATACTGTGTTGAACCACTTTGCATATAAAGATCCCCTGAAATCTTGTTAATATGACTGATAAAAATGATAGGAATAGAT-ATTTATATCTTTTTAAGTCTCAGTT-------AGTAGTCAGTACATTTGAGGTAATGCTTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124245639 194 + 181584905 GAGAGAGGGTAATTGGAAAAGA---------GAAAGAT---------GGA-------------GTTTTTATTGTTTTCAACAATTTAAAGTGTGAATACTGTGTTGAACCACTTTGCATATAAAGATCCCCTGAAATCTTGTTAATATGACTGATAAAAATGATAGGAATAGAT-ATTTATATCTTTTTAAGTCTC-----------AGTAGTCAGTACATTTGAGGTAATGCTTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16243497 198 +  18395747 GAGAGAGGGTAATTGGAAAAGA---------GAAAGAT---------GGA-------------GTTTTTATTGTTTTCAACAATTTAAAGTGTGAATACTGTGTTGAACCACTTTGCATATAAAGATCCACTGAAATCTTGTTAATATGACTGATAAAAATGATAGGAATAGAT-ATTTATATCTTTTTAAGTCTCAGTT-------AGTAGTCAGTACATTTGAGGTAATGCTTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5255563 198 +  26952557 GAGAGAGGGTAACTGGAAAAGA---------GAAAGAT---------GGA-------------GTTTTTATTGTTTTCAACAATTTAAAGTGTGAATACTGTGTTGAACTACTTTGCATATAAAGATCCACTGAAAGCTTTTTAATATGACTGATAAAAATGATAGGAATAGAT-ATTTATATCTTTTTAAGTCTCAGTT-------AGTAGTCAGTACATTTGAGGTAATGCTTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28357356 198 +  82825804 GAGAGAGGGTAATTGGAAAAGA---------GAAAGAT---------GGA-------------GTTTTTATTGTTTTCAACAATTTAAAGTGTGAATACTGTGTTGAACTACTTTGCATATAAAGAGCCACTGAAAGCTTGTTAATATGACTGATAAAAATGATGGGAATAGAT-ATTTATATCTTTTTAAGTCTCAGTT-------AGTAGTCAGTACATTTGAGGTAATGCTTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4024178 194 -   4237731 GAGAGAGGGTAATTGGAAAAGA---------GAAAGAT---------GGA-------------GTTTTTATTGTTTTCAACAATTTAAAGTGTGAATACTGTGTTGAACCACTTTGCATATAAAGATCCACTGAAAGCTTGTTAATATGACTGATAAAAATGATAGGAATAGAT-ATTTATATCTTTTTAAGTCTC-----------AGTAGTCAGTACATTTGAGGTAATGCTTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      294903 198 -   1175262 GAGGGAGGGTAATTGGAAAAGA---------GAAAGAT---------GGA-------------CTTTTTATTGTTTTCAACAATTTAAAGTGTGAGTACTGTGTTGAACCACTTTGCGTATAAAGATCCACTGAAAGCTTGTTAATATGACTGATAAAAATGATAGGAATAGAT-ATTTATATCTTTTTAAGTCTCAGTT-------AGTAGTCAGTACATTTGAGGTAATGCTTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123638745 191 - 204313951 GAGAGA----AATTAAAAAAGA---------GAAAGAT---------GAA-------------GTTCTTATTGTTTTCTACAATTTAAAATGTGAATACTGTGTTAAACCATTTTGCGTATAAAGATCCCCTGAAACCTTGTTAATATGACTGGTAACAATGATAGGAATAGATAATTTAGATCTTTTTAAGCC----TT-------AGCAGTCAGTAGATTTGAGGTAATGCTTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55683629 188 -  71252344 GAGAGA----AATTGAAAAAGA---------GAAAGAA---------GAA-------------GTTCTTATTGTTTTCTACAATTTAAAATGTGAATACTGTGTTGAACCACTTTTCATATAAAGATCCACTGAAACCTTGTTAATATGACTGGTAATAGTGATAGGA----ATAATTTAGATATTTTTAAGCCT---TT-------AGCAGTCAGTAGATTTGAGGTAATGCTTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1387685 191 -   1400280 GAGAGA----AATTGAAAAAGA---------GAAAGGT---------GAA-------------GTTCTTATTGTTTTCTACAATTTAAAACGTGAATACTGTGTTGAACCACTTTGCATATAAAGATCCACTGAAACCTTGTTAATATGACTGGTAACAATGATAGGAATAGATAATTTAGATCTTTTTAAGCC----TT-------AGCAGTCAGTAGATTTGAGGTAATGCTTTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13184697 189 -  42888418 gagaga----aattg--aaaga---------gaaagat---------gaa-------------GTTCTTATTGTTTTCTACAATTTAAAATGTGAATACTGTGTTGAACCACTTTGCATATAAAGATCCACTGAAACCTTGTTAATATGACTGGTAACAATGATATGAATAGATAATTTAGATCTTTTTAAGCC----TT-------AGCAGTCAGTAGATTTGAGGTAATGCTTTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60529033 191 + 108143057 -AGAGA--GTAATTAAAAAAGA---------GAAAGAA---------GGG-------------GTCCTTATTGTTTTCCACAAGTTAAAATGTGAATACTGTATTGAACCACTTTGCATATCAAGATCAACTGGACACTTGTTAATATGGCTGACATGAATGATGGGACTAG----TTTAGA-TTTTTAAGGCCTTATTT-------CTAAGTCAGTAGATTGCAGGGAATGCTTTA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3568346 195 +  11683526 GAGAGA--GTAATT-AAAAAGA---------AAAAGAA---------GGG-------------GTCCTTATTGTTTTCAACAAGTTAAAATGTGAATACCGTATTGAACCACTTTGCATATCAAGATCAACTGGACCCTTGTTAATAAGGCTGACATGAATGATGGGACTAGGT-ATTTAGATTTTTTTAAGCCTTATTC-------ATAAGTCAGTAGATTTCAGGGAATGCTTTA
i proCoq1.NW_012155062v1   I 91 C 0
s otoGar3.GL873679           3055797 194 +   4132165 GAGAAA--ATAATAGAAAGGGA---------GAAAGAA----------GG-------------GTCCTTATTGTTTTCAACAATTTAAAACGTGAATACTGTATTGAACCACTTTGCATATCAAGATCCACTGGACCCTTGTTGATATGACTGATTTGAATGATGGGACTAGAT-ATTAAGATTTTTTAAAGAC-TGCTT-------ATAAGTTAGTAGATTTCAGACAATGCTTTA
i otoGar3.GL873679         C 0 I 256
s mm10.chr18                55500163 197 +  90702639 GAGAGA--GTGATTAAGGAAGA---------CAGAGACTATGAGAGAGGG-------------CCCTTTGTTGTTTTCACCAATTAATAATATGAATACTGCACTTA-----TCTTCATTTCAAGATCCAACAAAATCCTGTTATCATGACTTGAATGAATGCAAGAATTCGAT-CTATATGTCTCTTTATGCCTTATAT-------GAAAGCCTAGAGATTTGAGGCAGTA---TA
i mm10.chr18               I 2 I 3
s canFam3.chr11             14902304 210 +  74389097 GAGAGATAGCAGTTGAGAAAGA---------GAGAGAC---------AGAACCTAAAAGACGGGGCCCTCCTATTTCCAACAATTTAAA-TGTGAGTCCTGCATGCATATACTTGACATGTCAAAATCCAACAAAAACTTGTTAATGTGATAGATATGAATGATAGGATTGGAT-ATTTAGATCTTTTTAGGCCTTATTT-------GGAAGTCAGTAGATTTGAGGTAATGCTTTA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2610558 211 +   3667625 GAGATAAAGCATTTGAGAAGAAAGAAAACTTGAAAGAT---------GGC-------------GTCTTTATTGTTTTCAACAATTCAAAATGTGTGTACTGAATTGATCCACTTCCCATGTCCAGATCCACTTA--TCTTGTTAGTATGACCCATATGAATGATAAGATTAAAT-CGTTAGATAATTTTAAGACTTGTGTTTTTTAAAATTtttattatttttaaaataatgctta-
i dasNov3.JH567306         C 0 C 0

a score=120336.000000
s hg38.chr5_KI270796v1_alt     63463 9 +    172708 GACTTTACA
s panTro5.chr5             125173579 9 + 181907262 GACTTTAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126510605 9 + 183735486 GACTTTAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1702007 9 +   8933513 GACTTTAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139832832 9 + 163208435 GACTTTAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122822161 9 + 180051392 GACTTTAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124245833 9 + 181584905 GACTTTAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16243695 9 +  18395747 GACTTTAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5255761 9 +  26952557 GACTTTAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28357554 9 +  82825804 GACTTTAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4024372 9 -   4237731 GACTTTAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      295101 9 -   1175262 GACTTTGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123638936 9 - 204313951 GACTTTGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55683817 9 -  71252344 GACTTTGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1387876 9 -   1400280 GACTTTGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13184886 9 -  42888418 GACTTTGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60529224 9 + 108143057 GACTCTGGG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3568541 9 +  11683526 GACTTTGGG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3056247 9 +   4132165 GACTTTGGG
i otoGar3.GL873679         I 256 C 0
s mm10.chr18                55500363 9 +  90702639 AATGAGGCA
i mm10.chr18               I 3 C 0
s canFam3.chr11             14902514 9 +  74389097 GACCTCAAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2610769 9 +   3667625 gattatata
i dasNov3.JH567306         C 0 I 1189

a score=21000.000000
s hg38.chr5_KI270796v1_alt     63472 1 +    172708 C
s panTro5.chr5             125173588 1 + 181907262 C
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126510614 1 + 183735486 C
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1702016 1 +   8933513 C
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139832841 1 + 163208435 C
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122822170 1 + 180051392 C
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124245842 1 + 181584905 C
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16243704 1 +  18395747 C
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5255770 1 +  26952557 C
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28357563 1 +  82825804 C
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4024381 1 -   4237731 C
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      295110 1 -   1175262 C
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123638945 1 - 204313951 C
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55683826 1 -  71252344 C
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1387885 1 -   1400280 C
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13184895 1 -  42888418 C
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60529233 1 + 108143057 C
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3568550 1 +  11683526 C
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3056256 1 +   4132165 C
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55500372 1 +  90702639 C
i mm10.chr18               C 0 C 0
s canFam3.chr11             14902523 1 +  74389097 C
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2610778 1189 +   3667625 I

a score=936429.000000
s hg38.chr5_KI270796v1_alt     63473  67 +    172708 TTTGCCAAGGTTTGCCAAATTTGCAATCCTTTTGGAAAAT-------------------------------------------------------------------------------------------------------------------GTTATCTGAGC--------------------------------------CTGGCTGGGTACCTGG
s panTro5.chr5             125173589  67 + 181907262 TTTGCCAAGGTTTGCCAAATTTGCAATCCTTTTGGAAAAT-------------------------------------------------------------------------------------------------------------------GTTATCTGAGC--------------------------------------CTGGCTGGGTACCTGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126510615  67 + 183735486 TTTGCCAAGGTTTGCCAAATTTGCAATCCTTTTGGAAATT-------------------------------------------------------------------------------------------------------------------GTTATCTGAGC--------------------------------------CTGGCTGGGTACCTGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1702017  67 +   8933513 TTTGCCTAGGTTTGCCAAATTTGCAGTCCTTTTGGGAAAT-------------------------------------------------------------------------------------------------------------------GTTATCTGAGC--------------------------------------CTGGCTGGGTACCTGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139832842  67 + 163208435 TTTGCCAAGGTTTGCCAAATTTGCAATCCTTTTGGAAAAT-------------------------------------------------------------------------------------------------------------------GTTATCTGAGC--------------------------------------CTGGCTGGGTACCTGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122822171  67 + 180051392 TTTGCCAAGATTTGCCAAATTTGCAATCCTTTTGGAAAAT-------------------------------------------------------------------------------------------------------------------GTTATCTGAGC--------------------------------------CTGACTGGGTACCTGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124245843  67 + 181584905 TTTGCCAAAATTTGCCAAATTTGCAATCCTTTTGGAAAAT-------------------------------------------------------------------------------------------------------------------ATTATCTGACC--------------------------------------CTGACTGGGTACCTGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16243705  67 +  18395747 TTTGCCAAGATTTGCCAAATTTGCAATCCTTTTGGAAAAT-------------------------------------------------------------------------------------------------------------------GTTATCTGAGC--------------------------------------CTGACTGGGTACCTGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5255771  67 +  26952557 TTTGCCAAGATTTGCTAAATTTGCAATCCTTTTGGAAAAT-------------------------------------------------------------------------------------------------------------------GTTATCTGAGC--------------------------------------CTGACTGGGTACCTGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28357564  67 +  82825804 TTTGCCAAGATTTGCTAAATTTGCAATCCTTTTGGAAAAT-------------------------------------------------------------------------------------------------------------------GTTATCTGAGC--------------------------------------CTGACTGGGTACCTGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4024382  67 -   4237731 TTTGCCAAGATTTGCCAAATTTGCAATCCTTTTGGAAAAT-------------------------------------------------------------------------------------------------------------------GTTATCTGAGC--------------------------------------CTGACTGGGTACCTGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      295111  67 -   1175262 TTTGCCAAGATTTGCCAAATTTGCAATCCTTTTGGAAAAT-------------------------------------------------------------------------------------------------------------------GTTATCTGAGC--------------------------------------CTGGCTGGGTACCTGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123638946  67 - 204313951 AGTCCCAACGTTTGCCAGATTTGCAATCCTTTTGGAAAAT-------------------------------------------------------------------------------------------------------------------GTTATCTGAGT--------------------------------------CTGGCTGGATACCTGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55683827  67 -  71252344 ATTCCCAGTGCTTGCCAGATTTGCAATCCTTTTGGAAAAT-------------------------------------------------------------------------------------------------------------------GTTATCTGAGC--------------------------------------CTGGCTGGCTACCTGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1387886  67 -   1400280 ATTCCCAACGTTTGCCAGATTTGCAGTCCTTTTGGAAAAT-------------------------------------------------------------------------------------------------------------------GTTATCTGAGC--------------------------------------CTGGCTGGCTACCTGG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13184896  67 -  42888418 ATTCCCAATGTTTGCCAGATTTGCAATCCTTTTGGAAAAT-------------------------------------------------------------------------------------------------------------------GTTATTTGAGC--------------------------------------CTGGCTGGCTACCTGG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60529234  63 + 108143057 TCTGCCAAGGTTTGCCAAATTTGCAATCCTTTTAGAAAAT-------------------------------------------------------------------------------------------------------------------GCTATCTGAGC------------------------------------------TTGGGCACCTGG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3568551  63 +  11683526 TCTGCCAAGGTTTGCCAAATTTGCAATCCTTTTAGAAAAT-------------------------------------------------------------------------------------------------------------------GCTATCTGAGC------------------------------------------TTGGGCACCTGG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3056257  63 +   4132165 TCTCCCAAGGTTAACCAAATTTGCAGTCCTTTTAGAAAAG-------------------------------------------------------------------------------------------------------------------GTTATCTGACC------------------------------------------TTTGGCACCTGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55500373 219 +  90702639 TTTTACAAGGCTTGCTA-ATCTGTAATCATTCAGAAAAATAATGTTTCCTGACCCTAGGCACCAGGGCTAGggttgatattaatggttaacttgattggatttggaattaacctagaaacaaacctgtgggcatctctgtgaatttctagcgtaggttaactgaggtgagaggaccctctatggatgtagacagcaccattccattagctggggtcctgg
i mm10.chr18               C 0 I 175
s canFam3.chr11             14902524  62 +  74389097 TCTGACAATGTTTGCCAAA-CTGCAATCCTTTGGGTAAAT-------------------------------------------------------------------------------------------------------------------GCTACCTGAGC------------------------------------------CCGGGCATCTGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2611967  63 +   3667625 tctgacAAGATTTGCTGTATTTACAATCCTTATGGAAAAT-------------------------------------------------------------------------------------------------------------------GCTCTCTGACC------------------------------------------CTGGGTACCTGG
i dasNov3.JH567306         I 1189 C 0

a score=2526888.000000
s hg38.chr5_KI270796v1_alt     63540 174 +    172708 GAAAGATTTATGGAAGGAGATAAACGTTAC-AAATAGGAGGAGGAATTCA--------------TTGCATTCTTTGTGGGTTGCAGTTGAAGCATACTGGAAGTTACAAG-CCTCTG-TGTCTTTCACTTTGGATACTTGGCTGCATTTAAACTCCATAAGCAAAAATTTGTATAAAAGTAGCATCAGCTG
s panTro5.chr5             125173656 174 + 181907262 GAAAGATTTATGGAAGGAGCTGAACGTTAC-AAATAGGAGGAGGAATTCA--------------TTGCATTCTTTGCAGGTTGCAGTTGAAGCATACTGGAAGTTACAAG-CCTCTG-TGTCTTTCACTTTGGATACTTGGCTGCATTTAAATTCCATAAGCAAAAATTTGTATAAAAGTAGCATGAGCTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126510682 174 + 183735486 GAAAGATTTATGGAAGTTGCTGAACGTTAC-AAATAGGAGGAGGAATTCA--------------TTGCATTCCTTGCAGGTTGCAGTTGAAGCATACTGGAAGTTACAAG-CCTCTG-TGTCTTTCACTTTGGATACTTGGCTGCATTTAAATTCCATAAGCAAAAATTTGTATAAAAGTAGCATGAGCTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1702084 174 +   8933513 GAAAGATTTATGGAAGGAGCTGAACGTTAC-AAATAGGAGGAGGAATGCA--------------TTGCATTCTTTGTGGGTTGCAGTTGAAGCATACTGGAAGTTACAAG-CCTCTG-TGTCTTTCACTTTGGATACTTGGATGCATTTAAACTCCATAAGCAAAAATTTGTTTAAAAGTAGCATCAGCTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139832909 174 + 163208435 GAAAGATTTATGGAAGGAGTTGAACGTTAC-AAATAGGAGGAGGAATTCA--------------TTGCATTCTTTGTGGGTTGCAGTTGAAGCATACTGGAAGTTACAAG-CCTCTG-TGTCTTTCACTGTGGATACTTGGCTGCATTTAAACTCTATAAGCAAAAATTTGTATAAAAGTAGCATCATCTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122822238 174 + 180051392 GAAAGATTTATGGAAGTTGTTGAACGTTAC-AAATAGGAGGAGGAATTCA--------------TTCCATTCTTTGTGGGTTGAAGTTGAAACATACTGGAAGTTACAGG-CCTCTG-TGTCTTTCACTTTGGATGCTTGGCTGCATTTAAACTCCATAAGCAAAGATTAGTGTAAAAGTAGCCTCAGCTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124245910 174 + 181584905 GAAAGATTTATGGAAGTTGTTGAACGTTAC-AAATAGGAGGAGGAATTCA--------------TTCCATTCTTTGTGGGTTGAAGTTGAAACATACTGGAAGTTACAGG-CCTCTG-TGTCTTTCACTTTGGATGCTTGGCTGCATTTAAACTCCATAAGCAAAGATTAGTGTAAAAGTAGCCTCAGCTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16243772 174 +  18395747 GAAAGATTTATGGAAGTTGTTGAACGTTAC-AAATAGGAGGAGGAATTCA--------------TTCCATTCTTTGTGGGTTGAAGTTGAAACATACTGGAAGTTACAGG-CCTCTG-TGTCTTTCACTTTGGACGCTTGGCTGCATTTAAACTCCATAAGCAAAGATTAGTGTAAAAGTAGCCTCAGCTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5255838 168 +  26952557 GAAAGATTTATGGAAGTTGTTGAACGTTGC-AAATAGAAGGAGGAATTCA--------------TTCTATTCTTTGTGG------GTTGAAACATACTGGAAGTTACAGG-CCTCTG-TGTCTTTCACTTTAGATGCTTGGCTGTATTTAAACTCCATAAGCAAAGATTAGTATAAAAGTAGCATCAGCTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28357631 174 +  82825804 GAAAGATTTGTGGAAGTTGTTGAACATTGC-AAATAGAAGGAGGAATTCA--------------TTCCATTCGTTGTGGGTTGAAGGTGAAACATACTGGAAGTTACAGG-CCTCTG-TGTCTTTCACTTTAGATGCTTGGCTGCATTTAAACTCCATAAGCAAAGATTAGTATAAAAGTAGCATCAGCTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4024449 174 -   4237731 GAAAGATTTATGGAAGTTGTTGAACGTTAC-AAATAGGAGGAGGAATTCA--------------TTCCATTCTTTGTGGGTTGAAGTTGAAACATACTGGAAGTTACAGG-CCTCTG-TGTCTTTCATTTTGGATGCTTGGCTGCATTTAAACTCCATAAGCAAAGATTAGTATAAAAGTAGCCTCAGCTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      295178 174 -   1175262 GAGAGATTTATGGAAGTTGTTGAACGTTAC-AAATAGGAGGAGGAATTCA--------------TTCCATTCTTTGTGCGTTGAAGTTGAAACATACTGGAAGTTACAGG-CCTCTG-TGTCTTTCACTTTGGATGCTTGGCTGCATTTAAACTCCATAAGCAAAGATTAGTATAACAGTAGCATCAGCTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123639013 173 - 204313951 AAAAGATTTATGGAAGGAGTTGAACCTTACAAAATAGGAGGAGGAATTCA--------------TTGCATTCTTTGTGGGATGCACTTGAAGCATACTGGAAGTTACAGG-GCTCTG-TGTCTTTCATTTT-GATACTCAGCTGGA-TTAACCTCCATAAGCAAAGATTTGTATAAAAGTAGTGTCAGCTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55683894 173 -  71252344 GAAAGATTTATGGAAGGATTTGAACATTACAAAATAGGAGGAGGAATTCA--------------TTGCATTCTTTGTGGGATGCATTTGAAGCATACTGGAAGTTACAGG-GTTCTA-TGTCTTTCATTTT-GATACTCAGCTGGA-TTAACCTCCATAAGCAAAGATTTGTATAAAAGTAGTGTTAGCTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1387953 173 -   1400280 GAAAGATTTACGGAAGGAGTTGAACATTACAAAATAGAAGGAGGAATTCA--------------TTGCATTCTTTGTGGGATGCACTTGAAACATACTGGAAGTGACAGG-GCTCTG-TGTCTTTCATTTT-GATATTCAGCTGGA-TTAACCTCCATAAGCAAAGATTTGTATAAAAGTAGTGTCAGCTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13184963 173 -  42888418 GAAAGATTTATGGAAGGAGTTTAACATTACAAAATAGGAGGAGGAATTCA--------------TTGCATTCTTTGTGGGATGCACTTGAAGCCTACTGGAAATTACAGG-GCTCTG-TGTCTTTCATTTT-GATACTCAGCTGGA-TTAACCTCCATAAGCAAAGATTTGTATAAAAGTAGTGTCAGCTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60529297 174 + 108143057 GAAAGATTTATAGAAGGAGCCGAGTGTTAC-AAATAGGGGAAGGAATTCA--------------TCGTGTTCTTTGTGGGTTGCACTTAAGGCATGCTGGAAGTTATAAG-CCTCTG-TGTCTTTCACTTTGGATACTTGGCTGCATTTAAACTCCACATGTAATGATTTGTATGAAAGTAGTGTCAgctg
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3568614 174 +  11683526 GAAAGATTTATAGAAGGAGCTGAATGTTAC-ACATAGGGGAAGGAATTCA--------------TTGTGTTCTTTGTGGGTTGCACTTAAGGCATGCTGGAAGTTACAAG-ACTCTG-TGTCTTTCACTTTGGATACTTGGCTGCATTTAAACTCCACATGTAACGATTTGTATAAAAGTAGTGTCAGCTG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3056320 174 +   4132165 GAAAAATTTCTAGGAGGAGCTGAAGTTTAC-AAATAGAGGGAGGAATTCA--------------TTGCATTCTTTGTGGGTTGCCCTTGTGGCATGTTGGAAGTTGCAGG-CCTCCA-TGTCTTTCACTTTGAATACTTGACTACATTTGAACCCCACATGTAAAGATTTGTACAAAAGTAGTGTCAGCTG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55500767 180 +  90702639 GCAAGACTTATGCAAGAAGTTGAATAATGC--------AGAAGGAATTCATGACTGTTGTTGTTTTGTTTTGTTTGGGCCCTGCACTTAAGTCATGCTGGAAGCTA-AGA-ATTCAA-TGGTTTTCATTTTGGATACTTGGATACATTTAAACTCCACATGTAACCAGTTTTATAAAAGGAGTATTAGTTG
i mm10.chr18               I 175 I 1195
s canFam3.chr11             14902586 173 +  74389097 GACAGGTCTATGGAAGAAGTTGAATGCTAT-GGGTAGGAGGAGG---TCA--------------TTGCATTATCTGTGGGTTGCACTTGCGGTGTGCTGGAAGGTAGAGGTTCACTATTGTCTTTTACTTTAAAAACTGGGTTGCATTGAAATTCCACATGAACTGATTTATTCAAAAGTAACAAATGTTG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2612030 172 +   3667625 GAGAGATTTATGGAAGGAGTCAGAAGGTAC-CAACAGGAGGAG---TTCA--------------TTGCATTATTTGTGGGTTTTACTCATGATATGCTGGAAGTTAGAGGCCCTCTC-TGTCTTTCACTTTAAATATTTGGCTGCATTTGAACACCACATTAGATGATGTGAACAAAAGTAATGCCAACTG
i dasNov3.JH567306         C 0 C 0

a score=9991560.000000
s hg38.chr5_KI270796v1_alt     63714 700 +    172708 ATAAAGCCTAGACTCA-CATAGCTCAAACATTTAGTTTGAATGACTCAATTGCACTCTTACTCGGTGAATTTCTAA---AGGAAACTATTTAATATGCTTAGTATATCATAATACTTCCCATGTCATCTATTTT-AAA-ACACAGCTCATATATAAGTTGACAGCATCCCACAGCTCTGACCCCAGTGGTGGTGCTGACAATAACTGGGCAATTCACTGA--AA-ACCACAAGAT-ACAGTTTGCACTG----TGGA-TTTGATAAT-GGGTTGTATGTAGCCTTTCACTA-TTGGAGAAacaaagttacataattttggagaagtaagagactttacatggcatctgctcagactcttgctctttacaattacc-agaaactagtccccaagcaggaacgtggcaagccattttcatcaacaaatgagctggccgtagagctgaaactggaatatgg-------tcttctgattgctagtcG--AGAGATCTTTTATT-TTGGTGGGGTTGGGGAGC----ATACTTTATTGTAAGTTTCACCAGtgtgggacgcataattttggcccccatgaccttcagctcttgatgttata-------tctataaatatggtttctcacatgctgaatgggactttccagatgtaagtaaggttactaatcagctgacatt---agcgt-agagaaattatcctgg-attatctggttgcaaccaatgtaatcacataaactcttaaaa
s panTro5.chr5             125173830 700 + 181907262 ATAAAGCCTAGACTCA-CATAGCTCAAACATTTAGTTTGAATGACTCGATTGCACTCTTACTCGGTGAATTTCTAA---AGGAAACTATTTAATATGCTTAGTATATCATAATACTTCCCATGCCATCTATTTT-AAA-ACACAGCTCATATATAAGTTGACAGCATCCCACAGCTCTGACCCCAGTGGTGGTGCTGACAATAACTGGGCAATTCACTGA--AA-ACCACAAGAT-ACAATTTGCACTG----TGGA-TTTGATAAT-GGGTTGTATATAGCCTTTCACTA-TTGGAGAAacaaagttacataattttggagaagtaagagactttacatggcatcttctcagactcttgctctttacaattacc-agaaactagtccccaagcaggaacgtggcaagccattttcatcaacaaatgagctggccatagagctgaaactggaatatgg-------tcttctgattgctagtcG--AGAGATCTTTTATT-TTGGTGGGGTTGGGGAGC----ATACTTTATTGTAAGTTTCACCAGtgtgggatgcataattttggcccccatgaccttcagctcttgatgttata-------tctataaatatggtttctcacatgctgaatgggactttccagatgtaagtaaggttactaatcagctgacatt---agcgt-agagaaattatcctgg-attatctggttgcaacaaatgtaatcacataaactcttaaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126510856 700 + 183735486 ATAAAGCCTAGACTCA-CATAGCTCAAACATTTAGTTTGAATGACTCAATTGCACTCTTACTCGGTGAATTTCTAA---AGGAAACTATTTAATATGCTTAGTATATCATAATACTTCCCATGCCATCTATTTT-AAA-ACACAGCTCATATATAAGTTGACAGCATCCCACAGCTCTGACCCCAGTGGTGGTGCTGACAATAACTGGGCAATTCACTGA--AA-ACCACAAGAT-ACAATTTGCACTG----TGGA-TTTGATAAT-GGGTTGTATATAGCCTTTCACTA-TTGGAGAAacaaagttacataattttggagaagtaagagactttacatggcatcttctcagactcttgctctttacaattacc-agaaactagtccccaagcaggaacgtggcaagccattttcatcaacaaatgagctggccatagagctgaaactggaatatgg-------tcttctgattgctagtcG--AGAGATCTTTTATT-TTGGTGGGGTTGGGGAGC----ATACTTTATTGTAAGTTTCACCAGtgtgggatgcataattttggcccccatgaccttcagctcttgatgttata-------tctataaatatggtttctcacatgctgaatgggactttccagatgtgagtaaggttactaatcagctgacatt---agcgt-agagaaattatcctgg-attatctggttgcaacaaatgtaatcacataaactcttaaaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1702258 700 +   8933513 ATAAAGCCTAGACTAA-CATAGCTCAAACATTTAGTTTGAATGACTCAATTGCACTCTTACTCGGTGAATTTCTAA---AGGAAACTATTTAATATGCTTAGTATATCATAATACTTCCCATGTCATCTATTTT-AAA-ACACAGCTCATATATAAGTTGACAGCATCCCACAGCTCTGACCCCAGTGGTGGTGCTGACAATAACTGGGCAATTCACTGA--AA-ACCACAAGAT-ACAATTTGCACTG----TGGA-TTTGATAAT-GGGTTGTATGTAGCCTTTCACTA-TTGGAGAAacaaagttacataattttggagaagtaagagactttacatggcaacttctcagactcttgctctttacaattacc-agaaactagtccccaagcaggaacgtggcaacccattttcatcaacaaatgagctggccgtagaactgaaactggaatatgg-------tcttctgattgctagtcG--AGAGACCTTTTATT-TTGGTGGGGTTGGCGAGC----ATACTTTATTGTAAGTTTCACCAGTGCGGGACGCATTATTTTGGCCCCCATGACCTTCAGCTCTTGATGTTATa-------tctataaatatggtttctcacatgctgaatgggactttccagatgtaagtaaggttactaatcagctgacatt---agcat-agagaaattatcctgg-attatctggttgcaaccaatgtaatcacataaactcttaaaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139833083 694 + 163208435 ATAAAGCCTAGACTCA-CAGAGCTCAAACCTTTAGTTTGAATGACTCAATTGCACTCTTACTCGGTGACTTTCTAA---AGGAAACTATTTAATATGCTTAGTATATCATAATACTTCCCATGTCATCTATTTT-AAA-ACACAGCTCATACATAATTTGACAGCATCCCACAGCTCTGACCCCAGTGGTGGTGCTGACAATAGCTGGGCAATTCACTGA--AA-ACCACAAGAT-ACATTTTGCACTG----TGGA-TTTGATAAT-GGGTTG----TAGCCTTTCACTA-TTGGAGCAacagagttacataattttggagaagtaagagactttacatggcatctactcagactcttgctctttacaatgacc-agaaactagtccccaagcaggggcgtggcaacccattttcatcaacaaatgagctggccatagagctaaaactggaatatga--------cttctgattgctagtcc--AGAGATC-TTTATT-TTGGTGGGGTTGGGGAGC----ATACTTTATTGTAAGTTTCACCAGtgtgggaggcataattttggccctcatgaccttcatctcttgatgttata-------tctataaatatggtttctcacatgccgaatgggactttccagacgtaagtaaggatactaatcagctgacatt---agcat-agagaaattatcctgg-attatctggttgcaaccaatataatcacataaagtcttaaaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122822412 695 + 180051392 ATAAAGCCTAGACTCA-CATAGCTCAAACCTTTAATTTGAATGACTCAATTGCACTCTTACTCGGTGACTTTCTAA---AGGAAACTATTTAGTATGCTTAGTATATCATAATACTCCCCATGTCATCTATTTT-AAA-ACACAGCTCATATATAAGTTGACAGCATCCCACAGCTCTGACCCCAGTGGTGGTGCTGACAATAGCTGGGCAATTCACTGG--AA-ACCACAAGAT-ACATTTTGCACTG----TGGA-TTTGATAAT-GGGTTG----TAGCGTTTCACTA-CTGGAGAAacagagttacataattttggagaagtaagagactttacatggcatctactcagactcttgctctttacagttacc-agaaaccagtccccaagcagggaagtggcaactcattttcatcaaaaaatgagcaggcagtagagctgaaactggaatatgg-------tcttctgattgctagtcc--agaaatctttTATT-TTGATGGGGTTGGGGAGC----ATACTTTATTGTAAGTTTCACCAGtgtggcaggcataattttggcccccatgaccttcatctcttgatgttata-------tctataaatatgttttctcacatgcctaatgggacttt-cagatgttagtaaggttactaatcagctgacatt---agcat-agggaaattatcctgg-attatctggttgtaaccaatgtaatcacataaactcttaaaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124246084 695 + 181584905 ATAAAGCCTAGACTCA-CATAGCTCAAACCTTTAATTTGAATGACTCAATTGCACTCTTACTCGGTGACTTTCTAA---AGGAAACTATTTAGTATGCTTAGTATATCATAATACTCCCCATGTCATCTATTTT-AAA-ACACAGCTCATATATAAGTTGACAGCATCCCACAGCTCTGACCCCAGTGGTGGTGCTGACAATAGCTGGGCAATTCACTGG--AA-ACCACAAGAT-ACATTTTGCACTG----TGGA-TTTGATAAT-GGGTTG----TAGCGTTTCACTA-CTGGAGAAacagagttacataattttggagaagtaagagactttacatggcatctactcagactcttgctctttacagttacc-agaaaccagtccccaagcagggaagtggcaactcattttcatcaaaaaatgagctggcagtagagctgaaactggaatatgg-------tcttctgattgctagtcc--AGAAATCTTTTATT-TTGATGGGGTTGGGGAGC----ATACTTTATTGTAAGTTTCACCAGtgtggcaggcataattttggcccccatgaccttcatctcttgatgttata-------tctataaatatgttttctcacatgcctaatgggacttt-cagatgttagtaaggttactaatcagctgacatt---agcat-agggaaattatcctgg-attatctggttgtaaccaatgtaatcacataaactcttaaaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16243946 695 +  18395747 ATAAAGCCTAGACTCA-CATAGCTCAAACCTTTAATTTGAATGACTCAATTGCACTCTTACTCGGTGACTTTCTAA---AGGAAACTATTTAGTATGCTTAGTATATCATAATACTCCCCATGTCATCTATTTT-AAA-ACACAGCTCATATATAAGTTGACAGCATCCCACAGCTCTGACCCCAGTGGTGGTGCTGACAATAGCTGGGCAATTCACTGG--AA-ACCACAAGAT-ACATTTTGCACTG----TGGA-TTTGATAAT-GGGTTG----TAGCGTTTCACTA-CTGGAGAAacagagttacataattttggagaagtaagagactttacatggcatctactcagactcttgctctttacagttacc-agaaaccagtccccaagcagggaagtggcaactcattttcatcaaaaaatgagctggcagtagagctgaaactggaatatgg-------tcttctgattgctagtcc--AGAAATCTTTTATT-TTGATGGGGTTGGGGAGC----ATACTTTATTGTAAGTTTCACCAGtgtggcaggcataattttggcccccatgaccttcatctcttgatgttata-------tctataaatatgttttctcacatgcctaatgggacttt-cagatgttagtaaggttactaatcagctgacatt---agcat-agggaaattatcctgg-attatctggttgtaaccaatgtaatcacataaactcttaaaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5256006 695 +  26952557 ATAAAGCCTAGACTCA-CATAGCTCAAACCTTTAGTTTGAATGACTCAATTGCACTCTTACTCGGTGACTTTCTAA---AGGAAACTATTTAGTATGCTTAGTATATCATAATACTCCCCATATCATCTATTTT-AAA-ACACAGCTCATATATAAGTTGACAGCATCCCACAGCTCTGACTCCAGTGGTGGTGCTGAGAATAGCTGGGCAATTCACTGA--AA-ACCACAAGAT-ACATTTTGCACTG----TGGA-TTTGATAAT-GGGTTG----TAGCCTTTCACTA-CTGGAGAAacagagttacataattttggagaagtaagagactttacatggcatctactcagactcttgctctttacaattacc-agaaaccagtccccaagccgggaagtggcaacccattttcatcaacaaatgagctggcagtagagctgaaactggaatatga-------tcttctgattgctagtcT--AGAAATCTTTTATT-TTGATGGAGTTGAGGAGC----ATACTTTATTGTAAGTTTCACCTGtgtggcaggcataattttggcccccatgaccttcatctcttgatgttata-------tctataaatatgttttctcacatgcctaatgggacttt-cagatgttagtaaggttacaaatcagctgacatt---agcat-agggaaattatcctgg-attatctggttgtaaccagtgtaatcacataaactcttaaaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28357805 695 +  82825804 ATAAAGGCTAGACTCA-CATAGCTCAAACCTTTAGTTTGAATGACTCAATTGCACTCTTACTCGGTGACTTTCTAA---AGGAAACTATTTAGTATGCTTAGTATATCATAATACTCCCCATGTCATCTATTTT-AAA-ACACAGCTCATATATAAGTTGACAGCATCCCACAGCTCTGACCCCAGTGGTGGTGCTGAGAATAGCTGGGCAATTCACTGA--AA-ACCACAAGAT-ACATTTTGCACTG----TGGA-TTTGATAAT-GGGTTG----TAGCCTTTCACTA-CTGGAGAAacagagttacataattttggagaagtaagagactttacatggcatctactcagactcttgctctttacaattacc-agaaaccagtccccaagcagggaagtggcaacccattttcatcaacaaatgagctggcagtagagctgaaactggaatatga-------tcttctgattgctagtcT--AGAAATCTTTTATT-TTGATGGGGTTGGGGAGC----ATACTTTATTGTAAGTTTCACCAGtgtggcaggcataattttggcccccatgaccttcatctcttgatgttata-------tctataaatatgttttctcacatgcctaatgggacttt-cagatgttagtaaggttactaatcagctgacatt---agcat-agggaaattatcctgg-attatctggttgtaaccaatgtaatcacataaactcttaaaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4024623 695 -   4237731 ATAAAGCCTAGACTCA-CATAGCTCAAACCTTTAATTTGAATGACTCAATTGCACTCTTACTCGGTGACTTTCTAA---AGGAAACTATTTAGTATGCTTAGTATATCATAATACTCCCCATGTCATCTATTTT-AAA-ACATAGCTCATATATAAGTTGACAGCATCCCACAGCTCTGACCCCAGTGGTGGTGCTGACAATAGCTGGGCAATTCACTGG--AA-ACCACAAGAT-ACATTTTGCACTG----TGGA-TTTGATAAT-GGGTTG----TAGCGTTTCACTA-CTGGAGAAacagagttacataattttggagaagtaagagactttacatggcatctactcagactcttgctctttacagttacc-agaaaccagtccccaagcagggaagtggcaactcattttcatcaaaaaatgagctggcagtagagctgaaactggaatatgg-------tcttctgattgctagtcc--AGAAATCTTTTATT-TTGATGGGGTTGGGGAGC----ATACTTTATTGTAAGTTTCACCAGtgtggcaggcataattttggcccccatgaccttcatctcttgatgttata-------tctataaatatgttttctcacatgcctaatgggacttt-cagatgttagtaaggttactaatcagctgacatt---agcat-agggaaattatcctgg-attatctggttgtaaccaatgtaatcacataaactcttaaaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      295352 699 -   1175262 ATAAAGCCTAGACTCA-CATAGCTCAAACCTTTAGTTTGAATGACTCAATTGCACTCTTACTCGGTGACTTTCTAA---AGGAAAATATTTAGTATGCTTAGTATATCATAATACTCCCCAGGTCATCTATTTT-AAA-ACACACCTCATATATAAGTTGACAGCATCCCACAGCTCTGACCCCAGTGGTGGTGCTGACAATAGCTGGGCAGTTCACTGA--AG-ACCACAAGAT-ACATTTTGCACTGTATTTGGA-TTTGATAAT-GGGTTG----TAGCCTTTCACTA-CTGGAGAAacagagttacataattttggagaagtaagagactttacatggcatctactcagactgttgctctttacaattacc-agaaactagtccccaagcagggaagtggcaacccattttcatcaacaaatgagctggcagtagagctgaaactggaatatgg-------tcttctgattgctagtcc--AGAAATCTTTTATT-TTGATGGGGTTGGGGAGC----ATACTTTATTGTAAGTTTCACCAGtgtggcaggcataattttggcccccatgaccttcatctcttgatgttata-------tctagaaatatgttttctcacatgcctaatgggacttt-cagatgttagtaatgttactaatcagctgacatt---agcat-agggaaattatcctgg-attatcttgttgtaaccaatgtaatcacataaactcttaaaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123639186 675 - 204313951 ATAAAGTCTAGACTCA-CATAGCTCAAACCTTTATTTTGAATGACTCAACTGCACACCAACTCAGTGATTTTCTAA---AGGAAACGATTTAGTATGCTTAGCATATCAT-ATACTCCCCATGTCATCTATTTT-AAA-GCACAGCTAATATATAACTTGACAGCATCCCGCAGCTCTGACCCCGGTGGTGGTGCTGACAATAGCTGGGCAATTCACTGA--AA-ACCACAAGAT-ACATTTTGCACTG----TGGA-TTTGATAAT-TGGTTG----TAGCCTTTCACCA-CTGGAGAAacagagttacataattttggaaaagtaagagactttacattgcatctactcaaactcgttctctttacaagtg---------------------agggaaggagcaacttgtttgcatcaacaaataagctggcagtagagatgaaactggaatatga-------tcttcagattgctagtcc--AGAGATCTTTTATT-TTGGTGGGGTTGGGGAGC----ATACTTTATTGTAGAATTCATCAGtgtggaaggcataattttggtccccacaaccttcacctcttgatgttata-------tctgtaaatatgtttactcacatgccaaatgggactttccagatgtaagtcagattactaatcagctggcatg---agcat-agggaaatgatcctgg-attacctggttacgaccaatgtaatcacataaacccttaaaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55684067 672 -  71252344 ATAAAGCCTAGACTCA-CATAGCTCAAACCTTTA-TTTGAATGATTCAACTGTACGCTGACTCAGTGATTTTCTAA---AGGAAACTATTTAGTATGCTTAGCATATCAT-ATACTCCCCATGTCATCTATTTT-AAA-GTTCAGCTCATATATAAGTTGACAGCATCCCACAGCACTGACCCCAGTGGTGGTGCTGACAATAGCTGGGCAATTCACTGA--AA-ACCACAAGAT-ACATTTTGCACTG----TGGA-TTTGATAAT-GGGTTG----TAGCCTTTCACTA-CTGGAGAAAC--AGTTACATAATTTTGGAAAAGTAAGAGACTTGACATTGCATCTACTCAAACTTGTTCTCTTTATGAGTG---------------------AGGGAAGGAGCAACTCATTTTTATCAACAAATAAGCTGGCAGTAGAGATGAAACAGGAATATGA-------TATTCAGATTGCTAGTCC--AGAGATCTTTTATT-TTGGTGGGGTTGGGGAGC----ATATTTTATTGTAAGATTCATCAGtgtgggaggcataattttggcccccacaaccttcacctcttgatgttata-------tctgtgactatggttactcacatgccaaatgggactttccagatgtaagttaaatttctaattagctggcatg---agcat-agggaaattatcctgg-attatccggttacaaccaatgtaatcacataagcccttaaaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1388126 677 -   1400280 ATAAAGCCTAGACTCA-CATAGCTCAAACCTTTATTTTGAATGACTCAACTGCACGCTGACTCGGTGATTTTCTAA---AGGAAACTATTTAGTATGCTTAGCTTATGAT-ATATTCCCCATGTCATCTATTTT-AAA-GCACAGCTCATATATAAGTTGACAGTATCCCACAGCTCTGACCCCAGTGGTGGTGTTGACAATAACTGGGCAATTCACGGA--AA-ACCACAAGAT-ACATTTTGCACTG----TGGA-TTTGATAAT-GGGTTG----TAGCCTTTCACTA-CTGGAGAAacagagttacataattttggaaaagtaagagactttacattgcatctactcaaactcgttctctttacgagtg---------------------agggaaggagcaactcattttcatcaacagataagctggcagtagagatgaaactggaatatga-------tcttcagattgctagtccAGAGAGATCTTTTATT-TTGGTGGGGTTGGGGAGC----ATATTTTATTGTAAGATTCATCAGtgtgggaggcataattttggcccccacaaccttcacctcttgatgttata-------tctataaatatgtttactcacatgccaaatgggactttccagatgtaagtaagattactaatcagctagcatg---agcat-agggaaattatcctgg-attatctggttgcaaccaatgtaatcacataagcctttaaaa
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13185136 651 -  42888418 ATAAAGCCTAGACTCA-CATAGCTCAAACCTTTATTTTGAATGACCCAACTGCACGCTGACTCGGTGATTTTCTAA---AGGAAATTATTTAGTATGCTTAGCATATCAT-ATACTCCCCATGTCATCTATTTT-AAA-GCACAGCTCATATATAAGTTGACAGCATCCCACAGCTCTGACCCCAGTGGTGGTGCTGACAATAGCTGGGCAATTCACTGA--AA-ACCACAAGAT-ACATTTTGCACTG----TGGA-TTTGTTAAT-GGGTTG----TAGCCTTTCACTA-CTGGAGAAacagagttacataattttggaaaagtaagagactttacattgcatctactcaaactcattctctttacgagtg---------------------agagaaGGAGCAACTCGTTTTCATCAACAAATAAGCTGGCAGTAG-------------------------------AGATTGCTAGTCC--AGAGATCTTTTATT-TTGGTGGGATTGGGGAGC----ATATTTTATTGTAAGATTCATCAGtgtgggaggcataattttggcccccacaaccttcacctcttgatgttata-------tctataaatatatttactcacatgccaaatgggactttccagatataagtaagattactaatcagctggcatg---ggcat-agggaaattatcttgg-gttatctggttgcaactaatgtaatcacataagcccttaaaa
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60529471 698 + 108143057 ataaagcctaaactca-tatagctcaaacctttattttgaatgactcaattgaatgcttactcgatgattttcTAA---AGGAAACTGCTTAGTATGCTTATTATATCAT-ATACTCCCCATGTCATCTATTTTGAAA-GCACAGCTCATATGTAAGCTGACAGCATCCCACTGCTCCAACCCCAGTGATGGTGCTGACAATAGCTGGGCAATTCACTGGA-AA-ACCACAAGAT-GCATTTTGCACTG----TGGA-TTTGATAATGGGGTTG----TAGTCTTTCACTA-CTGGAAAAacagagtcacataattttggagcgacgagaggct--acatggcatctactcagact--ttgtctttacagttaca-agacagtagctcccaagcagggccgagtccacccatggtcatcaacagatgcgctggcggtagaggcaaaactggaccttgg-------tcttctgattgctagtcc--agagagcttt--cc-ttgGT-GGG-GGAGGGGC----GTACTCCACTGCAAGATTCACATGtgtggagagcagagttttggctcccatgatcttcacctcctggcgttacagggaacatctataaatatgttttctcacatgcccaaagggactttcgagatgcaattaaggtcactattcagctgacatt---aatataaaggaaattatcccag-agtatctagttgtatccagagtaatgacataaacccttaaaa
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3568788 696 +  11683526 ATAAAGCCTAGACTCA-TATAGCTCAAACCTTTATTTTGAATGACTCAATTGCATGCTTACTTGATGATTTTGTAA---AGGAAACTGCTTAGTATGCTTATCATATCAT-ATACTCCCCGTGTCATCTATTTTGAAA-GCACAGCTCATATATAAGTTGACAGCATCCCACTGCTCTGACCCCAGTGATGGTGCTGACAATAGCTGGGCAA-TCTCTGG--AA-ACCACAAGAT-ACATTTCGCCCTG----TGGA-TTTGATAAT-GGGTTG----TAGTCTTTCACTG-CTGGAAAAacagagtcacataattacggagcaatgagagacg--acatggaatctactcagact--ttatctttacagttaca-agacactagctcccaagcagggcagtgtccacccatgaccatcaacaaacgtgccggcggtagaggcgaaactggaacttgg-------tcttcagatcgctagccc--agagagcttt--tt-ctgGTGGGG-GGAGGGGC----GCACTTTACTGCAAGATTCACAAGtgtggaaagcaaaattttggctcccatgatcttcgcctcctggcgttacagaaaacgtctataaatatgtcttctcacaggcccaaagggactttccagatgtgattaaggttactattcagctgacatt---aatataaaggaaatcattccag-attatctagttgtatccacagtaatcacagaaacccttaaaa
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3056494 679 +   4132165 AAAAAGCCTAGACTCACTGTAGCTCAAACTTTTACTTTGAACTACTCAGTTGCATGCTTCCTCAATGATTTTCTAAATTAGGAAACCACTTAGCATGCTTATCATAGCAC-CTACTCTCCATGTCATCTATTTTGAAA-GCACAGCTCATACCCAAGTTGAGAGCATCCCACTGCTCTGACCCCAGCGATGGTGCTGAC-CTAGGGGGGAAATTCACTGAAGAA-ACCACAAGAT-ACATTTTGCACTG----TGGA-TTTGATAAT-GGATTG----TATCCCTTCACTA-CTGGAAAAacagagttgtataattctggagcagtgagagact--atgtggcatctacacaaact--ttctctttacagctatacggaaactagtccacagctagggaagtggccacccgtgctcctcaaccaatgagctgtcagtaaaagggacactggaacttgg-------tcttcctattgatagccc--ACAAATCTTT--TTGGGGGTGGGA-GGAGGGGC----ATATTTTATTGCAAAATTCACAAG-----------------tggctcccatgatcttcacctcccagtaatata-------tccataaaaatgttttctcacatgccaagagagactttccaaatgtaactcaggttactatccagctggcatt---aacat-aagtaaattatgctgg-attatctatttgcacccagtataatcacatagactcttaaaa
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55502142 558 +  90702639 ATAAAACTTAGATTCA-TACAGCTTGA------------------TCCATTACAAACTCGTTCAGTGATTTCCTAA---AGGAAACTAGTTGGTATGCTTATCATACCAT-ATACCCACAATGTCATCTGTTTTGAAA-ACACAGCTCAAATGTAAGCTGACAGCATCCCCCTGCTCTGACCCCAGTAAAGGTGCTGGAAATAGCT-AGCAATTCACAGA--AATCCCACAAGATAATATTTTACACTG-----GGA-TTTGATAAC-AGGTTG----TAGCCTTTTTGTAGCCAGAGAAGCAGAGTTACATAGTTTTGAAGTGAGGGGAGAGTTTGCATAGCATCTACTTAGACTCCTACTATATAC--TCACT-GGAAGCTGAGTCCCAGTCTGAGTCATGGTCACTTGTGATCATCAGTAAAAGGACTGTCAGGAGACATGAGACGAGAATCTG---------------------AGACT--AGAA---------T-CTGGT-----------------------------------------------------------------------CTTCTTCT-------TTGCA-------CCCAGAAG---------------GGTCAAAGGGACTTCTAAGATATAGTCAAGGTGATTAATCAGAT-ACATT---AATGC-AGACAAATTTTTCTTGTATGGCCTACTTGTGCCCAGTTTAGTCCCA-------TTAAAA
i mm10.chr18               I 1195 C 0
s canFam3.chr11             14902759 653 +  74389097 ATAAAGCTTACGCTCA-CATAGCTCCAACCACTATTTTGCATGATGTTATCGAATGAATACTTAGTGATTTCCTAA---AGGAAACT--CTGGCACGTTTATCCTATCAT-ACACTCCCAGTGTTAACTCTTAT-AAATGCTCAGCTCATAGACAGGTTGGCAGC--------------ACTCCGATGGTGGCATTGACAATAGTTTGGCACTTGGCTGAA-AA-AATACAAGAT-ATA---TGCACCA----CAGA-CTTGAT----AGGTTG----TAATCTTTCACTA-CTGAAGAAAC--agttatataattttagagcaatcagagactttacatggcatctacgcagactccttgactttatatttata-agaaaccacttcccaaacagggcagtggctacccatt------gacagattagctggcagtagaggtgaaattggaacatgg-------tcttctgattGTTACCCC--AAAGGTATTT--TT-TTAGGGGAA---GGGA----------TTTATTGCAAGATT-ATGAGtgtgggaggcaaaattctggcccccataaccttatccttctggtattcta-------cacataagt-tgttctctcacatagcaaaagaacctttccaggtgtaactaaggttgctaagtctctgaaattaacaacat-aggcacattaccct-g-attatccagttgtgcccaatg---tcaaaggaacctttaaga
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2612202 698 +   3667625 ATAAAGGCTAGGGTCA-CACAGCTTTAGCCTTTATTTTGAATGCCTTAATTGCATGCATACTTGGTGATATCCTGA---AGGAAACTATTTGATAAGCTTATCATATCAT-AAACTCCCAATGTCATCTATTTCAAAA-GCATATCTCATA-------TGGCAGAATCCC-CTTCTCTGACCCCAGTGATAGTGTTGACAGTAGTTCAACACGTGGCTGAA-AA-ACCACAAGAT-AGATTTTGTGTTA----TGGATTTTGATAAT-GGGTTG----TGATCTTTCACTG-CTGTAGAAACTGATATACATATTTTTGgagcagtgacagactttacctggcatctgttcagattctttaattttacagttaca-tgaaactagactcagagcagaagagttgtgaaatatgctcactaacaaa-gatctggcagtagagtagaaactgtaattcagttttatgtcttctgattgctaaacc--AGAGGTCACTTTTT-GGGGGGGGGCGGGGGAACCGGGGTGCTTAATTTTAAGTTTCACCCATGT-ATAGGCA-GATTTTGACCCCTATGACCTTCGTCCCCTGTTGATACa-------cttacaaatattctaccttacatagaaaaagggaatttatagatgtgattaagatgactaatctgttaaccct---aagac-agggagaatattctag-tttatccagggctagccaatgtaatcatatgaggtcttaaaa
i dasNov3.JH567306         C 0 I 194

a score=465578.000000
s hg38.chr5_KI270796v1_alt     64414 39 +    172708 ggagacaagagaacagcaaga-taggaagtagaagaagga
s panTro5.chr5             125174530 39 + 181907262 ggagacaagagaacagcaaga-taggaagtagaggaagga
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126511556 39 + 183735486 ggagacaagagaacagcaaga-taggaagtagaggaagga
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1702958 39 +   8933513 ggagacaagagaacagcaaga-tacgaagtagaagaagga
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139833777 39 + 163208435 ggagacaagaggacagcaaga-taggaagtagaagaagga
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122823107 38 + 180051392 ggagataagagatcagcaaga-taggaagta-aggaagga
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124246779 38 + 181584905 ggagataagagatcagcaaga-taggaagta-aggaagga
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16244641 38 +  18395747 ggagataagagatcagcaaga-taggaagta-aggaagga
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5256701 37 +  26952557 ggagacaagagatcagcaaga-taggaagt--aggaagga
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28358500 37 +  82825804 ggagacaagagatcagcaaga-taggaagt--aggaagga
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4025318 37 -   4237731 ggagacaagagatcagcaaga-taggaagt--aggaagga
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      296051 38 -   1175262 ggagacaagagatcagcaaga-taggaagta-aggaagga
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123639861 39 - 204313951 gaagacaagaaatcagcaaga-ttagaagcagaagaagga
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55684739 39 -  71252344 gaagacaagaaatcagcaaga-ttagaagcagaagaagga
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1388803 36 -   1400280 gaagacaagaaatcagcaaga-ttagaagc---agaagga
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13185787 39 -  42888418 gaagacaagaaatcagcaaga-ttagaagcagaagaagga
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60530169 39 + 108143057 ggagaaaagaaatcagggaga-ttagaagcatgagaaaaa
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3569484 39 +  11683526 ggagaaaagaaatcagggaga-ttagaagcatgagaaaaa
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3057173 39 +   4132165 ggagaagagaaatcagagaga-ttcaaagaatgagaagGA
i otoGar3.GL873679         C 0 M 1190
s mm10.chr18                55502700 34 +  90702639 GAAGAAGAGGAATCTGATAG------AAGCAGAAGAATGA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14903412 40 +  74389097 ggagaagagaagctagagagattaagaagctcaagaagcc
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2613094 39 +   3667625 GGagaaggggagacaaagaga-ttagaagtgtgagaagga
i dasNov3.JH567306         I 194 C 0

a score=1556031.000000
s hg38.chr5_KI270796v1_alt     64453 117 +    172708 ------tcagacatg-ccactgata------gcttagaaatggagagttcaggagccaaggaatgtgggcagccatgagaagcttcaactaacagccaacaaggaaatgaaaaccttagtcccgcagcca
s panTro5.chr5             125174569 117 + 181907262 ------tcagacatg-ccactgata------gcttagaaatggagagttcaggagccaaggaatgtgggcagccatgagaagcttcaactaacagccaacaaggaaatgaaaaccttagtcccgcagcca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126511595 117 + 183735486 ------tcagacatg-ccactgata------gcttagaaatggagagttcaggagccaaggaatgtgggcagccatgagaagcttcaactaacagccaacaaggaaatgaaaaccttagtcccgcagcca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1702997 117 +   8933513 ------tcagacatg-ccactgata------gcttagaaatggagagttcaggagccaaggaatgtgggcagccatgagaagcttcaaccaacagccaacaaggaaatgaaaaccttagtcccgcagcca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139833816 117 + 163208435 ------tcagacatg-ccactgata------gcttagaaatggagagttcaggagccagggaatgtgggcagccatgagaaatttcaacgaacagcaaacaaggaaatggaaaccttagtcccacagcca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122823145 117 + 180051392 ------tcagacatg-ccactgata------gcttagaaatggagagttcaggagccaaggaatgcgggaagccatgggaaacttcaaccaacagccaacaaggaaatggaaaccttagtcccacagtca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124246817 117 + 181584905 ------tcagacatg-ccactgata------gcttagaaatggagagttcaggagccaaggaatgcgggaagccatgggaaacttcaaccaacagccaacaaggaaatggaaaccttagtcccacagtca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16244679 117 +  18395747 ------tcagacatg-ccactgata------gcttagaaatggagagttcaggagccaaggaatgcgggaagccatgggaaacttcaaccaacagccaacaaggaaatggaaaccttagtcccacagtca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5256738 117 +  26952557 ------tcagacatg-ccactgata------gcttagaaatggagagttcaggagccagggaatgcgggaagccatgggaaacttcaaccaacagccaacaaggaattggaaaccttagtcccacagtca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28358537 117 +  82825804 ------tcagacatg-ccactgaga------gcttagaaatggagagttcaggagccagggaatgcgggaagccatgggaaacttcaaccaacagccaacaaggaattggaaaccttagtcccacagtca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4025355 117 -   4237731 ------tcagacatg-ccactgata------gcttagaaatggagagttcaggagccagggaatgcgggaagccatgggaaacttcaaccaacagccaacaaggaattggaaaccttagtcccacagtca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      296089 117 -   1175262 ------tcagacatg-ccactgata------gcttagaaatggagagttcaggagccagggaatgcaggaagccatgggaaacttcaaccaacagccaacaaggaaatggaaaccttagtcccacagtca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123639900 117 - 204313951 ------tcagatatg-ccacttagg------gcttagaaatggaggggtcaggaaccagggaatgtgggcagccatgagaaacttcaaccaacagccagcaaggaaatggaaaccttagtcccacagcca
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55684778 117 -  71252344 ------tcagatatg-ccacttagg------gcctagaaatggaggggtcaggaaccagggaatgcgggcagccatgacaaacttcaaccaatagccagcaaggaaatagaaaccttggtcccacagcca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1388839 117 -   1400280 ------tcagatatg-ccacttaag------gcctagaaatggagggatcaggaaccagggaatgcgggcagccatgagaaacttcaaccaacagccagcaaggaaatggaaaccttagtcccacagcca
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13185826 117 -  42888418 ------tcagatatg-ccacttagg------gcctagaaatggaggggtcaggaaccaggaaatgtgggcagccatgagaaacttcaaccaacagccagcaaggaaatggaaaccttagtcccacagcca
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60530208 117 + 108143057 ------tcagatgtg-ccactgatg------acttcaagatggaggagccacgagccagggaatgtggacagccacaagaaacttctttcaacagccaagaaggaaatggtgaccttggtcccacagcca
i micMur3.chr12            C 0 I 724
s proCoq1.NW_012155062v1     3569523 117 +  11683526 ------tcagatgca-ccactgacg------acttggagatggaggagccatgagccagggaatgtggacagccacaagaaatttctttcaacagccaagaaggaaatggtgaccttggtcccacagcca
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55502734 101 +  90702639 ------------ATGACTGCCGAAG------GCCTAGAGATTcagggaaactgaggcaggg-tcatcagaagctaccagatactcaatccaatagccaaccagaaaacagggacct----------gtta
i mm10.chr18               C 0 C 0
s canFam3.chr11             14903452 116 +  74389097 ------ctagatgtg-ccatggaaggagaccgtgtggagatggaggggtcatga------gaatatggatagacactagaagtctcagccaacagccagagaggaaatgg-gacctcagtccctcagcca
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2613133 114 +   3667625 tgagtttcccattgg-ccattgctg------gtt------ggaagggggccgtaagcaaggaatgctggcagccactagaaggtttagccaatagttagcaaggaaac---aacctcagtcccacagctg
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3057212 1190 +   4132165 M

a score=1411791.000000
s hg38.chr5_KI270796v1_alt     64570 125 +    172708 tgtggaactaaa-cct-gccaacaacttgaatgagccttgaagtggatctttccc-agagcctccataagagaatgtagtctcaataatacctt---gatttcaatttc----------------agaattcagctgaatca------------------------tgaaa
s panTro5.chr5             125174686 125 + 181907262 tgtggaactaaa-cct-gccaacaacttgaatgagccttgaagtggatctttccc-agagcctccataagagaatgttgtctcaataatacctt---gatttcaatttc----------------agaattcagctgaatca------------------------tgaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126511712 125 + 183735486 tgtggaactaaa-cct-gccaacaactggaatgagccttgaagtggatctttccc-agagcctccataagagaatgttgtctcaataatacctt---gatttcaatttc----------------agaattcaactgaatca------------------------tgaaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1703114 125 +   8933513 tgtggaactaaa-cct-gccaacaacttgaatgagccttgaagtggatctttccc-agagcctccataagagaatgtagtctcaataatacctt---gatttcaatttc----------------agaattcagctgaatca------------------------tgaaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139833933 125 + 163208435 cgtggaactaaa-cct-gccaacaacgtgaatgagccttgaagtggatctttccc-agagcctccatgagagaatgtagtctcaataatacctt---gatttcaatttc----------------agaattcagctgaatca------------------------tgaaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122823262 132 + 180051392 catggaactaaa-cct-gccaacaactcgaatgagcctagaagtggatctttccc-ggagcctccagaagagagtgtagtgtcaataatacctt---gatttcaatttc----------------agaatccagctgagtca-------tgaaaac----------tgaaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124246934 132 + 181584905 catggaactaaa-cct-gccaacaactcgaatgagcctagaagtggatctttccc-ggagcctccagaagagagtgtagtgtcaataatacctt---gatttcaatttc----------------agaatccagctgagtca-------tgaaaac----------tgaaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16244796 132 +  18395747 catggaactaaa-cct-gccaacaactcgaatgagcctagaagtggatctttccc-ggagcctccagaagagagtgtagtgtcaataatacctt---gatttcaatttc----------------agaatccagctgagtca-------tgaaaac----------tgaaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5256855 132 +  26952557 catggaactaaa-cct-gccaacaactcgaatgagcctagaagtggatctttccc-ggagcctccagaagagaatgtagtctcaataatacctt---aatttcaatttc----------------agaatccagctgagtca-------tgaaaac----------tgaaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28358654 132 +  82825804 catggaactaaa-cct-gccaacaactcgaatgagcctagaagtggatctttccc-ggagcctccagaagagaatgtagtgtcaataatacctt---aatttcaatttc----------------agaatccagctgattca-------tgaaaac----------tgaaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4025472 132 -   4237731 catggaactaaa-cct-gccaacaactcgaatgagcctagaagtggatctttccc-ggagcctccagaagagaatgtagtctcaataatacctt---aatttcaatttc----------------agaatccagctaagtca-------tgaaaac----------tgaaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      296206 132 -   1175262 catggaactaaa-cct-gccaacaactcgaatgagcttagaagtggatcttcccc-ggagcctccagaagagaatgtagtgtcaataatacctt---gatttcaattcc----------------agaatccagctgagtca-------tgaaaac----------tgaaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123640017 132 - 204313951 catggaattaaa-tct-cccaacaattcgaatgagcctagaaatagatctttctc-agagtctctggaagagattgtagtcttgataatgcctt---gatttcaatttc----------------agaatccagctgagtca-------tgaaaac----------tgaaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55684895 129 -  71252344 catggaactaaa-tct-gccaagaactcgaatgagcctagaagtagatctttctc---agtctctggaagagactgtagtcttga-aatgcctt---gatttcaatttc----------------agaatctagctgagtca-------tgaaaac----------tgaaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1388956 132 -   1400280 catggaactaaa-tct-gcccacaactcgaaggagcctagaagtagatcttcctc-agagtctctggaagagactgtagtcttgataatgcctt---gatttcaatttc----------------agaatccagctgagtca-------tgaaaac----------tgaaa
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13185943 132 -  42888418 catggaactaaa-tct-gccaacaactcgaatgagcctagaagtagatctttctc-agagtctctggaagagactgtagtcttgataatgcctt---gatttcaatttt----------------agtatccagctgagtca-------tgaaaac----------tgaaa
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3569640 120 +  11683526 gataaaaccaaattct-gctaataacctgattgagcctagaagtagattttcctc-agagcctccagaaaggaacacagtcctgataatacctt---gatttc----------------------agaatccagttgagtct------------------------tggaa
i proCoq1.NW_012155062v1   C 0 I 15
s mm10.chr18                55502835 112 +  90702639 ---------------t-gctaaca--ttggatgagcctggaggacaattttccca-acattatcatgaaaacagacaaccctctgctcgacttttagtattttaatttt----------------gaatttcaactgagatg------------------------tggaa
i mm10.chr18               C 0 I 8
s canFam3.chr11             14903568 127 +  74389097 tacagaacttaa-tttagccaacaacctgaaagagcctggaagtggatttttccccagagcctccagaaaggaatgcagttttgacagcaccat---gagttc----------------------agagcccagccgagtca-------tggaac-----------taaaa
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2613247 142 +   3667625 catgaaactgaattct-gccaacaacctgaatgagcatggcagtggatttttcct--cagc-----------------------atgacacttt---gacttcagccttacaagattcaaagcagaggacccagttaggctataccatatgcagacttttgacccatggaa
i dasNov3.JH567306         C 0 I 5
e micMur3.chr12             60530325 724 + 108143057 I
e otoGar3.GL873679           3057212 1190 +   4132165 M

a score=55829.000000
s hg38.chr5_KI270796v1_alt     64695 8 +    172708 gaaaccat
s panTro5.chr5             125174811 8 + 181907262 gaaccaat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126511837 8 + 183735486 gaaccaat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1703239 8 +   8933513 gaaccaat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139834058 8 + 163208435 gaaccaat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122823394 8 + 180051392 gaaccaat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124247066 8 + 181584905 gaaccaat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16244928 8 +  18395747 gaaccaat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5256987 8 +  26952557 gaaccaat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28358786 8 +  82825804 gaaccaat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4025604 8 -   4237731 gaaccaat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      296338 8 -   1175262 gaaccagt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123640149 8 - 204313951 taataaat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55685024 8 -  71252344 taataaat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1389088 8 -   1400280 taataaat
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13186075 4 -  42888418 t----aat
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55502955 7 +  90702639 -agcaaaa
i mm10.chr18               I 8 I 1
s canFam3.chr11             14903695 8 +  74389097 taataaat
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2613394 8 +   3667625 gaaataat
i dasNov3.JH567306         I 5 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e proCoq1.NW_012155062v1     3569760 15 +  11683526 I
e otoGar3.GL873679           3057212 1190 +   4132165 M

a score=4516917.000000
s hg38.chr5_KI270796v1_alt     64703 366 +    172708 gggtg-ttgttt----------taagccactaagtttttggtatttatt-tttttacagcagcaatagaaaaAGGAAGTAACCAATTTGT-TAAAATGCTTCTCCCATCTTTTCTTAA-CCTTTGA--------------------CA-------AGTATCCTTACAAGAGTGGCAACATTTCCTTCCCTACATAGGGAAA--------TGTTTATGA---AAATATCAAATTGCA-TATAACCTTCACTCGTGCACTAACAGGGCTTCACCCATCTGGGGAAAGTGTCCTTCAGATCTTTCTGGAGGTCTCCAGTGGGATGGATTACTTATGTCCTCTCACCAGTTGCCCC--TTTCTCTCCTTCTCTGGCCC----CTCTTGCCCATTTCCAGTGCTTCGTCAATGTCCCAGTACATCATGAG
s panTro5.chr5             125174819 366 + 181907262 gggtg-ttgttt----------gaagccactaagtttttggtatttatt-tttttacagcagcaatagaaaaAGGAAGTAACCAATTTGT-TAAAATGCTTCTCCCATCTTTTCTTAA-CCTTTGA--------------------CA-------GGTATCCTTACAAGAGTGGCAACATTTCCTTCCCTACATAGGGAAA--------TGTTTATGA---AAATATCAAATTGCA-TATAAccttcactcgtgcactaacagggcttcacccatctggggaaagtgtccttcagatctttctggaggtctccagtgggatggattacttatgtcctctcaccagttgcccc--tttctctccttctctggccc----ctcttgCCCGTTTCCAGTGCTTCGTCAGTGTCCCAGTACATCATGAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126511845 366 + 183735486 gggtg-ttgttt----------gaagccactaagtttttggtatttatt-tttttacagcagcaatagaaaaAGGAAGTAACCAATTTGT-TAAAATGCTTCTCCCATCTTTTCTTAA-CCTTTGA--------------------CA-------GGTATCCTTACAAGAGTGGCAACATTTCCTTCCCTACATAGGGAAA--------TGTTTATGA---AAATATCAAATTGCA-TATAACCTTCACTCGTGCACTAACAGGGCTTCACCCATCTGGGGAAAGTGTCCTTCAGATCTTTCTGGAGGTCTCCAGTGGGATGGATTACTTATGTCCTCTCACCAGTTGCCCC--TTTCTCTCCTTCTCTGGCCC----CTCTTGCCCGTTTCCAGTGCTTCGTCAATGTCCCAGTACATCATGAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1703247 365 +   8933513 gggtg-ttgttt----------taagccactaagtttttggtacttatt-tttttacagcagcaatagaaaaAGGAAGTAACCAATTTGT-TAAAATGCTTCTCCCATCTTTTCTTAA-CCTTTGA--------------------CA-------AGTATCCTTACAAGAGTGGCAACATTTCCTTCCCTACATAGGGAAA--------TGTTTATGA---AAATATCAAATTGCA-TATAAccttcactcgtgcactaacagggcttcacccatct-gggaaagtgtccttcagatctttctggaggtctccagtgggatggattacttatgtcctctcaccagttgcccc--tttctctccttctctggccc----ctcttgcccatttccagtgcTTCGTCAATGTCCCAGTACATCATGAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139834066 367 + 163208435 gggtg-ttgttt----------taagccattaagtttttggtatttatt-tttttacagcagcaatagaaaaAGGAAGTAACCAATTTGT-TAAAATGCTTCTCCCATCTTTTCTTAA-CCTTTGA--------------------CA-------AGTGTCCTTACAAGAGTGGCAGCATTTCCTTCCCTACATAGGGAAA--------TGTTTATGA---AAATATCAAATTGCATTATAAccttcacccacgcactaacagggcttcacccatctggggaaagtgtccttcagatctttctggaggtccccagtgggatggattacttatgtcctctcaccagttggccc--tttctctccttctccggccc----ctcttgcccatttccagtgcTTCGTCAATGTCCCAGTACATCATGAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122823402 367 + 180051392 aggtg-ttgttt----------taagccactaagtttttggtaattatt-tttttagagcagcaatagaaaaAGGATGTAACCAATTCGT-TAAAATGCTTCTCTCATCTTTTCTTAA-CTGTTGA--------------------CA-------AGTGTCCTTACAAGAGTGGCAACATTTCCTTCCCTACATAGGGAAA--------TGTTTATGA---AAATATCAAATTGCATTATAACCTTCACCCACACACTAACAGGGCTTCACCCATCTGGGGAAAGTGTCCTTCAGATCTTTCCGGAGGTTTCCAGTGGGATGGATTACTTATGTCTTCTCACCAGTTGCCCC--TTTCTCTCCTTCTCTGGCCC----CTCTTGCCCATTTCCAGTGCTTTGTCAATGTCTCAGTACATCATGAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124247074 367 + 181584905 aggtg-ttgttt----------taagccactaagtttttggtaattatt-tttttagagcagcaatagaaaaAGGATGTAACCAATTCGT-TAAAATGCTTCTCTCATCTTTTCTTAA-CTGTTGA--------------------CA-------AGTGTCCTTACAAGAGTGGCAACATTTCCTTCCCTACATAGGGAAA--------TGTTTATGA---AAATATCAAATTGCATTATAACCTTCACCCACACACTAACAGGGCTTCACCCATCTGGGGAAAGTGTCCTTCAGATCTTTCCGGAGGTTTCCAGTGGGATGGATTACTTATGTCTTCTCACCAGTTGCCCC--TTTCTCTCCTTCTCTGGCCC----CTCTTGCCCATTTCCAGTGCTTTGTCAATGTCTCAGTACATCATGAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16244936 367 +  18395747 aggtg-ttgttt----------taagccactaagtttttggtaattatt-tttttagagcagcaatagaaaaAGGATGTAACCAATTCGT-TAAAATGCTTCTTTCATCTTTTCTTAA-CTGTTGA--------------------CA-------AGTGTCCTTACAAGAGTGGCAACATTTCCTTCACTACATAGGGAAA--------TGTTTATGA---AAATATCAAATTGCATTATAACCTTCACCCACACACTAACAGGGCTTCACCCATCTGGGGAAAGTGTCCTTCAGATCTTTCCGGAGGTTTCCAGTGGGATGGATTACTTATGTCTTCTCACCAGTTGCCCC--TTTCTCTCCTTCTCTGGCCC----CTCTTGCCCATTTCCAGTGCTTTGTCAATGTCTCAGTACATCATGAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5256995 367 +  26952557 aggtg-ttgttt----------taagccactaagtttttggtaattatt-tttttagagcagcaatagaaaaAGGATGTAACCAATTCGT-TAAAATGCTTCTCTCATCTTTTCTTAA-CTGTTGA--------------------CA-------AGTGTCCGTACAAGAGTGGCAACATTTCCTTCCCTACATAGGGAAA--------TGTTTATGA---AAATATCCAATTGCATTATAACCTTCACCCACACACTAACAGGGCTTCACCCATCTGGGGAAAGTGTCCTTCAGATCTTTCCGGAGGTTTCCAGTGGGATGGATTACTTATGTCTTCTCACCAGTTGCCCC--TTTCTCTCCTTCTCTGGCCC----CTCTTGCCCATTTCCAGTGCTTTGTCAATGTCCCAGTACATCATGAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28358794 367 +  82825804 aggtg-ttgttt----------taagccactacgtttttggtaattatt-tttttagagcagcaatagaaaaAGGATATAACCAATTCGT-TAAAATGCTGCTTCCATCTTTTCTTAA-CTGTTGA--------------------CA-------AGTGTCCTTACAAGAGTGGCAACATTTCCTTCCCTACATAGGGAAA--------TGTTTATGA---AAATATCAAATTGTATTATAACCTTCACCCACACACTAACAGGGCTTCACCCATCTGGGGAAAGTGTCCTTCAGATCTTTCTGGAGGTTTCCAGTGGGATGGATTACTTATGTCCTCCCACCAGTTGCCCC--TTTCTCTCCTTCTCTGGCCC----CTCTTGCCCATTTCCAGTGCTTTGTCAATGTCTCAGTACATCATGAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4025612 366 -   4237731 aggtg-ttgttt----------taagccactaagtttttggtaattatt-tttttagagcagcaatagaaaaAGGATGTAACCAATTCGT-TAAAATGCTTCTCTCATCTTTTCTTAA-CTGTTGA--------------------CA-------AGTGTCCTTACAAGAGTGGCAACATTTCCTTCCCTACATA-CGAAA--------TGTTTATGA---AAATATCAAATTGCATTATAACCTTCACCCACACACTAACAGGGCTTCACCCATCTGGGGAAAGTGTCCTTCAGATCTTTCCGGAGGTTTCCAGTGGGATGGATTACTTATGTCTTCTCACCAGTTGCCCC--TTTCTCTCCTTCTCTGGCCC----CTCTTGCCCATTTCCAGGGCTTTGTCAATGTCCCAGTACATCATGAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      296346 367 -   1175262 aggtg-ttgttt----------taagccactaagtttttggtatttatt-tttttagagcagcaatagaTAAAGGATGTAACCAACTGGT-TAAAATGCTTCTCCCATCTTTTCTTAA-CCTTTGA--------------------CA-------AGTGTCCTTACAAGAGTGGCAACATTTCCTTCCCTACATAGGCAAA--------TGTTTATGA---AAATATCAAATTGCATTATAACCTTTACCCACGTACTAACAGGGCTTCACCCATTGCGGGAAAGTGTCCTTCACATCTTTCTGGAGGCCTGCAGTGGGATGGATTACTTATGTCCTCTCACCAGTTGCCCC--TTTCTCTCCTTCTCTGTCCC----GTCTTGCCCATTTCCAGTGCTTTGTCAACGTCCCAGTACATCATGAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123640157 376 - 204313951 gggtg-ttgttt----------taagtcactaagtttttggtaatttttctttttacagcagcaatagaaaaTGGATGTAACCAATTTGT-CAAAATGCTTCTCCCATCTTTTCTTAA-CCTTTGA--------------------CA-------AGTGTTCTTACAAGAATGGCAACATTTTCTTCCCTATGTAGGAAAATATCAAATTGTTTATGA---AAATATCAGATTGCATCGTAAccttcacccgcatacttacagggcttcgcccatctggggaaagtgtccttcagatctttctggaagtctccagtgggatggattacttatgtcctcacaccagttgcccc--tttctctccttctctagccc----ctctTACCCATTCCCAGTGCTTTGTCACAGTCCCACTACATCATGAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55685032 376 -  71252344 gggtg-ttgttt----------taagtcattgagtttttgataatttttctttttatggcagcaatagaaaaTGGATGTAACCAATATGT-CAAAATGCTTCTCTCATCTTTTCTTAA-TCTTTGA--------------------CA-------AGTGTCCTTACAAGAATGGCAACATTTTCTTCCCTACCTAAGAAAATATCAAATTGTTTATAA---AAATATCAAATTGCATTGTAACCTTCACCCACATACTAACAGGGCTTCGCCCATCTGGGGGAAGTGTCCTTCAGATCTTTCTGGAAGTCTCCAGTGGGATGGATTACTTATGTCCTCACACCAGTTGCCCC--TTTCTCTCCTTCTCTAGTCC----CTCTTACCCATTCCCAGTGCATTGTCACTGTCGCAGTACATCATGAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1389096 375 -   1400280 gggtg-ttgttt----------taagtcactaagtttttggtaatttttctttttacagcaacaatagaaaaTGGATGTAACCAATGTGT-CAAAATGCTTCTCCCATCTTTTCTTAA-CCTTTGA--------------------CA-------AGTGTCCTTACAAGATTGGCAACATTTTCTTCCCTACCTAGGAAAATATCAAATTGTTTATGA---AAATATCAAATTGCATTATAACCTTCACCCACATACTAACAGGGCTTCACCCATCTGGGGAAAGTGTCCTTCAGATCTTTCTGGAAGTCTCCAGTGGGATGGATTACTTATGTCCTCACACCAGTTGCCCC--TTTCTCTCCTTCTCTAGCCT----CTCTTA-CCATTCCCAGTGCGTTGTCACTGTCCCAGTACATCATGAG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13186079 376 -  42888418 gggtg-ttgttt----------taagtcactaagtttttggtaatttttctttttacagcagcagtagaaaaTGGATGTAACCAATTTGT-CAGAATGCTTCTCTCATCTTTTCTTAA-CCTTTGA--------------------CA-------AGTGTCTTTATAAGAATGGCAACATTTTCTTCCCTACCTAGGAAAATATCAAATTGTTTATGA---AAATATcaaattgcattataaccttcccccacatactaacagggcttcatccatcttgggaaagtgtccttcagatctttctggaagtctccagtgggATGGATTACTTATGTCCTCACACCAGTTGCCCC--TTTCTCTCCTTCTCTAGCCC----CTCTTACCCATTCCCAGTGCTTTGTCACTGTCCCAGTACATCATGAG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3569775 363 +  11683526 gggtg-ttgctt----------taatccactaagtttttggtaat-----tttttacagcaacaatagaaaacaaataTCACCAGTTTGT-CAAAATGCTTCTCCCATCTTTTCTTAATCTTTTGA--------------------CA-------AGTGTCCTTATGAGAGTGGCGACATTTCCTTCTGTACATAGGGAAA--------TGTTTACAC---AAACGTCAACTTGCACCATAACCTCCACTCACACACTAACATGGCTTCACCCATCTAAGTACAATGTCCTGCATGTCTTTCTGGAAGTCTCCAGTGGGAAGGGTCTCTTTTGCCCTCACATCAGTGGCCCC--TGTCTCTTCTTCTTT-GTCC----CTCTTGTCCGTTTCCACGGCCTCATCAGTGTCCCAGCACATCATGAG
i proCoq1.NW_012155062v1   I 15 I 97
s mm10.chr18                55502963 276 +  90702639 tggta-ttgttt----------tatgtccttaagtttctgat--------attttacattatcaatagaaaactaatataTGCGGATTCT-CAAAATGCTTCTTTCATCCTTTCTCAGTTTTTTGA--------------------CC-------AAT-----------------AATATTTACTTGCTGAAATAAATAAA--------TGTTTATGC---ACATATTAA-------------------------------------------------------TCCCCGGCAGACTTCTGTGGGATTCTTCAGTA------------TATAATCTTATACTAGTTACCAAGGTTTCTTTGATTTT---GCCC----TACCTTTCTTTTTCTGCTGATTTGCTGATGTTTCCAAACATCATGAG
i mm10.chr18               I 1 C 0
s canFam3.chr11             14903703 371 +  74389097 gagtg-ttattt----------taagcca-taagttt-------------tttgtaaagcagcaatagaaacctaatacaTCCAGTTTGT-CAAAATTCTTCTCCCAG--TTTCTCAA-TCTTTTATAGAGTTTATAAGGTGCCCTCA-------ATTTCTCTTTCTCTTTTTTCTTCAATTCCTTCTCTAAGTAGGAAAA--------TGTTTATGC---AAATATCAGCTTGCAATGTGACTCCCACCCACACACAGAGAGGGCTTCATCCATCTGAATACAAG--CCCTCAGATCTTTGTGGAGTTGTCTAGTGGGATGGATCTCTTATTTTTTCACCAAAGTTGCTCC--TAGTTC---TTCTCTGGCCCTGTTTGCTTGCTCATTTCCATTGCTTTGCCAATGCCCCAGCACATCCTAAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2613402 378 +   3667625 aaatgattgtttaataagtaagaaaatcactcagtctgtggtaat-----ttgttacagcagtaatggaaaactaatacaACCAGTTTTTAAAAAATATTTCTCCTGCTTTTTCTCCA-TCTTTTA--------------------GAGTTTAATGGTTGCCCTACA------TCCACATTTCCTTTCCTAAACTTGGAAA--------TATTTATGGTACAAATATTAATTTGCATGATAACCTCTACCCACACATGAAT-GGTCATCACTGACCTGAGTAAAGTGTCCTTCCAATCTTTCTGGAGGTCTCCAGTGAGATGTGTCTCTGGTGTCTTCATATCAGTGGCTTC--CATGACTCCTTCTCTGGCCC----CACTTGCCCATTTTCCCTGCTTTAACGATGTCCCAGCACATCAGGAG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e otoGar3.GL873679           3057212 1190 +   4132165 M

a score=1296249.000000
s hg38.chr5_KI270796v1_alt     65069 121 +    172708 GTGACTGACATGCACGATAAGGGAGATGCTGCAGGATGCTCCCCAAGCTTTGAATTCCAAGGAGCAGGAGCTTGGTTGGTTCTGCACAGAGGCAGGGAGAACAGCCTTTCCTGTCTCAGAG--
s panTro5.chr5             125175185 121 + 181907262 GCGACTGACATGCACGATAAGGGAGATGCTGCAGGATGCTCCCCAAGCTTTGAATTCCAAGGAGCAGGAGCTTGGTTGGTTCTGCACAGAGGCAGGGAGAACAGCCTTTCCTGTCTCAGAG--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126512211 121 + 183735486 GCGACTGACATGCACGATAAGGGAGATGCTGCAGGATGCTCCCCAAGCTTTGAATTCCAAGGAGCAGGAGCTTGGTTGGTTCTGCACAGAGGCAGGGAGAACAGCCTTTCCTGTCTCAGAG--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1703612 121 +   8933513 GTGACTGACATGCACGATAAGGGAGATGCTGCAGGATGCTCCCCAAGCTTTGAATTCCAAGGAGCAGGAGCTTTGCTGGTTCTGCACAGAGGCAGGGAGAACAGCCTTTCCTGTCTCAGAG--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139834433 121 + 163208435 GTGACTGACATCCAAGATAAGGGAGATACTGCAGGATGCTCCCCAAGCTTTGAATTCCAAGGAGCGGGAGGTTGGTTGGTTCTGCACAGAGGCAGGGAGAACAGCCTTTCCTGTCTCAGAG--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122823769 121 + 180051392 GTGAATGACATCCCAGATAAGGGAGATGCTGCAGGATGCTCCCCAAGCTTTGAATTCCAAGGAGCAGAAGCTTGGTTGGTTCTGCACAGAGGCAGGGAGAACAGCCGTCCCTGTCTCAGAG--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124247441 121 + 181584905 GTGAATAACATCCCAGATAAGGGAGATGCTGCAGGATGCTCCCCAAGCTTTGAATTCCAAGGAGCAGAAGCTTGGTTGGTTCTGCACAGAGGCAGGGAGAACAGCCGTCCCTGTCTCAGAG--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16245303 121 +  18395747 GTGAATGACATCCCAGATAAGGGAGATGCTGCAGGATGCTCCCCAAGCTTTGAATTCCAAGGAGCAGAAGCTTGGTTGGTTCTGCACAGAGGCAGGGAGAACAGCCGTCCCTGTCTCAGAG--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5257362 121 +  26952557 GTGAATGACATCCCAGATAAGGGAGATGCTGCAGGATGCTCCCCAAGCTTTGAATTCCAAGGAGCAGAAGCTTGGTTGGTTCTGCACAGAGGCAGGGAGAACAGCTGTCCTTGTCTCAGAG--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28359161 121 +  82825804 GTGAATGACATCCCAGATAAGGGAGATGCTGCAGGATGCTCCCCAAGCTTTGAATTCCAAGGAgcagaagcttggttggttctgcacagaggcagggagaatagccgtccctgtctcagag--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4025978 121 -   4237731 GTGAATGACATCCCAGATAAGGGAGATGCTGCAGGATGCTCCCCAAGCTTTGAATTCCAAGGAGCAGAAGCTTGGTTGGTTCTGCACAGAGGCAGGGAGAACAGCTGTCCTTGTCTCAGAG--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      296713 121 -   1175262 GTGACTGACATCCAAGATAAGGGAGATGCTGCAGGATGCTCCCCAAGCTTTGAATTCCAAGGAGCAGAAGCTTGGTTGGTTCTGCACAGAGGCAGGGAGAACGACCGTCCCTGTCTCAGAG--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123640533 121 - 204313951 GTGACTGACATCCAAGATAAAGGAGATGCTGCAGGATGCTCCCCAAGCTTGGAATTCCAGGGAACCACAGCTGAGTTGGTTCTGCACAGAGGTAGGGAGAACAGTCTTCCTTGTCTCAGCT--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55685408 121 -  71252344 GTGACTGACATCCAAGATAAAGGAGATGCTGCAGGATGCTTCCCAAGCTTGGAATTCCAAGGAGCTGCAGCTGGGTTGGTTCTGTACAGAGGCAGGGAGAACAGCCTTTCCTGTCTCAGCT--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1389471  73 -   1400280 GTGACTGACATTCAAGATAAAGGAGATGCTCCA-GATGCTCCCCAAGCTTGGAATTCC-----------------------------------------------CTTTTCTGTCTCAGCT--
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13186455 120 -  42888418 GTGACTGACATCCAAGGTAAAGGAGATGCTGCAGGATGCTCCCCAAGCTTGGAA-TCCAAGGAGCTGCAGCTGGGTTGGTTCTGCACAGAGGCAGGGAGAACGGCCTTCCCTGTCTCAGCT--
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55503239 112 +  90702639 TTAATTTGTAGCCAAGGTAAAGGAGATTCTTTAGGATTCTGCCAAAGTTTTGACTTTCAGGGAAGGGGCAATGGGTGACAGTAGCATAGAGACAGGAGA---------CTCTGTCTCTGCT--
i mm10.chr18               C 0 C 0
s canFam3.chr11             14904074 119 +  74389097 ATCATTTATATATAACATTAGAGAGGTTCTGTAGGATGCTCCCAAAGCTTTGAATCTCAGGAAGCAGGAGCTTTGCTGGTTCTGCACAGAAGCAG--AGAATAGCTTGCTCAGTCTCTCCA--
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2613780 123 +   3667625 ATCAGTCACATCCAAGATGAGGGAGAAGTTGCAGGATTCTCCCAGAGCTTCAAATCTTAGAGGgccagagttgtgctggttctgcacaaaggcagggagaatattctcctctgcctctccacc
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e proCoq1.NW_012155062v1     3570138  97 +  11683526 I
e otoGar3.GL873679           3057212 1190 +   4132165 M

a score=624573.000000
s hg38.chr5_KI270796v1_alt     65190 46 +    172708 CCACTCATAGTCAC-TGGGCTCCAAAGCGGCTCTCCTGGTGCCT-GGG
s panTro5.chr5             125175306 46 + 181907262 CCACTCATAGTCAC-TGGGCTCCAAAGCGGCTCTCCTGGTGCTT-GGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126512332 46 + 183735486 CCACTCATAGTCAC-TGGGCTCCAAAGCGGCTCTCCTGGTGCTT-GGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1703733 46 +   8933513 CCACTCATAGTCAC-TGGGCTCCAAAGCGGCTCTCCTGGTGCTT-GGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139834554 46 + 163208435 CCACTCACAGTCTC-TGGGCTCCAAAGCAGCTCTCCTGGTGCTT-GGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122823890 46 + 180051392 CCACTCATAGTCAC-CGGGCTCCAAAGTAGCTCTCCTGGTGCTT-GGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124247562 46 + 181584905 CCACTCATAGTCAC-CGGGCTCCAAAGCAGCTCTCCTGGTGCTT-GGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16245424 46 +  18395747 CCACTCATAGTCAC-CGGGCTCCAAAGCAGCTCTCCTGGTGCTT-GGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5257483 46 +  26952557 CCACTCATAGTCAC-TGGGCTCCAAAGCAGCTCTCCTGGTGCTT-GGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28359282 46 +  82825804 ccactcatagtcac-tgggctccaaagcagctctcctggtgctt-ggg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4026099 47 -   4237731 CCATTCATAGTCAC-TGGGCTCCAAAGCAGCTCTCCTGGTGCTTGGGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      296834 46 -   1175262 CCACTCATAGTCAC-TGGGCTCCAGAGCAGCTCTCCGGGTGCTT-GGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123640654 46 - 204313951 CAACTCAGAGTCAC-TGGGCTCCAAAGCAGCTCTCCTGGTGCTT-GGG
i calJac3.chr2             C 0 I 329
s saiBol1.JH378106          55685529 46 -  71252344 CAGCTCAGAGTCAC-TGGGCTCCAAAGCAGCTCTCCTGGTGCTT-GGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1389544 46 -   1400280 CAACTCAGAGTCAC-TGGGCTCCAAAGCAGCTCTCCTGGTGCTT-GGG
i cebCap1.NW_016107829v1   C 0 I 323
s aotNan1.NW_018505940v1    13186575 46 -  42888418 CAGCTCAGAGTCAC-TGGGCTCCAAAGCAGCTCTCCTGGTGCTT-GGG
i aotNan1.NW_018505940v1   C 0 I 325
s proCoq1.NW_012155062v1     3570235 46 +  11683526 CCACTCCTGGTCCC-TGGGCTCCAAAGCAGCTCTCCTTGTGCCT-GGG
i proCoq1.NW_012155062v1   I 97 C 0
s mm10.chr18                55503351 25 +  90702639 CCACTCATGGTCGC-TGGGTTCCACA----------------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14904195 46 +  74389097 CTACTCGTGGTTGC-TGGGCTCCAAAGCAGCTTTCTCTGTGCAT-GGG
i canFam3.chr11            I 2 C 0
s dasNov3.JH567306           2613903 47 +   3667625 ccactcgtggttacatgggttccaaggcagtttttcttgtgcct-ggg
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e otoGar3.GL873679           3057212 1190 +   4132165 M

a score=274297.000000
s hg38.chr5_KI270796v1_alt     65236 22 +    172708 GGCCTCATGAGGTCTTTTCTGT
s panTro5.chr5             125175352 22 + 181907262 GCCCTCATGAGGTCTTTTCTGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126512378 22 + 183735486 GCCCTCATGAGGTCTTTTCTGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1703779 22 +   8933513 GGCCTCATGAGGTCTTTTCTGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139834600 22 + 163208435 GGCCTCATGAGGTCTTTTCTGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122823936 22 + 180051392 GGCCTCATGAGGTCTTTTCTGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124247608 22 + 181584905 GGCCTCATGAGGTCTTTTCTGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16245470 22 +  18395747 GGCCTCATGAGGTCTTTTCTGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5257529 22 +  26952557 GGCCTCACGAGGTCTTTTCTGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28359328 22 +  82825804 ggcctcatgaggtcttttctgC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4026146 22 -   4237731 GGCCTCACGAGGTCTTTTCTGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      296880 22 -   1175262 GGCCTCATGAGGTCTTTTCTGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123641029 22 - 204313951 ggccTCATTAGGTCTCTTAGGG
i calJac3.chr2             I 329 C 0
s saiBol1.JH378106          55685575 22 -  71252344 GGCCTCATTAGGTCTCttttgt
i saiBol1.JH378106         C 0 I 309
s cebCap1.NW_016107829v1     1389913 22 -   1400280 ggccTCATTAGGTCTCTTATGC
i cebCap1.NW_016107829v1   I 323 C 0
s aotNan1.NW_018505940v1    13186946 22 -  42888418 ggccTCATTAGGTCTCTTATGC
i aotNan1.NW_018505940v1   I 325 C 0
s proCoq1.NW_012155062v1     3570281 22 +  11683526 GGTCTCACGAGGTCTTTCCTAC
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55503376 21 +  90702639 -GTTTTATGAGGTCCTTTTCTC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14904241 22 +  74389097 GGATTCACGAGGTCCTTTTCAC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2613950 21 +   3667625 -gtctcaGGAGGGTCTTTCTAC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e otoGar3.GL873679           3057212 1190 +   4132165 M

a score=1233876.000000
s hg38.chr5_KI270796v1_alt     65258 109 +    172708 TTTCTGT---GAAGAACCTCACGAGATTCCTTCATTGCCTTCCACTTTG---TAGCATC-TCCTTCTAGAAGGAGAATGAAAACCACTTTATAAGACAT-G--ATATAGGAATA------------CTGCC-------------
s panTro5.chr5             125175374 109 + 181907262 TTTCTGT---GAAGAACCTCACGAGATTCCTTCATTGCCTTCCACTTTG---TAGCATC-TCCTTCTAGAAGGAGAATGAAACCCACTTTATAAGACAT-G--ATATAGGAATA------------CTGCC-------------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126512400 111 + 183735486 TTTCTGT---GAAGAACCTCACGAGATTCCTTCATTGCCTTCCACTTTG---TAGCATC-TCCTTCTAGAAGGAGAATGAAACCCACTTTATAAGACAT-GATATATAGGAATA------------CTGCC-------------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1703801 109 +   8933513 TTTCTGT---GAAGAACCTCACGAGATTCCTTCATTGCCTTCCACTTTG---TAGCATC-TCCTTCTAGAAGGAGAATGAAAACCACTTTATAAGACTT-G--ATATAGGAATA------------CTGCC-------------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139834622 109 + 163208435 TTTCTGT---GAAGAACCTCACGAGATTCCTTCATTGCCTTCCACTTTG---TAGTATC-TCTTTCTAGAAGGAGAATGAAAACCACTCTATAAGACAT-G--ATATAGGAATA------------CTGCC-------------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122823958 112 + 180051392 TTTCTGTGCAGAAGAACCTCACGGGATCCCTTGATTGCTTTCCACTTTG---TAGCATC-TCTTTCTAGAAGGAGAATGAAAACCACTTTATAAGACAT-G--ATATGGGAATA------------CTGCC-------------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124247630 112 + 181584905 TTTCTGTGCAGAAGAACCTCACGGGATCCCTTGATTGCTTTCCACTTTG---TAGCATC-TCTTTCTAGAAGGAGAATGAAAACCACTTTATAAGACAT-G--ATATGGGAATA------------CTGCC-------------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16245492 112 +  18395747 TTTCTGTGCAGAAGAACCTCACGGGATCCCTTGATTGCTTTCCACTTTG---TAGCATC-TCTTTCTAGAAGGAGAATGAAAAGCACTTTATAAGACAT-G--ATATGGGAATA------------CTGCC-------------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5257551 112 +  26952557 TTTCTGTGCAGAAGAACCTCATGGGATCCCTTGATTGCTTTCCACTTTG---TAGCATC-TCTTTCTAGAAGGAGAATGAAAACCACTTTATAAGACAT-G--ATATGGGAATA------------CTGCC-------------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28359350 112 +  82825804 TTTCTGTGGAGAAGAAACTCACGGGATCCCTTGATTGCTTTCCACTCTG---TAGCATC-TCTTTCTAGAAGGAGAATGAAAACCACTTTATAAGACAT-G--ATATGGGAATA------------CTGCC-------------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4026168 112 -   4237731 TTTCTGTGCAGAAGAACCTCATGGGATCCCTTGATTGCTTTCCACTTTG---TAGCATC-TCTTTCTAGAAGGAGAATGAAAACCACTTTATAAGACAT-G--ATATGGGAATA------------CTGCC-------------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      296902  94 -   1175262 TTTCTGTGCAGAAGAACCTCACGGGATCCCTTGATTGCTTTCCACTTTG---TAGCATC-TCTTTCTAGAAGGAGAATGAAAACCACTTTATAAGACA----------------------------------------------
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123641051 109 - 204313951 TTTCTGT---GCAGAATCTCATGAGATCCCTTTATTGCCTCCCGTTTTA---CACCATC-TCTTTCTAGAAGAAGAATGAAAACCACTTTATAAGACAT-G--ATATAGGAATA------------CTGCT-------------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55685906 109 -  71252344 TTTCTGT---GCAGAATCTCATGAGATCCCTTCATTGCCTCCCACTTTA---TACCATC-TCTTTCTAGAAGAAGAATGAAAACCACTTTATAAGTCAT-G--ATCTAGTAATA------------CTGCT-------------
i saiBol1.JH378106         I 309 C 0
s cebCap1.NW_016107829v1     1389935 109 -   1400280 TTTCTGT---GCAGAATCTCATGAGATCCCTTCATTGCCTCCCACTTTA---TACCATC-TCTTTCTAGAAGAAGTATGAAAACCACTTTAGAAGACAT-G--ATATAGGAATA------------CTGCC-------------
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13186968 109 -  42888418 TTTCTGT---GCAGAATCTCATGAGATCCCTTCATTGCCTCCCACTTTA---TACCATC-TCTTTCTAGAAGAAGAATGAAAACCACTTTATAAGACAT-G--ATATAGGAATA------------CTGCT-------------
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3570303 109 +  11683526 TTTCTGT---GCGGAACTTCAAGAAATCCATTCAGTGCCTTTTGCTTTG---TACCATC-TCTTCCTAGAAGGAGAATGAAAACCAGTGTATGAGACAT-G--GCACAAGAATA------------CTGCC-------------
i proCoq1.NW_012155062v1   C 0 I 675
s mm10.chr18                55503397 112 +  90702639 TTCCTGT---GTTGA--CTCAGGAACACTCCTTATAGTCTTTCATTGAACGCTACTATCATCTTCCTGGAGAAACAGTGAAAGCCAGTGCATGGGCCACAG--AAAAGAGCACA------------TTGCA-------------
i mm10.chr18               C 0 I 3
s canFam3.chr11             14904263 106 +  74389097 TGGTTGT---GAGGAACCACATG---CCCCATCATAGCCTTCTGCTTTG---TATCATC-TCTTCTTAGACGGAGAATGAAAACCACTTCATGGGAGGT-G--ATGGAGAAATC------------CTGCC-------------
i canFam3.chr11            C 0 I 23
s dasNov3.JH567306           2613971 125 +   3667625 TTTCTGT---GTGGAGCCTCACACTCTCCCTCCATTGCCTTTTACTTTG---T-------TC---CTAGCATGTGAATGAAAACCACTTCATTGGATGA-G--TTAAAGGAATACATGGCCATCCTCTGCCTTTCTTCCCTGCT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e otoGar3.GL873679           3057212 1190 +   4132165 M

a score=736627.000000
s hg38.chr5_KI270796v1_alt     65367 71 +    172708 CTCCTCTTTC----------CCTTGGCTCCTCAC-CCACTGAAACATCTCTTCTCTCAGTTGT-AAAACAAAAACTCTCAACT
s panTro5.chr5             125175483 71 + 181907262 CTCCTCTTTC----------CCTTGGCTCCTCAC-CCACTGAAACATCTCTTCTCTCAGTTGT-AAAACAAAAACTCTCAACT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126512511 71 + 183735486 CTCCTCTTTC----------CCTTGGCTCCTCAC-CCACTGAAACATCTCTTCTCTCAGTTGT-AAAACAAAAACTCTCAACT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1703910 71 +   8933513 CTCCTCTTTC----------CCTTGGCTCCTCAC-CCACTGAAACATCTCTTCTCTAAGTTGT-AAAACAAAAACTCTCAACT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139834731 71 + 163208435 CTCCTCTTTC----------CCTTGGCTCCTCAC-CCACTGAAACATCTCTTCTCTCAGTTAT-AAAACAAAAACTCTCACCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122824070 71 + 180051392 CTCCTCTTTC----------CCTTGGCTCCTCAC-TCACTGAAACATCTCTTCTCTCAGTTAT-AAAACAAAAACTCTCACCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124247742 71 + 181584905 CTCCTCTTTC----------CCTTGGCTCCTCAC-TCACTGAAACATCTCTTCTCTCAGTTAT-AAAACAAAAACTCTCACCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16245604 71 +  18395747 CTCCTCTTTC----------CCTTGGCTCCTCAC-TCACTGAAACATCTCTTCTCTCAGTTAT-AAAACAAAAACTCTCACCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5257663 71 +  26952557 CTCCTCTTTC----------CCTTGGCTCCTCAC-TCACTGAAACATCTCTTCTCTCAGTTAT-AAAACAAAAACTCTCACCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28359462 71 +  82825804 CTCCTCTTTC----------CCTTGGCTCCTCAC-CCACTGAAACATCTCTTCTCTCAGTTAT-AAAACAAAAACTCTCACCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4026280 71 -   4237731 CTCCTCTTTC----------CCTTGGCTCCTCAC-TCACTGAAACATCTCTTCTCTCAGTTAT-AAAACAAAAACTCTCACCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      296996 43 -   1175262 ---------------------------------------TGAAACATCTCTTCTCTCAGTTAT-AAAGCAAAAACTCTCACCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123641160 81 - 204313951 CTCCTCTTTCCTTCTCTTTTCCTTGGCTTCTCAC-CCACTGAAACATCTCTTCTCTCAGTTAT-ATTACAAAAACTCTCACCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55686015 81 -  71252344 CTCCTCTTTCCTTCTCTTTTCCTTGGCTTCTCAC-CCACTGAAATATCTCTTCTCTCAGTTAT-ATTACAAAAACTCTCACTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1390044 81 -   1400280 CTCCTCGTTCCTTCTCTTTCCCTTGGCTTCTCAC-CCACTGAAATATCTCTTCTCTCAGTTAT-ATTACAAAAGCTCTCACCT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13187077 81 -  42888418 CTCCTCTTTCCTTCTCTTTCCCTTGGCTTCTCAC-CCACTGAAATATCTCTTCTCTCAGTTAT-ATTACAAAAACTCTCACCT
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55503512 69 +  90702639 CTCTTCATCA--TATTCTTATCGTGGCTTGTTACTCCAGACAAACAGTATTTT-----ATTAC-Aaaacaagcaagc------
i mm10.chr18               I 3 C 0
s canFam3.chr11             14904392 71 +  74389097 TTCCTCCTTA----------CCTTGGCTTTTCAC--CAGTGAAACATGTTTTCTGCCAATGACAAAAATAAAAAATCTCCTTC
i canFam3.chr11            I 23 I 2
s dasNov3.JH567306           2614096 71 +   3667625 CTTTTCATTC----------CCTTGGCTCCTCTC-TTAGTGAAACATCTTTTCTTGCAGTTAC-TAAACAAAAACTCCAACCC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e proCoq1.NW_012155062v1     3570412 675 +  11683526 I
e otoGar3.GL873679           3057212 1190 +   4132165 M

a score=6890337.000000
s hg38.chr5_KI270796v1_alt     65438 629 +    172708 ACTCTAATGAATACAAGCCAGAGAGTA-----GGCAtgagtgtatg--------------------tgtgtttgtgtg--tgtg----tgtgtAATTACTAGTGCTAATCAGCAGAAATGTTCCCTATACATCTATGAATATGAGTCATTG----CCACCTGATTAAAATAAATCAGACAAC-----------CTTTA-CAGTGTCTCCCAATATATATTGATAATAGGCATtgtagtcgactgaggggtg-ttcctcaaaaagatat--gtccacctgccaatcaccagaaccagtg---aacattgctttataaggcaaaaagatgaaattaagttaaagattttgagaggaggagtt----tgtcctggattattt-g-atgggcc-ccagatccaatgacaagtgttcttctaagagtgaggcagagtggggattttgacagacacaccaggaggaag-acagacagaagaggagg-------caacatggccttggaggcagagattgaagtgatccaccctcaagcc-----------aaaaaaaaaaaaaaaaaatgcctgtagacagcagacactggaag--aca-gaagtacatgattctccccaggtgtctctgactggagggagtgtagtcctcctgagtccttgatttcagactcctggcctccagtatgatgagaaaataaatttctcttgtcttaag
s panTro5.chr5             125175554 619 + 181907262 ACTCTAATGAATACAAGCCAGAGAGTA-----GGCAtgagtgtatg--------------------tgtgtt--tgtg--tgtg----tgtgtAATTACTAGTGGTAATCAGCAGAAATGTCCCCTATACATCTATGAATATGAGTCATTG----CCACCCGATTAAAATAAATCAGACAAC-----------CTTTA-CAGTCTCTCCCAATATATATTGATAATAGGCATtgtagtggactgaagggtg-tccctcaaaaagatat--gtccacctgccaatcaccagaaccagtg---aacattgctttataaggcaaaaagatgaaattaagttaaagattttgagaggaggagtt----tgtcctggattattt-g-gtgggcc-ccagatccgatgacaagtgttcttataagagtgaggcagagtggggattttgacagacacaccaggcggaag-acagacagaagaggagg-------caacatggccttggaggcagagattgaagtgatccaccctcaagtc-------------------aaaaaaagaatgcctggagacagcagaaactggaag--aca-gaagtacatgattctccccaggtgtctctgactggagggagtgtagtcctcctgagaccttgatttcagacgcctggcctccagtatgatgagaaaataaatttctcttgtcttaag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126512582 621 + 183735486 ACTCTAATGAATACAAGCCAGAGAGTA-----GGCAtgagtgtatg--------------------tgtgtttgtgtg--tgtg----tgtgtAATTACTAGTGGTAATCAGCAGAAATGTTCCCTATACATCTATGAATATGAGTCATTG----CCACCTGATTAAAATAAATCAGACAAC-----------CTTTA-CAGTCTCTCCCAATATATATTGATAATAGGCATtgtagtggactgaagggtg-tccctcaaaaagatat--gtccacctgccaatcaccagaaccagtg---aacattgctttataaggcaaaaagatgaaattaagttaaagattttgagaggaggagtt----tgtcctggattattt-g-gtgggcc-ccagatccaatgacaagtgttcttataagagtgaggcagagtggggattttgacagacacaccaggcggaag-acagacagaagaggagg-------caacatggccttggaggcagagattgaagtgatccaccctcaagtc-------------------aaaaaaagaatgcctggagacagcagaaactggaag--aca-gaagtacatgattctccccaggtgtctctgactggagggagtgtagtcctcctgagaccttgatttcagactcctggcctccaggatgatgagaaaataaatttctcttgtcttaag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1703981 617 +   8933513 ACTCTAATGAATACAAGCCAGAGAGTA-----GGCAtgagtgtatg--------------------tgtgtt--tgtg--tgtg----tgtgtAATTACTAGTGGTAATCAGCAGAAATGTTCCCTGTACATCTATGAATATGAGTCATTG----CCACCTGATTAAAATAAATCAGACAAC-----------CTTTA-CAGTCTCTCCCAATATATATTGATAATAGGCATtgtagtggactgaagggtg-ttcctcaaaaagatat--gtccacctgccaatcacgagaaccagtg---aacgtcgctttataaggcaaaaagatgaaattaagttaaagattttgagaggaggagtt----tgtcctggattattt-g-gtgggcc-ccagatccaatgacaagtgttcttataagagtgaggcagagtggggattttgacagacacaccaggcggaag-acagacataagaggagg-------caacatggccttggaggcagagattgaagtgatccaccctcaagcc---------------------aaaaaaaatgcctggagacagcagaaactggaag--aca-gaagtacatgattctccccaggtgtctctgactggagggagtgtagtcctcctgagaccttgatttcagactcctggcctccagtatgatgagaaaataaatttctcttgtcttaag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139834802 614 + 163208435 ACTCTAATGAATACAAGCCAGAGAGTA-----GACAtgagtgtttg--------------------tgtgtt----tg--tgtg----tgtgtAATTACTAGTGGTAACCAGCACAAATGTTCCCTATACATCTATGAATATGAGTCATTG----CCACCTGATTAAAATAAATCAGACAAC-----------CTTTA-CAGTCTCTCCCAGTGTATATTGATAATAGGCATtgtagtgggctgaaggatg-ttcctcaaaaagatat--gtccacctgccaatcaccagaacctgtg---aacattgctttataaggcaaaaagacataattaagttaaagattttgagaggaggagtt----tgtgctggattatct-g-gtgggcc-ccagatccaatgacaagtgttctcataagagtgaggcagagtggggattttgacagacacaccaggcggaag-acagac---agaggagg-------caacatggccttggaggcagagattgaagtgatgcaccctcaagcc-----------------aaaaaaaaaaaatgcctggagacagcagaaaccggaag--aga-gaagtacatgattctccccaagtg--tctgactggagggagtgcagtcctcctgagaccttgatttcagactcctggcctccagtatgatgagaaaataaatttctcttgtcttaag
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122824141 634 + 180051392 ACTCTACTGAAGACAAGCCAGAGAGTA-----GGCAGGAgtgtatg--------------------tgtgtt----tg--tgtg----tgtgtaattgttagtgGTAACCAGCACAAATGTTCCCTCTACATCTATGAATATGAGTCATTG----GCACCTGATTAAAATAAATCAGATAAG-----------CTTTA-CAATCTCTCCCAGTATATATTGATAATAGGCATtgtagtgggctgaagggtg-ttcttcaaaaagatat--gtccacttgccaatcaccagaacctgtg---aacattgcttgataaggcaaaaagacataattaagttaaatgttttgtgaggaggagtt----tgtcctggattattt-g-gtggggc-ctagatccaatggcaa--gtttttataagagtgaggtagagtggggattttgacagacacaccaggtggaag-tcagacagaagaggagg-------caatgtggccttggaggcagagattgaagtgatacaccctcaagccaaaaaaaaaaaaaaaaaaaaaaaaaaaagggcctgaagacagcagaaactggaag--aga-gaagtacatgattctccccaagtgtctctgactggagggagtgcagtcctcctgagaccttgatttcagactcctggcctccagtacgatgagaaaataaatttctcttctcttaag
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124247813 621 + 181584905 ACTCTACTGAAGACAAGCCAGAGAGTA-----GGCAGGAgtgtatg--------------------tgtgtt----tg--tgtg----tgtgtaattgttagtgGTAACCAGCACAAATGTTCCCTCTACATCTATGAATATGAGTCATTG----GCACCTGATTAAAATAAATCAGATAAG-----------CTTTA-CAATCTCTCCCAGTATATATTGATAATAGGCATtgtagtgggctgaagggtg-ttcttcaaaaagatat--gtccacttgccaatcaccagaacctgtg---aacattgcttgataaggcaaaaagacataattaagttaaatgttttgtgaggaggagtt----tgtcctggattattt-g-gtggggc-ctagatccaatggcaa--gtttttataagagtgaggtagagtggggattttgacagacacaccaggtggaag-tcagacagaagaggagg-------caatgtggccttggaggcagagattgaagtgatacaccctcaagcc-------------aaaaaaaaaaaaaaagtgcctgaagacagcagaaactggaag--aga-gaagtacgtgattctccccaagtgtctctgactggagggaatgcagtcctcctgagaccttgatttcagactcctggcctccagtacgatgagaaaataaatttctcttctcttaag
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16245675 623 +  18395747 ACTCTACTGAAGACAAGCCAGAGAGTA-----GGCAtgagtgtatg--------------------tgtgtt----tg--tgtg----tgtgtaattgttagtgGTAACCAGCACAAATGTTCCCTCTACATCTATGAATATGAGTCATTG----GCACCTGATTAAAATAAATCAGATAAG-----------CTTTA-CAATCTCTCCCAGTATATATTGATAATAGGCATtgtagtgggctgaagggtg-ttcttcaaaaagatat--gtccacttgccaatcaccagaacctgtg---aacattgcttgataaggcaaaaagacataattaagttaaatgttttgtgaggaggagtt----tgtcctggattattt-g-gtggggc-ctagatccaatggcaa--gtttttataagagtgaggtagagtggggattttgacagacacaccaggtggaag-tcagacagaagaggagg-------caatgtggccttggaggcagagattgaagtgatacaccctcaagcc-----------aaaaaaaaaaaaaaaaagtgcctgaagacagcagaaactggaag--aga-gaagtacgtgattctccccaagtgtctctgattggagggagtgcagtcctcctgagaccttgatttcagactcctggcctccagtacgataagaaaataaatttctcttctcttaag
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5257734 627 +  26952557 ACTCTGCTGAAGACAAGCCAGAGAGTA-----GGCAtgagtgtatg--------------------tgtgtt----tg--tgtg----tgtgtaattgttagtgGTAATCAGCACAAATGTTCCCTGTACATCTATGAATATGAGTCATTG----GCACCTGATTAAAATAAATCAGACAAG-----------CTTTA-CAATCTCTCCCAGTATATATTGATAATAGGCATtgtagtgggctgaagggtg-ttcttcaaaaagatat--gtccacctgccaatcaccagaacctgtg---aacgttgcttgataaggcaaaaagacataattaagttaaatgttttgtgaggaggagtt----tgtcctggattattt-g-gtggggc-ctagatccaatggcaa--gttcttataagagtgaggcagagtggggattttgacagacacaccaagtggaag-tcagacagaagaggagg-------caatgtggccttggaggcagagattgaagtgatacaccctcaagcc-------aaaaaaaaaaaaaaaaaaaaagtgcctgaagacagcagaaactggaag--aga-gaagtatgtgattctccccaagtgtctctgactggagggagtgcagtcctcctgagaccttgatttcagactcctggcctccagtatgatgagaaaataaatttctcttctcttaag
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28359533 632 +  82825804 ACTCTACTGAAGACAAGCCAGAGAGTA-----GGCAtgagtgtatg--------------------tgtgtt----tg--tgtg----tgtgtaattgttagtgGTAACCAGCACAAATGTTCCCTCTACATCTATGAATATGAGTCATTG----GCACCTGATTAAAATAAATCAGACAAG-----------TTTTA-CAATGTCTCCCAGTATATATTGATAATAGGCATtgtagtgggctgaagggtg-ttcttcaaaaagatat--gtccacctgccaatcaccagaacctgtg---aacgttgcttgataaggcaaaaagacataattaagttaaatgttttgtgaggaggagtt----tgtcctggattattt-g-gtgggac-ctagatccaatggcag--gttcttataagagtgaggtagagtggggattttgacagacacaccaggtggaag-tcagacagaagaggagg-------gaatgtgcccttggaggcagagattgaagtgatacaccctcaagcc--agaaaaaaaaaaaaaaaaaaaaaaaattgcctgaagacagcagaaactggaag--aga-gaagtacgtgattctccccaagtgtctctgactggagggagtgcagtcctcctgagaccttgatttcagactcctggcctccagtatgatgagaaaataaatttctcttctcttaag
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4026351 626 -   4237731 ACTCTACTGAAGACAAGCCAGAGAGTA-----GGCAtgagtgtatg--------------------tgtgtt----tg--tgtg----tgtgtAATTGTTAGTGGTAATCAGCACAAATGTTCCCTCTACATCTATGAATATGAGTCATTG----GCAACTGATTAAAATAAATCAGATAAG-----------CTTTA-CAATCTCTCCCAGTATATATTGATAATAGGCATCgtagtgggctgaagggtg-ttcttcaaaaagatat--gtccacctgccaatcaccagaacctgtg---aacgttgcttgataaggcaaaaagacataattaagttaaatgttttgtgaggaggagtt----tgtcctggattattt-g-gtggggc-ctagatccaatggcaa--gttcttataagtgtgaggcagagtggggattttgacagacacaccaagtggaag-tcagacagaagaggagg-------caatgtggccttggaggcagagattgaagtgatacaccctcaagcc----------aaaaaaaaaaaaaaaaaagtgcctgaagacagcagaaactggaagacaga-gaagtacgtgattctccccaagtgtctctgactggagggagtgcagtcctcctgagaccttgatttcagactcctggcctccagtatgatgagaaaataaatttctcttctcttaag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      297039 625 -   1175262 ACTCTAATGAAGACAAGCCAGAGAGTA-----GGCATGAGAgtatg--------------------tgtgtt----tg--tgtg----tgtgtAATTGTTAGTGGTAACCAGCACAAATGTTCCCTATACATCTGTGAATATGAGTCATTG----GCACCTGATTGAAATAAATCAGACAAG-----------CCTTA-CAATCTCTCCCAGTATATATTGATAATAGGCATtgtagtgggctgaagggtg-ttcttcaaaaagatat--gtccacctgccaatcaccagaacctgtg---aacattgcttgataaggcaaaaagacataattaagttaaatgttttgtgaggaggagtt----tgtcctggattattt-c-gtgggga-ctagatccaatgataa--gttcttttaagagtgaggcagagtggagattttgacagacacaccaggtggaag-tcagacagaagaggagg-------caatgtgtccttggaggcagagattgaagtgatacaccctcaagcc--------aaaaaaaaaaaaaaaagaaaatgcctgaagacagcagaaactggaag--aga-gaagtatgtgattctccccaagtgtctctga-tggagggagtgcagtcctcctgagaccttgatctcagactcctggcctccagtatgatgagaaaataaatttctcttctcttaag
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123641241 606 - 204313951 ACTGTAATGAAGATAAGCCAGAGAGTA-----GGCATGACTGTATG--------------------TGTGTC----TG--TGTG----TGTGTAATTATTAGTGGTAACCAGCACAAATATTCCCTATACATCTATCAATATGAGTCATTG----GCACCTGATTAAAATAAACCAGACAAC-----------TTTTA-CAATCTCTCCCAGCACATATTGATAATCAGCATTCtagtgggctgaagggtg-atcctcaaaaaggtat--gtccacctgtcaatcaccagaacctgtagacaacattgctttatgtgac-aaaagatgtgattaag-----gatttttagaggaggtgct---------tggattattt-g-gtgagtc-ttggatgcaatgacaagtattcttataagagcgaggcagaatggggattttgacagacacaccaggcaaaag-acagacagaagaggagg-------cagcgtggccttggaggcaaagattgaagtgatgcaccctcaagcc----------------------aaaaaaatgcctggagagagcagaaactggaag--aaa-gaagtaaaagattcttcccaagcgtctctgactggagggagtacagtcctcctgagactttgatttcagactcctggcctctagaatgatgagaaaataaatttctgttgtcttaag
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55686096 609 -  71252344 ACTGTAATGAAGATAAGCCAGAGAGTA-----GGCATGAGGGTATG--------------------TATGTC----TGTATGTG----TGTGTAATTATTAGTGGTAACCAGCACAAATGTTCCCTATACATCTATGAATATGAGTCATTG----ATACCTGATTGAAATAAATCAGACAAC-----------TTTTA-CAATCTCTCCCAGCGCATATTGATAATCAGCATtgtagtgggctgaagggtg-atcctcaaaaaggtat--gtccacgtgtcaatcaccagaacctgtggacaacatttctttatgtggc-aaaagatacgattaag-----gattttcagaggaggtgct----tgtcctggattattt-g-gtgagcc-ctagattcaacgacaaatgttcttataagagtgaggcagaatggggattttgacagacacaccaggcaaa-----agacagaagaggagg-------cagcgtagccttggaggcaaagattgaagtgatgcaccctcaagcc----------------------aaaaaaatgcctggagagagcagaaactggaag--aaa-gaagtaaaagattcttcccaagcatctctgactggagggagtgcagtcctcttgagaccttgatttcagactcctagcctctagaatgatgagaaaataaatttctgttgtcttaag
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1390125 604 -   1400280 ACTGTAATGAAGATAAACCAGAGAGTA-----GGCAtgagtgtgcg--------------------tgtgtc--------tgtg----tgtgtCATTATTAGTGGTAACCGGCACAAATGTTCCCTATACATTTATGAATATGAGTCATCG----GCACCTGATTAAAATAAATCAGACAAC-----------TTTTA-CAGTCTCTCCCAGCACATATTGATAATCAGCATtgtagtgggctgaagggca-atcctcaaaaaggtat--gtccacctgtcaatcaccagaacctgtggacaacattgctttatgtggc-aaaaggtatgattaag-----gattttcagaggaggcgct----tgtcctggattattt-a-gtgagcc-ctagattcaatgacaagtgttcttgtaagagtgaggcagaatggggattttgaccgacacaccaggcaaa-----agacagaaaaggagg-------cagcgtggccttggaggcaaagattgaagtgatgcaccctcaagcc----------------------aaaaaaatgcctggagagagcagaaactggaag--aaa-gaagtaaaagattcttcccaagcatctctgactggagggagtgcagtcctcctgagaccttgatttcagactcctgg-ctctagaatgatgagaagataaatttctgttgtcttaag
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13187158 611 -  42888418 ACTGTAATGAAGATAAGCCAGAGAGTA-----GGCAtgagtgtatg--------------------tgtgtc----tg--tgtg----tgtgtAATTATTAGTGGTAACCAGCACAAATGTTCCCTATACATCTATCAATATGAGTCATTC----GCACCTGATTAAAATAAATCAGACAAC-----------TTTTA-TAATCTCTCCCAGCACATATTGATAATCAGCATtgtagtgggctgaagggtg-atcctcgaaaaggtat--atccacctgtcaatcaccagaacctgtggacaacattgctttatgtggc-aaaagatgtgattaag-----gattttcagaggaggtgcttgcttgtcctggattattt-g-gtgagcc-ctagattcaatgacaagtgttcttataagagtgaggcagaatggggattttgacagacacaccaggcaaa-----agacagaagaggagg-------caacgtggccttggaggcaaagattgaagtgatgcaccttcaaacc----------------------aaaaaaatgcctggagagagcagaaactggaag--aaa-gaagtaaaagattcttcccaagcgtgtctgactggagggagtgcagtcctcctgagaccttgatttcagactcctggcctctagaatgatgagaaaataaatttctgttgtcttaag
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3058406 590 +   4132165 ACTCTAACAAAGAAAAGCTGGAGATGA-----GGCATGAGTATATGCACGCGTCCACGCATGTGTATGTGCG----TG--TGTG----TGTGTAATTATTAGTGGTGGCCTGCACAAATATTCCTTGTAAGTCTATGAACATATATCACTT----ACATTTTGTCAAAATAAATCAGACAACTAGTCAGACAACTTTACCAATCTCTCCTGTCATGTTTTGCTGATTGGCATtatagtgagctgaatggtg--tcctcagaaagatat--gtcctcctcctaatcgccagagcctgtg---aatattgctctagatggt-gaaagagGGGATTGAG-----GAGGATGAGGACAgaagtt----tgtccaaggtaattc-atgtgggcc-ctagatccaaggacaagtatccttttaaaagtgaggcagaggag-------gacagccacgt--agaaggtg-gcaga-ggaggaggagg-------caaggtgg-cttggagatggagattaaagtgatgcatcctcaagcc----------------------aaaaaaatgcctgg----agcagaagttagaaa--agg-gaaggaacagattctccacagaca-ctcctaccggacggagtgcagtcctgctgagaccttggtttcagACGCGTGGCCTCCA----------------------------------
i otoGar3.GL873679         M 1190 C 0
s mm10.chr18                55503581 546 +  90702639 aaacaaacaaacaaaGgtgtgtgtgtattgtctgtatgtgtgtgtg--------------------tataca----tgcatgtg----tgtatgttcataaatggggatcagtacaaatactccttataaatctgtgAATACCAATCACTGAATTGTATTTGGTTACAGCAAATCAGATAAC-----------TTTTA-CAAACTCTTCTGTTGTGT--------------TCCTCGTGATAGAAAAGATG---------GAAGGAAT-------CTTATT--------GAACCAGTG---AATACTATTCTGTCTGGC-ATAAGAAGTACTAAGGATGGA-----TGAAAGAAAGAACT----TGTATTGGATCATCC-A-AGGGAACACTGGATTCAAGAATGG--ATGCTTGTAAGACTGA----------AAATCTTCACAGGTAACACAG--AAGAC-TCAGACTGAGGAGGAGG-------CAGGGGAA----GGAG--AAAGAGTGAGAAGATGCACCA-aaagcc-----------------------agagaatggttccagccatcctgagccagaac--agacaaagtaca-gactctccccccaagcctctg--cagagggagt-------------ggccttggtttcacatatctaatggctagcactgtgaggaaataa--ttttgattattgaag
i mm10.chr18               C 0 C 0
s canFam3.chr11             14904465 575 +  74389097 ACTCCAATGGAGAAAAGCTGGTGGGTG-----GGCA------CATA--------------------TATATT-----A--TATG----TGTATAATTATT-----TGACCAACACAAATATTCTTTATAAGTCTATCAA------TTATTT----GCCCTTGGTTAAAATAAAATAGACAAC-----------TTTTA-TAATCATCCTCAGCATATTTTGATAATAGACACTGCA-TGggtggagtagta-tccttcaaaaagatat--gcccacttcttaatccccagaacctgtg---agtcatacattatacagc-aaaagatatgattaagctaagggttt----gagaggagct----tatcctgggttatccag-gtaggcc-ctaaatccattgagaagtatcctaatgagagtaagg--------gaaatttcacagacacacagggcacaaacatacagagaggaggagg-------cagtatggccttggagacagaggttggagtgatgtacccacaagcc-----------------------aaggaatgcctggagctagtagaagatggaag--agc-aaggcata-gattctcccctagcacacc----ctgagagaggatggtcctcttgaaatgttgacttcagacttgtggtttccagaactatgagaacataaatttctgtt---tgaag
i canFam3.chr11            I 2 C 0
s dasNov3.JH567306           2614167 585 +   3667625 ACTCTGATGGAGAAAAACT----AATA-----TACATATGTGTATG--------------TTTGCATGTGCA----TG--TGTGCACATGTGTAATTATTAGTGGTGACCAGCACAAATATCCCTTATAAACTAATAATTATAATTCATAT----GCTTTTTATTCAAATAAATCAGACAAT-----------TTTT--CAATGTCTCTTGTAATATTTTGATAATAGATACtgtaatgggcagaaaaatggatccccaaacatatgttcatacatatcctaatccctggaacctgtg---aatattgccttatatggt-aaatgatgtagttatgtcaaggatctcgagaggaggaact----tatcctggattctctgg-gtggacc-ttaaagccaaagacaagtgttcttgtaagagtgaagcaga--gggaaatttgacagtca----gaggagaag-ccatacagaggaggcggagctagtccacgtaaccacagagacagag--tggagtggtatggccataagcc-----------------------aaggagcgcctggagccagcaga-gctggaag--agc-caagt---------------------------------gagtgtggccctgccaacatcttgatttt-gacttttggcctcctgcagcatgagagaatcagtttctgttgttttaag
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e proCoq1.NW_012155062v1     3570412 675 +  11683526 I

a score=2731359.000000
s hg38.chr5_KI270796v1_alt     66067 217 +    172708 ccaaggttacagtaatttgttatggcagctgcagaatactaatataGA----CAACACACTGTTAGCTTTTAAAATTGTGTAAAACACACAAAACTCCATCTGTTCTAGACACTTGTTTGTAAAC---AGAGGAACTTTACTACACGCAAATTAGTGTTAATA------CTATCAGAA--GTTGAACTT---AGAATATTAGGTGT------AAGTATTTGTCAATGTGATCGCTCCCCTT
s panTro5.chr5             125176173 217 + 181907262 ccaaggttacagtaatttgttatggcagctgcagaataccaatacaGA----CAACACACTGTTAGCTTTTAAAATTGTGTAAAACACACAAAACTCCATCTGTTCTAGACACTTGTTTGTAAAC---AGAGGAACTTTACTACATGCAAATTAGTGTTAATA------CTATCAGAA--GTTGAACTT---GGAATATTAGGTGT------AAGTATTTGTCAATGTGATCGCTCCCCTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126513203 217 + 183735486 ccaaggttacagtaatttgttatggcagctgcagaataccaatataGA----CAACACACTGTTAGCTTTTAAAACTGTGTAAAACACACAAAACTCCATCTGTTCTAGACACTTGTTTGTAAAC---AGAGGAACTTTACTACATGCAAATTAGTGTTAATA------CTATCAGAA--GTTGAACTT---GGAATATTAGGTGT------AAGTATTTGTCAATGTGATCGCTCCCCTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1704598 217 +   8933513 ccaaggttacagtaatttgttatggcagctgcagaataccaatataGA----CAACACACTGTTAGCTTTTAAAATTGTGTAAAACACACAAAACTCCATCTGTTTTAGACACTTGTTTGTAAAC---AGAGGAACTTTACTACATGCAAATTAGTGTTAATA------CTATCAGAA--GTTGAACTT---AGAATATTAGGTGT------AAGTATTTGTCAATGTGATCGCTCCCCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139835416 217 + 163208435 ccaaggttacagtaatttgttatggcagctgcagaataccaatataGA----CAACACACTGTTAGGTTTTAAAATTGTGTAAAACACACAAAACTCCATCTGTTTTAGACACTTGTTTGTAAAC---AGAGGAACTTTACTACATGCAAATTGGTGTTAACA------CTACCAGAA--GTTGAACTT---AGAATATCAGGTGT------AAGTATTTGTCAATGAGATCGCTCCCCTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122824775 205 + 180051392 ccaaggttacagtaatttgttatggcagctgcagaataccaatacaGA----CAACACACCGTTAGGTTTTAAAATTGTGTAAAACACATAAAACTCTATCTATTTTAGACACTTGTTTGTAAAC---AG------------ACATGTAAATTAGTGTTAACA------CTATCAGAA--GTTGAACTT---AGAATATTAGGTGT------AAGTATTTGTCAATGAGATCGCTCCCCTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124248434 201 + 181584905 ccaaggttacagtaatttgttatggcagctgcagaataccaatacaGA----CAACACACCGTTAGGTTTTAAAATTGTGTAAAACACATAAAAC----TCTATTTTAGACACTTGTTTGTAAAC---AG------------ACATGTAAATTAGTGTTAACA------CTATCAGAA--GTTGAACTT---AGAATATTAGGTGT------AAGTATTTGTCAATGAGATCGCTCCCCTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16246298 205 +  18395747 ccaaggttacagtaatttgttatggcagctgcagaataccaatacaGA----CAACACACCGTTAGGTTTTAAAATTGTGTAAAACACATAAAACTCTATCTATTTTAGACACTTGTTTGTAAAC---AG------------ACATGTAAATTAGTGTTAACA------CTATCAGAA--GTTGAACTT---AGAATATTAGGTGT------AAGTATTTGTCAATGAGATCGCTCCCCTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5258361 205 +  26952557 ccaaggttacagtaatttgttatggcagctgcagaataccaatataGA----CAACACACCGTTAGGTTTTAAAATTGTGTAAAACACATAAAACTCTATCTATTTTAGACACTTGTTTGTAAAC---AG------------ACATGTAAATTAGTGTTAACA------CTATCAGAA--GTTGAACTT---AGAATATTAGGTGT------AAGTATTTGTCAATGAGATCGCTCCCCTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28360165 203 +  82825804 ccaaggttacagtgatttgttatggcagctgcagaataccagtataGA----CAACACACTGTTAGGTTTTAAAATTGTGTAAAACATATAAAAC----TCTATTTTAGACACTTGTTTGTAAACAGAAG------------ACATGTAAATTAGTGTTAACA------CTATCAGAA--GTTGAACTT---AGAATATTAGGTGT------AACTATTTGTCAATGAGATCGCT-CCCTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4026977 205 -   4237731 ccaaggttacagtaatttgttatggcagctgcagaataccaatataGA----CAACACACCGTTAGGTTTTAAAATTGTGTAAAACACATAAAACTCTATCTATTTTAGACACTTGTTTGTAAAC---AG------------ACATGTAAATTAGTGTTAACA------CTATCAGAA--GTTGAACTT---AGAATATTAGGTGT------ATGTATTTGTCAATGAGATTGCTCCCCTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      297664 207 -   1175262 ccaaggttacagtaatttgttatggcagctgcagaataccaacataGA----CAACACACCGTTAGGTTTTAAAATTGGGTAAAACACATAAAAG----TCTATTTTAGATACTTGTTTGTAAAC---AGAAGA--------ACATGTAAATTAGTGTTAACA------CTATCAGAAGTGTTGAACTT---AGAATATTAGGTGT------AAGTATTTGTCAATGAGATCGCTCCCCTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123641847 217 - 204313951 ccaaggttacagtaatttgttgtggcagctgcagaataccaacataGA----CAGCACACCATTAGGTTTTAAAATTGTGTAAAACACACAAAATTCCATCTGTTTTAGACACTTGTTTGTTAAC---AGAGGAATTTTACAACTTGAAAATTAGTGTTAACT------CAATCAGAA--GTTAAACTT---GGAATATTAGGTGC------AAGTATTTGTCAATGAGCTTACTCCCCTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55686705 208 -  71252344 ccaaggttacagtaatttgttatggcagctgcagaataccaacataGA----CAGCACACCGTTAGGTTTTAAAATTGTGTAAAACACACAAAACTCCATCTGTTTTAGATACTTGTTTGTTAAC---AGAGGAACTTTACAACATGAAAATTAGTGTTAACT------GTATCAGAA--GTTGAAC-----------TTAGGTGC------AAGTATTTGTCAATGA-TTCACTCCCCTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1390729 206 -   1400280 ccaaggttacgataatttgttatggcagctgcagaataccaacataGA----CAGCACATCGTTAGGT----------TGTAAAACACACAAAACTCCATC-GTTTTAGACACTTGTTTGTTAAC---AGAGGAACTTTACAACACGAAAGTTAGCGTTAACT------CTATCAGAA--GTTGAATTT---AGAATATTAGGTGC------AAGTATTTGTCAATGAGCTCGCTCCCCTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13187769 216 -  42888418 ctaaggttacagtaatttgttatggcagctgcagaata-cAACATAGA----AAGCACACCGTTAGGTTTTAAAATTGTGTAAAACACGCAAAACTCTATCTGTTTTAGACACTTGTTTGTTAAC---AGAGGAACTTTACAACATGAAAATTAGCGTTAACT------CTATCAGAA--GTTGAACTT---AGACTATTAGGTGC------AAGTATTTGTCAATGAGCTCGCTCCTCTT
i aotNan1.NW_018505940v1   C 0 I 308
s proCoq1.NW_012155062v1     3571087 216 +  11683526 CCAAGGTTACAGTCATTTGTTATGGAAGCTGCAAGAAACTAATACAGA-----GACACACCCTTAGATTTTAAAATGGTGTTAAATACACAAAACTCCATCCATTTTAGACACTTGCTTGTAAAC---AAAGGAGCTCTACCGCATGTCAATTAGTGCTAATA------CTATCAGAA--GTTGAACAC---AGAACATTTGGTCA------AAGTATTCATCAGTGAGATAGTGCTCCTT
i proCoq1.NW_012155062v1   I 675 C 0
s otoGar3.GL873679           3058996 217 +   4132165 ---AGGTTACAGTAATTTGTTATGGAAACTGCAGGAAACTAAGACAGGTAACTAATACACCCTCAGATCTTAAAACTGTGTTGACTATACACAACTCCATCCATTTTAGACACTTGCTTATAAAC---AGCAGAGCTCTA-TGCATGTAAATTAGTGCTAACA------CTATCAGAA--GTTGAATTA---AGAATGTTTGGTCA------AAGTCTTTGTCATTGATGTAGTGCTCCTT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55504127 208 +  90702639 ccaagagagtggtagtttttaatggcagctaccaaaaactaacacGGA-------CATGTCCTTAGGATTAAAAATCTTGCAAAAGAC--AAAACTTCATCCATTTCAGA----TGTCTGTAAAT---AGAGATGTTCTTCTGCAAGCAAGTTAGTGCTCGCA------TCAGCAGAA--GCCGAGCCT---AGAATGTCTGGTCT------AAGTATTTATCAGTGAGCTAGCTCTCTTG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14905040 224 +  74389097 tcaaggctgtggtaatttgtcacagcagctgtaggaaactaatataGA----CAACAAACCCCTAGATTCT--AATTGTGTAAAATATGCACAATTCTGTCCATTTCACTTGTTTGCTTGTAGAT---AGAGGAGCTCTACTGCTTATAGATTAGTGTTCACTGTCACCTTGTTAGAT--GTTGAACTTATGAGAATGTTTGCTCA------AAATATCTGTCAATGAACTAGTTCTCCCT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2614752 228 +   3667625 ccagggttgttgtaatttgttgtggcagtcacaggaaactcatacaGA----CAACAAAACTTTAGTTTATAGACATGCATAAAATATACAAAACTCCATCCATTTTAGACTCTTG----TGAGC---AGAGTAGCTCTACTGCCTGCAAAATAGTTCTCACAGTCACCTTGTTAGAA--GTTGTTTTTATAAGAATATTTGGTGCCAGAGAAAGTATTTATCAATGGCCTAGGTCTCTGT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I

a score=1882265.000000
s hg38.chr5_KI270796v1_alt     66284 141 +    172708 AAAAGCCTGT-----AACGTTGTTGTACTGGATATTGCTAATCAATTTATA-TTATTGAAAGCTTACTC-TGAGTAGATCAAATCAATATGCCAGAA-ACCATAAGGGAGGGGGGAAACAGTGAATACGATGAAATAGTA--ATAGTaata
s panTro5.chr5             125176390 141 + 181907262 AAAAGCCTGT-----AACGTTGTTGTACTGGATATTGCTAATCAATTTATA-TTATTGAAAGCTTACTC-TGAGTAGATCAAATCAATATGCCAGAA-ACCATAAGGGAGGGGGGAAACAGTGAATACAATGAAATAGTA--ATAGTaata
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126513420 141 + 183735486 AAAAGCCTGT-----AACGTTGTTGTACTGGATATTGCTAATCAATTTATA-TTATTGAAAGCTTACTC-TGAGTAGATCAAATCAATATGCCAGAA-ACCATAAGGGAGGGGGGAAACAGTGAATACAATGAAATAGTA--ATAGTaata
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1704815 136 +   8933513 AAAAGCCTGT-----AACGTTGTTGTACTGGATGTTGCTAATCAATTTATA-TTATTGAAAGCTTACTC-TGAGTAGATCAAATCAATATGCCAGAA-ACCATAAGGGAGGGGGGAaacagtgaatacaatgaaatagta--atag-----
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139835633 140 + 163208435 AAAAGCCTGT-----AAGGTTGTTGTACTGGATGTTGCTAATCAATTTATA-TTATTGAAAGCTTACTC-TGAGTAGATCAAATCAATACGCCAGAA-ACCATAAGGGA-GGGGGAAACAGTGAATACAATGAAATAGTA--ATAGTaata
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122824980 140 + 180051392 AAAAGCCTGT-----AACATTGTTGTACTGGCTGTTGCTAATCAATTTATA-TTATTGAAAGCTTACTC-TGAGTAGATTAAATCAATATGCCAGAA-ACCAAGAGGGA-GGGGGAAACAGCGAATACAATGAaatagta--agagtaata
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124248635 140 + 181584905 AAAAGCCTGT-----AACATTGTTGTACTGGCTGTTGCTAATCAATTTATA-TTATTGAAAGCTTACTC-TGAGTAGATTAAATCAATATGCCAGAA-ACCAAGAGGGA-GGGGGAAACAGCGAATACAATGAaatagta--agagtaata
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16246503 140 +  18395747 AAAAGCCTGT-----AACATTGTTGTACTGGCTGTTGCTAATCAATTTATA-TTATTGAAAGCTTACTC-TGAGTAGATTAAATCAATATGCCAGAA-ACCAAGAGGGA-GGGAGAAACAGCGAATACAATGAaatagta--agagtaata
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5258566 140 +  26952557 AAAAGCCTGT-----AACATTGTTGTACTGGCTGTTGCTAATCAATTTATA-TTATTGAAAGCTTACTC-TGAGTAGATTAAATCAGTATGCCAGAA-ACCAAGAGGGA-GGGGGAAACAGCGAATACAATGAaatagta--agagtaata
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28360368 140 +  82825804 AAAAGCCTGT-----AACATTGTTGTACTGGCTGTTGCTAATCAATTTATA-CTATTGAAAGCTTACTC-TGAGTAGATTAAATCAATATGCCAGAA-ACCAAGAGGGA-GGGGGAAACAGCGAATACAATGAaatagta--agagtaata
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4027182 140 -   4237731 AAAAGCCTGT-----AACATTGTTGTACTGGCTGTTGCTAATCAATTTATA-TTATTGAAAGCTTACTC-TGAGTAGATTAAATCAATATGCCAGAA-ACCAAGAGGGA-GGGGGAAACAGCGAATACAATGAaatagta--agagtaata
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      297871 140 -   1175262 AAAAGCCTGT-----AACATTGTTGTACTGGCTGTTGCTAATCAATTTATA-TTATTGAAAGCTTACTC-TGAGTAGATCAAATCAAGATGCCAGAA-ACCATGAGGGA-GGGGGAAACAGCGAATACAATGAAATAGTA--AGAGTAACA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123642064 138 - 204313951 AAAAGCCTGT-----AACGTTGTTGTACTGGATAT---TAATCAACTTATA-TTATTGAAAGCTTACTCTTGAGTAGATCAAATCAATATGCCAGAA-ACCATGAGGGA-GGGGGAAACAGCGAATAAAATGAAATAGTA--ATAGTAATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55686913 138 -  71252344 AAAAGCCTGT-----AATGTTGTTGTACTGGATAT---TAATCAACTTATA-TTATTGAAAGCTTACTCCTGAGTAGATCAAATCAATATGCCAGAA-CCCATGAGGGA-GGGGGAAACAGCAAATAACATGAAATAGTA--ATAATAATA
i saiBol1.JH378106         C 0 I 2
s cebCap1.NW_016107829v1     1390935 138 -   1400280 AAAAGCCTGT-----AACGTTGTTGTACTGGATGT---TAATCAACTTATA-TTATTGAAAGCTCACTCTTGAGTAGATCAAGTCAATATGCCAGAA-GCCATGAGGGA-GGGGGAAACAGCGAATAAAATGAAATTGTA--ATAGTAATA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13188293 138 -  42888418 aaaaGCCTGT-----AGCGCTGTTGTACTGGATGT---TAATCAACTTATA-TTATTGAAAGCTTACTCTTGAGTAGATCAAATCAATATGCCAGAA-ACCATGAGGGA-GGGGGAAACAGAGAATAAAATGAAATAGTA--ATAATAATA
i aotNan1.NW_018505940v1   I 308 I 9
s proCoq1.NW_012155062v1     3571303 136 +  11683526 AAAAGCCTAT-----AAAA---TTGTACTGTACCTTGTT-ATCAATTTGTA-TGATTGAAAGCTTACTC-TGAGTAAATC-AATCAATATGCCAGAACACTATGAGGGA-AGGGGAAACAGTGAAGAAAATAAAATAGTa--ataataata
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3059213 137 +   4132165 AAAAGCCCAG-----AACA---TTGCACTGTCCATTGCTAATCAATCTGTA-TTATTGACAGTTTACTC-TGAGTAAATCGAATCAATATGCCAGAA-GCTATGAGGGA-AGGGAAAACAATGAAGAAAACAAAAGAGTG--GTGATGATG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55504335 132 +  90702639 -CAGTGTTGT-----AA---TGTCGTACTGCACATTGTCAATAGGTTTGTA-TTATTGAAAGCTTACTC-TGAGTAAATCAAATCAATACATCAGAA-GCTATGAAGAA-GAGAG---CAGAAAAAAC-ATTAAGTAGGC--ATAATAACG
i mm10.chr18               C 0 I 4
s canFam3.chr11             14905264 140 +  74389097 AAATGTCTGC-----GACA---TTGCACTGTACATTATTAATCTGGTTGTATTTATTGAAAGCTTACTC-TGAATAAATTAAGTCAATATGCCAGTA-ACTATGGGGAA-AGGGGAAACAGTACAGAAAATGAAACAGTAATataataata
i canFam3.chr11            C 0 I 7
s dasNov3.JH567306           2614980 139 +   3667625 AATAGCCTGTGTGCAACTGATGTTGCAGTGCACACTGTTAATCCATTGGTATTTATTAAAAGATTACCC-TGAAGAAATCAAATTAATATGCCAGAA-ACTCTGAGGGA-AGGGG-AGCAATGAAGAAAAAGAAACAGTA--ATA------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I

a score=21337.000000
s hg38.chr5_KI270796v1_alt     66425 2 +    172708 at
s panTro5.chr5             125176531 2 + 181907262 at
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126513561 2 + 183735486 at
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1704951 1 +   8933513 -t
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139835773 2 + 163208435 at
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122825120 2 + 180051392 at
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124248775 2 + 181584905 at
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16246643 2 +  18395747 at
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5258706 2 +  26952557 at
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28360508 2 +  82825804 at
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4027322 2 -   4237731 at
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      298011 2 -   1175262 AT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123642202 2 - 204313951 AT
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107829v1     1391073 2 -   1400280 AT
i cebCap1.NW_016107829v1   C 0 C 0
s proCoq1.NW_012155062v1     3571439 2 +  11683526 at
i proCoq1.NW_012155062v1   C 0 I 28
s otoGar3.GL873679           3059350 2 +   4132165 AG
i otoGar3.GL873679         C 0 I 5
s mm10.chr18                55504471 2 +  90702639 AC
i mm10.chr18               I 4 C 0
s canFam3.chr11             14905411 2 +  74389097 at
i canFam3.chr11            I 7 C 0
s dasNov3.JH567306           2615119 2 +   3667625 AC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e aotNan1.NW_018505940v1    13188431 9 -  42888418 I
e saiBol1.JH378106          55687051 2 -  71252344 I

a score=8952.000000
s hg38.chr5_KI270796v1_alt     66427 1 +    172708 a
s panTro5.chr5             125176533 1 + 181907262 a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126513563 1 + 183735486 a
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1704952 1 +   8933513 a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139835775 1 + 163208435 a
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122825122 1 + 180051392 a
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124248777 1 + 181584905 a
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16246645 1 +  18395747 a
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5258708 1 +  26952557 a
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28360510 1 +  82825804 a
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4027324 1 -   4237731 a
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      298013 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123642204 1 - 204313951 T
i calJac3.chr2             C 0 I 7
s cebCap1.NW_016107829v1     1391075 1 -   1400280 A
i cebCap1.NW_016107829v1   C 0 I 27
s mm10.chr18                55504473 1 +  90702639 A
i mm10.chr18               C 0 C 0
s canFam3.chr11             14905413 1 +  74389097 a
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2615121 1 +   3667625 A
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e proCoq1.NW_012155062v1     3571441 28 +  11683526 I
e otoGar3.GL873679           3059352 5 +   4132165 I
e aotNan1.NW_018505940v1    13188431 9 -  42888418 I
e saiBol1.JH378106          55687051 2 -  71252344 I

a score=36407.000000
s hg38.chr5_KI270796v1_alt     66428 6 +    172708 ataata
s panTro5.chr5             125176534 6 + 181907262 ataata
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126513564 6 + 183735486 ataata
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1704953 6 +   8933513 ataata
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139835776 6 + 163208435 ataata
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122825123 6 + 180051392 gtaata
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124248778 6 + 181584905 gtaata
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16246646 6 +  18395747 gtaata
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5258709 6 +  26952557 gtaata
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28360511 6 +  82825804 gtaata
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4027325 6 -   4237731 gtaata
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      298014 6 -   1175262 GTAATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123642212 6 - 204313951 tcactg
i calJac3.chr2             I 7 I 1
s saiBol1.JH378106          55687053 6 -  71252344 tcactg
i saiBol1.JH378106         I 2 I 1
s otoGar3.GL873679           3059357 6 +   4132165 ATACTC
i otoGar3.GL873679         I 5 I 15
s mm10.chr18                55504474 6 +  90702639 CCCATG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14905414 6 +  74389097 ataata
i canFam3.chr11            C 0 I 24
s dasNov3.JH567306           2615122 6 +   3667625 ATGACa
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e proCoq1.NW_012155062v1     3571441 28 +  11683526 I
e aotNan1.NW_018505940v1    13188431 9 -  42888418 I
e cebCap1.NW_016107829v1     1391076 27 -   1400280 I

a score=150458.000000
s hg38.chr5_KI270796v1_alt     66434 17 +    172708 atatctg---gcactattct
s panTro5.chr5             125176540 17 + 181907262 atatctg---gcactattct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126513570 17 + 183735486 atatctg---gcactattct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1704959 17 +   8933513 ataTCTg---gcactattct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139835782 17 + 163208435 atatctg---gcactattct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122825129 17 + 180051392 ataTCTg---gcactatgct
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124248784 17 + 181584905 ataTCTg---gcactatgct
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16246652 17 +  18395747 ataTCTg---gcactatgct
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5258715 17 +  26952557 ataTCTg---gcactatgct
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28360517 17 +  82825804 ataTCTg---gcactattct
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4027331 17 -   4237731 ataTCTg---gcactatgct
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      298020 17 -   1175262 ATATCTg---gcactattct
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123642219 17 - 204313951 gtgtcag---gcactactct
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55687060 17 -  71252344 gtgtcag---gcactactct
i saiBol1.JH378106         I 1 C 0
s aotNan1.NW_018505940v1    13188440 17 -  42888418 gtgtcag---gcactactct
i aotNan1.NW_018505940v1   I 9 C 0
s otoGar3.GL873679           3059378 17 +   4132165 GGGTCAG---GCGCTGCTGC
i otoGar3.GL873679         I 15 C 0
s mm10.chr18                55504480 20 +  90702639 GTTACTGTGTGCTCTGTATT
i mm10.chr18               C 0 I 2
s canFam3.chr11             14905444 17 +  74389097 gtgtcag---acactgttgt
i canFam3.chr11            I 24 C 0
s dasNov3.JH567306           2615128 17 +   3667625 ttatcca---cctatattgt
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e proCoq1.NW_012155062v1     3571441 28 +  11683526 I
e cebCap1.NW_016107829v1     1391076 27 -   1400280 I

a score=99608.000000
s hg38.chr5_KI270796v1_alt     66451  9 +    172708 -----------------aagtgcttt
s panTro5.chr5             125176557  9 + 181907262 -----------------aagtgcttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126513587  9 + 183735486 -----------------aagtgcttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1704976  9 +   8933513 -----------------aagtgcttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139835799  9 + 163208435 -----------------aagtgcttt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122825146  9 + 180051392 -----------------aagtgcttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124248801  9 + 181584905 -----------------aagtgcttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16246669  9 +  18395747 -----------------aagtgcttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5258732  9 +  26952557 -----------------aagtgcttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28360534  9 +  82825804 -----------------aagtgcttt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4027348  9 -   4237731 -----------------aagtgcttt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      298037  9 -   1175262 -----------------aagcgcttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123642236  9 - 204313951 -----------------gagtgcttt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55687077  9 -  71252344 -----------------aagagcttt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1391103  9 -   1400280 -----------------aagtgcttt
i cebCap1.NW_016107829v1   I 27 C 0
s aotNan1.NW_018505940v1    13188457  9 -  42888418 -----------------aagtgcttt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3059395  9 +   4132165 -----------------AGGTGCAGG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55504502  9 +  90702639 -----------------GAGTGTTTT
i mm10.chr18               I 2 C 0
s canFam3.chr11             14905461  9 +  74389097 -----------------aagtatcca
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2615145 26 +   3667625 atttcctatttgtcaggcagttctat
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e proCoq1.NW_012155062v1     3571441 28 +  11683526 I

a score=1246073.000000
s hg38.chr5_KI270796v1_alt     66460 102 +    172708 --------------gcatataatacacttcacctttacaacat-------ccctgtgaggctggaactttta-ttatcccactctaca--gaacaccgagtcactg--agaggttaggcaacttgccc
s panTro5.chr5             125176566 102 + 181907262 --------------gcatataatacacttcacctttacaacat-------ccctgtgaggctggaactttta-ttatcccactctaca--gaacaccgagtcactg--agaggttaggcaacttgccc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126513596 102 + 183735486 --------------gcatataatacacttcacctttacaacat-------ccctgtgaggctggaactttta-ttatcccactctaca--gaacaccgagtcactg--agaggttaggcaacttgccc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1704985 102 +   8933513 --------------gcatataatacacttcacctttacaacat-------ccctgtgaggctggaactttta-ttattccactctaca--gaacaccgagtcactg--agaggttgggcaacttgccc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139835808 102 + 163208435 --------------gcatatagtacatttcacctttacaatat-------ccctgtgaggctggaactttta-ttatcccactgtaca--gaacaccgagtcactg--agaggttaggcaacttgccc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122825155 102 + 180051392 --------------gcatataatacacttcacctttacaacat-------ccctgtgaggctggaactttta-ttatcctactataca--gaacaccaaatcactg--agaggttaggcaacttgccc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124248810 102 + 181584905 --------------gcatataatacacttcacctttacaacat-------ccctgtgaggctggaactttta-ttatcctactgtaca--gaacaccaaatcactg--agaggttaggcaacttgccc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16246678 102 +  18395747 --------------gcatataatacacttcacctttacaacat-------ccctgtgaggctggaactttta-ttatcctactgtaca--gaacaccaaatcactg--agaggttaggcaacttgccc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5258741 102 +  26952557 --------------gcatataatacacttcacctttacaatat-------ccctgtgaggctggaactttta-ttatcctactgtaca--gaacaccgagtcactg--agaggttaggcaacttgccc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28360543 102 +  82825804 --------------gcatataatacacttcacctttacaacat-------ccctgtggggctggaactttta-ttatcctactgtaca--gaacaccgagtcactg--agaagttaggcaacttgccc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4027357 102 -   4237731 --------------gcatataatacacttcacctttacaatat-------ccctgtgaggctggaactttta-ttatcctactgtaca--gaacaccgagtcactg--agaggttaggcaacttgccc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      298046  92 -   1175262 --------------gcatataatacatttcacctttacaacat-------ccctgtgaggctgtacctctca-----------gtaca--gaacactgagtcactg--agaggttaggcaacttgccc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123642245 102 - 204313951 --------------gcgtataatacacttcacctttgcaacat-------cccggtgaggctggaactttta-ttatctcactgtacc--gaaccctgagtcactg--agaggttaggcagcttgccc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55687086 102 -  71252344 --------------gcatataatacacttcacctttacaacat-------ccctgtgagactggaactttta-ttatcccaccgtaca--gagcactgagtcactg--agaggttaggcagcttgccc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1391112 102 -   1400280 --------------gcttataatacacttcacctttacaacat-------ccctgtgaggctggaactctta-ttatctcgctgtaca--gaacactgagtcactg--agaggttaggcagcttgcct
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13188466  83 -  42888418 --------------gcatataatacacttcacctttacaacat-------ccctgtgaggctgga--------------------aca--gaacactgagtcactg--agaggttagggggcttgccc
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3571469 104 +  11683526 --------------gcacatagtacacttaaccttcccaacat-------ctccatgaggctggaactttta-ttatcccaccgggcgaagaacaatgaggcactg--agaggtcaggcaacttgccc
i proCoq1.NW_012155062v1   I 28 C 0
s otoGar3.GL873679           3059404  58 +   4132165 --------------GCATATAATACACTAAACCTTCCCAACGT-------CACCATGAGGCTG---------------------------ACACACCGAGGCGCTG----------------------
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55504511  98 +  90702639 --------------ATAAATAAAATGCATCGCCTTCCCAGCAG-------CCCCACGAGGCTGGATCTTCAT-AACTCCAGGTCCAGA--GAACATC----CTTTG--AGATATTGGACGACTTGCTC
i mm10.chr18               C 0 I 1207
s canFam3.chr11             14905470 113 +  74389097 --------------gcatataacacatttatatattataatatttcacacccccataaggttggaacttttatttatcccaccgtatagggagtactgaggcaatggcaatagtcgggtgattttct-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2615171 118 +   3667625 atttaaccttaatattatattctgtagttaacctctgcaacat-------ccccatgagtttggaacctaca-ttatcccagtttgcagagaatactgaggcattg--agaggttagttgacttgccc
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I

a score=1091619.000000
s hg38.chr5_KI270796v1_alt     66562 82 +    172708 agggtcctagagatggtaagtcgcagagctgagattc--AGTTTGTACTCATTTGACTGCCACTAACCT-----------TGGGTGATGGCGAGA
s panTro5.chr5             125176668 82 + 181907262 agggtcctagagatggtaagtcgcagagctgagattc--AGTTTGTACTCATTTGACTGCCACTAACCT-----------TGGGTGATGGCGAGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126513698 82 + 183735486 agggtcctagagatggtaagtcgcagagctgagattc--AGTTTGTACTCATTTGACTGCCACTAACCT-----------TGGGTGATGGCGAGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1705087 82 +   8933513 agggtcctagagatggtaagtggcagagctgagattc--AGTTTGTACTCATTTGACTGCCACTAACCT-----------TGGGTGATGGCGAGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139835910 82 + 163208435 agggtcctagagatggtaagtggcagagctgagattc--AGTTTGTACTCATTTGACTGCCACTAACCT-----------TGGGTGATGGAGAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122825257 82 + 180051392 agggtcttagagatggtaagtggcagagctgagattG--AGTTTGTATTCATTTGACTGCCACTGACTT-----------TGGGTGATGGAGAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124248912 82 + 181584905 agggtcttagagatggtaagtggcagagctgagattG--AGTTTGTATTCATTTGACTGCCACTGACTT-----------TGGGTGATGGAGAGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16246780 82 +  18395747 agggtcttagagatggtaagtggcagagctgagattG--AGTTTGTATTCATTTGACTGCCACTGACTT-----------TGGGTGATGGAGAGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5258843 82 +  26952557 agggtcttagagatggtaagtggcagagctgagattG--AGTTTGTATTCATTTGACTGCCACTGACTT-----------TGGGTGATGGAGAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28360645 82 +  82825804 agggtcttagagatggtaagtggcagagctgagattc--AGTTTGTACTCATTTGACTGCCACTGACTT-----------TGGGTGATGGAGACA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4027459 82 -   4237731 agggtcttagagatgggaagtggcagagctgagattG--AGTTTGTATTCATTTGACTGCCACTGACTT-----------TGGGTGATGGAGAGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      298138 82 -   1175262 agggtcttagagatggtaagtggcagagctgagattG--AGTTTGTACTCATTTGACTGCCACTAACTT-----------TGGGTGATGGAGAGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123642347 82 - 204313951 agggtcttagagatggtgagtggcagagctgagattc--AGTTTGTACTCATTTTACTGCCACTAACCT-----------TGGGTGATAGAGAGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55687188 82 -  71252344 agggtcctagagatggtaagtggcagagctgagattc--AGTTTGTACTCATTTTACTGCCACTAACCT-----------TGGGTGATGGAGAGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1391214 82 -   1400280 agggttctagagatggtgagtggcagagctgagattc--gGTTTGTGCTCATTTTACTGCCACTAACCT-----------TGGGTGATGGAGAGA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13188549 82 -  42888418 agggtcctagagatggtgagtggcagagctgagattc--AGTTTGTACTCATTTCACCGCCACTAACCT-----------TGGGTGATGGAGAGA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3571573 82 +  11683526 aaggtcctagaggtggtcagtggcagagctgagattc--AGTCTGTTCTCATTTGACTGTCACTAACCT-----------TGGGTGATGGAGAGA
i proCoq1.NW_012155062v1   C 0 I 98
s otoGar3.GL873679           3059462 73 +   4132165 -AGGTCCTCGGTGTGGTAAGGGATAGAGCTGAGATTC--AGTCTGTACTCACTTGACTGCCACTGAGCT-----------TGGGTGA--------
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14905583 81 +  74389097 --ggtcccagaggtggtgggtggcaaagccaggattcaaagtctgtgctcaa-tgactgtcacgagccc-----------ttggtcATGGAGAGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2615289 70 +   3667625 ---------aagacaacatgtaa----------------agtctgacctcatttgagtgccactaaacctattgtatgaatatgtgatggagaga
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e mm10.chr18                55504609 1207 +  90702639 I

a score=992051.000000
s hg38.chr5_KI270796v1_alt     66644 80 +    172708 AGTAGACCTCAGAG---GA------------T-------------AGAGAAACTTTCAATTGCTGTCATGCCCAGCTG-----CAAATAAACTTC---AA-AAAAGTCACCACCATC
s panTro5.chr5             125176750 80 + 181907262 AGTAGACCTCAGAG---GA------------C-------------AGAGAAACTTTCAATTGCTGTCATGCCCAGCTA-----CAAATAAACTTC---AA-AAAAGTCACCACCATC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126513780 80 + 183735486 AGTAGACCTCAGAG---GA------------T-------------AGAGAAACTTTCAATTGCTGTCATGCCCAGCTA-----CAAATAAACTTC---AA-AAAAGTCACCACCATC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1705169 80 +   8933513 AGTAGACCTCAGAG---GA------------T-------------AGACAAACTTTCAATTGCTGTCATGCCCAGCTA-----CAAATAAACTTC---AA-AAAAGTCACCACCATC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139835992 80 + 163208435 AGTATACCTCAGAG---GA------------T-------------AGAGAAACTTTCAATTGCTGTCATGCCCAGCTA-----CAAAAAAACTTC---AA-AAAAGTCACCACCATC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122825339 80 + 180051392 AGTATACCTCAGAG---GA------------T-------------AGAGAAACTTTCAATTGCTGTCATGCCCAGCTA-----CAAATAAACTTC---AA-AAAAATCACCACCATC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124248994 80 + 181584905 AGTATACCTCAGAG---GA------------T-------------AGAGAAACTTTCAATTGCTGTCATGCCCAGCTA-----CAAATAAACTTC---AA-AAAAATCACCACCATC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16246862 80 +  18395747 AGTATACCTCAGAG---GA------------T-------------AGAGAAACTTTCAATTGCTGTCATGCCCAGCTA-----CAAATAAACTTC---AA-AAAAATCACCACCATC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5258925 80 +  26952557 AGTATACCTCAGAG---GA------------T-------------AGAGAAACTTTCAATTGCTGTCATGCCCAGCTA-----CAAATAAACTTC---AA-AAAAATCACCACCATC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28360727 80 +  82825804 AGTATACCTCAGAG---GA------------T-------------AGAGAAACTTTCAATTGCTATCACGCCCAGCTA-----CAAATAAACTTC---AA-AAAAATCACCACCATC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4027541 80 -   4237731 AGTATACCTCAGAG---GA------------T-------------AGAGAAACTTTCAATTGCTGTCATGCCCAGCTA-----CAAATAAACTTC---AA-AAAAATCACCACCATC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      298220 80 -   1175262 AGTATACCTCAGAG---GA------------T-------------AGAGAAACTTTCAATTGCTGTCATGCCCAGCTA-----CAAATAAACTTC---AA-AAAAATCACCACCATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123642429 80 - 204313951 AGTATACCTCAGAG---GA------------T-------------AGAGAAACTTTCAATTGCTGTCCTGCCCAGCTA-----CAAATAAACTTC---AA-AAAAATCACCACCATC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55687270 82 -  71252344 AGTATACCTCAGAG---GA------------T-------------AG-GGAACTTTCAATTGCTGTCATGCCCAGCTA-----CAAATAAACTTCAAAAA-AAAAATCACCACCATC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1391296 81 -   1400280 AGTGCACCTCAGAG---GA------------T-------------AGAGAAACTTTCAATTGCTGTCATGCCCAGCTA-----CAAATAAACTTC--AAA-AAAAATCACCACCATC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13188631 81 -  42888418 AGTATACCTCAGAG---GA------------T-------------AGAGAATCTTTCAATTGCTGTCATGCCCAGCTA-----CAAATAAACTTC--AAA-AAAAATCACCATCATC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3059535 93 +   4132165 AACACCCCTCAGAG---GA------------C-AACTACTTAACGAGAGACGCTTCTGATTGCTGTCGAGCTCAGCAACAGCCCAAATCAACATC---AGCAAAAATCACTA-----
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14905664 92 +  74389097 ACCATACCTCAGAGTTCGA------------TAAACTGCCT----AGAGAAAATTTCAGTTGCTGTGGAGCCCAGCTA-----CAGATAAACTTT---AACAAACATCACTACCAT-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2615359 92 +   3667625 -atcctactcagAG---GGAGACGAATTAACT-------------AGAGAAGCTTTCAATTGCTGTTGAGCCCAGCTA-----CAAATAAACTTC---AACAAAAATCACCACCATC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e proCoq1.NW_012155062v1     3571655 98 +  11683526 I
e mm10.chr18                55504609 1207 +  90702639 I

a score=178985.000000
s hg38.chr5_KI270796v1_alt     66724 15 +    172708 TGATAATGTACTTCC
s panTro5.chr5             125176830 15 + 181907262 TGATAATGTACTTCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126513860 15 + 183735486 TGATAATGTACTTCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1705249 15 +   8933513 TGATAATGTACTTCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139836072 15 + 163208435 TGATAATGTACTTTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122825419 15 + 180051392 TGATACTGTACTTCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124249074 15 + 181584905 TGATACTGTACTTCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16246942 15 +  18395747 TGATACTGTACTTCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5259005 15 +  26952557 TGATACTGTACTTCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28360807 15 +  82825804 TGATACTGTACTTCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4027621 15 -   4237731 TGATACTGTACTTCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      298300 15 -   1175262 TGATAATGTACTTCC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123642509 15 - 204313951 TGATAATGTACTTCC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55687352 15 -  71252344 TGATAATGTACTTCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1391377 15 -   1400280 TGATAATGTACTTTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13188712 15 -  42888418 TGATAATGTACTTCC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3571753 14 +  11683526 TGATAATTTACTT-C
i proCoq1.NW_012155062v1   I 98 C 0
s otoGar3.GL873679           3059628 12 +   4132165 --ATAGTTAATTG-C
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14905756 14 +  74389097 TGATTATTTACTT-C
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2615451 15 +   3667625 TGATTATTTATTTCC
i dasNov3.JH567306         C 0 I 110
e micMur3.chr12             60530325 724 + 108143057 I
e mm10.chr18                55504609 1207 +  90702639 I

a score=1231664.000000
s hg38.chr5_KI270796v1_alt     66739  99 +    172708 TATGTAGGATAAT-----------------------------------------------------------------------------------------TTCTGCAGAGTGTGTCCAGATTCTTAGCAGACCTGTGATAATATTAATACCTTGTTC-TAAGTATCCAGTTTTCTCCTTAGGGCTGG
s panTro5.chr5             125176845  99 + 181907262 TATGTAGGATAAT-----------------------------------------------------------------------------------------TTCTGCAGAGTGTGTCCAGATTCTTAGCAGACCTGTGATAATATTAATACCTTGTTC-TAAGTATTCAGTTTTCTCCTTAGGGCTGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126513875  99 + 183735486 TATGTAGGATAAT-----------------------------------------------------------------------------------------TTCTGCAGAGTGTGTCCAGATTCTTAGCAGACCTGTGATAATATTAATACCTTGTTC-TAAGTATTCAGTTTTCTCCTTAGGGCTGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1705264  99 +   8933513 TATGTAGGATAAT-----------------------------------------------------------------------------------------TTCTGCAGAGTGTGTCCAGATTCTTAGCAGACCTGTAATAATATTAATACCTTGTTC-TAAGTATTCAGTTTTCTCCTTAGGTCTGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139836087  99 + 163208435 TATATAGGATAAT-----------------------------------------------------------------------------------------TTCTGCAGAGTGTGTCCAGATTCTTAGCAGACCTGTGATAATATTAATACCTTGTTC-TAAGTATTCAGTTTTCTCCTTAGGGCTGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122825434  99 + 180051392 TATGTAGGATAAT-----------------------------------------------------------------------------------------TTCTGCAGAGTGAGTCCAGATTCTTAGCAGACCTGTGATAATATTAATACCTTGTTC-TAAGTATTCCGTTTTCTCCTTAGGGCTGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124249089  99 + 181584905 TATGGAGGATAAT-----------------------------------------------------------------------------------------TTCTGCAGAGTGAGTCCAGATTCTTAGCAGACCTGTGATAATATTAATACCTTGTTC-TAAGTATTCAGTTTTCTCCTTAGGGCTGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16246957  99 +  18395747 TATGTAGGATAAT-----------------------------------------------------------------------------------------TTCTGCAGAGTGAGTCCAGATTCTTAGCAGACCTGTGATAATATTAATACCTTGTTC-TAAGTATTCAGTTTTCTCCTTAGGGCTGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5259020  99 +  26952557 TATGTAGGATAAT-----------------------------------------------------------------------------------------TTCTGCAGAGTGAGTCTAGATTCTTAGCAGACCTGTGATAATATTAATACCTTGTTC-TAAGTATTCAGTTTTCTCCTTAGGGCTGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28360822  99 +  82825804 TATGTAGGATAAT-----------------------------------------------------------------------------------------TTCTGCAGAGTGAGTCCAGATTCTTAGTAGACCTGTGATAATATTAATACCTTGTTC-TAAGTATTCAGTTTTCTCCTTAGGGCTGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4027636  99 -   4237731 CATGTAGGATAAT-----------------------------------------------------------------------------------------TTCTGCAGAGTGAGTCTAGATTCTTAGCAGACCTGTGATAATATTAATACTTTGTTC-TAAGTATTCAGTTTTCTCCTTAGGGCTGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      298315  99 -   1175262 TATGTAGGATAAT-----------------------------------------------------------------------------------------TTCTGCAGAGTGAGTCCAGATTCTTAGCAGACCTGTGATCATACTAATACCTTGTTC-TAAGTATTCAGTTTTCTCCTTAGGGCTGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123642524  99 - 204313951 TATGGAGAATAAT-----------------------------------------------------------------------------------------TTCTGCAGAGTGAGTCTAGAATCTTAGCAGACCTGTAATAATATTAATACCTTTTCC-TAAATATTGAGTTTTCTCCTTAGGGCTGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55687367  99 -  71252344 TATGGAGAGAAAT-----------------------------------------------------------------------------------------TTCTGCAGAGTGAGTCTAGATTCTTAGCAGACCCATAATAATATTAATACCTTTTCT-TAAATATTGAGTTTTCTTCTTAGGGCTGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1391392  99 -   1400280 TATGGAGAATAAT-----------------------------------------------------------------------------------------TTCTGCAGAGTGAGCCTAGATTCTTAGCAGACCTGTAATAATATTAATACCTTTTCC-TAAATATTGAGTTTTCTTCTTAGGACAGA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13188727  99 -  42888418 TATGGAGAATAAT-----------------------------------------------------------------------------------------TTCTGCAGAGTGAGTCTAGATTCTTAGCAGACCTGTAATAATATTAATACCTTTTCC-TAAATATTGAGTTTTCTTCTTAGGGCTGG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3571767  94 +  11683526 TATCTAGGAAAAT-----------------------------------------------------------------------------------------TTCTGCAGGGTCAGTCCAGATTCTTAGCAGACTTT-----GTGATAATATCTTGTCC-TAAGTATCCAGTTTCCTCCTCGGGGCTGG
i proCoq1.NW_012155062v1   C 0 I 531
s otoGar3.GL873679           3059640  94 +   4132165 TATCTAGGAAAAT-----------------------------------------------------------------------------------------GTCTACAGGGTCAGTCCAGACTCTTGGCAAACTTG-----GTCATAATAACTTGCCC-TGAATATCCATTCTCCTCCTCGGGGCTGG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14905770  95 +  74389097 TATTTAGGATGAT-----------------------------------------------------------------------------------------TTCCAAGAGATGAGTTCAGATTCTTATCAGACCTT-----GTAATGATAGCTTGCCCTTAAGTATCCATGTTTCTTCTCAGGGCTGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2615576 182 +   3667625 tacacagtataatgtggatttagcaaggggtctgtggttttcacttgactggcaaaggaatccgtggaataaaaaatttaagaaaccccgATCAAGGACATGTTTTGAAAGGTTATTCTAGATTCCCAGCAATCTTGTAACACTAT------CTTGTAC-TGAGAATCCATTTTTCTTCTCAGGATTGG
i dasNov3.JH567306         I 110 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e mm10.chr18                55504609 1207 +  90702639 I

a score=3552764.000000
s hg38.chr5_KI270796v1_alt     66838 318 +    172708 ATTCACTCGTGGAGGATTGATGAGA---------------------------------------------------------------------------------GAGTGGGAG--A--------A-------------------------------------------------------TATTGCA------------------------------------------------CCTAAGCTCT-GTT----TTTTCTTTCCTCTAATTTAGATATATGCAGATCTCAAA------------------------GTCTCTGACAATCAAGGCTCTGTTCCTACATAGGGCTTATGGGAAAGAATCGCACA-CCAGAACAAGATC--CTTTTCACTGGAAGGATCGCTTGTCGGGGAGGCGAAG-------GGGGAAAGACATGGTAATGCCTGTTTGTTTGACTTCTCTC-AGCCCCTTCTTTGGAGCAGTTTTGAATTTTTTGGCTCGGCTGCCC-----CATCACAGGCAGATGTTTGAAGCTCTTGTGCTC
s panTro5.chr5             125176944 318 + 181907262 GTTCACTCGTGGAGGACTGATGAGA---------------------------------------------------------------------------------GAGTGGGAG--A--------A-------------------------------------------------------TATTGCA------------------------------------------------CCTAAGCTCT-GTT----TTTTCTTTCCTCTAATTTAGATATATGCAGATCTCAAA------------------------GTCTCTGACAATCAAGGCTCTGTTCCTACATAGGGCTTATGGGAAAGAATCGCACA-CCAGAACAAGATC--CTTTTCACTGGAAGGATCGCTTGTCGGGGAGGCGAAG-------GGGGAAAGACATGGTAATGCCTGTTTGTTTGACTTCTCTC-AGCCCCTTCTTTGGAGCAGTTTTGAATTTTTTGGCTCGGCTGCCC-----CATCACAGGCAGATGTTTGAAGCTCTTGTGCTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126513974 318 + 183735486 GTTCACTCGTGGAGGACTGATGAGA---------------------------------------------------------------------------------GAGTGGGAG--A--------A-------------------------------------------------------TATTGCA------------------------------------------------CCTAAGCTCT-GTT----TTTTCTTTCCTCTAATTTAGATATATGCAGATCTCAAA------------------------GTCTCTGACAATCAAGGCTCTGTTCCTACATAGGGCTTATGGGAAAGAATCGCACA-CCAGAACAAGATC--CTTTTCACTGGAAGGATCGCTTGTCGGGGAGGCGAAG-------GGGGAAAGACATGGTAATGCCTGTTTGTTTGACTTCTCTC-AGCCCCTTCTTTGGAGCAGTTTTGAATTTTTTGGCTCGGCTGCCC-----CATCACAGGCAGATGTTTGAAGCTCTTGTGCTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1705363 318 +   8933513 GTTCACTCGTGGAGGACTGATGAGA---------------------------------------------------------------------------------GAGTGGGAG--A--------A-------------------------------------------------------TATTGCA------------------------------------------------CCTAAGCTCT-GTT----TTTTCTTTCCTCTAATTTAGATATATGCAGATCTCAAA------------------------GTCTCTGACAATCAAGGCTCTGTTCCTACATAGGGCTTATGGGAAAGAATCGCACA-CCAGAACAAGATC--CTTTTCACTGGAAGGATCGCTTGTCGGGGAGGCGAAG-------GGGGAAAGACATGGTAATGCCTGTTTGTTTGACTTCTCCC-AACCCCTTCTTTGGAGCAGTTTTGAATTTTTTGGCTCGGCTGCCC-----CATCACAGGCAGATGTTTGAAGCTCTTGTGCTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139836186 319 + 163208435 GTTCACTCATGGAGGACTGATGAGA---------------------------------------------------------------------------------GAGTGGGAG--A--------A-------------------------------------------------------TATTGCA------------------------------------------------CCTAAGCTCT-GTT----TTTTCTTTCCTCTAATTTAGATATATGCAGATCTCAAA------------------------GTCTCTGAAAATCAAGGCTCCGTTTCTACATAGGGCTTATGGGAAAGAATCACACACCCAGAACAAGATC--CTTTTCACTGGAAGGATCATTTGTCGGGGAGGTGAAG-------GGGGAAAGACATGGTAATGCCTATTTGTTTGACTTCTCCC-AGCCCCTTCTTTGGAGCAGTTTTGAATTTCTTGGCTCAGCTGCCC-----CATCAAAGGCAGATGTTTGAAGCTCTTGTGTTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122825533 324 + 180051392 GTTCACTCGTGGAGGACTCATGAGA---------------------------------------------------------------------------------GAGTGGGAG--A--------A-------------------------------------------------------TGTTGCA------------------------------------------------CCTAAGCTCT-GTT----TTTTCTTTCCTCTAATTTAGATATATACAGATCTCAAA------------------------GTCTCTGACAATCAAGGCTCTGTTTCTACATAGGGCTTATAGGAAATAATCACGCCCCCAGAACAAGATC--GTTTTTACTGGAAGGATCACTCGTCAGGGAGGCGAAG-------GGGGAAAGGTATGGTAAGGCCTGTTTGTTTGACTTCTCCC-AGCCCCTTCTTTGGAGCAGTTTTGAATTTCCTGGCTTGGCTGCCTCATCACATCACAGGCAGATGTTTGAAGCTCTTGTGCTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124249188 319 + 181584905 GTTCACTCGTGGAGGACTCATGAGA---------------------------------------------------------------------------------GAGTGGGAG--A--------A-------------------------------------------------------TGTTGCA------------------------------------------------CCTAAGCTCT-GTT----TTTTCTTTCCTCTAATTTAGATATATACAGATCTCAAA------------------------GTCTCTGACAATCAAGGCTCTGTTTCTACATAGGGCTTATGGGAAATAATCACGCCCCCAGAACAAGATC--GTTTTTACTGGAAGGATCACTCGTCAGGGAGGCGAAG-------GGGGAAAGGTATGGTAAGGCCTGTTTGTTTGACTTCTCCC-AGCCCCTTCTTTGGAGCAGTTTTGAATTTCCTGGCTTGGCTGCCC-----CATCACAGGCAGATGTTTGAAGCTCTTGTGCTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16247056 319 +  18395747 GTTCACTCGTGGAGGACTCATGAGA---------------------------------------------------------------------------------GAGTGGGAG--A--------A-------------------------------------------------------TGTTGCA------------------------------------------------CCTAAGCTCT-GTT----TTTTCTTTCCTCTAATTTAGATATATACAGATCTCAAA------------------------GTCTCTGACAATCAAGGCTCTGTTTCTACATAGGGCTTATGGGAAATAATCACGCCCCCAGAACAAGATC--GTTTTTACTGGAAGGATCACTCATCAGGGAGGCGAAG-------GGGGAAAGGTATGGTAAGGCCTGTTTGTTTGACTTCTCCC-AGCCCCTTCTTTGGAGCAGTTTTGAATTTCCTGGCTTGGCTGCCC-----CATCACAGGCAGATGTTTGAAGCTCTTGTGCTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5259119 320 +  26952557 GTTCACTCGTGGAGGACTCATGAGA---------------------------------------------------------------------------------GAGTGGGAG--A--------A-------------------------------------------------------TGTTGCA------------------------------------------------CCTAAGCTCT-GTT----TTTTCTTTCCTCTAATTTAGATATATACAGATCTCAAA------------------------GTCTCTGACAATCAAGGCTCTGTTTCTACATAGGGCTTATGGGAAATAATCGTGCCCCCAGAACAAGATC--GTTTTTACTGGAAGGATCACTCGTCAGGGAGGCGAAG-------GGGGAAAGGTATGGTAAGACCTGTTTGTTTGACTTCTCCCAAGCCCCTTCTTTGGAGCAGTTTTGAATTTCCTGGCTTGGCTGCCC-----CATCACAGGCAGATGTTTGAAGCTCTTGTGCTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28360921 319 +  82825804 GTTCACTCGTGGAGGACTCATGAGA---------------------------------------------------------------------------------GAGTGGGAG--A--------A-------------------------------------------------------TGTTGCA------------------------------------------------CCTAAGCTCT-GTT----TTTTCTTTCCTCTAATTTAGATATATACAGATCTCAAA------------------------GTCTCTGACAATCAAGGCTCTGTTTCTACATAGGACTTATGGGAAATAATCACGCCCCCAGAACAAGATC--CTTTTTACTGGAAGGATCACTTGTCAGGGAGGCGAAG-------GGGGAAAGGTATGGTAAGGCCTGTTTGTTTGACTTCTCCC-AGCCCCTTCTTTGGAGCAGTTTTGAATTTCCTGGCTCGGCTGCCC-----CATCACAGGCAGATGTTTGAAGCTCTTGTGCTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4027735 319 -   4237731 GTTCACTCGTGGAGGACTCATGAGA---------------------------------------------------------------------------------GAGTGGGAG--A--------A-------------------------------------------------------TGTTGCA------------------------------------------------CCTAAGCTCT-GTT----TTTTCTTTCCTCTAATTTAGATATATACAGATCTCAAA------------------------GTCTCTGACAATCAAGGCTCTGTTTCCACATAGGGCTTATGGGAAATAATCACGCCCCCAGAACAAGATT--GTTTTTACTGGAAGGATCACTCGTCAGGGAGGCGAAG-------GGGGAAAGGTATGGTAAGGCCTGTTTGTTTGACTTCTCCC-AGCCCCTTCTTTGGAGCAGTTTTGAATTTCCTGGCTTGGCTGCCC-----CATCACAGGCAGATGTTTGAAGCTCTTGTGCTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      298414 319 -   1175262 GTTCGCTCATGGAGGACTCATGAGA---------------------------------------------------------------------------------GAGTGGGAG--A--------A-------------------------------------------------------TGTTGCA------------------------------------------------CCTAAGCTCT-GTT----TTTTCTTTCCTCTAATTTAGATATATACAGATCTCAAA------------------------GTCTCTGACAATCAAGGCTCTGTTTCTACATAGGGCTTATGGGAAATAATCACGCCCCCAGAACAAGATC--CTTTTTACTGGAAGGATCACTTGTCAGGGAGGCGAAG-------GGGGAAAGGCATGGTAAGGCCTGTTTGTTTGACTTCTCCC-AGCCCCTTCTTTGGAGCAGTTTTGAATTTCCTGGCTCAGCTGCCC-----CATCACAGGCAGATGTTTGAAGCTCTTGTACTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123642623 321 - 204313951 GTTCACTCATGGAGGACTGAT-------------------------------------------------------------------------------------GAGTGGGAG--A--------A-------------------------------------------------------TGTAGCA------------------------------------------------CCTAAGCTCT-GTT----GTTTCTTTCCTCTAACTTAGGTTTATGCAGATCTCAAA------------------------GTCTCTGACAATCATGTCTCTGTTTCTACGTAGGGCTTACGTGAAAGAATCACACACCCAGAACAAGATT--GTTTTTACTGGAAGGATCTCTTCCTGGGGAGGTGGAGGGGGAAAGGGGAAAGACATGGCAAGGCCTGTTTGTTTTA-TTCTCTC-AGCCCCCTCTTTGGAGCAGTTTTACATTTCCTGGCTCGGCTGCCC-----CATCACAGGCAGATGTTTGAAGCTCTTGTGCTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55687466 321 -  71252344 GTTCACTCATGGAGGACCAAT-------------------------------------------------------------------------------------GAATGGGAG--A--------A-------------------------------------------------------TGTAGCA------------------------------------------------CCTGAACTCT-GTT----TCTTCTTTCCTCTAACTTAGGTATATGCAGATCTCAAA------------------------GTCTCTGACAATAACGGCTCTGTTTCTACGTAGAGTTTACGTGAAAGAATCACACACCCAGAACAAGATC--CTTTTTACTGGAAGGATCTCTTGCTGGGGAGGCGGAGGCAGAAAGGGGAAAGACATGGCAAGGCCTGTTTGTTTTA-TTGTCTC-AGCCCCTTCTTTGGAGCAGTTTTGAACTTCCTGGCTCAGCTGCCC-----TATCACAGGCAGATGTTTGAAGCCCTTGTGCTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1391491 290 -   1400280 GTTCACTCAGGGAGGACTGAT-------------------------------------------------------------------------------------AAGTGGGAG--A--------A-------------------------------------------------------TGTAGCA------------------------------------------------CCTAAAC------------------------------------TGCAGATCTCAAA------------------------GTCTCTGACAATCACAGCTCTGTTTCTATGTAGGGCTTATGTGAAAGAATCACACACCCAGAACAAGATC--CTTTTTACTGGAAGGATCTCTTTCCGGGGAGGCGGAGGGGGAAAGGGGAAAGACATGGCAAGGCCTGTTTGTTTTC-TTCTCTC-AGCCCCTTCTTTGAAGCAGTTTTGAATTTCCTGGCTCGGCTGCCC-----CATCACAGGCAGATGTTTGAAGCTCTTGTGCTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13188826 321 -  42888418 GTTCACTCGTGGAGGACTGAT-------------------------------------------------------------------------------------GAGTGGGAG--A--------A-------------------------------------------------------TGTAGCA------------------------------------------------CCTAAACTCT-GTT----TTTTCTTTCCTCTAACTTAGGTATATGCAGATCTCAAA------------------------ATCTCTGACAATCGCGGCTCTGTTTCTACGTAGGGCTTATGTGAGAGAATCACACACCCAGAACAAGATC--CTTTTTACTGGAAGGATCTCTTGCCGAGGAGGTGGAGGGGGAAAGGGGAAAGACATGGCAAGGCCTGTTTGTTTTA-TTCTCTC-AGCCCCTTCTTTGGAGCAGTTTTGAATTTCCTGGCTCGGCTGCCC-----CATCACAGGCAGATGTTTGAAGCTCTTGTGCTC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3059734 332 +   4132165 --------AGGGAGGACTGATGAAA---------------------------------------------------------------------------------GAGTTGGGG--AGGAGGGGCA-------------------------------------------------------TGCAGCA------------------------------------------------TCTAAGTTCT-ATT----TTTTCTGTTTTCTAAATCAGATACGTCCCGGTCCCAACATTCTTTGCC-TCACCCAGCTTTTGTCTCCTGCAGTCAAGACTGTGTTTCTGCAT-----------GGCAGAATCCCACCCCCAGAACACAATCATTTTTTTCCAGAAAGGATCCCTTGTCAGGGAGGCTAC--------AGGGAAAAGTGTGGTAAGAACTGTTAGCTTTGCTTCTTGT-GGTCCCTTCTCTGGAGCAGGTTTGAATGTCCTGGTTCAGCTGCAC-----CAGCACAGGCAGGTGTCTGAAGCCCTTGTGCTC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14905865 524 +  74389097 ATTCGGTCTT--ACCACTGGTGAGAGTGGGGTATATAGCATCTCCATTCTTTTTTATTCTACTCtaattaattaattaattaattaattaCagagacagacagcatgagtgggag--g--------ggcagagggaaagggagagaggatcttaagcagactccaaagctaagggcaaagcctgatgcagggctcaactgaggaccctaagTTGAAATCGAGTCTGACCTTTAACTGCCCAAGTTATAGTT----GTTTCTTTCTTTTTTTTCTTTTAAACCCAGGCCCCAAAGTTCTCCACCATTACCTAGCTCTTGTCTTTGACAATCAAGGCTCTGTTTCTACAAATGGACTGCATGAAAGAATCACAC--CCAGAACAAGACT--TTTTTCAGTGGAAGGATCCCTGGCCTGGAAGGTGAAG-------GGAGGAGGGCATGGTTAGAGCTGTTTGTTTTACTTCCAGG-GGCCCCCTGTTTGGAGCGGTTTAGAATTTCCTGGCTGGGCTGCAC-----CACTGCAGGCAGATGTTCGAAGCCCTTGTGCTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2615758 329 +   3667625 ATTCATTAGTGGAGGACATGTGAGA---------------------------------------------------------------------------------GAAAGTCAGTCA--------T-------------------------------------------------------CACTGCA------------------------------------------------TCTGTGTTTT-ATTATTATTTTTTTTCTTTCAAGTTATGTATGTTCCCATCCCCAA-ATTCTCTGCCTTACCCAGCTCTTGTCCCTGACAATCAAGGCT--GTTTCTCCAAGTGGCTTGCATGAAAGAATAGC---CCCAGAATATGATC--CTTTTTACTGGAAGGATCCCTTGCTGGGAGGGCAGGG---------------------TAAGAACTGTTTGTTTTACTTCTCCT-GGCCCTCTTTCTAGAGCAGTTTTGAATTTCCTGGCTTGGCTGCAG-----CATCACAAGCAGATGTTTGAAGACCTTGTGCTC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e proCoq1.NW_012155062v1     3571861 531 +  11683526 I
e mm10.chr18                55504609 1207 +  90702639 I

a score=149424.000000
s hg38.chr5_KI270796v1_alt     67156 12 +    172708 CATGAAGGTGAA
s panTro5.chr5             125177262 12 + 181907262 CATGAAGGTGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126514292 12 + 183735486 CATGAAGGTGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1705681 12 +   8933513 CATGAAGGTGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139836505 12 + 163208435 CGTGAAGGTGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122825857 12 + 180051392 CGTGAAGGTGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124249507 12 + 181584905 CGTGAAGGTGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16247375 12 +  18395747 CGTGAAGGTGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5259439 12 +  26952557 CGTGAAGGTGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28361240 12 +  82825804 CGTGAAGGTGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4028054 12 -   4237731 CGTGAAGGTGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      298733 12 -   1175262 CGTGAAGGTAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123642944 12 - 204313951 CATGAAGGTGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55687787 12 -  71252344 CATGAAGGTGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1391781 12 -   1400280 CATGAAGGTGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13189147 12 -  42888418 CATGAAGGTGAA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3060066 12 +   4132165 CGTGGAGGTGAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14906389 11 +  74389097 CATGGAGGTGA-
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e proCoq1.NW_012155062v1     3571861 531 +  11683526 I
e dasNov3.JH567306           2616087  0 +   3667625 C
e mm10.chr18                55504609 1207 +  90702639 I

a score=363553.000000
s hg38.chr5_KI270796v1_alt     67168 58 +    172708 AGAAGCAGACAACTGCCTCTTTTGTTTCTCTTTGTTAAGT-Gt-tttt--------------------tttctgacagtc
s panTro5.chr5             125177274 58 + 181907262 AGAAGCAGACAACTGCCTCTTTTGTTTCTCTTTGTTAAGT-Gt-tttt--------------------tttctgacagtc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126514304 58 + 183735486 AGAAGCAGACAACTGCCTCTTTTGTTTCTCTTTGTTAAGT-Gt-tttt--------------------tttctgacagtc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1705693 57 +   8933513 AGAAACAGACAACTGCCTCTTTTGTTTCTCTTTGTTAAGT-G--tttt--------------------tttctgacagtc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139836517 54 + 163208435 AGAAGCAGACAACCGCCTCTTTTGTTTCTC-----TAAGt-ttctttt--------------------tttctgacagtc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122825869 78 + 180051392 AGAAGCAGACAACCGCCTATTTTGTTTCTCTTTTTTTAGG-tt-tttttgtttttgtttttgtttttttttctgacagtc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124249519 78 + 181584905 AGAAGCAGACAACCGCCTAttttgtttctctttttttagg-tt-tttttgtttttgtttttgtttttgtttctgacagtc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16247387 78 +  18395747 AGAAGCAGACAACCGCCTATTTTGTTTCTCTTTTTTTAGG-tt-tttttgtttttgtttttgtttttttttctgacagtc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5259451 77 +  26952557 AGAAGCAGACAACCGCCTATTTTGTTTCTCTTTTTTTAGG-tt-tttttgtttttgtttttgttttt-tttctgacagtc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28361252 77 +  82825804 AGAAGCAGACAACCGCCTATTTTGTTTCTCTTTTTTTAGG-tt-tttttgtttctgtttttg-ttttttttctgacagtc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4028066 79 -   4237731 AGAAGCAGACAACCGCCTATTTTGTTTCTCTTTTTTTAGGttt-tttttgtttttgtttttgtttttttttctgacagtc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      298745 68 -   1175262 AGAAGCAGACAACTGCCTATTTTGTTTCTCtttttttagg-tt-tttttgtttttgtt----------tttctgacagtc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123642956 55 - 204313951 AGAAGCAGACAACGACCTCTTTTGCTTCTCTTTTT---AA-AT-TAtt--------------------tttttgaaaggc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55687799 52 -  71252344 AGAAGCAGCCAACCACCTCTTTGG---CTCTTTTT---AA-tt-tttt--------------------tttttgaaagtc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1391793 56 -   1400280 AGAAGCAGACAACCACCTCTCTTGCttctcttttt--aaa-tt-tttt--------------------tttttgaaagtc
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13189159 55 -  42888418 AGAAGCAGACAAACACCTCttttgcttctcttttt---aa-tt-tttt--------------------tttttgaaggtc
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14906400 15 +  74389097 ---AGCTAACAAACAGCC--------------------------------------------------------------
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e proCoq1.NW_012155062v1     3571861 531 +  11683526 I
e otoGar3.GL873679           3060078  0 +   4132165 C
e dasNov3.JH567306           2616087  0 +   3667625 C
e mm10.chr18                55504609 1207 +  90702639 I

a score=1311453.000000
s hg38.chr5_KI270796v1_alt     67226 151 +    172708 tcactctgttgcccaggctagagtgcag----tggtaagatcttggctcactgcaaactctgcctcccaggttcaagggattctcttgcctccgcctcccgaatagctgggattacaggtgcgtg-----------------------------------ccactatgtccagctaatttttgtattttt
s panTro5.chr5             125177332 151 + 181907262 tcactctgttgcccaggctagagtgcag----tggtaagatcttggctcactgcaaactctgcctcccaggttcaagggattctcttgcctccgcctcccgaatagctgggattacaggtacgtg-----------------------------------ccactatgtccagctaatttttgtattttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126514362 151 + 183735486 tcactctgttgcccaggctagagtgcag----tggtaagatcttggctcactgcaaactctgcctcccaggttcaagggattctcttgcctccgcctcccgaatagctgggattacaggtacgtg-----------------------------------ccactatgtccagctaatttttgtattttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1705750 151 +   8933513 tcactctgttgcccaggctagagtgcag----tggtaagatcttggctcactgcaaactctgcctcccaggttcaagggattctcttgcctccgccttccgaatagctgggattacaggtgcgtg-----------------------------------ccactatgttcagctaatttttgtattttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139836571 151 + 163208435 tcactctgttgcccaggctagagtgcag----tggtaagatcttggctcgctgcaacctctgcctcccaggttcaagggattctcttgccgcagcctcccgaatagctgggattacaggtgcgtg-----------------------------------cccctatgtccagctaatttttgtattttt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122825947 150 + 180051392 tcactctgttgaccaggctagagtgcac----tggtaagatcttggctcactgcaacctccgcctcccaggttcaagggattttcctgcctcagtctcccaaatagctgggattacaggcgtgtg-----------------------------------ccagtatg-ccagctaatttttgtattttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124249597 150 + 181584905 tcactctgttgaccaggctagagtgcag----tggtaagatcttggctcactgcaacctccgcctcccaggttcaagggattttcctgcctcagtctcccaaatagctgggattacaggtgcgtg-----------------------------------ccagtatg-ccagctaatttttatattttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16247465 150 +  18395747 tcactctgttgaccaggctagagtgcac----tggtaagatcttggctcactgcaacctccgcctcccaggttcaagggattttcctgcctcagtctcccaaatagctgggattacaggcgcgtg-----------------------------------ccagtatg-ccagctaatttttgtattttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5259528 150 +  26952557 tcactctgttgaccaggctagagtgcgc----tggtaagatcttggctcactgcaacctccgcctcccaggttcaagggattttcctgcctcagtctcccaaatagctgggattacaggcgcgtg-----------------------------------ccagtatg-ccagctaatttttgtattttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28361329 150 +  82825804 tcactctgttgaccaggctagagttcag----tggtaagatcttggctcactgccacctccgcctcccaggttcaagggattttcctgcctcagtctcccaaacagctgggattccaggcgcatg-----------------------------------ccagtatg-ccagctaatttttgtattttt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4028145 150 -   4237731 tcactctgttgaccaggctagagtgcgc----tggtaagatcttggctcactgcaacctccgcctcccaggttcaagggattttcctgcctcagtctcccaaatagctgggattacaggcgcgtg-----------------------------------ccagtatg-ccagctaatttttgtattttt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      298813 151 -   1175262 tcactctgttgaccaggctggagtgcag----tggtaagatcttggctcactgcaacctccgcctcccaggttcaagggattctcctgcctcagtctcccaagtagctgggattacaggcgtgtg-----------------------------------ccactatgcccagctaatttttgtattttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123643011 180 - 204313951 tcactccgttgcccaggctggagtgcag----tggtgccatcttggctcactgaaa------cctcccaggttcaaaggactctcctgcctcagcctcccgagtagctaggatcacaggctactgtaatcagctactgtaatatagctgggattacaaaattactatgcccagctaatttttgtattttt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55687851 186 -  71252344 tcactccattgcccaggctggagtgcag----tggtaccatcttggctcactgaaacctccgcctcccaggttcaagggactttcctgcctcaacttcccgagtagctaggatcacaggctactgtaaccagctactgtaatatagctgggattacaaaattaccacacccagctaatttctgtattttt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1391849 186 -   1400280 tcattccattgcccagtctggagtgcag----tggtaccatcttggctcactgaaacctctgcctcccaggttcaagggactctcctgcctcaacttcccgagtagctaggatcacaggctactgtaaacagctactgtaatatagctgggattacaaaattactatgcccagctaatttctgtattttt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13189214 184 -  42888418 tcacttcattgcccagactggagtggagtgcatggtgccatcttggctcactgaaa------cctcccaggttcaaaggactctcctgcctcagcctcccaagtagctagcatcacaggctactgtaatcagctactgtaatatagctgggattacaaaattactatgcccagctaatttttgtattttt
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e canFam3.chr11             14906415   0 +  74389097 C
e proCoq1.NW_012155062v1     3571861 531 +  11683526 I
e otoGar3.GL873679           3060078   0 +   4132165 C
e dasNov3.JH567306           2616087   0 +   3667625 C
e mm10.chr18                55504609 1207 +  90702639 I

a score=673850.000000
s hg38.chr5_KI270796v1_alt     67377 74 +    172708 agtagagatgggattttgccacgttagccaggctggtctcgaactcctgaccttaggtgatcctcccacctcgg
s panTro5.chr5             125177483 74 + 181907262 agtagagatgggattttgccatgttagccaggctggtctcgaactcctgaccttaggtgatcctcccacctcgg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126514513 74 + 183735486 agtagagatgggattttgccatgttagccaggctggtctcgaactcctgaccttaggtgatcctcccacctcgg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1705901 74 +   8933513 agtagagatgggattttgccatgttagccaggctggtctcgaactcctgaccttaggtgatcctcccacctcgg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139836722 74 + 163208435 agtagagatttgatttcgccatgttagccatgctggtctcgaactcctgaccttaggtgatcctcccacctcgg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122826097 74 + 180051392 agtagagatggggtttcgccatgttagccaggctggtctgaaactcctggccttaggtgatcctcctgccttgg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124249747 74 + 181584905 agtagagatggggtttcgccatgttagccaggctggtctgaaactcctggccttaggtgatcctcctgccttgg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16247615 74 +  18395747 agtagagatggggtttcgccatgttagccaggctggtctgaaactcctggccttaggtgatcctcctgccttgg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5259678 74 +  26952557 agtagagatggggtttcgccatgttagccaggctggtctgaaactcctggccttaggtgatcctcctgccttgg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28361479 74 +  82825804 agtagagatggggtttcgccatgttagccaggctggtctgaaactcctggctttaggcgatcctcctgccttgg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4028295 74 -   4237731 agtagagatggggtttcgccatgttagccaggctggtctgaaactcctggccttaggtgatcctcctgccttgg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      298964 74 -   1175262 agtagagatgaggtttcgccatgttagccaggctggtctcaaactcctggccttaggtgatcctcctgccttgg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123643191 74 - 204313951 agtagagatggggtttcgccacattagccaggctggtctcaaactcctgacctcaggtcatccacccaccgcag
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55688037 68 -  71252344 agtagagatggagtttcaccacattagccaggctggtctcaaactcctaacctcaggtgatccgcccg------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1392035 74 -   1400280 agtagagatggggttttgccatgttagccaggctggtctcaaactcctgacctcaggtgatccgcccacctcag
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13189398 70 -  42888418 agtagagatggggtttcgccacgttagccaggctggtctcaaactcctgacctcaggtgatccacc----tcag
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2616087 24 +   3667625 AGTGGAGGTGAAA----------CTAGCAAA--------CAA--------------------------------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e canFam3.chr11             14906415  0 +  74389097 C
e proCoq1.NW_012155062v1     3571861 531 +  11683526 I
e otoGar3.GL873679           3060078  0 +   4132165 C
e mm10.chr18                55504609 1207 +  90702639 I

a score=450827.000000
s hg38.chr5_KI270796v1_alt     67451 53 +    172708 cctcccaaagggctgggattacaggtgtgagccactgcgcctggccTCTTACT
s panTro5.chr5             125177557 53 + 181907262 cctcccaaagtgctgggattacaggtgtgagccactgcgcctggccTCTTACT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126514587 53 + 183735486 cctcccaaagtgctgggattacaggtgtgagccactgcgcctggccTCTTACT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1705975 53 +   8933513 cctcccaaattgctgggattacaggtgtgagccactgtgcctggccTCTTACT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139836796 53 + 163208435 cctcccaaagtgctgggattataggtgtgagccactgcgcctggcTTCTTACT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122826171 53 + 180051392 cctcccaaagtgctgggattacaggtgtgagccactgcgcccagccTGTTACT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124249821 53 + 181584905 cctcccaaagtgctgggattacaggtgtgagccactgcgcccagccTGTTACT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16247689 53 +  18395747 cctcccaaagtgctgggattacaggtgtgagccactgcgcccagccTGTTACT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5259752 53 +  26952557 cctcccaaagtgctgggattacaggtgtgagccactgcgcccagccTGTTACT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28361553 53 +  82825804 cctcccaaagtgctgggattacaggtgtgagccactgcgcccagccTCTTACT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4028369 53 -   4237731 cctcccaaagtgctgggattacaggtgtgagccactgcgcccagccTGTTACT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      299038 53 -   1175262 cctcccgaagtgctgggattacaggtgtaagccactgcgcccagccTCTTACT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123643265 53 - 204313951 cctcccaaagtgctcagattacagacatgagccactgcgcccagccTCTTGCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55688105 50 -  71252344 ---cctaaagtgctcagattacagatgtgagccactgcacccagccTCTTGTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1392109 53 -   1400280 cctcccaaagtgctcagattacagacgtgagccactgcacccagccTCTTGCA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13189468 53 -  42888418 ccttccaaagtgctcagattacagacgtgagccactgcacccagccTCTTGCG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3060078 22 +   4132165 --------------------ATAGCTGCCAACTTCTGAG-----------GTT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14906415 13 +  74389097 CCTTCGAGAG-GCT---------------------------------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2616111 14 +   3667625 CCTCCTCAGAGGCT---------------------------------------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e proCoq1.NW_012155062v1     3571861 531 +  11683526 I
e mm10.chr18                55504609 1207 +  90702639 I

a score=2728935.000000
s hg38.chr5_KI270796v1_alt     67504 218 +    172708 TCTCTTTTTCACCAAGCTGATGGACAAGAGGCTGTGAACTTTGATATACCAAAGAATCATGGGGTATGTGAGGGTTGAAACTGCAGCAAACAGATGCCTTCT---TTATAGCT--GGAGA-GGCTGTGAGAAGAGAC---TGTCCTGT----------------GGGCAAGAACTCTGGATGTATGAGACAG-TGTGCCAAAACAGTTAACAGAAATTATG----AAGCAATTTCGATTTATGTTGCA
s panTro5.chr5             125177610 218 + 181907262 TCTCTTTTTCACCAAGTTGATGGACAAGAGGCTGTGAACTTTGATATACCAAAGAATCATGGGGTTTGTGAGGGTTGAAACTGCAGCAAACAGATGCCTTCT---TTATAGCT--GGAGA-GGCTGTGAGAGGAGAC---TGTCCTGT----------------GGGCAAGAACTCTGGATGTATGAGACAG-TGTGCCAAAACAGTTAACAGAAATTATG----AAGCAATTTCGATTTATGTTGCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126514640 218 + 183735486 TCTCTTTTTCACCAAGTTGATGGACAAGAGGCTGTGAACTTTGATATACCAAAGAATCATGGGGTTTGTGAGGGTTGAAACTGCAGCAAACAGATGCCTTCT---TTATAGCT--GGAGA-GGCTGTGAGAGGAGAC---TGTCCTGT----------------GGGCAATAACTCTGGATGTATGAGACAG-TGTGCCAAAACAGTTAACAGAAATTATG----AAGCAATTTCGATTTATGTTGCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1706028 218 +   8933513 TCTCTTTTTCACCAAGTTGATGGACAAGAGGCTGTGAACTTTGATACACCAAAGAATCATGGGGTTTGTGAGGATTGAAACTGCAGCAAACAGATGCCTCCT---TTATAGCT--GGAGA-GGCTGTGAGAGGAGAC---TGTCCTGT----------------GGGCAAGAACTCTGGATGTATGAGACAG-TGTGCCAAAACAGTTAACAGAAATTATG----AAGCAATTTCGATTTATGTTGCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139836849 217 + 163208435 TCTC-TTTTCACCAAGTTGATGGACAAGAGGCTGTGAACTTTGATATACCAAAGAAACATGGGGTTTGTGAGGGTTGAAACTGCAGCAAACAGATGCCTCCT---TTATAGCT--GGAGA-GGCCGTGAGAGGAGAC---TGTCTTGT----------------GGGCAAGAACTCAGGATGTGTGAGACAG-TGTGCCAAAACAGTTAACAGAAATTATG----AAGCAATTTCGATTTATGTTGCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122826224 217 + 180051392 TCTCTTTGTCTCCAAGTTGATGGACAAGAGGCTGTGAACTTTGATATACCAAAGAATCATGGGGCTTGTGA-GGTTGAAACTGCAGCAAACAGATGCCTCCT---TCATAGCT--GGAGA-GGCCAAGAGAGGAGAC---TGCCTTGT----------------GGGCAAGAACTCAGGATGTGTGAGACAG-TGTGCCAAAACAGTTAACAGAAATTATG----AAGCAATTTTGATTTATGTTGCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124249874 217 + 181584905 TCTCTTTGTCTCCAAGTTGATGGACAAGAGGCTGTGAACTTTGATATACCAAAGAATCATGGGGCTTGTGA-GGTTGAAACTGCAGCAAACAGATGCCTCCT---TCATAGCT--GGAGA-GGCCAAGAGAGGAGAC---TGCCTTGT----------------GGGCAAGAACTCAGGATGTGTGAGACAG-TGTGCCAAAACAGTTAACAGAAATTATG----AAGCAATTTCGATTTATGTTGCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16247742 217 +  18395747 TCTCTTTGTCTCCAAGTTGATGGACAAGAGGCTGTGAACTTTGATATACCAAAGAATCATGGGGCTTGTGA-GGTTGAAACTGCAGCAAACAGATGCCTCCT---TCATAGCT--GGAGA-GGCCAAGAGAGGAGAC---TGCCTTGT----------------GGGCAAGAACTCAGGATGTGTGAGACAG-TGTGCCAAAACAGTTAACAGAAATTATG----AAGCAATTTCGATTTATGTTGCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5259805 217 +  26952557 TCTCTTTGTCTCCAAGTTGATGGAAAAGAGGCTGTGAACTTTGATATACCAAAGAATCATGGGGCTTGTGA-GGTTGAAACTGCAGCAAACAGATGCCTCCT---TCATAGCT--GGAGA-GGCCAAGAGAGGAGAC---TGCCTTGT----------------GGGCAAGAACTCAGGATGTGTGAGACAG-TGTGCCAGAACAGTTAACAGAAATTATG----AAGCAATTTCGATTTATGTTGCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28361606 217 +  82825804 TCTCTTTTTCTCCAAGTTGATGGACAAGAGGCTGTGAACTTTGATGTACCAAAGAATCATGGGGCTTGTGA-GGTTGAAACTGCAGCAAACAGATGCCTCCT---TCATAGCT--GGAGA-GGCCAAGAGAGGAGAC---TGCCTTGT----------------GGGCGAGAACTCAGGATGTGTGAGACAG-TGTGCCAAAACAGTTAACAGAAATTATG----AAGCAATTTCGATTTATGTTGCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4028422 217 -   4237731 TCTCTTTGTCTCCAAGTTGATGGAAAAGAGGCTGTGAACTTTGATATACCAAAGAATCATGGGGCTTGTGA-GGTTGAAACTGCAGCAAACAGATGCCTCCT---TCATAGCT--GGAGA-GGCCAAGAGAGGAGAC---TGCCTTGT----------------GGGCAAGAACTCAGGATGTGTGAGACAG-TGTGCCAAAACAGTTAACAGAAATTATG----AAGCAATTTCGATTTATGTTGCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      299091 218 -   1175262 TCTCTTTTTCTCCAAGTTGATGGACAAGAGGCTGTGAACTTTGATATACCAAAGAATCATGGGGCTTGTGAGGGTTGAAACTGCAGCAAACAGATGCCTCCT---TTATAGCT--GGAGA-GGCCGTGAGAGGAGAC---TACCTTGT----------------GGGCAAGAACTCAGGATGTGTGAGACAG-TGTGCCAAAACAGTTAACAGAAATTATG----AAGCAATTTCGATTTATGTTGCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123643318 215 - 204313951 TCTCTTTTTCACCAAGTTGATGGACAAGAGGCTGTGAACTTTGATATACCAAAGAGCCAT---GTTTGTGAGGGTTGAAACTGCAACAAACAGCCTCCTCCT---TTATAGCT--GGAGA-GGCTGTGAGAGGAGAC---TGCCTTGT----------------GGGCAAGAACTCAGGATGTGTGAGACAG-TGTGCCAAAACAGTTAACAGAAATTATG----AAGCAATTTCGATTTATGTTGCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55688155 215 -  71252344 TCTCTTTTTCACCAAGTTGATGGACAAAAGGCCGTGAACTTTGATATACCGAAGAGCCAT---GTTTGTGAGGGTTGAAACTGCAGCAAACAGCTGCCTCCT---TTATAGCT--GGAGA-GGCCGTGAGAGGAGAC---TGCTTTGT----------------GGGTAAGAACTCAGGATGTGTGAGACAG-TGTGCCAAAATGGTTAACAGAAATTATG----AAGCAATTTCGATTTATGTTGCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1392162 215 -   1400280 TCTCTTTTTCACCAAGTTGATGGACAAGAGGCTGTGAACTTTGATATACCCAAGAGCCAT---GTTTGTGAGGGTTGAAACTGCAGCAAACAGCCGCCTCCT---TTATAGCT--GGAGA-GGCCGTGAGAGGAGAC---TGCCTTGT----------------GGGCAAGAACTCAGAATGTGTGAGACAG-TGTGCCAAAACAGTTAACAGAAATTATG----AAGCAATTTCGATTTATGTTGCT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13189521 215 -  42888418 TCTCTTTTTCACCAAGTTGATGGACAAGAGGCTGTGAACTTTGATATACCAAAGAGCCAT---GTTTGTGAGGGTTGAAACTGCAGCAAACAGCCGCCTCCT---TTATAGCT--GGAGA-GGCCGTGAGAGGAGAC---TGCCTTGT----------------GGGCAAGAACTCAGGATGTGTGAGACAG-TGTGCCAAAACAGTTAACAGAAATTATG----AAGCAATTTCGATTTATGTTGCT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3060100 179 +   4132165 TCTCTTGTTCACCAAGGTGATGGACAGGAGGCTGTGAACTTTGACATAGTAAAAAGACAT---GCTTGA---AGTTGACACTGC---------------------------------------CGGTGGGAAGAGAT---GGCCTCTC----------------GGGAAAGAACTCAGGATGTGTGAGGCCG-TGTGCCCAGACAGCTAGCAGGAATTATA----AAGCCACTTCGATTTATGCTGTT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55505816 191 +  90702639 TCTCTCTTCCACCGAACTAGTGGTCAGATGGCTAT-------------------------------------GCTTGAAAATGTTG--AATAGCTGCCCTCTATACCACCact--ggacatggataccagaagatatttattcttcct----------------gggcagaatccgaggcttaactaggaagctgccCTGATACAGTTAACAGGAATTCTGAGAAAAAAAAATGCGATTAATGCTGCC
i mm10.chr18               I 1207 C 0
s canFam3.chr11             14906428 221 +  74389097 CCTCTTTTTCACTGAGTTGATGGACAAGAGGCTGTGAACTTTGATACACCAAACAGTC---GGGCTTGTGGGGGTTGAAACTGTGCCAAACAGCTGCCTCCT---TTG-------AGAGA-GGCAGGGAGCAGAGCC---CCGCTGGCTGGCGCTGGTGGTGGGGGGCGGGA-----GGGTGTGTGAGAAGG-TGTGCCAAAACAGTTCACAGAAACCATG----AAGAAATTTCAATTTATGTGGTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2616125 216 +   3667625 TCTCTTTTTCACCGAAGTAATGGACAAGCAGCTGTGAACTTTGATATACCAAAGAGTCGT---GCTTGTGAGAGTTGAAACTGTGCCAAACAGCCGCCTCCT---TTACAGATGGGGAGA-GGACGCAAGAGGAGAA---T-CCTCCT----------------CTGCAAGAACTGAGGATCTGTGAGAAGG-TGTGCCAAGACAGTAAACAGAAATTACA----AGGAAATTTCAATTTATGTTGTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I
e proCoq1.NW_012155062v1     3571861 531 +  11683526 I

a score=2719755.000000
s hg38.chr5_KI270796v1_alt     67722 156 +    172708 GCA-AA--AAGAAGAAGGAACAGAGGAAATTGAACTTCCAGTGAGGTCTGATAATTAAACTCAGGCATACTGACAGGGTAGGTGAACACAACAGATAAATAACTACTTTCCGGTAATTATAAGGCAGGATGGTAACATATTAGACAAGCT-GGCTTGCTC
s panTro5.chr5             125177828 156 + 181907262 GCA-AA--AAGAAGAAGGAACAGAGGAAATTGAACTTCCAGTGAGGTCTGATAATTAAACTCAGGCATACTGACAGGGTAGCTGAACACAACAGATAAATAACTACTTTCCGGTAATTATAAGGCAGGATGGTAACATATTAGACAAGCT-GGCTTGCTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126514858 156 + 183735486 GCA-AA--AAGAAGAAGGAACAGAGGAAATTGAACTTCCAGTGAGGTCTGATAATTAAACTCAGGCATACTGACAGGGTAGCTGAACACAACAGATAAATAACTACTTTCCGGTAATTATAAGGCAGGATGGTAACATATTAGACAAGCT-GGCTTGCTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1706246 153 +   8933513 GCA-AA-----AAGAAGGAACAGAGGAAATTGAACTTCCAGTGAGGTCTGATAATTAAACTCAGGCATACTGACAGGGTAGCTGAACACAACAGATAAATAACTACTTTCCGGTAATTATAAGGCAGGATGGTAACATATTAGACAAGCT-GGCTTGCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139837066 156 + 163208435 GCA-AA--AAGAAGAAGGAACAGAGGAAATTGAACTTCCAGTGAGGTCTGATAATTAAACTCAGGCATACTGACAGGGTAGCTGAACACAACAGATAAATAACTACTTTCCGGTAATTATAAGGCAGGATGGTAACATATTAGACAAGCT-GGCTTGCTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122826441 153 + 180051392 GCA-AA-----AAGAAGGAACAGAGGAAATTGAACTTCCAGTGAGGTCTGATAATTAAACTCAGGCGTACTGACAGGGTAGCTGAACACAACAGATAAATAACTACTCTCCGGTAATTATAAGGCAGGATGGTAACATACTAGACAAGCT-GGCTTGCTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124250091 153 + 181584905 GCA-AA-----AAGAAGGAACAGAGGAAATTGAACTTCCAGTGAGGTCTGATAATTAAACTCAGGCGTACTGACAGGGTAGCTGAACACAACAGATAAATAACTACTCTCCGGTAATTATAAGGCAGGATGGTAACATACTAGACAAGCT-GGCTTGCTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16247959 153 +  18395747 GCA-AA-----AAGAAGGAACAGAGGAAATTGAACTTCCAGTGAGGTCTGATAATTAAACTCAGGCGTACTGACAGGGTAGCTGAACACAACAGATAAATAACTACTCTCCGGTAATTATAAGGCAGGATGGTAACATACAAGACAAGCT-GGCTTGCTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5260022 156 +  26952557 GCA-AA--AAGAAGAAGGAACAGAGGAAATTGAACTTCCAGTGAGGTCTGATAATTAAACTCAGGCGTACTGACAGGGTAGCTGAACACAACAGATAAATAACTACTTTCCGGTAATTATAAGGCAGGATGGTAACATACTAGACAAGCT-GGCTTGCTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28361823 156 +  82825804 GCA-AA--AAGAAGAAGGAACAGAGGAAATTGAACTTCCAGTGAGGTCTGATAATTAAACTCAGGCGTACTGACAGGGTAGCTGAACACAACAGATAAATAACTACTTTCCGGTAATTATAAGGCAGGATGGTAACATACTAGACAAGCT-GGCTTGCTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4028639 156 -   4237731 GCA-AA--AAGAAGAAGGAACAGAGGAAATTGAACTTCCAGTGAGGTCTGATAATTAAACTCAGGCGTACTGACAGGGTAGCTGAACACAACAGATAAATAACTACTTTCCGGTAATTATAAGGCAGGATGGTAACATACTAGACAAGCT-GGCTTGCTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      299309 156 -   1175262 GCA-AA--AAGAAGAAGGAACAGAGGAAATTGAACTTCCAGTGAGGTCTGATAATTAAACTCAGGCATACTGACAGGGTAGCTGAACACAACAGATAAATAACTACTTTCCGGTAATTATAAGGCAGGATGGTAACATACTAGACAAGCT-GGCTTGCGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123643533 156 - 204313951 GCA-AA--AAGAAGAAGGAACAGAGGAAATTGAACTTCCAGTGAGGTCTGATAATTAAACTCAGGAGTACTGACAGGGTAGCTGAACACAACAGATAAATAACTACTTTCCGGTAATTATAAGGCAGGATGGTAACATATTAGACAAGCT-GGCTTGCTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55688370 156 -  71252344 GCA-AA--AAGAAGAAGGAACAGAGGAAATTGAACTTCCAGTGAGGTCTGATAATTAAACTCAGGAGTACTGACAGGGTAGCTGAACACAACAGATAAATAACTACTTTCCGGTAATTATAAGGCAGGATGGTAACATATTAGACAAGCT-GGCTTGTTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1392377 156 -   1400280 GCA-AA--AAGAAGAAGGAACAGAGGAAATTGAACTTCCAGTGAGGTCTAATAATTAAACTCAGGAGTACTGACAGGGTAGCTGAACACAACAGATAAATAACTACTTTCCGGTAATTATAAGGCAGGATGGTAACATATTAGACAAGCT-GGCTTGCTC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13189736 156 -  42888418 GCA-AA--AAGAAGAAGGAACAGAGGAAATTGAACTTCCAGTGAGGTCTGATAATTAAACTCAGGAGTACTGACAGGGTAGCTGAACACAACAGATAAATAACTACTTTCCGGTAATTATAAGGCAGGATGGTAACATATTAGACAAGCT-GGCTTGCTC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3572392 155 +  11683526 GCA-AA--GAGAAGAGGGAACGGAGCAAATGGAACTTCCGGTGAAGCCTGACAATCGAACTCAGGAGCACTGACAGGGTAGCTGAGCACAACAGGTAAACAACTGCTTTCCGGTAGTTGTGAGGC-GGGTGGCAACATATTAGGCAAGCC-GGTTCACTT
i proCoq1.NW_012155062v1   I 531 C 0
s otoGar3.GL873679           3060279 157 +   4132165 GCACAA--AAAAAGAGGGAACAGAGGAAATTGAACTTCCAGTGAAGTCTGATAATTAAACTCAGGAGTACTGACAGGGTAGCTGAGCACAACAGATAAATAACTACTTTCTGGTAATTATAAGGCAGGATGGCGACGTATTAGACAAGCT-GGTTCACTC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55506007 159 +  90702639 GCA-AATAAAGAAGAGGGAAGAGAGGAAATGGAATTTCCAGAGAAGTCTGATAATTAAACTCAAGAGCCCTGACAGAGTAGCTGAACACAACAGATAAATAACTACTTTCCGGTAATTATAAGGGAGGATGGTAACAGATGAGACAGGCTGGGTTCACTT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14906649 155 +  74389097 GCA-AA---AGAGGAGGGAACCGAGGAAATTGAACTTTCAGTGAAGTCTGATAATTAAACTCAGGAGTACTGACAGGGTAGCTGAACACAACAGATAAATAACTACTTTCCGGTAATTATAAGCCAGGATGGTAACATATTAGACAAGCT-GGTTCACTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2616341 156 +   3667625 GCA-AA--AAGAGGAGGGAACAGAGGAAATTGAACTCTCAGTGAAATCTGATAATTAAACTCAGGCGTACTGACAGGGGAACTGAGCACAACAGATAAATAACTACTTTCCGGTAATTATAAGCCAGGATAGTAACATATTAGACCAGCT-GGTTCACTC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60530325 724 + 108143057 I

a score=1204625.000000
s hg38.chr5_KI270796v1_alt     67878 63 +    172708 GGTATTTTCAAGGCTGAC-ATTTCGATTCTAGGGGATATTTGGATCTGTGCTAACAGATTTCTT
s panTro5.chr5             125177984 63 + 181907262 GGTATTTTCAAGGCTGAC-ATTTTGATTCTAGGGGATATTTGGATCTGTGCTAACAGATTTCTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126515014 63 + 183735486 GGTATTTTCAAGGCTGAC-ATTTCGATTCTAGGGGATATTTGGATCTGTGCTAACAGATTTCTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1706399 63 +   8933513 GGTATTTTCAAGGCTGAC-ATTTCGATTCTAGGGGATATTTGGATCTGTGCTAACAGATTTCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139837222 63 + 163208435 GGTATTTTCAAGGCTGAC-ATTTCGATTTTAGGGGATATTTGGATCTGTGCTAACAGATTTCTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122826594 63 + 180051392 GGTATTTTCAAGGCTGAC-ATTTCGATTCTAGGGGATATTTGGATCTGTGCTAACAGATTTCTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124250244 63 + 181584905 GGTATTTTCAAGGCTGAC-ATTTTGATTCTAGGGGATATTTGGATCTGTGCTAACAGATTTCTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16248112 63 +  18395747 GGTATTTTCAAGGCTGAC-ATTTCGATTCTAGGGGATATTTGGATCTGTGCTAACAGATTTCTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5260178 63 +  26952557 GGTATTTTCAAGGCTGAC-ATTTCGATTCTAGGGGATATTTGGATCTGTGCTAACAGATTTCTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28361979 63 +  82825804 GGTATTTTCAAGGCTGAC-ATTTCGATTCTAGGGGATATTTGGATCTGTGCTAACAGATTTCTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4028795 63 -   4237731 GGTATTTTCAAGGCTGAC-ATTTCGATTCTAGGGGATATTTGGATCTGTGCTAACAGATTTCTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      299465 63 -   1175262 GGTATTTTCAAGGCTGAC-ATTTCGATTCTAGGGGATATTTGGATCTGTGCTAACAGATTTCTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123643689 63 - 204313951 AGTAGTTTCAAGGCTGGC-ATTTCAATTCTAGGGGATATTTGGATCTGTGCTAGCAGATTTCTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55688526 63 -  71252344 AGTATTTTCAAGGCTGGC-ATTTCAATTCTAGGGGATATTTGGATCTGTGCTAACAGATTTCTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1392533 63 -   1400280 AGTATTTTCAAGGCTGGC-ATTTCAATTCTAGGGGATATTTGGATCTGTGCTAACAGATTTCAT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13189892 63 -  42888418 AGTATTTTCAAGGCTGGC-ATTTCAATTCTAGGGGATGTTTGGATCTGTGCTAACAGATTTCGT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60531049 63 + 108143057 GGTGTTTTCAGGGCTGGC-ATTTTGATTCTAGGGAATATCTGGGTCTGTGCGAACAGATTTCTT
i micMur3.chr12            I 724 C 0
s proCoq1.NW_012155062v1     3572547 63 +  11683526 GGTGTTTTCAAGGCTGAC-ATTTTGATTCTAGGGAATACTTGGACCCGTGCGAACAGATTTCTT
i proCoq1.NW_012155062v1   C 0 I 185
s otoGar3.GL873679           3060436 63 +   4132165 GGTATTTTCAAGGCTGAC-ATTTTGATTCTAGGGGATATTTGGATCTGTGCTAACAGATTTATT
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55506166 63 +  90702639 GGTATTTTCAAGGCTGAC-ATTTCGATTCTAGGGAGTTGTTGGATCTGTGCTAGCAGACGCCTT
i mm10.chr18               C 0 I 4
s canFam3.chr11             14906804 63 +  74389097 GGTATTTTCAAGTCTGAC-ATTTCGATTCTAGAGGATATTTGGATCTGTGCTAACAGATTTCTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2616497 64 +   3667625 TGTATTTTCAAGTCTGACTTTTTTGATTCCAGGGGACATTTGGCTCTATGCTAATAGATTTCTT
i dasNov3.JH567306         C 0 C 0

a score=36711.000000
s hg38.chr5_KI270796v1_alt     67941 3 +    172708 TCT
s panTro5.chr5             125178047 3 + 181907262 TCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126515077 3 + 183735486 TCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1706462 3 +   8933513 TCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139837285 3 + 163208435 TCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122826657 3 + 180051392 TCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124250307 3 + 181584905 TCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16248175 3 +  18395747 TCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5260241 3 +  26952557 TCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28362042 3 +  82825804 TCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4028858 3 -   4237731 TCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      299528 3 -   1175262 TCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123643752 2 - 204313951 TC-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55688589 3 -  71252344 TCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1392596 3 -   1400280 TCT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13189955 3 -  42888418 TCT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60531112 3 + 108143057 TCT
i micMur3.chr12            C 0 I 581
s otoGar3.GL873679           3060500 2 +   4132165 TC-
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55506233 3 +  90702639 TTT
i mm10.chr18               I 4 C 0
s canFam3.chr11             14906867 3 +  74389097 TCT
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2616561 3 +   3667625 TCT
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3572610 185 +  11683526 I

a score=2116001.000000
s hg38.chr5_KI270796v1_alt     67944 180 +    172708 TTTTCCACACTTGCTTTTCCTTTTCCACTCCCTATTGC-------TTGCTGAAAATAAAATGTGATTTTAAAGTGC-CACTGTT---CAGCATGTTTCATGCGTCTGCTTCGCCTCACATAGCCGACCTCAAAACCCACTGC-TGCTGGACGCAGTTGCTGAAGTGG-TGTCTGCTTTTCTAAAAACTGTAA---T-----
s panTro5.chr5             125178050 180 + 181907262 TTTTCCACACTTGCTTTTCCTTTTCCACTCCCTATTGC-------TTGCTGAAAATAAAATGTGATTTTAAAGTGC-CACTGTT---CAGCACGTTTCATGCGTCTGCTTCGCCTCACATAGCCGACCTCAAAACCCACTGC-TGCTGGACGCAGTTGCTGAAGTGG-TGTCTGCTTTTCTAAAAACTGTAA---T-----
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126515080 180 + 183735486 TTTTCCACACTTGCTTTTCCTTTTCCACTCCCTATTGC-------TTGCTGAAAATAAAATGTGATTTTAAAGTGC-CACTGTT---CAGCACGTTTCATGCGTCTGCTTCGCCTCACATAGCCGACCTCAAAACCCACTGC-TGCTGGACGCAGTTGCTGAAGTGG-TGTCTGCTTTTCTAAAAACTGTAA---T-----
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1706465 178 +   8933513 TTTTCCACACTTGCTTTTCCTTTTCCACTCCCCATTGC-------TTGCTGAAAATAAAATGTGATTTTAAAGTGC-CACTGTT---CAGCATGTTTCATGCGTCTGCTTCGCCTCACATAGCCGACCTCAAAACCCACTGC-TG--GGACGCAGTTGCTGAAGTGG-TGTCTGCTTTTCTAAAAACTGTAA---T-----
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139837288 179 + 163208435 TTTTCCACACTTGCTTTTCCTTTTCCACTCCCCATTGC-------TTGCTGAAAATAAAATGTGATTTTAAAGTGC-CACTGTT---CAGCATGTTTCATGCGTCTG-TTCACCTCACATAGCCGACCTCAAAACCCACTGC-TGCTGGACACGGTTGCTGAAGTGG-TGTCTGCTTTTCTAAACACTGTAA---T-----
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122826660 180 + 180051392 TTTTCCACACTTGCTTTTCCTTTTCCACTCCCCATTGC-------TTGCTGAAAATAAAATGTGATTTTAAAGTGC-CACTGTT---CAGCATGTTTCATGCATTCGCTTCGCCTCACATAGCAGACCTCAAAGCCCACTGC-TGCCGGACACAGTTGCTGAAGTGG-CGTCTGCTTTTCTAAACACTCTAA---T-----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124250310 180 + 181584905 TTTTCCACACTTGCTTTTCCTTTTCCACTCCCCATTGC-------TTGCTGAAAATAAAATGTGATTTTAAAGTGC-CACTGTT---CAGCATGTTTCATGCATTCGCTTCGCCTCACATAGCAGACCTCAAAGCCCACTGC-TGCCGGACACGGTTGCTGAAGTGG-CGTCTGCTTTTCTAAACACTGTAA---T-----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16248178 180 +  18395747 TTTTCCACACTTGCTTTTCCTTTTCCACTCCCCATTGC-------TTGCTGAAAATAAAATGTGATTTTAAAGTGC-CACTGTT---CAGCATGTTTCATGCATTCGCTTCGCCTCACATAGCAGACCTCAAAGCCCACTGC-TGCCGGACACGGTTGCTGAAGTGG-CGTCTGCTTTTCTAAACCCTGTAA---T-----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5260244 180 +  26952557 TTTTCCACACTTGCTTTTCCTTTTCCACTCCCCATTGC-------TTGCTGAAAATAAAATGTGATTTTAAAGTGC-CACTGTT---CAGCATGTTTCATGCATTCGCTTCGCCTCACATAGCAGACCTCAAAGCCCACTGC-TGCCGGACACAGTTGCTGAAGTGG-CGTCTGCTTTTCTAAACACTGTAA---T-----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28362045 180 +  82825804 TTTTCCACACTTGCTTTTCCTTTTCCACTCCCCATTGC-------TTGCTGAAAATAAAATGTGATTTTAAAGTGC-CACTGTT---CAGCATGTTTCATGCATTCGCTTCGCCTCACGTAGCAGACCTCAAAGCCCACTGC-CGCCGGACACAGTTGCTGAAGTGG-CGTCTGCTTTTCTAAACACTGTAA---T-----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4028861 180 -   4237731 TTTTCTACACTTGCTTTTCCTTTTCCACTCCCCATTGC-------TTGCTGAAAATAAAATGTGATTTTAAAGTGC-CACTGTT---CAGCATGTTTCATGCATTCGCTTCGCCTCACATAGCAGACCTCAAAGCCCACTGC-TGCCGGACACAGTTGCTGAAGTGG-CGTCTGCTTTTCTAAACACTGTAA---T-----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      299531 180 -   1175262 TTTTCCACACTTGCTTTTCCTTTTCCACTCCCCATTGC-------TTGCTGAAAATAAAATGTGATTTTAAAGTGC-CACTGTT---CAGCATGTTTCATGCGTTCGCTTCGCCTCACATAGCAGACCTCAAAGCCCACTGC-TGCCGGACACAGTTGCTGAAGTGG-CTTCTGCTTTTCTAAACACTGTAA---T-----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123643754 177 - 204313951 TTTTCCACACTTGCTTTTCCTTTTACCCTCCCCATTGC-------TTGCTGGAAATAAAATGTGATTTTAAAGTGC-CACTGTT---CAGCATGTTTCATGTGTTCACGTCGCGTCACA-----GACCTCAAAGCCCACTGC-TGCTGGACACAGTTGCTGAAGTGG-TGTCTGCTTTT-TAAACATTGCAAATAT-----
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55688592 177 -  71252344 TTTTCTACACTTGCTTTTCCTTTTCCCCTCCCCACTGC-------TTGCTGAAAATAAAGTGTGATTTTAAAGTGC-CACTGGT---CAGCATGTTTCACGTGTTCGCGTCGCATCACA-----GACCTCAAAGCCCACTGC-TATCGGACACAGTTGCTGAAGTGG-TGTCTGCTTTT-TAAACATTGCACATTT-----
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1392599 177 -   1400280 TTTTCCACACTTGCTTTTCCTTTTCCCCTCCCCATCGC-------TTGCTGAAAATAAAATGTGATTTTAAAGTGC-CACTGGT---CAGCATGTTTCACGTGTTTGCGTCGCATCACA-----GACCTCAAAGCCCACTGC-TGCTGGACACAGTTGCTGAAGTGG-TGTCTGCTTTT-TAAACATTGCAAATAT-----
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13189958 177 -  42888418 TTTTCCACACTTGCTTTTCCCTTTCCCCTCCCCATTGC-------TTGCTGAAAATAAAATGTGATTTTAAAGTGC-CACGGTT---CAGCATGTTTCATGTGTTTGTGTCGCATCACA-----GACCTCAAAGCCCACTGC-TGCTGGACACAGTTGCTGAAGTGG-TGTCTGCTTTT-TAAACATTGCAAATAT-----
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3060502 169 +   4132165 TTTCCCA-----------CCCCCCCACCCCCCCATTGC-------TTGCTGAGAATAGAATGTGATTC--AAGTGG-CTCTTTCCGGCGGCATGTTCCACGCGTCCCCGTCACATC-CATGGCAGAGCTCAAAGCCCTCTGC-TGCCAGACACAGTCTCTGGGGTGG-TATTTACTTTTCTAACCCTCATAA---C-----
i otoGar3.GL873679         C 0 I 4
s mm10.chr18                55506236 148 +  90702639 TTTTTTGTCTCTGTGTTCACTTT-----GTCCCAGTTC-------CTGCC----CTTCCATGTTGTGCGGAAGTGCACACTTTG---CA------------------CACTGCACCACA-----AAATTCAA--CCCTCTGC-CACTGGAGACACCTGCTGAGGGGGCTATCTGTGTCTCTAAACAATGCAA---G-----
i mm10.chr18               C 0 I 3
s canFam3.chr11             14906871 180 +  74389097 TTTTCTCCACTCACTTTCCCTTTCCCACTCCCCATTGC-------TTGCTGAAAATGAAATATGATTTTAGGGCGG-CACTTTC---CAGCATGTTCTGTATGTAGGCCTTACGTGATATAGCACACCTCAGAGCCCACTGC-TGCTGGGCACAGTTGCTCAGATGG-TGCCTGCTTTTCCAAACATCATAA---A-----
i canFam3.chr11            I 1 I 4
s dasNov3.JH567306           2616564 173 +   3667625 TTTTCTGCACTCCCTTTCCCTTTCCCATCCTCTATTGCATCCTCATTGTGGAAAATGAAATGTAATTTTAAGGCAC---TTTTT---CAGCATGTGT--------------ACATTACATA---GATCACAAAACATGCTGCTTGCTAGGCACA-TGGTTGAGATGG-TGTCTGCTTTTCTAAATATTGTAA---AAATAT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60531115 581 + 108143057 I
e proCoq1.NW_012155062v1     3572610 185 +  11683526 I

a score=5211315.000000
s hg38.chr5_KI270796v1_alt     68124 368 +    172708 TATTTAAAAGATTTTAATCAGATGTCCCCTATTAGAAG-AAAATGGTGCAAATCACATAGTCCAT--TTACA----ATCCTTCCTTGGCCATAGACTGCTAAAGCTTTTAACAAATCATTTCATAGCACAAACACTTCTTTTCACA-AGAAGG-AAATGGAGGCAATGGGTTCTTGTCTAAGACGCACTGTTTTCAACAGAAATAAAGCAGACACTTAAGTCAAGGGAACAAAACCACTCTCTTTTGTGAATGGGGATCACTCTCAGACACCC-AATTTTCCTTCTGTCTTTAAGAATAATGTTACAATACTTTTAAAAGGGGAATTTACATAATAGAATACAGA-TGTTGCCCTTTTCTATGTGATGTGTAGACTGTA
s panTro5.chr5             125178230 368 + 181907262 TATTTAAAAGATTTTAATCAGATGTCCCCTATTAGAAG-AAAATGGTGCAAATCACATAGTCCAT--TTACA----ATCCTTCCTTGGCCATAGACTGCTAAAGCTTTTAACAAATCATTTCATAGCACAAACACTTCTTTTCACA-AGAAGG-AAATGGAGGCAATGGGTTCTTGTCTAAGATGCACTGTTTTCAACAGAAATAAAGCAGACACTTAAGTCAAGGGAACAAAACCACTCTCTTTTGTGAATAGGGATCACACTCAGACACCC-AATTTTCCTTCTGTCTTTGAGAATAATGTTACAATACTTTTAAAAGGGGAATTTACATAATAGAATACAGA-TGTTGCCCTTTTCTATGTGATGTGTAGACTGTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126515260 368 + 183735486 TATTTAAAAGATTTTAATCAGATGTCCCCTATTAGAAG-AAAATGGTGCAAATCACATAGTCCAT--TTACA----ATCCTTCCTTGGCCATAGACTGCTAAAGCTTTTAACAAATCATTTCATAGCACAAACACTTCTTTTCACA-AGAAGG-AAATGGAGGCAATGGGTTCTTGTCTAAGATGCACTGTTTTCAACAGAAATAAAGCAGACACTTAAGTCAAGGGAACAAAACCACTCTCTTTTGTGAATAGGGATCACACTCAGACACCC-AATTTTCCTTCTGTCTTTGAGAATAATGTTACAATACTTTTAAAAGGGGAATTTACATAATAGAATACAGA-TGTTGCCCTTTTCTATGTGATGTGTAGACTGTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1706643 368 +   8933513 TATTTAAAAGATTTTAATCAGATGTCCCCTATTAGAAG-AAAATGGTGCAAATCACATAGTCCAT--TTACA----ATCCTTCCTTGGCCATAGACTGCTAAAGCTTTTGACAAATCATTTCACAGCACAAACACTTCTTTTCACA-AGAAGG-AAATGGAGGCAATGGGTTCTTGTCTAAGATGCACTGTTTTCAACAGAAATAAAGCAGACACTTAAGTCAAGGGAACAAAACCACTGTCTTTTGTGAATAGGGATCACACTCAGATACCC-AATTTTCCTTCTGTCTTTGAGAATAATGTTACAATACTTTTAAAAGGGGAATTTACATAATAGAATACAGA-TGTTGCCCTTTTCTATGTGATGTGTAGACTGTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139837467 368 + 163208435 TATTTAAAAGATTTTAATCAGATGTCCTCTATTAGAAG-AATATGGTGCAAATCACGTAGTCCAT--TTACA----ATCCTTCCTTGGCCATAGACTGCTAAAGCTTTTAACAAATCATTTCATAGCACAAACACCTCTTTTTACA-AAAAGG-AAATGGAGGCAATGGGTTCTTGTCTAAGATGCACTGTTTTCAACAGAAATAAAGCAGACACTTAAGTCAAGGGAACAAAACCATTCTCTTTTGTGAATAGGGATCACACTCAGACATCC-AATTTTCCTTTTGTCTTTGAGAATAATGTTACAATACTTTTAAAAGGGGAATTTACATAATAGAATACAGA-TGTTGCCCTTTTCTATGTGATGTGTAGACTGTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122826840 368 + 180051392 TATTTTAAAGATTTTAATCAGACGTCCCCTATTAGAAG-AATATGGTGCAAATCACATAGTCCAT--TTACA----ATCCTTCCTTAGCCATAGACTGCTAGAGTTTTTAACTAATCATTTCCTAGCACAAGCACTTCTTTTCACA-AAAAGG-AAACGGAGGCAATGGGTTCTTGTCTAAGATGCACTATTTTCAATACAAAGAAAGCAGACGCTTAAGTCAAGGAAACAAAACCATTCTCTTTTGTGAATAGGGATCACGCCCAGACACCC-AATTTTCCTTCTGTCTTTGAGAATAATGTTAAAATACTTTTAAGAGGGGAATTTACATAATAGAATACAGA-TGTTGCCATTTTCTATGTGATGTGTAGACTGTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124250490 368 + 181584905 TATTTTAAAGATTTTAATCAGACGTCCCCTATTAGAAG-AATATGGTGCAAATCACATAGTCCAT--TTACA----ATCCTTCCTTAGCCATAGACTGCTAGAGTTTTTAACTAATCATTTCCTAGCACAAGCACTTCTTTTCACA-AAAAGG-AAACGGAGGCAATGGGTTCTTGTCTAAGATGCACTATTTTCAATAGAAAGAAAGCAGACGCTTAAGTCAAGGAGACAAAACCATTCTCTTTTGTGAATAGGGATCACGCCCAGACACCC-AATTTTCCTTCTGTCTTTGAGAATAATGTTAAAATACTTTTAAGAGGGGAATTTACATAATAGAATACAGA-TGTTGCCATTTTCTATGTGATGTGTAGACTGTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16248358 368 +  18395747 TATTTTAAAGATTTTAATCAGACGTCCCCTATTAGAAG-AATATGGTGCAAATCACATAGTCCAT--TTACA----ATCCTTCCTTAGCCATAGACTGCTAGAGTTTTTAACTAATCATTTCCTAGCACAAGCACTTCTTTTCACA-AAAAGG-AAACGGAGGCAATGGGTTCTTGTCTAAGATGCACTATTTTCAATAGAAAGAAAGCAGACGCTTAAGTCAAGGAGACAAAACCATTCTCTTTTGTGAATAGGGATCACGCCCAGACACCC-AATTTTCCTTCTGTCTTTGAGAATAATGTTAAAATACTTTTAAGAGGGGAATTTACATAATAGAATACAGA-TGTTGCCATTTTCTATGTGATGTGTAGACTGTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5260424 368 +  26952557 TATTTTAAAGATTTTAATCAGACGTCCCCTATTAGAAG-AATATGGTGCAAATCACATAGTCCAT--TTACA----ATCCTTCCTTAGCCATAGACTGCTAGAGTTTTTAACTAATCATTTCCTAGCACAAACACTTCTTTTCACA-AAAAGG-AAACGGAGGCAATGGGTTCTTGTCTAAGATGCACTATTTTCAATAGAAAGAAAGCAGACGCTTAAGTCAAGGAAACAAAACCATTCTCTTTTGTGAATAGGGATCACACCCAGACACCC-AATTTTCCTTCTGTCTTTGAGAATAATGTTAAAATACTTTTAAGAGGGGAATTTACATAATAGAATACAGA-TGTTGCCGTTTTCTATGTGATGTGTAGACTGTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28362225 363 +  82825804 TATTTTAAAGATTTTAATCAGACGTCCCCTATTAGAAG-AATATGGTGCAAATCACATAGTCCAT--TTACA----ATCCTTCCTTAGCCATAGATTGCTAGAGTTTTTAACTAATCATTTCCTAGCACAAACACTTCTTTTCACA-AAAAGG-AAATGGAGGCAATGGGTTCTTGTCTAAGATGCACTATTTTCAATAGAAATAAAGCAGACACTT-----AAGGGAACAAAACCATTCTCTTTTGTGAATAGGGATCACGCCCAGACACCC-AATTTTCCTTCTGTCTTTGAGAATAATGTTAAAATACTTTTAAGAGGGGAATTTACATAATAGAATACAGA-TGTTGCCGTTTACTATGTGATGTGTAGACTGTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4029041 368 -   4237731 TATTTTAAAGATTTTAATCAGACGTCCCCTATTAGAAG-AATATGGTGCAAATCACATAGTCCAT--TTACA----ATCCTTCCTTAGCCATAGACAGCTAGAGTTTTTAACTAATCATTTCCTAGCACAAACACTTCTTTTCACA-AAAAGG-AAACGGAGGCAATGGGTTCTTGTCTAAGATGCACTATTTTCAATAGAAAGAAAGCAGACGCTTAAGTCAAGGAAACAAAACCATTCTCTTTTGTGAATAGGGATCACGCCCAGACACCC-AATTTTCCTTCTGTCTTTGAGAATAATGTTAAAATACTTTTAAGAGGGGAATTTACATAATAGAATACAGA-TGTTGCCGTTTTCTATGTGATGTGTAGACTGTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      299711 368 -   1175262 TATTTTAAAGATTTTAATCAGATGTCCCCTATTAGAAG-AATATGGTGCAAATCACATAGTCCAT--TTACA----ATCCTTCCTTAGCCATAGACTGCTAGAGTTTTTAACTAATCATTTCCTAGCACAAACACTTCTTTTCACA-AAAAGG-AAACGGAGGCAATGGGTTCTTGTCTAAGATGCACTATTTTCAATAGAAATAAAGCAGACACTTAAGTCAAGGGAACAAAACCATTCTCTTTTGTGAATAGGGCTCACGCCCAGACACCC-AATTTTCCTTCTGTCTTTGAGAATAATGTTAAAATACTTTTAAGAGGGGAATTTACATAATAGAATACAGA-TGTTGCCGTTTTCTATGTGATGTGTAGACTGTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123643931 360 - 204313951 TATTTAAAAGACTTTAATCAGATGTCCCCTATTAGAAG-AATATGGTGCAAATCCCATAGTCCAT--TTACA----ATCCTTCCTTGACCATA----GCTAAAGCTTTTAACAATTCATTTCAGAGCACAAACACTGCTTTTCACA-AAAAGGAAAACAGAGGCAATGGGTTCTTGTCTAAGATGCACTGTTTTCCATAGAAATAAAGCAGACACTT-----ACAGAAACAAAACCATTCTCTTTGGCGAATAGGGATCACACCCAGACACCC-AATTTTCCTTCTGTCTTTGAGAATAATGTTAGAGTACTTTTAAAAGGGGAATTTACATAATAGAATACAGA-TGTTGCCCTTTTCTATGTGATGCGGAGACTGTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55688769 363 -  71252344 TATTTAAAAGACTTTAATCAGATGTCCCCTATTAGAAG-AATATGGTGCAAATCCCATAGTCCAT--TTACA----ATCCTTCCTTGGCCATAGACTGCTAAAGCTTTTAACAATTCATTTCATAGCACAAACACTGCTTTTCAC--AAAAGGAAAACGGAGGCAGTGGGTTCTTGTCTAAGATGCACTGTTTTCCATAGAAATAAAGCAAACACTT-----AAAGAAACAAAACCATTCTCTTTGGTGAATAGGGATCACACCCAGACACCC-AATTTTCCTTCTGTCTTTGAGGATAATGTTAGAGTACTTTTAAAAGGGGAATTTACATAATAGAATACACA-TGTTGCCCTTTTCTCTGTGATGTGGAGACTGTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1392776 360 -   1400280 TATTTAAAAGACTTTAATCAGATGCCCCCTATTAGAAG-AATATGGTGCAAATCCCATAGTCCAT--TTACA----ATCCTTCCTTGGCCATAGACTGCTACAGCTTTTAATAATTCATTTCATAGCACAAACACTGCTTTTCACA-AAAAGGAAAATGGAGGCAATGGGTTCTTGTCTAAGATGCACTGTTTTCCATAGAAATAAAGCAGACACTT-----AAAGAAACAAAACCATTCTCTTTGGTGAATAGGGATCACACCCAGACACCC-AATTTTCC----GTCTTTGAGAATAATGTTAGAGTACTTTTAAAAGGGGAATTTACATAATAGAATACAGA-TGTTGCCCTTTTCTATGTGATATGGAGACTGTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13190135 364 -  42888418 TATTTAAAAGACTTTAATTAGATGCCCCCTATTAGAAG-AATATGGTGCAAATCCCATAGTCCAT--TTACA----ATCCTTCCTTGGCCGTAGACTGCTAAAGCTTTTAACAATTCATTTCATAGCACAAACACTGCTTTTCACA-AAAAGGAAAACGGAGGCAATGGGTTCTTGTCTGAGATGCACTGTTTTCCCCAGAAATAAAGCAGACACTT-----AAAGAAACAAAAGCATTATCTTTGGTGAATAGGGATCACACCCAGACACCC-AATTTTCCTTCTGTCTTTGAGAATAATGTTAGAGTACTTTTAAAAGGGGAATTTACATAATTCAATACAGA-TGTTGCCCTTTTCTATGTGATGTGGAGACTGTA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3572795 365 +  11683526 TATTAAAAAGATTTTACTCGGGCGTCCCCTAATAGAAA-AACCTGGTGTCAATTACGTACTCCAT--TTTCC----GTCCTTCGTTGGTCACAGACTGCTAAAGCTTTTAACAAATCATTTCATGGTACACAC---ACTTGTCACA-AAAAGG-AAATGGAGGCAAAGAGTCCTTTTCTAAGATGCGCTGTTTTCAATAGAAATAAAACAGACACTTAAGTCAAGGGAACAAATCCATTCTCTTTTGTGAATGGAGATCACACCGAGATATCC-AATTTTCCTCTTCTCTTTGAGAATAATGTTAGAATACTTTTAAAAGCTGAATTTGCATAATAGGATACAGA-TTTCGCCCTTTTCTGTGTGGCATGTAGACTGTA
i proCoq1.NW_012155062v1   I 185 I 90
s otoGar3.GL873679           3060675 361 +   4132165 TATTTAAAAGA---TACTCGCATGTCCCCTAATAGAAA-AACATAGTGCAAATTACATATTCCAT--TCACA----GCCTTCCACTGGTCATAGACTCCTAAAGCTTTTAACAAATCATGTCATAGCACACACA-TACTTCTCACAGAAAAGG-AAATGGAGGCAGAGAGCACTTCTCTAA-ATGTACTGTTTTCAATAGAAATGAAAGAGACACTTAAGTCAAGGGAACAAAACCTTTCCCTTTTGTGAACAGAGATCACACTGAGATATCC-AATTTTCCTC--CTCTTTGAGAATAATGTTAGAATACTTTTAAAAGCAGAATTTGCATAATA-GATACAGA-TTTTGCCCTTTTCTATGCAGCATGTAGCCTGTA
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55506387 344 +  90702639 TCTTAAAAAGATTTTTGTCAGCCTTTCCC-ATCAGCGG-AACAGGGCGGAAATGGCATAAGCTAT--TTCCG----GTCCTCCCTTGATCATGGATGTCTTAG--CTTTCCCAGTTCAATTCATGATGCAATCACTCTGTGCCACA-AAGGGG-AAACAGAGGCAG---------------GAAGCACTATTCT------AAGTAAAGCA-ACACTGGACTGCAGAAAAGAAACCCATTCTCTTCTATGAATTGAGGTCACACGGAGATACCCGGATATTCTTCCTGTGTTTGAGAACAATGGGAGAATATTTCGAAAAGCTGAATTTGCATAATAGAATAAAAA-CTCTGCCCTTTTCTGTGCTGTGGGGAGACTGAA
i mm10.chr18               I 3 C 0
s canFam3.chr11             14907055 369 +  74389097 TATTAAAAAGA----GCCCAGGCGTTCCCTAATAGAAA-AACACGCTACAAATTACACATTCTAT--TTATAGCCTGTCCTTCATTaatcatagaatgcgaaagcttttaacaaatcatctcatagtacaaacacttcatttcaca-aagaag-aaaccgaggcaaagagTTCTTTTCTAAGACGTACTGTTTTCAAAAGGAATAAAACAGACACTTAAGTCAAGGGAACAAAACCCTTCTCTTTTATGAATAGAAATGACACAGAGACACAC-AATTTTCCTCCTCTCTTTGAGAATAATGTTAGAATACTTTTAACAGCTGAATTTACATAATAGGATAAAGATTTTTGTCCTTTTCTGTGTGGTGTGTGGACTGGA
i canFam3.chr11            I 4 C 0
s dasNov3.JH567306           2616737 333 +   3667625 TGCTAAAAGGA----GCCCAGGTGTTCCTTAATAGAAATGACATGGGGCACATTACATACTCTCTAATTACA----GTCTTTCA-TGatcatagactgctaaagcttttaacaaattatctcacagtataaacccttcattttaca-aagggg-agaccaaggcaaagagTCCATTTCTAAAATGTCCTGTTTTCAATAGGAATGAAACAGACACTTAGGTTGAGGGAAAAGAACCATTTAC--------------ACCTCACTGAGATACCC-AATTTTCCTCCTCTTTTTGAGAATGAAGTTAGCATACCTTTAAAACCTAAATTTACATAATAGAGTTAAAA-TTTT-------------------GTGGTCTGTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60531115 581 + 108143057 I

a score=1050616.000000
s hg38.chr5_KI270796v1_alt     68492 101 +    172708 GATTGTGTGCTATATAGACTTGATTTTCAGGCAGAAATTTTAAAAT-GAGTG-----TTTTTTTCATGGTCTGTCCTATAATCAAACCATCTCATGAAGAATGAAGA
s panTro5.chr5             125178598 100 + 181907262 GATTGTGTGGTATATAGACTTGATTTTCAGGCAGAAATTTTAAAAT-GAGTG-----TTTTTTTCATGGTCTGTCCTATAATCAAACCATCTCATGAAG-ATGAAGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126515628 100 + 183735486 GATTGTGTGGTATATAGACTTGATTTTCAGGCAGAAATTTTAAAAT-GAGTG-----TTTTTTTCATGGTCTGTCCTATAATCAAACCATCTCATGAAG-ATGAAGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1707011 101 +   8933513 GATTGTATGGTATATAGACTTGATTTTCAGGCAGAAATTTTAAAAT-GAGTG-----TTTTTTTCATGGTCTGTCCTATAATCAAACCATCTCATGAAGAATGAAGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139837835  97 + 163208435 GATTGTATGGTATATAGACTTGATTTTCAGGCAGAAATTTTAAAAT-GAGTG-----CTTTTTTCAT----TGTCCCATAATCAAACCATCTCATGAAGAATGAAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122827208 101 + 180051392 GACTGCATGGTATATAGACTTGATTTTCAGGCAGAAACGTTAAAAT-GAGTG-----TTTTTTTCAGTGTCTGTCCCATAATCAGACCATCCCATGAAGAATGAAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124250858 101 + 181584905 GACTGCATGGTATATAGACTTGATTTTCAGGCAGAAACGTTAAAAT-GAGTG-----TTTTTTTCAGTGTCTGTCCCATAATCAGACCATCCCATGAAGAATGAAGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16248726 101 +  18395747 GACTGCATGGTATATAGACTTGATTTTCAGGCAGAAACGTTAAAAT-GAGTG-----TTTTTTTCAGTGTCTGTCCCATAATCAGACCATCCCATGAAGAATGAAGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5260792 101 +  26952557 GACTGCATGGTATATAGACTTGATTTTCAGGCAGAAATGTTAAAAT-GAGTG-----TTTTTTTCAGTGTCTGTCCCATAATCAGACCATCCCATGAAGAATGAAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28362588 101 +  82825804 AACTGCATGGTATATAGACTTGATTTTCAGGCAGAAATGTTAAAAT-GAGTG-----TTTTTTTCAGTGTCTGTCCCATAATCAGACCATCCCATGAAGAATGAAGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4029409 101 -   4237731 GACTGCATGGTATATAGACTTGATTTTCAGGCAGAAATGTTAAAAT-GAGTG-----TTTTTTTCAGTGTCTGTCCCATAATCAGACCATCCCATGAAGAATGAAGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      300079 101 -   1175262 GACTGCATGGTATATAGACTTGATTTTCAGGCAGAAATGTTAAAAT-GAGTG-----TTTTTTTCAGTGTCTGTCCCATAATCAGACCATCCCATGAAGAATGAAGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123644291 106 - 204313951 GACTGTGTGGTATACAGACTTGGGTTTCAGGCAGAAATTTTGAAAT-GAGTGTGTTTTTTTTTTTGGTGTCTGTCCCATAATCAAACCATCCCATGAAGAATGAAGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55689132 102 -  71252344 GACTGTATGGTAGATAGACTTGGGTTTCAGGCAGAAATTTTAAAAT-GAGTG----TTTTTTTTCGGTGTCTGTCCCGTAATCAAACCATCCCATGAAGAATGAAGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1393136 104 -   1400280 GACTGTATGGTATATAGACTTGGGTTTCAGGCAGAAATTTTAAAAT-GAGTG--TTTTTTTTTTTGGTGTCTGTCCCGTAATCAAGCCATCCCATGAAGAATGAAGA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13190499 103 -  42888418 GACTGTATGGTATATAGACTTGGGTTTCAGGCAGAAATTTTCAGGCAGAGTG----TTTTCTTTCGATCTCTGTCCCGTAATCAAACCATCCCATGAAGAATGAAGA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3061036  86 +   4132165 ---TGGGTGG--------CTGGGTCCTCCGACAGGGA---TAAAAC-GAATG------CTTTTCCTGTGCCTGTCCAGTCATCAAGCCACCCCCTGAAGAACTCAGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55506731  70 +  90702639 ---CGGGTGCCA--------TGATCCTTAGGCAGGAATG--AAAAT-GA-TG-----CTCTTTGTGTGGT-----------------TGTCCCGCCAAGAATGAAGA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14907424  87 +  74389097 ---TGGGTGCCA--------CGGTCCTCAGGCAGAAATG--AAAAT-GAACG-----CTTTTTTCTGTGCTGGTCCCACAATGAAACCA-CCCATGAAGAACTAAGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2617070  94 +   3667625 GATTAGATGGGA----ACCTCACTCTATAGGCAGAAGTG--AAAAT-GAGTG-----CTGTTTAC-GCCTGGGCGCCATACTCCCACCAGCCCCTGAGAAACTGTGA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60531115 581 + 108143057 I
e proCoq1.NW_012155062v1     3573160  90 +  11683526 I

a score=911031.000000
s hg38.chr5_KI270796v1_alt     68593 67 +    172708 TCTGTCCCTGTGGGTCTCTAGCCTCAAGGATCTGCTGTGTCGTGA-CTCAAAT----TCCAG---ATGGTGTAGA
s panTro5.chr5             125178698 67 + 181907262 TCTGTCCCTGTGGGTCTCTAGCCTCAAGGATCTGCTGTGTCGTGA-CTCAAAT----TCCAG---ATGGTGTAGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126515728 67 + 183735486 TCTGTCCCTGTGGGTCTCTAGCCTCAAGGATCTGCTGTGTCGTGA-CTCAAAT----TCCAG---ATGGTGTAGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1707112 67 +   8933513 TCTGTCCCTGTGGGTCTCTAGCCTCAAGGATCTGCTGTGTCGTGA-CTCAAAT----TCCAG---ATGGTGTAGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139837932 67 + 163208435 TCTGTCCCTGTGGGTCTCTAGCCTCAAGGATCTGCTGTGTCGTGA-CTCAAAT----TCCAG---ATGGTGTAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122827309 67 + 180051392 TCTGTCCCTGTAGGTCTCTAGCCTCAAGGATCTGCTGTGTCGTGA-CTCACAT----TCCAG---ATGGTATAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124250959 67 + 181584905 TCTGTCCCTGTAGGTCTCTAGCCTCAAGGATCTGCTGTGTCGTGA-CTCACAT----TCCAG---ATGGTATAGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16248827 70 +  18395747 TCTGTCCCTGTAGGTCTCTAGCCTCAAGGATCTGCTGTGTCGTGA-CTCACAT----TCCAGATTATGGTATAGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5260893 67 +  26952557 TCTGTCCCTGTAGGTCTCTAGCCTCAAGGATCTGCTGTGTCGTGA-CTCACAT----TCCAG---ATGGTATAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28362689 67 +  82825804 TCTGTCCCTGTAGGTCTCTAGCCTCAAGGACCTGCTGTGTCGTGA-CTCACAT----TCCAG---ATGGTATAGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4029510 67 -   4237731 TCTGTCCCTGTAGGTCTCTAGCCTCAAGGATCTGCTGTGTCGTGA-CTCACAT----TCCAG---ATGGTATAGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      300180 71 -   1175262 TCTGTCCCTGTAGGTCTCTAGGCTCAAGGATCTGCTGGGTCGTGA-CTCACATTCCATCCAG---ATGGTATAGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123644397 67 - 204313951 GCTGTCCCTGTGGGTCTCTAGCCTCAAGGATCTGCGGTGTCTTGA-CTCGAAT----TCCAG---ATGGTTTAGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55689234 67 -  71252344 GCTGTCCCTGTGGGTCTCTAGCCTCAAGGAGCTGCAGTGTCTTGA-TTCAGAT----TCCAG---ATGGTTTAGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1393240 67 -   1400280 GCTGTCCCTGTGGGTCTCTAGCCTCAAGGAGCTGCAGTGTCTTGA-CTCAAAT----TCCAG---ATGGTTTAGA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13190602 67 -  42888418 GCTGTCCCTGTGGGTTTCTAGCCTCAAGGAGCTGCAGTGTCTTGA-CTCAAAT----TCCAG---ATGGTTTAGA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3573250 68 +  11683526 TATCTCCCTGTGGGCCTCTCGCCTGAGGGATCTGCAGTGTCTTGAACTCAAAC----TCCGG---ATGGTTTAGA
i proCoq1.NW_012155062v1   I 90 C 0
s otoGar3.GL873679           3061122 66 +   4132165 CATTTCCCTGGGGGCCGCCTGCCTGCGAGATCTGCAGTGTC--AACCTCAAGC----TCCAG---ATGGTTTAGA
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55506801 66 +  90702639 -GTACCCCTGCGGGTCACCAGCTTGAATGGTTTGTAATATTCCGC-CCCAAAC----TCCAG---ATGGCTTAGA
i mm10.chr18               C 0 I 1
s canFam3.chr11             14907511 67 +  74389097 GGTGTCCATGTGCGCCTGCAGCTTGAGCGATCTCAAGTGTCCTGA-CCCAAAC----TCCAG---ATGGTATAGA
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2617164 67 +   3667625 GGTAGCCCTGTAGGTCTCTAGTTTGAGGGACCTGAACTGTCCTGC-CTCAAAG----TCCAG---ATGGCTTAGC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60531115 581 + 108143057 I

a score=1470273.000000
s hg38.chr5_KI270796v1_alt     68660  99 +    172708 -TTTACTTTGTTGAC-CCAAACCCCATGTTTTCTTTC-----------TTTTTTT----------TCTTTTAATT---------TAAAAAAACAGTATCATAATTTATTGATTGCTCTTGGG----GAATGAACT---
s panTro5.chr5             125178765  99 + 181907262 -TTTACTTTGTTGAC-CCAAACCCCATGTTTTCTTTC-----------TTTTTTT----------TCTTTTAATT---------TAAAAAAACAGTATCATAATTTATTAATTGCTCTTGGG----GAATGAACT---
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126515795  98 + 183735486 -TTTACTTTGTTGAC-CCAAACCCCATGTTTTCTTTC------------TTTTTT----------TCTTTTAATT---------TAAAAAAACAGTATCATAATTTATTAATTGCTCTTGGG----GAATGAACT---
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1707179  98 +   8933513 -TTTACTTTGTTGAC-CCAAACCCCATGTTTTCTTTC------------TTTTTT----------TCTTCTAATT---------TAAAAAAACAGTATCATAATTTATTAATTGCTCTTGGG----AAATGAACT---
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139837999 100 + 163208435 -TTTACTTTGTTGAC-CCAAACCCCATGTTTTCTTTC----------TTTTTTTT----------TCTTTTAATT---------TAAAAAAACAGTATCATAATTTATTAATTGCTCTTGGG----GAATGAACT---
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122827376 100 + 180051392 -TTTACTTTGTTGAC-CCAAACCCCGTGTTTTCTTTC----------TTTTTTTT----------TCTTTTAATT---------TAAAAAAGCAGTATCATAATTTATTAATTGTTCTCGGG----GAATGAACT---
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124251026 100 + 181584905 -TTTACTTTGTTGAC-CCAAACCCCGTGTTTTCTTTC----------TTTTTTTT----------TCTTTTAATT---------TAAAAAAGCAGTATCATAATTTATTAATTGTTCTCGGG----GAATGAACT---
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16248897 100 +  18395747 -TTTACTTTGTTGAC-CCAAACCCCGTGTTTTCTTTC----------TTTTTTTT----------TCTTTTAATT---------TAAAAAAGCAGTATCATAATTTATTAATTGTTCTCAGG----GAATGAACT---
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5260960 100 +  26952557 -TTTACTTTATTGAC-CCAAACCCCGTGTTTTCTTTC----------TTTTTTTT----------TCTTTTAATT---------TAAAAAAGCAGTATCATAATTTATTAATTGTTCTCGGG----GAATGAACT---
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28362756  99 +  82825804 -TTTACTTTGTTGAC-CCAAACCCCGTGTTTTCTTTC-----------TTTTTTT----------TCTTTTAATT---------TAAAAAAGCAGTATCATAATTTATTAATTGTTCTCGGG----GAATGAACT---
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4029577 101 -   4237731 -TTTACTTTATTGAC-CCAAACCCCGTGttttctttc---------ttttttttt----------tcttttAATT---------TAAAAAAGCAGTATCATAATTTATTAATTGTTCTCGGG----GAATGAACT---
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      300251 101 -   1175262 -TTTACTTTGTTGAC-CCAAACCCCGTGttttctttc---------ttttttttt----------tcttttAATT---------TAAAAAAGCAGTATCATAATTTATTAATTGTTCTCAGG----GAATGAACT---
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123644464 100 - 204313951 -TTTACATTGTTGA--CCAAACCCCATGTTTTCTTTC---------TTTTTTTTT----------CCTTTTAATT---------AAAAAAAGCGGTATCGTGATTTATTAATTGCTGTCAGG----GAATGAACT---
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55689301 109 -  71252344 -TTTACTATGTTGA--CCAAACCCCATGTtttctttctttctttttttttttttt----------cctttTAATT---------AAAAAAAGCAGTATCATGATTTATTAATCGCTGTCAGG----GAATGAACT---
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1393307 101 -   1400280 -TTTACTTTGTTGA--CCAAACCCCATGTTTTCTTTC--------TTTTTTTTTT----------TCCTTTAATT---------AAAAAAAGCAGTATCATGATTTATTAATTGCTGTCGGA----GAATGAACT---
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13190669  99 -  42888418 -TTTACTTTGTTGA--CCAAACCCCATGTTTTCTTTC----------TTTTTTTT----------CCTTTTAATT---------AAAAAAAGCAGTATCATGATTTATTAATTGCTGTCGGG----GAATGAACT---
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60531696  97 + 108143057 -TTTACTTTGTTGAC-CCCAATCTCATGTTTTCTTTC----------TTTTTT------------GCCTTAAATT---------CAAGAAAGCAGTACCATAACTTATTAATTGCTGT-GGG----GAGTGAACT---
i micMur3.chr12            I 581 I 20
s proCoq1.NW_012155062v1     3573318  90 +  11683526 -TTTACTTCGTCGAC-CCCAATCTCATGTTTTCTTTC----------TTTT--------------------AATT---------CAAAAAAGCAGTATCATAATTTATTAATTGCTGTGGGG----GAGTGAACT---
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3061189 109 +   4132165 -TTTACTTTGTTGAC-CCCAGCCTCATGTTTTCTTTC----------TTTCTTTTCTTTTTTTTGTCTTTTAATT---------CATAAAAGCAGTATCATAGTTTATTAATTGCTGT-GGG----GGTTGATCT---
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55506868 113 +  90702639 -TTCACTTTGTTGAC-CCGAATCCTGTGTTTTCTTTC-----TTCCTTCCTTTTT----------CTCtttaattaaaaaaaaaaaaaaaaGCAGTGTCATAATTTATTAATTGGTGT-AGG----GAAGGAACT---
i mm10.chr18               I 1 C 0
s canFam3.chr11             14907579 104 +  74389097 -TTTGCTTTGTTGACTCTCAACCCCATGTTTTCTTTA-------CTTTTTTTTTT----------TTTTTTAATT---------CACAGAAACAGTGTCCTAATTTATTAACGTCTGTGGGG----AAATCAAGT---
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2617231 101 +   3667625 TTTCACTTTGTTGAC-CCCTAAACCATGTTTCCTTTA----------CTTTTTCT-----------------ATT---------CAAAAAGGCAGtataataatttattaattaatGGCGGGTGGAGGGTGGATAACA
i dasNov3.JH567306         C 0 C 0

a score=285403.000000
s hg38.chr5_KI270796v1_alt     68759 22 +    172708 TCCAATGCCCATCTT---GTGGCCT
s panTro5.chr5             125178864 22 + 181907262 TCCAATGCCCATCTT---GTGGCCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126515893 22 + 183735486 TCCAATGCCCATCTT---GTGGCCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1707277 22 +   8933513 TCCAATGCCCATCTT---GTGGCCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139838099 22 + 163208435 TCCAATGCCCATCTT---GGGGCCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122827476 22 + 180051392 TCCAATGCCCATCTT---GTGGCCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124251126 22 + 181584905 TCCAATGCCCATCTT---GTGGCCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16248997 22 +  18395747 TCCAATGCCCATCTT---GTGGCCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5261060 22 +  26952557 TCCAATGCCCATCTT---GTGGCCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28362855 22 +  82825804 TCCAATGCCCATCTT---GTGGCCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4029678 22 -   4237731 TCCAATGCCCATCTT---GTGGCCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      300352 22 -   1175262 TCCAATGCCCATCTT---GTGGCCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123644564 22 - 204313951 TCCAATGGCCATCCC---TGGGCCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55689410 21 -  71252344 T-CAATGGCCATCCC---TTGGCCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1393408 22 -   1400280 TCCAATGGCCATCCC---TTGGCCT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13190768 22 -  42888418 TCCAATGGCCATCCC---TTGGCCT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3573408 22 +  11683526 CCCAATGCCCATCCT---GTGGCCT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3061298 22 +   4132165 CCCCAAGCCCGTCGT---ATGGCCT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55506981 22 +  90702639 CCCAATGGCGGCCCT---GTGGTCT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14907683 25 +  74389097 CCCAACACCAGCCCTACGACGGCCT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2617332 21 +   3667625 CCTAATGCCTGTCCT---G-GATCT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60531793 20 + 108143057 I

a score=8732260.000000
s hg38.chr5_KI270796v1_alt     68781 458 +    172708 GGCAGGGAGA---AATTTCCCAGTTCTGTTTGAGCGAGC--TGTCCACTCCACTTGGCACTTGAACAGGCTAAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCATTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC--TTTTT-------------ATTCTTCTTGTTCT-ATAGCAACTG-AAAGAG---AAAAAGACTCGTACTGTATTTCCACAAAAGCGTAGGGAAGCTCGCGTTGGCAGCCTCTTGCGACAGAATGAATACATGCTACTGAGTACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACTGGTGTTGGCTTTGAATTCCACCTCTCTTTTACTGAGCGCCTCCTCGCCGTGATGGTTCC-ACCCCCAATCCTCACAGCACAGAGCGTCAGGGACT-CAGATCTCCTCTCTGCTGTGG
s panTro5.chr5             125178886 458 + 181907262 GGCAGGGAGA---AATTTCCCAGTTCTGTTTGAGCGAGC--TGTCCACTCCACTTGGCACTTGAACAGGCTAAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCATTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC--TTTTT-------------ATTCTTCTTGTTCT-ATAGCAACTG-AAAGAG---AAAAAGACTCGTACTGTATTTCCACAAAAGCGTAGGGAAGCTCGCGTTGGCAGCCTCTTGCGACAGAATGAATACATGCTACTGAGTACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACTGGTGTTGGCTTTGAATTCCACCTCTCTTTTACTGAGCGTCTCCTCGCCGTGATAGTTCC-ACCCCCAATCCTCACAGCACAGAGCGCCAGGGACT-CAGATCTCCTCTCTGCTGTGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126515915 458 + 183735486 GGCAGGGAGA---AATTTCCCAGTTCTGTTTGAGCGAGC--TGTCCACTCCACTTGGCACTTGAACAGGCTAAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCATTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC--TTTTT-------------ATTCTTCTTGTTCT-ATAGCAACTG-AAAGAG---AAAAAGACTCGTACTGTATTTCCACAAAAGCGTAGGGAAGCTCGCGTTGGCAGCCTCTTGCGACAGAATGAATACATGCTACTGAGTACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACTGGTGTTGGCTTTGAATTCCACCTCTCTTTTACTGAGCGTCTCCTCGCCGTGATAGTTCC-ACCCCCAATCCTCACAGCACAGAGCGCCAGGGACT-CAGATCTCCTCTCTGCTGTGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1707299 458 +   8933513 GGCAGGGAGA---AATTTCCCAGTTCTGTTTGAGCGAGC--TGTCCACTCCACTTGGCACTTGAACAGGCTAAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCATTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC--TTTTT-------------ATTCTTCTTGTTCT-ATAGCAACTG-AAAGAG---AAAAAGACTCGTACTGTATTTCCACAAAAGCGTAGGGAAGCTCGCGTTGGCAGCCTCTTGCGACAGAATGAATACATGCTACTGAGTACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACCGGTGTTGGCTTTGAATTCCACCTCTCTTTTACTGAGCGCCTCCTCGCCGTGATAGTTCC-ACCCCCAATCCTCACAGCACAGAGCGCCAGGGACT-CAGATCTCTTCTCTGCTGTGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139838121 458 + 163208435 GGCAGGGAGA---AATTTCCCAGTTCTGTTTGAGCGAGC--TGTCCACTCCACTTGGCCCTTGAACAGGCTAAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCATTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC--TTTTT-------------ATTCTTCTTGTTCT-ATAGCAACTG-AAAGAG---AAAAAGACTCTTACTGTATTTCCACAAAAGCGTAGGGAAGCTCGCGTTGGCAGCCTCTTGCGACAGAATGAATACATGCTACTGAGTACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACTGCTGTTGGCTTTGAATTCCACCTCTCTTTAACTGAGCGCCTCGTCGCCGTGATAGTTCC-ACCCCCAATCCTCACAGCACAGAGCGCCAGGGACT-CAGATCTCTTCTCTGCTGTGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122827498 458 + 180051392 GGCAGGGAGA---AATTTCCCAGTTCTGTTTGAGCGAGC--TGTCCACTCCACTTGGCACTTGAACAGGCTAAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCATTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC--TTTTT-------------ATTCTTCTCGTTCT-ATAGCAACTG-AAAGGG---AAAAAGACTCGTACTGTATTTCCACAAAAGCGTAGGGAAGCTCGCGTTGGCAGCCTCTTGCAACAGAATGAATACATGCTACTGAGTACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACTGGTGTTGGCTTTGAATTCCACCTCTCTTTTACTGAGCACCTCCTCGCCGTGATAGTTCC-ACCCCCAATCCTCACGGCACAGAGCGCCAGGGACT-CAGATCTCCTCTCTGCTGTGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124251148 458 + 181584905 GGCAGGGAGA---AATTTCCCAGTTCTGTTTGAGCGAGC--TGTCCACTCCACTTGGCACTTGAACAGGCTAAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCATTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC--TTTTT-------------ATTCTTCTCGTTCT-ATAGCAACTG-AAAGGG---AAAAAGACTCGTACTGTATTTCCACAAAAGCGTAGGGAAGCTCGCGTTGGCAGCCTCTTGCAACAGAATGAATACATGCTACTGAGTACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACTGGTGTTGGCTTTGAATTCCACCTCTCTTTTACTGAGCGCCTCCTCGCCGTGATAGTTCC-ACCCCCAATCCTCACGGCACAGAGCGCCAGGGACT-CAGATCTCCTCTCTGCTGTGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16249019 458 +  18395747 GGCAGGGAGA---AATTTCCCAGTTCTGTTTGAGCGAGC--TGTCCACTCCACTTGGCACTTGAACAGGCTAAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCGTTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC--TTTTT-------------ATTCTTCTTGTTCT-ATAGCAACTG-AAAGGG---AAAAAGACTCGTACTGTATGTCCACAAAAGCGTAGGGAAGCTCGCGTTGGCAGCCTCTTGCAACAGAATGAATACATGCTACTGAGTACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACTGGTGTTGGCTTTGAATTCCACCTCTCTTTTACTGAGCGCCTCCTCGCCGTGATAGTTCC-ACCCCCAATCCTCACGGCACAGAGCGCCAGGGACT-CAGATCTCCTCTCTGCTGTGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5261082 458 +  26952557 GGCAGGGAGA---AATTTCCCAGTTCTGTTTGAGCGAGC--TGTCCACTCCACTTGGCACTTGAACAGGCTAAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCATTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC--TTTTT-------------GTTCTTCTTGTTCT-ATAGCAACTG-AAAGGG---TAAAAGACTCGTACTGTATTTCCACAAAAGCGTAGGGAAGCTCGCGTTGGCAGCTTCTTGCAACAGAATGAATACATGCTACTGAGTACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACTGGTGTTGGCTTTGAATTCCACCTCTCTTTTACTGAGCGCCTCCTCGTCGTGATAGTTCC-ACCCCCAATCCTCACGGCACAGAGCGCCAGGGACT-CAGATCTCCTCTCTGCTGTGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28362877 458 +  82825804 GGCAGGGAGA---AATTTCCCAGTTCTGTTTGAGCGAGC--TGTCCACTCCACTTGGCACTTGAACAGGCTAAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCGTTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC--TTTTT-------------ATTCTTCTTGTTCT-ATAGCAAATG-AAAGGG---AAAAAGACTCGTACTGTATTTCCACAAAAGCGTAGGGAAGCTCGCGTTGGCAGCCTCTTGCAACAGAATGAATACATGCTACTGAGTACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACTGGTGTTGGCTTTGAATTCCACCTCTCTTTTACTGAGCGCCTCCTCGCCGTGATAGTTCC-ACCCCCAATCCTCACAGCACAGAGCGCCAGGGACT-CAGATCTTCTCTCTGCTGTGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4029700 458 -   4237731 GGCAGGGAGA---AATTTCCCAGTTCTGTTTGAGCGAGC--TGTCCACTCCACTTGGCACTTGAACAGGCTAAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCGTTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC--TTTTT-------------ATTCTTCTTGTTCT-ATAGCAACTG-AAAGGG---AAAAAGACTCGTACTGTATTTCCACAAAAGCGTAGGGAAGCTCGCGTTGGCAGCCTCTTGCAACAGAATGAATACATGCTACTGAGTACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACTGGTGTTGGCTTTGAATTCCACCTCTCTTTTACTGAGCGCCTCCTCGTCGTGATAGTTCC-ACCCCCAATCCTCACGGCACAGAGCGCCAGGGACT-CAGATCTCCTCTCTGCTGTGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      300374 458 -   1175262 GGCAGGGAGA---AATTTCCCAGTTCTGTTTGAGCGAGC--TGTCCACTCCACTTGGCACTTGAACAGGCTAAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCATTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC--TTTTT-------------ATTCTTCTTGTTCT-ATAGCAACTG-AAAGGG---AAAAAGACTCGTACTGTATTTCCACAAAAGCGTAGGGAAGCTCGCGTTGGCAGCCTCTTGCAACAGAATGAATACATGCTACTGAGGACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACTGGTGTTGGCTTTGAATTCCCCCTCTCTTTTACTGAGCGCCTCCTCGCCGGGATAGTTCC-ACCCCCAATCCTCACAGCACAGAGCGCCAGGGACT-CAGATCTCCTCTCTGCTGTGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123644586 449 - 204313951 GGCGGGGAGA---AATCTCCCAGTTCTGTTTGAGCGAGC--TGTCCACTCCACTTGGCACTTGAACAGGCTAAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCATTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC--TTTTT-------------ATTCTTCTTGTTCT-ATAGCAACTG-AAAGGA---AAAAAGACTCTTACTGTATTTCCACAAAAGCGTAGGGAAGCTCGCGCTGGCAGCCTCTTGCGACAGAATGAATACATGCTACTGAGCACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACTGGTGTTGGCTTTGAATTCCACCTCTCTTTTACTGAGCGCCTCCTC---------GTTCC-ACCCCCAATCCTCACAGCACAGAGCGTCCTGGACT-CAGATCTCCTCTCTGCTGTGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55689431 449 -  71252344 GGCAGGGAGA---AATCTCCCAGTTCTGTTTGAGCGAGC--TGTCCACTCCACTTGGCACTTGAACAGGCTAAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCATTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC--TTTTT-------------ATTCTTCTTGTTCT-ATAGCAACTG-AAAGGG---AAAAAGACTCTTACTGTATTTCCACAAAAGCGTAGGGAAGCTCGCGCTGGCAGCCTCTTGCGACAGAATGAATACATGCTACTGAGTACAGACCATTTGTCTCCTGATTACAACGGACCCCAGGGGAACCGGTGCTGCCTTTGAATTCCACCTCTCTTTTACTGAGCGCCTCCTC---------GTTCC-ACCCCCAATCCTCACAGCACAGAGCGCCCGGGACT-CACATCTCCTCTCTGCTGTGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1393430 449 -   1400280 GGCAGGGAGA---AATCTCCCAGCTCTGTTTGAGCGAGC--TGTCCACTCCACTTGGCACTTGAACAGGCTAAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCATTTTGAACTGTCTGAGTAACTAGATCAAAGACCAATGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC--TTTTT-------------ATTCTTCTTGTTCT-ATAGCAACTG-AAAGGG---AAAAAGACTCTTACTGTATTTCCACAAAAGCATAGGGAAGCTTGCGCTGGCAGCCTCTTGCGACAGAATGAATACATGCTACTGAGTACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACTGGTGTTGGCTTTGAATTCCACCTCTCTTTGACTGAACGCCTCCTC---------GTTCC-ACCCCCAATCCTCACAGCACAGAGTGCCCGGGACT-CACATCTCCTCTCTGCTGTGG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13190790 449 -  42888418 GGCAGGGAGC---AATCTCCCAGTTCTGTTTGAGCAAGC--TGTCCACTCCACTTGGCACTTGAACAGGCTAAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCATTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC--TTTTT-------------ATTCTTCTTGTTCT-ATAGCAACTG-AAAGGG---AAAAAGACTCTTACTGTATTTCCACAAAAGCGTAGGGAAGCTCGCACTGGCAGCCTCTTGCGACAGAATGAATACATGCTACTGAGTACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACTGGTGTTGGCTTTGAATTCCACCTCTCTTTTACTGAGCGCCTCTTC---------GTTCC-ACCCCCAATCCTCATAGCACAGAGCGCCCGGGACT-CAGATCTCCTCTCTGCTGTGG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60531813 452 + 108143057 GGCGGGGAGA---AATTTCCCAGTTCTGTTGGAGAGGGC--TGTCCACCCCGCTTGGCACTTGAGCAAGCCGAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCATTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC-TTTTTT-------------ATTCTTCTTGTTCT-AAAGCAACTG-AAAGGG---GGAAAGACTCGTGCTGTATTTCCACAAAAGCGCAGGGAAGCTCGCATTGGCAGCCTCTTGCGGCAGAATGAATACATGCTACTGAGTACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACTGCTGTTGGCTTTGAATTCCACCTCTCTTTTTCTGAGTGCCGCCTCTCCATGACAGTTCC-ACCCCCAGTCCTCAT-------AGCAATGGGGACT-CAGATCTTCTCTCTGCTGTGG
i micMur3.chr12            I 20 C 0
s proCoq1.NW_012155062v1     3573430 453 +  11683526 GGCAGGGAGA---AATTTCCCAGTTCTGTTGGAGA-GGC--TGTCCACCCCGCTTGGCACTTGAACAAGCCGAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTCATTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGAC-TTTTTT-------------ATTCTTCTTGTTCT-AAAGCAACTG--AAGGG---AAAAAGACTCATACTGTATTTCCACAAAAGCACAGGGAAGCTCGCATTGGCAGCCTCTTGCGACAGAATGAATACATGCTACTGAGTACAGACCATTTGTCTCCTGATTACAGCAGACCCCAGGGGAGCTGGTGTTGGCTTTGAATTCCAC--CTCTTTTTCTGAGTGCCGCCTCTCCGTGACAGTTC---ACCCCAATCCTCACAGCACAGAGCAGTGGGGACT-CAGATCTCCTCTCTGCTGTGG
i proCoq1.NW_012155062v1   C 0 I 469
s otoGar3.GL873679           3061320 460 +   4132165 GGCAGGGAGA---AATTTCCCAGTTCTATTTGAGAGGGC--CGTCCACCCCGCTTGGCACGTGAACAAGCTGAAATGGAATGGCTTTTGTTGTAAACACCTAATTTGTTCATTTTGAACTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAACGCCCAAAGCAGTGTTTGTCAGCAGTGGAC-TTTTTT-------------ATTCTTCTTGTTCT-AAAGCAACTG-AAAGGG--AAAAAAGACTCGTACTGTATTTCCACAAAAGCGTTGGGAAGCTCGCATTGGCAGCCTCTCCCGACAGAATGAATACATGCTGCTGAGTACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAGCTGGTGTTGGCTTTGAATTCCACCTCTCTTTTTCCCAGCGCCTCCTCTCCATGGCAGTTCC-ACCCCCAGTCCTCACGGCACAGATCACTGGGGACT-CAGATCTCCTCTCTGCTGTGG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55507003 457 +  90702639 GGCAGTGGAA---AATTTCCCAGCTCTGCCGGAGAAGGC--TGTCCAGCCAGCTTGGCACTTGAATGGACTGAAATGAAATGTCTTTTGTTGTAAACACCTAATTTGTTCATTTTGAACTGTCTGAGTAACTAGATCAAAGACGAATGTCAAATGCCCAAAGCAGTGTTTGTCAGCACTGCAC--TTTTG-------------ATTCTTCTTGTTGTAAAAGCAACTGAAAAGGG---GGAAAGCCTCAGACTGGATTTTCACAAAAGCACAGGGAAGCTGGGGTTGGCAGCCTCTTGCTGCAGAATGAATGCACACTACAGAGTATAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACTGGTGTTGGCTTTGAATTCCACCTCTTTTTCTCTGAGAGCCTTCTA---GTGACAGCTCC-TCCCCCAGTCCTCACAGCATAGAGCCCTCGGGACTGCAGATCTCCTCCCTG-TGTGG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14907708 477 +  74389097 GGCAAGGAGACATCATTTCCCAGCTCCGTTTGAGAAGACTTTGTCCACCCTGCTTGGCACTTGGACAGGCTGAAACGGAATGTCTTTTGTTGTAAACACCTAATTTGTTTATTTTGAACTGTCTGAGTAGCTAGATCAAAGACCAATGTCAAATGCCCAAAGCAATGTTTGTCAGCAGTGGAC--ttttttttttttttttaaattCTCCTTGTCCTTAAAGCAACCG-AAAGGGGGGAAAAATACTCATACTGTATTTCCACAAAAGCGTAGGAAAGTTCATTTTGGCAGCCTCTTGCAACAGAATGAATACATGCTACTGAGTACAGACCATTTGTCTCCTGATTACAACAGACCCCAGGGGAACTGGTGTTGGCTTTGAATTCCACCTCTCTTTCTCCCACAGCCTCCTTGCTGTGACAGTTCC-ACCCCCAATCCTCAGAGCACAGAGCACTAGGGAGT-CAGATCTCTTCGCCG-TGT--
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2617353 458 +   3667625 GGCAGGGAGA---AATTTCCCAGCTCTGTTTGAGATGGC--CATCCACCCCGCTTGGCACTTGAATAGCCTGAAATGGAATGTCTTTTGTTGTAAACACCTAATTTTTTCATTTTGAGCTGTCTGAGTAACTAGATCAAAGACCAGTGTCAAATGCCCAAAGCAGTGTTTGTCAGCAGTGGACTTTTTTT-------------ATTCTTCTTGTTCT-AAAGCAACTA-AAAGGG---AAAAAGACTCGTACTGTATTTCCACAAAAGCGCAGGAAAGCTGGCATTGGCAGCCTCTTGTGACAGAATGAATACATGCTACTGAGTACAGACCATTTGTTTCCTGATTACAACAGACCCCAGGGGAACATGTTTTGGCTTTGGATTCTACCTCTTTCTT--TGAGAGCCTTCTCACTGTGACAGTTCCAACCCCCAGTCCTTACTGAATGCAGCACCC-GGAGT-CCTATCTCCTTTCTGTAGTGG
i dasNov3.JH567306         C 0 C 0

a score=3038704.000000
s hg38.chr5_KI270796v1_alt     69239 194 +    172708 GTTTTAGTCAGCTTTCTAAATTCAAACAGGGCCCTCTTGTTTGAAATGTGTTGACTTGTCTTGAACAGTAACATATATTTTTAAACTATTCTCATTTGGAATTCAGCAGTGGCCATAATGAATGCCTTTAGTGCTCCTGTGTGTTTCATATGCATGATAACAAGGGCTTCGGTGTAGAGGAAGGAAACAGAGAA
s panTro5.chr5             125179344 194 + 181907262 GTTTTAGTCAGCTTTCTAAATTCAAACAGGGCCCTCTTGTTTGAAATGTGTTGACTTGTCTTGAATAGTAACATATATTTTTAAACTATTCTCATTTGGAATTCAGCAGTGGCCATAATGAATGCCTTTAGTGCTCCTGTGTGTTTCATATGCATGATAACAAGGGCTTCGGTGTAGAGGAAGGAAACAGAGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126516373 194 + 183735486 GTTTTAGTCAGCTTTCTAAATTCAAACAGGGCCCTCTTGTTTGAAATGTGTTGACTTGTCTTGAATAGTAACATATATTTTTAAACTATTCTCATTTGGAATTCAGCAGTGGCCATAATGAATGCCTTTAGTGCTCCTGTGTGTTTCATATGCATGATAATAAGGGCTTCGGTGTAGAGGAAGGAAACAGAGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1707757 194 +   8933513 GTTTTAGTCAGCTTTCTAAATTCAAACAGGGCCCTCTTGTTTGAAATGTGTTGACTTGTCTTGAACAGTAACATATATTTTTAAACTATTCTCATTTGGAATTCAGCAGTGGCCATAATGAATGCCTTTAGTGCTCCTGTGTGTTTCGTATGCATGATAACAAGGGCTTCGGTGTAGAGGAAGGAAACAGAGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139838579 194 + 163208435 GTTTTTGTCGGCTTTCTAAATTCAAACAGGGCCCTCTTGTTTGAAATGTGTTGACTTGTGTTGAACAGTAACATATATTTTTAAACTATTCTCATTTGGAATTCAGCGGTGGCCATAATGAATGCCTTTAGTGCTTCTGTGCGTTTCATATGCATGATAACATGGGCTTCGGTGTAGAGGAAGGAAACAGAGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122827956 193 + 180051392 GTTTTAGTC-GCTTTCTAAATTCAAGCAGGGCTCTCTTGTTTGAAATGTGTTGACTTGTCTTGAACAGTAACATATATTTTTAAACTCTTCTCATTTGGAATTCAGCAGTGGCCATAATGAATGCCTTTAGTGCTCCTGTGTGTTTGATATGCATGATAACAAGGGCTACGGTGTAGAGGAAGGAAACAGAGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124251606 193 + 181584905 GTTTTAGTC-GCTTTCTAAATTCAAGCAGGGCTCTCTTGTTTGAAATGTGTTGACTTGTCTTGAACAGTAACATATATTTTTAAACTCTTCTCATTTGGAATTCAGCAGTGGCCATAATGAATGCCTTTAGTGCTCCTGTGTGTTTGATATGCATGATAACAAGGGCTACGGTGTAGAGGAAGGAAACAGAGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16249477 193 +  18395747 GTTTTAGTC-GCTTTCTAAATTCAAGCAGGGCTCTCTTGTTTGAAATGTGTTGACTTGACTTGAACAGTAACATATATTTTTAAACTCTTCTCATTTGGAATTCAGCAGTGGCCATAATGAATGCCTTTAGTGCTCCTGTGTGTTTGATATGCATGATAACAAGGGCTACGGTGTAGAGGAAGGAAACAGAGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5261540 193 +  26952557 GTTTTAGTC-GCTTTCTAAATTCAAGCAGGGCTCTCTTGTTTGAAATGTGTTGACTTGTCTTGAACAGTAGCATATATTTTTAAACTCTTCTCATTTGGAATTCAGCAGTGGCCATAATGAATGCCTTTAGTGCTCCTGTGTGTTTGATATGCATGATAACAAGGGCTACGGTGTAGAGGAAGGAAACAGAGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28363335 193 +  82825804 GTTTTAGTC-GCTTTCTAAATTCAAGCAGGGCTCTCTTGTTTGAAATGTGTTGACTTGTCTTGAACAGTAACATATATTTTTAAACTATTCTCATTTGGAATTCAGCAGTGGCCATAATGAATGCCTTTAGTGCTCCTGTGTGTTTGATATGCATGATAACAAGGGCTACGGTGTAGAGGAAGGAAACAGAGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4030158 193 -   4237731 GTTTTAGTC-GCTTTCTAAATTCAAGCAGGGCTCTCTTGTTTGAAATGTGTTGACTTGTCTTGAACAGTAACATATATTTTTAAACTCTTCTCATTTGGAATTCAGCAGTGGCCATAATGAATGCCTTTAGTGCTCCTGTGTGTTTGATATGCATGATAACAAGGGCTACGGTGTAGAGGAAGGAAACAGAGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      300832 193 -   1175262 GTTTCAGTC-GCTTTCTAAATTCACACAGGGCTCTCTTGTTTGAAATGTGTTGACTTGTCTTGAACAGTAACGTATATTTTTAAACTATTCTCATTTGGAATTCAGCAGTGGCCATAATGAATGCCTTTAGTGCTCCTGTGTATTTGATATGCATGATAACAAGGCCTATGGTGTAGAGGAAGGAAACAGAGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123645035 194 - 204313951 GTTTTAGTTGGCTTTCTACATTCAAACAGGGCCCTCTTGTTTGAAATGTGTTGACTTGTCTTGAACAGTAACATATATTTCTAAACTATTCTCATTTGGAATTCAGTGGTGGTCATAATAAATGCCTTCAGTGCTCCTGTGCATTTCATATGCATGGTAACAAGGGCTACGATGCAGAGGAAAGAGACAGAGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55689880 193 -  71252344 ATTTTAGTCGGCTTTCTAAATTCAAACAGGGCCCTCTTGTTTGAAATGTGTTGACTTGTCTTGAACAGTAACATATACTTCGAAACTATTCTCATTTGGAATTCAGCGGTGGCCATAATAAATGCCTT-AGTTCTCCTGTGCATTTCATATGCATGGTAACAAGGTCTACGATGCAGAGGAAGGAGACAGAGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1393879 194 -   1400280 GTTTTAGTCGGCTTTCTAAATTCAGACAGGGCCCTCTTGTTTGAAATGTGTTGACTTGTCTTGAACGGTAACATGTATTTCTAAACTATTCTCATTTGGAATTCAGCGGTGGCCATAATAAATGCCTTTAGTGCTCCTGTGCATTTCATATGCATGGTAACAAGGGCTACGATGCAGAGGAAGGAGACAGAGAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13191239 194 -  42888418 GTTTTAGTCGGCTTTCTAAATTCAAACAGGGCCCTCTTGTTTGAAATGTGTTGACTTGTCTTGAACAGTAATATATATTTCTAAACTATTCTCATTTGGAATTCAGCGGTGGCCGTAATAAATGCCTTTAGTGTTCCTGTGCGTTTCATGTGCATGGTAACAAGGGCTACGATGCAGAGGAAGGAGATAGAGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60532265 193 + 108143057 GTTTCAGTCTGCTTTCTAAACTCAAACA-GCCCCTCTTGCTTGAAACGTGTTGGCTTGTCTTGAACAATAATATATATTTTTTAACTCTTCTCATTTGGAACTCAGTGTTGTCCATGATGAATGCATTTAGTGTTCGTGTGTGTTTCTCATGCATGACCACAAGGGCTATAATGTAAAGGAAGCAAACAGAGAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3574352 194 +  11683526 GTTTTAGTCTGCTTTCTAAATTCAAACAGGGCCCTCTTGTTTGAAACGTGTTAGCTTATCTTGAACAATAATATATATTTTTAAACTATTCTCATTTGGAATTCAGTAGTGTCCATAATGAATGCATTTAGTGTTCATGGGTGTTTCTCATGCATGACTACAAGGGCTATAATGTAAAGGAAGCAAACAGAGAA
i proCoq1.NW_012155062v1   I 469 I 24
s otoGar3.GL873679           3061780 177 +   4132165 GTTGGAGTCTGCTTTCTAAATTCCAACAGGGCCCTCTTATTTGAAATGTGTTGGCTTATCTTGAACAATAATGTATACTTTAAAACTGTTCTCATTTGGAATTCGGTAGTGACCATAATGAATGC-----------------GTTTCTCATGCATGGCAACAAAAGCTGACACAGAGAGGGAGCAGGCAGAGAA
i otoGar3.GL873679         C 0 I 963
s mm10.chr18                55507460 180 +  90702639 GTTTTAGTGTGTGTTC--AATTCAAATAGGGC-----------AAGGGCAGGGATTGGTCCTGAGCAATGATATATATTTTTAAGATGTTCTTGTTTGGAACTCAGTGGAGGCCGTAATGAATGCAATTAGTGCCTATGTGGGCTTCATGCGTACAATAACAAGGACTACCATGTAGGGGAACCAACCAGAGA-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14908185 163 +  74389097 GTTTTAGTCTGCTTTCTAAATTAAAATGGGGCTTTCTTCTTTGTAACATGTTGACTCGTCTCGAAA---AAAATATATCTTTAAACTGTCCTCCTTTACAATGCACTGGTG-CTATCATGAATGCAGTCAATGTGCGTGTGAGTGTCACACACATGGCAATGAGGGC---------------------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2617811 194 +   3667625 ATGTTAGTTTCTTTCATAAATTAAAATAGGACTTTCTTGCTTGAAACGTGTTGACTTGCCTGGAACAATAATACATATTTTTATGCCCTTCTCGTTTGGAATTCAGTGGTGACCATAATGAATGCATTTAGTATTCATGTGAAGTTCAGGTGCATGGCAATGAGTGCCATAACATAGAGAAAGCAAACAGAGAA
i dasNov3.JH567306         C 0 C 0

a score=286466.000000
s hg38.chr5_KI270796v1_alt     69433 27 +    172708 TGACGACCTAAA-AAGTCACCCAGTTCC
s panTro5.chr5             125179538 27 + 181907262 TGACGACCTAAA-ATGTCACCCAGTTCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126516567 27 + 183735486 TGACGACCTAAA-ATGTCACCCAGTTCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1707951 27 +   8933513 TGACGACCTAAA-AAGTCACCCAGTTCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139838773 27 + 163208435 TGACGACCTAAA-ACGTCACCGAGTTCC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122828149 27 + 180051392 TGGCAACCTAAA-AAGTCACCCAGTTCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124251799 27 + 181584905 TGGCAACCTAAA-AAGTCACCCAGTTCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16249670 27 +  18395747 TGGCAACCTAAA-AAGTCACCCAGTTCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5261733 27 +  26952557 TGGCAACCTAAA-AAGTCACCCAGTTCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28363528 27 +  82825804 TGGCAACCTAAA-AAGTCACCCAGTTCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4030351 27 -   4237731 TGGCAACCTAAA-AAGTCACCCAGTTCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      301025 27 -   1175262 TGGCAACCTAAA-AAGTCACCCAGTTCC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123645229 27 - 204313951 TGACGTCCTAAA-AAGTCACCCAGTTGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55690073 27 -  71252344 TGACGTCCTAAA-AAGTCACCCAGTTCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1394073 27 -   1400280 TGACGTCCTAAA-AAGTCACCCAGTTCC
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13191433 27 -  42888418 TGACGTCCTAAA-AAGTCACCCAGTTCC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60532458 24 + 108143057 -GAC--CCTTAA-ATGACACCCAGTCCC
i micMur3.chr12            C 0 C 0
s mm10.chr18                55507640 24 +  90702639 --AAGGCTTGAC-AAGT-ATTCTATCCC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14908348 10 +  74389097 ------------------ATCCAGTCCC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2618005 25 +   3667625 ---GGGCCTAAACAAGGCATCTGGTCCC
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3574546 24 +  11683526 I
e otoGar3.GL873679           3061957 963 +   4132165 I

a score=413850.000000
s hg38.chr5_KI270796v1_alt     69460 35 +    172708 TAATATTAAAAATGGTACAAAAATGGTAGAGCATA
s panTro5.chr5             125179565 35 + 181907262 TAATATTAAAAATGGTACAAAAATGGTAGAGCATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126516594 35 + 183735486 TAATATTAAAAATGGTACAAAAATGGTAGAGCATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1707978 35 +   8933513 TAATATTAAAAATGGTACAAAAATGGTAGAGCATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139838800 35 + 163208435 TAATATTAAAAATGGTACAAAAATGGTAGAGCATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122828176 35 + 180051392 TAATATTAAAAATGCTACAAAAATGGTGGAGCATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124251826 35 + 181584905 TAATATTAAAAATGCTACAAAAATGGTGGAGCATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16249697 35 +  18395747 TAATATTAAAAATGCTACAAAAATGGTGGAGCATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5261760 35 +  26952557 TAATATTAAAAATGCTACAAAAATGGTAGAGCATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28363555 35 +  82825804 TAATATTAAAAATGCTACAAAAATGGTAGAGCATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4030378 35 -   4237731 TAATATTAAAAATGCTACAAAAATGGTAGAGCATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      301052 35 -   1175262 TAATATTAAAAATGGTACAAAAATGGTAGAGCATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123645256 33 - 204313951 TAATATTAAAAAC--TGCAAAAATGGTAGAGCATG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55690100 35 -  71252344 TAATATTAAAAACCGTGAAAAAATGGTAGAGCACG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1394100 35 -   1400280 TAATATTGAAAACCGTGCAAAAATGGTAGAGCATG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13191460 35 -  42888418 TAATATTAAAAACCGTGCAAAAATGGTAGAGCATG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60532482 35 + 108143057 TAATATTAAAAATGGCACCAAAATGGTAGCGGGTA
i micMur3.chr12            C 0 I 59
s proCoq1.NW_012155062v1     3574570 35 +  11683526 TAATATTAAAAATGGCACCAAAATGGTAGTGGGTA
i proCoq1.NW_012155062v1   I 24 C 0
s mm10.chr18                55507664 27 +  90702639 --------AGAATTGCCCAGAAATGGTAACAGATC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14908358 21 +  74389097 TTCTGTGAAAAACTGTACCAG--------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2618030 27 +   3667625 TAACATTGAAAATGGCA--------GTAGTGGGTA
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3061957 963 +   4132165 I

a score=440190.000000
s hg38.chr5_KI270796v1_alt     69495 43 +    172708 TGATGGTCTTACTAGTTATGTGTGAACCCACCTGATCATTTTT
s panTro5.chr5             125179600 43 + 181907262 TGATGGTCTTACTAGTTATGTGTGAACCCACCTGATCATTTTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126516629 43 + 183735486 TGATGGTCTTACTAGTTATGTGTGAACCCACCTGATCATTTTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1708013 43 +   8933513 TGATGGTCTTACTAGTTATGTGTGAACCCACCTGATCATTTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139838835 43 + 163208435 TGATGGTCTTACTAGTTATGTGTGAACCCACCTGATCATTTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122828211 43 + 180051392 TGATGGTCTTACTAGTTATGTGTGAGCCCACCAGACCATTTTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124251861 43 + 181584905 TGATGGTCTTACTAGTTATGTGTGAGCCCACCAGACCATTTTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16249732 43 +  18395747 CGATGGTCTTACTAGTTATGTGTGAGCCCACCAGACCATTTTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5261795 43 +  26952557 CGATGGTCTTACTAGTTATGTGTGAGCCCACCAGACCATTTTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28363590 43 +  82825804 CGATGGTCTTACTAGTTATGTGTGAGCCCACCAGACCATTTTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4030413 43 -   4237731 CGATGGTCTTACTAGTTATGTGTGAGCCCACCAGACCATTTTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      301087 43 -   1175262 CGATGGTCTGACTAGTTATGTGTGAACCCACCAGACCATTTTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123645289 43 - 204313951 CGATGGTCTTACTTGTTATATGTGAGCACACCTGACCATTTTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55690135 43 -  71252344 CGATGGTCTTACTTGTTATGTGTGAGGACACCTGACCATTTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1394135 43 -   1400280 CAATGGTCTTACTTGTTGTGTGTGAGCACACCTGACCATTTTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13191495 43 -  42888418 CGATGGTCTTACTTGTTATGTGTGAGCACACCTGACCATTTTT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3574605 36 +  11683526 -------ATAATTAGCTGTGTGTAAACCTACTTGGTCTTTTTG
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55507691 38 +  90702639 -----CGTTTGCTTGCAGCATGTGAGCCTGATGGCTTGGTGTT
i mm10.chr18               C 0 I 3
s canFam3.chr11             14908379 36 +  74389097 -------CTTGCTAGCTGTGCTTGAGCCCCTTTGCACTGTTTG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2618057 42 +   3667625 CAAAGATATGACTAACTGTACTTGAGCCAACTTGTGGTGTTG-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60532517 59 + 108143057 I
e otoGar3.GL873679           3061957 963 +   4132165 I

a score=390976.000000
s hg38.chr5_KI270796v1_alt     69538 25 +    172708 CCCATTGATTTATAAGGGCTCACGT
s panTro5.chr5             125179643 25 + 181907262 CCCATTGATTTATAAGGGCTCACGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126516672 25 + 183735486 CCCATTGATTTATAAGGGCTCACGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1708056 25 +   8933513 CCCATTGATTTATAAGGGCTCACGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139838878 25 + 163208435 CCCATTGATTTATAAGGGCTCACGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122828254 25 + 180051392 CCCATTGATTTATAAGGGCTCATGT
i rheMac8.chr6             C 0 I 2
s macFas5.chr6             124251904 25 + 181584905 CCCATTGATTTATAAGGGCTCATGT
i macFas5.chr6             C 0 I 2
s macNem1.NW_012012355v1    16249775 25 +  18395747 CCCATTGATTTATAAGGGCTCATGT
i macNem1.NW_012012355v1   C 0 I 2
s cerAty1.NW_012002512v1     5261838 25 +  26952557 CCCATTGATTTATAAGGGCTCATGT
i cerAty1.NW_012002512v1   C 0 I 2
s chlSab2.chr23             28363633 25 +  82825804 CCCATTGATTTATAAGGGCTCATGT
i chlSab2.chr23            C 0 I 2
s manLeu1.NW_012103321v1     4030456 25 -   4237731 CCCATTGATTTATAAGGGCTCATGT
i manLeu1.NW_012103321v1   C 0 I 2596
s colAng1.NW_012119644v1      301130 25 -   1175262 CCCATTGATTTATAAGGGCTCATGT
i colAng1.NW_012119644v1   C 0 I 2
s calJac3.chr2             123645332 25 - 204313951 CCAATTGATTCATAAGGGCTCGTGT
i calJac3.chr2             C 0 I 2
s saiBol1.JH378106          55690178 25 -  71252344 CCAATTGATTTATAAGGGCTCATGT
i saiBol1.JH378106         C 0 I 2
s cebCap1.NW_016107829v1     1394178 25 -   1400280 CCAATTGATTTATAAGGGCTCATGT
i cebCap1.NW_016107829v1   C 0 I 2
s aotNan1.NW_018505940v1    13191538 25 -  42888418 CCAATTGATTTATAAGGGCTCATGC
i aotNan1.NW_018505940v1   C 0 I 2
s proCoq1.NW_012155062v1     3574641 25 +  11683526 CTCATTGATTTATAAGGACTCACAT
i proCoq1.NW_012155062v1   C 0 I 2
s otoGar3.GL873679           3062920 25 +   4132165 CTCATTGATCTATAAGGACTCACAT
i otoGar3.GL873679         I 963 I 3
s mm10.chr18                55507732 25 +  90702639 TATGTTAATTTTTAAGGACTCATAT
i mm10.chr18               I 3 I 3
s canFam3.chr11             14908415 25 +  74389097 CTTGTTGCTTTATGAAGACTCACAT
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2618099 25 +   3667625 CTCATTGATTTACAAGATCTCACAT
i dasNov3.JH567306         C 0 I 2
e micMur3.chr12             60532517 59 + 108143057 I

a score=13494275.000000
s hg38.chr5_KI270796v1_alt     69563 910 +    172708 TGTTTTTCTCCGTGCAGAATTGTTGTTTGGAAATGGACAAGAATGTGTCTTTATTATGCTAAGAGTACAGCTTTATTATTAGGCAGTCTTGAGGGCTGCTGGGATGCATTCTCCTTAATTACACCTATTTTCACTGAT-ATTCCCTAAGAACTGCTCTGCTCATATTTCCATT--GGAAGGCCAAGTTCAGCCTGAAAGGTTCACT---TCCTACTTAACAGCAGTTGCAGTCATTAAC---------------ATTTTTTTT---------T--CTTGTTTAGTTTTGCTTTACTGTTCATTTCCTTTAA-AGGAAAGTAGATCATAAAACA-TTCGT--------GAAAGTTTCCTTTATTTCAGATTAGCTGAATTT--ATTTTACACATTTGTCTCTG-TTTTTTCTTATATTCTTATTCACTTTATTGTCTACCTTTGCAGTTATTTTTTTC----------------TTATATTAAG--------AAAG----AGAAA-AGAAGCGAGCTGTCATTTGGCAGTCTCTTTTCCATTATGTTTGCACTGCTGGG-AAACGCTGGAACAAAGGCATTCAAAGTGTTACTGAATGGGGCTCAGCATTCAGCCCTGCTGGTGAGGCTGCAATCAGTCCGACTAGGATGAAAATGCGTGCTTTTCAACACTGGTTGGAGA-TGTTTGTATTTATCTTTGGAATGCATGCCTGGTCCATGCAGTCATGTGATGTGTTTTTGCC-ATGTCCTTATGTGTCCCAGCTTTTTCTGTGGTAGGATGG------AAGAAATGGAATGTGACCCATTAACCCTTAGTCGGTATGAAGTAGTC-CAACAGATACTTCTCAAACACAA--AGAGTCCCTGCTCACGTCAAAGTCAATTTCTAAAACACGTTTTT---ATCCGGGATTTAGTTCCTGTC-CTGTTCTAGCCAGATGTGCATGTGGACAAGCTATGC------CACTTCTGCTGACACGTTGGTAGTGAACAGTTCT
s panTro5.chr5             125179668 907 + 181907262 TGTTTTTCTCCCTACAGAATTGTTGTTTGGAAATGGACGAGAATGTGTCTTTATTATGCTAAGAGTACAGCTTTATTATTAGGCAGTCTTGAGGGCTGCTGGGATGCATTCTCCTTAATTACACCTATTTTCACTGAT-ATTCCCTAAGAACTGCTCTGCTCATATTTCCATT--GGAAGGCCAAGTTCAGCCTGAAAGGTTCACT---TCCTACTTAACAGCAGTTGCAGTCATTAAC---------------A-TTTTGGT---------T--CTTGTTTAGTTTTGCTTTATTGTTCATTTCCTTTAA-AGGAAAGCAGATCATAAAACA-TTCGT--------GAAAGTTTTCTCTATTTCAGATTATCTGAATTT--ATTTTACACATTTGTCTCTG-TTTTTTCTTATATTCTTATTCACTTTATTGTCTATCTTTGCAGTTA-TTTTTTC----------------TTATATTAAG--------AAAG----AGAAA-AGAAGCAAGCTGTCCTTTGGCAGTCTCTTTTCCATTATGTTTGCACTGCTGGG-AAACGCT-GAACAAAGGCATTCAAAGTGTTACTGAATGGGGCTCAGCATTCAGCCCTGCTGGTGAGGCTGCAATCAGTCTGACTAGGATGAAAATGCGTGCTTTTCAACACTGGTTGGAGA-TGTTTGCATTTATCTTTGGAACGCATGCCTGGTCCATGCAGTCATGTGATGTGTTTTTGCC-ATGTCCTTACGTGTCCCAGCTTTTTCTGTGGTAGGATGG------AAGAAATGGAATGTGATCCATTAACCCTTAGTCGGTATGAAGTAGTC-CAACAGATACTTCTCAAACACAA--AGAGTCCCTGCTCATGTCAAAGTCAATTTCTAAAACACGTTTTT---ATCCGGGATTTAGTTCCTGTC-CTGTTCTAGCCAGATGTGCATGTGGACAAGCTATGC------CACTTCTGCTGACACGTTGGTAGTGAACAGTTCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126516697 908 + 183735486 TGTTTTTCTCCCTACAGAATTGTTGTTTGGAAATGGACGAGAATGTGTCTTTATTATGCTAAGAGTACAGCTTTATTATTAGGCAGTCTTGAGGGCTGCTGGGATGCATTCTCCTTAATTACACCTATTTTCGCTGAT-ATTCCCTAAGAACTGCTCTGCTCATATTTCCATT--GGAAGGCCAAGTTCAGCCTGAAAGGTTCACT---TCCTACTTAACAGCAGTTGCAGTCATTAAC---------------A-TTTTTGT---------T--CTTGTTTAGTTTTGCTTTATTGTTCATTTCCTTTAA-AGGAAAGCAGATCATAAAACA-TTCGT--------GAAAGTTTTCTCTATTTCAGATTATCTGAATTT--ATTTTACACATTTGTCTCTG-TTTTTTCTTATATTCTTATTCACTTTATTGTCTATCTTTGCAGTTA-TTTTTTC----------------TTATATTAAG--------AAAG----AGAAA-AGAAGCAAGCTGTCCTTTGGCAGTCTCTTTTCCATTATGTTTGCACTGCTGGG-AAACGCTGGAACAAAGGCATTCAAAGTGTTACTGAATGGGGCTCAGCATTCAGCCCTGCTGGTGAGGCTGCAATCAGTCTGACTAGGATGAAAATGCGTGCTTTTCAACACTGGTTGGAGA-TGTTTGCATTTATCTTTGGAATGCATGCCTGGTCCATGCAGTCATGTGATGTGTTTTTGCC-ATGTCCTTATGTGTCCCAGCTTTTTCTGTGGTAGGATGG------AAGAAATGGAATGTGATCCATTAACCCTTAGTCGGTATGAAGTAGTC-CAACAGATACTTCTCAAACACAA--AGAGTCCCTGCTCATGTCAAAGTCAATTTCTAAAACACGTTTTT---ATCTGGGATTTAGTTCCTGTC-CTGTTCTAGCCAGATGTGCATGTGGACAAGCTATGC------CACTTCTGCTGACACGTTGGTAGTGAACAGTTCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1708081 906 +   8933513 TGTTTTTCTCCCTACAGAATTGTTGTTTGGAAATGGACGAGAATGTGTCTTTTTTATGCTAAGAGTACAGCTTTATTATTAGGCAGTCTTGAGGGCTGCTGGGATGCATTCTCCTTAATTACACCTATTTTCACTGTT-ACTCCCTAAGAACTGCTCTGCTCATATTTCCATT--GGAAGGCCAAGTTCAGCCTGAAAGGTTCACT---TCCTACTTAACAGCAGTTGCAGTCATTAAC---------------A-TTTTTTT---------T--CTTGTTTAGTTTTGCTTTATTGTTCATTTCCTTTAA-AGGAAAGTAGATCATAAAACA-TTCGT--------GAAAGTTGCCTCTATTTCAGATTATCTGAA-TT--ATTTTACACATTTGTCTCTG-TTTTTTCTTATATTCTTATTCACTTTATTGTCTACCTTTGCAGTTA-TTTTTTC----------------TTATATTAAG--------AAAG----AG-AA-AGAAGCGAGCTGTCATTTGGCAGTCTCTTTTCCATTATGTTTGCACTGCTGGG-AAACGCTGGAACAAAGGCATTCAAAGTGTTACTGAATGGGGCTCAGCATTCAGCCCTGCTGGTGAGGCTGCAATCAGTCTGACTAGGATGAAAATGCGCGCTTTTCAACACTGGTTGGAGA-TGTTTGTATTTATCTTTGGAATGCATGCCTGGTCCATGCAGTCATGTGATGTGTTTTTGCC-ATGTCCTTATGTGTCCCAGCTTTTTCTGTGGTAGAATGG------AAGAAATGGAATGTGACCCATTAACCCTTAGGCGGTATGAAGTAGTC-CAACAGATACTTCTCAAACACAA--AGAGTCCCTGCTCATGTCAAAGTCAATTTCTAAAACACGTTTTT---ATCCGGGATTTAGTTCCTGTC-CTGTTCTAGCCAGATGTGCATGTGGACAAGCTATGC------CACTTCTGCTGACACGTTGGTGGTGAACAGTTCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139838903 910 + 163208435 TGTTTCTCTCCCTACAGTATTGTTGTTTGGAAATGGACGAGAATGTGTCTTTATTATGCTAAGAGTACAGCTTTATTATTAGGCAGTCTTGAGGGCTGCTGGGATGCATTCTCGTTAATTACATCTATTTTCACTGAT-ATTCCCTAAGAACTGCTCTGCTCATATTTCCATT--GGAAGGCCAAGTTCAGCCTGAAAGGTTCACT---TCCTACTTAACAGCAGTTGCAGTCATTAAC---------------ATTTTTTTT---------T--CTTGTTTAGTTTTGCTTTATTGTTCATTTCCTTTAA-AGGAAAGTAGATCATAAAACA-TTCGT--------GAAAGTTTCCTCTATTTCAGATTATCTGAATTT--ATTTTACACATTCATCTCTG-TTTTTTCTTATATTCCTATTCACTTTATTTTCCACCTTTGCAGTTATTTTTTTC----------------TTATATTAAG--------AAAG----AGAAA-AGAAGCGAGCTGTCATTTGGCAGTCTCTTTTCCATTATGTTTGCACTGCTGGG-AAACGCTGGAACAAAGGCATTCAAAGTGTTACTGAATGGGGATCAGCATTCAGCCCTGCTGGTGATGCTGCAATCAGTCTGACTGGGATGAAAATGCGTGCTTTTCAACATTGGTTGGAGA-TGTTTGTATTTATCTTTGGAATGCATGCCTGGTCCATGCAGTCACGTGATGTGTTTTTGCC-ATGTCCTTATGTGTCCCAGCTTTTTCTGTGGTAGAATGG------ACGAAATGGAATGTGACCCGTTAACCCTTAGTCGGTATGAAGTAGTC-TAACAGATACTCCTCAAACACAA--AGAGTCCCTGCTCATGTCAAAGTCAATTTCTAAAACACGTTTTT---ATCCGGGATTCAGTTCCTGTC-CTGTTCTAGCCAGATGTGCATGTGGAGAAGCTATGC------CACTTCTGCTGACACGTTGGTAGTGAACAGTTCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122828281 878 + 180051392 TGTTTTTCTCCCTGCAG---TATTTTTTGGAAATGGATGAGAATGTGTCTTTATTATGCTAAGAGTACAGCTTTATTATTAGGCAGTCTTGAGGGCTGCTGGGATGTATTCTCCTTAATTACACCTATTTTCACTGAT-ATTCCCTAAGAA-----CTGCTCATATTTCCATT--GGAAGGCCAAGTTTGGCCTGAAAGGTTCACT---TCCTACTTAACAGCAGTTGCAGTCATTAAC---------------A-TTTTTTT---------T--CTTGTTTAGTTTTGCTTTATTGTTCATTTCCTTTAA-AGGAAAGTAGATTGTAAAACA-TTCGT--------GAAAGTTTCCTCTATTTCAGATTATCTGAAT-----TTTTACACATTCGTCTCTGTTTTTTTCTTATATTCTTA----CTTTATTTTCCACCTTTGCAGTTA-TTTTTTC----------------TTATATTAAG--------AAAG----AGAA----AAGCGAGCTGTCATTTGACAGTCTCTTTTCCATTATGTTTGCACTGCTGGG-AAACGCTGGAACAAAGGCATTCAAAGTGTTACTGAATGGGGATCAGCATTCAGCCCTGCTGGTGAGGCTGCAATCAGCCTGACTAGGATGAAAATGCGTGCTTTTCAACACTGGTTGGAGA-TGTTTGTGTTTATCTTTGGAATGTATGCCTGGTCCATGCAGTCACGTGATGTGTTTTTGCC-ATGTCCTTATGTGTCCCAGCTTTTTCTGTGGTAGAATGG------AAGAAATGGAATGTGACCCGTTAACCCTTAGTCGGTATGAAGTAATC-CAACAGATACTTCTCAAACACAA--AGAGTCCCTGCTCATGTCAAAGTCAAGTTCTAAAACATGTTT----------------AGTTCCTGTC-CTGTTCTAGCCAGATGTGTGTGTGGAGAAGCTATGC------CACTTCTGCTGACACGTTGGTAGCAAACAGTTCT
i rheMac8.chr6             I 2 C 0
s macFas5.chr6             124251931 878 + 181584905 TGTTTTTCTCCCTGCAG---TATTTTTTGGAAATGGATGAGAATGTGTCTTTATTATGCTAAGAGTACAGCTTTATTATTAGGCAGTCTTGAGGGCTGCTGGGATGTATTCTCCTTAATTACACCTATTTTCACTGAT-ATTCCCTAAGAA-----CTGCTCATATTTCCATT--GGAAGGCCAAGTTTGGCCTGAAAGGTTCACT---TCCTACTTAACAGCAGTTGCAGTCATTAAC---------------A-TTTTTTT---------T--CTTGTTTAGTTTTGCTTTATTGTTCATTTCCTTTAA-AGGAAAGTAGATTGTAAAACA-TTCGT--------GAAAGTTTCCTCTATTTCAGATTATCTGAAT-----TTTTACACATTCGTCTCTGTTTTTTTCTTATATTCTTA----CTTTATTTTCCACCTTTGCAGTTA-TTTTTTC----------------TTATATTAAG--------AAAG----AGAA----AAGCGAGCTGTCATTTGACAGTCTCTTTTCCATTATGTTTGCACTGCTGGG-AAACGCTGGAACAAAGGCATTCAAAGTGTTACTGAATGGGGATCAGCATTCAGCCCTGCTGGTGAGGCTGCAATCAGCCTGACTAGGATGAAAATGCGTGCTTTTCAACACTGGTTGGAGA-TGTTTGTGTTTATCTTTGGAAAGTATGCCTGGTCCATGCAGTCACGTGATGTGTTTTTGCC-ATGTCCTTATGTGTCCCAGCTTTTTCTGTGGTAGAATGG------AAGAAATGGAATGTGACCCGTTAACCCTTAGTCGGTATGAAGTAATC-CAACAGATACTTCTCAAACACAA--AGAGTCCCTGCTCATGTCAAAGTCAAGTTCTAAAACATGTTT----------------AGTTCCTGTC-CTGTTCTAGCCAGATGTGCGTGTGGAGAAGCTATGC------CACTTCTGCTGACACGTTGGTAGCGAACAGTTCT
i macFas5.chr6             I 2 C 0
s macNem1.NW_012012355v1    16249802 877 +  18395747 TGTTTTTCTCCCTGCAC---TATTTTTTGGAAATGGATGAGAATGTGTCTTTATTATGCTAAGAGTACAGCTTTATTATTAAGCAGTCTTGAGGGCTGCTGGGATGTATTCTCCTTAATTACACCTATTTTCACTGAT-ATTCCCTAAGAA-----CTGCTCATATTTCCATT--GGAAGGCCAAGTTTGGCCTGAAAGGTTCACT---TCCTACTTAACAGCAGTTGCAGTCATTAAC---------------A-TTTTTTT---------T--CTTGTTTAGTTTTGCTTTATTGTTCATTTCCTTTAA-AGGAAAGTAGATTGTAAAACA-TTCGT--------GAAAGTTTCCTCTATTTCAGATTATCTGAAT-----TTTTACACATTCGTCTCTGTTTTTTTCTTATATTC-TA----CTTTATTTTCCACCTTTGCAGTTA-TTTTTTC----------------TTATATTAAG--------AAAG----AGAA----AAGCGAGCTGTCATTTGACAGTCTCTTTTCCATTATGTTTGCACTGCTGGG-AAACGCTGGAACAAAGGCATTCAAAGTGTTACTGAATGGGGATCAGCATTCAGCCCTGCTGGTGAGGCTGCAATCAGCCTGACTAGGATGAAAATGCGTGCTTTTCAACACTGGTTGGAGA-TGTTTGTGTTTATCTTTGGAATGCATGCCTGGTCCATGCAGTCACGTGATGTGTTTTTGCC-ATGTCCTTATGTGTCCCAGCTTTTTCTGTGGTAGAATGG------AAGAAATGGAATGTGACCCGTTAACCCTTAGTCGGTATGAAGTAATC-CAACAGATACTTCTCAAACACAA--AGAGTCCCTGCTCATGTCAAAGTCAAGTTCTAAAACATGTTT----------------AGTTCCTGTC-CTGTTCTAGCCAGATGTGCGTGTGGAGAAGCTATGC------CACTTCTGCTGACACATTGGTAGCGAACAGTTCT
i macNem1.NW_012012355v1   I 2 C 0
s cerAty1.NW_012002512v1     5261865 882 +  26952557 TGTTTTTCTCCCTGCAG---TATTTTTTGGAAATGGATGAGAATGTGTCTTTATTATGCTAAGAGTACAGCTTTATTATTAGGCAGTCTTGAGGGCTGCTGGGATGTATTCTCCTTAATTACACCTATTTTCACTGAT-ATTCCCTAAGAA-----CTGCTCATATTTCCATT--GGAAGGCCAAGTTTGGTCTGAAAGGTTCACT---TCCTACTTAACAGCAGTTGCAGTCATTAAC---------------A-TTTTTTT---------T--CTTGTTTAGTTTTGCTTTATTGTTCATTTCCTTTAA-AGGAAAGTAGATTGTAAAACA-TTCGT--------GAAAGTTTCCTCTATTTCAGATTATTTGAAT-----TTTTACACATTCGtctctgtttttttcttatattcttactttctttatttTCCACCTTTGCAGTTA-TTTTTTC----------------TTATATTAAG--------AAAG----AGAA----AAGCGAGCTGTCATTTGACAGTCTCTTTTCCATTATGTTTGCACTGCTGGG-AAACGCTGGAACAAAGGCATTCAAAGTGTTACTGAATGGGGATCAGCATTCAGCCTTGCTGGTGAGGCTGCAATCAGCCTGACTAGGATGAAAATGCGTGCTTTTCAACACTGGTTGGAGA-TGTTTGTGTTTATCTTTGGAATGCATGCCTGGTCCATGCAGTCACGTGATGTGTTTTTGCC-ATGTCCTTATGTGTCCCAGCTTTTTCTGTGGTAGAATGG------AAGAAATGGAATGTGACCCGTTAACCCTTAGTCGGTATGAAGTAATC-CAACAGATACTTCTCAAACACAA--AGAGTCCCTGCTCATGTCAAAGTCAATTTCTAAAACATGTTT----------------AGTTCCTGTC-CTGTTCTAGCCAGATGTGCGTGTGGAGAAGCTATGC------CACTTCTGCTGACACGTTGGTAGCGAACAGTTCT
i cerAty1.NW_012002512v1   I 2 C 0
s chlSab2.chr23             28363660 882 +  82825804 TGTTTTTCTCCCTGCAG---TATTTTTTGGAAATGGATGAGAATGTGTCTTTATTATGCTAAGAGTACAGCTTTATTATTAGGCAGTCTTGAGGGCTGCCGGGATGTATTCTCCTTAATTACACCTATTTTCACTGAT-ATTCCCTAAGAA-----CTGCTCATATTTCCATT--GGAAGGCCAAGTTTGGTCTGAAAGGTTCACT---TCCTAGTTAACAGCAGTTGCAGTCATTAAC---------------A-TTttttt---------t--tttgtttagttttgctttattGTTCATTTCCTTTAA-AGGAAAGTAGATTGTAAAACA-TTCGT--------GAAAGTTTCCTCTATTTCAGATTATCTGAAT-----TTGTACACATTCGtctctgtttttttcttatattcttactttctttatttTCCACCTTTGCAGTTA-TTTTTTC----------------TTATATTAAG--------AAAG----AGAA----AAGCGAGCTGTCATTTGACAGTCTCTTTTCCATTATGTTTGCACTGCTGGG-AAACGCTGGAACAAAGGCATTCCAAGTGTTACTGAATGGGGATCAGCATTCAGCCCTGCTGGTGAGGCTGCAATCAGCCTGACTAGGATGAAAATGCGTGCTTTTCAACACTGGTTGGAGA-TGTTTGTGTTTATCTTTGGAATGCATGCCTTGTCCATGCAGTCACGTGATGTGTTTTTGCC-ATGTCCTTATGTGTCCCAGCTTTTTCTGTGGTAGAATGG------AAGAAATGGAATGTGACCCGTTAACCCTTAGTCGGTATGAAGTAATC-CAACAGATACTTCTCCAACACAA--AGAGTCCCTGCTCATGTCAAAGTCAATTTCTAAAACATGTTT----------------AGTTCCTGTC-CTGTTCTAGCCGGATGTGCGTGTGGAGAAGCTATGC------CACTTCTGCTGACACCTTGGTAGCGAACAGTTCT
i chlSab2.chr23            I 2 C 0
s manLeu1.NW_012103321v1     4033077 882 -   4237731 TGTTTTTCTCCCTGCAG---TATTTTTTGGAAATGGATGAGAATGTGTCTTTATTATGCTAAGAGTACAGCTTTATTATTAGGCAGTCTTGAGGGCTGCTGGGATGTATTCTCCTTAATTACACCTATTTTCACTGAT-ATTCCCTAAGAA-----CTGCTCATATTTCCATT--GGAAGGCCAAGTTTGGTCTGAAAGGTTCACT---TCCTACTTAACAGCAGTTGCAGTCATTAAC---------------A-TTTTTTT---------T--CTTGTTTAGTTTTGCTTTATTGTTCATTTCCTTTAA-AGGAAAGTAGATTGTAAAACA-TTCGT--------GAAAGTTTCCTCTATTTCAGATTATCTGAAT-----TTTTACACATTCGtctctgtttttttcttatattcttactttctttatttTCCACCTTTGCAGTTA-TTTTTTC----------------TTATATTAAG--------AAAG----AGAA----AAGCGAGCTGTCATTTGACAGTCTCTTTTCCATTATGTTTGCACTGCTGGG-AAACGCTGGAACAAAGGCATTCAAAGTGTTACTCAATGGGGATCAGCATTCAGCCCTGCTGGTGAGGCTGCAATCAGCCTGACTAGGATGAAAATGCGTGCTTTTCAACACTGGTTGGAGA-TGTTTGTGTTTATCTTTGGAATGCATGCCTGGTCCATGCAGTCACGTGATGTGTTCTTGCC-ATGTCCTTATGTGTCCCAGCTTTTTCTGTGGTAGAATGG------AAGAAATGGAATGTGACCCGTTAACCCTTAGTCGGTATGAAGTAATC-CAACAGATACTTCTCAGACACAA--AGAGTCCCTGCTCATGTCAAAGTCAATTTCTAAAACATGTTT----------------AGTTCCTGTC-CTGTTCTAGCCAGATGTGCGTGTGGAGAAGCTATGC------CACTTCTGCTGACACGTTGGTAGCGAACAGTTCT
i manLeu1.NW_012103321v1   I 2596 C 0
s colAng1.NW_012119644v1      301157 878 -   1175262 TGTGTTTCTCCCTGCAG---TATTTTTTGGAAATGGATGAGAAGGTGTCTTTATTATGCTAAGAGTACAGCTTTATTATTAGGCAGTCTTGAGGGCTGCTGGGATGTATTCTCCTTAATTACACCTATTTTCACTGAT-ATTCCCTAAGAA-----CTGCTCATATTTCCACT--GGAAGGCCAAGTTTGGCCTGAAAGGTTCGCT---TCCTACTTAACAGCAGTTGCAGTCATTAAC---------------A-TTTTTTT---------T--CTTGTTTAGTTTTGCTTTATTGTTCATTTCCTTTAA-AGGAAAGTAGATCATAAAACA-TTCGT--------GAAAGTTTCCTCTATTTCAGATTATCTGAAT-----TTTTACACATTCGTCTCTGTTTTTTTCTTATATTCTTA----CTTTATTTTCCACCTTTGCAGTTA-TTTTTTC----------------TTATATTAAG--------AAAG----AGAAA-AGAAGCGAGCTGTCATTTGACAGTCTCTTTTCCATTATGTTTGCACCCATGGG-AAACGCTGGAACAAAGGCATTCGAAGTGTTACTGAATGGGGATCAGCATTCAGCCCTGCTGGTGAGGCTGCAATCAGCCTGACTAGGATGAAAATGCGTGCTTTTCAACGCTGGTTGGAGA-TGTTTGTGTTTATCTTTGGAATGCATGCCTGGTCCATGCAGTCACGTGGTGTGTTTTTGCC-ATGTCCTTATGTGTCCCAGCTTTTTCTGTGGTAGAATGG------AAGAAATGGAATGTGACCCGTTAACCCTTAGTCGGTATGAAGTAATC-CAACAGATACTTCTCAAAC---A--AGAGTCCCTGCTCATGTCAAAGTCAATTTCTAAAACATGTTT----------------CGTTCCTGTC-CTGTTCTAGCCAGATGTGCGTGTGGAGAAGCTATGC------CACTTCTGCTGACACATTGGTAGCGAACAGTTCT
i colAng1.NW_012119644v1   I 2 C 0
s calJac3.chr2             123645359 908 - 204313951 TATTTTTCTCCCTGCAGTA---TTGTTTGCAAATGGAGTAGAATGTGTCTTTATTATGCTAAAAGTACAGCTTTATTATTAGGCAGTTTTGAGGACTGTTGGGATGCATTCTCCTTAATTACACCGGTTTTCCCTGAT-ATTCCTTAAGAA-----CTGCTCATACTTCCATT--GGAAGGCCAAGTTCAACCTGAAAGGTCCACTTCCTCCTACCAAACAGCAGTTGCCATCATTAAC---------------A-CTTTTTT---------T--CTTGTTTCGTTTTGCTTTATTGTTCATTTCCTTTAA-AGGAAAGTAGATGATAAAACA-GTCGT--------GAAAGTTTCCTCTATTTCAGAGTATCTGAATTC--ATTTTACACATTCGTCTCTG-TGTTTTCTTATATTCTTATTCACTTTATTTTCTACCTTCGCAACTA--TTTGTC----------------TTTTATTAAGAAGA--AAAAGG----AGAAA-AGAAGTGAGCTGTCATTTGGCAGTCTCTTTTCCATTATGTTTTCACTGCTGGG-AAATGCTGGAACAAAGGCATTCAATGTGTTACTGAATGGGGATCAGCACTCAGCCCTGCTGGAGAGGCTGCAGTCAGCCTGACTAGGATGAAAACGTGGACTTTTCAATGCTGGTTGGAGA-TGTTTGTATTTATCTTTGGAATGCCTGCCAGGTCCATGCAGTCACGTGATGTGTTATTGCC-ATGTCCTTATGTGTACCAGCTTTTTCTGTGGTCAAATGG------AAGAAACGGAATGTGACCTGTTAACCCTTAGTCATCATGAAGTGGTC-CAACAGATACTTCTCAAACACGA--AGAGTCCATGCTCATGTCAAGGTAAATTTCTATAACATGTGTTT---ATCAGGAATTTAGTTCCTGTC-CTGTTCTAACCAGATGTGCATGTGGAGAGGCTAAGC------CACTTCTGCTGATATGTTGCTAGCGAACAGTTCT
i calJac3.chr2             I 2 C 0
s saiBol1.JH378106          55690205 911 -  71252344 TATTTTTCTCCCTGCAGTATCGTTGTTTGCAAACGGAGTAGAATGTGTCTTTATTATGCAAAAAGTGCAGCTTTATTACTCAGCAGTTTTGCGGGCTGTTGGGATGCATTCTCCTTAATTACACCTATTTTCCCTGAT-ATTCCCTAAGAA-----CTGCTCATACTTCCATT--GGAAGGCCAAGTTCAACCTGAAAGATTCACTTCCTCCTACCAAACGGCAGTTGCCGTCATTAAC--------------AA-TTTTTTT---------T--CTTGTTTCGTTTTGCTTTATTGTTCATTTCCTTTAA-AGGAAAGTAGATGATAAAGCA-GTCGT--------GAAAGTTTCCTCTATTTCAGCGTATCTGACTTT--ATTTTACACATTCGTCTCTG-TTTTTTCTTATATTCTTATTCACTTTATTTTCTACCTTCGTGACTA--TTTTTC----------------TTTTATTAAGAAGA--AAAAGG----AGAAA-AGAAGCGAGCTGTCATCTGGCAGTCTCTTTTCCATTATGTTTTCACTGCTGGG-AAATGCTGGAACAAAGGCATTCAATGTGTGACTGAATGGGGATCAGCACTCAGCCCTG-TGGTGAGGCTGCAGTCAGCCTGACTAGGATGAAAACGCGTGCTTTTCAACACTGGTTGGAGA-TGTTTGTATTTATCTTTGGAATGCATGCCTGGTCCATGCAGTCACGTGATGTGTTATTGCC-ATGTCCTTCTGTGTACCAGCTTTTTCTGGGGTCGAATGG------AAGAAACGGAATGTGACCTGTTAACCCTTAGTCAGTATGAAGTAGTC-CAACAGATACTTCTCAAACACAA--AGAGTCCATGCTCATGTCAAGGTACATTTCTATAACATGTTTTT---ATCCTGGATTTAGTTCCTGTT-CTGTTCTAACCAGATGCGCATGTGGAGAAGCTAAGC------CACTTCTGCTGATATGTTGCTAGTGAACAGTTCT
i saiBol1.JH378106         I 2 C 0
s cebCap1.NW_016107829v1     1394205 905 -   1400280 TATTTTTCTCCCTCCAGTATTGTTGTTTGCAAATGGAGTAGAATGTGTCTTTATTATGCTAAAAGTACAGCTTTATTATTAGGCAGTTTTGAGGACTGTTGGGATGCATTCTCCTTAATTACACTTATTTTCCCTGAT-ATTCCCTAAGAA-----CTGCTCATACTTCCATT--GGAAGGCCAAGTTCAACCTGAAAGGTTCACTTCCTCCTACTAAACAGCAGTTGCCGTCATTAAC---------------A-ATttttt---------t--cttgttttgttttgctttattGTTCATTTCCTTCAA-AGGAAAGTAGATGATAAACCA-GTCGT--------GAAAGTTTCCTCTATTTCAGAGTATCCGAATTT--ATTTTACACATTTGTCTCTG-TTTTTTCTTATATTCTTATTCACTTTATTTTCTACCTTAGCAACTA--TTTTTC----------------TTTTATTAAGAAGA--AAAAGG----AGAAC-AGAAGCGAGCTGTCATTTGGCAGTCTCTTTTCCATTATGTTTTCACTGCAGGG-AAATGCTGGAACAAAGACATTCAATGTGTTACTGAATGGGGATCAGCACTCAGCCCTGCTGGTGAGGCTGCAGTCAGCCTGACTAGGATGAAAACACGTGCTTGTCAACACTGGTTGGAGA-TGTTTGTATTTATCTTTGGAATGCATGCCTGGTCCATGCAGTCACGTGATGTGTTATTGCC-ATGTCCTTGTGTGTACCAGCTTTTTCTGTGGTCTAATGG------AAGAAACGGAATGTGACCTGTTAACCCTTAGTCAGTATGAAGTAGTC-CAACAGATACTGCTCAAACACAA--AGAGTCCATGCTCAT------GTAAATTTCTATAACATGTTTTT---ATCAGGGATTTAGTTCCTGTC-CTGTTCTAACCAGATGTGCATGTGGAGAAGCTAAGC------CGCTTCTGCTGATATGTTGCTAGTGAACAGTTCT
i cebCap1.NW_016107829v1   I 2 C 0
s aotNan1.NW_018505940v1    13191565 922 -  42888418 TATTTTTCTCCCTGCAGTATTGTTGTTTGCAAATGGAGTAGAATGTGTCTTTATTATGCTGAAAGTACAGCTTTATTATTAGGCAGTTTTGAGGACTGTTGGGATACATTCTCCTTAATTACACCTATTTTCCCTGAT-ATTCCCTAAGAA-----CTGCTTATACTTCCATT--GGAAGGCCAAGTTCAACCTGAAAGTTTCACTTCCTCCTACCAAACAGCAGTTGCCGTCAttaacaatttttttaa--caa-ttttttt---------T--CTTGTTTCGTTTTGCTTTATTGTTCATTTCCTTTAA-AGGAAAGTAGATGATAAAACA-GTTGT--------GAAAGTTTCCTCTATTTCGGAGTATCTGAATTT--ATTTTACACGTTCA--TCTG-TTTTTTCTTATATTCTTATTCACTTTATTTTCTACCTTCGCAACGA--TTTTTC----------------TTTTATTAAGAAGA--AAAAGG----AGAAA-AGAAGCGAGCTGTCATTTGGCAGTCTCTTTTCCATTATGTTTTCACTGCTGGG-AAATGCTGGAACAAAGGCATTCAATGTGTTACTGAATGGGGATCAGCACTCAGCCCTGCTGGTGAGGCTGCAGTCAGCCTGACTAGGATGAAAACGCGTGCTTTTCAACACTGGTTGGAGA-TGTTTGTTTTTATCTTTGGAATGCATGCCTGGTCCATGCAATCACATGATGTGTTATTGCC-ATGTCCTTATGTGTACCAGATTTTTCTGTGGTCGAATGG------AAGAAACGGAATGTGACCTGTTAACCCTCAGTCAGTATGAAGTAGTC-CAACAGATACTTCTCAAATACAA--AGAGTCCATGCTCATGTCAAGGTAAATTTCTGTAACATGTTTTT---ATCAGGGATTTAGTTCCTGTC-CTGTTCTAACCAGATGTACATGTGGAGAAGGTAAGC------CACTTCTGCTGATATGTTGCTAGTGAACAGTTCT
i aotNan1.NW_018505940v1   I 2 C 0
s micMur3.chr12             60532576 906 + 108143057 TGTTTTTCTCCCTGCAGGATTATTGTTTTGAAATGGGGTAGAACATATTTTTATTATCCTAAAAGTACAACTCAATTATTAGGCAGTCTTGAGGGTTGCTGGGCTGTGTTCTCCTCTATTATACCTATTTTCACTGAT-ATTCCGTAAGAA-----CCATTTGTACTGCCACT--GGGAGGCAAAATTTAGCCTGGGAGGTTCACT---TCATACTTAGCAGCAATTGCAGTCATTAAC---------------A-TTttttttttgtgttgttgcttgtttagttttg-----ttgttCATTTTCTATAA-AGAAAAGTAAATCATAAAATA-CTTGT--------GAATGTTTCCTCTATTTCAGATTATTTAAATTC--GTTTTATACCTTTG--TCTG----TCTTGTCTATTCCTACTTACTTCATTTTCCTCCTTCACAATTA--TTTTTC----------------TTATATTAAAGAAA----AAGA----AGAAACAGAAGTGAGCTGTCTTTCGGCAGTTTCTTTTCCATTATGTTTTCACTGCTGGG-AAAAGCTAGAACAAAGGCA-CTGAAGTGTTACTGAATGGAGATCAACATTCAGCCTGGCTGGTGAAGCTGTAATCATCCTGACTAGGATGAAAACACATGCTTTTCAGCGCTGGCTGGAGA-TGTTTGTATTTATCTTTGGAATGCATGCTTAGCCCACGCAGTCATGTGATGTGTTGTTGCC-ATGTCTTTATGTGTCCCAACCCTTTCTGCAGTAGAAGGG------AGGAAATGGAATGTGACCTGTCAACTCTCAGTCGGTATGAAATAGTC-CAATGGAC-TTTTTAAAACACAA--AGAATCTCAGCTCATGTCAATGTCAATTTCTAAAGCATGTTTTT---ATCAGGGATTTAGTTCCTGTC-CTGTTCTGGCCAGATATGCATGTAGGGAAGCCATGC------CACTTCTGCTGACCTGTTATCAGTGAATAGTTCT
i micMur3.chr12            I 59 I 7
s proCoq1.NW_012155062v1     3574668 900 +  11683526 TGTTTTTCTCCCTGCAGGATTATTGTTTTGAAATGGGATAGAAGATATTTTTATTATCCTAAAAGTACAGCTTAATTATTAGGTAGTCTTGAGGGTTGATGGGATGTATTCTCCTCCATTACACCTATTTTCACTGAC-ATTCCATAAGAA-----CCA-TCATACAGCCACT--GGGAGGCAAAATTTAGACGAAGGGGGTCACT---TCATACTTAGCAGCAATTGCAGtcattaac---------------a-ttttttt---------ttgcttgtttagttttgttttattgttcattttcTATAA-AGGAAAGTAAATCATAAAATA-CTTGT--------AAATGTTTCCTCTATTTCTGATTATTCAAATTT--GTTTTATACATTTG--TCTG----TCTCTTCTATTCCTACTTACTTCATTTTCCTCCTTCACAATTA--TTTTTC----------------TTATATTAaagaaagaagaaga----agaaaaagaagTGAG----CTTTCGGCAGTTTCTCTTCCAT--TGTTTTCACTGCTGGGAAAAAGCTAGAACAAAGGTACCCGAAGTGTTACTGAATGGGGATCAACATTCAGCCTTGCTGATGAGGCTGTAATCAGCCTGGCTAGGATGAAAACACATGCTTTTCAGCACTGGTTGGAGA-TGTTTGTATTTATCTTTGGAATGCATGCTTAGCCCATGCAGTCATGTGATGTGTTATTGCC-ATGTCTTTATGTGTCCCAGCCCTTTCTGCAGTAGAAGGG------AAGAAATGGAATGTGACCTGTCAACTCTCAGTTGGTATGAAGTAGTC-CAACGGACGTTTTTAAAACAC----AGAGTCTCAGCTCATGTCAATGTCAATTTCTAAAACATGTTTTT---ATCAGGAATTTAGTTCCTGTC-CTGTTCTGGCTAGATATGCATGTAGGGAAGCCACGC------CACTTCTGCTGACATGTTACCAGTGAACAGTTCT
i proCoq1.NW_012155062v1   I 2 I 3658
s otoGar3.GL873679           3062948 874 +   4132165 TTTTTTTTTCCCTGCAGGATTATTGTTTTGAAATGGG-CAGAACATATTTTTGTTATCCTGAAAGTACAGCTTACTTATTAGGTAGTCTTGAGGGTTGCT-GGATGTATTCTCCTTCAGTACACCTGTTTTCAATGGT-ATT--ATCAAAA-----CCACTCATACTGCCATT--GAGAAACAAAATTTAACCTGGAAGTTTCACT---TCATACTTAGAAGCAATTGAAGTCATTGAA---------------T-TTTTTTTTTTT-----TGGCTTTTTTAGTTTTGTTATATTGTCCATTTCCTTTAA-GTGAAAGTAAGTCATAAAATA-CTTGTTTTGAGAGGAATGTTTTCTGTATTTCAGATTATTTAAATTT--GTTTTATGCATT------TG----TCTCTTCTATTCC----TACTTTATTTTCTTCCTACATAATTA--TTTTT-----------------TAATATTGAAAAAG-AAGAAGA----AAAGAAAGAAGTGAGCTGTCTTTTGGCAATTTCTTTTCCATTATCTTTTTACTGCTAAG-AAATGCCAGAACAAAGGCATCCAAAGCATTACTAAATGGGGATCAGCATTCAGCCCTGTTGGTGAGGCTGTAATCAGCCCAATGAAGATGAAAACACATGTTTCTCAACACTGGTTGGAGA-TGTTTGTATTTATCTTTGGAATGCATGCTTAGCCCACGTGGTCACACGAAATGTTTTTGCT-AAGTCTTTAAGTGTCCCAGCCCTTTCTGTGGTAGAATGG------AAGAAATGAAATGTGACCTGTCAACACTTAGTGGGTAGGAAGTAGTT-TAACCTAC-----------AC--------TTTCCACTTACGTCAATGTCAAATTGTAAAACCTGTTTTT---ATCAGAGATTTAGT----------------ACTAGATCTGCAAGTGAGGAAACTGTGC------CATTTCTGCTGACATATTACCAGTGAATGGTTCT
i otoGar3.GL873679         I 3 I 8
s mm10.chr18                55507760 882 +  90702639 TAGTTTTCTCTCCACAGGAGGATTGATTTATAATGAGGAAGAACACGCCTT--TTACCCTAAAAGTG--GACTAACTATC------TTTCAAAGA-----------TATCCTTCTCACTTCCA--TATTTT-GCTGACAACCCCTTAGGAA-----CTGCTCAGAAT---ATTCGGGGAGGGAAAATTTAAGCTGCAAGGTTCCTT---TCACACTTAGCAGCATTGGCACCGATGAAT-------TTAATTTAG-TTGTTGT---------T--TTAATTTAGTTTTGTCCTACTGTCCATTTCCTTTGA-AGGGAAGAAACACACATGATA-TTGGT--------GAGTTCTTCACCCAGTTCCGATTATCTCATTTTGAATTTGCCACAT----CTCAG-CCTTCCCCTAAATGCTTGCTCAATTTCTTCTTCTCCTT---AGTTA--TTTTTC----------------TTCTGTTAAA--------AAAGCAGCAGAGGCACCAGTGAGCTGTCAACTGTCAGCTTCTTTTCCATTATGTTTTTACTGCTGGG-AGATGTTGGAACAAAGGCATCCCAAGTGTTACTGAATGTGGGCCAGCAATCTGCCCTGGTGGAGAGGCTGCAATCATCCTGTAT-GGATGGGAATGTGTGCTTCTCGGCACTGCTTGGAGACTTCTTGTATTTCTCTTTGGGA---ATGCTTCATCAGTACAACTCTGTGA-GTGTCACTGCC-CTGGCCTTCTGTG-GCTACCACTTTCTGTGACAGAATGG------AAGAAATAAAATGTGACCTGTCAACCTTCAGTTGGTATGAAATAGCC-CAACAGATGCTTTTAAAACAC----AGAGTCCCAGATCATGTCAATGTCAATTCCTAAAGCATATTTGT---ATCAAAGATTTAGCTCCTGCCTCTGTGCTGGCCAGATATGCATGCAGAAAGCCTATAC----ATCATTTTGATTAACTTGTTACTGGGAGAGAATTCT
i mm10.chr18               I 3 I 8
s canFam3.chr11             14908442 928 +  74389097 TGTTTTTCTCCTTGTAGGATTATTGTTTTAAAACGGGGCGGAATGTGTTTTTATTACCCCAAAAGCGCAGTTTTATTGTTAGACAGTCTTGAGGGTGGCCAGGATGTATTCCCCTCGATTACACCCATTTTCACTGAT-ATTCCATAAGCA-----AGGCTAAGACCACCACT--GGGAGGGAAAGCCTAGGCTGAAGCGTTCAGT---TCACACTTAGCAGTGGTTCCTGCCGTGAGC---------------A-CTTTTTT---------C--CTT-TGCACTTTTGTTTTGTTGCTCATTTCCTTAGAGAGAAAAGTAAGCCACAAAATATTTTGC--------AAAAGCTTCCTCTGTTTCAGATTATATGAATTT--GGTTGATACACTTGTCTCTT-TCTTCTTTTATATTCCTACTCACTTTATTTTCCCCCTTCACAATTA--TTTTTCgtgtgtgtgtgtgtgtgtgtgtACAG--------ATGA----AGCAGCAGCAGCGAGCTGTCATTTGGCAGTTTCTTTTCCATTATGTTTTCACTGCTGGG-AAATGCTGGAACAAAGGCATCCAAAGTGTTACTGAATGGGGATCAACACACAGCCTTGCTGGTGAGGCTGTAATCAGCCTGTCTTGGAGGAAAATGCATGCTTTTCAGCACTGGTTGGAGA-TTTTTGTATTTATCTTTGAAATGCATGCTTAGCCCACATAGGCAAGTGATGTGTTATTGCC-ATGTCCTTATGCGGCCCACCACTTTTGTGAGCAGAATGG------AAGAAACGGAATGTGACCTGTCAACCCTCAGTGAGCATGAAGTAGTC-CAACAGACGTTTTTAAAACACAAAGAGAGGCCCAGCTTATGTCAGTGTCAATTTCTAAAACACGTTTTT---ATCAGGGATTTTGTTCTTGTC-CTCTTCTGGCCAGATATGCACGTGGGGAAGTCAtgctgctgctgctgctgctgACGTGTTACTCGTGAACAGTTCT
i canFam3.chr11            I 2 I 5
s dasNov3.JH567306           2618126 886 +   3667625 TGTTTTGATCCCTATAGTTTTATTTTTCTACAATGGGGTTGAATATGTCTTTATTATTCTAAAAGTACAGTTTTATTGTTAGGCAGTATTGAGAGTGGCTGTGATGTATTCACTTCAATTACACCTATTTTCACTGAT-ATTCCATAAGAA-----TCACTCATACCTC-ATT--GG----------TTAGGCTGAAAGGTTCATT---TCATATTTAGCAACAATTG---TCATTAAC---------------C-TTTTTTT---------G--CTTATTGAGTTTTGTTTTATTTTTTGTTTCCTT--A-AGGAAGGTAAACCATAAAATA-TTCGT--------GAAA---------ATTTTAGATTATCTAAACTC--ATTTTATCCATTCACCTCCA--TCTTCTTTAAATTCCTACTCACTTTATTTCCTTCTTTCACaatta-ttttttc----------------ttatattaaaa-------aaat----aGAAA---CAGTGGGCTGTCATTTGGCAGTTTCTTTTCCAGCATGCTTTCACTGCTGGG-AAATGCT-GAACAAAGGCATCCAAAGTGTTACTGAATGGGGATTTCCATTCAGCCCTGCCTGTGAGGTGGTAGTCAGCCTGTCTGGGATGAAAACACATGCTTTTCAGCACTGATTTGAGA-TTTTTGTGTTTATCTTTGTGACGCATGCTTAGCTCATGCAGTCATGTGAAGTGTTACTGCCAATGTCCTTATGTGGCCCACCACTCTCCTTGGTAGAGTGGAACAAAAACAAATGGAATGTGACCTGTCAACCTTCAGTCGGTATGAAATAGTTAAAACAGATGCTTTTAAAACACAA--ATAGTCCCAGTTCATATTTATGTCAATTTCTAAAACACATTTTCACAATCAGGAATTTAGTTGTGGTA-CTGTTGGGGCTAGATACACATGTGGGGAAGCTATGC------CATTTATGCAGACATGTTTCTGGTGAACAGTTTT
i dasNov3.JH567306         I 2 C 0

a score=193741.000000
s hg38.chr5_KI270796v1_alt     70473 15 +    172708 GGGGTCA----TAAATAGC
s panTro5.chr5             125180575 15 + 181907262 GGGGTCA----TAAATAGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126517605 15 + 183735486 GGGGTCA----TAAATAGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1708987 15 +   8933513 GGGGTCA----TAAATAGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139839813 15 + 163208435 GGGGTCA----TAAATAGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122829159 15 + 180051392 GGGGTCA----TAAATAGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124252809 15 + 181584905 GGGGTCA----TAAATAGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16250679 15 +  18395747 GGGGTCA----TAAATAGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5262747 15 +  26952557 GGGGTCA----TAAATAGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28364542 15 +  82825804 GGGGTCA----TAAATAGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4033959 15 -   4237731 GGGGTCA----TAAATAGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      302035 15 -   1175262 GGGATCA----TAAATAGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123646267 15 - 204313951 GGGGTCA----TAAATAGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55691116 15 -  71252344 GGGGTCA----TACATAGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1395110 14 -   1400280 GGGGTCA----TA-ATAGT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13192487 15 -  42888418 GGGGTCA----TAAATAGT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60533489 15 + 108143057 GGGGGTA----TAAGTAGC
i micMur3.chr12            I 7 C 0
s otoGar3.GL873679           3063830 14 +   4132165 GGGGGCA----T-AGAAGC
i otoGar3.GL873679         I 8 C 0
s mm10.chr18                55508650 12 +  90702639 GGGGGCA-------GTAGT
i mm10.chr18               I 8 C 0
s canFam3.chr11             14909375 19 +  74389097 GGGGTCAGGGGCAAGTAGC
i canFam3.chr11            I 5 I 216
s dasNov3.JH567306           2619012 15 +   3667625 GAGGGAA----CAAGAAGC
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I

a score=246250.000000
s hg38.chr5_KI270796v1_alt     70488 18 +    172708 AATAATGGGATG-----AACCAA
s panTro5.chr5             125180590 18 + 181907262 AATAATGGGATG-----AACCAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126517620 18 + 183735486 AATAATGGGATG-----AACCAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1709002 18 +   8933513 AATAATGGGATG-----AACCAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139839828 18 + 163208435 AATAATGGGATG-----AACTAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122829174 18 + 180051392 AAGAGTGGGGTG-----AACCAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124252824 18 + 181584905 AAGAGTGGGGTG-----AACCAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16250694 18 +  18395747 AAGAGTGGGAAG-----AACCAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5262762 23 +  26952557 AAGAATGGGATGAACCAAACCAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28364557 18 +  82825804 AAGAATGGGATG-----AACCAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4033974 18 -   4237731 AAGAATGGGATG-----AACCAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      302050 18 -   1175262 AAGAACGGGACG-----AACCAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123646282 18 - 204313951 AAGAATGGGATG-----AACCCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55691131 18 -  71252344 AAGAATGGGATG-----AACCCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1395124 18 -   1400280 AAGAATGGGATG-----AACCCA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13192502 18 -  42888418 AAGAATGGGATG-----AACCCA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60533504 18 + 108143057 AAGAATGGGATG-----AACCAA
i micMur3.chr12            C 0 I 1684
s otoGar3.GL873679           3063844 17 +   4132165 AAGAATGGAATG-----AACAA-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55508662 18 +  90702639 GAAAAGGAAATG-----AACCAA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14909610 18 +  74389097 aAGAATAGGATG-----AACTGA
i canFam3.chr11            I 216 C 0
s dasNov3.JH567306           2619027 18 +   3667625 AGGAATGAGATG-----AACTGA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I

a score=1387315.000000
s hg38.chr5_KI270796v1_alt     70506 132 +    172708 ACAGGCAGTA-GGTGTCCTCAGGCCTGGAAA------AGGCA---TAGGAG------GGTTAAA--GTGGTTACTTAAGTCACAC------TGTTTATGTCTCCCATGTGctaatgaagatatagaacatttctaccaccccaaa-aattt-tat-tgt
s panTro5.chr5             125180608 132 + 181907262 ACAGGCAGTT-GGTGTCCTCAGGCCTGGAAA------AGGCA---TAGGAG------GGTTAGG--GTGGTTACTTAAGTCACAC------TGTTTATGTCTCCCATGTGctaattaagatatagagcatttctaccaccccaaa-aattt-tgt-tgt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126517638 132 + 183735486 ACAGGCAGTT-GGTGTCCTCAGGCCTGGAAA------AGGCA---TAGGAG------GGTTAGG--GTGGTTACTTAAGTCACAC------TGTTTATGTCTCCCATGTGctaattaagatatagagcatttctaccaccccaaa-aattt-tgt-tgt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1709020 132 +   8933513 ACAGGCAGTA-GGTGTCCTCAGGCCTGGAAA------AGGCA---TAGGAG------GGTTAGG--GTGGTTACTTAAGTCACAC------TGTTTATGTCTCCCATGTGctaattaagatatagagcatttctatcaccccaaa-aattt-tat-tgt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139839846 132 + 163208435 ACAGGCAGTA-GGTGTCCTCAGGCCTGGGAA------AGGCA---TAGGAG------GGTTAGG--GTGGTTATTTAAGTCACAC------TGTTTATGTCTCCCATGTGCcaattaagatatagagcatttctaccacccccaa-aattt-tat-tgt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122829192 128 + 180051392 ACAGGCAGTA-GGTGTCCTCAGGCCTGGAAA------AGGCA---TAGGAG------GGTTGGG--GTGG----TTAAGTCACAG------TGTTTATGTCTCCCATGTGccaattaagatatagagcatttctaccacccccaa-aattt-tat-tgt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124252842 128 + 181584905 ACAGGCAGTA-GGTGTCCTCAGGCCTGGAAA------AGGCA---TAGGAG------GGTTGGG--GTGG----TTAAGTCACAG------TGTTTATGTCTCCCATGTGCcaattaagatatagagcatttctaccacccccaa-aattt-tat-tgt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16250712 128 +  18395747 ACAGGCAGTA-GGTGTCCTCAGGCCTGGAAA------AGGCA---TAGGAG------GGTTGGG--GTGG----TTAAGTCACAG------TGTTTATGTCTCCCATGTGCcaattaagatatagagcatttctaccacccccaa-aattt-tat-tgt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5262785 127 +  26952557 ACAGG-AGTA-GGTGTCCTCAGGTCTGGAAA------AGGCA---TAGGAG------GGTTGGG--GTGG----TTAAGTCACAG------TGTTTATGTCTCCCATGTGCcaattaagatatagagtatttctaccacccccaa-aattt-tat-tgt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28364575 128 +  82825804 ACAGGCAGTA-GGTGTCCTCAGGCCTGAAAA------AGGCA---TAGGAG------GGTTGGG--GTGG----TTAAGTCACAG------TGTTTATGTCTCCCATGTGCcaattaagatatagagcatttctaccacccccaa-aattt-tat-tgt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4033992 128 -   4237731 ACAGGCAGTA-GGTGTCCTCAGGCCTGGAAA------AGGCA---TAGGAG------GGTTGGG--GTGG----TTAAGTCACAG------TGTTTATGTCTCCCATGTGccaattaagatatagagcatttctaccacccccaa-aattt-tat-tgt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      302068 126 -   1175262 ACAGGCAGTAGGGTGTCCTCAGGCCTGGAAA------AGGCA---TAGGAG------GGTTGGG--GTGG----TTAAGTCACAG------TGTTTATGTCTCCCATGTGCC---Taagatatagagcatttctaccacccccaa-aattt-tat-tgt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123646300 132 - 204313951 ACAGGCAGTA-GGTGTCCACAGGCCTGGAAA------AGGTA---TGGGAG------GGTTGGG--GTGGTTATTTAAGCCACAC------TCTTTATGTCTCCCATGTGCcaattaagatataaagcatttctcccacctccaa-aattt-tat-tgt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55691149 132 -  71252344 AAAGGCAGTA-GGTGTCCACAGGCCTGGAAA------AGGTA---CGGGAG------GGTTGGG--CTGGTTATTTAAGCCACAC------TCTTTATGTCTCCCATGTGCcagttaagatataaagcatttctcccacctccaa-aattt-gat-tgt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1395142 132 -   1400280 GCAGGCAGTA-GGTGTCCACAGGCCTGGAAA------AGGTG---TGAGAG------GGTTGGG--CTGGTTATTTAAGCCACAC------TCTTTATGTCTCTCATGTGCcaattaagatataaagcatttctcccacctccaa-aattg-tat-tgt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13192520 132 -  42888418 ACAGGCAGTA-GGTGTCCACAGGCCTGGAAG------AGGTA---TGGGAG------GGTTGGG--GTGGTTATTTAAGTCACGC------TCTTTATGTCTCCTATGTGccaattaacatataaagcatttctcccaccttgaa-agttt-tat-tgt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3063861 122 +   4132165 TAAGGCAGTG-GGCATCCTCCAGCCAGGAGA------AGGTG---TGGGAT------GGTTATA--GAGG----CCACGAC------------TCTATGTCATTTAcataccaatt-agaaacagagcttttctaccacccaagg-aaatt-catatgt
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55508680 136 +  90702639 AAAGGAACTG-GGCATCTTTAAGAGGAGAGT------AGTCGTGCTGGGGT------AGTTACA--GTAGTTATGTGGGTCACCC------TCACTCTGTCACCCAGGTGGCTATCACTAGGCAGAGTGAGGCCTTTACCCAGGA-TGCTTCTCC-TGT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14909628 143 +  74389097 AAAGGTAGTG-GGCATTCTCAGCACTGGAAA------AGGCA---TAGGAGTGGGGTAGCAGGG--GTGG-CATCTAGGTCACACACCAG-TTcctatggaacgcgcaccccaatctggaattagaacacccctaggactcaagatagttc-tct-tgt
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2619045 146 +   3667625 AAAGAATGCA-GGAGTTCTCAGGACCGAAGAGCGTGTAGGGA---TGGAAG------CATAGGGGAGTGGGTAACTAGGTCACAGGCTAACTTcctatgtaacccattccccagtcaagaggtagatcattccatcaccccagaa-aattc-tct-tgt
i dasNov3.JH567306         C 0 I 8708
e micMur3.chr12             60533522 1684 + 108143057 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I

a score=455123.000000
s hg38.chr5_KI270796v1_alt     70638 48 +    172708 gccatctcactgtcagtt--tcatccccAGCCTAC-----AAG-------------------TA-------------------TCCCTGTAGA
s panTro5.chr5             125180740 48 + 181907262 gccatttcactgtcagtt--tcatccccAGCCTAC-----AAG-------------------TA-------------------TCCCTGTAGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126517770 48 + 183735486 gccatttcactgtcagtt--tcatccccAGCCTAC-----AAG-------------------TA-------------------TCCCTGTAGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1709152 48 +   8933513 gccatttcactgtcagtt--tcatccccAGCGTAC-----AAG-------------------TA-------------------ACCCTGTAGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139839978 48 + 163208435 gccatttcacagtcagtt--tcatccccAGCCTAC-----AAG-------------------TA-------------------TCCCTGTAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122829320 48 + 180051392 gccatttcacagtcagtt--tcgtccctagcctac-----aAG-------------------TA-------------------TCCCTGTAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124252970 48 + 181584905 gccatttcacagtcagtt--tcgtcccTAGCCTAC-----AAG-------------------TA-------------------TCCCTGTAGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16250840 48 +  18395747 gccatttcacagtcagtt--ttgtcccTAGCCTAC-----AAG-------------------TA-------------------TCCCTGTAGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5262912 48 +  26952557 gccatttcacagtcagtt--ttgtcccccGCCTAC-----AAA-------------------TA-------------------TCCCTGTAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28364703 48 +  82825804 gccatttcacagtcagtt--tcgtcccTAGCCTAC-----AAG-------------------TA-------------------TCCCTGTAGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4034120 48 -   4237731 gccatttcacagtcagtt--ttgtccccagcctac-----aaa-------------------TA-------------------TCCCTGTAGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      302194 48 -   1175262 gccagttcacagtcagtt--tcgtccccAGCCTAC-----AAG-------------------TA-------------------TCCCTGTAGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123646432 48 - 204313951 gccatttcacagtcaatt--tcctccccacccTAC-----AAG-------------------TA-------------------TCCCTGTAGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55691281 48 -  71252344 gccatttcacagtcaatt--tcctccccaccctcc-----aag-------------------TA-------------------TCTCTGTAGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1395274 47 -   1400280 gccatttcacagtcaatt--tcct-cccaccCTAC-----AAG-------------------TA-------------------TCCCTGTAGA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13192652 48 -  42888418 gccatttcacagtcaatt--tcctccccaccctac-----aag-------------------ta-------------------tcactgtAGA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3063983 59 +   4132165 acccatttcca----------catcctcaccctat-----atg-------------------taaacactcttctgacttctgtcactataga
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55508816 53 +  90702639 GTCCATTTCCAGTCAATC--TTTGCTCCATGGTACTTGCTAAA-------------------TACAT----------------TTTTTTT---
i mm10.chr18               C 0 C 0
s canFam3.chr11             14909771 69 +  74389097 acaccttttcaggcaactccccacccccatcccac-----cggtcaccactcttctgatttcta-------------------tccccataga
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2627899 67 +   3667625 gcatcttcccagtcaatc--ccctccccacttcag-----aag-------------------taaccaggcttctgatttctatccccaaata
i dasNov3.JH567306         I 8708 T 8354
e micMur3.chr12             60533522 1684 + 108143057 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I

a score=4607600.000000
s hg38.chr5_KI270796v1_alt     70686 344 +    172708 TTAATTTTTCTGT-------GAACACATTTTCTTTTGAATTGCCAAACCATGTCATATAATGTG-TATGGCACATCAGAAAAACGGAT-----AG----TACTGCTTTTGGACTTGAGGTCTTAGGTTTAATTTCTATTAACACTT-GAATTCATCTGACAATATCAAACGCAATCTCTGTGTGTTAAAGA---TTTGTTGCAAACTGTTCTTTAATTTTCCCCCCTAAACTATTTAGTACTAATGACAATTCCTGAAAAATAAAGAGACTCAGTGGATG-TTATAGGTATCTGGTTTATAAACTACTAAGCAAAGGTCTTTCAAGTTAAAGTTTGAAATGGGCACAAAGGCTCCAAGAGTCCTTA
s panTro5.chr5             125180788 348 + 181907262 TTAATTTTTCTGC-------GAACACATTTTCTTTTGAATTGCCAAACCATGTCATATAATGTA-TATGGCACATCAGAAAAACAGAT-----AGTACTTACTGCTTTTGGACTTGAGGTCTTAGGTTTAATTTATATTAACACTT-GAATTCATCTGACAATATCAAATGCAATCTCTGTGTGTTAAAGA---TTTGTTGCAAACTGTTCTTTAATTTTCCCCGCTAAACTATTTAGTACTAATGACAATTCCTGAAAAATAAAGAGACTCAGTGGATG-TTATAAGTATCTGGTTTATAAACTACTAAGCAAAGGTCTTTCAAGTTAAAGTTTGAAATGGGCACAAAGGCTCCAAGGGTCCTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126517818 348 + 183735486 TTAATTTTTCTGC-------GAACACATTTTCTTTTGAATTGCCAAACCATGTCATATAATGTA-TATGGCACATCAGAAAAACAGAT-----AGTACTTACTGCTTTTGGACTTGAGGTCTTAGGTTTAATTTATATTAACACTT-GAATTCATCTGACAATATCAAATGCAATCTCTGTGTGTTAAAGA---TTTGTTGCAAACTGTTCTTTAATTTTCCCCGCTAAACTATTTAGTACTAATGACAATTCCTGAAAAATAAAGAGACTCAGTGGATG-TTATAAGTATCTGGTTTATAAACTACTAAGCAAAGGTCTTTCAAGTTAAAGTTTGAAATGGGCACAAAGGCTCCAAGGGTCCTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1709200 342 +   8933513 TTAATTTTTCTGT-------GAACACATTTTCTTTTGAATTGCCAAACCATGTCATATAATGTA-TACGGCACATCAGAAAAACAGAT-----AG----TGCTGCTTTTGGACTTGAGGTCTTAGGTTTAATTTATATTAACACTT-GAATTCATCTGACAATATCAAATGCAATCTCTGTGTGTTAAAGA---TTTGTTGCAAACTGTTCTTTAATTTTCCCCCCTAAACTATTTAGTACTAATGACAATTCCTGAAAAATAAAGAGACTCAGTGGATG-TTATAAGTATCTGGTTTATAAACTACTAAGCAAAGGTCTTTCAAGTTAAAGTTTGAAAT-GGCACAAAGGCTCCAAGGGTCCTT-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139840026 344 + 163208435 TTAATTTTTCTGT-------GAACACATTTTCTTTTGAATTGCCAAACCATGTCATATAATGTA-TACGGCACATCAGAAAAACAGAT-----AG----TACTGCTTTTGGACTTGAGGTCTTGGGTCTAATTTATATTAACACTT-GAATTCATCTGACAATATCAAATGTAATCTCTGTGTGTTAAAGA---TTTGTTGCAAACTGTTCTTTAATTTTCCCCCCTAAACTATTTAGTACTAATGACAATTCCTGAAAAATAAAGAGACTCAGTGGATG-TTATAAGTATTTGGTTTATAAACTACTAAGCAAAGGTCTTTCAAGTTAAAGTTTGAAATGGGCACAAAGGCTCCAAGGGTCCTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122829368 344 + 180051392 TTAATTTTTCTGT-------GAACACATTTTCTTTTGAATTGCCAGACCATGTCATATAATGTA-TATGGCACATCAGAAAGACAGAT-----AG----TACTGCTTTTGGACTTGAGATCTTAGGTCCAATTGATACTAACACTT-GAATTCATCTGACAATATCAAATGTAATCTCTGTGTATTGAAGA---TTTGTTGCAAACTGTTCTTTTATTTTCCCCCC-AAACTATTTAGTACTGATGACACTTCCTGAAAAATAAAGAGACTCAGTGGATGTTTATAAGTATTTGGTTTATAAACTACTAAGCAAAGGTCTTTCAAGTTAAAGTTTGAAATGGGCCCAAAGGCTCCAAGGGTCCTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124253018 344 + 181584905 TTAATTTTTCTGT-------GAACACATTTTCTTTTGAATTGCCAGACCATGTCATATAATGTA-TATGGCACATCAGAAAGACAGAT-----AG----TACTGCTTTTGGACTTGAGATCTTAGGTCCAATTGATACTAACACTT-GAATTCATCTGACAATATCAAATGTAATCTCTGTGTATTGAAGA---TTTGTTGCAAACTGTTCTTTTATTTTCCCCCC-AAACTATTTAGTACTGATGACACTTCCTGAAAAATAAAGAGACTCAGTGGATGTTTTTAAGTATTTGGTTTATAAACTACTAAGCAAAGGTCTTTCAAGTTAAAGTTTGAAATGGGCCCAAAGGCTCCAAGGGTCCTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16250888 344 +  18395747 TTAATTTTTCTGT-------GAACACATTTTCTTTTGAATTGCCAAACCATGTCATATAATGTA-TATGGCACATCAGAAAGACAGAT-----AG----TACTGCTTTTGGACTTGAGATCTTAGGTCCAATTGATACTAACACTT-GAATTCATCTGACAATATCAAATGTAATCTCTGTGTATTGAAGA---TTTGTTGCAAACTGTTCTTTTATTTTCCCCCC-AAACTATTTAGTACTGATGACACTTCCTGAAAAATAAAGAGACTCAGTGGATGTTTATAAGTATTTGGTTTATAAACTACTAAGCAAAGGTCTTTCAAGTTAAAGTTTGAAATGGGCCCAAAGGCTCCAAGGGTCCTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5262960 344 +  26952557 TTAATTTTTCTGT-------GAACACATTTTCTTTTGAATTGCCAAACCATGTCATATAATGTA-TATGGCACATCAGAAAGACAGAT-----AG----TACTGCTTTTGGACTTGAGATCTTAGGTCCAATTTATATTAACAATT-GAATTCATCTGACAATATCAAATGTAATCTCTGTGTATTGAAGA---TTTGTTGCAAACTGTTCTTTTATTTTCCACCC-AAACTATTTAGTACTGATGACACTTCCTGAAAAATAAAGAGACTCAGTGGATGTTTATAAGTATTTGGTTTATAAACTACTAAGCAAAGGTCTTTCAAGTTAAAGTTTGAAATGGGCCCAAAGGCTCCAAGGGTCCTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28364751 344 +  82825804 TTAATTTTTCTGT-------GAACACATTTTCTTTTGAATTGCCAAACCATGTCATATAATGTA-TATGACACATCAGAAAGACAGAT-----AG----TACTGCTTTTGGACTTGAGATCTTAGGTCCAATTGATATTAACACTT-GAATTCATCTGACAATATCAAATGTAATCTCCGTGTATTGAAGA---TTTGTTGCAAACTGTTCTTTTATTTTCCCCCC-AAACTATTTAGTACTGATGACACTTCCTGAAAAATAAAGAGACTCAGTGGATGTTTATAAGTATTTGGTTTATAAACTACTAAGCAAAGGTCTTTCAAGTTAAAGTTTGAAATGGTCCCAAAGGCTCCAAGGGTCCTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4034168 344 -   4237731 TTAATTTTTCTGT-------GAACACATTTTCTTTTGAATTGCCAAACCATGTCATATAATGTA-TATGGCACATCAGAAAGACAGAT-----AG----TACTGCTTTTGGACTTGAGATCTTAGGTCCAATTTATATTAACAATT-GAATTCATCTGACAATATCAAATGTAATCTCTGTGTATTGAAGA---TTTGTTGCAAACTGTTCTTTTATTTTCCACCC-AAACTATTTAGTACTGATGACACTTCCTGAAAAATAAAGAGACTCAGTGGATGTTTATAAGTATTTGGTTTATAAACTACTAAGCAAAGGTCTTTCAAGTTAAAGTTTGAAATGGGCCCAAAGGCTCCAAGGGTCCTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      302242 344 -   1175262 TTAATTTTGCTGT-------GAACACATTTTCTTTTGAATTGCCAAACCATGTCATATAATGTA-TATGGCACATCAGAAAGACAGAT-----AG----TACTGCTTTTGGACTTGAGATCTTAGGTCCAATTTATATTAACACTT-GAATTCATCTGACAATATCAAATGTAATCTCTGTGTATTGAATA---TTTGTTGCAAACTGTTCTTTTATTTTCCCCCC-AAACTATTTAGTACTGATGACACTTCCTGAAAAATAAAGAGACTCAGTGGATGTTTATAAGTATTTGGTTTATAAGCTACGAAGCAAAGGTCTTTCAAGTTAAAGTTTGAAATGGGCCCAACGGCTCCAAGGGTCCTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123646480 341 - 204313951 TTAATTTTTCTGT-------GAACACATTTTCTTTTGAATTGCCAGACCATGTTATATAATATA-TACAGCACATCAGAAAAACAGAT-----AG----TACTG-TTTTGGACTTGAGGCCTTAGGTCTAATTTATATTAACCCTT-GGATTCATCTGACAATATCAGATGTAATCTCTGTGTATTAAAGA---TTTTTTGCAAACTGTT-GCAAATTTCCCCCCC-TAACTGTTTGGTACTAATGACACTTCCCGAAAAATAAAGAGACTCTGTGTGTG-TTATAAGTATTTGGTTTATAAACTATTAAGCAGAGGTCTTTGAAGTTAAAGTTTGAATTGGGCACAAAGGCTCCAAGGGACCTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55691329 342 -  71252344 TTAATTTTTCTGT-------GAACGCATTTTCTTTTGAATTGCCAAACCATGTCATATAATGTA-TACAGCACATCAGAAAAACAAAT-----AG----TACTGCTTTTGGACTTGAGACCTTAGGTCTAATTTA---TAACACTT-GGGTTCATCTGACAATATCAGATGTCATCTCTGTGTATTAAAGATTTTTTTTTGCAAACTGTT-GCAAATTTCCCACCC-TAACTGTTTAGTACTAATGACACTTCCCGAAAAATAAAGAGACTCTGTGGGTG-TTACAAGTATTTGGTTTATAAACTATTAAGCAGAGGTCTTTGAAGTTAAAGTTTGAAATGGGCACAAAGGCTCCAAGGGACCTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1395321 341 -   1400280 TTAATTTTTCTGT-------GAACACATTTTCTTTTGAATTGCCAAACCATGTCATATAATGTA-TACAGCACATCAGAAAAACAGAT-----AG----TACTGCTTTTGGACTTGAGGCCTTAGGTCTAATTTATATTAACACTT-GGATTCATCTGACAATATCAGATGTAATCTCTGTGTATTAAAAG-ATTTTTTTGCAAAC--TT-GCAAATTTTCC-CCC-TAACTGTCTAGTACCAATGACATTTCCTGAAAAATAAAGAGACTCTGTGGGTG-TTACAAGTATTTGGTTTATAAACTATTAAGCAGAGGTCTTTGAAGTTAAAGTTTGAAATGGGCACGAAGGTTCCAAGGGAACTTA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13192700 342 -  42888418 TTAATTTTTCTGT-------GAACACATTTTCTTTTGAATTGCCAAACCATGTCATATAATGTA-TACAGCACATCAGAAAAACAGAT-----AG----TACTGCTTTTGGACTTGAGGCCTTAGGTCTAATTTATATTAACACTT-GGATTCATCTGACAATATCAGATGTAATCTCTGTGTATTAAAGA---TTTTTTGCAAACTGTT-GCCAATTTTCCCCCC-TAACTGTTTAGTACTAATGACACTTCTGGAAAAATAAAGACACTCTGTGGGTG-TCACAAGTATTTGGTTTATAAACTATTAAGCAGAGGTCTTTGAAGTTAAAGTTTGAAATGGGCACAAACGCTCCAAGGGACCTTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60535206 341 + 108143057 ttagtttttctgt-------gaaCACAATTACTTTTAAATTGCCAAGCCATATAATGTGATAGA-TATAGCACATCAG-AAAACAAAT-----AA----TACTTCTTTTGTATTTGAAGTCTTAGGTCTAATTTATA-TAACACTT-GGATTCATTTGGCACTATAAAATGTAATCTCTGTGCATTAAAGA---TTTGTTGAGAATTGTTCTTTAATTTTTTTCCCCAAAGTATTTAGTACTAATGATACTTCCTAAAAAATAAAGAGATTCAGTGGATG-TTCTAAATATTCGGTTTATAAAATGTTAAACATGGATC-CTCAAGTTAAAATTTGAAATTGGCACAAAGGCTCCAAGTGTCCTTA
i micMur3.chr12            I 1684 I 1036
s otoGar3.GL873679           3064042 346 +   4132165 tgagttttacTAT-------GAACTCAGTTACTTTTAAGTTGCCAAGCCATATAATGTAATAGA-GATAGCACATCAGAAAAACAAATACTTGAG----TTTTCCTTTTGCATTCAAAGTCATGGGTCTAATTTATA-TAACACTT-GGATTCATTTGACAATGTCAAATGTAATCTCTGTTCACTAAAGA---TTTGTTGAGAATTGTTCTATAATTTTTCTCCCTAAACCAGTTAGTATTAAT-CTTTTTCCTGAAAAATAGAGAGATTTAGTGGATG-TTCAAAGTATTTAGTTTATAAACTCTTAAGCATGGAGC-CTCAAGTTAAAGCTTGAAATTAGCACAAAGGCTTCAAGTGTTTTTA
i otoGar3.GL873679         C 0 I 1834
s mm10.chr18                55508869 320 +  90702639 TTGGTATTTCTATGCCTACAGATTATATTTGCTTTCAAATTGCCCAGCAATACAATATAATTCA-----GCCCTGGAGAAAAACAG-------AG----TCTTGCTTTC---CTCTAAGCTTTAGTTAGA---------GACAACC-GGATGCGTCTGGCACTGTGAAATGCACCCTGTGTGTAGGAAAGG---TTGGCTGAGCATACTCTGATTTTTTTCCCCTA-AAACAATTTGATAACAATGGTGTCTCCTGGAAGACAAAGGTAACTAGAGGATA------AGAATATGGTTTATAAATTATTAA------ATCCTACATGTTAAAGTTTGAAAT-GGCAGAAAAGTTCCAATTGTATTCA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14909840 327 +  74389097 ttaaatttCC----------G----CATTTGCTTTCTAATTGCCAAGCCATAGAATGTAAC-----ACGATATATCAGAAAAACAAAT-----CG----TGCTGCTTTGAGAGTTAAG-TCTTATGTATAATTTATG-TAATACTTGGGATTCATCTGACACTGTAAAATGTAATCTCTGTGTATTAAAGA---TTCGTTGAAAAATGTTCCTTGATTTTCCCCCT-AAACTACTTAGTATTAATGATATGTCCTGAAAAA-GTAGAGATTCAATGAATG-AGAGAAGTATTTGATTTATAAACTAA-AAACACAGATCTCTTAAGTTCAAGTTTGAAAT-GGCACAAAGCCTCCAAGTATCTTA-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2619612 337 +   3667625 tcaacataCCTAT-------AAACACATTTGCTTTT-AATTGCCAAGCAATATAATGTAGTATAGTATAGTATATTAGAAAGACAAAT-----AG----TACCACTTTTGGAGTTATACTTTTAGGTCTAATTTACA-TCATACTT-GGATTCATCTGACAATATAAAATGTAATCTATGTGTATGAAAGA---TTT-TTGAGAATTTTTCTTTGCTCTTCTCCTT-AAACTAGTTAATACTAATGTTATATCCTGAAAAACAAGG--ATTAAGTGTAGG-TTATAAATATTTGGTTTATAAACTATTAAACATA-TTCTCTCAAGTTAAAGTCTGAAAC-AGAATAAAAGCTCTAAGTGTTCTTA
i dasNov3.JH567306         T 8354 C 0
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I

a score=266422.000000
s hg38.chr5_KI270796v1_alt     71030 25 +    172708 GAAT-GAAAGTGTCATGGCACATTTG
s panTro5.chr5             125181136 25 + 181907262 GAAT-AAAAGTTTCATAGCACATTTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126518166 25 + 183735486 GAAT-AAAAGTTTCATAGCACATTTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1709542 25 +   8933513 GAAT-AAAAGTTTCATAGCACATTTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139840370 25 + 163208435 GAAT-AAAAGTTTCATAGCACATTTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122829712 25 + 180051392 GAAT-AAAAGTTTCATAGCACAGTTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124253362 25 + 181584905 GAAT-AAAAGTTTCATAGCACAGTTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16251232 25 +  18395747 GAAT-AAAAGTTTCATAGCACAGTTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5263304 25 +  26952557 GAAT-AAAAGTTTCATAGCACAGTTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28365095 25 +  82825804 GAAT-AAAAGTTTCATAGCACAGTTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4034512 25 -   4237731 GAAT-AAAAGTTTCATAGCACAGTTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      302586 26 -   1175262 GAATAAAAAGTTTCATAGCACAGTTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123646821 25 - 204313951 GCAT-AAAAGTTTTATAGCACAGTTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55691671 25 -  71252344 GCAT-AAAAGTTTTACAGCACAGTTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1395662 25 -   1400280 GCAT-AAAAGTTTTACAGCAGAGTTG
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13193042 25 -  42888418 GCAT-AAAAGTTTTACAGCACAGTTG
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55509189 25 +  90702639 GGAA-AGCAGTTTCCTGCTATATGTG
i mm10.chr18               C 0 I 1388
s canFam3.chr11             14910167 25 +  74389097 AGAC-CACCGCTTCATAGTACAGTAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2619949 25 +   3667625 AGAG-GATAGTTTCATGGCACATTAG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3064388 1834 +   4132165 I

a score=84676.000000
s hg38.chr5_KI270796v1_alt     71055 9 +    172708 CAACTCTTT
s panTro5.chr5             125181161 9 + 181907262 CAACTCTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126518191 9 + 183735486 CAACTCTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1709567 9 +   8933513 CAACTCTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139840395 9 + 163208435 CAACTCTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122829737 9 + 180051392 CAACTCTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124253387 9 + 181584905 CAACTCTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16251257 9 +  18395747 CAACTCTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5263329 9 +  26952557 CAACTCTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28365120 9 +  82825804 CAACTCTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4034537 9 -   4237731 CAACTCTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      302612 7 -   1175262 CAACTC--T
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123646846 2 - 204313951 C-------T
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55691696 9 -  71252344 CATCTCTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1395687 9 -   1400280 CATCTCTTT
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13193067 9 -  42888418 TATCTCTTT
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14910192 9 +  74389097 CAACTCTTT
i canFam3.chr11            C 0 I 866
s dasNov3.JH567306           2619974 9 +   3667625 CAACTCTct
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e mm10.chr18                55509214 1388 +  90702639 I

a score=22588.000000
s hg38.chr5_KI270796v1_alt     71064 3 +    172708 TAA
s panTro5.chr5             125181170 3 + 181907262 TAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126518200 3 + 183735486 TAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1709576 3 +   8933513 TAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139840404 3 + 163208435 TAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122829746 3 + 180051392 TAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124253396 3 + 181584905 TAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16251266 3 +  18395747 TAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5263338 3 +  26952557 TAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28365129 3 +  82825804 TAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4034546 3 -   4237731 TAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      302619 3 -   1175262 TAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123646848 3 - 204313951 ATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55691705 3 -  71252344 GAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1395696 3 -   1400280 GAA
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13193076 3 -  42888418 GAA
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2619983 3 +   3667625 taa
i dasNov3.JH567306         C 0 I 7773
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e mm10.chr18                55509214 1388 +  90702639 I

a score=6611774.000000
s hg38.chr5_KI270796v1_alt     71067 766 +    172708 AAACCTCTTTGAggctgagtgc----gtttacgcctgtaatcccagcaatttgggaggccgagacgggcagatcatttgaggtcaggagttcgagaccggcctggccaacgtggtgaaaccctgtctctactatacatacagaaaa-attagctgggtgtggtggtgtatgcccgtaatcccagctactcaggaggctgaggcagaagaattgtttgaagctgggagacggaggatgcaaggatgcagtgagccgagatcac-----gccactgcactccagcctgggcaacagagtgagactccatctcaaaaggaaaagaaaaaacaataacaaaaCAACAAGAGCAAA-ATAAAAAAAAAAATTCCACCTctttgagagctcgtttgaagtttctagcaggggagggtagctacccgtatacccttgatggaaggccggccctcctctatgagggatggttatcctctt----tgagcatgcagcttcgggagggacgcacgaggagcggtaaggaagggaggggacacctgcccagccaaccggatcagccaaatcaaccttggcgatcaatggggtgacatgtgtcgcagccagatcaccctcacatccATTAACTC-TTAAAACACTTCTTTGg-attcgctaaaactctccttctctctgtagaacacagtgactaatgtccatcattctctctctgcaatcatctagctagcgggctgttctca-----------ggggggttgtgcatttgcctcacctgttgaattggtgcctaccaagcattt
s panTro5.chr5             125181173 764 + 181907262 AAACCTCTTTGAggctgagtgc----gtttacgcctgtaatcccagcaatttgggaggccgagacgggcagatcatttgaggtcaggagttcgagaccggcctggccaacgtggtgaaaccctgtctctactataaacacagaaaa-attagctgggtgtggtggtgtatgcctgtaatcccagctactcaggaggctgaggcagaagaattgcttgaagctgggagacggaggatgcaaggatgcagtgagccgagatcac-----gccactgcactccagcctgggcaacagagtgagactccatctcaaaagaaaaagaaaaaacaataacaaaaCAACAATAGCAAA-AT--AAAAAAAAATTCCACCTctttgagagctcatttgaagtttctagcaggggagggtagctacccgtatacccttgatggaaggccggccctcctctatgagggatggttatcctctt----tgagcatgcagctgcgggagggacgcacgaggagcggtgaggaagggaggggacacctgcctagccaaccagatcagccaaatcaaccttggcgatcaatggggtgacatgtgtcgcagccagatcaccctcacatccATTAACTC-TTAAAAAACCTCTTTGg-attagctaaaactctccttctctctgtagaacacagtgactaatgtccatcattctctctctgcaatcatctagctagcgggctgttctca-----------ggggggttgtgcatttgcctcacctgttgaattggtgcctaccaagcattt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126518203 761 + 183735486 AAACCTCTTTGAggctgagtgc----gtttacgcctgtaatcccagcaatttgggaggccgagacgggcagatcatttgaggtcaggagttcgagaccggcctggccaacgtggtgaaaccctgtctctactataaatacagaaaa-attagctgggtgtggtggtgtatgcctgtaatcccagctactcaggaggctgaggcagaagaattgcttgaagctgggagacggaggatgcaaggatgcagtgagccgagatcac-----gccactgcactccagcctgggcaacagagtgagactccatctcaaaagaaaa--gaaaaacaataacaaaaCAACAATAGCAAA-AT---AAAAAAAATTCCACCTctttgagagctcatttgaagtttctagcaggggagggtagctacccgtatacccttgatggaaggccggccctcctctatgagggatggttatcctctt----tgagcatgcagctgcaggagggacgcacgaggagcggtgaggaagggaggggacacctgcctagccaaccagatcagccaaatcaaccttggcgatcaatggggtgacatgtgtcgcagccagatcaccctcacatccATTAACTC-TTAAAAAACCTCTTTGg-attagctaaaactctccttctctctgtagaacacagtgactaatgtccatcattctctctctgcaatcatctagctagcgggctgttctca-----------ggggggttgtgcatttgcctcacctgttgaattggtgcctaccaagcattt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1709579 761 +   8933513 AAACCTCTTTGAGGCTGAGTGT----gtttatgcctctaatcccagcaatttgggaggctgagacgggcagatcgtttgaggtcaggagttcgagaccagcctggccaacgtggtgaaaccctgtctctactataaatacagaaaa-attagctgggtgtggtggtgtatgcctgcaatcccagcta-tcaggaggctgaggcagaagaattgcttgaagctgggagacggaggatgcaaggatgcagtgagccgagatcac-----gccactgcactccagcctgggcaacagagtgagactccatctcaaaagaaaaagaaaaaacaataacaaaaCAACAAGAGCAAA-AT---AAAAAAAAATCCACCTctttgagagctcgtttgaagtttctagca-gggagggtagctacccgtatacccttgatggaaggtcggtcctcctctatgagggatggttatcctctt----tgagcatgcagcttcgggagggacgcacgaggagcggtgaggaagggaggggacacctgcctagccaaccagatcagccaaatcaaccctggtgatcaatggggtgacatgtgttgcagccagatcaccctcacatccATTAACTC-TTAAAAAACCTCTTTGg-attagctaaaactctccttctctctgtagaacacagtgactaatgtccatcattctctctcagcaatcatccagctagcgggctgttctca-----------ggggggttgtgcatttgcctcacctgttgaattggtgcctaccaagcattt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139840407 756 + 163208435 AAACCTCTTTGAggctgagtgc----gtttatgcctgtaatcccagcaatttgggaggccgagacgggcagatcatttgaggtcaggagttcgagaccagcctggccaacgtagtgaaaccctgtctctactataaatacaaaaaa-attagctgggtgtggtggtgtatgcctgtaatcccagctactcaggaggctgaggcagaagaattgcttgaagctgggagacgg--------aggatgcagtgagctgagatcac-----gccactgcactccagcctgggcaacagactgagactccatctcaaaagaaaaagaaaaaaCAACAGCaaaataaaa-----aaa-at---aaaaaaaaaTCCACCTctttgagagcttgtttgaagtttctagcaggggagggtagctacttgtatacccttaatggaaggctggccctcctctatgagggatggttatcctttttgactgagcatgcagcttcgggagggacacacaaggagcggttaggaaggaaggggacacctgcctagccagccagatcagccaaatcaaccctggtgatcaatggggtgacatgtgttgcagccagatcatcctcacatccATTAACTCTTTTAAAAACCTCTTTGGAattagctaaaactccccttctgtctgtagaacacagtgaccaatgtccatcattctctccctgcaatcatccagctagtgggctgttctca-----------gtggggttgtgcatttgcctcacctgttgaattggtgcctaccaagcattt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122829749 770 + 180051392 AAACCTCTTTGAAgctgaatgcattggctcacgcctgtaatcccagcaatttgggaggctaagacaggtggatcatttgaggtcaggagctcgagaccagcatggccaacgtggtgaaaccctgtctttactaaaaatccaaaaaatattagctgggcgtggtggtgtacacctgtaatcccagctactcaggaggttgaggcaagagaatcgcttgaagccaggagacag--------aggatgcagtgagccaagatcac-----gccactgcactccagcctgggtgacagagtgagatggcatctcaaaagaaaaataa-----aacaacaaaaCAACAATAAAAAA-ATT-TAAAAAAAAATCCACCTATttgagagcttgtttgaattttctagcaggggatcgtagctattcgtatacccttggtggaagactggccctcctttatcagggatggttatcccctttgactgagcatgcatcttcgggagggatgcacaaagagcggtgagggaggaaggcgacacccacctagccagccagatcagccacatcaaccctggcgctcaatggggtg--atgtgtcgcagctagatcaccctcacatccAGTAACTTCTTTAAAAACCTCTTTGg-attcgctaaaactctccttctctttgtagaacacagtgactaatgtccatcattctctctctgcaatcatccagctagtgggctgttctct-gggggggggggggaggttgtacatttgcctcacctgttgaattggtgcctaccaagcattt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124253399 769 + 181584905 AAACCTCTTTGAAgctgaatgcattggctcacgcctgtaatcccagcaatttgggaggctaagacaggtggatcatttgaggtcaggagctcgagaccagcatggccaacgtggtgaaaccctgtctttactaaaaatccaaaaaatattagctgggcgtggtggtgtacacctgtaatcccagctactcaggaggttgaggcaagagaatcgcttgaagccaggagacag--------aggatgcagtgagccaagatcac-----gccactgcactccagcctgggtgacagagtgagatggcatctcaaaagaaaaataa-----aacaacaaaaCAACAATAAAAAA-ATT-AAAAAAAAAATCCACCTATttgagagcttgtttgaattttctagcaggggatcgtagctattcgtatacccttggtggaagactggccctcctttatcagggatggttatcccctttgactgagcatgcatcttcgggagggatgcacaaagagcggtgagggaggaaggcgacacccacctagccagccagatcagccaaatcaaccctggcgctcaatggggtg--atgtgtcgcagctagatcaccctcacatccAGTAACTTCTTTAAAAACCTCTTTGG-ATTCGCTAAAACTCTCCTTCTCTTTGTAGAACACAGTGACTAATGTCCATCATTCTCTCTCTGCAATCATCCAGCTAGTGGGCTGTTCTCT--GGGGGGAGGGGGAGGTTGTACATTTGCCTCACCTGTTGAATTGGTGCCTACCAAGCATTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16251269 770 +  18395747 AAACCTCTTTGAAgctgaatgcattggctcacgcctgtaatcccagcaatttgggaggctaagacaggtggatcatttgaggtcaggagctcgagaccagcatggccaacgtggtgaaaccctgtctctactaaaaatccaaaaaatattagctgggcgtggtggtgtacacctgtaatcccagctactcaggaggttgaggcaagagaatcgcttgaagccaggagacag--------aggatgcagtgagccaagatcac-----gccactgcactccagcctgggtgacagagtgagatggcatctcaaaagaaaaataa-----aacaacaaaaCAACAATAAAAAA-ATT--AAAAAAAAATCCACCTATttgagagcttgtttgaattttctagcaggggatcgtagctattcgtatacccttggtggaagactggccctcctttatcagggatggttatcccctttgactgagcatgcatcttcgggagggatgcacaaagagcggtgagggaggaaggcgacacccacctagccagccagatcagccaaatcaaccctggcgctcaatggggtg--atgtgtcgcagctagatcaccctcacatccAGTAACTTCTTTAAAAACCTCTTTGG-ATTCGCTAAAACTCTCCTTCTCTTTGTAGAACACAGTGACTAATGTCCATCATTCTCTCTCTGCAATCATCCAGCTAGTGGGCTGTTCTCTgggggggggggggggggTTGTACATTTGCCTCACCTGTTGAATTGGTGCCTACCAAGCATTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5263341 761 +  26952557 AAACCTCTTTGAAgctgaatgcattggctcacgcctgtaatcccagcaatttgggaggctgagacgggtggatcatttgaggtcaggagctcgagaccagcatggccaacgtggtgaaaccctgtctctactaaaaatccaaaaaatattagctgggcgtggtggtgtacacctgtaatcccagctactcaggaggttgaggcaagagaatcgcttgaagccaggagacag--------aggatgcagtgagccaagatcac-----gccactgcactccagcctgggtgacagagtgagatggcatctcaaaagaaaaataa-----aacaacaaaaCAACAATAAAAAA-ATT-TTTAAAAAAATCCACCTATttgagagcttgtttgaattttctagcaggggatcgtagctattcgtataccct---tggaagactggccctcctttatcagggatggttatcccctttgactgagcatgcatcttcgggagggatgcacaaagagcagtgagggaggaaggcgacacccacctagccagccagatcagccaaatcaaccctggcgctcaatggggtg--atgtgtcgcagctagatcaccctcacatccAGTAACTTTTTTAAAAACCTCTTTGG-ATTCGCTAAAActctccttctctttgtagaacacagtgactaatgtccatcattctttctctgcaatcatccagctagtgggctgttctcc-------gggcggggggttgtacgtttgtctcacctgttgaattggtgcctaccaagcattt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28365132 759 +  82825804 AAACCTCTTTGAAgctgaatgcattgactcacgcctgtaatcccagcaatttgggaggctgagacgggtggatcatttgatgtcaggagctcgagactagcatggccaacgtggtgaaaccctgtctctactaaaaatccaaaaaatattagctgggcgtggtggtgtacacctgtaatcccagctactcaggaggttgaggcaagagaatcgcttcaagccaggagacag--------aggatgcagtgagccaagatcac-----gccactgcactccaccctgggtgacagagtgagatggcatctcaaaagaaaaataa--aGcaacaacaaaacaacaataaaaac-attaaaaaaaaaaaTCCACCTATttgagagcttgtttgaattttctagcaggggatcgtagctattcgtatacccttggtggaagactggccctcctttatcagggatggttatcccctttgactgagcatgcatctttgggagggatgcacaaagagcggtgagggaggaaggcgacacccacctagccagccaaatcagccaaatcaaccctggcgatcaatggggtg--atgtgtcgcagctagatcaccctcacatccAGTAACTTTTTTAAAAACCTC--TGg-attcgctaaaactctc---ctctttgtagaacacagtgactaatgtccatcattctctctctgcaatcatccagctagtgggctgttctcc-----------gggggtctgtacatttgcctcacctgttgaattggtgcctaccaagcattt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4034549 769 -   4237731 AAACCTCTTTGAAgctgaatgcattggctcacgcctgtaatcccagcaatttgggaggctgagacgagtggatcatttgaggtcaggagctcgagaccagcatggccaacgtggtgaaaccctgtctctactaaaaatccaaaaaatattagctgggcgtggtggtgtacacctgtaatcccagctactcaggaggttgaggcaagagaatcgcttgaagccaggagacag--------aggatgcagtgagccaagatcac-----gccactgcactccagcctgggtgacagagtgagatggcatctcaaaagaaaaataa-----aacaacaaaaCAACAATAAAAAA-TTtttttttaaaaatccacctatttgagagcttgtttgaattttctagcaggggatcgtagctattcgtatacccttggtggaagactggccctcctttatcagggatggtcatcccctttgactgagcatgcatcttcgggagggatgcacaaagagcggtgagggaggaaggcgacacccacctagccagccagatcagccaaatcaaccctggcgctcaatggggtg--atgtgtcgcagctagatcaccctcacatccAGTAACTTTTTTAAAAACCTCTTTGg-attcgctaaaactctccttctctttgtagaacacagtgactaatgtccatcattctctctctgcaatcatccagctagtgggctgttctcc---ggggggggggggggttgtacgtttgcctcacctgttgaattggtgcctaccaagcattt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      302622 762 -   1175262 AAACGTCTTTGAAgctgaatgcactggctcacgcctgtaatcccagcaatttgggaggctgagacaggtggatcatttgaggtcaggagctcgagaccagcatggccaacgtggtgaaaccctgtctctactaaaaatccaaaaaatattagctggacgtggtggtgtacacctgtaatcccagctactcaggaggttgaggcaagagaatcgcttgaagccgggagacag--------aggatgcagtgagccgagatcac-----gccactgcacttcagcctgggtgat--agtgagatggcatcctaaaagaaaaatga--aacaacaacaaaagaaCAATAACAAA-ATT-AAAAAAAAAATCCACCTATttgagagcttgtttgaattttctagcaggagatcgtagctattcgtgtacccttgatggaagactggccctcctttatcggggatggttatcctctttgactgagcatgcatcttcgggaggaatgcataaagagcggtgagggaggaaggtgacacccacctaaccagccagatcagccaaatcaaccctggtgatcaatggggtg--acgtgtcacagccagatcaccctcacatcTAGTAACTTTTTTAAAAACCTCTTTGG-ATTCGCTAAAACTATCCTTCTCTTTGTAGAACACAGTGACTAATGTCCATCATTCTCTCTCTGCAATCATCCAGCTAGTGGGCTGTTCTCC----------GGGGGGATTGTACATTTGCCTCACCTGTTGAATTGGTGCCTACCAAGCATTT
i colAng1.NW_012119644v1   C 0 I 373
s calJac3.chr2             123646851 754 - 204313951 AAACTTTT-------TGAATgtggtggctcacacttataatcccagcaatttgggaggccaaggc-ggcagatcatttgaggtcaggagtttgagaccagcctggctaacatggtgaaactgtgtctctactaaaaatacaaaaga-attagctgggcatggtggtgcatacctgtaatccgagctattcaggaggctgaggcaggagaattgctggaagccgagagacaa--------aagatgcagtgagctgagatcactccatgccactgcactccagcctgggtgacagatggcgacgctgtcacaaaaaagaaaaag-----taaaagaaaaCAACAACAACAAC-AA--AATTAAAAACCCCACCTATttgagagcttgtttggaggttctagcagtgga--gcagctactcatatacccttgatggaagatggatcctcctctatcagggatggttgtccactttgaccaagcatgcagcttcaggagggatgcacaagaagtggtgggggaggaagggaacacctacctaaccagccagatcagccgaatcaaccctggagattgccagggttacaggtgtcacagccagatcaccctcacgtccAGTAACTCTTTTAAAAACCTC-TTGg-attagctaaaactctccatctctctgtagaacacagtgactaacgtccatcattatctccctgcaaacatccagctagtgggctgtcctca-----------ggcgagctgtacatttgcctcacctgttgaattggtgcctcccaagcattt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55691708 758 -  71252344 AAACCTCTTTGAggctgagtgtggtggctcacacttataatgacggcaatttgggaggccaaggcgggcagaccatttgaggtcaggtgttcgagaccagcctggccaacatggtgaaaccatgcctctactaaaaatacaaaaga-attagctgggcatggtggcgcatacctgtaatccgagctatttaggaggctgaagcaggagaattgctggaagccgagagacaa--------aagatgcagtgagctgagatcacaccatgccactgcactccagcctgggtgacagagggcgactctttcacaaaaaagaaaaag-----aaaaagaaaaCACCAACA--AAA-AA--AATTAAAAGCCCCCCCTctttgtgagcttatttggaggttctagcagggga--gcagctactcgtatacccttggtggaagatggatcctcctctatcagggatggttgtccgctttgaccaagcatgcagcttgaggaggg-tatacaagaagtgatggggcaggaagggaacacctgcctagccagccagatcagccgaatcaaccctggcaa-caccggagtgacatgtgtcacagccagctcaccctcccatccAGTAACTCTTTTAAAAACCTC-TTGg-attacctaaaactctcctcctttctgtagaacacagtgactaatgtacatcattacctctctgcaaacatccccatagtgggctgtcctca-----------ggtgggctgtacatttgcttcacctgttgaattggtgcctaccaagcattt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1395699 761 -   1400280 AAACCTCTTTGAggctgagtgtggtggctcacacttttaatcccagcaatttgggaggccaaggcaggcagatcatttgaggtcaggagttcgagagcagcctggccaacatggtgaaaccatgtctccactaaaaatacaaacga-attagctggacatggtggcgcatacctgtaatccgagctattcatgaggctgaggcaggagaattgctagaagccaagagacaa--------aagatgcagtgagctgagatcatgccatgccactgcacttcagcctgggtgacagaggggtactctgtcacaaaaaagaaaaag-----aaaacaacaacaacaacaacaacaaa--aaTTTAAAACCCCACCTctttgagagcttgtttggaggttctaagagggga--gcagctactcgtatacccttgatggaagatggatcctcctctatcacggatggttgtccgctttgaccgagcgtgcagcttcaggaagg-tgcacaggaagtggtgggggaggaagggaacacctgcc-agccagccagatcagccgaatcaaccctggcgatcaccggggtgacatgtgtcacagctggatcaccctcacatccAGTAACTCTTTTAAAAACCTC-TTGg-attacctaaaactctccatctctctgtagaacacagtgactaacgtccatcattatctctctgcaaacatccagctagtggaatgtcctca-----------ggtgggctgtacatttgcctcacctgttgaattggtgcctaccaagcattt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13193079 763 -  42888418 AAATCTCTTTGAggctgagtgtggtggctcacacttataatcccagcaatttgggaggccaaggcgggcagatcatttgaggtcaggagttcgagaccagcctggccaacatggcgaaaccttgtctctactaaaaatacaaaaga-attagctgggcatggtggcacgtacctgtaatccaagctattcaggaggctgatgcaggagaaatgctggaagccgagagacaa--------aagatgcagtgagctgagatcacgccatgccactgcactccagcctgggtgacagagggcgactctgtcacaaaaaagaaaaag-----aaaaagaaaacaacaacaacaacaac--aaATTAAAAACCCACCCctttgagcgcttgtttggaggttctagcagtgga--gcagctactcgtatacacttgatggaagatggatcctcctctatcagggatggttgtccgctttgacagggcgtgcagcttcaggaaggatgtacaagaagtggtcggggaggaagggaacacctacctggccagccagatcagccaaatcaaccctggcgatcaccagggtgacatgtgtcacagccagatcaccctcacatccAGTAACTCTTTTAAAAACCTC-TTGg-attacctaaaactctccttctctctgtagaacacagtgactaatgtccatcattatctccctgcaaacatccagctagtgggctatcctca-----------agtgggctgtacatttgcctcacctgttgaattggtgcctaccaagcattt
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I

a score=1143301.000000
s hg38.chr5_KI270796v1_alt     71833 142 +    172708 attatgtttatactacacaagtttt-----------acttcctgtt------gttattatttaatttaataaatattacaccaagtggcaaaatacgaatgtcaggaaaacagttttgggtttctctggagagaaatttaatgccaaggaaagacAAAG
s panTro5.chr5             125181937 142 + 181907262 attatgtttatactacacaagtttt-----------acttcctgtt------tttattatttaatttaataaatattacaccaagtggcaaaatacgaatgtcaggaaaatagttttgggtttctctggagagaaatttaatgccaaggaaagacAAAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126518964 142 + 183735486 attatgtttatactacacaagtttt-----------acttcctgtt------gttattatttaatttaataaatattacaccaagtggcaaaatacgaatgtcaggaaaacagttttgggtttctctggagagaaatttaatgccaaggaaagacAAAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1710340 142 +   8933513 attatgtttatactacacaagtttt-----------acttcctgtt------attattatttaatttaataaatattacaccaagtggcaaaatacgaatgtcaggaaaacagttttgggtttctctggagagaaatttaatgccaaggaaagacAAAg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139841163 142 + 163208435 attatgttgatactacacaagtttt-----------acttcctgtt------gttattatttaatttgataaatattacaccaagtggcaaaatatgaatgtcaggaaaacagtttagggtttctctggagagaaatttaatgccaaggaaagacaaag
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122830519 139 + 180051392 attatgtttatACTACACAAATTTT-----------ACTTCCTGTT------GTT---ATTTAATTCAATAACTATTATACCAAGTGGCAAAATATGAATGTCAGGGAAAGAGTTTTGGGTTTCTCTGGGGAGAAATTTAATGTCAAGGAACGACAAAg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124254168 139 + 181584905 ATTATGTTTATACTACACAAATTTT-----------ACTTCCTGTT------GTT---ATTTAATTTAATAACTATTATACCAAGTGGCAAAATATGAATGTCAGGGAAAGAGTTTTGGGTTTCTCTGGGGAGAAATTTAATGTCAAGGAACGACAAAg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16252039 139 +  18395747 ATTATGTTTATACTACACAAATTTT-----------ACTTCCTGTT------GTT---ATTTAATTTAATAACTATTATACCAAGTGGCAAAATATGAATGTCAGGGAAAGAGTTTTAGGTTTCTCTGGGGAGAAATTTAATGTCAAGGAACGACAAAg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5264102 134 +  26952557 attatgtttatactacacaaatttt-----------acttcctgtt------gtt---attt-----aataactattataccaagtggcaaaatatgaatgtcagggaaagagttttgggtttctctgGGGAGAAATTTAATGTCAAGGAACGACAAAg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28365891 139 +  82825804 attatgtttatactacacaaatttt-----------acttcctgtt------gtt---atttaatttaataaatattataccaagtggcaaaatatgaatgtcagggaaagagttttgggtttctctggggagaaatttaacgtcaaggaacgacaaag
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4035318 134 -   4237731 attatgtttatactacacaaatttt-----------acttcctgtt------gtt--------atttaataacaattataccaagtggcaaaatatgaatgtcagggaaagagttttgggtttctctggggagaaatttaatgtcaaggaacgacaaag
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123647605 159 - 204313951 attatgcttgtactacacaagttttatactacacaaattttatgctacacaagttattatataatttaataaatattacaccaattggcaaaataggaatgtcaggaaaagagttttgggtttctttggagagaaatttaacatcaaggaaagacaaag
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55692466 142 -  71252344 attatgtttatactacacaagtttt-----------acttcctact------gttattgtataatttaataaatattacaccagttggcaaaataggaatgtcaggaaaagagttttgggtttctttggagagaaatttaacatcaagggaagacgaag
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1396460 142 -   1400280 attatgtttgtactacacaagtttt-----------acttcctgta------gttattatataatttaataaatattacaccaattggcaaaataggaatgtcaggaaaacagttttgggtttctttggagagaaatttaacatcaaggaaagacgaag
i cebCap1.NW_016107829v1   C 0 I 23
s aotNan1.NW_018505940v1    13193842 142 -  42888418 attatgtttatactacacaagtttt-----------acttcgtatt------gttattatataatttaataaatattacaccaattggcaaaataggaatgtcaggaaaagagttttgggtttctctggagagaaatttaatgtcaaggaaagacaaag
i aotNan1.NW_018505940v1   C 0 I 23
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e colAng1.NW_012119644v1      303384 373 -   1175262 I

a score=9139.000000
s hg38.chr5_KI270796v1_alt     71975  9 +    172708 ttttttt------------------tt
s panTro5.chr5             125182079  9 + 181907262 ttttttt------------------tt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126519106  9 + 183735486 TTTTTTT------------------TT
i panPan2.chr5             C 0 I 44
s gorGor5.CYUI01015135v1     1710482  9 +   8933513 ttttttt------------------tg
i gorGor5.CYUI01015135v1   C 0 I 3
s nomLeu3.chr2             139841305  9 + 163208435 ttttttc------------------tt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122830658  9 + 180051392 ttgattt------------------tt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124254307  9 + 181584905 ttgattt------------------tt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16252178 15 +  18395747 ttgattt------------ttgttgtt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5264236 27 +  26952557 ttgatttttgttgttgttgttgttgtt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28366030  9 +  82825804 ttgattt------------------tt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4035452  9 -   4237731 ttgattt------------------tt
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123647764  7 - 204313951 ttga-tt------------------t-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55692608  8 -  71252344 ttgattt------------------t-
i saiBol1.JH378106         C 0 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e aotNan1.NW_018505940v1    13193984 23 -  42888418 I
e cebCap1.NW_016107829v1     1396602 23 -   1400280 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e colAng1.NW_012119644v1      303384 373 -   1175262 I

a score=57211.000000
s hg38.chr5_KI270796v1_alt     71984 34 +    172708 gtttttttttttg-------tttgtttgttttttAAAGAAA
s panTro5.chr5             125182088 20 + 181907262 ttttttt---------------------ttttttAAAGAAA
i panTro5.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1710494 34 +   8933513 tgttttgtttttg-------tttgtttgttttttAAAGAAA
i gorGor5.CYUI01015135v1   I 3 C 0
s nomLeu3.chr2             139841314 13 + 163208435 ----------------------------ttttttaaagaaa
i nomLeu3.chr2             C 0 I 1
s rheMac8.chr6             122830667 26 + 180051392 gttgttgttgttg---------------tttttTAAAGAAA
i rheMac8.chr6             C 0 I 1
s macFas5.chr6             124254316 26 + 181584905 gttgttgttgttg---------------tttttTAAAGAAA
i macFas5.chr6             C 0 I 1
s macNem1.NW_012012355v1    16252193 26 +  18395747 gttgttgttgttg---------------tttttTAAAGAAA
i macNem1.NW_012012355v1   C 0 I 1
s cerAty1.NW_012002512v1     5264263 26 +  26952557 gttgtttttgttg---------------tttttTAAAGAAA
i cerAty1.NW_012002512v1   C 0 I 1
s chlSab2.chr23             28366039 23 +  82825804 gttgttgttgttg------------------tttaaggaaa
i chlSab2.chr23            C 0 I 1
s manLeu1.NW_012103321v1     4035461 41 -   4237731 gttgttgttgttgttgctgtttttgttgtttttTAAAGAAA
i manLeu1.NW_012103321v1   C 0 I 1
s calJac3.chr2             123647771 13 - 204313951 ----------------------------tttttaaaagaaa
i calJac3.chr2             C 0 I 3
s saiBol1.JH378106          55692616 13 -  71252344 ----------------------------tttttaaaagaga
i saiBol1.JH378106         C 0 I 3
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e aotNan1.NW_018505940v1    13193984 23 -  42888418 I
e cebCap1.NW_016107829v1     1396602 23 -   1400280 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e colAng1.NW_012119644v1      303384 373 -   1175262 I
e panPan2.chr5             126519115 44 + 183735486 I

a score=296203.000000
s hg38.chr5_KI270796v1_alt     72018 48 +    172708 CCCCAAAACTTGCTATCAAATTAAGTGGATAAGACAACTA-TTAAAAA-A-----------------
s panTro5.chr5             125182108 48 + 181907262 CCCCAAAACTTGCTATCAAATTAAGTGGATAAGACAACTA-TTAAAAA-A-----------------
i panTro5.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1710528 49 +   8933513 CCCCAAAACTCGCTATCAAATTAAGTGGATAAGACAACTATTTAAAAA-A-----------------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139841328 44 + 163208435 ccccaaaacttgctatcaaattaagtggataagacaacta-t----aa-a-----------------
i nomLeu3.chr2             I 1 C 0
s rheMac8.chr6             122830694 48 + 180051392 CCCCAAAACTTGCTATCAAATTAGGTGGATAAGACAACTa-taaaaaa-a-----------------
i rheMac8.chr6             I 1 I 7
s macFas5.chr6             124254343 48 + 181584905 CCCCAAAACTTGCTATCAAATTAGGTGGATAAGACAACTa-taaaaaa-a-----------------
i macFas5.chr6             I 1 I 7
s macNem1.NW_012012355v1    16252220 48 +  18395747 CCCCAAAACTTGCTATCAAATTAGGTGGATAAGACaacta-taaaaaa-a-----------------
i macNem1.NW_012012355v1   I 1 I 408
s cerAty1.NW_012002512v1     5264290 48 +  26952557 CCCCAAAACTTGCTATCAAATTAGGTGGATAAGACAACTa-taaaaaa-a-----------------
i cerAty1.NW_012002512v1   I 1 I 7
s chlSab2.chr23             28366063 48 +  82825804 ccccaaaacttgctatcaaattaggtggataagacaacta-taaaaaa-A-----------------
i chlSab2.chr23            I 1 I 7
s manLeu1.NW_012103321v1     4035503 48 -   4237731 CCCCAAAACTTGCTATCAAATTAGGTGGATAAGACAACTA-Taaaaaa-a-----------------
i manLeu1.NW_012103321v1   I 1 I 7
s calJac3.chr2             123647787 56 - 204313951 ccccaaaacttgctaccaaattaggtggctaagacaacta-taaaCAACAACAA----------AAA
i calJac3.chr2             I 3 C 0
s saiBol1.JH378106          55692632 66 -  71252344 ccccaaaacttgctatcaaattaggtggctaagaaaacta-taaacaacaacaacaacaacaacaac
i saiBol1.JH378106         I 3 C 0
s cebCap1.NW_016107829v1     1396625 47 -   1400280 ccccaaaacttgctatcaaattagatgtCTAATAAAACTA-TAAACAA-------------------
i cebCap1.NW_016107829v1   I 23 C 0
s aotNan1.NW_018505940v1    13194007 55 -  42888418 ccccaaaacttgctatcaaattaggtggctgagaaaacta-taaaCCa-aaaaa----------aaa
i aotNan1.NW_018505940v1   I 23 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e colAng1.NW_012119644v1      303384 373 -   1175262 I
e panPan2.chr5             126519115 44 + 183735486 I

a score=496256.000000
s hg38.chr5_KI270796v1_alt     72066 81 +    172708 AAAAAAGAGGAAAGAATGGCTCTTTAAATTCTAAGACATCTAAAGAAACAATCGGAATTCAAAGCTGATGCATCATGGAA---G
s panTro5.chr5             125182156 81 + 181907262 AAAAAAGAGGAAAGAATGGCTCTTTAAATTCTAAGACATCTAAAGAAACAATCGGAATTCAAAGCTGATGCATCATGGAA---G
i panTro5.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1710577 81 +   8933513 AAAAGAGAGGAAAGAATGGCTCTTTAAATTCTAAGACATCTAAAGAAACAATTGGAATTCAAAGCTGATGCATCATGGAA---G
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139841372 84 + 163208435 aaaaaagaggaaagaaTGTCTCTTTAAATTCTAAGACATCTAAAGAAACAATCGGAATTCAAAGCTGATGCATCATGGAAGTTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122830749 77 + 180051392 ataaaaaaggaaagaaTGTGTCTTTAAATTCTAAGACATCTAAAGAAA----CAGAATTCAAAGCTGATGCATCTTGGAA---G
i rheMac8.chr6             I 7 C 0
s macFas5.chr6             124254398 81 + 181584905 ataaaaaaggaaagaaTGTGTCTTTAAATTCTAAGACATCTAAAGAAACAGTCAGAATTCAAAGCTGATGCATCTTGGAA---G
i macFas5.chr6             I 7 C 0
s cerAty1.NW_012002512v1     5264345 81 +  26952557 ataaaaaaggaaagaaTGTGTCTTTAAATTCTAAGACATCTAAAGAAACAGTCAGAATTCAAAGCTGATGCATCTTAGAA---G
i cerAty1.NW_012002512v1   I 7 C 0
s chlSab2.chr23             28366118 81 +  82825804 ATAAAAAAGGAAAGAATGCGTCTTTAAATTCTAAGACATCTAAAGAAACAGTCAGAATTCAAAGCTGATGCATCTTGGAA---G
i chlSab2.chr23            I 7 C 0
s manLeu1.NW_012103321v1     4035558 77 -   4237731 ataaaaaaggaaagaaTGTGTCTTTAAATTCTAAGACATCTAAAGAAA----CAGAATTCAAAGCTGATGCATCTTGGAA---G
i manLeu1.NW_012103321v1   I 7 C 0
s calJac3.chr2             123647843 81 - 204313951 AAAAAAGAGGAAAGAATGTCTCTTTAAATTCTAAGACATCTAAAGAAACGATCAGAATTCAAAGCTGACACATCATGGAA---G
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55692698 81 -  71252344 aacaaAAAGGAAAGAATGTCTTTTTAAATTCTAAGACATCTAAAGAAACAATTGGAATTCAAAGCTGATGCATCATGGAA---G
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1396672 81 -   1400280 AAAAAAATGGAAAGAATATCTTTTTAAATTCTAAGACATTTAAAGAAACAATCGGAATTCAAAGCTGATGCATCATGGAA---G
i cebCap1.NW_016107829v1   C 0 I 44
s aotNan1.NW_018505940v1    13194062 81 -  42888418 aaaaaaaaggaaagaaTATCTTTTTAAATTCTAAGACATCTAAAGAAACAATCGGAATTCAAAGCTGATGCATCATGGAA---G
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e macNem1.NW_012012355v1    16252268 408 +  18395747 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e colAng1.NW_012119644v1      303384 373 -   1175262 I
e panPan2.chr5             126519115 44 + 183735486 I

a score=6006.000000
s hg38.chr5_KI270796v1_alt     72147 1 +    172708 t
s panTro5.chr5             125182237 1 + 181907262 t
i panTro5.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1710658 1 +   8933513 t
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139841456 1 + 163208435 t
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122830826 1 + 180051392 T
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124254479 1 + 181584905 t
i macFas5.chr6             C 0 C 0
s cerAty1.NW_012002512v1     5264426 1 +  26952557 t
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28366199 1 +  82825804 t
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4035635 1 -   4237731 t
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123647924 1 - 204313951 T
i calJac3.chr2             C 0 I 2
s saiBol1.JH378106          55692779 1 -  71252344 T
i saiBol1.JH378106         C 0 I 2
s aotNan1.NW_018505940v1    13194143 1 -  42888418 T
i aotNan1.NW_018505940v1   C 0 I 92
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e macNem1.NW_012012355v1    16252268 408 +  18395747 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e cebCap1.NW_016107829v1     1396753 44 -   1400280 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e colAng1.NW_012119644v1      303384 373 -   1175262 I
e panPan2.chr5             126519115 44 + 183735486 I

a score=5500.000000
s hg38.chr5_KI270796v1_alt     72148 1 +    172708 c
s panTro5.chr5             125182238 1 + 181907262 c
i panTro5.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1710659 1 +   8933513 c
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139841457 1 + 163208435 c
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122830827 1 + 180051392 c
i rheMac8.chr6             C 0 I 180
s macFas5.chr6             124254480 1 + 181584905 c
i macFas5.chr6             C 0 C 0
s cerAty1.NW_012002512v1     5264427 1 +  26952557 c
i cerAty1.NW_012002512v1   C 0 I 234
s chlSab2.chr23             28366200 1 +  82825804 c
i chlSab2.chr23            C 0 I 133
s manLeu1.NW_012103321v1     4035636 1 -   4237731 c
i manLeu1.NW_012103321v1   C 0 I 89
s calJac3.chr2             123647927 1 - 204313951 C
i calJac3.chr2             I 2 C 0
s saiBol1.JH378106          55692782 1 -  71252344 C
i saiBol1.JH378106         I 2 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e macNem1.NW_012012355v1    16252268 408 +  18395747 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e aotNan1.NW_018505940v1    13194144 92 -  42888418 I
e cebCap1.NW_016107829v1     1396753 44 -   1400280 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e colAng1.NW_012119644v1      303384 373 -   1175262 I
e panPan2.chr5             126519115 44 + 183735486 I

a score=10313.000000
s hg38.chr5_KI270796v1_alt     72149 17 +    172708 tttc-ttttct-ttctttc
s panTro5.chr5             125182239 17 + 181907262 tttc-ttttct-ttctttc
i panTro5.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1710660 18 +   8933513 tttctttttct-ttctttc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139841458 18 + 163208435 tgtc-tgtcctgttctttc
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124254481 14 + 181584905 ---c-cctccc-ctccccc
i macFas5.chr6             C 0 C 0
s calJac3.chr2             123647928 17 - 204313951 CCTC-CCTCCC-TCCCTcc
i calJac3.chr2             C 0 I 6278
s saiBol1.JH378106          55692783 17 -  71252344 TGtc-cctcca-tccctcc
i saiBol1.JH378106         C 0 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e manLeu1.NW_012103321v1     4035637 89 -   4237731 I
e chlSab2.chr23             28366201 133 +  82825804 I
e cerAty1.NW_012002512v1     5264428 234 +  26952557 I
e macNem1.NW_012012355v1    16252268 408 +  18395747 I
e rheMac8.chr6             122830828 180 + 180051392 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e aotNan1.NW_018505940v1    13194144 92 -  42888418 I
e cebCap1.NW_016107829v1     1396753 44 -   1400280 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e colAng1.NW_012119644v1      303384 373 -   1175262 I
e panPan2.chr5             126519115 44 + 183735486 I

a score=7511.000000
s hg38.chr5_KI270796v1_alt     72166 33 +    172708 ---tttctt---tctttc-tttctttctttctttctttct
s panTro5.chr5             125182256 19 + 181907262 ---tttctt---tctttc-tttcttt--------------
i panTro5.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1710678 36 +   8933513 ---tttcttttctctttc-tttccttctttctttccttcc
i gorGor5.CYUI01015135v1   C 0 I 10
s nomLeu3.chr2             139841476 34 + 163208435 ---tttctt---tctttcttttctttctttcttttctttt
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124254495 17 + 181584905 ---cttccc---tttccc-tttcc----------------
i macFas5.chr6             C 0 C 0
s saiBol1.JH378106          55692800 33 -  71252344 ctgcctccc---tcctcc-ctccctccttccctccct---
i saiBol1.JH378106         C 0 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e manLeu1.NW_012103321v1     4035637 89 -   4237731 I
e chlSab2.chr23             28366201 133 +  82825804 I
e cerAty1.NW_012002512v1     5264428 234 +  26952557 I
e macNem1.NW_012012355v1    16252268 408 +  18395747 I
e rheMac8.chr6             122830828 180 + 180051392 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e aotNan1.NW_018505940v1    13194144 92 -  42888418 I
e cebCap1.NW_016107829v1     1396753 44 -   1400280 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e calJac3.chr2             123647945 6278 - 204313951 I
e colAng1.NW_012119644v1      303384 373 -   1175262 I
e panPan2.chr5             126519115 44 + 183735486 I

a score=1724.000000
s hg38.chr5_KI270796v1_alt     72199 4 +    172708 tttt
s panPan2.chr5             126519159 4 + 183735486 tttt
i panPan2.chr5             I 44 C 0
s gorGor5.CYUI01015135v1     1710724 4 +   8933513 cctt
i gorGor5.CYUI01015135v1   I 10 C 0
s nomLeu3.chr2             139841510 4 + 163208435 cttt
i nomLeu3.chr2             C 0 C 0
s saiBol1.JH378106          55692833 4 -  71252344 ccct
i saiBol1.JH378106         C 0 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e manLeu1.NW_012103321v1     4035637 89 -   4237731 I
e chlSab2.chr23             28366201 133 +  82825804 I
e cerAty1.NW_012002512v1     5264428 234 +  26952557 I
e macNem1.NW_012012355v1    16252268 408 +  18395747 I
e macFas5.chr6             124254512 0 + 181584905 C
e rheMac8.chr6             122830828 180 + 180051392 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e aotNan1.NW_018505940v1    13194144 92 -  42888418 I
e cebCap1.NW_016107829v1     1396753 44 -   1400280 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e calJac3.chr2             123647945 6278 - 204313951 I
e colAng1.NW_012119644v1      303384 373 -   1175262 I
e panTro5.chr5             125182275 0 + 181907262 C

a score=106303.000000
s hg38.chr5_KI270796v1_alt     72203 159 +    172708 ctttcttcctttccttctttctttctttctttctttctct--ttctttctttctttcttttttctttcttt---atttctttctttgttt-ctttctttctttcttt---tctctctctctctctcttcctttccttcctttctttc--tttTTTTTTCGGTtctccctt
s panTro5.chr5             125182275 120 + 181907262 --------ctttccttctttctttccttctttctttctc------------------------------------tttctttctttgttt-ctttctttctttcttt-----tcgctctctctctcttcctttccttcgtttctttctttttttttttcggttctccctt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126519163 156 + 183735486 ctttctttctttctttctttctttctttctttctttctttccttctttctttccttctttctttctctttc----tttctttctttgttt-ctttctttctttctt------tctctctctctctcttcctttccttcctttctttc---tttTTTTTCGGTtctccctt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1710728 161 +   8933513 ccttccttccttccttccttccttccttccttccttccttccttccttctttctttctttctttctttctt--tctttctttctttcttt-ctttctttctttctt------ttcctctgtctctctttctttccttcctttctttctttttttttttcggttctccctt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139841514 167 + 163208435 ctttctttctttctttctttctttctttctttctttctttctttctttctttctttctctttctctctctttctttttctgtctttctttcctctctctctctctttctctctctctctctctctctctctttctttccttcctttt---tttattttcggttctccctt
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124254512 117 + 181584905 --------ctttccctttccctttccctttccctttctttcct--------------------------------ttcctttc--------ctttcctttcccctgc-----cccttcttttcctttcctttcctttccttttctttccttGTTTgacaggatgtcccat
i macFas5.chr6             C 0 C 0
s saiBol1.JH378106          55692837  77 -  71252344 ------------------------------------ctttcc---------------------------------ttccttccttctttc-cttccTCTCTttctt------tctcttt---tttctttc----------ttttttt---tttgagacagggtgtcccc-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1396797 117 -   1400280 ---------cttccttccttccttccttccttccttccttcc---------------------------------ttccttccttccttc-cttccttccttcctt------cctCTTTTTCtttctttctctcttttatttctttt---tttgagacagcgtttctcc-
i cebCap1.NW_016107829v1   I 44 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e manLeu1.NW_012103321v1     4035637  89 -   4237731 I
e chlSab2.chr23             28366201 133 +  82825804 I
e cerAty1.NW_012002512v1     5264428 234 +  26952557 I
e macNem1.NW_012012355v1    16252268 408 +  18395747 I
e rheMac8.chr6             122830828 180 + 180051392 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e aotNan1.NW_018505940v1    13194144  92 -  42888418 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e calJac3.chr2             123647945 6278 - 204313951 I
e colAng1.NW_012119644v1      303384 373 -   1175262 I

a score=5647.000000
s hg38.chr5_KI270796v1_alt     72362 6 +    172708 tgtcgc
s panTro5.chr5             125182395 6 + 181907262 tgttgc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126519319 6 + 183735486 tgttgc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1710889 6 +   8933513 tgtcgc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139841681 6 + 163208435 tttcac
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124254629 3 + 181584905 cag---
i macFas5.chr6             C 0 C 0
s saiBol1.JH378106          55692914 6 -  71252344 tgtcac
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1396914 6 -   1400280 tgtcac
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13194236 6 -  42888418 tgtcac
i aotNan1.NW_018505940v1   I 92 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e manLeu1.NW_012103321v1     4035637 89 -   4237731 I
e chlSab2.chr23             28366201 133 +  82825804 I
e cerAty1.NW_012002512v1     5264428 234 +  26952557 I
e macNem1.NW_012012355v1    16252268 408 +  18395747 I
e rheMac8.chr6             122830828 180 + 180051392 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e calJac3.chr2             123647945 6278 - 204313951 I
e colAng1.NW_012119644v1      303384 373 -   1175262 I

a score=75944.000000
s hg38.chr5_KI270796v1_alt     72368 14 +    172708 ccaggctggagtgc
s panTro5.chr5             125182401 14 + 181907262 ccaggctggagtgc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126519325 14 + 183735486 ccaggctggagtgc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1710895 14 +   8933513 ccaggctggagtga
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139841687 14 + 163208435 ccaggctgaagtgc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122831008 11 + 180051392 ccaggctggag---
i rheMac8.chr6             I 180 C 0
s macFas5.chr6             124254632 11 + 181584905 ccaggctggag---
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16252676 11 +  18395747 ccaggctggag---
i macNem1.NW_012012355v1   I 408 C 0
s cerAty1.NW_012002512v1     5264662 11 +  26952557 ccaggctggag---
i cerAty1.NW_012002512v1   I 234 C 0
s chlSab2.chr23             28366334 11 +  82825804 ccaggctggag---
i chlSab2.chr23            I 133 C 0
s manLeu1.NW_012103321v1     4035726 11 -   4237731 ccaggctggag---
i manLeu1.NW_012103321v1   I 89 C 0
s saiBol1.JH378106          55692920 11 -  71252344 ccaggctggag---
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1396920 11 -   1400280 ccaggctggag---
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13194242 11 -  42888418 ccaggctggag---
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e calJac3.chr2             123647945 6278 - 204313951 I
e colAng1.NW_012119644v1      303384 373 -   1175262 I

a score=9989449.000000
s hg38.chr5_KI270796v1_alt     72382 1233 +    172708 tgcagtgtcgtaatcatgggttactgcaacctttgcctcccaggctcagatgattcttccacctcagcctcccaagttgctgggactacaggcatgcagcaccacacctggctaatttttgtgttcttggtagagatggggtttcgccatgttgcccaggctggtcttgaactcctggcctcaagcaatcagcccaccttggcctcccaatgtgctggctgggactacaggcatgagtcactgtgcctggccTGTTTATTTCTATTtaataaacaactatctggcactttcaatgagcca-gtgctgttctaaggatttttcatcctcctaactactgtgtatggtaggtaatatcccttttgacatataaggaaactgaggcacagagcagctatgcaacttcctgaaagtcacacaggtagcaagtggcagagctgagattcagaacacaggagctttgtccaaagcctctttgcttcccactgtcttatcctgCCTCTTTTTATCCACCACAGTTTATGGAACTGTCCAACTAGCACATCTACTTGCGAGGTGGGGaaggctgtggtccttcatcaaaagactaaaaataaatgaatgtctaaaccaaatttacattttagttaagctaaaatgtttaCCTTTCTTCCTTTTTAAAAATAatttc-aacagttttt--ggggaacaggtggtgtctggttacatgaataagttctttagtggtgatttctgagattttggtgcacccatcacccgagcagtgtactctatacccaatgtgtagtccttcatatctcgccccctccccaccc-tcccccc-aagtccccaaagtccattagatta---ttacacctttgtgtactcatagcttagctcacacttttaagtgagaacctatgatgtttggtttttcatttctgaattacttcacttagaataatgaatggtctccaactccatccaggttgctacaaatgccgttatttcattccttcttgtggctgagcagtactactttttcatggga---ttttttttttcttttcttgctggtttgtcagagttccttgtagattctggatactagtcctttgtggatgcatagttagcgaagattttcttccatgctgtgggttgtctgtttactctgctgattttcttttgctgtgcagaagcttttgaggttgattaagtcccacc----aatttatctttgtttatgctgtatttgcttttgggttcttg
s panTro5.chr5             125182415 1234 + 181907262 tgcagtgtcgtaatcatgggttactgcaacctttgcctcccaggctcagatgattcttccacctcagcctcccaagttgctgggactacaggcatgcagcaccacacctagctaatttttgtgttcttggtagagatggggtttcaccatgttgcccaggctggtcttgaactcctggcctcaagcaatcagcccaccttggcctcccaatgtgctggctgggactacaggcatgagtcactgtgcctggcctgtttatttctATTtaataaacaactatctggcactttcaatgagcca-gtgctgttctaaggatttttcatcctcctaactactgtgtatggtaggtaatatcccttttgacatataaggaaactgaggcacagagcagctatgcaacttcctgaaagtcacacagctagcaagtggcagagctgagattcagaacacaggagctttgtccaaagcctctttgcttcccactgtcttatcctgCC-GTTTTTATCCACCACAGTTTATGGAACTGTCCAACTAGCACATCTACTTGCGAGGTGGGGaaggctgtggtccttcatcaaaagactaaaaataaatgaatgtctaaaccaaatttacattttagttaagctaaaatgtttaCCTTTCTTCCTTTTTAAAAATAatttc-aacagttttt--ggggaacaggtggtgtttggttacatgaataagttctttagtggtgatttctgagattttggtgcacccatcacccgagcagtgtactctatacccaatgtgtagtccttcatatctcaccccctccccacccttcccccc-aagtccccaaagtccattagatta---ttacgcctttgtgtactcatagcttagctcacacttctaagtgagaacctatgatgtttggtttttcatttctgaattacttcacttagaataatgaatggtctccaactccatccaggttgctacaaatgccgttatttcattccttcttgtggctgagcagtactactttttcatggGA--TTtttttttttcttttcttgctggtttgtcagagttccttgtagattctggatactagtcctttgtggatgcatagttagcgaagattttcttccatgctgtgggttgtctgtttactctgctgattttcttttgctgtgcagaagcttttaaggttgattaagtcccacc----aatttatctttgtttatgctgtatttgcttttgggttcttg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126519339 1232 + 183735486 tgcagtgtcgtaatcatgggttactgcaacctttgcctcacaggctcagatgattcttccacctcagcctcccaagttgctgggactacaggcatgcagcaccacacctggctaatttttgtgttcttggtagagatggggtttcaccatgttgcccaggctggtcttgaactcctggcctcaagcaatcagcccaccttggcctcccaatgtgctggctgggactacaggcatgagtcactgtgcctggccTGTTTATTTCTATTtaataaacaactatctggcactttcaatgagcca-gtgctgttctaaggatttttcatcctcctaactactgtgtatggtaggtaatatcccttttgacatataaggaaactgaggcacagagcagctatgcaacttcctgaaagtcacacagctagcaagtggcagagctgagattcagaacacaggagatttgtccaaagcctctttgcttcccactgtcttatcctgCC-CTTTTTATCCACCACAGTTTATGGAACTGTCCAACTAGCACATCTACTTGCGAGGTGGGGaaggctgtggtccttcatcaaaagactaaaaataaatgaatgtctaaaccaaatttacattttagttaagctaaaatgtttacctttcttcctttttaaaaataatttc-aacagttttt--ggggaacaggtggtgtttggttacatgaataagttctttagtggtgatttctgagattttggtgcacccatcacccgagcagtgtactctatacccaatgtgtagtccttcatatctcaccccctccccacccttcccccc-aagtccccaaagtccattagatta---ttacgcctttgtgtactcatagcttagctcacacttctaagtgagaacctatgatgtttggtttttcatttctgaattacttcacttagaataatgaatggtctccaactccatccaggctgctacaaatgccgttatttcattccttcttgtggctgagcagtactactttttcatggga----tttttttttcttttcttgctggtttgtcagagttccttgtagattctggatactagtcctttgtggatgcatagttagcgaagattttcttccatgctgtgggttgtctgtttactctgctgattttcttttgctgtgcagaagcttttaaggttgattaagtcccacc----aatttatctttgtttatgctgtatttgcttttgggttcttg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1710909 1234 +   8933513 tgcagtgtcgtaatcatgggttactgcaacctttgcctcccaggctcagatgattcttccacctcagcctcccaagtagctgggactacaggcacgcagcaccacacctggctaatttttgtgttcttggtagagatggggtttcaccatgttgcccaggctggtcttgaactcctggcctcaagcaatcagcccaccttggcctcccaatgtgctggctgggactacaggcatgagtcactgtgcctggcctgtttatttctATTtaataaacaactatctggcactttcaatgagcca-gtgctgttctaaggaattttcatcctcctaactactgtgtatggtaggtaatatcccttttgacatataaggaaactgaggcatagagcagctatgcaacttcctgaaagtcacacagctagcaagtggcagagctgagattcagaacacaggagctttgtccaaagcctctttccttcccactgtcttatcctgCCTCTTTTTATCCACCACAGTTTATggaactgtccaactagcacatctacttgcaaggtggggaaggctgtggtctttcatcaaaagactaaaaataaatgaatgtctaaaccaaatttacattttagttaagctaaaatgtttaCCTTTCTCCCTTTTTAAAAATAatttc-aacagttttt---gggaacaggtggtgtttggttacatgaataagttctttagtggtgatttctgagattttggtgcacccatcaccaaagcagtgtacactatacccaatgtgtagtccttcatatctcaccccctccccacccttcccccc-aagtccccaaagtccattcgatta---ttacgcctttgtgtactcatagcttagctcacacttttaagtgagaacctatgatgtttggtttttcatttctgaattacttcacttggaataatgaatggtctccaactccatccaggttgctacaaatgctgttatttcattccttcttgtggctgagcagtactactttttcatggGA--TTTTTtttttttttttcttgctggtttgtcagagttccttgtagattctggatactagtcctttgtggatgcatagttagcaaagattttcttccatgctgtgggttgtctgtttattctgctgattttcttttgctgtgcagaagcttttaaggttgattaagtcccacc----aatttatctttgtttatgctgtatttgcttttgggttcttg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139841701 1227 + 163208435 tgcagtgtcgtaatcatgggttactgcaaccttcgcctcccaggctcagatgattcttccacctcagcctcccaagtagctgggactacaggcatgcagtaccacacctggctaatttttgtgtttttggtagagatggggtttcaccatgttgcccaggctggtcttgaactcctggcctcaagcaatcagcccactttggcctcccaaagt----gctgggactacaagcgtgagtcactgtgcctggcctgtttatttctATTtaataaacaactatctggcagtttcaatgagcca-gtgctgttctaaggatttttcatcctcctaactactgtgtatggtaggtaatatcccatttgacatataaggaaactgaggcacagagaagctatgcaacttcctggaagtcacacagctagcaagtggcagagctgagattcagaacacaggagctttgtccagagcctctttccttcccactggactatcctgCCTCTTTTTATCCACCACAGTTTATGGAACTGTCCAACTAGCACATCTACTTGCGAGGTGGGGAAGGCTGTGGTCCTTCATCAAAAGACTAAAAATAAATGAATGTCTAAACCAAATTTACACTTTAGTTAAGCTAAAATGCTTAGCTTTCTTCCTTTTTAAAAAttatttc-aatagttttt--ggggaacaggcggtgtttggttacatggataggttctttagtggtgatttctgagattttgttgca--catcacccgagcagtgtacactatacccaatgtgtagtccttcatagctcaccccctccccacccttcccccc-aagtccccagagtccattagatta---ttatgcctttgcgtactcataacttagctcacacttataagtaagaa-ctatgatgtttggtttttcatttctgaattacttcacctagaataatgaatggtctccagctccatccaggttgctacaaatgtcgttatttcattccttcttggggctgagcagtactactttttcatggta---tTTtttgttttttttcttgctggtttgtcaaagttccttgtagattctggatactagtcctttacggatgcatagttagcgaagattttcttccatgctgtgggttgtctgtttactctgctgattttcttttgctgttcagaagcttttaaggttgatgaagtcccacc----tatttacctttgtttatgctgcatttgcttttggcttcttg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122831019 1225 + 180051392 tgcagtgtcgcaatcatgggtcactgcaacttccacctcccaggctcagatgattcttccacctcagcctcccaagtagctaggactacagacacgcagaaccacagctggctaatttttgtgtttttggtagagatggggtttcaacatgttgctcaggctggtcttgaactcctggccttaagcaattcgcccaccttggcctcccaaagt----gctgggactacaggtgtgagtcaccatgcctgaccTGTTTATTTCTATTtaataaactactatctggcactttcaatgagtcaggtgctgttctaaggatttttcatcctcataactactgtgcatggtaagtaatgtcccatttgacatataaggaaactgaggcacagagaagctatgcaacttcctaaaagtcacacagctagcaagtggcagaactgagattgagaacacagtagctttgtccagagcctcttctcttcccactgtgctatcctgcctctctTTATCCACCACAATTTATGCAACTGTCCAACTAGTATACCCACTTGCCAGGTGGGGAAGGCTGTGGTCCTTCGTCAAAAGACTAAAAATAAATGAATATCTAAACCAAATTTACACTTTAGTTAAACTAAAATGCTTACCACTCTTCGTTTTTAAAAAttatttt-aatagttttttgggggaacaggtggtggttggttacatggataaattctttagtggtgatttctgagattttggcgcacccatcacctaagtagtgtacactgtacccaatgtgtagtccgtcatctgtcaccctatccccacccttttccccaaagtccccaaagtctattatattattcttatgcctttgtgtcctcacagcctagctcccacttagaagtgaaga-ccat-atgtttggtttttcatttctgaattacttcacttagaat----aatggtctccaactccatccaggttgctatgaatgccattatttcgttccttcttgaggctgagcaatactactttctcatggga--------ttttttttttcttgctggtttgtcagaattccttgtagattctgggtattagtcctttgtggatgcatagtttgagaagattttcttccatgctgtgggttgtctgtttactttgctgattttcttttgctgtgcagaaacttttta-gttgattaagtccaacc----tatttatctttgtttttgttgtatttgcttttgggttcttg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124254643 1225 + 181584905 tgcagtgtcgcaatcatgggtcactgcaacttccacctcccaggctcagatgattcttccacctcagcctcccaagtagctaggactacagacacgcagaaccacagctggctaatttttgtgtttttggtagagatggggtttcaacatgttgctcaggctggtcttgaactcctggccttaagcaattcgcccaccttggcctcccaaagt----gctgggactacaggtgtgagtcaccatgcctgaccTGTTTATTTCTATTtaataaactactatctggcactttcaatgagtcaggtgctgttctaaggatttttcatcctcataactactgtgcatggtaagtaatgtcccatttgacatataaggaaactgaggcacagagaagctatgcaacttcctaaaagtcacacagctagcaagtggcagaactgagattgagaacacagtagctttgtccagagcctcttctcttcccactgtgctatcctgcctctctTTATCCACCACAATTTATGCAACTGTCCAACTAGTATACCCACTTGCCAGGTGGGGAAGGCTGTGGTCCTTCGTCAAAAGACTAAAAATAAATGAATATCTAAACCAAATTTACACTTTAGTTAAACTAAAATGCTTACCACTCTTCGTTTTTAAAAAttatttt-aatagttttttgggggaacaggtggtggttggttacatggataaattctttagtggtgatttctgagattttggcgcacccatcacctaagtagtgtacactgtacccaatgtgtagtccgtcatctgtcaccctatccccacccttttccccaaagtccccaaagtctattatattattcttatgcctttgtgtcctcacagcctagctcccacttagaagtgaaga-ccat-atgtttggtttttcatttctgaattacttcacttagaat----aatggtctccaactccatccaggttgctatgaatgccattatttcgttccttcttgaggctgagcaatactactttctcatggga--------ttttttttttcttgctggtttgtcagaattccttgtagattctgggtattagtcctttgtggatgcatagtttgagaagattttcttccatgctgtgggttgtctgtttactttgctgattttcttttgctgtgcagaaacttttta-gttgattaagtccaacc----tatttatctttgtttttgttgtatttgcttttgggttcttg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16252687 1224 +  18395747 tgcagtgtcacaatcatgggtcactgcaacttccacctcccaggctcagatgattcttccacctcagcctcccaagtagctaggactacagacacgcagaaccacagctggctaatttttgtgtttttggtagagatggggtttcaacatgttgctcaggctggtcttgaactcctggccttaagcaattcgcccaccttggcctcccaaagt----gctgggattacaggtgtgagtcaccatgcctgaccTGTTTATTTCTATTtaataaactactatctggcactttcaatgagtcaggtgctgttctaaggatttttcatcctcataactactgtgcatggtaagtaatgtcccatttgacatataaggaaactgaggcacagagaagctatgcaacttcctaaaagtcacacagctagcaagtggcagaactgagattgagaacacagtagctttgtccagagcctcttctcttcccactgtgctatcctgcctctctTTATCCACCACAATTTATGCAACTGTCCAACTAGTATACCCACTTGCCAGGTGGGGAAGGCTGTGGTCCTTCGTCAAAAGACTAAAAATAAATGAATATCTAAACCAAATTTACACTTTAGTTAAACTAAAATGCTTACTACTCTTTGTTTTTAAAAAttatttt-aatagttttttgggggaacaggtggtggttggttacatggataaattctttagtggtgatttctgagattttggcgcacccatcacctaagtagtgtacactgtacccaatgtgtagtctgtcatctgtcaccctatccccacccttttccccaaagtccccaaagtctattatattattcttatgcctttgtgtcctcacagcctagctcccacttagaagtgaaga-ccat-atgtttggtttttcatttctgaattacttcacttagaat----aatggtctccaactccatccaggttgctatgaatgccattatttcgttccttcttgaggctgagcaatactactttctcatggga---------tatttttttcttgctggtttgtcagaattccttgtagattctgggtattagtcctttgtggatgcatagtttgagaagattttcttccatgctgtgggttgtctgtttactttgctgattttcttttgctgtgcagaaacttttta-gttgattaagtccaacc----tatttatctttgtttttgttgtatttgcttttgggttcttg
i macNem1.NW_012012355v1   C 0 I 54
s cerAty1.NW_012002512v1     5264673 1227 +  26952557 tgcagtgtcgcaatcatgggtcactgcaacttccacctcccaggctcagatgattcttccgcctcagcctcccaagtagctaggactacagacacgcagaaccacagctggctaatttttgtgtttttggtagagatggggtttcaacatgttgctcaggctggtcttgaactcctggccttaagcaattcgcccaccttggcctcccaaagt----gctgggactacaggtgtgagtcaccatgcctgaccTGTTTATTTCTATTtaataaactactatctggcactttcaatgagtcaggtgctgttctaaggatttttcatcctcataactactgtgcatggtaagtaatgtcccatttgacatataaggaaactgaagcacagagaagctatgcaacttcctaaaagtcacacagctagcaagtggcagaactgagattgagaacacagtagctttgtccagagcctcttcccttcccactgtgctatcctgcctctctTTATCCACCACAATTTATGCAACTGTCCAACTAGTATACCCACTTGCCAGGTGGGGAAGGCTGTGGTCCTTCATCAAAAGACTAAAAATAAATGAACGTCTAAACCAAATTTACACTTTAGTTAAACTAAAATGCTTACCACTCTTCATTTTTAAAAAttatttt-aatagttttttgggggaacaggtggtggttggttacatggataaattctttagtggtgatttctgagattttggcgcacccatcacctaagtagtgtacactgtacccaatgtgtagtctgtcatctgtcaccctatccccacccttcccctc-aagtccccgaagtctaatatattattcttatgcctttgtgtcctcacagcctagctcccacttataagtgaaga-ccat-gtgtttggtttttcatttctgaattacttcacttagaat----aatggtctccaactccatccaggttgctatgaatgccattatttcgttccttcttgaggctgagcaatactactttctcatggga-----tttttttttttttcttgctggtttgtcagaattccttgtagattctgggtattagtcctttgtggatgcatagtttgagaagattgtcttccatgctatgggttgtctgtttactttgctgattttcttttgctgtgcagaaacttttta-gttgattaagtccaacc----tatttatctttgtttttgttgtatttccttttgggttcttg
i cerAty1.NW_012002512v1   C 0 I 54
s chlSab2.chr23             28366345 1227 +  82825804 tgcagcgtcgcaatcatgggtcactgcaacttccacctcccaggctcagatgattcttccacctcagcctcccaaatagctagtactacagacatgcagaaccacacccggctaatttttgtgtttttggtagagatggggtttcaccatgttgctcaggctgttcttgaactcctggcctcaagcaattcgcccaccttggcctcccaaagt----tctgggactacaggcacgagtcaccatgcctgaccTGTTTATTTCTATTtaataaactactatctggcactttcaatgagtcaggtgctgttctaaggatttttcatcctcataactactgtgcatggtaagtaatgtcccatttgacatataaggaaactgaggcacagagaagctatgcaacttcctgaaagtcacacagctagcaagtggcagaactgagattgagaacacagtagctttgtccagagcctcttcccttcccactgtgctatcctgcctctctTTATCCACCACAATTTATGCAGCTGTCCAACTAGCATACCCACTTGCCAGGTGGGGAAGGCTGTGGTCCTTCATCAAAAGACTAAAAATAAATGAATGTCTAAACCAAATTTACACTTTAGTTAAACTAAAATGCTTACTACTCTTCCTTTTTAAAAAttatttt-aatagtttttttggggaacaggtggtggttggttacatggataaattctttagtggtgatttctgagattttggcgcacccatcacctaagtagtgtacactgtatccaatgtgtagtccgtcatctgtcaccctatccccacccttctcccc-aagtccccgaagtccattatattattcttatgcctttgtgtcctcacagcttagctcccacttataagtgaaga-ccat-atgtttggtttttcatttctgaattacctcacttagaat----aatggtcttcaactccatccaggtttctaccaatgctattatttcgttccttcttgtggctgagcaatactattttcttgtggga-----tttttttttttttcttgctggttagtcagaattccttgtagattctgggtattagtcctttgtggatgcatagtttgagaagattttcttccatgctgtgggttgtctgtttactttgctgattttcttttgctgtgcagaaacttttta-gttgattaagtccaacc----tatttatctttgtttttgttgtatttgcttttgtgttcttg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4035737 1225 -   4237731 tgcagtgtcgcaatcatgggtcactgcaacttccacctcccaggctcagattattcttccatctcagcctcccaagtagctaggactacagacacgcagaaccacagctggctaatttttgtgtttttggtagagatggggtttcaacatattgctcaggctggtcttgaactcctggccttaagcaatttgcccaccttggcctcccaaagt----gctgggactacaggtgtgagtcaccatgcctgaccTGTTTATTTCTATTtaataaactactatctggcactttcaatgagtcaggtgctgttctaaggatttttcatcctcataactactgtgcatggtaagtaatgtcccatttgacatataaggaaactgaagcacagagaaactatgcaacttcctaaaagtcacacagctagcaagtggcagaactgagattgagaacacagtagctttgtccagagcctcttcccttcccactgtgctctcctgcctctctTTATCCACCACAATTTATGCAACTGTCCAACTAGTGTACCCACTTGCCAGGTGGGGAAGGCTGTGGTCCTTCATCAAAAGACTAAAAATAAATGAACGTCTAAACCAAATTTACACTTTAGTTAAACTAAAATGCTTACCACTCTTCGTTTTTAAAAAttatttt-aatagtttttttggggaacaggtggtggttggttacatggataaattctttagtggtgatttctgagattttggcgcacccattacctaagtagtgtacactgtacccaatgtgtagtctgtcatctgtcaccctatccccacccttcccctc-aagtccccaaagtctaatatattattcttatgcctttgtgtcctcatagcctagctcccacttataagtgaaga-ccat-gtgtttggtttttcatttctgaattacttcacttagaat----aatggtctccaactccatccaggttgctatgaatgccattatttcgttccttcttgaggctgagcaatactactttctcatggga-------tttttttttttcttgctggtttgtcagaattccttgtagattctgggtattagtcctttgtggatgcatagtttgagaagattttcttccatgctgtgggttgtctgtttactttgctgattttcttttgctgtgcagaaacttttta-gttgattaagtccaacc----tatttatctttgtttttgttgtatttgcttttgggttcttg
i manLeu1.NW_012103321v1   C 0 I 54
s colAng1.NW_012119644v1      303757 1236 -   1175262 tgcagtgtcacaatcatgggtcactgcaacttccacctcccatgctcagatgattcttccacctcagcctcccaagtagctaggactacagacacgcagaaccacagctggctaatttttgtgtttttggtagagctggggtttcaacatgttgctcaggctggtcttgaactcctggccttaagcaattcccccaccttggcctcccaaagt----gctgggactacaggtgtgagtcaccatgcctggccTGTTTATTTCTATTtaataaactactatctggcactttcaatgagtcaggtgctgttctaaggatttttcatcctcataactactgtgcatggtaagtaatgtcccatttgacatataaggaaactgaggcacagagaagctatgcaacttcctaaaagtcacacagttagcaagtggcagaactgagattgagaacacagtagctttgttcagagccttttcccttcccactgtgctatcctgcctctctTTATCCACCACAATTTATGCAACTGTCCAACTAGCATACCCACTTGCCAGGTGGGGAAGGCTGTGGTCCTTCATCAAAAGACTAAAAATAAATGAATGTCTAAACCAAATTTACACTTTAGTTAAACTAAAATGCTTACCACTCTTCCTTTTTAAAAAttatttt-aatagtttttttggggatcaggtggtggttggttacatggataaattctttagtggtgatttctgagatttgggcacacccatcacctaagtagtgtgcactgtacccaatgtgtagtccgtcatctgtcaccctatccccacccttcccccc-aagtccctgaagtccattatattattcttatgcctttgtgtcctcaaggcttagctcccacttataagtgaaga-ctat-gtgtttggtttttcatttctgaattacttcacttagaat----aatggtctccagctccatccaggttgctacgaatgccattatttcgttccttcttgtggctgagcaataCAactttctcgtgggattttttttttttttttttcttgctggtttgtcagaattccttgtagattctgggtatttgccctttgtggatgcatagtttgagaagattttcttccatgcggtgggttgtctgtttactttgctgattgtcttttgctgtgcagaaacttttta-gttgattaagtccaacctatttatttatctttgtttttgttgtatttacttttgggttcttg
i colAng1.NW_012119644v1   I 373 C 0
s saiBol1.JH378106          55692931 1197 -  71252344 tacagtgtcacaatcatgggtcactgcaatctcctcctcccaggctcagatgattctttcaccccagcctcccaggtagctgggactacagacatgcagcaccacaacta------------atatttggtatagatggggtttcaccatgttgcctaggctgttcttgaactcctgtcctcaagcaatccgcctgccttggcttcccatact----gctgagactacagatgtgagtcaccgtgtctggccTTTTTATTTCTATTtaataaacaagtatctggcactttcaatgagccaggagctgttataaggatttttaatccttataactactatacattgcaggcaatatcccatttgaaatataaggaaactgaggcacagagaagctatgcagcttcctaaaagtcacacagctagcaagcggcatagctgagattcagaactcaggagctttgtccagagccttttccctccc-cccgtcccatcctgcctctctTTATCTGCCACAGTTTATGCAACTGTCCAACTGGCACCTCCACTTGCGAGATGGGGAAGGCTGTGGTCCTTCACCAAAAGCCTAAAAATATGTGAATGTGTAAACCAAATTTACACTT----TAAACTAAAATGATTACCTCTCTTCCTTTTTAAAAAttatttcaaatagttttt--ggggaacaggtagtgtttggttatatggacaagttctttagtggtgatttctgagatttggttgcacccatcatctgagcagtgtatactctactcaatgtgtagtccttcatttctcactccttccccacccttcccccc-aagcccccagagtccattatattattcctatgcctttgcatcctcataggttagctcccactt---agtgagaacatacgatgtttggtttttcagttatgaattacttcacttagaat----aatggtctccaactccatccaggttgctacagatgccattatttcctgccttcttgtggctgagcaatattactttttcatgatt---a------ttctttttcctgctggtttgatggagttccttgtatattctgggtagtagtcctttgtggatgcgtagtttctgaagacttgcttccatgctgtgggttgtctgtttagtctgctgatttgtttttgctgtgcagaaacttttta----ggttaagtcccacc----tatttatc----tttttgttgcgtttgcttttgggttcttg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1396931 1204 -   1400280 tgcagtgtcacaatcatgggtcactgcaacctccacctcccaggctcagatgattcttttaccccagcctcccaggtagctgggactacagacatgcagcaccacaacta------------atttttggtagagatggggtttcaccatgttgcctaggctgttcttgaactcctggcctcaagcaatccgcctaccttggcctcccaaact----gctgggactacaggtgtgagtcactgtgactagccTGTTTATTTCTATTTAATAAAGAAgtatctggcactttcaaagaaccaggagctgttacaaggatttttaatccttataaccactatgcattgcaggtaatatcccatttgacagataaggaaactgagacacagagaagctatgcagcttcctaaaagtcacacagctagcaagcagcagagctgagattcagaacacaggagctttgtccagagcctcttccctcccggctgtcctgtcctgtctctctTTATTCACCACAGTTTATGCAACTGTCC--CTGGCACATCCACTTGTGAGGTGGGGAAGGCTGTGGTCCTTCACCAAAACCCTAAAAATAGGTGAATGTGTAAACCAAATTTACACTT---------TAAAATGATTACTTCTCTTCCTTTTTAAAAAttatttcaaataattttt--ggggaacaggtgttgtttggttacatggataagttatttagtggtgatttctgagatttggttgcacccatcatctgagcagtgtacactgtacccaatctgtagtccttcatctctcacccctttcccacccttcccccc-aagtccccagagtccattatattattcctatgcctttgcatcctcataggttagctcccacttataagtgagaacatacaatgtttggtttttcatttatggattacttcacttagaat----aatggtctccaactccatccaggttgctacagatgccattatttcctcccttcttgtggctgagcaataccactttttcatgatt---attatttttttttttactgctggtttgttggagttccttgtgtattctggatattagccctttgtggatgcatagtttctgaagacttgcttccacgctgtgggttgtctgtttactctgctgattttcttttgctgtgcagaagcttttta----ggttaagtcccacc----tatttatctttgtttttgttgcatttgcttttgggttcttg
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13194253 1202 -  42888418 tgcagtgtcacaatcatgggtcactgcaacctctacctcccaggctcagatgattctttcaccctagcctcccaggtagctgggactacagacatgcagcacaacaacta------------atttttgatagagatggggttttaccatgttgcctaggttgttcttgaactcctggcctcaagcaatccacctaccttggcttcccaaact----gctgggactacaggtgtgagtcaccgtgactggccTGTTTATTTCTATTtaataaacaagtatctggcactttcaatgagccaggagctattataaggatttttaatccttataactactatgcattgcaggtaatatcccatttgacatataaggaaactgaggcacaaagaagctatgcagcttcctaaacgccacacagctagcaagtggcagagctgggattcagaacatgggagctttgtccagagcctcttccctccc-catgtcctatcatacctctctTTATCTGCCACAGTTTATGTAACTGTCCAACTGGCACATCCACTTGCAAGGTGGGGAAGGCTGTGGTCCTTCACCAAAACCCTAAAAATAAGTGAATGTGTAAACCAAATTTACACTT----TAAACTAAAATGATTACCTCTCTTCCTTTTTAAAAAttatttcaaatagttttc--ggggaacaggtggtgtttggttacatggacaagttctttagtggtgatttctgagatttggttgtacccatcatctgagcagtgtacactgtacccagtgtgtagtccttcatctctcacccctttcccacccttcccccc-aagcccccagagtccattatattattcctatgcctttgcatcctcataggttagctcccacttattagtgagaatatacgatgtttggtttttcatttatgaattacttcacttagaat----aatggtctccaactccatccaggttgctacggatgccattatttcctgccttcttgtggctgagcaatattAATTTTTCAtgatt----------ttttttttcctgctggtttattggagttccttgtatattctggatattagtcctttgtggatgcataatttctgaagacttgcttccatgctgtgggttgtctgtttactctgctgattttcttttgctgtgcag-agcttttta----ggttaagtcctacc----tatttatctttatttttgttgcatttgcttttgggttcttg
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201  866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e calJac3.chr2             123647945 6278 - 204313951 I

a score=21563.000000
s hg38.chr5_KI270796v1_alt     73615 5 +    172708 ttcgt
s panTro5.chr5             125183649 5 + 181907262 ttcgt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126520571 5 + 183735486 ttcgt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1712143 5 +   8933513 gtcat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139842928 5 + 163208435 gtcat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122832244 5 + 180051392 gtcgt
i rheMac8.chr6             C 0 I 49
s macFas5.chr6             124255868 5 + 181584905 gtcat
i macFas5.chr6             C 0 C 0
s chlSab2.chr23             28367572 5 +  82825804 gtcat
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      304993 5 -   1175262 gtcat
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55694128 5 -  71252344 gtcat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1398135 5 -   1400280 gtcat
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13195455 5 -  42888418 gtcat
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e manLeu1.NW_012103321v1     4036962 54 -   4237731 I
e cerAty1.NW_012002512v1     5265900 54 +  26952557 I
e macNem1.NW_012012355v1    16253911 54 +  18395747 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e calJac3.chr2             123647945 6278 - 204313951 I

a score=130794.000000
s hg38.chr5_KI270796v1_alt     73620 35 +    172708 taactctgcctgagtcaatgtctagaagagttttt
s panTro5.chr5             125183654 35 + 181907262 taactctgcctgagtcaatgtctagaagagttttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126520576 35 + 183735486 taactctgcctgagtcaatgtctagaagagttttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1712148 35 +   8933513 taactctgcctgagtcaatgtctagaagagttttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139842933 35 + 163208435 taactctgcctgagtcaatgtccagaagaattttt
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124255873 32 + 181584905 gaac---acctgagccggtgtctagaggagttttt
i macFas5.chr6             C 0 C 0
s chlSab2.chr23             28367577 32 +  82825804 gaac---accggagccggtgtctagaagagttttt
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      304998 32 -   1175262 gaac---acctgagctggtgtctagaagagttttt
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55694133 35 -  71252344 gaactctgcctgagccaatgtctaaaagagttttt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1398140 35 -   1400280 gaactctgcctgagccagtgtccaaaagagttttt
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13195460 35 -  42888418 gaactctgcctgagccaatgtctgaaagagttttt
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e manLeu1.NW_012103321v1     4036962 54 -   4237731 I
e cerAty1.NW_012002512v1     5265900 54 +  26952557 I
e macNem1.NW_012012355v1    16253911 54 +  18395747 I
e rheMac8.chr6             122832249 49 + 180051392 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e calJac3.chr2             123647945 6278 - 204313951 I

a score=1916552.000000
s hg38.chr5_KI270796v1_alt     73655 537 +    172708 ccaacgttatcttctagaatttttttggtttcaggtcttatatttcagtctttgatccaccttgtgttgatttttgcatcaggtgacagatgaggattcagtctcatccttctacacgtggcttgccaataatgccagcaccatttgttgaatagggtgtcctttctccactttatgtttttgtttgctttgtcaaagatccattcgctataagtatttggctttatttctggtttctctattttgtttcattggtctagatgccta-cttttataccagtaccatgctgtttggtaactat-agccttgtggtatagtttcatgtcggttaatgtgatgcctccagattg------ttttttttgcttagtcttgctttggctatgtgggctctttttttggtttcatatggatttcagga-ttgttttttctagttctgtgaagaatgatgatggtattttgatgggaattgcattaaatttatacattgcttttggcagtatgg-tcattttcacaatattgattctacccatccatgagcatg
s panTro5.chr5             125183689 537 + 181907262 ccaacgttatcttctagaatttttatggtttcaggtcttatatttcagtctttgatccaccttgtgttgatttttgcatcaggtgacagatgaggattcagtctcatccttctacacgtgccttgccaattatgccagcaccatttgttgaatagggtgtcctttctccactttatgcttttgtttgctttgtcaaagatccattcgctataagtatttggctttatttctggtttctctattttgtttcattggtctagatgccta-cttttataccagtaccatgctgtttggtaactat-agccttgtggtatagtttcatgtcggttaatgtgatgcctccagattg------ttttttttgcttagtcttgctttggctatgtgggctctttttttggtttcatatggatttcagga-ttgttttttctagttctgtgaagaatgatgatggtattttgatggcaattgcattaaatttatacattgcttttggcagtatgg-tcattttcacaatattgattctacccatccatgagcatg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126520611 537 + 183735486 ccaacgttatcttctagaatttttatggtttcaggtcttatatttcagtctttgatccaccttgtgttgatttttgcatcaggtgacagatgaggattcagtctcatccttctacacgtggcttgccaattatgccagcaccatttgttgaatagggtgtcctttctccactttatgcttttgtttgctttgtcaaagatccattcgctataattatttggctttatttctggtttctctattttgtttcattggtctagatgccta-cttttataccagtaccatgctgtttggtaactat-agccttgtggtatagtttcatgtcggttaatgtgatgcctccagattg------ttttttttgcttagtcttgctttggctatgtgggctctttttttggtttcatatggatttcagga-ttgttttttctagttctgtgaagaatgatgatggtattttgatggcaattgcattaaatttatacattgcttttggcagtatgg-tcattttcacaatattgattctacccatccatgagcatg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1712183 541 +   8933513 ccaacattatcttctagaatttttatggtttcaggtcttatatttcagtctttgatccaccttgtgttgatttttgcgtcaggtgacagatgaggattcagtttcttccttctacacatggcttgccaattatgccagcaccatttgttgaataaggtgtcctttctccactttatgtttttgtttgctttgtcaaagatccattccctgtaagtatttggctttatttccggattctctattttgtttcattggtctagatgccta-cttttataccagtaccatgctgtttggtaactat-agccttgtggtatagtttcatgtcggttaatgtgatgcctccagattgttttttttttttttgcttagtcttgctttggctatgtgggctc-ttttttggtttcatatggatttcagga-ttgttttttctagtt-tgtgaagaatgatgatggtattttgatgggaattgcattaaatttatagattgcttttggcagtatgg-tcattttcacaatattgattctacccatccatgagcatg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139842968 533 + 163208435 ccaatg-----ttctaaaatttttatggtttcaggtcttatatttcagtctttgatccaccttgtgttgatttttgcatcaggtgacagatgaggattcagtttcatccttctacacgtggcttgccaattatgccagcaccatttgtcgaatagggtgtcctttctctgctttatgtttttgtttgctttgtcaaggatccatttgctataagtatttggctttatttctggattctctattttgtttcattggtctagatgccta-cttttatatcagtaccatgctgtttggtaactat-agccttgtggtatagtttcatgtcggttagtctgatgcctctagattg------ttctttctgcttagtcttgctttggctatgtgggctctttttttggtttcatatggattttagga-ttgttttttctggctctgtgaagaatgatgatggtattttgatagggattgcgttaaatttatagattgcttttggcagtatggttcattttcacaatattgattctacccatccatgagcatg
i nomLeu3.chr2             C 0 C 0
s chlSab2.chr23             28367609 532 +  82825804 ccaatgttatcttctagaatttttatggtttcaggtcttgtatttcagtctttgatccacctcgtgttgatttttgcatcaggtgacaaatgaggatacagtttcatccttctacatgtggcttgccaattatgccagcaccatttgttgaatagggtgtcctttctc-----tatgtttttgtttgctttgtcaaagatccactggctttaagtatttggctttatttctgggttctctatattgtttcattggtctaggtacctattttttataccagtaccatgctgtttggtaactat-agtcttgtggtatagtttcatgtcagttaatgtgatgcctccagattg------ttctttttgcttagtcttgctttgactatgagggctc-ttttttggtttcatatgaattttagga-ttgttttttctagttctttgaagaatgatgatggtattttgatggggattgcattaaatttatagattgcttttggcagtatgg-tcattttcacaatattgattctacccatccatgaacatg
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      305030 531 -   1175262 ccaatgttatcttctagaatttttatggtttcaggtcttgtatttcagtctttgatccaccttgtgttgatttttgcatcaggtgacaaatgaggatacagttgcatccttctacatgtggcttgccaattatgccagcaccatttgttgaatagggtgtcctttctc-----tatgtttttgtttgctttgtcaaagatccactggctataagtatttggctttatttcggggtcctctattttgtttcattggtctaggtgccta-tttttataccagtaccatgctgtttggtaactat-agtcttgtggtatagtttcatgtccgttaatgtgatgcctccagattg------ttctttttgcttagtcttgctttggctatgagggctc-ttttttggtttcgtatgaattttagga-ttgttttttctagttctgtgaagaatgatgttggtattttgatggagattgcattaaatttatagattgcttttggcagtatgg-tcattttcacaatattgattctacccatccatgaacatg
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55694168 537 -  71252344 ccaatattatcttctagaaattttacggtttcaggtctcagatttaagtttttgatccaccttgtgttgatttttgcattaggtgacggatgaggatccagtttcatccttctgcaggtggcttgccaattatgccagcaccatttgttgaatagggtgtcttttcttcactttatatttttgtttgctttgtcaaagatgggctggctataagtatttggctttacttctgtgtcctctattttatttcattggtctaggtgccta-tttttataccagtatcatactgtttggtaactataagccttgtagtatagtttcatgtcagttaatgtgatagttccagattg------ttctttttgcttggtcttgctttggctatgtggactc-tttcttggttttatatgaattttagga-tttttttttctagttctgtgaagaattatgttggtattttgatggagattgcattaaacttatagcttgcttttggcaatatgg-taattttcacaatattgattctactcatccagaagcata
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107829v1     1398175 532 -   1400280 ctaatattatcttctacaaattttacggtttcaggtcttag------gcttttaatccaccttgtgttgatttttgcattaggtggcatatgaggatccagtttcatccttctagagatggcttgccagttatgccagcaccatttgttgaatagggtgtcttttttccactttatgtttttgtttgctttgtcaaagatcggttggctataagtatttggctttacttctgtgtcctctattttatttcattggtctaggtgccta-tttttataccagtatcatactgtttggtaactataagccttgtagtatagtttcatgtcagttaatgtgatagttccagattg------ttctttttgcttagtcttgccttggctatgtagactc-ctttttcattttatatgaattttaggattttttttttctagttttgtgaagaatgatgttggtattttgatggagattgcattaaacttatagattgcttttggcaatatgg-taattttcacaatattgattctacccatccataagcata
i cebCap1.NW_016107829v1   C 0 C 0
s aotNan1.NW_018505940v1    13195495 532 -  42888418 ccaatattatcttctagaaattttacagtttcaggtcttag------gtttttgatccaccttgtgttgacttttgcattaggtgacagatgaggatccagtttcatccttctacaggtggcttgccaattatgccagcaccatttgttgaatagggtgtcttttctccactttatgttttagcttgctttgtcaaagataggttggctataagtatttggctttacttctgtgtcctctattttatttcattggtctaggtgccta-tttttataccagtatcatactgtttggtaactataagccttgtagtatagtttcatgtcagttaatatgatagttccagattg------ttctttttgcttagtcttgctttggctatgtggactc-ttttttggttttatatgaattttaggattttttttttctagttctgtgaggaattacgttggtattttgatggagattgcattaaacttatagattgcttttggcaatatgg-taattttcacaatgttgattctacccatccataagcata
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e manLeu1.NW_012103321v1     4036962  54 -   4237731 I
e cerAty1.NW_012002512v1     5265900  54 +  26952557 I
e macNem1.NW_012012355v1    16253911  54 +  18395747 I
e macFas5.chr6             124255905   0 + 181584905 C
e rheMac8.chr6             122832249  49 + 180051392 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e calJac3.chr2             123647945 6278 - 204313951 I

a score=51704.000000
s hg38.chr5_KI270796v1_alt     74192 13 +    172708 ggatgtgtttcca
s panTro5.chr5             125184226 13 + 181907262 cgatgtgtttcca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126521148 13 + 183735486 ggatgtgtttcca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1712724 12 +   8933513 -gatgtgtttcca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139843501 13 + 163208435 ggatgtgtttcca
i nomLeu3.chr2             C 0 I 4
s macFas5.chr6             124255905 13 + 181584905 ggatctgtttcca
i macFas5.chr6             C 0 I 4
s chlSab2.chr23             28368141 13 +  82825804 ggatgtgtttcca
i chlSab2.chr23            C 0 I 4
s colAng1.NW_012119644v1      305561 13 -   1175262 gaatgtgtttcca
i colAng1.NW_012119644v1   C 0 I 4
s saiBol1.JH378106          55694705 13 -  71252344 gaggatgtttcca
i saiBol1.JH378106         C 0 I 4
s cebCap1.NW_016107829v1     1398707 13 -   1400280 gagtgtgtttcca
i cebCap1.NW_016107829v1   C 0 I 4
s aotNan1.NW_018505940v1    13196027 13 -  42888418 gagtatgtttcca
i aotNan1.NW_018505940v1   C 0 I 4
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e manLeu1.NW_012103321v1     4036962 54 -   4237731 I
e cerAty1.NW_012002512v1     5265900 54 +  26952557 I
e macNem1.NW_012012355v1    16253911 54 +  18395747 I
e rheMac8.chr6             122832249 49 + 180051392 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e calJac3.chr2             123647945 6278 - 204313951 I

a score=1729936.000000
s hg38.chr5_KI270796v1_alt     74205 200 +    172708 tttgtgtcatctatgacttctttcagcagtgttttgtagttttccttgtagagatctttcacctccttggtaaggtatattcctatgtattttatttttcttggagctgtggtataaggggttgagttattgatttgattctcaccttggtcgttggtggtgtatagcagtgctactgatttgtatacattgattttgta
s panTro5.chr5             125184239 200 + 181907262 tttgtgtcatctatgacttctttcagcagtgttttgtagttttccttgtagagatctttcacctccttggtaaggtatattcctatgtattttatttttcttggagctgtggtaaaaggggttgagttattgatttgattctcaccttggtcgttggtggtgtatagcagtgctactgatttgtacacgttgattttgta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126521161 200 + 183735486 tttgtgtcatctatgacttctttcagcagtgttttgtagttttccttgtagagatctttcacctccttggtaaggtatattcctatgtattttatttttcttggagctgtggtaaaaggggttgagttattgatttgattctcaccttggtcgttggtggtgtatagcagtgctactgatttgtatacgttgattttgta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1712736 196 +   8933513 tttgtgtcatctatgacttctttcagcagtgttttgtagttttccttgtagagatctttcacctccttggtaaggtatattcctaagta-tttatttttcttggagctgtggtaaaa-gggttgagttactgatttgattctcaccttggtcgttggt-gtgtatagcagtgctactgatttgt-tacgttgattttgta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139843518 200 + 163208435 tttgtgtcatctatgacttctttcagcagtgttttgtagttttccttgtagagatctttcacctccttggtaaggtatattcctaagtgttttatttttcttggagctgtggtaaaaggggttgagttattgatttgattctcatcttggtcgttggtggtgtatagcagtgctactgatttgtatatgttgattttgta
i nomLeu3.chr2             I 4 C 0
s rheMac8.chr6             122832298 200 + 180051392 tttgtgttacctatgacttctttcagcagtgttttgtagttttcctcgtagagatcttttgtcttcttggtaaggtatattcctaagtattttatttttcttggagctgtggtaaaaggggttgagttatgaatttgattctcaccttggtcattggtgatgtatagcagtgctactgatttgtatgcattgattttgta
i rheMac8.chr6             I 49 C 0
s macFas5.chr6             124255922 200 + 181584905 tttgtgttacctatgacttctttcagcagtgttttgtagttttcctcgtagagatcttttgtcttcttggtaaggtatattcctaagtattttatttttcttggagctgtggtaaaaggggttgagttatgaatttgattctcaccttggtcattggtgatgtatagcagtgctactgatttgtatgcattgattttgta
i macFas5.chr6             I 4 C 0
s macNem1.NW_012012355v1    16253965 200 +  18395747 tttgtgttacctatgacttctttcagcagtgttttgtagttttcctcgtagagatcttttgtcttcttggtaaggtatattcctaagtattttatttttcttggagctgtggtaaaaggggttgagttatgaatttgattctcaccttggtcattggtgatgtatagcagtgctactgatttgtatgcattgattttgta
i macNem1.NW_012012355v1   I 54 C 0
s cerAty1.NW_012002512v1     5265954 200 +  26952557 tttgtgttacctatgacttctttcagcagtgttttgtagttttcctcgtagagatcttttgtcttcttggtaaggtatattcctaagtattttatttttcttggagctgtggtaaaaggggttgagttatttatttgattctcaccttggtcattggtgatgtatagcagtgctactgatttgtatacattgattttgta
i cerAty1.NW_012002512v1   I 54 C 0
s chlSab2.chr23             28368158 200 +  82825804 tttgtgttatctgtgacttctttcagcagtgttttgtagttttcctcgtagagatctttcgtcttcttggtaaggtatattcctaagtattttatttttcttggagctgtggtaaaaggggttgagttattaatttgattctcaccttggtcattggtgatgtatagcagtgctactgatttgtatacattgattttgta
i chlSab2.chr23            I 4 C 0
s manLeu1.NW_012103321v1     4037016 200 -   4237731 tttgtgttacctatgacttctttcagcagtgttttgtagttttcctcgtagagatcttttgtcttcttggtaaggtatattcctaagtattttatttttcttggagctgtggtaaaaggggttgagttatttatttgattctcaccttggtcattggtgatgtatagcagtgctactgatttgtatacattgattttgta
i manLeu1.NW_012103321v1   I 54 C 0
s colAng1.NW_012119644v1      305578 200 -   1175262 tttgtgttatctatgacttctttcagcagtgttttgtagttttcctcgtagagatctttcgtcttcttggtaaggtatattcctaagtattttatttttcttggagctgtggaaaaagtggttgagttattaatttgattctcaccttggtcattggtgatgtatagaagtgctactgatttgtatacattgattttgta
i colAng1.NW_012119644v1   I 4 C 0
s saiBol1.JH378106          55694722 200 -  71252344 tttgtgtcatctatgacttctttcaacggtgttttgtagttttccttgtagaggtctttcacctccttggtaagatttattcctaagtatttcatttttcttgcagccatggtcaaaggggttgagttattgatttgattctctgcttgatcattggtggtgtatagcagtgctactgatttttatatattgattttgta
i saiBol1.JH378106         I 4 I 4292
s cebCap1.NW_016107829v1     1398724 197 -   1400280 tttgtgtcatctatgatttctttcagcggtgttttgtggttttccttgtagaggtctttca---ccttggtaaggtttattcctaagtattttatttttcttgcagctatggtcaaaggggttgagttattgatttgattctcagcttggccattggtggtgtacagcagtgctactgatttgtatatgctgattttgta
i cebCap1.NW_016107829v1   I 4 N 0
s aotNan1.NW_018505940v1    13196044 197 -  42888418 tttgtgtcatctatgacctctttta---gtgttttgtagttttccttgtagaggtctttcacctccttggtaaggtttattcctaagtattttatttttcttgcagctatggtcaaaggggttgagttattgattttattctcagcttggtcattggtggtgtatagcagtgctactgatttgtatatattgattttgta
i aotNan1.NW_018505940v1   I 4 I 2863
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e calJac3.chr2             123647945 6278 - 204313951 I

a score=9199129.000000
s hg38.chr5_KI270796v1_alt     74405 1670 +    172708 aagtgggcatccttgtcttgttccagttctcagcagaaatgctttcaaattttccccattcagtatactgctggctgtgggtttgtcatagatggcttttattactttaagatatgtcccttttatgctcatcttgctgagggttttaatcataaagcaatgctggattttgtcaaatgctttttctgcacctgttgagatgatcatatgatttttc-tttttacttctctttatatagtgtatcacatttattgacttgcatatgttaaaccatccctgcatccctggtataaaacccacttgatcatggtg----tatta--------tttttttttttttgacatgctattagattctgttacctagtattttgttgaggatttttgcatctgtatttgtgagggatattggtctgtagttttcttttttgttatgtcctttcctggctttggtattaaggtgatactggcttcatagaatgatttatggaggattttctcttcctctatcttttgaaatagtttcagtagaaattggtaccaattcctctttgaatgtccaatagaattcagttgtgaatccatctagtcctggacctatttgttggcaacgtttttattactgttccaatctcactatttgttattggtctgttcagagtttctgtttcttcctggtttcatctaggagggttgtatatttccagtagtttatccatctcctctaggttttctagtttgtgtgcaaaaaggtgttcacagtagtcctgaatgatcttttgtttctgtggtatcagttgtaatacctc--atttcatttctaattgaacttatttggatcctctc---tcttgtttaattattgatgttttaaaatcttttcaaagaaacagttttctg--tttcatttatc-----ttttgta----------------------------------------------------ttttttttttttttgcttcagtttcatttagttctgctctgatctttgttatgtcttttcttttgctgggtttgtgtttgatttgttcttgtttgtttacttcattgagatgtgagcttagattatctatttgtgctctttcaggcttttgatgtaggcatttaatgctatgaact---ttcttagcacagcttttgctgtatcccagaggttttgataggttgtgtcactattatcattcagttcaaagaatttttaaattttcatcttgatttcattgttgtcccaaaattcattcaggagtcaattatttaatttccatgtatttgtatagttttgaggattccttttgtagttaattttcag-ttttattccactgtggtctgacagagtgcttgatataacttcagttttcttaaatttattgagacttttttgtggcctatcatatgatctatcttggagaatgatctaggtgatgatgaatagaatgtatattctacagttgttgggtagaa--tgttctgtaaatatctgttaagtccaattgttctatgttatagtttaaatccattgtttctttgttgactttctgtcttgatgacctgtctagtgttgtcaatgcagtattgaaatcccccactattattgtgttgccgtctacctcattccttaggtttagtagtaattgttttataaatttgggagcttcactcttaggtgtgtaaatatttgg------gatattttcatgttggactaatccttttataattgt
s panTro5.chr5             125184439 1722 + 181907262 aagtgggcatccttgtcttgttccagttctcagcagaaatgctttcaacttttccccattcagtataatgctggctgtgggtttgtcatagatggcttttattactttaaggtatgtcccttttatgctgatcttgctgagggttttaatcataaagtgatgctggattttgtcaaatgctttttctgcacctgttgagatgatcatatgatttttc-tttttagttctctttatatagtgtatcacatttattgacttgcatatgttaaaccatccctgcatccctggtatgaaacccacttgatcatggtg----tatta---------ttttttttttttgacatgctattagattctgttacctagtattttgttgaggatttttgcatctgtatttgtgagggatattggtctgtagttttcttttttgttatgtccttttctggctttggtattaaggtgatactggcttcatagaatgatttatggaggattttctcttcctctatcttttgaaatagtttcagtagaaattggtaccaattcctctttgaatgtctaatagaattcagttgtgaatccatctggtcctggacctatttgttggcaacgtttttattactgttccaatctcactatttgttattggtctgttcagagtttctgtttcttcctggtttcatctaggagggttgtatatttccagtagtttatccatctcctctaggttttctagtttgtgtgcaaaaaggtgttcatagtagtcctgaatgatcttttgtttctgtggtatcagttgtaatatctc--atttcatttctaattgagcttatttggatcctctctcttcttgtttaattattgattttttaaaatcttttcaaagaaacagttttttg--tttcatttatc-----ttttgtattttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttttgcttcagtttcatttagttctgctctgatctttgttatttcttttcttttgctgggtttgtgtttgatttgttcttgtttgtttacttcattgagatgtgagcttagattatctatttgtgctctttcaggcttttgatgtaggcatttaatgctatgaact---ttcttagcacagcttttgctgtatcccagaggttttgataggttgtgtcactattatcattcagttcaaagaatttttaaattttcatcttgatttcattgttgtcccaaaattcattcaggagtcaattatttaatttccatgtatttgtatagttttgaggattccttttgtagttaattttcag-ttttattccactgtggtctgacagagtgcttgatataacttcagttttcttaaatttattgagacttttttgtggcctatcatatgatctatcttggagaataatctaggtgatgatgaatagaatgtatattctacagttgttgggtagaa--tgttctgtaaatatctgttaagtccaattgttc--tgttatagtttaaatccattgtttctttgttgactttctgtcttgatgacctgtctagtgttgtcaatgcagtattgaaatcccccactattattgtgttgccgtctacctcattccttaggtttagtagtaattgttttataaatttgggagcttcactcttaggtgtgtaaatatttgg------gatattttcatgttggactaatccttttataattgt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126521361 1674 + 183735486 aagtgggcatccttgtcttgttccagttctcagcagaaatgctttcaacttttccccattcagtataatgctggctgtgggtttgtcatagatggcttttattactttaaggtatgtcccttttatgctgatcttgctgagggttttaatcataaagtgatgctggattttgtcaaatgctttttctgcacctgttgagatgatcatatgatttttc-tttttacttctctttatatagtgtatcacatttattgacttgcatatgttaaaccatccctgcatccctggtatgaaacccacttgatcatggtg----tatta------------tttttttttgacatgctattagattctgttacctagtattttgttgaggatttttgcatctgtatttgtgagggatattggtctgtagttttcttttttgttatgtccttttctggctttggtattaaggtgatactggcttcatagaatgatttatggaggattttctcttcctctatcttttgaaatagtttcagtagaaattggtaccaattcctctttgaatgtctaatagaattcagttgtgaatccatctggtcctggacctatttgttggcaacgtttttattactgttccaatctcactatttgttattggtctgttcagagtttctgtttcttcttggtttcatctaggagggttgtatatttccagtagtttatccatctcctctaggttttctagtttgtgtgcaaaaaggtgttcatagtagtcctgaatgatcttttgtttctgtggtatcagttgtaatatctc--atttcatttctaattgagcttatttggatcctctctcttcttgtttaattattgattttttaaaatcttttcaaagaaacagttttttg--tttcatttatc-----ttttgta-----------------------------------------------tttttttttttttttttagtcttcagtttcatttagttctgctctgatctttgttatttcttttcttttgctgggtttgtgtttgatttgttcttgtttgtttacttcattgagatgtgagcttagattatctatttgtgctctttcaggcttttgatgtaggcatttaatgctatgaact---ttcttagcacagcttttgctgtatcccagaggttttgataggttgtgtcactattatcattcagttcaaagaatttttaaattttcatcttgatttcattgttgtcccaaaattcattcaggagtcaattatttaatttccatgtatttgtatagttttgaggattccttttgtagttaattttcag-ttttattccactgtggtctgacagagtgcttgatataacttcagttttcttaaatttattgagacttttttgtggcctatcatatgatctatcttggagaataatctaggtgatgatgaatagaatgtatattctacagttgttgggtagaa--tgttctgtaaatatctgttaagtccaattgttctatgttatagtttaaatccattgtttctttgttgactttctgtcttgatgacctgtctagtgttgtcaatgcagtattgaaatcccccactattattgtgttgccgtctacctcattccttaggtttagtagtaattgttttataaatttgggagcttcactcttaggtgtgtaaatatttgg------gatattttcatgttggactaatccttttataattgt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1712932 1668 +   8933513 aagtgggcatccttgtcttgttccagttctcagaagaaatgctttcaacttttccccattcagtataatgctggctgtgggtttgtcatagatggcttttattactttaaggtatgtcccttttatgctgatcttgctgagggttttaatcataaagtgatgctggattttgtcaaatgctttttctgcacctgttgagatgatcatatgatttttc-tttttacttctctttatatagtgtatcacatttattgacttgcatatgttaaaccatccctgcatccctggtatgaaacccacttgatcatggtg----tatta------------tttttttttgatatg-tattagattctgttacctagtattttgttgaggatttttgcatctgtatttgtgagggatattggtctgtagttttcttttttgttatgtcctttcctggctttggtattaaggtgatactggcttcatagaatgattta-agaggattttctcttcctctatcttttgaaatagtttcagtagaaattggtaccaattcctctttgaatgtctaatagaattcagttgtgaatccatctggtcctggacctatttgttggcaatgtttttattactgttccaatctcactatttgttattggtctgttcagagtttctgtttcttccaggtttcatctaggagggttgtatatttccagtagtttatccatctcctctaggttttctagtttgtgtgcaaaaaggtgttcgtagtagtcctgaatgatcttttgtttctgtggtatcagttgtaatatctc--atttcatttctaattgagcttatttggatcctctctcttcttgtttaattattgat-ttttaaaatcttttcaaagaaacagttttttg--tttcatttatc------tttgta------------------------------------------------ttttttttttttttttttgcttcagtttcatttagttctgctctgatctttgttatttcttttcttttgctgggtttgtgtttgatttgttcttgtttctttacttcattgagatgtgagcttagattatctatttgtgctctttcaggcttttgatgtagacatttaatgctatgaact---ttcttagcactgcttttgctgtatcccagaggttttgataggttgtgtcactactatcattcagttcaaagaatttttaaattttcatcttgatttcattgttgtcccaaaattcattcgggagtcaattatttaatttccaggtatttgtatagttttgaggattccttttgtagttaattttcag-ttttattccactgtggtctgagagagtgcttgatatcacttcagttttcttaaatttattgagacttttttgtggcctatcatatgatctatcttggagaatgatc-aggtgatgatgaatagaatgtatattctacagttgttgggtagaa--tgttctgtaaatatctgttaagtccaattgttctttgttatagtttaaatccattgtttctttgttgactttttgtcttgatgacctgtctagtgttgtcaatgcagtattgaaatcccccactattattgtgttgccatctacctcattccttaggtttagtagtaattgttttataaatttgggagtttcactcttaagtgtgtatatatttgg------gatattttcatgttggactaatccttttataattgt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139843718 1660 + 163208435 aagtgggcatccttgtcttgttccagttctcagcagaaatgctttcaacttttccccattcagtgtaatgctggctgtgggtttgtcatagatggcttttattactttaaggtatgtccctattatgctgattttgccgagggttttaatcataaagtgatgctggattttgtcaaatgctttttctgcacctgttgagatgatcatatgatttttc-tttttacttcttttcatatagtgtatcacatttattgacttgcatatgttaaaccatccctgcatccctggtatgaaacccccttgatcatggtg----tat--------------tttttttttgatatgctattagattctgttacctggtattttgctgaggatttttgcatctatattcgtgagggatattggtctgtagttttcttgtttgttatgtcctttcctggctttggtattaaggtgatactggcttcatagaatgatttagggaggattttctcttcctctatcttttgaaatagtttcagtagaaattggtaccaattcctctttgaatgtctagtagaattcagctgtgaatccatctggtcctggacctatttgttggcaatgtttttattactgttccaatctcactatttgttattggtctgttcagagtttctgtttcttcctggtttaatctaagagggttgtatatttccagtagtttatccttctcctctaggttttctagtgtgtgtgcaaaaaggtgttcatagtagtcccgaatgatcttttatttctgtgttatcagttgtaatatctc--atttcatttctaattgagcttatttggatcctctgtcttcttgtttaattattgattttttaaaatcttttcaaagaaacagttttttg--tttcatttatc------------------------------------------------------------------ttttttttttttgcttcagttttatttagttctgctctgatctttgttatttcttttcttctgctgggtttgtgtttgatttgttcttgtttctttacttcattgag--gtgagcttagattatctatttgtgctctttcaggcttttgatgtaggcatttaatgcaatgaactttcttcttagcactgcttttgctgtatcccagaggttttgataggttgtgtcactattatcattcagttcaaagaagttttaaattttcatcttgatttcattgttgtcccaaagatcattcaggagccaattatttaatttccatgtatttgtatagttttgaggattccttttgtagttaattttcag-ttttattccactgtggtctgagagggtgcttgatataacttcagttttcttaaatttattgagacttttttgtggcctatcatatggtctatcttggagaatgatctaggtgatgatgaatagaatgtatattctacagttgttgggtagaatgtgttctgtaaatatctgttaagtccaattgttctatgttatagtttaagtccgttgtttctttgttgactttttgtcttgatgacctgtctagtgttgtcaatgcagtattgaaatcccccactattattgtgttgccatctacctcatt-cttaggtttagtagtaattgttttataaatttgggagcttcactcttaggtatgtatatatttgg------catattttcctgttggactaatccttttataattgt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122832498 1674 + 180051392 aagcgagcatccttgtcttgttccagttctcagtggaaatgttttcaacgtttccccattcagtataatgctggctgtgggtttgtcatagatggcttttattactttaaggtatgtcacttttatgctgattttgctgagggttttaatcataaagtgatgctggattttgtcaaatgctttttctgcatctgttgagatgatcatatgattttttttttttacttctgtttatatggtgtatcacatttattaacttgcatatgttaaactatccctgtatccctggtatgaaacccgcttggttatggtg----tattt--------ttttattttttttgatatgctattagattctgttacctagtattttgttgaggatttttgcatctatattcatcagggatattggtccgtagttttcttttttgttatgtcctttcctgactttggtattaaggtgatactggcttcatagaatgatttagggaagattttctcttcctctatcttttgaaatagtttcagtagaaattagtaccaattcctctttgaacgtctaatagaattcagctgtgaatccatctggtcctggacctatttgttggcaatgtttttattactgttccaatctcaccacttgttattggtctgttcagagtttctgtttcttcctggtttaatctaggagggttgtatatttccagtagtttattcacctcttcgaggttttctaatttgtgtgcagaaaggtgttcac---agtcttgaatgattttttgtttctgtggtatcagttttaatatctcctgttttatttctaattgagcttatttgtatcctctctcttcttgtttaattattgactttcaaaaaccttttcaaagaaccagattt-tg--tttcatttatc-----ttttatt----------------------------------------------------tta--tttttttttgcctcagtttcatttagttctgctctgatctttgttatttcttttcttttgctgggtttgtgtttgagttgttcttgtttctttacttccttaagatgtgagtttaggttgtctatttgtgccttttcaggcttttgatgtaggcatttaatactatgaactttcctcttagcgctgcttttgctatatcccagaggttttgataggttatgtcaccattatcattcagttcaaagaatttttaaattttcatcttgatttcattgttgtcccaaagatcattcaggagccaattatttaatttccatgtatttgtatagttttgaggattctttttggag-----tttcaatttttattccactgtggtctgagagagtgcttgatataacttcagttttcttaaatttattgagagttttttatggcctatcatatggtctatcttggagaatgttctaggtgttgatgaatagtatgtatattctacagttgttggatagaa--tgctctgtaaatatatgttaagtccatttg-tctgtgttatagtttaagtccattgtttctttgttgactttttgtcttgatgacctgtctagtgttgtcagtggagtattgaaatcccccactattattgtgttgccgtctaactgatttcttaggtctagtagtaattgttttataaatttgggagcttcactcttaggtgcatatatatttgggattgtgatattttcctgttggactaatctttttataattat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124256122 1673 + 181584905 aagcgagcatccttgtcttgttccagttctcagtggaaatgttttcaacgtttccccattcagtataatgctggctgtgggtttgtcatagatggcttttattactttaaggtatgtcacttttatgctgattttgctgagggttttaatcataaagtgatgctggattttgtcaaatgctttttctgcatctgttgagatgatcatatgatttttcttttttacttctgtttatatggtgtatcacatttattaacttgcatatgttaaactatccctgtatccctggtatgaaacccgcttggttatggtg----tattt--------tttttttttttttgatatgctattagattctgttacctagtattttgttgaggatttttgcatctatattcatcagggatattggtccgtagttttcttttttgttatgtcctttcctgactttggtattaaggtgatactggcttcatagaatgatttagggaggattttctcttcctctatcttttgaaatagtttcagtagaaattagtaccaattcctctttgaacgtctaatagaattcagctgtgaatccatctggtcctggacctatttgttggcaatgtttttattactgttccaatctcaccacttgttattggtctgttcagagtttctgtttcttcctggtttaatctaggagggttgtatatttccagtagtttattcacctcttcgaggttttctaatttgtgtgcagaaaggtgttcac---agtcttgaatgattttttgtttctgtggtatcagttttaatatctcctgttttatttctaattgagcttatttgtatcctctctcttcttgtttaattattgactttcaaaaaccttttcaaagaaccagattt-tg--tttcatttatc-----ttttatt----------------------------------------------------tt---tttttttttgcctcagtttcatttagttctgctctgatctttgttatttcttttcttttgctgggtttgtgtttgatttgttcttgtttctttacttccttaagatgtgagtttaggttgtctatttgtgccttttcaggcttttgatgtaggcatttaatactatgaactttcctcttagcgctgcttttgctatatcccagaggttttgataggttatgtcaccattatcattcagttcaaagaatttttaaattttcatcttgatttcattgttgtcccaaagatcattcaggagccaattatttaatttccatgtatttgtatagttttgaggattctttttggag-----tttcaatttttattccactgtggtctgagagagtgcttgatataacttcagttttcttaaatttattgagagttttttatggcctatcatatggtctatcttggagaatgttctaggtgttgatgaatagtatgtatattctacagttgttggatagaa--tgctctgtaaatatatgttaagtccatttg-tctgtgttatagtttaagtccattgtttctttgttgactttttgtcttgatgacctgtctagtgttgtcagtggagtattgaaatcccccactattattgtgttgccgtctaactgatttcttaggtctagtagtaattgttttataaatttgggagcttcactcttaggtgcatatatatttgggattgtgatattttcctgttggactaatctttttataattat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16254165 1684 +  18395747 aagcgagcatccttgtcttgttccagttctcagtggaaatgttttcaacgtttccccattcagtataatgctggctgtgggtttgtcatagatggcttttattactttaaggtatgtcacttttgtgctgattttgctgagggttttaatcataaagtgatgctggattttgtcaaatgctttttctgcatctgttgagatgatcatatgatttttcttttttacttctgtttatatggtgtatcacatttattaacttgcatatgttaaactatccctgtatccctggtatgaaacccgcttggttatggtgttttttttt--------tttttttttttttgatatgctattagattctgttacctagtattttgttgaggatttttgcatctatattcatcagggatattggtccgtagttttcttttttgttatgtcctttcctgactttggtattaaggtgatactggcttcatagaatgatttagggaggattttctcttcctctatcttttgaaatagtttcagtagaaattagtaccaattcctctttgaacgtctaatagaattcagctgtgaatccatctggtcctggacctatttgttggcaatgtttttattactgttccaatctcaccacttgttattggtctgttcagagtttctgtttcttcctggtttaatctaggagggttgtatatttccagtagtttattcacctcttcgaggttttctaatttgtgtgcagaaaggtgttcac---agtcttgaatgattttttgtttctgtggtatcagttttaatatctcctgttttatttctaattgagcttatttgtatcctctctcttcttgtttaattattgactttcaaaaaccttttcaaaaaaccagcttt-tgtttttcatttatctttttttttttt----------------------------------------------------tt---tttttttttgcttcagtttcatttagttctgctctgatctttgttatttcttttcttttgctgggtttgtgtttgatttgttcttgtttctttacttccttaagatgtgagtttaggttgtctatttgtgccttttcaggcttttgatgtaggcatttaatactatgaactttcctcttagcgctgcttttgctatatcacagaggttttgataggttatgtcaccattatcattcagttcaaagaatttttaaattttcatcttgatttcattgttgtcccaaagatcattcaggagccaattatttaatttccatgtatttgtatagttttgaggattctttttggag-----tttcaatttttattccactgtggtctgagagagtgcttgatataacttcagttttcttaaatttattgagagttttttatggcctatcatatggtctatcttggagaatgttctaggtgttgatgaatagtatgtatattctacagttgttggatagaa--tgctctgtaaatatatgttaagtccatttg-tctgtgttatagtttaagtccattgtttctttgttgactttttgtcttgatgacctgtctagtgttgtcagtggagtattgaaatcccccactattattgtgttgccgtctaactgatttcttaggtctagtagtaattgttttataaatttgggagcttcactcttaggtgcatatatatttgggattgtgatattttcctgttggactaatctttttataattat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5266154 1674 +  26952557 aagcgagcatccttgtcttgttccagttctcagcggaagtgttttcaacgtttccccattcagtataatgctggctgtgggtttgtcatagatggcttttattactttaaggtatgtcacttttatgctgattttgctgagggttttaatcataaagtgatgctggattttgtcaaatgctttttctgcatctgttgagatgatcatatgatttttcttttttacttctgtttatatggtgtatcacatttattaacttgcatgtgttaaagtatccctgtatccctggtatgaaacccgcttggttatggtg--tattttt--------tttttttttttttgatatgctattagattctgttacctaatattttgttgaggatttttgcatctatattcatcagggacattggtccgtagttttcttttttgttatgtcctttcctgactttggtattaaggtgatactggcttcatagaatgatttagggaggattttctcttcctctatcttttgaaatagtttcagtagaaattagtaccaattcctctttgaacgtctaatagaattcagctgtgaatccatctggtcctggacctatttgttggcaatgtttttattactgttccaatctcaccacttgttattggtctgttcagagtttctgtttcttcctggtttaatctaggagggttgtatatttccagtagtttattcacctcttcgaggttttctaatttgtgtgcagaaaggtgttcac---agtcttgaatgattttttgtttctgtggtatcagttttaatatctcctgttttatttctaattgagcttatttgtatcctctctcttcttgtttaattattgactttcaaaaaccttttcaaagaaccagcttt-tg--tttcatttatc-----ttttgta----------------------------------------------------t----tttttttttgcttcagtttcatttagttctgctctgatctttgttatttcttttcttttgctgggtttgtgtttgatttgttcttgtttctttacttccttaagatgtgagtttaggttgtctatttgtgccttttcaggcttttgatgtaggcatttaatactatgaactttcctcttagcgctgcttttgctatatcccagaggttttgataggttatgtcaccattatcattcagttcaaagaatttttaaattttcatcttgatttcattgttgtcccaaagatcattcaggagccaattatttaatttccatgtatttgtatagttttgaggattctttttggag-----tttcaatttttattccactgtggtctgagagagtgcttgatataacttcagttttcttaaatttattgagagttttttgtggcctatcatatggtctatcttggagaatgttctaggtgttgatgaatagtatgtatagtctacagttgttggatagaa--tgctctgtaaatatatgttaagtccatttg-tctgtgttatagtttaagtccattgtttctttgttgactttttgtcttgatgacctgtctagtgttgtcagtggagtattgaaatcccccactattattgtgttgccgtctaactgatttcttaggtctagtagtaattgttttataaatttgggagcttcactcttaggtgcatatatatttgggattgtgatattttcctgttggactaatctttttataattat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28368358 1673 +  82825804 aagtgagcatccttgtcttgttccagttctcagcagaaatgttttcaacgtttccccattcagtataatgctggctgtgggtttgtcatagatggcttttatttcttcaaggtatgtcacttttatgctgattttgctgagggttttaatcctaaagtgatgctggattttgtcaaatgctttttctgcatctgttgagatgatcatatgatttttcttttttacttctgtttatatggtgtatcacatttattaacttgcatatgttaaaccatccctgcatccctggtaggaaacccacttggttatggtg----tattt--------------tttttttgatatgctattagattctgttacctagtattttgttgaggatttttgcatctatattcatcagggatattggtccgtagttttcttttttgttatgtcctttcctgactttggtattaaggtgatactggcttcatagaatgatttagggaggattttctcttcctctatcttttggaatagtttcagtagaaattagtaccaattcctctttgaacgtctaataggattcaactgtgaatccttctggtcctggacctatttgttggcaatgtttttattactgttccaatctcaccacttgttattggtctgttcagactttctgtttcttcctggtttaatctaggagggttgtatatttccagtagtttattcacctcctcaaggttgtctaatttgtgtgcggaaaggtgttcac---agccttgaatgattttttgtttctgtggtatcagttttaatatctcctcttttatttctaaatgagcttatttgtatcctctctcttcttgtttaattattgactttcaaaaaacttttcaaagaaccagcttt-tg--tttcatttatc-----ttttgta----------------------------------------------------ttttttttttttttgcttcagtttcatgttgttctgctctgatctttgttatttcttttcttttgctgggtttgtgtttgatttgttcttgtttctttacttccttaagatgtgagtttagattgtctgtttgtgccttttcaggcttttgatgtaggcatttaatgctatgaactttcctcttagcactgcttttgctatatcccagaggttttgataggttatgtcaccattatcattcagttcaaagaatttttaaattttcatcttgatttcattgttgtcccaaagatcattcaggagccaattatttaatttccgtgtatttgtatagttttgaggattctttttggagttaattttcaatttttattccactgtggtctgagacagtgcttgatataacttcagttttcttaaatttattgagagttttttgtggtctatcatatggtctatcttggagaatgttctaggtgctgatgaatagaatatatattct--agttattgggtagaa--tgctctgtaaatatatgttaagtccatttg-tctgtgttatagtttaagtccattgtttctttgttgactttttgtcttaatgacctgtctagtgttgtcagtggagtattgaaatcccccactattattgtgttgccatctaactgatttcttaagtctagtactaattgttttataaatttgggagcttcactcttaggtgcatatatatttgggattgtgatatttttctgttggattaatctttttataattat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4037216 1679 -   4237731 aagcgagcatccttgtcttgttccagttctcagcggaaatgttttcaacgtttcctcattcagtataatgctggctgtgggtttgtcatagatggcttttattactttaaggtatgtcacttttatgctgattttgctgagggttttaatcataaagtgatgctggattttgtcaaatgctttttctgcatctgttgagatgatcatatgatttttcttttttacttccgtttatatggtgtatcacatttattaacttgcatatgttaaactatccctgtatccctggtatgaaacccacttggttatggtg----tattttatttatttatttatttttttgatatgctattagattctgttacctagtattttgttgaggatttttgcatctatattcatcagggatattggtccgtagttttcttttttgttatgtcctttcctgactttggtattaaggtgatactggcttcatagaatgatttagggaggattttctcttcctctatcttttgaaatagtttcagtagaaattagtaccaattcctctttgaacgtctaatagaattcagctgtgaatccatctggtcctggacctatttgttggcaatgtttttattactgttccaatctcaccacttgttattggtctgttcagagtttctgtttcttcctggtttaatctaggagggctgtatatttccagtagtttattcacctcttcgaggttttctaatttgtgtgcagaaaggtgttcac---agtcttgaatgattttttgtttctgtggtatcagttttaatatctcctgttttatttctaattgagcttatttgtatcctctctcttcttgtttaattactgactttcaaaaaccttttcaaagaaccagcttt-tg--tttcatttatc-----ttttgta---------------------------------------------------------tttttttttgcttcagtttcatttagttctgctctgatctttgttatttcttttcttttgctgggtttgtgtttgatttgttcttgtttctttacttccttaagatgtgagtttaggttgtctatttgtgccttttcaggcttttgatgtaggcatttaatactatgaactttcctcttagcgctgcttttgctatatcccagaggttttgataggttatgtcaccattatcattcagttcaaagaatttttaaattttcatcttgatttcattgttgtcctaaagatcattcaggagccaattatttaatttccatgtatttgtatagttttgaggattctttttggag-----tttcaatttttattccactgtggtctgagagagtgcttgatataacttcagttttcttaaacttattgagagttttttgtggcctatcatatggtctatcttggagaatgttctaggtcttgatgaatagtatgtatattctacagttgttggatagaa--tgctctgtaaatatatgttaagtccatttg-tctgtgttatagtttaagtccattgtttctttgttgactttttgtcttgatgacctgtctagtgttgtcagtggagtattgaaatcccccactattattgtgttgccgtctaactgatttcttaggtctagtagtaattgttttataaatttgggagcttcactcttaggtgcatatatatttgggattgtgatattttcctgttggactaatctttttataattat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      305778 1669 -   1175262 aagtgaacatccttgtcttgttccagttctcagcggaaatgttttcaacattttcccattcagtataatgctggctgtgggtttgtcatagatggcttttattactttaaggtatgtcacttttatgctgattttgctgaaggttttaatcataaagtgatgctggattttgccaaatgctttttctgcatctgttgagatgatcatatgatttttcttttttacttctgtttatatggtgtatcacatttattaacttgcatatgttaaaccatccctgcatccctggtgtgaaacccacttggttatggtg----tattt-------------tttttttttatatgctattagattctgttacctagtattttgttgaggatttttgcatctatattcatcagggatattggtccgtagttttcttttttgttatgtcctttcctgactttggcattaaggtgatactggcttcatagaatgatttagggaggattttctcttcctctatcttttgtaatagtttcagtagaaattagtaccaattcctctttgaacgtctaatagaattcagctgtgaatccatctggtcctggccctatttgttggcaatgttgttattactgttccaatctcaccacttgttattggtctgttcagagtttctgtttcttcctgctttaatctgggagggttgtgtatttccagtagtttattcacctcctcgaggttttctaatttgtgtgcagaaaggtgtccac---agtcttgaatgattttttgtttctgtggtatcagttttaatatctcctgttttatttctaattgagcttatttgtatcctctctcttcttgtttaattattgactttcaaaaaccttttcaaataaccagcttt-tg--tttcatttatc-----ttttg-----------------------------------------------------------tatttttttgcttcagttccatttagttctgctctgatctttgttatttcttttcttttgctgggtttgtgtttgatttgttcttgtttctttacttccttaagatgtgagtttagattgtctacctgtgccttttcaagcttttgatgtaggcatttaatgctatgaacgttcctcttagcactgcttttgctatatcccagaggttttgataggtcatgtcaccattatcattcagttcaaagaatttttaaattttcatcttgatttcattgttgtcccaaagatcattcaggagccacttatttaatttccatgtatttgtatagttttgaggattctttttggagttaattttcaatttttattccactgtggtctgagagtgtgcttgatataacttcagttttcttaaatttattgagagttttttgtggcctatcatatggtctatcttggagaatgttctaggtgctgatgaatagaatgtatattctacagttgttgggtagaa--tgctctgtaaataaatgttaagtccatttg-tctgtgttatagtttaagtccattgtttctttgttgactttttgtcttgatgacctgtctagtattgtcagtggagtattgaaatcccccactattattgtgttgccgtctaactgatttcttaggtctagtagttgttgttttataaatttgggagcttcactcttaggtgcatatatatttgggattgtgatattttcctgttggactaatctttttataattat
i colAng1.NW_012119644v1   C 0 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201  866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e aotNan1.NW_018505940v1    13196241 2863 -  42888418 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e saiBol1.JH378106          55694922 4292 -  71252344 I
e calJac3.chr2             123647945 6278 - 204313951 I

a score=-437.000000
s hg38.chr5_KI270796v1_alt     76075 9 +    172708 -----ataatgttc
s panTro5.chr5             125186161 9 + 181907262 -----ataatgttc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126523035 9 + 183735486 -----ataatgttc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1714600 9 +   8933513 -----ataatgttc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139845378 9 + 163208435 -----ataatgttc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122834172 5 + 180051392 -----ataa----t
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124257795 5 + 181584905 -----ataa----t
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16255849 6 +  18395747 -----ataa---tt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5267828 7 +  26952557 -----ataa--ttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28370031 6 +  82825804 -----ataa---tg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4038895 6 -   4237731 -----ataa---tt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      307447 6 -   1175262 -----ataa---tg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123654223 9 - 204313951 ATATTACAc-----
i calJac3.chr2             I 6278 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e aotNan1.NW_018505940v1    13196241 2863 -  42888418 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e saiBol1.JH378106          55694922 4292 -  71252344 I

a score=75215.000000
s hg38.chr5_KI270796v1_alt     76084 11 +    172708 ttctttgtcct
s panTro5.chr5             125186170 11 + 181907262 ttctttgtcct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126523044 11 + 183735486 ttctttgtcct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1714609 11 +   8933513 ttctttgtcct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139845387 11 + 163208435 ttctttgtcct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122834177 11 + 180051392 ttttttgtctt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124257800 11 + 181584905 ttttttgtctt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16255855 11 +  18395747 ttttttgtctt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5267835 11 +  26952557 ttttttgtctt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28370037 11 +  82825804 ttttttgtctt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4038901 11 -   4237731 ttttttgtctt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      307453 11 -   1175262 ttttttatctt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123654232 11 - 204313951 ctctttgtctc
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107590v1        1111 11 -   3089952 Ttctttatctt
i cebCap1.NW_016107590v1   N 0 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e aotNan1.NW_018505940v1    13196241 2863 -  42888418 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e saiBol1.JH378106          55694922 4292 -  71252344 I

a score=8633215.000000
s hg38.chr5_KI270796v1_alt     76095 1086 +    172708 ttttcactgttattgcattaaagtccattttgtctcacataagaatagctactcctcctcacttttggtttccatttgcgtgaaatatctttctccatccctttaccttaagtctatgtgagtccttatgcgttaggtgagtcccttcaagatagcagatacttggttggtagaatttatccactctgccattctgtatcttttaagtggggcatttaggtcatttacattcaatgttactactgagataggaggtactgttctat---tcatgctagttattgcctgaacatc--------tt------tttttttccc-cattgtgttactgtttcataggccctgtgaaa-tttatgctttcaggaggtcctattttggtgtatttccagg----------------------------------------------------------ttttgtttcaagatttaggacccgttttagcattgcttg--tagtgctggcctggtagtggcaaagtctctcagcatttgtttgtctgaaaaagactttatctctccttcatttgtgaagtgtaatttttctggatacaaaattcttggctggcaattattttgtttgaggaggctaaagattggactccaatcccttctggcttgagggtttctactgagaaatatgctgttaatcagataagttttcctttagaagttac------cttttgcctcacagatcttacgattctttcctttgtcttgactttagataacctgatgactgtgtgcccaggcaatgatctttttgtggtgaatttcccgggtattctttgagcttctggtatttggatgtctagatctctagcaagcccagcgaagttttccttgattatttcctcaaataagttttctgaacttgtagatatttctttttcttcctcatgaacaccaattattcttatgtttggtcatttgacataatctcaaattta-tggaggcttt-gttcattttctaaaa---atttagttttctttgtctgtgttggattgggttaattcaaaaggcttgtcttcgagctctgaagttctttcttccacttgtttgattctattgttgaaattttccagtgtattttgtatttctctaagtgtgtctttcatttctagaagttgtgat
s panTro5.chr5             125186181 1087 + 181907262 ttttcactgttattgcattaaagtccattttgtctcatataagaatagctactcctcctcacttttggtttccatttgcgtgaaatatctttctccatccctttaccttaagtctatgtgagtccttatgcgttaggtgagtcccttcaagatggcagatacttggttggtagaatttatccactctgccattctgtatcttttaagtggggcatttaggtcatttacattcaatgttactactgagataggaggtactgttctat---tcatgctagttattgcctgaacatct------ttt------ttttttttcc-cattgtgttactgtttcataggccctgtgaaa-tttatgctttgaggaggtcctattttggtgtatttccagg----------------------------------------------------------ttttgtttcaagatttaggaccccttttagcattgcttg--tagtgctggcctggtagtggcaaagtctctcagcatttgtttgtctgagaaagactttatctctccttca-ttgtgaagtgtaatttttctggatacaaaattcttggctggcaattattttgtttgaggaggctaaagattggactccaatcccttctggcttgagggtttctactgagaaatctgctgttaatcagataagttttccttcagaagttac------cttttgcctcacagatcttacgattctttcctttgtcttgactttagataacctgatgactgtgtgcccaggcgatgatctttttgtggtgaatttcccgggtattctttgagcttctggtatttggatgtctagatctctagcaagcccggcgaagttttccttgattatttcctcaaataagttttctgaacttgtagatatttctttttcttcctcatgaacaccagttattctaatgtttggtcatttgacataatctcagattta-tggaggcttt-gttcattttctaaaa---atttagttttctttgtctgtgttggattgggttaattcaaaaggcttgtcttcgagctctgaagttctttcttccacttgtttgattctattgttgaaattttccagtgtattttgtatttctctaagtgtgtctttcatttctagaagttgtgat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126523055 1086 + 183735486 ttttcactgttattgcattaaagtccattttgtctcatataagaatagctactcctcctcacttttggtttccatttgcgtgaaatatctttctccatccctttaccttaagtctatgtgagtccttatgcgttaggtgagtcccttcaagatagcagatacttggtgggtagaatttatccactctgccattctgtatcttttaagtggtgcatttaggtcatttacattcaatgttactactgagataggaggtactgttctat---tcatgctagttattgcctgaacatc-------ttt------ttttttttcc-cattgtgttactgtttcataggccctgtgaaa-tttatgctttgaggaggtcctattttggtgtatttccagg----------------------------------------------------------ttttgtttcaagatttaggaccccttttagcattgcttg--tagtgctggcctggtagtggcaaagtctctcagcatttgtttgtctgagaaagactttatctctccttca-ttgtgaagtgtaatttttctggatacaaaattcttggctggcaattattttgtttgaggaggctaaagattggactccaatcccttctggcttgagggtttctactgagaaatctgctgttaatcagataagttttccttcagaagttac------cttttgcctcacagatcttacgattctttcctttgtcttgactttagataacctgatgactgtgtgcccaggcgatgatctttttgtggtgaatttcccgggtattctttgagcttctggtatttggatgtctagatctctagcaagcccggcgaagttttccttgattatttcctcaaataagttttctgaacttgtagatatttctttttcttcctcatgaacaccagttattctaatgtttggtcatttgacataatctcagattta-tggaggcttt-gttcattttctaaaa---atttagttttctttgtctgtgttggattgggttaattcaaaaggcttgtcttcgagctctgaagttctttcttctacttgtttgattctattgttgaaattttccagtgtattttgtatttctctaagtgtgtctttcatttctagaagttgtgat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1714620 1084 +   8933513 ttttcactgttattgcattaaagtccattttgtctcatataagaatagctactcctcctcacttttggttt-catttgcatgaaatatctttctccatccctttaccttaagtctatgtgagtccttatgcattaggtgagtcccttgaagatagcagatacttggttggtggaatttatccagtctgccattctgtatcttttaagtggggcatttaggtcatttacattcaatgttactactgagataggaggtactgttctat---tcatgctagttattgcctgaacatct------ttt------ttttttttcc-cattgtgttactgtttcataggccctgtgaaa-tttatgctttgaggaggtcccattttggtgtatttccagg----------------------------------------------------------ttttgtttcaagttttaggaccccttttagcattgcttg--tagtgct-gcctggtagtggcaaagtctctcagcatttgtttgtctgaaaaagac--tatctctccttcatttgtgaagtgtaatttttctggatacaaaattcttggctggcaattattttgtttgaggaggctaaagattggactccaatcccttctggcttgagggtttctactgagaaatctgctgttaatcagataagttttccttcagaagttac------cttttgcctcacagatcttacgattctttcctttgtcttgactttagataacctgatgactgtgtgcccaggcgatgatctttttgtgatgaatttcccgggtattctttgagcttctggtatttggatgtctagatctctagcaagcccagcgaagttttccttgattatttcctcaaataagttttctgaacttgtagatatttctttttcttcctcatgaacaccaattattcttatgtttggtcatttgacataatctcaaattta-tggaggcttt-gttcattttctaaaa---atttagttttctttgtctgtgttgtattgggttaattcaaaaggcttgtcttagagctctgaagttctttcttccacatgtttgattctattgttgaaattttccagtgtattttgtatttctctaagtgtgtctttcatttctagaagttgtgat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139845398 1059 + 163208435 ttttcattgttgttgcattaaagtccattttgtctcatataagaataactattcctcctcacttttggtttccatttgcatgaaatatctttctccatccctttaccttaagtctttgtgagtccttatgtgttaggtgagtgccttgaatatagcagatacttgat-ggtagaatttatccactctgccattctatatcttttaagtggggcatttaggtcatttacattcaatgttacta--------------------ctat---tcatgctagttattgcctgaatacc---------t------tttttttccc-cattgtgttactgtttcataggccctgtgaaa-tttatgctttgaggaggtcctatttaggtgtatttccagg----------------------------------------------------------ttttgtttcaagatttaggaccccttttagcactgctcg--tggtgctggcctggtagtggcaaagtctctcagcatttgtttgtctgaaaaagactttatctctccttcatttgtgaagtgtagtttttctggatacaaaattcttggctggcaattattttgtttgaggaggctaaagattggactccaatcccttctggcttgagggtttctactgagaaatctgctgttaatcagttaagttttcctttagaagttac------cttttgcctcacagatcttatgattct----tttgtcttgactttagataacctgatggctatgtgctcaggtgatgatctttttgtggtgaatttcccgagtattctttgagcttctggtatttggatgtctacatctctagcaagcccagggaagttttccttaattatttcctcaaaaaag-tttcagaacatgtagatatttctttttcttcctcatgaacaccaattattcttatgtttggtcatttaacataatctcaaattta-tggaggcttt-gttcattttttaaaa---atttagttttctttgtctgtgttggattgggttaattcaaaaggcttgtcttcaagctctgaagttctttcttccacttgtttgattcttttgttgaaattttccagtgtattttatatttctctaagtgtgtctttcatttctagaagttgtgat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122834188 1076 + 180051392 ttttcactgttgttgctttaaagcctattttatctcatataagaatagctactcctcctcacttttggtttccatttacaagaaatatctttctccatccctttaccttaagtctttgcgagtccttatgcattaggtgagtcccttgaagatagcagatacttggttggtggaatttatccactctgccattctgtatcttttaagtggggcatttaaatcatttacattcaatgttagtactgagatgtgaggtactgttctattcatcatgctagttgttgcctgaatacattgtg--tgt------gtgtgtgttt-cattgtgttactgttttataggctctgtgaaa-tttttgctttgaggaggttccatttttgtgtatttccagg----------------------------------------------------------ttttgtttcaagatttaggactccttttagcattgcttg--tagttctggcttggtagtggcaaagtctctcagca----tttgtctgaaaaagactttatctctccat---ttatgaagtgtaa-gtttctggatataaaattcttggctggcaattattttgtttgaggaggctaaagattggactccaatccc-tttggcttgagggtttctactgagaaatctgctgttaatcagataagttttcctttataagttac------cttttgcctcacagatcttaagattctttcctttgtcttgactttagataacctgatggctatgtgcccaggtgatgatctttttgtgattaatttcctgggtgttctttgagattctggtatttgaatgtctagatctctagtaagcccagggaagttttccttgattatttcctcaaataagtttaccaaacatgtaca---ttttttttcttcctcatgaacaccagctattgttatgtttggtcatttaacataatctcaaatttcttagaggcttt-gttcatttttaaaaa---attcatttttctt----tgtgttggattgggttaaatcaaaaggcttgtctttgagctctgaagttccttcttccac----ttgattctattgtggaaaatttccagtgtattttgtatttctctaagggtacctttcatttctagaagttgtgat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124257811 1076 + 181584905 ttttcactgttgttgctttaaagcctattttatctcatataagaatagctactcctcctcacttttggtttccatttacaagaaatatctttctccatccctttaccttaagtctttgcgagtccttatgcattaggtgagtcccttgaagatagcagatacttggttggtggaatttatccactctgccattctgtatcttttaagtggggcatttaaatcatttacattcaatgttagtactgagatgtgaggtactgttctattcatcatgctagttgttgcctgaatacattgtg--tgt------gtgtgtgttt-cattgtgttactgttttataggctctgtgaaa-tttttgctttgaggaggttccatttttgtgtatttccagg----------------------------------------------------------ttttgtttcaagatttaggactccttttagcattgcttg--tagttctggcttggtagtggcaaagtctctcagca----tttgtctgaaaaagactttatctctccat---ttatgaagtgtaa-gtttctggatataaaattcttggctggcaattattttgtttgaggaggctaaagattggactccaatccc-tttggcttgagggtttctactgagaaatctgctgttaatcagataagttttcctttataagttac------cttttgcctcacagatcttaagattctttcctttgtcttgactttagataacctgatggctatgtgcccaggtgatgatctttttgtgattaatttcctgggtgttctttgagattctggtatttgaatgtctagatctctagtaagcccagggaagttttccttgattatttcctcaaataagtttaccaaacatgtaca---ttttttttcttcctcatgaacaccagctattgttatgtttggtcatttaacataatctcaaatttcttagaggcttt-gttcatttttaaaaa---attcatttttctt----tgtgttggattgggttaaatcaaaaggcttgtctttgagctctgaagttccttcttccac----ttgattctattgtggaaaatttccagtgtattttgtatttctctaagggtacctttcatttctagaagttgtgat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16255866 1076 +  18395747 ttttcactgttgttgctttaaagcctattttatctcatataagaatagctactcctcctcacttttggtttccatttacaagaaatatctttctccatccctttaccttaagtctttgcgagtccttatgcattaggtgagtcccttgaagatagcagatacttggttggtggaatttatccactctgccattctgtatcttttaagtggggcatttaaatcgtttacattcaatgttagtactgagatgtgaggtactgttctattcatcatgctagttgttgcctgaatacattgtg--tgt------gtgtgtgttt-cattgtgttactgttttataggctctgtgaaa-tttttgctttgaggaggttccatttttgtgtatttccagg----------------------------------------------------------ttttgtttcaagatttaggactccttttagcattgcttg--tagttctggcttggtagtggcaaagtctctcagca----tttgtctgaaaaagactttatctctccat---ttatgaagtgtaa-gtttctggatataaaattcttggctggcaattattttgtttgaggaggctaaagattggactccaatccc-tttggcttgagggtttctactgagaaatctgctgttaatcagataagttttcctttataagttac------cttttgcctcacagatcttaagattctttccttggtcttgactttagataacctgatggctatgtgcccaggtgatgatctttttgtgattaatttcctgggtgttctttgagattctggtatttgaatgtctagatctctagtaagcccagggaagttttccttgattatttcctcaaataagtttaccaaacatgtaca---ttttttttcttcctcatgaacaccagctattgttatgtttggtcatttaacataatctcaaatttcttagaggcttt-gttcatttttaaaaa---attcatttttctt----tgtgttggattgggttaaatcaaaaggcttgtctttgagctctgaagttccttcttccac----ttgattctattgtggaaaatttccagtgtattttgtatttctctaagggtacctttcatttctagaagttgtgat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5267846 1075 +  26952557 ttttcactgttgttgctttaaagcctattttatctcatataagaatagctactcctcctcactttcggtttccatgtacaagaaatatctttctccatccctttaccttaagtctttgcgagtccttatgcattaggtgagtcccttgaagatagcagatacttggttggtggaatttatccactctgccattctgtgtcttttaagtggggcatttaaatcatttacatttaatgttagtactgagatgtgaggtactgttctattcatcatgctagttgttgcctgaatacattgtg--tgt------gtgtgtgttt-cattgtattactgttttataggctctgtgaaa-tttttgctttgaggaggttccatttttgtttatttccagg----------------------------------------------------------ttttgtttcaagatttaggactccttttagcattgcttg--tagttctggcttggtagtggcaaagtctctcagca----tttgtctgaaaaagactttatctctccat---ttatgaagtgtaa-gtttctggatataaaattcttggctggcaattattttgtttgaggaggctaaagattggactccaatccc-tttggcttgagggtttctactgagaaatctgctgttaatcagataagttttcctttataagttac------cttttgcctcacagatcttaagattctttcctttgtcttgactttagataacctgatggctatgtgcccaggtgatgatctttttgtgattaatttcctgggtgttctttgagattctggtatttgaatgtctagatctctagtaagcccagggaagttttccttgattatttcctcaaataagtttaccaaacatgtaca----tttttttcttcctcatgaacaccagctattgttatgtttggtcatttaacataatctcaaatttcttagaggcttt-gttcattttttaaaa---attcatttttctt----tgtgttggattgggttaaatcaaaaggcttgtctttgagctctgaagttctttcttccac----ttgattctattgtggaaaatttccagtgtattttgtatttctgtaagggtatctttcatttctagaagttgtgat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28370048 1082 +  82825804 ttttcactgttgttgcgttaaagcgtattttatctcatataagaatagctactcctcctcacttttggtttccatttacaagaaatatctttctccatccctttaccttaagtctttgtgagtccttatgcgttaggtgagtctcttgaagatagcaggtacttggttggtggaatttatccccattgccattctgtatcttttaagtggggcatttaaataatttacattcagtgttagtactgagatgtgaggtactgttctattcatcatgctagttgttgcctgaatacattgtg--tgt--atgggtgtgttttt-cattgtgttactgttttataggctctgtgaaa-tttttgctttgaggaggttccatttttgtgtatttccagg----------------------------------------------------------ttttgtttcaagatttaggactccttttagcattgcttg--tagttctggcttggtagtggcaaagtctctcagca----tttgtctgaaaaagactttatccctccgt---ttatgaagtgtag-gtttatggatataaaattcttggctggcaattattttgtttgaggaggctaaagattggactccaatcccttttggcttgagggtttctactgagaaatctgctgttaatcagataagttttcctttataagttac------cttttgcctcacagatcttaagattctttcctttgtcttgactttagataacctgatggctatgtgcccaggtgatgatctttttgtgattaatttcctgggtattctttgagattctggtatttgaatgtctagatctctagcaagcccagggaagttttccttgattatttcctcaaataagttttccaaacatgtaaa--tttttttttcttcctcatgaacaccagctattgttatgtttggccatttaacataatctcaaatttcttagaggcttt-gttcattttttaaaa---attcatttttctt----tgtgttggattgggttaaatcaaaagacttgtctttgagctctgaagttctttcttccac----ttgattctattgtggaaaatttccagtgtattttgtatttctctaagggtatctttcatttctagacgttgtgat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4038912 1078 -   4237731 ttttcactgttgttgctttaaaacctattttatctcatataagaatagctactcctcctcacttttggtttccatttacaagaaatatctttctccatccctttaccttaagtctttgcgagtccttatgcattaggtgagtcccttgaagatagcagatacttggttggtggaatttatccactctgccattctgtatcttttaagtggggcatttaaatcatttacattcaatgttagtactgagatgtgaggtactgttctattcatcatgctagttgttgcctgaatacattgtg--t--------gtgtgtgttt-cattgtgttactgttttataggctctgtgaaa-tttttgctttgaggaggttccatttttgtgtatttccagg----------------------------------------------------------ttttgtttcaagatttaggactccttttagcattgcttg--tagttctggcttggtagtggcaaagtctctcagca----tttgtctgaaaaagactttatgtctccat---ttatgaagtgtaa-gtttctggatataaaattcttggctggcaattactttgtttgaggaggctaaagattggactccaatccc-tttggcttgagggtttctactgagaaatctgctgttaatcagataagttttcctttataagttac------cttttgcctcacagatcttaagattctttcctttttcttgactttagataacctgatggctatgtgcccaggtgatgatctttttgtgattaatttcctgggtattctttgagattctggtatttgaatgtctagatctctagtaagcccagggaagttttccttgattatttcctcaaataagtttaccaaacatgtaca---ttttttttcttcctcatggacaccagctattgttatgtttggtcatttaacataatctcaaatttcttagaggcttt-gttcatttttaaaaa---attcatttttctttgtctgtgttggattgggttaaatcaaaaggcttgtctttgagctctgaagtcctttcttccac----ttgattctattgtggaaaatttccagtgtattttgtatttctctaagggtatctttcatttctagaagttgtgat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      307464 1089 -   1175262 ttttcactgttgttgctttaaagcctattttatctcatataagaatagctactcctcctcacttttggtttccatttacaagcaatatctttctccatccttttaccttaagtctttgtgagtccttatgcattaggtgagtcccttgaagatagcagatacttggttggtggaatttatccattctgccattctgtatcttttaaacagggcatttaaatcatttacattcaatattagtactgagatgtgaggtactgttctattcatcattctagttgttgcctgaatacattgtg--tgtgtgtgtgtgtgtgttt-cattgtgttactgttttataggctctgtgaaa-tttttgctttgaggaggttccatttttgtgtatttccagg----------------------------------------------------------ttttgtttcaagatttaggactccttttagcattgcttg--tagttctggcttggtagtggcaaagtctctcagca----tttgtctgaaaaagactttatctctccat---ttatgaagcgtag-gtttctggatataaaattcttggctggcaattattttgtttgagaacgctaaagattggactccagtcccttttggcttgggagtttctactgagaaatctgctgttaatcagataagttttcctttataagttac------cttttgcctcacagatcttaagattctttcctttgtcttgactttagataacctgatggctatgtgcccaggtgatgatctttttgtgattaatttcctgggtattatttgagattctggtatttgaatgtctagatctgtagcaagcccagggaagttttccttgattatttcctcaaataagttttccaaacatgaaat--tttttttttcttcctcgtgaacaccagctattgttatgtttggtcatttaacataatctcaaacttcttagaggctttggttcagtttttaaaa---atgcatttttctttgtctgtgttggattgggttaaatcaaaaggcttgtctttgagctctgaagttctttcttccac----ttgattccattgtggaaaatttccagtgtattttgtatttctctaagggtatctttcatttctagaagttgtgat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123654243 1094 - 204313951 tttttactgttgttgctttaaagtctattttgtttcacataagaatagctactcctgctcacttttgatttccatttgcatgaaatatctttttccatccttttaccttaagcttatgtgagtccttatgcattagatgagtcccttgaagatagcaaatacttggttggtggaatttatccactctgccattctgtatcttttaagtggggcatttaggccatttacattcaatgttcgtattgaaatgtgaggtactatgctattcgtcatgttagttgttgcctgaataccttgtgttgtt------attttttttt-cattgtgttactgttttataggctctgtgaaa-tttatgctttgaggaggttccattttggtgtatttccagttt--------------------------------------------------------ctttcccccaagatttaggactccttttagcattgcttctatagtgctggcttggtaatgttaaagtctctcagcatttgtttgtctgaaaaagccttaatctctcctt---gattgaagtgtagtttttctgcatacaaaattcttggctgacaattattttgtttgaggaggctaaagattggactccaacctattctggcttgagggtttctactgagaaaactgctgttaatgaggtaagttttcctctttaagttatctgatgcttttgcctcacagatcttaagattttctcctttgtcttgactttagataacctgatgattatgtgcccaggtgatgttctatttgtgatgaatttcccaagtattctttgagctt---gtatttggatgtctagatctctagcaagcccagggacgttttcctcaattatttcctcaaatacattttctgaacttgtagg--gtgttttttcatccccataaacaccaattattcttatgtttggtcatttaacgtaaacttatattttgttgagacttt-gttcattttttaaaa---attagtttgtctt----tgtgttgtattgggttaattcaaggggtttgcctttgagctctgaagttctt--ttttacttgttcaattctattattgaaagtttccagtgtattttgtatttctctaagtgtgtctttcatttctaggagttatgat
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107590v1        1122 1130 -   3089952 tttttactgttgttgctttgaagtctattttgtttcatataggaatagctactcctgttcacttttgatttccatttgcatgaaatctctttttccatccttttaccttaagcttatgtgagtccttatgcattagatgagttccttgatgatagcaaatacttggttgttggaatttatccactctgtcattctgtatcttttaagtggggcatttaggtcatttacatttaatgttagtattgagatgtg------tgttcttttcatcatgttagttgttgcctgaataccttgtggtggt------gtttttttttccattgtgttactgttttataggccctgtgaaattttatgctttgaggaggttccattttggtgtatttccttttttttttttttttttttntttatgctttagggaagttctatttaggtgtatattgaggttttttttcaagatttaggactccttttagcattgcttgtatagtgctggcttggtagtagcaaattctctcagca----tctgtctgaaaaagactttatctctcctt---cattgaagtgtagtttttctgcatacaaaattcttggctggcaattattttgtttgaggaggttaaagattggactccaacctattctggcttgagggtttctactgagaaatctactgttaatcagatacgttttcctttgtaagttacctgatgctttcgcctcacagatcttaagattttctcccttgtcttgactttggataacctgatgattatgtgcccaggtgatgttctttttgtgatgaatttcctgagtattctttgagctt---gtatttggatgtctagatctctagcaagcacagggaagttttcctcaaat--------aaat---ttttctgaacttgtagg----tttttttcgtcctcatgaacaccaattattcttatgtttggtcatttaacgtaatctcatatttcttggaggtttt-gttcatttttaaaaa---tttttttcttgtc----tgtattgtattgggttaattcaagaggtttgcctttgagctctgaagttctta-ttttacttgttcaattctattattgaaaatttccagtgtattttgaatttctctaagtgtgtctttcatttatagaagttatgac
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13199104 1085 -  42888418 tttttactgttgttgctttaaagtctattttgtttcatataagaatagctactcttgctcacttttgatttccatttgcatgaaatctcttttttcatccttttaccttaagcttatgtgagtccttatgcattaaatgagtcccttgaggatagcaaatacttggttggtggaatttatccactttgctattctgtatcttttaagtggggcatttaggctatttacattcaatgttagtattgagatgtgaggtactgttctattcatcatgttggttgttgcctgaataccttgtggtggt------gttttttttttcattatgttactgttttataggccctgtgaaa-tttatgctttgaggaggttccattttggtgtatttccagtttttt-----------------------------------------------------ttttttcccaagatttaggactccttttagcattgcttgtatagtgctggcttggtagtggcaaattctctcagca----tctgtctgaaaaagcctttatctcttctt---cattgaagtgtagtttttctgcatacaaaattcttggctggcaattattttgtttgaagaggctaaagattggactccaacctattctggcttgagggtttctactgagaaatctgctgttaatcagataagttttcctttataagttagctgatgcttttgcctcacagatcttaagattttctcctttgtcttgactttagataacctgatgattatgtgcccaggtgatgttctttttgcgatgaatttcctgagtattctttgagctt---gtatttggatgtctagatctctagcaagcccagggaagttttcctcaaat--------aaat---ttttctgaacttgtagg----tttttttcgtcctcatgaacaccaattattcttatgtttggtcgtttaacataatctcatatttcttgaaggcttt-gttcattttttaaaaattattttttcttgtc----tgtgttgtattgggttaattcaagaggtttgcctttgagctctgaagttcttg-ttttacttgttcagttctattattgaaaatttccagtgtattttgtatttctctaagtgtgtctttcatttctagaagttatgac
i aotNan1.NW_018505940v1   I 2863 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201  866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I
e saiBol1.JH378106          55694922 4292 -  71252344 I

a score=17756184.000000
s hg38.chr5_KI270796v1_alt     77181 1836 +    172708 tgtcttttctttatgtctatttctctaaagactttttcaatcatatcctatattgttttttgaag----ttaagt-tgattttcacctttctctagtaactccttgagtagcttaata---aacctgctgaattcttcatctggcaattcagagagttcttcttggtt---------tagctagtgtgatcttttggggtgttatagaacctttttttttttttcatgttatcagaattacttttctggttccttctcatttgggtcgactctttcaatggaaagatttggaactcaagggctgctgttcagatttttatgtcccaagtggtgatcccttaatgtggtgctctctcccttcccctagggatggtgcttcctgagagctggactgcagtggttgttactgtgcttctgagtctacccacccagtggggctactgggctctggattgttgttgcagaatgtctgcaaagaatcctgttatatgattcatattcggatctcccagccatggataccagcacctactccagtggaggtggcaggggagtgaagttgactttttggaattccttgattgtagttttgttcagtgtgctggtttttctcaaatgctggttatgctagcagtcaaattgtcacatggacagactcaggacctctgataagccaggatgttgcaggcagtgaaattagctgttgttttcttcttccttggggcagggttgttcttgtatgagttgctgtaatggcttgagttggttagcctcc---------------agccaggaggtggtgctttcaagagagcac---cagctgtgatagtagaaaggagatacaagcttaccctatgttggctagaataagtatttgggtttctcaggtgatgggcagggccatagagctcccaagag--tttatgtcttttgtctttgtctactagggcagtaaaccatcaggttggggcagggttaggtgggtctgaacaaaaactcaccttaggcagtgcttgctgtggccactgtgggggat--gggaggtgcttctcaggccaatgaagttatgttccaa-gggggttatagctgcctctgctgcatcatacaagtcaccagggatgtgtgggaaagccagcagtgacaggcctcaccctgctcccacacagccagcaaggccagtctttctcctg-ctgtgccctaccaggaagctgtgcagggctgaaatcttgccccaggctacaagcttccccactgagaaagcaagtagggctctcaggcctctcccctccctaacttcccacactgtcagctgtggcttctgcactcctatctgcacttcccattcactcccctggattctgcttagaaaaa-tttgtgctcagtcaaaaattattaaagctcagctagaagtttccttcaccctgtggcccctcccctgttctgctggcttcc------tccccaagggctgctctgagataaagccagggatggcttccctgggctcaagctcaggaccaggagtgcctacagggctcttcccgctgcttcttctactttcatattttgcttggctccctgaatctgtttcagctctaggtaaggttacatctttctctcatgatctggatttttaggttcccctgtggggatgtgtgttcagatacagacttttccctctcttcacactttgagaactcacagtttttcagctgtcttgaagtttgcagcagcaagcctcttctttcaaagggtctgtgaattctttcagttttcctgttatgttcctgctgtagttcttggagcaaaggttcatgatgtgagtctccacatgctgttctatttgtccaagtgggagctgcacattagtcctgt
s panTro5.chr5             125187268 1834 + 181907262 tgtcttttctttatgtctatttctctaaagactttttcaatcatatcctatattgttttttgaag----ttaagt-tgattttcacctttctctagtaactccttgagtagcttaata---aacctgctgaattcttcatctggcaattcagagagttcttcttggtt---------tagctagtgtgatcttttggggtgttatagaacc--tttttttttttcatgttatcagaattacttttctggttccttctcatttgggtagactctttcaatggaaagatttggaattcaagggctgctgttcagatttttatgtcccaagtggtgatcccttaatgtggtgctctctcccttcccctagggatggtgcttcctgagagctggactgcagtggttgttactgtgcttctgagtctacccacccagtggggctactgggctctggattattgttgcagaatgtctgcaaataatcctgttatatgattcatattcggatctcccagccatggataccagcacctactccagtggaggtggcaggggagtgaagttgactttttggaattccttgattgtagttttgttcagtgtgctggtttttctcaaatgctggttatgctagcagtcaaattgtcacatggacagactcaggacctctgataagccaggatgttgcaggcagtgaaattagctgttgttttcttcttccttggggcagggttgttcttgtatgagttgctgtaatggcttgagttggttagcctcc---------------agccaggaggtggtgctttcaagagagcac---cagctgtgatagtagaaaggagatacaagcttaccctatgttggctagaataagtatttgggtttctcaggtgatgggcagggccatagagctcccaagag--tttatgtcttttgtctttgtctaccagggcagtaaaccatcaggttggggcagggttaggtgggtctgaacaaaaactcaccttaggcagggcttgctgtggccactgtgggggat--gggaggtgcttctcaggccaatgaagttatgttccaa-gggggttatagctgcctctgctgcatcatacaagtcaccagggatgtgtgggaaagccagcagtgacaggcctcaccctgctcccacacagccagcaaggccagtctttctcctg-ctgtgccccaccaggaagctgtgcagggcagaaatcttgccccaggctacaagcttccccactgagaaagcaagtagggctctcaggcctctcccctccttaacttcccgcactgtcagctgtggcttctgcactcctatctgcacttcccattcactcccctggattctgcttagaaaaa-tttgtgctcagtcaaaaattattaaagcttagctagaagtttccttcaccctgtggcccctcccctgttctgctggcttcc------tccccaagggctgctgtgagataaagccagggatggcttccctgggctcaagctcaggactaggagtgcctacagggctcttcccgctgcttcttctactttcatattttgcttggctccctgaatctgtttcagctctaggtaaggttacatctttctctcatgatctggatttttaggttccccagtggggatgtgtgttcagagacagacttttccccctcttcacactttgagaactcacagtttttcagctgtcttgaagtttgcagcagcaagcctcttctttcaaagggtctgtgaattctttcagttttcctgttatgttcctgctgtagttcttggagcaaaggttcatgatgtgagtctccacatgctgttctatttgtccaagtgggagctgcacattagtcctgt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126524141 1833 + 183735486 tgtcttttctttatgtctatttctctaaagactttttcaatcatatcctatattgttttttgaag----ttaagt-tgattttcacctttctctagtaactccttgagtagcttaata---aacctgctgaattcttcatctggcaattcagagagttcttcttggtt---------tagctagtgtgatcttttggggtgttatagaacc---ttttttttttcatgttatcagaattacttttctggttccttctcatttgggtagactctttcaatggaaagatttggaattcaagggctgctgttcagatttttatgtcccaagtggtgatcccttaatgtggtgctctctcccttcccctagggatggtgcttcctgagagctggactgcagtggttgttactgtgcttctgagtctacccacccagtggggctactgggctctggattgttgttgcagaatgtctgcaaataatcctgttatatgattcatattcggatctcccagccatggataccagcacctactccagtggaggtggcaggggagtgaagttgactttttggaattccttgattgtagttttgttcagtgtgctggtttttctcaaatgctggttatgctagcagtcaaattgtcacatggacagactcaggacctctgataagccaggatgttgcaggcagtgaaattagctgttgttttcttcttccttggggcagggttgttcttgtatgagttgctgtaatggcttgagttggttagcctcc---------------agccaggaggtggtgctttcaagagagcac---cagctgtgatagtagaaaggagatacaagcttaccctatgttggctagaataattatttgggtttctcaggtgatgggcagggccatagagctcccaagag--tttatgtcttttgtctttgtctaccagggcagtaaaccatcaggttggggcagggttaggtgggtctgaacaaaaactcaccttaggcagggcttgctgtggccactgtgggggat--gggaggtgcttctcaggccaatgaagttatgttccaa-gggggttatagctgcctctgctgcatcatacaagtcaccagggatgtgtgggaaagccagcagtggcaggcctcaccctgctcccacacagccagcaaggccagtctttctcctg-ctgtgccccaccaggaagctgtgcagggcagaaatcttgccccaggctacaagcttccccactgagaaagcaagtagggctctcaggcctctcccctccttaacttcccacactgtcagctgtggcttctgcactcctatctgcacttcccattcactcccctggattctgcttagaaaaa-tttgtgctcagtcaaaaattattaaagctcagctagaagtttccttcaccctgtggcccctcccctgttctgctggcttcc------tccccaagggctgctgtgagataaagccagggatggcttccctgggctcaagctcaggactaggagtgcctacagggctcttcccgctgcttcttctactttcatattttgcttggctccctgaatctgtttcagctctaggtaaggttacatctttctctcatgatctggatttttaggttccccagtggggatgtgtgttcagagacagacttttccccctcttcacactttgagaactcacagtttttcagctgtcttgaagtttgcagccgcaagcctcttctttcaaagggtctgtgaattctttcagttttcctgttatgttcctgctgtagttcttggagcaaaggttcatgatgtgagtctccacatgctgttctatttgtccaagtgggagctgcacattagtcctgt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1715704 1831 +   8933513 tgtcttttctttatgtctatttctctaaagactttttcaatcatatcctatattgttttttgaag----ttaagt-tgattttcacctttctctagtaactccttgagtagcttaata---aacctgctgaattcttcaactggcaattcagagaattcttcttggtt---------tagctagtgtgatcttttggggtgttatagaacc----tttttttttcatgttatcagaattacttttctggttccttctcgtttgggtagactgttttaatggaaagatttggaactcaagggctgctgttcagatttttatgtcccaagtggtgatcccttaatgtggtgctctctcccttgccctagggatggtgcttcctgagacctggactgcagtggttgttactgtgcttctgagtctacccacccagtggggctactgggctctggattgttgttgcagaatgtctgcaaagaatcctgttatatgattcatattcagatctcccagccatggataccagcacctactccagtggaggtggcaggggagtgaaattgactttttggaattccttcattgtagttttgttcagtgtgctggtttttcttaaatgctgtttatgctagcagtcaaattgtcacatggacagactcaggacctctgataagccaggatgttgcaggcagtgaaattagctgttgttttcttcttccttggggcagggttgttcttgtatgagttgct-taatggcttgagttggttagcctcc---------------agtcaggaggtggtgctttcaagagaccac---caactgtgatagtagaaaggagatacaagcttaccctatgttggctagaataagtatttgggtttctcaggtgatgggcagggccatagagctcccaagaa--gttatgtcttttgt-tttgtctaccagggcagtaaatcatcaggctggggcagggttaggtgggtctgaacaaaaactcaccttaggcagggcttgctgtggccactgtgggggat--gggaggtgcttctcaggccaatgaagttatgttccaa-gggggttatagctgcctctgctgcatcatacaagtcaccagggatgtgtgggaaagccagcagtgacaggcctcaccgtgctcccacacagccagcaaggccagtctttctcctg-ctgtgccccagcaggaagctgtgcagggctgaaatcttgccccaggctacaagcttccccactgagaaagcaagtagggctctcaggcctctcccctccctaacttcccacactgtcagctgtggcttctgcactcctatctgcacttcccgttcactcacctggattctgcttagaaaaattttgtgctcaatcaaaaattattaaagctcagctagaagtttccttcaccctgtggcctctcccctgttctgctggcttcc------tccccaagggctgctgtgagataaagccagggatggcttccctgggctcaagctcaggaccaggagtgcctacagggctcttcccgctgcttcttctactttcatattttgcttggctccctgaatctgtttcagctctaggtaagtttacatctttctctcatgatctggatttttaggttccccagtggggatgtgtgttcagaggcagacatttccccctcttcacactttgagaactcacggtttttcagctgtcttgaagtttgcagcagcaagcctcttctttcaaagggtctgtgaattctttcagttttcctgttatgttcctgctgtagttcttggagcaaaggttcatgatgtgagtctccacatgctgttctgtttgtccaagtgggagctgcacattagtcctgt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139846457 1836 + 163208435 tgtcttttctttatatctgtttctctaaagactttttcaatcatatcctatattgttttttgaagttctttaagt-tgattttcacctttctgtagtaactccttgagtagcttaata---aacctgctgaattcctcatctggcagttcagagagttcttcttggtt---------tagctagtgggatcttttggggcattacagaacc----tttttttttcatgttatcggaattacttttctggttccttctcatttgggtatactgtttcaatggaaagatttgcaactcaagggctgctgttcagatttttatgtcccaagtggtgatcccttaatgtggcactctctcccttcccctagggatggtgcttcctgagagctggactgcagtggttgttactgtgcttctgagtctacctacccagtggggctactgggctctggattgttgctgcagaatgtctgcaaagaatcctgttatgtgatttatattcagatctcccagccatggataccagcacctactccagtggaggtggcaggggagtgaagttgactttttggaattccttggttgtagttttgttcagtgtgctggtttttctcaaatgctggttatgctagcagtcaaattgtcacatggacagactcaggacctctgataagccaggatgttgcaggcagtgaaattagctgttgttttccccttccttgaggcagggttgttcttgtatgagttgctgtaatggcttgagttggttggcctcc---------------agccaggaggtggtgctttcaagagagcac---cagctgtggtagtagaaaggagatacaagcttaccctatgttggctagaataagtatttgggtttctcaggtgatgagcagggccatagagctcccaagag--tttatgtcttttgtctttgtctaccagggcagtaaaccatcaggttggggcagggttaggtgggtctgaacaaaaactcaccttaggcagggcttgctgtggccactgcgggggat--gggaggtgcttctcaggccaatgaagttatgttccaa-gggggttatagctgcctctgctgcatcatacaggtcaccagggatgtgtgggaaagccagcagcgacaggcctcaccctgctcccacacagccagcaaggccagtctttctcctg-ctgtgccccaccaggaagctgtgcagggctgaaatcttgccccaggctacaagcttccccactgagaaagcgagtagggctctcaggcctctcccatccctaacttcccacaccatcagctgtggcttctgcactcctatctgcacttcccattcactcccctggattctgcttaggaaaa-tctgtgctcagtcaaaaattatcaaaactcagctagaagtttccttcaccctgtggcccctcccctgttctgctggcttcc------tccccaagggctgctgtgagataaagccagggatggcttccctgggctcaagctcaggagcaggagtgcctacagggttcttcctgctgctgcttctactttcatattttgcttggctccctgaatctgtttcagctctaggtaaggttacatctttctctcatgatctggatttttaggttccccagtggggatgtgtgttcagaggcagacttttccccctcttcacactttgagaactcacagtttttcagctgtcttgaagtttgcagcagcaagcgtcttctttcaaagggtctgtgaattctttcagttttcctgttatgttcctgctgtagttcttggagcaaaggttcatgatgtgagtctccacatgctgttctatttgtccaagtgggagctgcacattagtcctgt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122835264 1833 + 180051392 tatcttttctttatatctatttctctaaagactttttcaatcatatcttatattgttttttaatgttctttaagt-tgattttcacctttctctagtacctccttgagtagcttattaatcaacctgctgaattcttcatctggcaattcagagag---ttcttggtt---------tagctagtgtgattttttggagtgttatagaatc----tttttttttcatattaccagaattacttttctggttccttctcatttgggtagactgtttcaatggaaagatttggaactcaagggctgcggttt-gatttttatctcccaagtggtgatcgcttaatgtggtgctctctcccttcccctaggaatgattcttcctgagagctagactgcagtaattgttattgcccttctgagtctacccacccagtggagctactgggctctgaactgttgctggggaatgtctgcaaagaatcctgttatatgattcatgtttgggtctcccagccatggataccagcatctactccagtggaggtggca-gggagtggagttgactttttgaaattccttggttgtagttttgttgagtgtgctggttttattcaaatgctggttatgctagcagtcaagttgtcacatggacggactcaggacctctgattagccaggatgttgcaggcagtgaaattagctgttgtcttctcctttcttggggcagggttgttcttttatgagttgctgtaatggcttgagttggttggcctcc---------------agccaggaggtggtgctttcaagagagcac---cagctgcggtagtagaaaggaaatacaagcttgccctgtgttggctagaataagtgcttgggtttctcaggtgatgggcggggccatagagctcccaagagtttttatgtcttttgtctttgtctaccagggcagtaaaccatcaggttggggcagggataggtgggtctgaacaaaacctcacctggggcagggcttgctgcagatactgtgggggat--ggggggtgcttctcaggccagtgaagttatgttccaa-gggggttatagctgcctcttctacatcataccggtcaccagggaagtgtgggaaagccagcagcgacaggcctcacactgctcccacacagtcagcaaggccactctccctcctg-ctgtgccccaccaggaagctgtgcagggctgaaaccttgccccaggctacaagcttccacgctgagaaagcaagtagagctctcaggcctctcacctcc-taacttcccacactgtcagcagtggcttctgcactcctatctgcacttcccattcacttccctggattctgctcagaaaa--tttgtgctcagtcaaaaattattaaagctctgctagaagcttccttcaa-ctgtggcctctcccccattctgctggcttcc------tccctaagggctgctgtgagataaagccagggatggcttccctgggctcgagcgcgggaccaggagtgcctacagggctcttcccgctgcttcttctactttcatattttgtttggttctctgaatctgtttctgctctaggtaaggttacatctttctctcatgatctggatttttaggttccccagtggggatgtgtgttcagaggcagacatttccccctcttcacactttgaaaactcacagtttttcagctgtctcgaagtttgcagcagcaagcctcttctttcaaagggtctgtgaattctttcagttttcctgttatgttcctgctgtagttcctggagcaaaggttcatgatgtgcgtctccaggtgctgttctgtttgtccaagtgggagcttcacattagtcctgt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124258887 1833 + 181584905 tatcttttctttatatctatttctctaaagactttttcaatcatatcttatattgttttttaatgttctttaagt-tgattttcacctttctctagtacctccttgagtagcttattaatcaacctgctgaattcttcatctggcaattcagagag---ttcttggtt---------tagctagtgtgatcttttggagtgttatagaatc----tttttttttcatattaccagaattacttttctggttccttctcatttgggtagactgtttcaatggaaagatttggaactcaagggctgcggttc-gatttttatgtcccaagtggtgatcgcttaatgtggtgctctctcccttcccctaggaatgattcttcctgagagctagactgcagtaattgttattgcccttctgagtctacccacccagtggagctactgggctctgaactgttgctggggaatgtctgcaaagaatcctgttatatgattcatgtttgggtctcccagccatggataccagcatctactccagtggaggtggca-gggagtggagttgactttttggaattccttggttgtagttttgttgagtgtgctggttttattcaaatgctggttatgctagcagtcaagttgtcacatggacggactcaggacctctgattagccaggatgttgcaggcagtgaaattagctgttgtcttctcctttcttggggcagggttgttcttttatgagttgctgtaatggcttgagttggttggcctcc---------------agccaggaggtggtgctttcaagagagcac---cagctgcggtagtagaaaggaaatacaagcttgccctgtgttggctagaataagtgcttgggtttctcaggtgatgggcggggccatagagctcccaagagtttttatgtcttttgtctttgtctaccagggcagtaaaccatcaggttggggcagggataggtgggtctgaacaaaacctcacctggggcagggcttgctgcagatactgtgggggat--ggggggtgcttctcaggccagtgaagttatgttccaa-gggggttatagctgcctcttctacatcataccggtcaccagggaagtgtgggaaagccagcagcgacaggcctcacactgctcccacacagtcagcaaggccactctccctcctg-ctgtgccccaccaggaagctgtgcagggctgaaaccttgccccaggctacaagcttccccgctgagaaagcaagtagagctctcaggcctctcacctcc-taacttcccacactgtcagcagtggcttctgcactcctatctgcacttcccattcacttccctggattctgctcagaaaa--tttgtgctcagtcaaaaattattaaagctctgctagaagcttccttcaa-ctgtggcctctcccccgttctgctggcttcc------tccctaagggctgctgtgagataaagccagggatggcttccctgggctcgagcgcgggaccaggagtgcctacagggctcttcccgctgcttcttctactttcatattttgtttggttctctgaatctgtttctgctctaggtaaggttacatctttctctcatgatctggatttttaggttccccagtggggatgtgtgttcagaggcagacatttccccctcttcacactttgaaaactcacagtttttcagctgtctcgaagtttgcagcagcaagcctcttctttcaaagggtctgtgaattctttcagttttcctgttatgttcctgctgtagttcctggagcaaaggttcatgatgtgcgtctccaggtgctgttctgtttgtccaagtgggagcttcacattagtcctgt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16256942 1833 +  18395747 tatcttttctttatatctatttctctaaagacttttgcaatcatatcttatattgttttttaatgttctttaagt-tgattttcacctttctctagtacctccttgagtagcttattaatcaacctgctgaattcttcatctggcaattcagagag---ttcttggtt---------tagctagtgtgatcttttggagtgttatagaatc----tttttttttcatattaccagaattacttttctggttccttctcatttgggtagactgtttcaatggaaagatttggaactcaagggctgcggttc-gatttttatgtcccaagtggtgatcgcctaatgtggtgctctctcccttcccctaggaatgattcttcctgagagctagactgcagtaattgttattgcccttctgagtctacccacccagtggagctactgggctctgaactgttgctggggaatgtctgcaaagaatcctgttatatgattcatgtttgggtctcccagccatggataccagcatctactccagtggaggtggca-gggagtggagttgactttttggaattccttggttgtagttttgttgagtgtgctggttttattcaaatgctggttatgctagcagtcaagttgtcacatggacggactcaggacctctgattagccaggatgttgcaggcagtgaaattagctgttgtcttctcctttctcggggcagggttgttcttttatgagttgctgtaatggcttgagttggttggcctcc---------------agccaggaggtggtgctttcaagagagcac---cagctgcggtagtagaaaggaaatacaagcttgccctgtgttggctagaataagtgcttgggtttctcaggtgatgggcagggccatagagctcccaagagtttttatgtcttttgtctttgtctaccagggcagtaaaccatcaggttggggcagggataggtgggtctgaacaaaacctcacctggggcagggcttgctgcggatactgtgggggat--ggggggtgcttctcaggccagtgaagttatgttccaa-gggggttatagctgcctcttctacatcataccggtcaccagggaagtgtgggaaagccagcagcgacaggcctcacactgctcccacacagtcagcaaggccactctccctcctg-ctgtgccccaccaggaagctgtgcagggctgaaaccttgccccaggctacaagcttccccgctgagaaagcaagtagagctctcaggcctctcacctcc-taacttcccacactgtcagcagtggcttctgcactcctatctgcacttcccattcacttccctggattctgctcagaaaa--tttgtgctcagtcaaaaattattaaagctctgctagaagcttccttcaa-ctgtggcctctcccccgttctgctggcttcc------tccctaagggctgctgtgagataaagccagggatggcttccctgggctcgagcgcgggaccaggagtgcctacagggctcttcccgctgcttcttctactttcatattttgtttggttctctgaatctgtttctgctctaggtaaggttacatctttctctcatgatctggatttttaggttccccagtggggatgtgtgttcagaggcagacatttccccctcttcacactttgaaaactcacagtttttcagctgtctcgaagtttgcagcagcaagcctcttctttcaaagggtctgtgaattctttcagttttcctgttatgttcctgctgtagtttctggagcaaaggttcatgatgtgcgtctccaggtgctgttctgtttgtccaagtgggagcttcacattagtcctgt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5268921 1834 +  26952557 tatcttttctttatatctatttctctaaagactttttcaatcatatcttatattgttttttaatgttctttaagt-tgattttcacctttctctagtacctccttgagtagcttattaatcaacctgctgaattcttcatctggcaattcagagag---ttcttggtt---------tagctagtgtgatcttttggagtgttatagaatc----tttttttttcatattaccagaattacttttctggttccttctcatttgggtagactgtttcaatggaaagatttggaactcaagggctgcggttcagatttttatgtcccaagtggtgattgcttaatgtggtgctctctcccttcccctaggaatgattcttcctgagagcgagactgcagtaattgttattgcccttctgagtctacccacccagtggagctactgggctctgaactgttgctggggaatgtctgccaagaatcctgttatatgattcatgtttgggtctcccagccatggataccagcacctactccagtggaggtggca-gggagtggagttgactttttggaattccttggttgtagttttgttgagtgtgctggttttattcaaatgctggttatgctagcagtcaagttgtcacatggacggactcaggacctctgattagccaggatgttgcaggcagtgaaattagctgttgtcttcttctttcttggggcagggttgttcttttatgagttgctgtaatggcttgagttgattggcctcc---------------agccaggaggtggtgctttcaagagagcac---cagctgtggtagtagaaaggaaatacaagcttgccctgtgttggctagaataagtgcttgggtttctcaggtgatgggcagggccatagagctcccaagagtttttatgtcttttgtctttgtctaccagggcagtaaaccatcagattggggcagggataggtgggtctgaacaaaacctcacctggggcagggcttgctgcggatactgtgggggat--ggggggtgcttctcaggccagtgaagttatgttccaa-gggggttatagctgcctcttctacatcataccggtcaccagggaagtgtgggaaagccagcagcgacaggcctcacactgctcccacacagtcagcaaggccactctccctcctg-ctgtgccccaccaggaagctgtgcagggctgaaaccttgccccagactacaagcttccccgctgagaaagcaagtagagctctcaggcctctcacctcc-taacttcccacactgtcagcagtggcttctgcactcctatctgcacttcccattcacttccctggattctgctcagaaaa--tttgtgctcagtcaaaaattattaaagctctgctagaagcttcctttaa-ctgtggcctctcccctgttctgctggcttcc------tccctaagggctgctgtgagataaagccagggatggcttccctgggctcgagcgcgggaccaggagtgcctacagggctcttcccgctgcttcttctactttcatattttgtttggttctctgaatctgtttctgctctaggtaaggttacatctttctctcatgatctggatttttaggttccccagtggggatgtgtgttcagaggcagacatttccccctcttcacactttgaaaactcacagtttttcagctgtcttgaagtttgcagcagcaagcctcttctttcaaagggtctgtgaattctttcagttttcctgttatgttcctgctgtagttcctggagcaaaagttcatgatgtacgtctccaggtgctgttctgtttgtccaagtgggagcttcacattagtcctgt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28371130 1838 +  82825804 tgtcttttctttatatctatttctctaaagactttttcaatcatatcttatattgtttttaaatattctttaagt-tgattttcacctttctgtagtacctccttgagtagcttaataatcaacctgctgaattcttcatctggcaattcagagagttcttcttggtt---------tagctagtgtgatcttttggaatgttatagaatc----tttttttttcatattaccagcattacttttctggttccttctcatttgggtagactgtttcaatggaaagatttggaactcaagggctgcagttcagatttttatgtcccaagtggtgatcccttaatgtggtgctttctcccatcccctaggaatgattcttcttgagagctgtactgcagtaattgttattgcccttcagagtctacccacccagtggagctactgggctctggactgttgctggggaatgtctgcaaagaatcctattatatgattcacgttcgggtctcccagccatggataccagcacctactccagtggaggtggca-gggagtgaagttgactttttggaattccttggttgtagttttgttgagtgtgctggttttattcaaatgctggttatgctagcagtcaagttgtcacatggacggactcaggacctctgattagccaggatgttgcaggcagtgaaattagctgttgtcttctcctttcttggggcagggttgttcttttatgagttgctgtaatagcttgagttggttggcctcc---------------agccaggaggtggtgctttcaagagagcac---cagctgcggtagtagaaaggaaatacaagcttgccctgtgttggctagaataagtgcttgggtttctcaggtgatgggcagggccatagagctcccaagagattttatgtcttttgcctttgtctgccagggcagtaaaccatcaggttggggcagggataggtgggtctgaacaaaacctcacctggggcagggcttgctgcggacactgtgggggat--ggggggtgcttctcaggccagtgaagttatgttccaa-gggggttatagctgcctcttctacatcatactggtcaccagggaagtgtgggaaagccagcagtgacaggcctcacactgctcccacagagtcagcaaggccactctccctcctg-ctgtgccccaccaggaagctgtgcagggctgaaaccttgccccaggctacaagcttccccgctgagaaagcaagtagagctctcaggcctctcaactcc-taacttcccacactgtcagcagtggcttctgcactcctatctgcacttcccattcacttccctggattctgctcagaaaa--tttgtgctcagtcaaaaattattaaagctctgctagaagcttccttcaacctgtggcctctcccttgttctgctggcttcc------tccctaagggctgctgtgagataaagccagggatggcttccctgggctcaagcacgggaccaggagtgcctgcagggctcttcccgctgctgcttctactttcatattttgtttggttttctgaatctgtttctgctctaggtaaggttacatctttctctcatgatctggatttttaggttccccagtggggatgtgtgttcagaggcagacatttccccctcttcacactttgaaaactcacagtttttcagctatcttgaagtttgcagcagcaagcctcttctttcaaagggtctgtaaattctttcagttttcctgttatgttcctgctgtagttcttggagcaaaggttcatgatgtgcgtctccaggtgctgttctgtttgtccaagtgggagcttcacattagtcctgt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4039990 1852 -   4237731 tatcttttctttatatctatttctctaaagactttttcaatcatatcttatattgttttttaatgttctttaagt-tgattttcacctttctgtagtacctccttgagtagcttattaatcaacctgctgaattcttcatctggcaattcagagagttcttcttggtt---------tagctagtgtgatcttttggagtgttatagaatc----tttttttttcatattaccagaattacttttctggttccttctcatttgggtagactgtttcaatggaaagatttggaactcaagggctgcggttcagatttttatgtcccaagtggtgattgcttaatgtggtgctctctcccttcccctaggaatgattcttcctgagagctagactgcagtaattgttattgcccttctgagtctacccacccagtggagctactgggctctgaactgttgctggggaatgtctgcaaagaatcctgttatatgattcatgtttgggtctcccagccatggataccagcacctactccagtggaggtggca-gggagtggagttgactttttggaattccttggttgtagttttgttgagtgtgctggttttattcaaatgctggttatgctagcagtcaagttgtcacatggacggactcaggacctctgattagccaggatgttgcaggcagtgaaattagctgttgtcttcttctttcttggggcagggctgttcttttatgagttgctgtaatggcttgagttggttggcctccaaccaaccaactgaaagccaggaggtggtgctttcaagagagcac---cagctgcggtagtagaaaggaaatacaagcttgccctgtgttgcctagaataagtgcttgagtttctcaggtgatgggcagggccatagagctcccaagagtttttatgtcttttgtctttgtctaccagggcagtaaaccatcaggttggggcagggataggtgggtctgaacaaaacctcacctggggcagggcttgctgcggatactgtgggggat--ggggggtgcttctcaggccagtgaagttatgttccaa-gggggttatagctgcctcttctacatcataccagtcaccagggaagtgtgggaaagccagcagcgacaggcctcacactgctcccacacagtcagcaaggccactctccctcctg-ctgtgccccaccaggaagctgtgcagggctgaaaccttgtcccaggctacaagcttccccactgagaaagcaagtagagctctcaggcctctcatctcc-taacttcccacactgtcagcagtggcttctgcactcctatctgcacttcccattcacttccctggattctgctcagaaaa--tttgtgttcagtcaaaaattattaaagctctgctagaagcttccttcaa-ctgtggcctctcccctgttctgctggcttcc------tccctaagggctgctgtgagataaagccagggatggcttccctgggctcgagcgcgggaccaggagtgcctacagggctcttcccgctgcttcttctactttcatattttgtttggttctctgaatctgtttctgctctaggtaaggttacatctttctctcatgatctggatttttaggttccccagtggggatgtgtgttcagaggcagacatttccccctcttcacactttgaaaactcacagtttttcagctgtcttgaagtttgcagcagcaagcctcttctttcaaagggtctgtgaattctttcagttttcctgttatgttcctgctgtagttcctggagcaaaggttcatgatgtgcatctccaggtgctgttctgtttgtctaagtgggagcttcacattagtcctgt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      308553 1832 -   1175262 tgtcttttctttatatctatttctctaaagactttt-caatcatatcttagattgttttttaatgttctttaagt-tgattttcacctttctctagtacttccttgagtagcttaataatcaacctgctgaattcttcatttggcaattcagagag---ttcttagtt---------tagctagtgtgatcttttggagtgttatagaatc----tttttttttcatattaccagaattacttttctggttccttctcatttgggtagactgtttcagtggaaagatttggaactcaagggctgcggttcagatttttatgtcccaagcggtgatcccttaatgtggtgctctctcccttcccctaggaatgattcttcctgagagctggactgcagtaattgttattgcccttctgagtctacccacccagtggagttactgggctctggactgttgctggggaatgtctgcaaagaatcctgttatatgattcacgtttgggtctctcagccatggataccagcacctactccagtggaggtggca-gggagtaaagttgactttttggaattcctgggttgtagttttgttcagtgtgctggttttattcaaatgctggttatgctagcagtcaagttgtcacatggacggactcaggacctctgattagccaggatgttgcaggcagtgaaattagctgttgttttctcctttcttggggcagggttgttcttttatgagttgctgtaatggcttgagttggttggcctcc---------------agccaggaggtggtgctttcaagagagcac---caactgcggtagtagagaggaaatacaagcttgccctatgttggctagaataagtgcttgggtttctcaggtgatgggcagggccatagagctcccaagaatttt--tgtcttttgtctttgtctaccagggcagtaaaccatcaggttggggcagggttaggtgggtctgaacaaaacctcacctggggcagggcttgctgcggacactgtgggggat--ggggggtgcttctcaggccagtgaagttatgttccaa-gggggttatagctgcctcttctgcatcataccagtcaccagggaagtgtgggaaagccagcagcgacaggcctcacactgctcccacacagtcagcaaggccactctccctcctg-ctgtgccccaccaggaagctgtgcagggctgaaatcttgccccaggctatgagcttccccgctgagaaagcaagtagggctctcagacctcttccctcc-taacttcccacactgtcagcagtggcttctgcactcctatctgcacttcccattcacttccctggattctgctcagaaaa--tctgtgctcagtcaaaaattattaaagctcagctagaagctttcttcaacctgtggcctctcccctgttctgctggcttcc------tccctaagggctactgtgagataaagccagggatggcttccctgggctcgagcgtgggaccaggagtgcctacagggctcttcccgctgcttcttctactttcatattttgtttggctctctgaatctgtttctgctctaggtaaggttacatctttctctcatgatctggatttttaggttccccagtggggatgtgtgttcagaggcagacatttccccctcttcacactttgagaactcacagtttttcagctctcttgaagtttgcagcagcaagcgtcttctttcaaagggtctgtgaattctttcagttttcctgttatgttcctgctgtagttcttggagcaaaggttcatgatgtgcgtctccaggtgctgttctgtttgtccaagtgggagcttcacattagtcctgt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123655337 1839 - 204313951 tgtctttcccttatatttatttctctaaagactttttcaatcatatcctatattgttttttaaatttctttaagcttgattttcacctttctctattacctccttgggtagcttaa---tcaacctgctaaattcttcatctggcaattcagag--ttcttcttggtttggatcacatagctagtgtgatcttttggggtgttataaacct----tgtttttttcatattaccagaattacttttttagttctttctcatttgggtagactgtttcaataaaaggatttggaactcaaagcctgctgttcagatttttatgtcctaagcggtgatgccttaatgtggtactctctcccttcccctgcgaatgatgcttcctgagagctggactgcagtgattgttattgtccttctgagtctagacacccagtgtggcatttgggctctgggctgctgctgaggagtgtctgcaaagaatcctattacatgattcatgtttggatcttccagtcatgaataccagcacctgctccagtggaggtggcaggggagtgaagttgactcttcagaattcctgggttgtagttttgttcagtgtgctgggttt-ctcaaatgctggttatgctatcagtcaagttgtcacatggacagactcaggatctctgattagccaggatgttgtaagccctgaaattagctgttgttttcttcttccttggggcagggttgttctattatgagttgctgtaatggcttcagtcggttggcctcc---------------agccaggagatggtgctttcaaaagagcac---cagctgccatagtagaaaggagatacaagcttgccctaccttggctagaataagtgcttgggtttctttggtgacgtgtagggccatagagctcccaggag--tttatgtcttttgtcttcatctaccagggcagtaagccatcaggttggggcagagttaggtgggtctgtactcaaaggctccttgggcatggcttgctgtggccactgcgggggatggggggggtacttctcaggccaatgaagttatattccagtggggattgtagctgcctctgctgcatgataaaggtcatcagggaaatgtgagaaagccagcaatgacagtcctcaccctgctcccacacatccagcaaggccaatctcccttctgcctgtgccccactaggcaactgtgctgggctgagatcttgccccaggctacaagcttccctgctgagaaagcaagcaggactcttaggcttcatcccctc-taccttcccacactgttagctgtggcttctgcagtcctatctgcacttc-----------cctggattccgctgggaaaac-tttgtactcagtc-aaaattatgaaagtttggctagaagcttccttcaccctgtggcccctcccctcttctgctggctgccttcccttccccaaaagctgctgtgacataatgccagggatggcttccctgggctagagctcgggaccaggagtgcctacagggctcttcccgctgcttcttctacttttgtattttgcttggctccctaaatttgtttcatctctaggtaaggttacatctttctttcatgatctggatttttaggttccccagtggggatgtgtgttcagaggcagacttttccacctc-tcacactttgagaactcatagtttttcagctgtcttgaagtttgcagcagcaagcctcttctatcaaagggtgtgtgaattatttcagttttcctggtatgttcctgctatagttcttggagcaaaggttcatgatgtgagcctccacatgctcttctgttcatccaagtgggagctgcacattagtcctgt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55699214 1823 -  71252344 tgtcatttctttatatctgtttctctaaagactttttcaatcacatcctatattgtttttaaaatttctttaagc-tgattttcacctttctctattacctccatgaatagcttaatatttaacctgctaaattcttcatctggcaattcagag--ttcttcttgctttggatcacataactagtgtgatctttcggggtgttatagacct----tgtttttttcatgttaccagaattacttttttagttctttctcatttgggtagactgtttcaat-aaaggatttggaactcaagacctgctgttcagatttttatgtcctaagcagtgatgccttaatgtggtactctctcccttcccctaggaatgatgcttcctgagagctggactgt-gtgattgttattgtccttctgagtctagacacccagtggggctattgggctctgggctgctgctggggagtgtctgcaaagaatcctgttacatgattcatgtttgggtcttccagtcatgaataccagtacctgcaccagtggaggtggcgggggagtgaagttgactctttggaattcctgggttgtagttttgttcagtgtgctgggttt-ctcaaatgctggttatgctagcagtcaggttgtcacatggacagactcaggacctctgattagccaggacgttgtaagccctgaaattagctgttgttttcttcttccttgggtcagggttgttctattatgagttgctgtaatggcttcagatggttggcctcc---------------agccaggagatggtgctttcaagggagcaccagcagctgccatagtagaaaggagatacaagcttgccctgccttggctagaataagtgcttgggtttctttggtgatgagcagggccatagagctcccaggag--tttatgtcttttgtcttcatctaccaggacagtaaaccatcaggttggggtagggttaggtgggtccgaactcaaaggctccttgggcatggcttgctatgaccgctgtgggggat--ggggggcacttctcaggccaaggaagttatgttccaatggggattatagctgcctctgctgcatcataaaggtcaccagggaaaggtgagaaagccagcaatgacagtcctcaccctgttcccacacagccagcaaggtcagtctcccttctgcctgtgccccg--aggtagctgtgctgtgctgagatcttgccccaggctacaagcttccctgctgagaaagcaagcaggactctcaggcctcatcccctc-taccttccagcactgttagctgtggcttctgcagtcctatctgcacttc-----------cctggattccgctgggaaaac-tttgtactcagtc-aaaattattaaagtttggctagaagcttccttca---------------cctcttctgctggctgccttcccttctctaagagctgctgtgacataaagcccgggttggcttccctgggctagagctcgggaccaggagtgcctacagggctcttcccactgcttcttctacttttgtattttgcttggctccctaaatctgtttcatctctaggtaaggttacatctttctttcatgatctggatttttaggttccccagtggggatgtgtgttcagaggcagacttttccacctc-tcacactttgagaactcatagtttttcagctgtcttgaagtttgcagcagcaagcctcttctatcaaacggtgtgtgaattatttcagttttcctggtatgttcctgctgtagttcttggagcaaaggttcatgatgtgagcctccacatgctgttctgttcatccaagtgggagctgcacattagtcctat
i saiBol1.JH378106         I 4292 C 0
s cebCap1.NW_016107590v1        2252 1822 -   3089952 tgtctttcctttatatttatttctctaaagactttttcaatcatatcctatattgttttttaaatttctttaagc-ttattttcacctttctctattacctccttgagtagcttaatattcaacctcctaaattcttcatctggcaattcagaa-----ttcttggtttggatcacatagctagtgtgatcttttggggtgttatagacct----tgtttttttcatattaccagaattacttttttagttctttctcatttggttagactgtttcaataaaaggatttggaactcaaggcc-actgttcagatttttatgtcctaagcagtgataccttaatgtggcactctctcccttcccctaggaatgatgcttcctgagagctggactacagtggttgttattatccttctgagtctagacacccagtggggcgattgggctctgggctgctgctggggaatgtctgcaaagaatcctgttacatgattcatgtttgggtcttcccgtcatgaataccagcacctgctccagtggaggt-------gagtgaagttgactctttggaattccttggttgtagttttgttcagtgtgctgggttt-ctcaaatgctggttatgctagcagtcaagttgtcacatggacagactcaggacctctgattagccaggatgttgtaagccctgaaattagctgttgtt---ttcttccttggggcagggttgttctattatgagttgttctaatggcttcagttggttggcctct---------------agccaggagatggtgctttc--gagagcac---cagctgccgtagtagaaaggagatacaagcttgccctaccttggctagaataagtgcttgagtttctttggtgatgagcagggctgtagagctcccaggag--tttatatcttttgtcttcatctaccagggcagtaaaccatcaagttggggcagggttaggtgggtctgaactcaaaggctccttggacatggcttgctgtggccactgtaggggat--gagggctacttctcaggccaatgaagttatgttccagtgaggattatctctgcttctgctgcatcataaagatcaccaaggaaatatgagaaagccagcaatgacagtcctcaccctgctcccacatagccagcaaggccagtctcccttctgcctgtgccccaccaggcagctgtcctgggctgagatcttgccccaggctacaagcttccctgctgagaaagcaagcaggactctcaggccttatcccctc-taccttcccacactgttagctgtggcttctgcagtcctatctgcacttc-----------cctggattccgctgggaaaac-tttgtactctgtc-aaaattattaaagtttggctagaagcttcctttaccctgtggccctca-tctcttctgctggctaccttcccttccctaagagctgctgtgacataaagccagggatggcttccctgggctagagctcgggaccaggagtgcctacagggctcttcccgctgcttcttctacttttgtattttgcttggctccctaaatctgtttcatctctaagtaaggttacatctttctttcatgatctggatttttaggttccccagtagggatgtgtgttcagaggcagacttttccacctc-tcacactttgagaactcatagcttttcagctgtcttgaagtttgcagcagcaagcctcttctatcaaagggtgtgtgaattatttcagttttcctggtatgttcctgctgtagttcttggagcaaaagttcatgatgtgagcctccacatgctgttctgttcatccaagtgggagctgcacattagtcctgt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13200189 1838 -  42888418 tgtctttcctttatatttatttctctaaagactttttcaatcatatcctatattgttttttaaatttctttaagc-tgattttcacctttctctattacctccttgtgtagcttaatattcaacctgctaaattctttatctggcaattcagaa--ttcttcttggtttggatcacatagctagtgcgatcttttggggtattatagacct----tgtatttttcatattaccagaattacttttttaattctttctcatttgggtagactgtttcaataaaaggatttggaactcaaggcc-gctgttcagatttttatgtcctaagcagtgataccttaatgtggtactctctcccttctcctaggaatgatgcttcctgagagctggactgcagtggttgttattgtccttctgagtctagacacccagaggggctattgggctctgggctgctgctggggaatgtctgcaaagaatcctgttacatgactcatgtttgggtcttccagttatgaataccagcacctgctccagtggaggtggcagaggagtgaggttgactcttcggaattcctgggttgtagttttgttcagtgtgctgggttt-ctcaaatgctgattatgctagtagtcaagttgtcacatggacagactcaggacctctgattagcctggattttgtaagccctgaaattagctgttgttttcttctaccttggggcagggttgttctattatgagttgctgtaatggcttcagttggttggcctcc---------------agccaggagatggtgctttcaagagagcac---cagctgccatagtagaaaggagatacaagcttgccctaccttgactagaataagtgcttgggtttctttggtgacgagcagggccgtagagctcccaggag--tttatgtcttttgtcttcatctaccagggcagtaaaccatcaggttggggcagagttaggtggatctgaactcaaaggctccttgggcatggcttgctgtggccactgtgggggat--ggggggtacttctcaggccaatgaagttatgtttcaatggggattatagctgcctctgctgtatcataaaggtcaccagggaaatgtgagaaagccagcaatgacagtcctcaccctgctcccacacagccagcaaggccagtctcccttctgcctgtgccccaccaggcagctgtgctgggctgagatcttgccccaggctacaagcttccctgctgagaaagcaagcaggactctcagacctcatcccttc-caccttcccacactgttagctgtggcttctgcagtcttacctgcacttc-----------cctggattccgctgggaaaac-tttgtactcagtc-aaaattattaaagtttggctagaagcttccttcaccctgtggcccctcccctcttctgctggctgccttcccttcccaaagagctgctgtgacataaagccagggatggcttccctgggctagagctcaggaccaggagtgcctacagggctcttcccgctgcttcttctacttttgtattttgcttggctccttaaatctgtttcatctctaggtaaggttacatctttctttcatgatctggatttttaggttccccagtggggatgtgtgttcagaggcagacttttccacatc-tcacactttgagaactcatagtttttcagctgtcttgaagtttgcagcagcaagcctcttctatcaaagggtgtgtgaattatttcagttttcctggtatgttcctgctgtagttcttggagcaaaggttcatgatgtgagcttccacatgctgttctgttcatccaagtgggagctgcacattagtcctgt
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201  866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3064388 1834 +   4132165 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I

a score=84784.000000
s hg38.chr5_KI270796v1_alt     79017 7 +    172708 ctcctat
s panTro5.chr5             125189102 7 + 181907262 ctcctat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126525974 7 + 183735486 ctcctat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1717535 7 +   8933513 ctcctat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139848293 7 + 163208435 ctcctat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122837097 7 + 180051392 ctcctat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124260720 7 + 181584905 ctcctat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16258775 7 +  18395747 ctcctat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5270755 7 +  26952557 ctcctat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28372968 7 +  82825804 ctcctat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4041842 7 -   4237731 ctcctat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      310385 7 -   1175262 ctcctat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123657176 7 - 204313951 ctcctat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55701037 7 -  71252344 ctcctat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        4074 7 -   3089952 ctcctat
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13202027 7 -  42888418 ctcctat
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3066222 7 +   4132165 cttatat
i otoGar3.GL873679         I 1834 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e canFam3.chr11             14910201 866 +  74389097 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I

a score=35020.000000
s hg38.chr5_KI270796v1_alt     79024 3 +    172708 ctg
s panTro5.chr5             125189109 3 + 181907262 ctg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126525981 3 + 183735486 ctg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1717542 3 +   8933513 ctg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139848300 3 + 163208435 ctg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122837104 3 + 180051392 ctg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124260727 3 + 181584905 ctg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16258782 3 +  18395747 ctg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5270762 3 +  26952557 ctg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28372975 3 +  82825804 ctg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4041849 3 -   4237731 ctg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      310392 3 -   1175262 ctg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123657183 3 - 204313951 ctg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55701044 3 -  71252344 ctg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        4081 3 -   3089952 ctg
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13202034 3 -  42888418 ctg
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3066229 3 +   4132165 tat
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14911067 3 +  74389097 CTG
i canFam3.chr11            I 866 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55509214 1388 +  90702639 I

a score=99288.000000
s hg38.chr5_KI270796v1_alt     79027 8 +    172708 ccattttc
s panTro5.chr5             125189112 8 + 181907262 ccattttc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126525984 8 + 183735486 ccattttc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1717545 8 +   8933513 ccattttc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139848303 8 + 163208435 ccattttc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122837107 8 + 180051392 ccattttc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124260730 8 + 181584905 ccattttc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16258785 8 +  18395747 ccattttc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5270765 8 +  26952557 ccattttc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28372978 8 +  82825804 ccattttc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4041852 8 -   4237731 ccattttc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      310395 8 -   1175262 ccattttc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123657186 8 - 204313951 ccattttc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55701047 8 -  71252344 ccattttc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        4084 8 -   3089952 ccattttc
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13202037 8 -  42888418 ccattttc
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3066232 8 +   4132165 ctgtattt
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55510602 8 +  90702639 CTGTGTTG
i mm10.chr18               I 1388 C 0
s canFam3.chr11             14911070 8 +  74389097 ACATTATC
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60535547 1036 + 108143057 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e dasNov3.JH567306           2619986 7773 +   3667625 I

a score=1172037.000000
s hg38.chr5_KI270796v1_alt     79035 89 +    172708 ---cTCTCTTCCTTTTTGAATACCAGCTTTAAC---TCATTCTTATGTACTGATCTAAT---TCTGTTGGATAAGTGAGCTTCT-ACTCTAC-AAATAAT
s panTro5.chr5             125189120 89 + 181907262 ---cTCTCTTCCTTTTTGAATACCAGCTTTAAC---TCATTCTTATGTACTGATCTAAT---TCTGTTGGATAAGTGAGCTTCT-ACTCTAC-AAAGAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126525992 89 + 183735486 ---cTCTCTTCCTTTTTGAATACCAGCTTTAAC---TCATTCTTATGTACTGATCTAAT---TCTGTTGGATAAGTGAGCTTCT-ACTCTAC-AAAGAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1717553 89 +   8933513 ---cTCTCTTCCTTTTTGAATACCAGCTTTAAC---TCATTCTTAGGTACTGATCTAAT---TCTGTTGGATAAGTGAGCTTCT-ACTCTAC-AAATAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139848311 89 + 163208435 ---cTCTCTTCCTTTTTGAATACCAGCTTTAAC---TCATTCTTATGTACTGATCTAAT---TCTGTTGGATAAGTGAGCTTCT-ACTCTAC-AAATAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122837115 88 + 180051392 ---cTCTCTTCC-TTGTGAATACCAGCTTTAAC---TCATTCTTATGTACTGATCTAAT---TCTGCTGGATAAGTGAGCTTCT-ACTCTAC-AAATAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124260738 88 + 181584905 ---cTCTCTTCC-TTGTGAATACCAGCTTTAAC---TCATTCTTATGTACTGATCTAAT---TCTGCTGGATAAGTGAGCTTCT-ACTCTAC-AAATAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16258793 88 +  18395747 ---cTCTCTTCC-TTGTGAATACCAGCTTTAAC---TCATTCTTACGTACTGATCTAAT---TCTGCTGGATAAGTGAGCTTCT-ACTCTAC-AAATAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5270773 88 +  26952557 ---cTCTCTTCC-TGGTGAATACCAGCTTTAAC---TAATTGTTATGTACTGATCTAAT---TCTGCTGGATAAGTGAGCTTCT-ACTCTAC-AAATAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28372986 88 +  82825804 ---cTCTCTTCC-TTGTGAATACCAGCTTTAAC---TCATTCTTATGTACTGATCTAAT---TCTGCTGGATAAGTGAGCTTCT-ACTCTAC-AAATAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4041860 88 -   4237731 ---cTCTCTTCC-TGGTGAATACCAGCTTTAAC---TCATTCTTATGTACTGATCTAAT---TCTGCTGGATAAGTGAGCTTCT-ACTCTAC-AAATAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      310403 88 -   1175262 ---cTCTCTTCC-TTTTGAATACCAGCTTTAAC---TCATTCTTATGTACTGATCTAAT---TCTGCTGGATAAGTGAGCTTCT-CCTCTGC-AAATAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123657194 90 - 204313951 ---cTCTCTTCCTTTTTGAATACCAGCCTTAAC---TCATTTTTATGTACTGATCTAAT---TCTGTTGGATAAGTGAACTTCT-CCTCTACAAAATAAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55701055 89 -  71252344 ---cTCTCTTCCTTTTTGAATATCAGCCTTAAC---TCATTTTTGTGTACTGATCTGAT---TCTGTTGGATAAGTGAACTTCT-ACTCTAC-AAATAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        4092 89 -   3089952 ---cTCTCTTCCTTTTTGAATACCAGCCTTAAC---TCATTTTTATGTACTGATCTAAT---TCTGTTGGATAAGTGAACTTCT-ACTCTAC-AAATAAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13202045 89 -  42888418 ---cTCTCTTCCTTTTTGAGTACCAGCCTTAAC---TCATTTTTATGTACTGATCTAAT---TCTGTTGGATAAGTGAACTTCT-ACTCTAC-AAATAAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60536583 89 + 108143057 ---CTCTCTTACTTTTTCAATACCAGCTTTAAC---CCATTTTTATTTATTGACCTGAT---TCTGTTGGATAAATGAGCTTCT-GCTCTAC-AAACAAC
i micMur3.chr12            I 1036 I 58
s otoGar3.GL873679           3066240 89 +   4132165 ---ctcacttactttttgaatactagctctagc---cctcttttatttattgacctgat---tttgttggataaatgaacttct-gctCTAC-AAACAAC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55510610 93 +  90702639 ---CTTGCTTACTATTTGAACACCAGTTTTATCCAGCCTTTTTTATGTACCCTCTTGAT---TCTATTGGCTAAATGAGATTCTAACTCTAT-CAACAAA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14911078 95 +  74389097 TAGGTTTCTCTCTTTTTGAATATTAGCTTTAAC---CTATTTGCATTAGTGGTCCCAGTTGGTTCATTGACTAAATGGGCTTCT-TCTCCTC-AACCAAT
i canFam3.chr11            C 0 C 0
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e dasNov3.JH567306           2619986 7773 +   3667625 I

a score=701281.000000
s hg38.chr5_KI270796v1_alt     79124 62 +    172708 GGCTCAACATCTTCAGTTACCATCAAG-TTTTTTAAAAGCACCACTGTTTATTAAATTTGTTA
s panTro5.chr5             125189209 62 + 181907262 GGCTCAACATCTTCAGTTACCATCAAG-TTTTTTAAAAGCACCACTGTTTATTAAATTTGTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126526081 62 + 183735486 GGCTCAACATCTTCAGTTACCATCAAG-TTTTTTAAAAGCACCACTGTTTATTAAATTTGTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1717642 63 +   8933513 GGCTCAACATCTTCAGTTACCATCAAGTTTTTTTAAAAGCACCACTGTTTATTATATTTGTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139848400 62 + 163208435 GGCTCAACATCTTCATTTACCATCAAG-TTTTTTAAAAGCACCACCATTTATTAAATTTGTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122837203 62 + 180051392 GGCTCAACATCTTCATTTACCATCAAG-TTTTTTAAAAGTACCACTGTTTATTAAATTTGTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124260826 62 + 181584905 GGCTCAACATCTTCATTTACCATCAAG-TTTTTTAAAAGTACCACTGTTTATTAAATTTGTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16258881 62 +  18395747 GGCTCAACATCTTCATTTACCATCAAG-TTTTTAAAAAGTACCACTGTTTATTAAATTTGTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5270861 62 +  26952557 GGCTCAACATCTTCATTTACCATCAAG-TTTTTTAAAAGTACCACTGTTTTTTAAATTTGTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28373074 62 +  82825804 GGCTCAACATCTTCATTTACTATCAAG-TTTTTTGAAAGTACCACTGTTTATTAAATTTGTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4041948 62 -   4237731 GGCTCAACATCTTCATTTAACATCAAG-TTTTTTAAAAGTACCACTGTTTATTAAATTTGTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      310491 62 -   1175262 GGCTCAACATCTTCATTTACCATCAAG-TTTTTTAAAAGCACCACTGTTTATTAAATGTGTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123657284 57 - 204313951 GGCTCAACGTCATCATTTACCATCAAG-TTTTTAAAA-----AGCTGTTTATTAAATTTGTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55701144 62 -  71252344 GGCTCAACATTGTCATTTACCATCAAG-TTTTTAAAAAGCACAGCTGTTTATTAAATTTGTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        4181 59 -   3089952 GGCTCAATATCATCATTTACCAACAAG-TTTTTAAAAAGCACAGC---TTATTAAATTTGTTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13202134 62 -  42888418 GGCTCAACATCGTCATTTACCATCAAG-TTTTTTAAAAGCACAGTTGTTTATTAAATTTGTTA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3066329 62 +   4132165 AGCTCAACATAACACTTTAGCATCAAG-TTTTAAGAAAGCACAGCTGTTTACTGGATCTGTTA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55510703 45 +  90702639 GATCCACCATGTTCATTTACCAGCAGG-ATTGTT-----------------CTAGATTTGTTA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14911173 62 +  74389097 AGCTCAACATATTCATTTCCCATCAAG-GTTTAAGAGAGCACAGCTGTTTACTGGAATTGTTA
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60536672 58 + 108143057 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e dasNov3.JH567306           2619986 7773 +   3667625 I

a score=2541157.000000
s hg38.chr5_KI270796v1_alt     79186 196 +    172708 GCAAGGCCAATGTTATCTACAAAAT----AAAAAAATTTGGATTAGATAATTTATCAGACCCTTTTTA--------ATTCATATGTTTTGTggtcacataagtttagcttctgagtggctttgttagctttactttgttttatga-ccacagatgtacataccattgactttgcccatcca-tttcataattggaaaacagagaaagagg
s panTro5.chr5             125189271 196 + 181907262 GCAAGGCCAATGTTATCTACAAAAT----AAAAAAATTTGGATTAGATAATTTATCAGACCCTTTTTA--------ATTCATATGTTTTGTggtcacataagtttagcttctgagtggctttgttagctttagtttgttttatga-ccacagatgtacataccattgactttgcccatcca-tttcataattggaaaacagagaaagagg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126526143 196 + 183735486 GCAAGGCCAATGTTATCTACAAAAT----AAAAAAATTTGGATTAGATAATTTATCAGACCCTTTTTA--------ATTCATATGTTTTGTggtcacataagtttagcttctgagtggctttgttagctttagtttgttttatga-ccacagatgtacataccattgactttgcccatcca-tttcataattggaaaacagagaaagagg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1717705 196 +   8933513 GCAAGGCCAATGTTATCTACAAAAT----AAAAAAATTTGGATTAGATTATTTATCAGACCCTTTTTA--------ATTCATATGTTTTGTggtcacataagtttggcttctgagtggctttgttagctttactttgttttatga-ccacagatgtacataccattgactttgcccatcca-tttcataattgGAAAACAGAGAAAGAGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139848462 196 + 163208435 GCAAGGCCAATGTTATCTACAAAAT----AAAAAAATTTGGATTAGATAATTTATCAGATCCTTTTTA--------ACTCATGTGTTTTGTGGTCACATACGTTTAGCTTCTGAGTGGCTTTGTTAGCTTTACTTTGTTTTGTGA-CCACAGATGTACATACCGTTGACTTTGCCCATCCA-TTTCATAATTGGAAAACAGAGAAAGAGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122837265 200 + 180051392 GCAAGGCCAATGTTATCTACAAAATAAAAAAAAAAAAATGGATTAGATAATTTATCAGACCCTTTTTA--------ACTCATATGTTTTGTggtcacatatgtttagcttctgagtggctttgttagctttactttgttttctga-ccacagatgtacataacactgactttgtccatcca-tttcataattggaaaacagagaaagtgg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124260888 197 + 181584905 GCAAGGCCAATGTTATCTACAAAAT---AAAAAAAAAATGGATTAGATAATTTATCAGACCCTTTTTA--------ACTCATATGTTTTGTggtcacatatgtttagcttctgagtggctttgttagctttactttgttttctga-ccacagatgtacataacactgactttgtccatcca-tttcataattggaaaacagagaaagtgg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16258943 196 +  18395747 GCAAGGCCAATGTTATCTACAAAAT----AAAAAAAAATGGATTAGATAATTTATCAGACCCTTTTTA--------ACTCATATGTTTTGTggtcacatatgtttagcttctgagtggctttgttagctttactttgttttctga-ccacaggtgtacataacactgactttgtccatcca-tttcataattggaaaacagagaaagtgg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5270923 197 +  26952557 GCAAGGCCAATGTTATCTACAAAAT---AAAAAAAAAATGGATTAGATAATTTATCAGACCCTTTTTA--------ACTCATATGTTTTGTggtcacatatgcttagcttctgagtggctttgttagctttattttgttttctga-ccacagatgtacataacgttgactttgtccatcca-tttcataattggaaaacagagaaagagg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28373136 197 +  82825804 GCAAGGCCAATGTTATCTACAAAAT---TAAAAAAAAATGGATTAGATAATTTATCAGACCCTTTTTA--------ACTCATATGTTTTGTGGTCACATATGTTTAGCTTCTGAGTGGCTTTGTTAGCTTTACTTTGTTTTCTGA-CCACAGATGTACATAACATTGACTTTGTCCATCCA-TTTCATAATTGGAAAACAGAGAAAGAGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4042010 195 -   4237731 GCAAGGCCAATGTTATCTACAAAAT-----AAAAAAAATGGATTAGATAATTTATCAGACCCTTTTTA--------ACTCATATGTTTTGTggtcacatatgtttagcttctgagtggctttgttagctttactttgttttctga-ccacagatgtacgtaacattgactttgtccatcca-tttcataattggaaaacagagaaagagg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      310553 196 -   1175262 GCAAGGCCAATGCTATCTACAAAAT----AAAAAAAATTGGATTAGATAATTTATCAGACCCTTTTTA--------ACTCATATGTTTTGTggtcacatatgtttagcttctgagtggctttgttagctttactttgttttctga-ccacagatgtacataccattgactttgtccatcca-tttcataattggaaaacagagaaagagg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123657341 198 - 204313951 GCAAGGCCAATGTTATCTACAAAAT----AAAAAAATTTGGAT----TAATTTATCAGATCCTTTTTAACTCATATACTCATATGTTTTGTAGTCACATATGTTTAGCT--TGAGTGGCTTTGCTAGCTTTACTTTATTTTATGA-CCACAGATGTTTACACTATTGACCTTGTCCATCTA-TTTAACAATTGGAAAACAGAGAAAGAAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55701206 202 -  71252344 GCAAGGCCAATGTTATCTACAAAAT----AAAAAAATGTGGATTAGATAATTTATCAGATCCTTTTTAACTCATATACTCATATGTTTTGTAGTCACATATGCTTAGCT--TGAGTGGCTTTGCTAGCTTTACTTTGTTTTATGA-CCACAGGTATACACACTATTGACCTTGCCCGTCTA-TTTATCAATTGGAAAACAGAGAAAGAAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        4240 201 -   3089952 GCAAGGCCAATGTTATCTACAAAAT-----AAAAAATTTGGATTAGATAATTTATCAGGTCCTTTTTAACTCATATACTCATATGTTTTGTAGTCACATATGTTTAGct--tgagtggctttgctagctttactttgctttatga-ccacaggtgtatacagtattgaccttgcctatcta-tttaacaattggaaaacagagaaagaag
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13202196 203 -  42888418 GCAAAGCCAATGTTATCTACAAAAT----AAAAAAATTTGGATTAGATAATTTATCAGATCCTTTTTAACTCATATACTCATATGTTTTGTAGTCACATATGTTTAGct--tgagtggctttgctagctttactttgttttatga-ccacaggtgtacacactattgaccttgcccatctattttaacaattggaaaacagagaaagaag
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60536730 193 + 108143057 gccaggccaaggttatctacaaaat----gaaaaaagttggattagatgatttatcaggctctttcta--------acactaatgttctgtggttacatgTGTCTAGCC--TGAGTGATTCC-ttagctttattttgttttatga-tcacagatgtacatacccttgacctcacacatgca-ttatgtaattggaaaacagagaaagagg
i micMur3.chr12            I 58 I 384
s otoGar3.GL873679           3066391 193 +   4132165 GCAAGGCCAAGGttatctacaaaat----g-aaaaagttggattagatgatttatcagatcatttcta--------acactaatattctgtggtcacatgTGTTTAGCC--TGAGTAGCTCC-TCAGCTTTACTTTGCTTTATTATTTACAGATGTACATACCCTTGACCTCACTCATGAA-TTACATAATTGGAAGATAGAGAAGGAGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55510748 188 +  90702639 TCAAGGCTAAGGTTATCTATAAACC----AAAGAAAGTTAAAGGGGATGATTTATCTCATCCTTTTTA--------ACACTAATGTTCTGTGGTCACATATGTCCAGCCACTGAGTGGCT--GCTAATGCTACTTCATTTTCTAG-CCTCCTACG--AATACCCTTGACCTTCCTCACCCA-TTCAACAA-TGGAAAACAGAGAAGC---
i mm10.chr18               C 0 C 0
s canFam3.chr11             14911235 194 +  74389097 GGAAGGCCAAGACTATTTGTAAAAT---GAAACAAAGTTGGATTAAATGACTTATTGGACCCTTTTTA--------ACACCAATGTTTTGTTGTCATACATATCTAGAGTTGGAGTGGTTTTACTAGCTTTACTTTGTTTTATGA-ACACAGATGTACATGTCTTTGAGCTCACCCATCCA-TTTCATAATTGAAAAACAGAGAAAG---
i canFam3.chr11            C 0 C 0
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e dasNov3.JH567306           2619986 7773 +   3667625 I

a score=1044969.000000
s hg38.chr5_KI270796v1_alt     79382 97 +    172708 taagttaaatagaccgaaaccagctcc-actattggc-aaaccaactATTGATAAGTCATTTTCTCTTGTGAAGGAGAAAAA--------TCTCt-ttt----ttattctta
s panTro5.chr5             125189467 97 + 181907262 taagttaaatagactgaaaccatctcc-actattggc-aaaccaactATTGATTAGTCATGTTCTCTTGTGAAGGAGAAAAA--------TCTCT-TTT----TTAGTCTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126526339 97 + 183735486 taagttaaatagactgaaaccatctcc-actattggc-aaaccaactATTGATTAGTCATGTTCTCTTGTGAAGGAGAAAAA--------TCTCT-TTT----TTAGTCTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1717901 97 +   8933513 TAAGTTAAATAGACCCAAACCATCTCC-ACTATTGGC-AAACCAACTATTGATGAGTCATTTTCTCTTGTGAAGGAGAAAAA--------TCTCT-TTT----TTATTCTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139848658 94 + 163208435 TAAGTTAAATAGACCCAAACCATCTCC-ACTATTGGC-AAACCAACTGTTGATAAGTCATTTTCTCTTGTGAAGGAGAAAAA----------TCT-TTT----TTATTCTT-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122837465 97 + 180051392 taagttaaacagactcaaaccatctac-actattggc-aaaccaactGTTGATAAGTTATTTTCTCTTGTGAAGGAGAAAAG--------TCTCT-TTT----TAATTCTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124261085 97 + 181584905 taagttaaacagactcaaaccatctac-actattggc-aaaccaactGTTGATAAGTTATTTTCTCTTGTGAAGGAGAAAAG--------TCTCT-TTT----TAATTCTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16259139 97 +  18395747 taagttaaacagactcaaaccatctac-actattggc-aaaccaactGTTGATAAGTTATTTTCTCTTGTGAAGGAGAAAAG--------TCTCT-TTT----TAATTCTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5271120 97 +  26952557 taagttaaacagacccaaaccatctac-actattggc-aaaccaactGTTGATAAGTTATTTTCTCTTGTGAAGGAGAAAAG--------TCTCT-TTT----TAATTCTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28373333 97 +  82825804 TAAGTTAAACAGACCCAAACCATCTAC-ACTATTGGC-AAACCAACTGTTGATAAGTTATTTTCTCTTGTGAAGGAGAAAAG--------TCTCT-TTT----TAATTCTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4042205 97 -   4237731 taagttaaacagacccaaaccatctac-actattggc-aaaccaactGTTGATAAGTTATTTTCTCTTGTGAAGGAGAAAAG--------TCTCT-TTT----TAATTCTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      310749 97 -   1175262 taagttaaatagacacaaaccgtctac-actattggc-aaaccaactGTTGATAAGTTATTTTCTCTTGTGAAGGAGAAAAA--------TCTCT-TTT----TAATTCTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123657539 97 - 204313951 TAAGTTAAATAGACACAAATCATCTCC-ACTATTGGC-AAACCAACTGTTGATAAGTCATTTTCTCTTGTGAAGGAGAAAAA--------TCTCT-TTT----TTATTCTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55701408 99 -  71252344 TAAGTTAAATAGACACAAACCATCTTC-ACTATTGGC-AAACCAACTGCTGATAAGTCATTTTCTCTTGTGAAGGAGAAAAAG------CTCTCt-ttt----ttattctga
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        4441 99 -   3089952 taagttaaatagacacaaaccatctcc-actattggc-acaccaactGTTGATAAGTCATTTTCTCTTGTGAAGGAGAAAAAT------CTCTCT-TTt----ttattctta
i cebCap1.NW_016107590v1   C 0 I 11
s aotNan1.NW_018505940v1    13202399 99 -  42888418 taagttaaatagacagaaaccatctcc-actattggc-aaaccaactGTTGATAAGTCATTTTCTCTTGTGAAGGAGAAAAAT------CTCTCT-TTT----TTATTCTTA
i aotNan1.NW_018505940v1   C 0 I 11
s otoGar3.GL873679           3066584 98 +   4132165 TTGTTTAAATAAGCCCAAAC--TCTCC-ACTCTTGGCAAAAACAATTGTTGA-----CATTTTCTTACATAACAAAATAAAATCAATCCCTCTTT-TTT----tgtttgtt-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55510936 93 +  90702639 TGGGT------GATGCAAGCCATCTT---CCACTGAC-AAAACAATTGCTGCCAAGTCGTCTCCTCATTCGGGAGAACAAAG--------TCTCC-TTTACTGTTACTGTTA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14911429 95 +  74389097 -AAGGTACTTAAGCCCAAACCATTCACTACTATTGGC-AAAACA---GTTGATACGTCATTTTCTTATGTGAAGGAACAAAA--------TCTCTCTTT----TTATTCTTA
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60536923 384 + 108143057 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e dasNov3.JH567306           2619986 7773 +   3667625 I

a score=-6603.000000
s hg38.chr5_KI270796v1_alt     79479 6 +    172708 tat-ttt
s panTro5.chr5             125189564 7 + 181907262 TATATTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126526436 7 + 183735486 TATATTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1717998 6 +   8933513 TAt-ttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139848752 6 + 163208435 ttt-ttt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122837562 4 + 180051392 T---ttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124261182 4 + 181584905 T---ttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16259236 4 +  18395747 T---ttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5271217 4 +  26952557 T---ttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28373430 4 +  82825804 t---ttt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4042302 4 -   4237731 t---ttt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      310846 4 -   1175262 t---ttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123657636 2 - 204313951 -----GT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55701507 2 -  71252344 -----gt
i saiBol1.JH378106         C 0 C 0
s otoGar3.GL873679           3066682 3 +   4132165 ----tgt
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55511029 4 +  90702639 ---CTTT
i mm10.chr18               C 0 I 322
s canFam3.chr11             14911524 3 +  74389097 ----TTT
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60536923 384 + 108143057 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e aotNan1.NW_018505940v1    13202498 11 -  42888418 I
e cebCap1.NW_016107590v1        4540 11 -   3089952 I
e dasNov3.JH567306           2619986 7773 +   3667625 I

a score=53237.000000
s hg38.chr5_KI270796v1_alt     79485 9 +    172708 ttttaaatt
s panTro5.chr5             125189571 9 + 181907262 TTTAAAAtt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126526443 9 + 183735486 TTTAAAAtt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1718004 7 +   8933513 ttt--aatt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139848758 9 + 163208435 tttgaaatt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122837566 9 + 180051392 ttttaaatt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124261186 9 + 181584905 ttttaaatt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16259240 9 +  18395747 ttttaaatt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5271221 9 +  26952557 ttttaaatt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28373434 9 +  82825804 tttaaaatt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4042306 9 -   4237731 tttaaaatt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      310850 8 -   1175262 tttaaatt-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123657638 9 - 204313951 TTTTAAAtt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55701509 9 -  71252344 ttttaaatt
i saiBol1.JH378106         C 0 C 0
s otoGar3.GL873679           3066685 9 +   4132165 tttttggtt
i otoGar3.GL873679         C 0 I 6
s canFam3.chr11             14911527 9 +  74389097 TTATTAAtt
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60536923 384 + 108143057 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e aotNan1.NW_018505940v1    13202498 11 -  42888418 I
e cebCap1.NW_016107590v1        4540 11 -   3089952 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55511033 322 +  90702639 I

a score=2145.000000
s hg38.chr5_KI270796v1_alt     79494 6 +    172708 aagaag
s rheMac8.chr6             122837575 6 + 180051392 aaggac
i rheMac8.chr6             C 0 C 0
s macNem1.NW_012012355v1    16259249 6 +  18395747 aaggac
i macNem1.NW_012012355v1   C 0 C 0
s otoGar3.GL873679           3066700 6 +   4132165 aaggag
i otoGar3.GL873679         I 6 C 0
e micMur3.chr12             60536923 384 + 108143057 I
e canFam3.chr11             14911536 0 +  74389097 C
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e gorGor5.CYUI01015135v1     1718011 0 +   8933513 C
e manLeu1.NW_012103321v1     4042315 0 -   4237731 C
e chlSab2.chr23             28373443 0 +  82825804 C
e cerAty1.NW_012002512v1     5271230 0 +  26952557 C
e macFas5.chr6             124261195 0 + 181584905 C
e aotNan1.NW_018505940v1    13202498 11 -  42888418 I
e cebCap1.NW_016107590v1        4540 11 -   3089952 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55511033 322 +  90702639 I
e saiBol1.JH378106          55701518 0 -  71252344 C
e calJac3.chr2             123657647 0 - 204313951 C
e colAng1.NW_012119644v1      310858 0 -   1175262 C
e nomLeu3.chr2             139848767 0 + 163208435 C
e panPan2.chr5             126526452 0 + 183735486 C
e panTro5.chr5             125189580 0 + 181907262 C

a score=603.000000
s hg38.chr5_KI270796v1_alt     79500 13 +    172708 taatttatttatt
s otoGar3.GL873679           3066706 13 +   4132165 aaatttacctact
i otoGar3.GL873679         C 0 I 527
e micMur3.chr12             60536923 384 + 108143057 I
e canFam3.chr11             14911536  0 +  74389097 C
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e gorGor5.CYUI01015135v1     1718011  0 +   8933513 C
e manLeu1.NW_012103321v1     4042315  0 -   4237731 C
e chlSab2.chr23             28373443  0 +  82825804 C
e cerAty1.NW_012002512v1     5271230  0 +  26952557 C
e macNem1.NW_012012355v1    16259255  0 +  18395747 C
e macFas5.chr6             124261195  0 + 181584905 C
e rheMac8.chr6             122837581  0 + 180051392 C
e aotNan1.NW_018505940v1    13202498 11 -  42888418 I
e cebCap1.NW_016107590v1        4540 11 -   3089952 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55511033 322 +  90702639 I
e saiBol1.JH378106          55701518  0 -  71252344 C
e calJac3.chr2             123657647  0 - 204313951 C
e colAng1.NW_012119644v1      310858  0 -   1175262 C
e nomLeu3.chr2             139848767  0 + 163208435 C
e panPan2.chr5             126526452  0 + 183735486 C
e panTro5.chr5             125189580  0 + 181907262 C

a score=0.000000
s hg38.chr5_KI270796v1_alt     79513 6054 +    172708 [encoded data, 6054 characters]
e micMur3.chr12             60536923  384 + 108143057 I
e canFam3.chr11             14911536    0 +  74389097 C
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e gorGor5.CYUI01015135v1     1718011    0 +   8933513 C
e manLeu1.NW_012103321v1     4042315    0 -   4237731 C
e chlSab2.chr23             28373443    0 +  82825804 C
e cerAty1.NW_012002512v1     5271230    0 +  26952557 C
e macNem1.NW_012012355v1    16259255    0 +  18395747 C
e macFas5.chr6             124261195    0 + 181584905 C
e rheMac8.chr6             122837581    0 + 180051392 C
e otoGar3.GL873679           3066719  527 +   4132165 I
e aotNan1.NW_018505940v1    13202498   11 -  42888418 I
e cebCap1.NW_016107590v1        4540   11 -   3089952 I
e dasNov3.JH567306           2619986 7773 +   3667625 I
e mm10.chr18                55511033  322 +  90702639 I
e saiBol1.JH378106          55701518    0 -  71252344 C
e calJac3.chr2             123657647    0 - 204313951 C
e colAng1.NW_012119644v1      310858    0 -   1175262 C
e nomLeu3.chr2             139848767    0 + 163208435 C
e panPan2.chr5             126526452    0 + 183735486 C
e panTro5.chr5             125189580    0 + 181907262 C

a score=21840.000000
s hg38.chr5_KI270796v1_alt     85567 2 +    172708 AA
s panTro5.chr5             125189580 2 + 181907262 aa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126526452 2 + 183735486 aa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1718011 2 +   8933513 aa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139848767 2 + 163208435 aa
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124261195 2 + 181584905 aa
i macFas5.chr6             C 0 C 0
s cerAty1.NW_012002512v1     5271230 2 +  26952557 aa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28373443 2 +  82825804 aa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4042315 2 -   4237731 aa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      310858 2 -   1175262 aa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123657647 2 - 204313951 aa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55701518 2 -  71252344 aa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        4551 2 -   3089952 aa
i cebCap1.NW_016107590v1   I 11 C 0
s aotNan1.NW_018505940v1    13202509 2 -  42888418 aa
i aotNan1.NW_018505940v1   I 11 C 0
s mm10.chr18                55511355 2 +  90702639 AA
i mm10.chr18               I 322 C 0
s canFam3.chr11             14911536 2 +  74389097 aa
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60536923 384 + 108143057 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e macNem1.NW_012012355v1    16259255 0 +  18395747 C
e rheMac8.chr6             122837581 0 + 180051392 C
e otoGar3.GL873679           3066719 527 +   4132165 I
e dasNov3.JH567306           2619986 7773 +   3667625 I

a score=33785.000000
s hg38.chr5_KI270796v1_alt     85569 4 +    172708 GAAG
s panTro5.chr5             125189582 4 + 181907262 gaag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126526454 4 + 183735486 gaag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1718013 4 +   8933513 gaag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139848769 4 + 163208435 ggag
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124261197 4 + 181584905 ggac
i macFas5.chr6             C 0 C 0
s cerAty1.NW_012002512v1     5271232 4 +  26952557 ggag
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28373445 4 +  82825804 ggag
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4042317 4 -   4237731 ggag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      310860 4 -   1175262 ggag
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123657649 4 - 204313951 ggag
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55701520 4 -  71252344 ggag
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        4553 4 -   3089952 ggag
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13202511 4 -  42888418 ggag
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55511357 4 +  90702639 ACAG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14911538 4 +  74389097 agag
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2627759 4 +   3667625 ggaa
i dasNov3.JH567306         I 7773 C 0
e micMur3.chr12             60536923 384 + 108143057 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e macNem1.NW_012012355v1    16259255 0 +  18395747 C
e rheMac8.chr6             122837581 0 + 180051392 C
e otoGar3.GL873679           3066719 527 +   4132165 I

a score=2889919.000000
s hg38.chr5_KI270796v1_alt     85573 257 +    172708 taatttatatacagtgaaa---tactcagatcttaagaaaacagttccatgagtttt-gt-aaatatatacacccatgtaatctatacttcaattaaaatacatgtat---cattttcatcaccttagaaagtacttt-tgtgc--cca------tctagtcaatttccattccaccatacagg---caaccaattttctga---ttttttttcctattgaggagttttTTTC--TAAACACATTTGTTT--------TTAAATTGCCATGCAATATTG-----TACAGAACATC
s panTro5.chr5             125189586 256 + 181907262 taatttatatacagtgaaa---tactcagatcttaagaaaacggttccatgagtttt-gt-aaatatatacacccatgtaatctatacttcaattaaaatacatgtat---cattttcatcaccttagaaagtacttt-tgtgc--cca------tctagtcaatttccattccaccatacagg---caaccaattttctga---ttttttt-cctattgaggagttttTTTC--TAAACACATTTGTTT--------TTAAATTGCCATGCAATATTG-----TACAGAACATC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126526458 256 + 183735486 taatttatatacagtgaaa---tactcagatcttaagaaaacagttccatgagtttt-gt-aaatatatacacccatgtaatctatacttcaattaaaatacatgtat---cattttcatcaccttagaaagtacttt-tgtgc--cca------tctagccaatttccattccaccatacagg---caaccaattttctga---ttttttt-cctattgaggagttttTTTC--TAAACACATTTGTTT--------TTAAATTGCCATGCAATATTG-----TACAGAACATC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1718017 256 +   8933513 taatttatatacagtgaaa---tactcagatcttaagaaaacagttccatgagtttt-gt-aaatatatacacccatgtaatctatacttcgattaaaatacatgtat---cattttcatcaccttagaaagtacttt-tgtgc--cca------tctagtcaatttccattccaccatacaga---caaccaattttctga---ttttttt-cctattgaggagttttTTTC--TAAACACATTTGTTT--------TTAAATTGCCATGCGATATTG-----TACAGAACATC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139848773 256 + 163208435 taatttatatacagtgaaa---tgctcagatcttaagaaaagagttccgtgagtttt-gt-aaagatgtacacccgtgtaacctatacttcaattaaaatatatgtat---cattttcatcaccttagaaagtacttt-tgtgc--cca------tctagtcaatttctgttccaccatacagg---caaccaaatttctga---ttttttt-cctatcgatgagttttTTTC--TAAACACATTTGTTT--------TTAAATTGCCATGCAATATTG-----TACAGAAGATC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122837581 257 + 180051392 taatttatatacagtgaaa---tgctcagatcttgagaaaacagttccatgagtttt-gt-aaatatatacacccatgtaacctatacttcaattaaaatatatgtat---cattttcatcaccttagaaagtacttt-tgtgc--cca------tctagtcaacttccattccaccctacagg---caaccaatcttctga---tgttttttccaattgacgagttttTTTC--TAAACACATTTGTTT--------TTAAATTGCCATGCAATATTG-----TACAGAACATC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124261201 257 + 181584905 taatttatatacagtgaaa---tgctcagatcttgagaaaacagttccatgagtttt-gt-aaatatatacacccatgtaacctatacttcaattaaaatatatgtat---cattttcatcaccttagaaagtacttt-tgtgc--cca------tctagtcaatttccattccaccctacagg---caaccaatcttctga---tgttttttccaattgacgagttttTTTC--TAAACACATTTGTTT--------TTAAATTGCCATGCAATATTG-----TACAGAACATC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16259255 257 +  18395747 taatttatatacagtgaaa---tgctcagatcttgagaaaacagttccatgagtttt-gt-aaatatatacacccatgtaacctatacttcaattaaaatatatgtat---cattttcatcaccttagaaagtacttt-tgtgc--cca------tctagtcaatttccattccaccctacagg---caaccaatcttctga---tgttttttccaattgacgagttttTTTC--TAAACACATTTGTTT--------TTAAATTGCCATGCAATATTG-----TACAGAACATC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5271236 257 +  26952557 taatttatatacagtgaaa---tgctcagatcttgagaaaacagttccatgagtttt-gt-aaatatatacacccatgtaacctatacttcaattaaaatatatgtat---cattttcatcaccttagaaagtacttt-tgtgt--cca------tctagtcaatttccattccaccctacagg---caaccaatcttctga---ttttttttccaattgacgagttttTTTC--TAAACACATTTGTTT--------TTAAATTGCCATGCAATATTG-----TACAGAACATC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28373449 257 +  82825804 taatttatatacagtgaaa---tgctcagatcttgagaaaacagttccatgagtttt-gt-aaatatatacacccatgtaacctatacttcaattaaaatatatgtat---cattttcatcaccttagaaagtatttt-tgtgc--cca------tctagtcaatttccattccaccctacagg---caaccaatcttctga--tttttttttccaattgatgag-ttttttc--tAAACACATTTGTTT--------TTAAATTGCCATGCAATATTG-----TACAGAACATC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4042321 257 -   4237731 taatttatatacagtgaaa---tgctcagatcttgagaaaacagttccatgagtttt-gt-aaatatatacacccatgtaacctatacttcaattaaaatatatgtat---cattttcatcaccttagaaagtacttt-tgtgc--cca------tctagtcaatttccattccaccctacagg---caaccaatcttctaa---ttttttttccaattgacgagttttTTTC--TAAACACATTTGTTT--------TTAAATTGCCATGCAATATTG-----TACAGAACATC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      310864 257 -   1175262 taatttatatacagtgaaa---tgctcagatcttaagaaaacagttccatgagtttt-gt-aaatatatacacccatgtaacctataattcaattaaaatatatgtat---cattttcatcaccttagaaagtacttt-tgtgc--cca------tctagtcaatttccattccaccctacagg---caaccaatcttctga---ttttttttcctattgatgagttttTTTC--TAAACACATTTGTTT--------TTAAATTGCCATGCAATATTG-----TACAGAACATC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123657653 264 - 204313951 taatttatatacagtgaaa---tgctcacatcttaagaaaactgttccatgagtttt-gt-aaatatatacgcccacgtaacctacacttcaatcaaaatatttgtat---cattttcatcaccttaaaaagttcttt-tgtgt--cca------tttagtcaatttcctttccaccctacagg---caaccaatttcctga----ttttttttgtattgatgagttttTTTG--TGAACACATTTGTTTTTTGTTTGTTAAATTGCCATGCAATATCG-----TACAGAATATC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55701524 258 -  71252344 taatttatatacagtgaaa---tgatcagatcttaagaaaacagttccatgagtttt-gt-aaatatatacacccatgtaacctacacttcaatcaaaatatttgtat---cattttcatcaccttaaaaagttattt-tgtgc--cca------tttagtcaatttccttttcaccctacagg---caaccagtttcctga-----tatttttgtattgatgagtttttttt-ctgaacaCATTTGTTTTT------TTAAATTGCCATGCAATATTG-----TACAGAATATC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        4557 261 -   3089952 taatttatatacagtgaaa---tgctcagatcttaagaaaacagttctgtgagtttt-gt-aaatatacacacccatgtaacctacacttcaatcaaaatatttgtat---cattttcgtcaccttaaaaagttcttt-tgtgc--cca------tttagtcaatttcctttccaccctacagg---caaccaatttcctgattttttttttttgtatggatgagttttTTTC--TGAACACATTTGTTTT-------TTAAATTGCCATGCAATATTG-----TACAGAATATC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13202515 257 -  42888418 taatttatatacagtgaaa---tgctcagatctttagaaaacagttccatgagtttt-gt--aatatatacacccatgtaacctatacttcaatcaaaatatttgtat---cattttcatcaccttaaaaagttcttt-tgtgc--cca------tttagtcaatttcctttctaccctacagg---caaccaatttcctga-----ttattttgtattgatgagttttTTTTTCTGAACACATTTGTTTT-------TTAAATTACCATGCAATATTG-----TACAGAATATC
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55511361 250 +  90702639 TAATTTATGTGAAAAAAAAACCTGCTCAAATCTTGATCAGA--GTTC--TGAGTTTC-ATTAAATACATAAACACATCTAATTCATGCTTAAATCACAGCACA---GT---CTTTCCAACTGATCCAGAAAAAAATGT-CTTTC--ACACTGCTTTCAGGTCCTTCCCCTTGTCACTCTGGAGT---CTACCATTTCTATGG------------------ATTAGCTTTCCTA--AGAACACATCTGCTT--------TTATATTTCCAAGTAATATAGTATAATATAGCACATC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14911542 265 +  74389097 taatttacatccaatgaaa---tgcttagatattgagaatatggtgctatgagttttaat-aaatatgtacactaatgtaacctacacttcaatcaagttctagata-----atttccattcccccaggaagtgctctctgcct--ctt------tccagtcaataccctccccaccctacaggtaacaactgctcttctga---ttcctattgccatagattagttttcctg--tGAGCATATTTGCTT--------TAAAATTGCCAACCAATATAGTTTAATACAACATATC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2627763 267 +   3667625 taaattac-tacagtgaaa---tgctcagattgtaacaacacagttaaatgagttttaat-aaatatttaaacctgtgtaattcataccccaatcaagacataaatatagacatttttatcactgcagaagtttcttt-tgtgcatctt------cccagtcaatcccctccccacttcagaag---taaccaggcttctga---tttctatccccaaatattcattttcctg--tGAAAACATTTGCTT--------CTAAATTGCCAAGCAATGTAGTAGAATACAGGATATC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60536923 384 + 108143057 I
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3066719 527 +   4132165 I

a score=753788.000000
s hg38.chr5_KI270796v1_alt     85830 56 +    172708 AGAAAAACAAATGGTATTGCTTTTGGAGTTGAAGATTTAGGTCTAATTT-TATAATG
s panTro5.chr5             125189842 56 + 181907262 AGAAAAACAAATGGTATTGCTTTTGGAGTTGAAGATTTAGGTCTAATTT-TATAATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126526714 56 + 183735486 AGAAAAACAAATGGTATTGCTTTTGGAGTTGAAGATTTAGGTCTAATTT-TATAATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1718273 56 +   8933513 AGAAAAACAAATGGTATTGCTTTTGGAGTTGAAGATTTAGGTCTAATTT-TATAATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139849029 56 + 163208435 AGAAAAACAAATGGTATTGCTTTTGGAGTTGAAGATTTAGGTCTAATTT-TATAATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122837838 56 + 180051392 AGAAAAACAAATAGTATTGCCTTTGGAGTTGAAGACTTAGGTCTAATTT-TATAAAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124261458 56 + 181584905 AGAAAAACAAATAGTATTGCCTTTGGAGTTGAAGACTTAGGTCTAATTT-TATAAAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16259512 56 +  18395747 AGAAAAACAAATAGTATTGCCTTTGGAGTTGAAGATTTAGGTCTAATTT-TATAAAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5271493 56 +  26952557 AGAAAAACAAATAGTATTGCCTTTGGAGTTGAAGACTTAGGTCTAATTT-TATAAAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28373706 56 +  82825804 AGAAAAACAAATAGTATTGCCTTTGGAGTTGAAGACTTAGGTCTAATTT-TATAAAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4042578 56 -   4237731 AGAAAAACAAATAGTATTGCCTTTGGAGTTGAAGACTTAGGTCTAATTT-TATAAAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      311121 56 -   1175262 AGAAAAACAAATAGTATTGCTTTTGGAGTTGAAGACTTAGGTCTAATTT-TCTAAAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123657917 56 - 204313951 AGAAAAACAAACAGTATTGCTTTTGGAGTTGAAGATTTAGGTCTAATTT-GATAACA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55701782 56 -  71252344 AGAAAAACAAATAGCCTTGCTTTTGGAGTTGAAGATTTAGGTCTAATTT-GATAACA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        4818 56 -   3089952 AGAAAAACAAATAGTATTGCTTTTGGAGTTGAAGATTTAGGTCTAATTT-GATAACA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13202772 56 -  42888418 AGAAAAACAGATAGTATTGCTTTTGGAGTTGAAGATTTAGGTCTAATTT-GATAATA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60537307 54 + 108143057 AGAAAAGCAAATAATATTGCTTTTGGAACTGAAGTCTAAGGTCTAATTTGTATA---
i micMur3.chr12            I 384 C 0
s mm10.chr18                55511611 56 +  90702639 AGAAAAATAAATACTACTGCCTTTGCAATTGTAATCTTTGGTCTAATTT-TCCTAAT
i mm10.chr18               C 0 I 4
s canFam3.chr11             14911807 52 +  74389097 AGAAAAACAAATAGTACTGTTTT-----CTGAAGTGTTAGGTCCAATTTATACAATA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2628030 57 +   3667625 AGAAAAACAAATAGTAGCACTTTTGGAGTTGAAGTCTTAGATCTAATTTATATAATA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3575568 3658 +  11683526 I
e otoGar3.GL873679           3066719 527 +   4132165 I

a score=437094.000000
s hg38.chr5_KI270796v1_alt     85886 26 +    172708 CTTGGATTCATCTAACAATATAAAAT
s panTro5.chr5             125189898 26 + 181907262 CTTGGATTCGTCTAACAATATAAAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126526770 26 + 183735486 CTTGGATTCGTCTAACAATATAAAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1718329 26 +   8933513 CCTGGATTCATCTAACAATATAAAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139849085 26 + 163208435 ATTGGATTCATCTAACAATATAAAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122837894 26 + 180051392 CTTGGATTCATCTAACAATATAAAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124261514 26 + 181584905 CTTGGATTCATCTAACAATATAAAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16259568 26 +  18395747 CTTGGATTCATCTAACAATATAAAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5271549 26 +  26952557 CTTGGATTCATCTAACAATATAAAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28373762 26 +  82825804 CTTGGATTCATCTAACAATATAAAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4042634 26 -   4237731 CTTGGATTCATCTAACAATATAAAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      311177 26 -   1175262 CTTGGATTCATCTAACAATATAAAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123657973 26 - 204313951 CTTGGATTCATCTTTCAATATAAAAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55701838 26 -  71252344 CTTGGATTCATCTTTCAATATAAAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        4874 26 -   3089952 CTTGGATTCATCTTTCAATGTAAAAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13202828 26 -  42888418 CTTGGATTCATCTTTCAATGTAAAAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60537361 26 + 108143057 CTTGGATTCATCTGACAATATAAAAT
i micMur3.chr12            C 0 I 187
s proCoq1.NW_012155062v1     3579226 26 +  11683526 CTTGGATTCATCTGACAATATAAAAT
i proCoq1.NW_012155062v1   I 3658 I 194
s mm10.chr18                55511671 26 +  90702639 CTTGGGTTAATCTGACAATATAAAAT
i mm10.chr18               I 4 I 1
s canFam3.chr11             14911859 26 +  74389097 CTTGGATTCATCTGACAGTATGAAGT
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2628087 26 +   3667625 TTTGGATTCACCTGACAATATAAAAT
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3066719 527 +   4132165 I

a score=2208378.000000
s hg38.chr5_KI270796v1_alt     85912 226 +    172708 -TTCATTACTAAGCAAATAATACTATGCCAATTTCATTCATCTATTG-AATACTGA----TTTTTAAAATGTCTTCTGAGAGAGG--AAAGTATGAGTCCAAAGGCCTTG---------GGTTTTTCACAAGGTTTGCATGAATTTCCGTAAATAATGGAATTTTTCATGCTCTCTCTCTCtctctc--cctctctctgtctctcattcctcatatgcaaattgagagaatcagactaatggttt
s panTro5.chr5             125189924 228 + 181907262 -TTCATTACTAAGCAAATAATACTATGCCAATTTCATTCATCTATTG-AATACTGA----TTTTTAAAACGTCTTCTGAGAAAGG--AAAGCGTGAGTCCAAAGGCTTTG---------GGTTTTTCACAAGGTTTGCATGAATTTCCGTAAATAATGAAATTTTTCATGctctctctctctctctctccctctctctgtctctcAttcctcatatgcaaattgagagaatcagactaatggttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126526796 228 + 183735486 -TTCATTACTAAGCAAATAATACTATGCCAATTTCATTCATCTATTG-AATACTGA----TTTTTAAAACGTCTTCTGAGAAAGG--AAAGCGTGAGTCCAAAGGCCTTG---------GGTTTTTCACAAGGTTTGCATGAATTTCCGTAAATAATGAAATTTTTCATGctctctctctctctctctccctctctctgtctctcAttcctcatatgcaaattgagagaatcagactaatggttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1718355 216 +   8933513 -TTAATTACTAAGCAAATAATACTATGCCAATTTCATTCATCTGTTG-AATACTGA----TTTTTAAAACGTCTTCTGAGAGAGG--AAAACATGAGTCCAAAGGCCTTG---------GGTTTTTCACAAGGTTTGCATGAATTTCCGTAAATAATGGAATTTTTCATGCTCTCTC------------TCTctctctgtctctcattcctcatatgcaaattgagagaatcagactaatggttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139849111 214 + 163208435 -TTAATTACTAGTCAAATAATACTATGCCAATTTCATTCATCTGTTG-AATACTGA----TTTTTAAAACATCTTCTGAG--AGG--AAAACATGAGTCCAAAGGCCTTG---------GGTTTTTCACAAGGTTTGCATGAATTTCCATAAATAATGGAATTTTTCTTGCTCTCTC------------TCTctctctctctctcattcctcatatgcaaattgagagaatcagactaatggtgt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122837920 218 + 180051392 -TTAATTACTAGTTAAATAATACTATGCCAATTTCATTCATCTGTTG-AATACTGA----TTTTTAAAACATCTTCTGAGAGAGG--AAAACATGAGTCCAAAGGCCTTGGGTTTTCACGGTTTTTCACAAGGTTTGCATGAATTTCCGTAAATAATGGAATTTCtcat------tc------------tctctctctctctctcattcctcatatgcaaattgagagaatcagactaatggc-t
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124261540 218 + 181584905 -TTAATTACTAGTTAAATAATACTATGCCAATTTCATTCATCTGTTG-AATACTGA----TTTTTAAAACATCTTCTGAGAGAGG--AAAACATGAGTCCAAAGGCCTTGGGTTTTCACGGTTTTTCACAAGGTTTGCATGAATTTCCGTAAATAATGGAATTTCtcat------tc------------tctctctctctctctcattcctcatatgcaaattgagagaatcagactaatggc-t
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16259594 218 +  18395747 -TTAATTACTAGTTAAATAATACTATGCCAATTTCATTCATCTGTTG-AATACTGA----TTTTTAAAACATCTTCTGAGAGAGG--AAAACATGAGTCCAAAGGCCTTGGGTTTTCACGGTTTTTCACAAGGTTTGCATGAATTTCCGTAAATAATGGAATTTCtcat------tc------------tctctctctctctctcattcctcatatgcaaattgagagaatcagactaatggc-t
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5271575 220 +  26952557 -TTAATTACTAGTTAAATAATACTATGCCAATTTCATTCATCTGTTG-AATACTAA----TTTTTAAAACATCTTCTGAGAGAGG--AAAACATGAGTCCAAAGGCCTTGGGTTTTCACGGTTTTTCACAAGGTTTGCATGAATTTCCGTAAATAATGGAATCTCTCAT----TCTC------------TCTctctctctctctcattcctcatatgcaaattgagagaatcagactaatggc-t
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28373788 216 +  82825804 -TTAATTACTAGTTAAATAATACTATGCCAATTTCATTCATCTGTTG-AATACTGA----TTTTTAAAACATCTTCTGAGAGAGG--AAAACACGAGTCCAAAGGCCTTGGGTTTTCACGGTTTTTCACAAGGTTTGCATGAATTTCTGTAAATAATGGAATTTCTCAT--------------------TCTctctctctctctcattcctcatatgcaaattgagagaatcagactaatggc-t
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4042660 218 -   4237731 -TTAATTACTAGTTAAATAATACTATGCCAATTTCATTCATCTGTTG-AATACTAA----TTTTTAAAACATCTTCTGAGAGAGG--AAAACATGAGTCCAAAGGCCTTGGGTTTTCACGGTTTTTCACAAGGTTTGCATGAATTTCCATAAATAATGGAATTTCtcat------tc------------tctctctctctctctcattcctcatatgcaaattgagagaatcagactaatggc-t
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      311203 218 -   1175262 -TTAATTACTAGTCAAATAATACTATGCCAATTTCATTCATCTGTTG-AATACTGA----TTTTTAAAACATCTTCTGAGAGAGG--AAAACATGAGTCCAAAGGCCTTGGGTTTTCACGGTTTTTCACAAGGTTTGCATGAATTTCTGTAAATAATGGAATTTCtcat------tc------------tctctctctctctctcattcctcatatgcaaattgagagaattagactaatggc-t
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123657999 214 - 204313951 -CTAACTACTAGTCAAATAATACTATGCTAATTTCATGCATCTGTTG-AATACTGA----TTTTTAAAACATCTTCTGAGAAAGG--TAAACATGAGTTTAAAGGCCTGGTGTTTCCAGGTTTTTTCACAAGATTTGCATACATTTTCATAAATAAAGGAATTTCTCAT--------------------G--ctctctctctcttattcctcatgtgcaaattgagagaatcagactaattgc-t
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55701864 214 -  71252344 -CTAACTACTAGTCAAATAATACTATGCTAATTTCATGCATCTGTTG-AATACTGA----TTTTTAAAACGTCTTCTgagagagg--taaacatgagtccaaaggcctgaggtttccaggttttttcacaagatttgcatggatttccgtaaataaaggaatttctcat--------------------gctctctctctctcttattcct--tgtgcaaattgagagaatcagactaatggc-t
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        4900 213 -   3089952 -CTAACTACTAGTCAAATAATACTATGCCAATTTCATGCATCTGTTG-AATACTGA----TTTTTAAAATATCTTCTgagagagg--taaacatgagtccaaagacctggggtttccaggttttttcacaagatttgcatgaatttccgtaaataaa-gaatttctaat--------------------g--ccctttctctcttattcctcatgtgcaaattgagagaatcagactaatggc-t
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13202854 214 -  42888418 -CTAACTACTAGTCAAATAATACTATGCTAATGTCATGCATCTGTTG-AATACTGA----TTTTTAAAACATCTTCTgagagagg--taaacacgagtccaaaggcctggggtttccaggttttttcacaagatttgcatgaatttctgtaaataaaggaatttctcat--------------------g--ctctctctctcttattcctcatgtgcaaattgagagaatcagactaatggc-t
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55511698 210 +  90702639 -TAATCCAAAATTCAGCTGATACAATGGCAATTTC-TTCATCTTCTACAATATTGATTTTTTTTTAAAATGTCCTCTGAGA-AAC--TCAACACCAATCTAGATACCAGGAAGTTTCAGGTTTTGATAC-AGACTTTCATGGTTTTCTATAAATCATGGGCTCTCTT-T--------------------GTGCCCTTCTGCTTTTATTC-----ACAGAAATGGAGAG--TCAGACTATGGCC-T
i mm10.chr18               I 1 C 0
s canFam3.chr11             14911886 176 +  74389097 -TAATCTAGTAGTCAAATAATACCATGGTGATTTCAT-CATCTGCTGAAATACTGA----TTTTTAAAACAATCTCTGAGAAAGGATAAAAAATGAATTTAGAGTTCTAAGGTTTCCAAGTTTTATCACTAAGTTTCTGTGA--CTCTGCAAATTGTGAAATCTCTTAT--------------------ACCTTCCCTTTCTCT-----------------------------------------
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2628113 209 +   3667625 GTAATCTAGTAGTCAAATAATACCATGCCAATTTCAT-CATCTGCTGaaatattta----tttttaaaatatCTTCTGAGAGAAG--GAAA-ATGAGTCTAGAGATGTAGAGTTTCTAGCTATTCTTACTAGGTTTATACATATTTCTGAAAATCATGGAATCTCTCCT--------------------GTTTTc-------ctctttcctcatgtacgaattgagagggttggacaagtagt-c
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60537387 187 + 108143057 I
e proCoq1.NW_012155062v1     3579252 194 +  11683526 I
e otoGar3.GL873679           3066719 527 +   4132165 I

a score=89703.000000
s hg38.chr5_KI270796v1_alt     86138 7 +    172708 tctaaga
s panTro5.chr5             125190152 7 + 181907262 tctgaga
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126527024 7 + 183735486 tctaaga
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1718571 7 +   8933513 tctaaga
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139849325 7 + 163208435 tctaaga
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122838138 7 + 180051392 tctaaga
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124261758 7 + 181584905 tctaaga
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16259812 7 +  18395747 tctaaga
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5271795 7 +  26952557 tctaaga
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28374004 7 +  82825804 tctaaga
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4042878 7 -   4237731 tctaaga
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      311421 7 -   1175262 tctaaga
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123658213 7 - 204313951 gctgaga
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55702078 7 -  71252344 tctgaga
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        5113 7 -   3089952 tctgaga
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13203068 7 -  42888418 tctgaga
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60537574 7 + 108143057 tctaagg
i micMur3.chr12            I 187 C 0
s mm10.chr18                55511908 6 +  90702639 -CTAACA
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2628322 7 +   3667625 tctaagg
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14912062 0 +  74389097 C
e proCoq1.NW_012155062v1     3579252 194 +  11683526 I
e otoGar3.GL873679           3066719 527 +   4132165 I

a score=392803.000000
s hg38.chr5_KI270796v1_alt     86145 36 +    172708 aaggcatcttacagatttaacattctttgatgctgt
s panTro5.chr5             125190159 34 + 181907262 aaggcatcttacagatttaaca--ctttgatgctgt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126527031 34 + 183735486 aaggcatcttacagatttaaca--ctttgatgctgt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1718578 36 +   8933513 aaggcatcttacagatttaatactctttgatgctgt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139849332 36 + 163208435 aaggcatcttacagatttaacactctttgatgctgt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122838145 36 + 180051392 aagacatcttctagatttaacactctttgatgctgt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124261765 36 + 181584905 aagacatcttctagatttaacactctttgatgctgt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16259819 36 +  18395747 aagacatcttctagatttaacactctttgatgctgt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5271802 36 +  26952557 aaaacatcttctagatttaacactctttgatgctgt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28374011 36 +  82825804 aagacatcttctagatttaacactctttgatgctgt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4042885 36 -   4237731 aagacatcttctagatttaacactctttgatgctgt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      311428 36 -   1175262 aagacatcttctagttttaacactctttgatgctgt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123658220 35 - 204313951 aagccttcttcca-atttaacactctttgatgctgt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55702085 33 -  71252344 aaggcttcttcca-atttaacactc--tgatgctgt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        5120 35 -   3089952 aaggcttcttcca-atttaacactctttgatgctgt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13203075 35 -  42888418 aagccttcttcca-atttaacactctttgatgctgt
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60537581 36 + 108143057 aaggcaccttccaggtttaacactctttgatgctTT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3579446 36 +  11683526 aaggcaccttccaggtttaacactctttgatgcttt
i proCoq1.NW_012155062v1   I 194 C 0
s mm10.chr18                55511914 18 +  90702639 CAGGTAACCACTATCTCT------------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14912062 10 +  74389097 --------------------------TTGATGCTAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2628329 36 +   3667625 aaggtcccttccatatttaatactctttgatgctag
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3066719 527 +   4132165 I

a score=1811693.000000
s hg38.chr5_KI270796v1_alt     86181 135 +    172708 ATTGTTTCCTCAGAGCACTACATCTAAAACACCTTATAAATCCAAAAT--AAGTCATTACTTTTT-------------TTAATA----------TCCTTTGAATTATGTGGATGTTTATGTGGTTGTT-GTAGAATGTGATACC-TATG-AAAG--AAAAAAAAT
s panTro5.chr5             125190193 135 + 181907262 ATTGTTTCCTCAGAGCGCTACATCTAAAACACCTTATAAATCCAAAAT--AAGTCATTACTTTTT-------------TTAATA----------TCCTTTGAATTATGTGGATGTTTATGTGGTTGTT-GTAGAATGTGATACC-TATG-AAAG--AAAAAAAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126527065 135 + 183735486 ATTGTTTCCTCAGAGCGCTACATCTAAAACACCTTATAAATCCAAAAT--AAGTCATTACTTTTT-------------TTAATA----------TCCTTTGAATTATGTGGATGTTTATGTGGTTGTT-GTAGAATGTGATACC-TATG-AAAG--AAAAAAAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1718614 133 +   8933513 ATTGTTTCCTCAGAGCACTACATCTAAAACACCTTATAAATCCAAAAT--AAGTCATTAC-TTTT-------------TTAATA----------TCCTTTGAATTATGTGGATGTTTATGTCGTTGTT-ATAGAATGTGATACC-TATG-AAAG---AAAAAAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139849368 134 + 163208435 ATTGTTTCCTCAGAGCACTACATCTAAAACACCTTATAAATCCAAAAT--AAGTCATTAATTTTT-------------TTAATA----------TCCTTTGAATTGTGTGGATGTTTATGTGGTTGTT-GTAGAATGTGATACC-TACG-AAAG---AAAAAAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122838181 139 + 180051392 ATTGTTTTCTCAGAGCACTACATCTAAAACACATTATGCATCCAAAATGAAAGTCATTACTTTTT-------------AAAATA----------TCCTTTGAATTATGTGGACGTTTATGTGGTTGTT-GTAGAATGTGATACC-TATG-AAAGAAAAAAAAATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124261801 139 + 181584905 ATTGTTTTCTCAGAGCACTACATCTAAAACACATTATGCATCCAAAATGAAAGTCATTACTTTTT-------------AAAATA----------TCCTTTGAATTATGTGGACGTTTATGTGGTTGTT-GTAGAATGTGATACC-TATG-AAAGAAAAAAAAATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16259855 139 +  18395747 ATTGTTTTCTCAGAGCACTACATCTAAAACACATTATGCATCCAAAATGAAAGTCATTACTTTTT-------------AAAATA----------TCCTTTGAATTATGTGGACGTTTATGTGGTTGTT-GTAGAATGTGATACC-TATG-AAAGAAAAAAAAATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5271838 138 +  26952557 ATTGTTTTCTCAGAGCACTACATCTAAAACACATTATGCATCCAAAATGAATGTCATTACTTTTT-------------AAAATA----------TCCTTTGAATTATGTGGATGTTTATGTGGTTGTT-GTAGAATGTGATATC-TATG-AAAG-AAAAAAAATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28374047 139 +  82825804 ATTGTTTTCTCAGAGCACTACGTCTAAAACACATTATGCATCCAAAATGAAAGTCATTACTTTTT-------------AAAATA----------TCCTTTGAATTATGTGGACGTTTATGTGGTTGTT-GTAGAATGTGATACC-TATG-AAAGAAAAAAAAATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4042921 139 -   4237731 ATTGTTTTCTCAGAGCACTACATCTAAAACACATTATGCATCCAAAATGAATGTCATTACTTTTT-------------AAAATA----------TCCTTTGAATTATGTGGACGTTTATGTGGTTGTT-GTAGAATGTGATACC-TATG-AAAGAAAAAAAAATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      311464 138 -   1175262 ATTGTTTTCTCAGAGCACTACATCTAAAACACATTATGCATCCAAAATGAAAGTCATTACTTTTT-------------AAAATA----------TCCTTTGAATTACGTGGATGTTTATGTGGTTGTTGGTAGAATGTGATACC-TATG-AAAG--AAAAAAATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123658255 134 - 204313951 ATTGTTATCTCAGAGCAGTATATCTAAAATGCATTATAAATCCAAAATAAAAGTCATTACTTTTT-------------TTAATG----------TCCTTTGGATTACATGGAAGTTTATGTGGATGTT-GTAGAATGTGATACC-TAT-----G-AAAAAAAATT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55702118 127 -  71252344 ATTGTTTTCTCAGAGCAGTATATCTAAAATACATTATAAATCCAAAATAAAAGTCATTACATTTT-------------TTAATG----------TCCTTTGGA-----------TTTATGTGGATGTT-GTAGAATGTGGTACC-TATG-AAAG-AAAAAAAATT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        5155 138 -   3089952 ATTGTTTTCTCAGAGCAGTACATCTAAAACACATTATAAATCCAAAATAAAAGTCATTACATTTT-------------TTAATG----------TCCTTTGGATTATGTGGAAGTTTATGTGGATGTT-GTAGAATATGATACC-TATG-AAAG-AAAAAAAATT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13203110 135 -  42888418 ATTGTTTTCTAAGAGCAGTATATCTAAAATGCATTATAAATCCAAAATAAAAGTCATTACTTTTT-------------TTAATG----------TCCTTTGGATTATGTGGAAGTTTATATGGATGTT-GTAGAATGTGATACC-TACG----G-AAAAAAAATT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60537617 140 + 108143057 A-CATTTTCTCAGAGCACTACATTGAAAACACATTATAAATACAAAATAAAAGTCATTACTTTTT--------AAACAAAATTG----------TACTTTGGATTGTGTGGAAATCTGTGTAGATGTT-GTAGAATGAGATGCC-TATA-AAAT---AAAAAATT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3579482 141 +  11683526 atcattTTCTCAGAGCACTACATTTAAAACACATTATAAATCCAAAATAAAAGTCATTACTTTTT--------AAACAAAATTG----------TCCTTTGGATTATGTGGAAATCTACATAGATGTT-GTAGAATGAGATGCC-TATA-AAAG---AAAAAATT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3067246 142 +   4132165 ATCATTTTCTCAGAGCACTACATTTAAAAGACATTAGAAATTCACAATAAAAGTAATTACTTTTT---------AACAAAATTA----------TTCTTCGGATCATGGGGAAATCTATGTAGATGTT-ATAGAATGAGATGCCTTATACAAGG---AAAAAATT
i otoGar3.GL873679         I 527 C 0
s mm10.chr18                55511932 144 +  90702639 ATTGTTTTCTCAGAACACTATAATTAAAA----------------AATAAATGTCATTCCTTCTGGAAAAACAAAACAAAAATAACTCATGCACTCCTTTGGATTACATGGAAATTTATGTGATTATT-ATATAATAAGATACT-CAGA-AAAG-AAAAAATAT-
i mm10.chr18               C 0 I 3525
s canFam3.chr11             14912072 134 +  74389097 ATTGTTCATTCATAACACTGTATTTAAAACACATTATAAACTCAAAAT-AAAGTCAAGACTTAAA-------------AAATTG----------TCCTTTG-ATTATGTGGAAGTCTATGTCAATGTT-GTAGAATGAGGCATC-TATA-GAAG---AACAAATT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2628365 114 +   3667625 attGTTTTCTCTGAGCACTGCAGTTAAGACACAATATAAAGCCAAAAGAAAATTCATTATTTTTT-------------AAAAAT----------T------------------GTCTTTGTGGATGCT-GTAGAATGAGAAACC-TCTG-AAAG---AAAA----
i dasNov3.JH567306         C 0 C 0

a score=638637.000000
s hg38.chr5_KI270796v1_alt     86316 40 +    172708 AATTTCAAAGTCCTTTGTTCAGTTAGTATCCATTTATTTA
s panTro5.chr5             125190328 40 + 181907262 AATTTCAAAGTCCTTTGTTCAGTTAGTATCCATTTATTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126527200 40 + 183735486 AATTTCAAAGTCCTTTGTTCAGTTAGTATCCATTTATTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1718747 40 +   8933513 AATTTGAAAGTCCTTTGTTCAGTTAGTATTCATTTATTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139849502 40 + 163208435 AATTTCAAAGTCCTTTGTTCAGTTAGTATCCATTTATTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122838320 40 + 180051392 AATTTCAAAGTCCTTTGCTCAGTTAGTATCCATTTATTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124261940 40 + 181584905 AATTTCAAAGTCCTTTGCTCAGTTAGTATCCATTTATTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16259994 40 +  18395747 AATTTCAAAGTCCTTTGCTCAGTTAGTATCCATTTATTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5271976 40 +  26952557 AATTTCAAAGTCCTTTGCTCAGTTAGTATCCATTTATTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28374186 40 +  82825804 AATTTCAAAGTCCTTTGCTCAGTTAGTATCCATTTATTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4043060 40 -   4237731 AATTTCAAAGTCCTTTGCTCAGTTAGTATCCATTTATTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      311602 40 -   1175262 AATTTCAAAGTCCTTTGCTCAGTTAGTATCCATTTATTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123658389 40 - 204313951 AATTTCAAAGTCATTTGTTCAGTTAGTATGCATTTATTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55702245 40 -  71252344 AATTTCAGAGTCATTTGTTCAGTTAGTATGCATTTATTCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        5293 40 -   3089952 AATTTCAGAGTCATTTGTTCAGTTAGTATGCATTTATTCA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13203245 40 -  42888418 AATTTCAAAGTCATTTGTTCAGTTAGTATGCATTTATTTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60537757 40 + 108143057 AATTTCAAAGTCATTAGTTCAGTCAGTATTCATTTATTTA
i micMur3.chr12            C 0 I 519
s proCoq1.NW_012155062v1     3579623 40 +  11683526 AATTTCGAAGTCATTAGTTCAGTCAGTATTCATTTATTTA
i proCoq1.NW_012155062v1   C 0 I 566
s otoGar3.GL873679           3067388 40 +   4132165 AATTTCAAGGCCATTAGTTCAGCTAATATTCATTTATTTA
i otoGar3.GL873679         C 0 I 8
s canFam3.chr11             14912206 40 +  74389097 ACTTTCAAAGTCATTAGTTCAGTCAGTATCCATATATTTA
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2628479 37 +   3667625 AATTATACAG---TTAGTTCCGTCAGTATCCatttattta
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55512076 3525 +  90702639 I

a score=6100358.000000
s hg38.chr5_KI270796v1_alt     86356 559 +    172708 ----------CGTTTTTAATGCTATTGCATGCc--------------------------------------------------ttcccccaaacttgatggcatcaaacaataatttattactatct----cagttctgt-----------ggcttgaccggatccagcagggtggtt-ttcact-agggatttc---ttatgtggttgccatgaaatagcagctagaggtggctgaatctagagtaatctgaaggtgtcttcactcatatgtattgg---gttggggcttggcatggctggaatagctggaaaaag-ttggatatttgtca--------------------tcatgcagcttccccacatggctca-ttgatcttcttcatg-gcatggggatttcaaaatgctcagacttttcttttccctttttttt--------------ttttttttttttttttttttttttttttttacatagtggct-----agcttttccccagagtgagtgatgttacctag-agagacagaatcctgctgctaggcttctgtgggtctagcctatgaagaagcctaatcataaagtatatcttatcaccatctcaatctttcatttgtaatttagtaactacaccta-cccagatacaaaaggatgggaattagacttcactcct
s panTro5.chr5             125190368 533 + 181907262 ----------CGTTTTTAATGCTATTGCATGCC--------------------------------------------------TTCccccaa-cttgatggcatcaaacaataatttattactatct----cagttctgt-----------gggttgaccagattcagcagggtggtt-ttcact-agggatttc---ttatgtggttgccatgaaatagcagctagaggtggccgaatctagagtaatctgaaggtgtcttcactcatatgtcttgg---gttggggcttggcatggctggaatagctggaaaaag-ttggatatttgtcg--------------------tcatgcagcttccccacatggctca-ttgatcttcttcatg-gcatggggatttcaaaatgctcagacttttcttttccctttttttt--------------ttttt-------------------------acatagtggct-----agcttttccccagagtgagtgatgttagctag-agagacagaatcctgctgctaggcttctgtgggtctagcctatgaaggagcctaatcataaagtatatcttatcaccatctcaacctttcatttgtaatttagtaactacaccta-cccagatacaaaaggatgggaattagatttcactcct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126527240 534 + 183735486 ----------CGTTTTTAATgctattgcatgcc--------------------------------------------------ttcccccaaacttgatggcatcaaacaataatttattactatct----cagttctgt-----------gggttgaccagattcagcagggtggtt-ttcact-agggatttc---ttatgtggttgccatgaaatagcagctagaggtggccgaatctagagtaatctgaaggtgtcttcactcatatgtcttgg---gttggggcttggcatggctggaatagctggaaaaag-ttggatatttgtcg--------------------tcatgcagcttccccacatggctca-ttgatcttcttcatg-gcatggggatttcaaaatgctcagacttttcttttccctttttttt--------------ttttt-------------------------acatagtggct-----agcttttccccagagtgagtgatgttagctag-agagacagaatcctgctgctaggcttctgtgggtctagcctatgaaggagcctaatcataaagtatatcttatcaccatctcaacctttcatttgtaatttagtaactacaccta-cccagatacaaaaggatgggaattagatttcactcct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1718787 583 +   8933513 ----------TGTTTTTAATGCTATTGCATGCCTTTAAAAAATAATGGGtgttctgggtatc---tattgctgtgtaggaaagttccccaaaacttgatggcatcgaacaataatttattactatct----cagttctgt-----------gggttgaccggattcagcagggtagtt-ttcact-agggatttc---ttatgtggttgccatgaaatagcagctagaggtggctgaatctagagtaatctgaagatgtcttcactcatatgtcttgg---gttggggcttggcatgcctggaatagctggaaaaag-ttggatatttgtca--------------------tcatgcagcttccccacatggctca-ttgatcttcttcatg-gcatgggggtttcaaaatgctcagacttttctttttcctttttttt--------------ttttt----------------------tttacatagtggct-----agc-tttccccagagtgagtgatgttagctag-agagacagaatcctgctgctaggcttctgtgggtctagcctatgaagaagcctaatcataaagtatatattatcaccatctcaacctttcatttgtaatttagtaactacaccta-cccagatacaaaaggaagggaattagacttcactcct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139849542 586 + 163208435 ----------TGTTTTTAATGCTATTGCATACCTTTAAAAAATAATGGGtgttctgggtatc---tattgctgtgtaagaaagttccccaaaacttgatggcatcaaagaataatttattactgtct----cagttctgt-----------gggttgaccggattcagcagggtagtt-ttcact-agcgatttc---ttatgtggttgccatgaaatagcagctagtggtggccgaatctagagtaatctaaaggtgtcttcactcatatgtcttgg---gttggggcttggcatggctggaatagctgaaaaaag-ttggatatttgtcg--------------------tcgtgcagctttcccacatggctca-ttgatcttcctcatg-gcatgggggtttcaaaatgcttagacttttctttttcccttttttt--------------ttttt--------------------tttttacatagtggct-----agcttttccccagagtgagtgatgttagctag-agagacagaatcctgctgctaggcttccgtgggtctagcctatgaaggagcctagtcatgaagtgtatcttattaccatctcaacatttcatttgtaatttagtaactacaccta-cccagatacaaaaggatgggaattagacttccctcct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122838360 593 + 180051392 ----------TGTTTTTAATGCTATTGCATGCCTTTAAAAAATAATGGGtgttctgggtatc---tattgctgtgtaagaaacttcctcaaaacttgatggcatcaaacaataatttattactatct----cagttctgt-----------gggttgaccggattcagtagggcagtt-ttcact-agggatttc---ttatgtggttgccatgacatagcagctagaggtggccgaatctaaagtaatctgaaggcatcttcactcacatgtcttgg---gttggggcttggcatggctggagtagctggtaaaag-ttggatatttgtcc--------------------tcatgcagcttccccacatggttca-ctgatcttcctcatg-gcataggggtttcaaaatgcttagacttttCttttttctttctttc--------------ttttt------------tttttttttCCTAACATAATGGCT-----GGCTTTTCCCCACAGTGAGTGATGTTAGCTAG-AGAGACAGAATCCTGCTGCTAGGCTTCTGTGGGTGTAGCCTGCGAAGGAGCCTAGTCATGAAGTATATCTTATCATCATCTCAACATTTCATTTGTAATTT-GTAACTACAccta-cccagatacaaaaggatgggaattagacttcactcct
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124261980 594 + 181584905 ----------TGTTTTTAATGCTATTGCATGCCTTTAAAAAATAATGGGtgttctgggtatc---tattgctgtgtaagaaacttcctcaaaacttgatggcatcaaacaataatttattactatct----cagttctgt-----------gggttgaccggattcagtagggcagtt-ttcact-agggatttc---ttatgtggttgccatgacatagcagctagaggtggccgaatctaaagtaatctgaaggcatcttcactcacatgtcttgg---gttggggcttggcatggctggagtagctggtaaaag-ttggatatttgtcc--------------------tcatgcagcttccccacatggttca-ctgatcttcctcatg-gcataggggtttcaaaatgcttagacttttCttttttctttctttct-------------ttttt------------ttttttttttCTAACATAATGGCT-----GGCTTTTCCCCACAGTGAGTGATGTTAGCTAG-AGAGACAGAATCCTGCTGCTAGGCTTCTGTGGGTGTAGCCTGCGAAGGAGCCTAGTCATGAAGTATATCTTATCATCATCTCAACATTTCATTTGTAATTT-GTAACTACACCTA-CCCAGATACAAAAGGATGGGAATTAGACTTCACTCCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16260034 593 +  18395747 ----------TGTTTTTAATGCTATTGCATGCCTTTAAAAAATAATGGGtgttctgggtatc---tattgctgtgtaagaaacttccccaaaacttgatggcatcaaacaataatttattactatct----cagttctgt-----------gggttgaccggattcagtagggcagtt-ttcact-agggatttc---ttatgtggttgccatgacatagcagctagaggtggccgaatctaaagtaatctgaaggcatcttcactcacatgtcttgg---gttggggcttggcatggctggagtagctggtaaaag-ttggatatttgtcc--------------------tcatgcagcttccccacatggttca-ctgatcttcctcatg-gcataggggtttcaaaatgcttagacttttCttttttctttctttc--------------ttttt------------ttttttttttCTAACATAATGGCT-----GGCTTTTCCCCAGAGTGAGTGATGTTAGCTAG-AGAGACAGAATCCTGCTGCTAGGCTTCTGTGGGTGTAGCCTACGAAGGAGCCTAGTCATGAAGTATATCTTATCATCATCTCAACATTTCATTTGTAATTT-GTAACTACACCTA-CCCAGATACAAAAGGATGGGAATTAGACTTCACTCCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5272016 585 +  26952557 ----------TGTTTTTAATGCTATTGCATGCCTTTAAAAAATAATGGGtgttctgggtatc---tattgctgtgtaagaaacttccccaaaacttgatggcatcaaacaataatttattactatct----cagttctgt-----------gggttgaccggattcagtagggcagtt-ttcact-agggatttc---ttatgtggttgccatgacatagcagctagaggtggccgaatctaaagtaatctgaaggcatcttcactcacatgtcttgg---gttggggcttggcatggctggagtagctggaaaaag-ttggatatttgtcc--------------------tcatgcagcttccccacatggttca-ctgatcttcctcatg-gcataggggtttcaaaatgcttagacttttCttttttctttctttt--------------ttttt------------ttt--------tAACATAATGGCT-----GGCTTTTCCCCAGAGTGAGTGATGTTAGCTAG-AGAGACAGAATCCTGCTCCTAGGCTTCTGTGGGTGTAGCCTACGAAGGAGCCTAGTCATGAAGTATATCTTATCATCATCTCAACATTTCATTTGTAATTT-ATAACTACACCTA-CCCAGATAGAAAAGGATGGGAATTAGACTTCACTCCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28374226 608 +  82825804 ----------TGTTTTTAATGCTATTGCATGCCTTTAAAAAATAATGGGtgttctgggtatc---tattactgtgtaagaaacttccccaaaacttgatggcatcaaacaataatttattactatct----cagttctgt-----------gggttgaccggattcagtagggcagtt-ttcact-agggatttc---ttatgtggttgccatgacatagcagctagaggtggccgaatctaaagtaatctgaaggcatcttcactcatatgtcttgg---gttggggcttggcatggctggagtagctggaaaaag-ttggatatttgtcc--------------------tcgtgcagcttccccacatggttca-ctgattttcctcatg-gcataggggtttcaaaatgcttagacttttcttttttctttctttctttcttttttttttttttt------------ttttttttttttaacataatggct-----ggcttttccccagagtgagtgatgttagctag-agcgacagaatcctgctgctaggcttctgtgggtgtagcctacgaaggagcctagtcatgaagtatatcttatcatcatctcaacatttcatttgtaatttagtaactacacctg-cccagatacaaaaggatgggaattagacttcactcct
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4043100 589 -   4237731 ----------TGTTTTTAATGCTATTGCATGCCTTTAAAAAATAATGGGtgttctgggtatc---tattgctgtgtaagaaacttccccaaaacttgatggcatcaaacaataatttattactatct----cagttctgt-----------gggttgaccagattcagtagggcagtt-ttcact-agggatttc---ttatgtggttgccatgacatagcagctagaggtggccgaatctaaagtaatctgaaggcatcttcactcacatgtcttgg---gttggggcttggcatggctggagtagctggaaaaag-ttggatatttgtcc--------------------tcatgcagcttccccacatggttca-ctgatcttcctcatg-gcataggggtttcaaaatgcttagacttttCttttttctttc------------------ctttt------------ttttttttttttAacataatggct-----ggcttttccccagagtgagtgatgttagctag-agagacagaatcctgctgctaggcttctgtgggtgtagcctacgaaggagcctagtcatgaagtatatcttatcatcatctcaacatttcatttgtaattt-gtaactacaccta-cccagatacaaaaggatgggaattagacttcactcct
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      311642 608 -   1175262 ----------TGTTTTTAATGCTATTGCATGCCTTTAAAAAATAATGGGtattctgggtatc---tattgctgtgtaagaaacttccccaaaacttgatggcatcaaacaataatttattactatct----cagttctgt-----------gggttgaccggatacagcagggcagtt-ttcatg-agggatttc---ttatgtggttgccatgacatagcagctagaggtggccgaatctaaagtcatctgaaggcatcttcactcacatgtcttggattattggggcttggcatggctggagtagctggaaaaag-ttggatatttgtccaacttccacactgtggggaagtgtgcagcttccccacatagctca-ctgatcttcctcatg-gcatggggatttcaaaatgcttagacttttcttttttctttctttc--------------ttttt------------t----------tgacataatggct-----ggcttttccccagagtgagtgatgttagctag-agagacagaatcctgctgctaggcttctgtgggtctagcctacgaaggagcctagtcatgaagtatatcttatcaccatctcaacatttcatttgtaatttagtaactacacctaccccagatacaaaaggatgggaattagacttcactcct
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123658429 566 - 204313951 ----------TGTTTTTAATGCTATCACATGCCTTTAAAAAATAACAGAtgttctggttatctattattgctatataagaaactttccctaaacttggtggcatcaaacagtaattttttactatct----cagttctgt-----------gagttgactggattcaggaggggagac-tttact-agggatttc---ttatgtggttgccatcaaatagcagctagaggtggctggatttagaataatctgaaggtgtcttcactcacatgccgtat---gttggggcttggcatggctggaatagctggaaaaag-ttgggtatttgtcc--------------------tcatgcagcttccctacatggctca-ctgatcttccttatg-gcatgggggtttcaaaatgcttagactttttttt----------------------------ttt-------------------------acatagtggct-----ggcttttccccagagtgagtgatattacctag-aa----agaatcctgctgctagacttctgtgggtctagcctacaaagaagcttagtcatgaagtatatcttatcaccatctcaatacttcatttgtaattcagtcacttcatcta-cccagatataaaaggatgggaattaggcttcactttt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55702285 571 -  71252344 ----------TGTTTTTAATGCTATCACATGCCTTTAAAAAATAACGGAtgttctgattatc---tattgctgtgtaagaaacttcccctaaacttgatggcctcaaacagtaattttttactatct----tagttctgt-----------ggattgactggattcagcaggaaagac-ttcact-agggatttc---tcatgtggttgttatcaaatagcacctagaggtggctggatttagaataatctgaaggtgtcttcactggcatgtcttgt---gttggggctttgcatggctggaagagctggaaaaag-tcgggtatttgtcc--------------------tcatgaagcttccccacatgggtca-ctgatcttcctgatg-gtgtgggggtttcaaaatgcttagacttttttttgt------tgtt--------------tgttt-------------------------acgtagtggct-----ggcttttccccagagtgagtgatattagctag-aa----agaatcctgctgctagacttctgtgggtctagcctacaaagaagcctagtcatgaagtatatcttatcaccatctcaacacttcatttgtaatttagtcactacatcta-cccagatataaaaggatgggaattagacttcactttt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        5333 561 -   3089952 ----------TGTTTTTAATGGTATCACATGCCTTTAAACAATAACGGAtgttctgattatc---tattgctgtgtaagaaacttcccctaaacttgatggcatcaaacagtaattttttaatatct----cagttctgt-----------gggttgactggattcagcaggaaagac-ttcact-agggatttc---ttatgtggttgccatcaaatagcagctagaggtggctggatttagaataatctgaaggtgtcttcactcacacgtcttgt---gttggggcttggcatggctggaatagctggaaaaag-ttgggtatttgtcc--------------------tcatgcagcttccctgtgtggctca-ctgatcttcctcatg-gcat-ggggtttcaaaatgcttagacatttttttgt--------tt--------------tgttt-------------------------acgtagtggct-----ggcttttccccagagtgagtgatcttagctag-aa----agaatcctgctgctaggctactgtggggctagcctacaaagaagcctagtcatgaaa-------tatcaccatctcaacacttcatttataatttagtcactacatcga-cccagatataaaaggatgggaattagacttcactttt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13203285 562 -  42888418 ----------TG-TTTTAATGCTATCACATGCCTTTAAAAAATAACGGAtgttctggttatc---tattgctgtataagaaacttcccctaaacttgatggcatcaaacagtaattttttactatgt----cagttctgt-----------gggttgactggattcagcaggggagac-ttcact-agggatttc---ttatgtggttgccatcaaatagcagctagaggtggctggatttagaataatctgaaggtgtcttcactcacatgccttgt---gttggggcttggcatggctggaatagcaggaaaaag-gtgagtatttgtcc--------------------tcatgcagcttccatacatggctca-ctgatcttcctcgtg-gcatgggggtttcaaaatgcttagacttgctttt----------------------------ttt-------------------------acatagtggct-----ggcttttccccagagtgagtgatattagctag-aa----agaatcctgctgctagacttctgtgggtctagcctacaaagaagcctagtcatgaagtatatcttatcaccatctcaacacttcgtttgtaatttagccacttcatcta-cccaggtataaaaggatgggaattagacttcactttt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3067436 533 +   4132165 ----------TATTGTTTATTCAGTCACATGCTTTTTGAAAATAATGAGtgttctgcttttt---tattgccatgtaagaaacttccccaaaacttg-tggcttcaaacaataatttatgactgtctctcacagttcagctgtgcattctagggttgactgggttcaactgggtggttcttccct-aggggtttc---ttatgtaattgcagtcaaatagcagctggcagtggctgaatctagagtcacatgaaga---cttctcgcatgtatttttt---gttggggtttgtcacagctaaaggagctggaaaagg-tagggtatcactct--------------------tcatgcaaattcttcatatgacctc-ttggtcttc-tcaca-gcatggtagtttcagaatacttaatttttttttt--------------------------ttttt------------------------aatacagtggttcatgcaggtttctaccagagtgtgtgata--aaatggcaaaggcagaa----acagctaggcttctgcagg---------cagagaagcctagcc-----------------actatctcagcattctataagtaattaagtcactgcaccta-cccaaa----------------------tccactcct
i otoGar3.GL873679         I 8 C 0
s canFam3.chr11             14912249 544 +  74389097 ----------TATTTTGTATTCCATCACATGCCTCTTGAAAAGAAGGAGTCttctagttgtt---tatttctatgtaagaaacttccacaaaacttcagagcttcaaataataatttgtgaatatctcttacggttctgt-----------gggttgactggattccactgggcagtt-ttccct-ggggttttg---tcctgtggttgctatctaatggcagctc----------catctggagtcctctgaaagcttcttcactcatgtatcttgt---gttagggc-tggcacagctgacagagctggaagtgg-ttgggtaccactct--------------------ccatgtagttcctccacatggctcatttggtcttctttatgaggatgatggtctctggatactttgac----------------------------------ttttt-------------------------atgtaatggct-----ggtttcgccccaaagtgagtcatgtaatcagc-aaagacagaa----aattctaggcttccataggtttagcttcaaaag--------tcacagggcatcatctatcactttttctgtaagttattagcaattaaatcatttcaccta-tccaaattcaagtggaggagaattagatgttactcct
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2628516 556 +   3667625 tactaataatatttttttattCTATCACATGCTTTTAGAAACTAATGAGtgttctggttatc---tattgctatgtaataaatttctccaaaacctgatgcctttaagcagtcatttagtaatagctcttacaattctgt-----------gggttgatgagtttcagctgagctgtt-cttgctcagcgctttctcatcatgtacttgcagtcaaa-agcagctgcaggtggctggacctggagtca-cagaagcctttctcactcatat--tttgt---atcaggg-ttggcatggttggaacagcagggaaatgtttgtgtttctctct--------------------ccatgcagcttctccaggtggctagttttgtcttcctcaca-gaacggcaaactcaggatatttaggc----------------------------------ttttt-------------------------gcatgatggct-----ggctttcccccagagcaagtgatccaaaaggc-aaagctagaa----gctgctagcctttggtagatctagcctacaaac--------tcatgaagaatcact--------ttgccacattctgtcagtaggcaagtcattccactta-tccatattctagggtaggggaatgggacttcacctct
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60537797 519 + 108143057 I
e proCoq1.NW_012155062v1     3579663 566 +  11683526 I
e mm10.chr18                55512076 3525 +  90702639 I

a score=44090.000000
s hg38.chr5_KI270796v1_alt     86915 10 +    172708 ggataga-----------agg
s panTro5.chr5             125190901 10 + 181907262 ggataga-----------agg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126527774 10 + 183735486 ggataga-----------agg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1719370 10 +   8933513 ggataga-----------agg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139850128 10 + 163208435 ggataga-----------agg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122838953 21 + 180051392 ggaagtgcccttcactccagg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124262574 21 + 181584905 GGAAGTGCCCTTCACTCCAgg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16260627 21 +  18395747 GGAAGTGCCCTTCACTCCAgg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5272601 21 +  26952557 GGAAGTGCCCTTCACTCCAgg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28374834 10 +  82825804 ggataga-----------aga
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4043689 21 -   4237731 ggaagTGCCCTTCACTCCAgg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      312250 10 -   1175262 ggataga-----------agg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123658995 10 - 204313951 ggataga-----------agg
i calJac3.chr2             C 0 I 3
s saiBol1.JH378106          55702856 10 -  71252344 gaatgaa-----------agg
i saiBol1.JH378106         C 0 I 3
s cebCap1.NW_016107590v1        5894 10 -   3089952 ggataga-----------agg
i cebCap1.NW_016107590v1   C 0 I 6
s aotNan1.NW_018505940v1    13203847 10 -  42888418 ggataga-----------agg
i aotNan1.NW_018505940v1   C 0 I 6
s otoGar3.GL873679           3067969 10 +   4132165 aaataga-----------aag
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60537797 519 + 108143057 I
e canFam3.chr11             14912793  0 +  74389097 C
e proCoq1.NW_012155062v1     3579663 566 +  11683526 I
e dasNov3.JH567306           2629072  0 +   3667625 C
e mm10.chr18                55512076 3525 +  90702639 I

a score=1127163.000000
s hg38.chr5_KI270796v1_alt     86925 207 +    172708 cctggtgccatggctcacgcctgtaatcccagcactttgggaggccaaggcgggcagatcacaaggtcaggagttcaagatcagcctggccagcatggtgaaaccgcgtctctactaaaaatacaaaaattatctgggcatggtggtgcgtgcctgtaatcccagctacttgggaagctgaggcaggagaattgcttgaacccgtga
s panTro5.chr5             125190911 207 + 181907262 cctggcgccatggctcatgcctgtaatctcagcactttgggaggccaaggtgggcagatcacaaggtcaggagttcaagatcagtctggccagcatggtgaaaccgcgtctctactaaaaatacaaaaattatctgggcatggtggtgcgtgcctgtaatcccagctacttgggaggctgaggcaggagaattgcttgaacctgtga
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126527784 207 + 183735486 cctggcgccatggctcacgcctgtaatctcagcactttgggaggccaaggtgggcagatcacaaggtcaggagttcaagatcagtctggccagcatggtgaaaccgcgtctctactaaaaatacaaaaattatctgggcatggtggtgcgtgcctgtaatcccagctacttgggaggctgaggcaggagaattgcttgaacctgtga
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1719380 205 +   8933513 cc-ggcgccatggcgcacgcctgtaatcccagcactttgggaggccaaggcaggcagatcacaaggtcaggagttcaagatcagcctggccagcatggtgaaaccacgtctctactaaaaatacaaaaattatct-ggcatggtggtgcgtgcctgtaatcccagctacttgggaggctgaggcaggagaattgcttgaacccgtga
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139850138 207 + 163208435 ccgggcgccatggctcacgcctgtaatcccagcactttgggaggccaaggtgggcagatcacaaggtcaggagttcaagatcagcctggccagcatgatgaaactgcgtctctactaaatatacaaaaattatctgggcatggtggtgcgtgcctgtaatcccagctactcgggaggctgaggcaggagaatttcttgaacctgtga
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122838974 207 + 180051392 ccgggcaccatggcttatgcctgtaatcccagcactttgggaggccgaggcaggcagatcatgaggtcaggagctcaatatcagcctggccagcatggtgaaaccgtgtctctactaaaaatacaaaaattatctgggcgtggtggcgggcgcctgtaatgccagctacttgggaggctgaggcaggaggatcccttgaacctgtga
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124262595 207 + 181584905 ccgggcaccatggctcatgcctgtaatcccagcactttgggaggccgaggcaggcagatcatgaggtcaggagctcaatatcagcctggccagcatggtgaaaccgtgtctctactaaaaatacaaaaattatctgggcgtggtggcgggcgcctgtaatgccagctacttgggaggctgaggcaggaggatcccttgaacctgtga
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16260648 207 +  18395747 ccgggcaccgtggctcatgcctgtaatcccagcactttgggaggccgaggcaggcagatcatgaggtcaggagctcaatatcagcctggccagcatggtaaaaccgtgtctctactaaaaatacaaaaattatctgggcgtggtggcgggcgcctgtaatgccagctacttgggaggctgaggcaggaggatcccttgaacctgtga
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5272622 187 +  26952557 ccgggcaccatggctcatgcctgtaatcccagcactttgggaggccgaggcaggcagatcatgaggtcaggagctcaatatcagcctggccagcatggtgaaaccgtgtc--------------------tatctgggcgtggtggcgggcgcctgtaatgccagctactcgggaggctgaggcaggaggatcccttgaacccgtga
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28374844 207 +  82825804 ctgggcaccatggttcatgcctgtaatcccagcactttgggaggccgaggcaggcagatcatgaggtcaggagctcaatatcagcctggccaacatggtgaaaccgtgtctctactaaaaatacaaaaattatctgggcgtggtggcgggcgcctgtaatgccagctactcgggaggctgaggcaggaggatcccttgaacccctga
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4043710 207 -   4237731 ccgggcatcatggctcatgcctgtaatcccagcactttgggaggccgaggcaggcagatcatgaggtcaggagttcaatatcagcctggccagcatggtgaaaccgtgtctctactaaaaatacaaaaattatctgggcgtggtggcgggtgcctgtaatgccagctactcaggaggctgaggcaggaggatcccttgaacctgtga
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      312260 207 -   1175262 ccgggcaccatggctcatgcctgtaatccccgcactttgggaggccgaggcaggcagatcatgaggtcaggagctcaatatcagcctggccagcatggtaaaaccgtgtctctgctaaaaatacaaaaattatctgggcgtggtggcgggcgcctgtaatgccagctactcgggaggctgaggcaggaggatcccttgaacccgtga
i colAng1.NW_012119644v1   C 0 C 0
e micMur3.chr12             60537797 519 + 108143057 I
e canFam3.chr11             14912793   0 +  74389097 C
e proCoq1.NW_012155062v1     3579663 566 +  11683526 I
e otoGar3.GL873679           3067979   0 +   4132165 C
e aotNan1.NW_018505940v1    13203857   6 -  42888418 I
e cebCap1.NW_016107590v1        5904   6 -   3089952 I
e dasNov3.JH567306           2629072   0 +   3667625 C
e mm10.chr18                55512076 3525 +  90702639 I
e saiBol1.JH378106          55702866   3 -  71252344 I
e calJac3.chr2             123659005   3 - 204313951 I

a score=64005.000000
s hg38.chr5_KI270796v1_alt     87132 11 +    172708 ggcagaggttg
s panTro5.chr5             125191118 11 + 181907262 ggcagaggttg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126527991 11 + 183735486 ggcagaggttg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1719585 11 +   8933513 ggcagaggttg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139850345 11 + 163208435 ggcagaggttg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122839181 11 + 180051392 ggtagaggttg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124262802 11 + 181584905 ggtagaggttg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16260855 11 +  18395747 ggtagaggttg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5272809 11 +  26952557 ggtagaggttg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28375051 11 +  82825804 ggtagaggttg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4043917 11 -   4237731 ggtagaggttg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      312467 11 -   1175262 ggtagaggttg
i colAng1.NW_012119644v1   C 0 C 0
s otoGar3.GL873679           3067979  8 +   4132165 agcagcgg---
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60537797 519 + 108143057 I
e canFam3.chr11             14912793  0 +  74389097 C
e proCoq1.NW_012155062v1     3579663 566 +  11683526 I
e aotNan1.NW_018505940v1    13203857  6 -  42888418 I
e cebCap1.NW_016107590v1        5904  6 -   3089952 I
e dasNov3.JH567306           2629072  0 +   3667625 C
e mm10.chr18                55512076 3525 +  90702639 I
e saiBol1.JH378106          55702866  3 -  71252344 I
e calJac3.chr2             123659005  3 - 204313951 I

a score=274579.000000
s hg38.chr5_KI270796v1_alt     87143 63 +    172708 cagtgagatgagattgcaccactgcactctagcctgggtgacagagcaaga--ctgtct-c----------------aa-aaa
s panTro5.chr5             125191129 63 + 181907262 cagtgagatgagattgcaccactgcactctagcctgggtgacagagcaaga--ctgtct-c----------------aa-aaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528002 64 + 183735486 cagtgagatgagattgcaccactgcactctagcctgggtgacagagcaaga--ctgtctac----------------aa-aaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1719596 79 +   8933513 cagtgagatgagattgcaccactgcactctagcctgggtgacagagcaaga--ctgtct-caaaaaaaaaaaaaaaaaa-aaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139850356 72 + 163208435 cagtgagatgagattgcaccactgcactctagcctggacgacagagcaaga--ctgtct-c-------aaagaaaacaa-aca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122839192 75 + 180051392 cagtgagatgagattgtaccgatgcactctagcctgggtgacagagcaagactctgtct-c-------aaaaaaaaaaagaaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124262813 74 + 181584905 cagtgagatgagattgtaccgatgcactctagcctgggtgacagagcaagactctgtct-c-------aaaaaaaaaaa-aaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16260866 74 +  18395747 cagtgagatgagattgtaccgatgcactctagcctgggtgacagagcaagactctgtct-c-------aaaaaaaaaaa-aaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5272820 75 +  26952557 cagtgagatgagattgtaccgatgcactctagcctgggtgacagagcaagactctgtct-c-------aaaaaaaaaaaaaaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28375062 74 +  82825804 cagtgagatgagattgtaccgatgcactctagcctgggtgacagagcaagactctgtct-c-------aaaaaaaaaaa-aaa
i chlSab2.chr23            C 0 I 1
s manLeu1.NW_012103321v1     4043928 74 -   4237731 cagtgagatgagattgtaccgatgcactctaggctgggtgacagagcaagactctgtct-c-------aaaaaaaaaaa-aaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      312478 72 -   1175262 cagtgagatgagattgcaccgttgcactctagcctgggtgacagagtgagactctgtct-c-------aaaaaaaaa---aaa
i colAng1.NW_012119644v1   C 0 C 0
s canFam3.chr11             14912793 13 +  74389097 cagtgagagcagt----------------------------------------------------------------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2629072 16 +   3667625 cagtgagagaag----tatc---------------------------------------------------------------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60537797 519 + 108143057 I
e proCoq1.NW_012155062v1     3579663 566 +  11683526 I
e otoGar3.GL873679           3067987  0 +   4132165 C
e aotNan1.NW_018505940v1    13203857  6 -  42888418 I
e cebCap1.NW_016107590v1        5904  6 -   3089952 I
e mm10.chr18                55512076 3525 +  90702639 I
e saiBol1.JH378106          55702866  3 -  71252344 I
e calJac3.chr2             123659005  3 - 204313951 I

a score=16264.000000
s hg38.chr5_KI270796v1_alt     87206 3 +    172708 aaa
s panTro5.chr5             125191192 3 + 181907262 aaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528066 3 + 183735486 aaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1719675 3 +   8933513 aaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139850428 3 + 163208435 aac
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122839267 3 + 180051392 aga
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124262887 3 + 181584905 aga
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16260940 3 +  18395747 aaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5272895 3 +  26952557 aaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28375137 3 +  82825804 aaa
i chlSab2.chr23            I 1 C 0
s manLeu1.NW_012103321v1     4044002 3 -   4237731 aaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      312550 3 -   1175262 aaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123659008 2 - 204313951 -aa
i calJac3.chr2             I 3 I 1
s saiBol1.JH378106          55702869 2 -  71252344 -aa
i saiBol1.JH378106         I 3 I 1
e micMur3.chr12             60537797 519 + 108143057 I
e canFam3.chr11             14912806 0 +  74389097 C
e proCoq1.NW_012155062v1     3579663 566 +  11683526 I
e otoGar3.GL873679           3067987 0 +   4132165 C
e aotNan1.NW_018505940v1    13203857 6 -  42888418 I
e cebCap1.NW_016107590v1        5904 6 -   3089952 I
e dasNov3.JH567306           2629088 0 +   3667625 C
e mm10.chr18                55512076 3525 +  90702639 I

a score=10920.000000
s hg38.chr5_KI270796v1_alt     87209 1 +    172708 a
s panTro5.chr5             125191195 1 + 181907262 a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528069 1 + 183735486 a
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1719678 1 +   8933513 a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139850431 1 + 163208435 a
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122839270 1 + 180051392 a
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124262890 1 + 181584905 a
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16260943 1 +  18395747 a
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5272898 1 +  26952557 a
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28375140 1 +  82825804 a
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4044005 1 -   4237731 a
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      312553 1 -   1175262 a
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123659011 1 - 204313951 a
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55702872 1 -  71252344 a
i saiBol1.JH378106         I 1 C 0
s aotNan1.NW_018505940v1    13203863 1 -  42888418 a
i aotNan1.NW_018505940v1   I 6 C 0
s canFam3.chr11             14912806 1 +  74389097 a
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60537797 519 + 108143057 I
e proCoq1.NW_012155062v1     3579663 566 +  11683526 I
e otoGar3.GL873679           3067987 0 +   4132165 C
e cebCap1.NW_016107590v1        5904 6 -   3089952 I
e dasNov3.JH567306           2629088 0 +   3667625 C
e mm10.chr18                55512076 3525 +  90702639 I

a score=14599.000000
s hg38.chr5_KI270796v1_alt     87210 3 +    172708 aaa
s panTro5.chr5             125191196 3 + 181907262 aaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528070 3 + 183735486 aaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1719679 3 +   8933513 aaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139850432 3 + 163208435 aac
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122839271 3 + 180051392 aag
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124262891 3 + 181584905 aag
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16260944 3 +  18395747 aaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5272899 3 +  26952557 aag
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28375141 3 +  82825804 aag
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4044006 3 -   4237731 aag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      312554 3 -   1175262 gaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123659012 3 - 204313951 aaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55702873 3 -  71252344 aaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        5910 3 -   3089952 aaa
i cebCap1.NW_016107590v1   I 6 C 0
s aotNan1.NW_018505940v1    13203864 3 -  42888418 aaa
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14912807 3 +  74389097 ggg
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2629088 1 +   3667625 -a-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60537797 519 + 108143057 I
e proCoq1.NW_012155062v1     3579663 566 +  11683526 I
e otoGar3.GL873679           3067987 0 +   4132165 C
e mm10.chr18                55512076 3525 +  90702639 I

a score=4534131.000000
s hg38.chr5_KI270796v1_alt     87213 326 +    172708 aaaa-------------aattgcagccatctttaatctaacataAAGAAGTTTATATTTTTAGATCTGTAGCCTGAGTCTCTCTCTTTTCTATGC-TTAACAAACTTT-AATGTATAATTAATCA-TTTAATAGTTAACTCATCTATAAGTCAAA--------AGATC-------TCATAATTTTtaatt-atggaatcttgaccaaattaccccacctattttaaatttggacttttt-atctgtaaaacctgtcctctctcc-ctttcaaaaggattatatgagtcagatgtgataacatatgtaaaagtataaaactatg-aaa------------------------atcatggaaatgtaagttatcatCTTGGTTATTA
s panTro5.chr5             125191199 326 + 181907262 aaaa-------------aaTTGCAGCCATCTTTAATCTAACATAAAGAAGTTTATATTTTTAGATCTGTAGCCTGAGTCTCTCTCTTTTGTATGC-TTAACAAACTTT-AATGTATAATTAATCA-TTTAATAGTTAACTCATCTATAAGTCAAA--------AGATC-------TCATAATTTTtaatt-atggaatcttgaccaaattaccccacctattttaaatttggacttttt-atctgtaaaacctgtcctctctcc-ctttcaaaaggattatatgagtcagatgtgataacatatgtaaaagtataaaactatg-aaa------------------------atcatggaaatgtaagttatcatCTTGGTTATTA
i panTro5.chr5             C 0 I 3
s panPan2.chr5             126528073 326 + 183735486 aaaa-------------aattgcagccatctttaatctaacataAAGAAGTTTATATTTTTAGATCTGTAGCCTGAGTCTCTCTCTTTTGTATGC-TTAACAAACTTT-AATGTATAATTAATCA-TTTAATAGTTAACTCATCTATAAGTCAAA--------AGATC-------TCATAATTTTtaatt-atggaatcttgaccaaattaccccacctattttaaatttggacttttt-atctgtaaaacctgtcctctctcc-ctttcaaaaggattatatgagtcagatgtgataacatatgtaaaagtataaaactatg-aaa------------------------atcatggaaatgtaagttatcatCTTGGTTATTA
i panPan2.chr5             C 0 I 3
s gorGor5.CYUI01015135v1     1719682 326 +   8933513 aaaa-------------aattgcagccatctttaatctaacataAAGAAGTTTATATTTTTAGATCTGTAGCCTGAGTCTCTCTCTTTTCTATGC-TTAACAAACTTT-AATGTATAATTAATCA-TTTAATAGTTAACTCATCTATAAGTCAAA--------AGATC-------TCATAATTTTtaatt-atggaatcttgaccaaattaccccacctattttaaatttggacttttt-atctgtaaaacctgtcctctctcc-ctttcaaaaggattatatgagtcagatgtgataacatatgtaaaagtataaaactatg-aaa------------------------atcatggaaatgtaagttatcatCTTGGTTATTA
i gorGor5.CYUI01015135v1   C 0 I 3
s nomLeu3.chr2             139850435 326 + 163208435 aaaa-------------aattgcagccatttttaaTCTAACATAAGGAAGTTTATATTTTTAGATCTGTAGCCCAAGTCTCTCTCTTTTGTATGC-TTAACAAACTTT-AATGTATAATTAAACA-TTTAATAGTTAACTCATCTGTAAGTCAAA--------AGATC-------TCATAATTTTtaatt-atggagtcttgaccaagttaccccacctattttaaacttggacttttt-atctataaaacctgtcctctctcc-ctttcaaaaggattatatgagtcagatatgataacatatgtaaaagtataaaactatg-aaa------------------------atcatggaaatgtaagttatcatCTTGGTTATTA
i nomLeu3.chr2             C 0 I 3
s rheMac8.chr6             122839274 334 + 180051392 aaaagaaaaaaa-----aattgcagccatctttactctaacataAGGAAGTTTATATTTTTAGATCTGTAGCCTGAGTCTCTCCCTTTTGTAAGC-TTAACAAACTTT-ATTGTATAATTAATCA-TTTAATAGTTAACTCATCTATAAATCAAA--------ACATC-------TCATAATTTTtagat-atgaaatcttgactaagttaccccacctgttttaaacttggacttttt-atctgtaaaagttgtcctctctcc-ctttcaaaaggattatatgactcagatgtgataacatatgtaaaagtataaaactatg-aaa------------------------atcatggaaatgtaagttatcatCTTGGTTATTA
i rheMac8.chr6             C 0 I 3
s macFas5.chr6             124262894 334 + 181584905 aaaagaaaaaaa-----aaTTGCAGCCATCTTTACTCTAACATAAGGAAGTTTATATTTTTAGATCTGTAGCCTGAGTCTCTCTCTTTTGTAAGC-TTAACAAACTTT-ATTGTATAATTAATCA-TTTAATAGTTAACTCATCTATAAATCAAA--------ACATC-------TCATAATTTTTAGAT-ATGAAATCTTGACTAAGTTACCCCACCTGTTTTAAACTTGGACTTTTT-ATCTGTAAAAGTTGTCCTCTCTCC-CTTTCAAAAGGATTATATGACTCAGATGTGATAACATATGTAAAAGTATAAAACTATG-AAA------------------------ATCATGGAAATGTAAGTTATCATCTTGGTTATTA
i macFas5.chr6             C 0 I 3
s macNem1.NW_012012355v1    16260947 339 +  18395747 aaaaaaaaaaaaaaaaGAATTGCAGCCATCTTTACTTTAACATAAGGAAGTTTATATTTTTAGATCTGTAGCCTGAGTCTCTCTCTTTTGTAAGC-TTAACAAACTTT-ATTGTATAATTAATCA-TTTAATAGTTAACTCATCTATAAATCAAA--------ACATC-------TCATAATTTTtagat-atgaaatcttgaccaagttaccccacctgttttaaacttggacttttt-atctgtaaaagttgtcctctctcc-ctttcaaaaggattatatgagtcagatgtgataacatatgtaaaagtataaaactatg-aaa------------------------atcatggaaatgtaagttatcatCTTGGTTATTA
i macNem1.NW_012012355v1   C 0 I 3
s cerAty1.NW_012002512v1     5272902 335 +  26952557 aaaagaaaaaaaa----aaTTGCAGCCATCTTTACTCTAACATAAGGAAGTTTATATGTTTAGAACTGTAGCCTGAGTCTCTCTCTTTTGTAAGC-TTAACAAACTTT-ATTGTATGATTAATCA-TTTAATAGTTAACTCATCTATAAATCAAA--------ACATC-------TCATAATTTTtagat-atgaaatcttgaccaagttaccccacctgttttaaacttggacttttt-atctgtaaaagttgtcctctctcc-ctttcaaaaggattatatgagtcagatgtgataacatatgtaaaagtataaaactatg-aaa------------------------atcatggaaatgtaagttatcatCTTGGTTATTA
i cerAty1.NW_012002512v1   C 0 I 3
s chlSab2.chr23             28375144 333 +  82825804 aaaagaaaaaa------aattgcagccatctttactctaacataAGGAAGTTTATATTTTTAGATCTGTAGCCTGAGTCTCTCTTTTTTGTAAGC-TTAAGAAACTTT-ATTGTATAATTAATCA-TTTAATAGTTAACTCATCTATAAATCAAA--------AGATC-------TCATAATTTTTAGAT-ATGAAATCTTGACCAAGTTACCCCACCTATTTTAAACTTGGACTTTTT-ATCTGTAAAAGTTGTCCTCTCTCC-CTTTCAAAAGGATTATATGAGTCAGATGTGATAACATATGTAAAAGTATAAAATTATG-AAA------------------------ATCATGGAAATATAAGTTATCATCTTGGTTATTA
i chlSab2.chr23            C 0 I 3
s manLeu1.NW_012103321v1     4044009 333 -   4237731 aaaagaaaaaa------aaTTGCAGCCACCTTTACTCTAACATAAGGAAGTTTATATGTTTAGATCTGTAGCCTGAGTCCCTCTCTTTTGTAAGC-TTAACAAACTTT-ATTGTATAATTAATCA-TTTAATAGTTAACTCATCTATAAATCAAA--------ACATC-------TCATAATTTTtagat-atgaaatcttgaccaagttaccccacctgttttaaacttggacttttt-atctgtaaaagttgtcctctctcc-ctttcaaaaggattatatgagtcagatgtgataacatatgtaaaagtataaaactatg-aaa------------------------atcatggaaatgtaagttatcatCTTGGTTATTA
i manLeu1.NW_012103321v1   C 0 I 3
s colAng1.NW_012119644v1      312557 334 -   1175262 aaaagaaacaaa-----aattgcagccatctttACTCTAACATAAAGAAGTTCATATTTTTAGATCTGTAGCCTGAGTCTCTCTCTTTTGTAAGC-TTAACAAACTTT-ATTGTATAATTAATCA-TTTAATAGTTAACTCATCTATAAATCAAA--------AGATC-------TCATAATTTTtagat-atgaaatcttgatcaagttaccccacctattttaaacttggacttttt-atctgtaaaagttgtcctctctcc-ctttcaaaaggattatatgagtcacatgtgataacatatataaaagtataaaactatg-aaa------------------------gtcatggaaatgtaagttatcatCTTGGTTATTA
i colAng1.NW_012119644v1   C 0 I 3
s calJac3.chr2             123659015 334 - 204313951 aaaa-------------aattacagccatttttaatctaacataAGGAGG-TTTTATTTTTAGATCTGTAGC----------CTCTTTTGTATGC-TTAACAAACTTTAAATGTCTAATTAATCA-TTTAATAGTTAACTCATCTATAAGTCAAA--------AT-TC-------TCATGATTTTtagac-atggaatattgaccatgttatcccacctattttaaacttggacttttt-atctgtaaaacctgtcctgtttcc-ctttcaaaagaattatatgaatcagatgtgataacatatataaaagtatgaaactatg-aaaaatcaaatgaatgaaatgtcaattatcat-GAAATATAAGTTATC----TTGTTATTA
i calJac3.chr2             C 0 I 3
s saiBol1.JH378106          55702876 349 -  71252344 aaaa-------------aattacagccatttttaatctaacaTGAGGAGGTTTTTATTTTTAGATCTGTAGCCTGAGTCTCTCTCTTTTGTATGC-TTAACAAACTTT-AATGTCTAATTAATCA-TTTAATAGTTAACTCATCTATAAGTCAAA--------AT-TC-------TCATGATTTTtagac-atggaatattgaccaagttatcctacctattttaaacttgaacttttt-gtctgtaaaacctgtcctctttcc-ctttcaaaagaattatatgagtcagatgtgataacatatataaaagTATAAAACTATGAAAAAATCAAATGAATGAAATGTAAATTATCAT-GAATTATAAGTTATCATCTTGGTTATTA
i saiBol1.JH378106         C 0 I 3
s cebCap1.NW_016107590v1        5913 348 -   3089952 aaaa-------------aattacagccatttttaaTCTAACATAAGGAAGTTTTTATTTTTAGATCTGTAGCCTGAGTCTCTCTCTTTTGTATGC-TTAACAAACTTT-AATCTCTAATTAATCA-TTTAATAGTTAACTCATCTATAAGTCAAA--------AT-TC-------TCATGATTTTTAGAC-ATCGAATAttgaccaagttatcccacctattttaaatgtgaacttttt-atctgtaaaacctgtcctctttcc-ctttcaaaagaattatatgagtcagatgtgataacatatataaaagtataaaactatg-aaaaatcaaatgaatgaaatgtaagttatcat-GAAATATAAGTTATCATCTTGGTTATTA
i cebCap1.NW_016107590v1   C 0 I 3
s aotNan1.NW_018505940v1    13203867 348 -  42888418 aaaa-------------aattagagccatttttaatctaacataAGGAGG-TTTTATTTTTAGATCTGTAGCCTGAATCTCTCTCTTTTGTATGC-TTAACAGACTTT-AATGTCTAATTAATCA-TTTAGTAGTTAACTCATCTATAAGTCAAA--------AT-TC-------TCATGATTTTTAGAC-ATGGAATATTGACCAAATTATCCCACCTATTTTAAACTTGGACTTTTTAATCTGTAAAACTTGTCCTCTTTTC-CTTTCAAAATAATTATATGAGTCAGATGTGATAAAATATATAAAAGTATAAAATTATG-AAAAATCAAATGAGTGAAATGTAAATTATCAT-GAAATATAAGTTATCATCTTGGTTATTA
i aotNan1.NW_018505940v1   C 0 I 3
s micMur3.chr12             60538316 334 + 108143057 aaaa-------------atttgcagccatcttgaacctaccacGATGAAATTTATATTTTTAGATTTGTAGCCCAAATCAATCTCTTTTATGTGC-TTAA-AAACTTT-AATGTATAATTAATCA-TGTAATAATTAAGTCATCCATGAGTCAAA--------AGATCAGAGATCTCATAATTTTTAGATAAtggaatcttgaccaagttaccccacctgtttgtaacttggacttctc-atctgtaaaatctgtcctctctgc-ctttcagaaggattatatggatcagatttgataatatatgtgaaagtacaaaactatt-aaaa-----------------------atcatcaaaatgtgaggtattatCTTGGTTATTA
i micMur3.chr12            I 519 I 26
s proCoq1.NW_012155062v1     3580229 333 +  11683526 aaaa-------------atttgcagccatctttaatctaccacaATGAAGTTTATATTTTTAGATTTGTAGCCCAAATCAATCTCTTTCATATGC-TTAA-AAACTTT-AATGCATAATTAATAG-TGTAATAGTTAAGTCATCTATAAGTCAAA--------AGATCAAAGATCTCATAATTTTtagat-acggaatcttgaccaagttatcccacctgtttgaaacttggacttttc-atctataaaatctgtcctctctgc-ctttcagaaggattatatggatcagatttgataacatatgtgaaagtataaaactata-aaaa-----------------------atcatggaaatataaggtattatCTTGGTTATTA
i proCoq1.NW_012155062v1   I 566 I 4
s otoGar3.GL873679           3067987 333 +   4132165 -aaa-------------acttgcagccatctttaatctaccacaATGAAGTTTATGTTGTTCAATATATA-CCCTAATATCTCTCTTTTGTAAGA-TTAACAAACTTT-GATGCATAATGAATCA-TTTGGTAGGACGGTCATCTATAAGTCACA--------GGATCAGAGAGTTCGTATTTTTGAAAt-atgaaatcttgaccaacttaccttatctgtttgaaacatgaacttttc-atctgtaaaatctgtcctttctcctttttcaaaaagattgtatgaatcagatgtggtgacatatgtgaaagtgtaaaactata-aaaa-----------------------atcatggaagtataaggtattatCTTGGTTACCA
i otoGar3.GL873679         C 0 I 3
s canFam3.chr11             14912810 327 +  74389097 aaga-------------atttgcagttgtct--aatctaccacaATGAGGTTTATGTTTTTACATCTGCAGCCTGAAGCTCTCTCCT---TGTGC-TTAAAACACTTC-ATTGCATAAATCACTACTTTAATTGTCAAGTTATCTATAAGTAAAAGATCAGAGAGATC-------TCATAATGTTTAGAA-Ttgtaattttgacgaagtctctccttctgttttaaacttgggtgtttt-atctgtaaaacctgtcccttatcc-c-ctcagaaggattatatagatcag-tgtgata--atatgtgaaaatgtaaaactgtg-aaaa-----------------------atcatacagagttaaggtattatCTTGGTTATCA
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2629089 299 +   3667625 aaga-------------atttgtagccatctttaat-TGACACAAGGAGGTTTGTATTTTTAGATCTTT-GCCTAAAGCTCTGTTTTTTATGTGCATGAACAAACTTT-AACATACAGTT---CA-TTTGATAATT-----ATCAATAAATCAAC--------AGATCAGAGATCCCATAATGTTTATAt-atgtgatcttgaccaagtcattccacctgtttgaaacttgaattcttt-attgattaaacctgtcctctcttt-tattc---aggcttgtaaagat---------taaCCCATGTG--------------TG-AAAA-----------------------ACAATACAAATATAAGGTAATATCTTGGTTATCA
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55512076 3525 +  90702639 I

a score=272267.000000
s hg38.chr5_KI270796v1_alt     87539 30 +    172708 AAATAATTTTGACTCCA---TTTTTTTTTCCTG
s panTro5.chr5             125191528 29 + 181907262 AAATAATTTTGACTCCA---TTTTTTTT-CCTG
i panTro5.chr5             I 3 C 0
s panPan2.chr5             126528402 29 + 183735486 AAATAATTTTGACTCCA---TTTTTTTT-CCTG
i panPan2.chr5             I 3 C 0
s gorGor5.CYUI01015135v1     1720011 29 +   8933513 AAATAATTTTGATTCCA---TTTTTTTT-CCTG
i gorGor5.CYUI01015135v1   I 3 C 0
s nomLeu3.chr2             139850764 28 + 163208435 AAATAATTTTGACTCCA---TTTTTTT--CCTG
i nomLeu3.chr2             I 3 C 0
s rheMac8.chr6             122839611 29 + 180051392 AAATAATTTTGACTCTA---TTTTTTTT-TCTG
i rheMac8.chr6             I 3 C 0
s macFas5.chr6             124263231 29 + 181584905 AAATAATTTTGACTCTA---TTTTTTTT-TCTG
i macFas5.chr6             I 3 C 0
s macNem1.NW_012012355v1    16261289 32 +  18395747 AAATAATTTTGACTCTATTTTTTTTTTT-TCTG
i macNem1.NW_012012355v1   I 3 C 0
s cerAty1.NW_012002512v1     5273240 30 +  26952557 AAATAATTTTGACTCCA--TTTTTTTTT-TCTG
i cerAty1.NW_012002512v1   I 3 C 0
s chlSab2.chr23             28375480 29 +  82825804 AAATAATTTTGACTCCA---TTTTTTTT-TCTG
i chlSab2.chr23            I 3 C 0
s manLeu1.NW_012103321v1     4044345 30 -   4237731 AAATAATTTTGACTCCA--TTTTTTTTT-TCTG
i manLeu1.NW_012103321v1   I 3 C 0
s colAng1.NW_012119644v1      312894 29 -   1175262 AAATAATTTTGACTCCA---TTTTTTTT-TCTG
i colAng1.NW_012119644v1   I 3 C 0
s calJac3.chr2             123659352 28 - 204313951 GAATAATTTTGACTCCA---TTTTTTT--TCTG
i calJac3.chr2             I 3 C 0
s saiBol1.JH378106          55703228 28 -  71252344 AAATAATTTTGACTCCA---TTTTTTT--CCTG
i saiBol1.JH378106         I 3 C 0
s cebCap1.NW_016107590v1        6264 28 -   3089952 AAATAATTTTGACTCCA---TTATTTT--CCTG
i cebCap1.NW_016107590v1   I 3 C 0
s aotNan1.NW_018505940v1    13204218 28 -  42888418 AAATAATTTTGACTCCA---TTTTTTT--CCTG
i aotNan1.NW_018505940v1   I 3 C 0
s proCoq1.NW_012155062v1     3580566 22 +  11683526 ---AAATAATGACTCAA---TTTTTCTA-----
i proCoq1.NW_012155062v1   I 4 C 0
s otoGar3.GL873679           3068323 25 +   4132165 AAATAATGATGACTCAA---TTCTTCTA-----
i otoGar3.GL873679         I 3 C 0
s canFam3.chr11             14913140 26 +  74389097 AAACAATAATGAATAGA---TTTCT----CCTG
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2629388 26 +   3667625 CTAAAATGATGATTGCA---TTTCT----TCTG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60538650 26 + 108143057 I
e mm10.chr18                55512076 3525 +  90702639 I

a score=643259.000000
s hg38.chr5_KI270796v1_alt     87569 45 +    172708 CAAAACAGTGAAA-CAAAATAAATGTCTTCTTAAAG-TAGTTGAATT
s panTro5.chr5             125191557 45 + 181907262 CAAAACAGTGAAA-CAAAATAAATGGCTTCTTAAAG-TAGTTGAATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528431 45 + 183735486 CAAAACAGTGAAA-CAAAATAAATGGCTTCTTAAAG-TAGTTGAATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720040 45 +   8933513 CAAAACAGTGAAA-CAAAATAAATGTCTTCTTAAAG-TAGTTGAATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139850792 45 + 163208435 CAAAACAGTGAAA-CAAAATAAATGTCTTCTTAAAG-TAGTTGAATT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122839640 45 + 180051392 CAAAACAGTGAAA-CAAAATAAATGTTTTCTTAAAG-TAGTTGAATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124263260 45 + 181584905 CAAAACAGTGAAA-CAAAATAAATGTTTTCTTAAAG-TAGTTGAATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16261321 45 +  18395747 CAAAACAGTGAAA-CAAAATAAATGTTTTCTTAAAG-TAGTTGAATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5273270 45 +  26952557 CAAAACAGTGAAA-CAAAATAAATGTTTTCTTAAAG-TAGTTGAATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28375509 45 +  82825804 CAAAACAGTGACA-CAAAATAAATATTTTCTTAAAG-TAGTTGAATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4044375 45 -   4237731 CAAAACAGTGAAA-CAAAATAAATGTTTTCTTAAAC-TAGTTGAATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      312923 45 -   1175262 CAAAACAGTGAAA-CAAAATAAATGTTTTCTTAAAG-TAGTTGAATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123659380 40 - 204313951 GAAAACAATGAAA-CAAAATAAATTTCTTCTTAAAG------GAATT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55703256 40 -  71252344 CAAAACAATGAAA-CAAAATAAATGTCTTCTTAAAG------GAATT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        6292 40 -   3089952 GAAAACAATGAAA-CAAAATAAATGTCTTCTTAAAG------AAATT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13204246 40 -  42888418 CAAAACAATGAAA-CAAAATAAACGTCTTCTTAAAG------GAATT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60538676 45 + 108143057 CAAAACAATGAAA-CAAAATAAATGTCTTCTTAAAT-TGGTTGAATT
i micMur3.chr12            I 26 I 331
s proCoq1.NW_012155062v1     3580588 45 +  11683526 CAAAACAATGAAA-CAAAATAAATGTCTTCTTAAAG-TAGTAGAATT
i proCoq1.NW_012155062v1   C 0 I 311
s otoGar3.GL873679           3068348 45 +   4132165 CAAAATAGTGAAA-CAAAATAAATGTCTTCTTAAAT-TAGTTGAAGT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14913166 29 +  74389097 CAAAACAATAAAACCAAAATAAGTGTCTT------------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2629414 46 +   3667625 CAAAACAATAAAA-CTAAATAAATGTCTTCTTAAAGATAGCTAAATT
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55512076 3525 +  90702639 I

a score=145335.000000
s hg38.chr5_KI270796v1_alt     87614 13 +    172708 TCCCAAGTTGGTT
s panTro5.chr5             125191602 13 + 181907262 TCCCAAGTCGGTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528476 13 + 183735486 TCCCAAGTCGGTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720085 13 +   8933513 TCCCAAGTCGGTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139850837 13 + 163208435 TCCCAAGTCAGTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122839685 13 + 180051392 TCCCAAGTCAGTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124263305 13 + 181584905 TCCCAAGTCAGTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16261366 13 +  18395747 TCCCAAGTCAGTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5273315 13 +  26952557 TCCCAAGTCAGTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28375554 13 +  82825804 TCCCAAGTCAGTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4044420 13 -   4237731 TCCCAAGTCAGTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      312968 13 -   1175262 TCCCAAGTCAGTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123659420 13 - 204313951 TCCCAAATCAGTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55703296 13 -  71252344 TCCCAAATCTGCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        6332 13 -   3089952 TCTCAAATCTGTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13204286 13 -  42888418 TCCCAAATCAGTT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3068393 13 +   4132165 CCTTATGACAGTT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14913195 13 +  74389097 TTTAAAGGTAGTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2629460 11 +   3667625 --CCTAGCCAGTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60538721 331 + 108143057 I
e proCoq1.NW_012155062v1     3580633 311 +  11683526 I
e mm10.chr18                55512076 3525 +  90702639 I

a score=822300.000000
s hg38.chr5_KI270796v1_alt     87627 80 +    172708 CTACATACAtcacctttttcctttgccatgaacggccatgctcacagagccctttcctgagctctgtacttaaaatggcc
s panTro5.chr5             125191615 80 + 181907262 CTAGATACAtcacctttttcctttgccatgaacggccatgctcacagagccctttcctgagctctgtacttaaaacggcc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528489 80 + 183735486 CTAGATACAtcacctttttcctttgccatgaacggccatgctcacagagccctttcctgagctctgtacttaaaatggcc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720098 80 +   8933513 CTAGATACAtcacctttttcctttgccatgaacggccatgctcacagagccctttcctgagctctgtacttaaaatggcc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139850850 80 + 163208435 CTAGATACAtcacccttttcctttgccatgaacggccatgctcacagagccctttcttgatctctgtacttaaaatggcc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122839698 80 + 180051392 CTAGATATAtcacctttttcctttgccatgaaaggccatgctcatagagccgtttcctgacctctgtacttaaaatggcC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124263318 80 + 181584905 CTAGATATATCACCTTTTTCCTTTGCCATGAAAGGCCATGCTCACAGAGCCGTTTCCTGACCTCTGTACTTAAAATGGCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16261379 80 +  18395747 CTAGATATATCACCTTTTTCCTTTGCCATGAAAGGCCATGCTCACAGAGCTGTTTCCTGACCTCTGTACTTAAAATGGCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5273328 80 +  26952557 CTAGATATATCACCTTTTTACTTTGCCATGAAAGGCCATGCTCACAGAGCCATTTCCTGACCTCTGTACTTAAAATGGCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28375567 80 +  82825804 CTAGATACATCACCTTTTTCCTTTGCCATGAAAGGCCATGCTCACAGAGCCGTTTCCTGACCTCTGTACTTAAAATGGCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4044433 80 -   4237731 CTAGATATATCACCTTTTTCCTTTGCCATGAAAGGCCATGCTCACAGAGCTGTTTCCTGACCTCTGTACTTAAAATGGCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      312981 80 -   1175262 CTAGATACAtcacctttttcctttgccatgaaaggccatgctcacagagccctttcctgacctctgtacttaaaatggcC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123659433 79 - 204313951 CTGGATACATCACCTTTTTCCTTTGCCATGAA-GACCATGCTCATAGAGCCCTTTCCTGACCTTTGTACTTGAAATGGTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55703309 78 -  71252344 CTAGATACATCACCTTTTT-TTTTGCCATGAA-GACCATGctcacagagccctttcctgacctttgtatttaaaatggac
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        6345 78 -   3089952 CTAGATACAGAACCTTTTTCCTTTGCCATGAA-GACCATGCTTACAGAGCCCTTTCCTGA-CTTTGTGCTTAAAATGGAC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13204299 79 -  42888418 CTAGATACATCACCTTTGTCCTTTTCCATGAA-GACCATGCTCACAGAGCCCTTTCCTGACCTTTGTACTTAAAATGGAC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3068406 63 +   4132165 CTAGATACGTCAC-----------------AAAGGCCACGTTCATCAAATCCTCTCCTGATATTCACACTAACAATAACC
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2629471 71 +   3667625 CTAAAAGCTTCATCTTTTCCTTCTGACAAGAA-TGTCA-------AGAGCCCT-TCCTGACTGCCATCCAGAAAATGGCC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60538721 331 + 108143057 I
e canFam3.chr11             14913208  0 +  74389097 C
e proCoq1.NW_012155062v1     3580633 311 +  11683526 I
e mm10.chr18                55512076 3525 +  90702639 I

a score=58952.000000
s hg38.chr5_KI270796v1_alt     87707 5 +    172708 tctga
s panTro5.chr5             125191695 5 + 181907262 tctga
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528569 5 + 183735486 tctga
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720178 5 +   8933513 tctga
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139850930 5 + 163208435 tctga
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122839778 5 + 180051392 TCTGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124263398 5 + 181584905 TCTGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16261459 5 +  18395747 TCTGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5273408 5 +  26952557 TCTGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28375647 5 +  82825804 TCTGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4044513 5 -   4237731 TCTGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      313061 5 -   1175262 TCTGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123659512 5 - 204313951 TCTGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55703387 5 -  71252344 tctga
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        6423 5 -   3089952 TCTGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13204378 5 -  42888418 TCTGA
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2629542 5 +   3667625 TTGGA
i dasNov3.JH567306         C 0 I 27
e micMur3.chr12             60538721 331 + 108143057 I
e canFam3.chr11             14913208 0 +  74389097 C
e proCoq1.NW_012155062v1     3580633 311 +  11683526 I
e otoGar3.GL873679           3068469 0 +   4132165 C
e mm10.chr18                55512076 3525 +  90702639 I

a score=555349.000000
s hg38.chr5_KI270796v1_alt     87712 57 +    172708 ggccaggttcagtggcttacccctgtaatccaagcactttgggaggctgaagcagaa
s panTro5.chr5             125191700 57 + 181907262 ggccaggttcagtggctcacccctgtaatccaagcactttgggaggctgaggcagaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528574 57 + 183735486 ggccaggttcagtggctcacccctgtaatccaagcactttgggaggctgaggcagaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720183 57 +   8933513 ggccaggttcagtggctcacccctgtaatccaagcactttgggaggctgaggcagaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139850935 57 + 163208435 ggctaggttcagtggctcacccctgtaatccaagcactttgggaggctgaggcagaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122839783 57 + 180051392 GTccaggttcactggctcacgcctgtaatccaagcactttgggaggctgaggcagaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124263403 57 + 181584905 GTccaggttcactggctcacgcctgtaatccaagcactttgggaggctgaggcagaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16261464 57 +  18395747 GTccaggttcactggctcacgcctgtaatccaagcactttgggaggctgaggcagaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5273413 57 +  26952557 GTccaggttcactggctcacgcctgtaatccaagcactttgggaggctgaggcagaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28375652 56 +  82825804 GTccaggttcactggctcacacctgtaatccaaggactttgggaggctga-gcagaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4044518 57 -   4237731 GTccaggttcactggctcacgcctgtaatccaagcactttgggaggctgaggcagaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      313066 57 -   1175262 GTccaggttcactggctcacccctgtaatccaagcactttgggaggctgaggcagaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123659517 57 - 204313951 ggctaggttcagtcgttcacccatgtaatccaagcattttgagaggctgagacagaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55703392 57 -  71252344 ggctaggttcagtggttcactcctgtaatccaagcacttagagaggctgaagcagaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        6428 57 -   3089952 ggctaggttcagtggttcacccttgcagttcaagcactttgagaggctgaggcagaa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13204383 57 -  42888418 ggctaggtccagtggttcacccctgtaatccaagcactttgagaggctgaggcagaa
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60538721 331 + 108143057 I
e canFam3.chr11             14913208  0 +  74389097 C
e proCoq1.NW_012155062v1     3580633 311 +  11683526 I
e otoGar3.GL873679           3068469  0 +   4132165 C
e dasNov3.JH567306           2629547 27 +   3667625 I
e mm10.chr18                55512076 3525 +  90702639 I

a score=2100581.000000
s hg38.chr5_KI270796v1_alt     87769 245 +    172708 ggatcacttgaggccagaagttcaagatcaacctgagcaacataatgaga------ccccatctctaaaaatttttttttt-aaaaaactagtcaggtgtggtggcatgagtctgtagtttcagctacttgggaggctgaggtgggaggatggcttgagcccaggaggttgaggcttcagtgagccatgatc-------atgccactgcacttgagcctcgtgacagtacaagagcctgtctcaaaa-----------------------------aaaaaaaaaaaa
s panTro5.chr5             125191757 245 + 181907262 ggatcacttgaggccagaagttcaagatcaacctgagcaacatagtgaga------ccccatctctaaaattttttttttt-aataaactagccaggtgtggtggcatgagtctgtagtttcagctactttggaggctgaggtgggaggatggcttgagcccaggaggttgaggcttcagtgagccatgatc-------atgccactgcacttgagccttgtgacagtataagagccagtctcaaaa-----------------------------aaaaaaaaaaaa
i panTro5.chr5             C 0 I 1
s panPan2.chr5             126528631 242 + 183735486 ggatcacttgaggccagaagttcaagatcaacctgagcaacatagtgaga------ccccatctctaaaa-tttttttttt-aataaactagccaggtgtggtggcatgagtctgtagtttcagctactttggaggctgaggtgggaggatggcttgagcccaggaggttgaggcttcagtgagccatgatc-------atgccactgcacttgagccttgtgacagtataagagccagtct--aca-----------------------------aaaaaaaaaaaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720240 243 +   8933513 ggatcacttgaggccagaagttcaagatcaacctgagcaacataatgaga------ccccatctctaaaatttttttttttaaaaaaactagccaggtgtggtggcatgagtctgtggtttcagctacttgggaggctgaggtgggaggatggcttgagcccaggaggttgaggcttcagtgagccatgatc-------atgccactgcacttgagcctcatgacagtacaagagccagtct---ca-----------------------------aaaaaaaaaaaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139850992 246 + 163208435 ggatcacttgaggccagaagtttaagatcaaactgagcaaaatagcgaga------ccccatctctaaaaattttttttttttttaaagtaaccaggtgtggtggcatgagtctgtagttgcagctacttgggaggctgaggtgggaggatggcttgagcccaggaggtcgaggcttcagtgagccatgatc-------atgccactgcactcgagcctcgtgacagtacaagagccagtctaaaaa-----------------------------aaaaaaaaaaaa
i nomLeu3.chr2             C 0 I 1
s rheMac8.chr6             122839840 245 + 180051392 ggatcacttgaagccggaagttcaagatcagcctgagcaacatagtgaga------ccccatctctgaaaaaaattttttt-aaaaaagtagccaggtgtggtggcatgagtctgtagtttcagctacttgggaggctgaggtgggaggatggcttgagcccaggaggttgaggcttcagtgagccatgatc-------atgccactgcactccagcctcgtgatagtacaagagccagtctcagaa-----------------------------aaagaaaaaaaa
i rheMac8.chr6             C 0 I 3
s macFas5.chr6             124263460 245 + 181584905 ggatcacttgaagccggaagttcaagatcagcctgagcaacatagtgaga------ccccatctctgaaaaaaattttttt-aaaaaagtagccaggtgtggtggcatgagtctgtagtttcagctacttgggaggctgaggtgggaggatggcttgagcccaggaggttgaggcttcagtgagccatgatc-------atgccactgcactccagcctcgtgatagtacaagagccagtctcagaa-----------------------------aaagaaaaaaaa
i macFas5.chr6             C 0 I 3
s macNem1.NW_012012355v1    16261521 245 +  18395747 ggatcacttgaagccggaagttcaagatcggcctgagcaacatagtgaga------ccccatctctgaaaaaaattttttt-aaaaaagtagccaggtgtggtggcatgagtctgtagtttcagctacttgggaggctgaggtgggaggatggcttgagcccaggaggttgaggcttcagtgagccataatc-------atgccactgcactccagcctcctgatagtacaagagccagtctcagaa-----------------------------aaagaaaaaaaa
i macNem1.NW_012012355v1   C 0 I 374
s cerAty1.NW_012002512v1     5273470 245 +  26952557 gcatcacttgaagccggaagttcaagatcagcctgagcaacatagtgaga------ccccatctctgaaaaaaatttttca-aaaaaagtagccaggtgtggtggcatgagtctgtagtttcagctacttgggaggctgaggtgggaggatggcttgagcccaggaggttgaggcttcagtgagccatgatc-------gtgccactgcactccagcctcgtgatagtacaagagccagtctcagaa-----------------------------aaagaaaaaaaa
i cerAty1.NW_012002512v1   C 0 I 1
s chlSab2.chr23             28375708 245 +  82825804 ggatcacttgaagccagaagttcaagatcagcctgagcaacatagtgaga------ccccatctctgaaaaaatttttttt-aaaaaagtagccaggtgtggtggcatgagtctgtagtttcagctacttgggaggctgaggtgggaggatggcttgagcccaggaggttgaggcttcagtgagccatgatc-------atgccactgcactccagcctcgtgatagtacaagagccagtctcaaaa-----------------------------aaagaaaaaaaa
i chlSab2.chr23            C 0 I 1
s manLeu1.NW_012103321v1     4044575 245 -   4237731 agatcacttgaagccggaagttcaagatcagcctgagcaacatagtgaga------ccctatctctgaaaaaaattttttt-aaaaaagtagccaggtgtggtggcatgagtctgtagtttcagctacttgggaggctgaggtgggaggatggcttgagcccaggaggttgaggcttcagtgagccatgatc-------atgccactgcactccagcctcgtgatagtacaagagccagtctcagaa-----------------------------aaagaaaaaaaa
i manLeu1.NW_012103321v1   C 0 I 1
s colAng1.NW_012119644v1      313123 245 -   1175262 ggatcacttgaagccggaagttcaagatcagcctgagcaacatagtgaga------ccccgtctctgaaaaaaattttttc-aaaagagtagccaggtgtggtggcatgagtctgtagtttcagctacttgggaggctgaggtgggaggatggcttgagcccaggagattgaggcttcagtgagccatgatc-------atgccactgcactccagcctcgtgatagtacaagagccagtctcaaaa-----------------------------gaagaaaaaaaa
i colAng1.NW_012119644v1   C 0 I 2
s calJac3.chr2             123659574 281 - 204313951 ggatcacttgaggctgggagttcaagaccagcctgggcaacatagtgagacccgccccccatctcgaaa------tttttt-ttttaattagccagatgtggtggcatgagtctatagtttcagctacttgggatgctgatgtgggagaatggcttgagccgaggagattgaggcttcaatgagccatgatcatgccttatgccactgcactccagcttggtgacagtacaagactcagcctcaaaagaaataaaaataaaaataaaaataaaaataaaaattaaaaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55703449 274 -  71252344 ggatcgcttgaggctggcagttcaagaccagccttggcaacatagtgaga-----gcccaatctctaaa---ctttttttt-ttttaattagccagatgtggtggcatgagtccatagtttcagctacttgggaggctgatgtgagaggatggctttagcccaggagattgaggcttcagtgggccatgatcatgccttatgccactgcactccagcttggtgacagtacaaaacttggtctcaaaa-----ataaataaaaaaatgaataaataaataaataaataa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        6485 256 -   3089952 ggatcgcttgaggctgggggttcaagaccagcccgggcaacatagtgaga-----cccccatctctaaa--tttttttttt-ttttaattagccagatgtggtggcatgagtccgtcgtttcagctacttgggaggctgatgtgggaggatggtttgagcccaggagattgaggcttcaatgagccatgatcatgccttatgccactgcactccagcttggtgacagtacaagactcggcctcaaaa------------------------aaaataaaaaTTAAAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13204440 259 -  42888418 ggatcacttgaggctgggagttcaagaccagcctgggcaacacagtaaga-----cccccatcgctaat------tttttt-tttaaattagccagatgtggtggcatgagtctatagtttcagctacttgggaggctgatgtgggaggatggcttgagcccaggagattgaggcttcaatgagccatgatcatgccttatgccactgcactccagcttggtgacagtacaagactcagcctcaaaa-----------------ataaaaaaataaataaataaaaaa
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14913208  84 +  74389097 GAATTCCCCGAGAC----AGTTCTAAAT---------------------A------CCTCAACT----------TTTTTCC------------------TATTGTCATGAG----------------------------------------GACCTG-GCTCA--------------CAGAGAGTCCT-----------CTGCCTCTGa-------------------------------------------------------------------------------
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60538721 331 + 108143057 I
e proCoq1.NW_012155062v1     3580633 311 +  11683526 I
e otoGar3.GL873679           3068469   0 +   4132165 C
e dasNov3.JH567306           2629547  27 +   3667625 I
e mm10.chr18                55512076 3525 +  90702639 I

a score=81298.000000
s hg38.chr5_KI270796v1_alt     88014 11 +    172708 ttaaaatagct
s panTro5.chr5             125192003 11 + 181907262 ttaaaatagct
i panTro5.chr5             I 1 C 0
s panPan2.chr5             126528873 11 + 183735486 ttaaaatagct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720483 11 +   8933513 ttaaaatagct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139851239 11 + 163208435 ttaaaatagct
i nomLeu3.chr2             I 1 C 0
s rheMac8.chr6             122840088 11 + 180051392 TTAAAATAGCT
i rheMac8.chr6             I 3 C 0
s macFas5.chr6             124263708 11 + 181584905 TTAAAATAGCT
i macFas5.chr6             I 3 C 0
s cerAty1.NW_012002512v1     5273716 11 +  26952557 TTAAAATAGCT
i cerAty1.NW_012002512v1   I 1 C 0
s chlSab2.chr23             28375954 11 +  82825804 TTAAAATAGCT
i chlSab2.chr23            I 1 C 0
s manLeu1.NW_012103321v1     4044821 11 -   4237731 TTAAAATAGCT
i manLeu1.NW_012103321v1   I 1 C 0
s colAng1.NW_012119644v1      313370 11 -   1175262 tgaaaaTAGCT
i colAng1.NW_012119644v1   I 2 C 0
s calJac3.chr2             123659855 11 - 204313951 ttaaaataGCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55703723 11 -  71252344 ataaaatgtaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        6741 11 -   3089952 TTAAAATAGCT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13204699 11 -  42888418 TTAAAATAGCT
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14913292  1 +  74389097 ------t----
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60538721 331 + 108143057 I
e proCoq1.NW_012155062v1     3580633 311 +  11683526 I
e macNem1.NW_012012355v1    16261766 374 +  18395747 I
e otoGar3.GL873679           3068469  0 +   4132165 C
e dasNov3.JH567306           2629547 27 +   3667625 I
e mm10.chr18                55512076 3525 +  90702639 I

a score=-1086.000000
s hg38.chr5_KI270796v1_alt     88025 7 +    172708 tctgact-
s panTro5.chr5             125192014 7 + 181907262 tctgact-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528884 7 + 183735486 tctgact-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720494 7 +   8933513 tctgact-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139851250 7 + 163208435 tctgact-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122840099 3 + 180051392 T----CT-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124263719 3 + 181584905 T----CT-
i macFas5.chr6             C 0 C 0
s cerAty1.NW_012002512v1     5273727 3 +  26952557 T----CT-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28375965 3 +  82825804 T----CT-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4044832 3 -   4237731 T----TT-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      313381 3 -   1175262 T----CT-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123659866 7 - 204313951 CCTGACT-
i calJac3.chr2             C 0 I 4
s saiBol1.JH378106          55703734 4 -  71252344 c---act-
i saiBol1.JH378106         C 0 I 4
s cebCap1.NW_016107590v1        6752 7 -   3089952 TCTGACT-
i cebCap1.NW_016107590v1   C 0 I 355
s aotNan1.NW_018505940v1    13204710 7 -  42888418 TCTGACT-
i aotNan1.NW_018505940v1   C 0 I 4
s otoGar3.GL873679           3068469 7 +   4132165 TCTGACT-
i otoGar3.GL873679         C 0 I 4
s canFam3.chr11             14913293 4 +  74389097 ----tctg
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60538721 331 + 108143057 I
e proCoq1.NW_012155062v1     3580633 311 +  11683526 I
e macNem1.NW_012012355v1    16261766 374 +  18395747 I
e dasNov3.JH567306           2629547 27 +   3667625 I
e mm10.chr18                55512076 3525 +  90702639 I

a score=158684.000000
s hg38.chr5_KI270796v1_alt     88032 18 +    172708 attgagcttaccatactt
s panTro5.chr5             125192021 18 + 181907262 attgagcttaccatactt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528891 18 + 183735486 attgagcttaccatactt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720501 18 +   8933513 attgagcttaccatactt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139851257 18 + 163208435 attgagcttaccatactt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122840102 18 + 180051392 ATTGAGCTTACCATACTt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124263722 18 + 181584905 ATTGAGCTTACCATACTt
i macFas5.chr6             C 0 C 0
s cerAty1.NW_012002512v1     5273730 18 +  26952557 ATTGAGCTTACCATACTt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28375968 18 +  82825804 ATTGAGCTTACCATACTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4044835 18 -   4237731 ATTGAGCTTACCATACTt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      313384 18 -   1175262 ATTGAGCTTACCATACTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123659877 17 - 204313951 ATTGAGCCTAC-ATACTT
i calJac3.chr2             I 4 C 0
s saiBol1.JH378106          55703742 18 -  71252344 attgagcctacaatactt
i saiBol1.JH378106         I 4 I 322
s aotNan1.NW_018505940v1    13204721 18 -  42888418 ATTGAGCCTACCATACTT
i aotNan1.NW_018505940v1   I 4 C 0
s otoGar3.GL873679           3068480 18 +   4132165 GATGAGcctgccatattt
i otoGar3.GL873679         I 4 C 0
s canFam3.chr11             14913297 17 +  74389097 -ctgaccttgttgtattt
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60538721 331 + 108143057 I
e proCoq1.NW_012155062v1     3580633 311 +  11683526 I
e macNem1.NW_012012355v1    16261766 374 +  18395747 I
e cebCap1.NW_016107590v1        6759 355 -   3089952 I
e dasNov3.JH567306           2629547 27 +   3667625 I
e mm10.chr18                55512076 3525 +  90702639 I

a score=-19155.000000
s hg38.chr5_KI270796v1_alt     88050 3 +    172708 -tta
s panTro5.chr5             125192039 3 + 181907262 -tta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528909 2 + 183735486 -tt-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720519 3 +   8933513 -tta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139851275 3 + 163208435 -tta
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122840120 3 + 180051392 -aaa
i rheMac8.chr6             C 0 I 31
s macFas5.chr6             124263740 3 + 181584905 -aaa
i macFas5.chr6             C 0 I 31
s cerAty1.NW_012002512v1     5273748 3 +  26952557 -aaa
i cerAty1.NW_012002512v1   C 0 I 31
s chlSab2.chr23             28375986 3 +  82825804 -aaa
i chlSab2.chr23            C 0 I 20
s manLeu1.NW_012103321v1     4044853 3 -   4237731 -aaa
i manLeu1.NW_012103321v1   C 0 I 31
s colAng1.NW_012119644v1      313402 3 -   1175262 -Taa
i colAng1.NW_012119644v1   C 0 I 14
s calJac3.chr2             123659894 1 - 204313951 ---A
i calJac3.chr2             C 0 I 2
s aotNan1.NW_018505940v1    13204739 2 -  42888418 --ta
i aotNan1.NW_018505940v1   C 0 I 1
s otoGar3.GL873679           3068498 3 +   4132165 -tta
i otoGar3.GL873679         C 0 I 3
s canFam3.chr11             14913314 3 +  74389097 ttt-
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60538721 331 + 108143057 I
e proCoq1.NW_012155062v1     3580633 311 +  11683526 I
e macNem1.NW_012012355v1    16261766 374 +  18395747 I
e cebCap1.NW_016107590v1        6759 355 -   3089952 I
e dasNov3.JH567306           2629547 27 +   3667625 I
e mm10.chr18                55512076 3525 +  90702639 I
e saiBol1.JH378106          55703760 322 -  71252344 I

a score=21499.000000
s hg38.chr5_KI270796v1_alt     88053 3 +    172708 -aaa
s panTro5.chr5             125192042 3 + 181907262 -aaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528911 3 + 183735486 -aaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720522 3 +   8933513 -aaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139851278 3 + 163208435 -aaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122840154 3 + 180051392 -aaa
i rheMac8.chr6             I 31 C 0
s macFas5.chr6             124263774 3 + 181584905 -aaa
i macFas5.chr6             I 31 C 0
s macNem1.NW_012012355v1    16262140 3 +  18395747 -aaa
i macNem1.NW_012012355v1   I 374 C 0
s cerAty1.NW_012002512v1     5273782 3 +  26952557 -aaa
i cerAty1.NW_012002512v1   I 31 C 0
s chlSab2.chr23             28376009 3 +  82825804 -aaa
i chlSab2.chr23            I 20 C 0
s manLeu1.NW_012103321v1     4044887 3 -   4237731 -aaa
i manLeu1.NW_012103321v1   I 31 C 0
s colAng1.NW_012119644v1      313419 3 -   1175262 -aaa
i colAng1.NW_012119644v1   I 14 C 0
s calJac3.chr2             123659897 3 - 204313951 -AAA
i calJac3.chr2             I 2 C 0
s saiBol1.JH378106          55704082 3 -  71252344 -aat
i saiBol1.JH378106         I 322 C 0
s aotNan1.NW_018505940v1    13204742 3 -  42888418 -aaa
i aotNan1.NW_018505940v1   I 1 I 305
s canFam3.chr11             14913317 3 +  74389097 taa-
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60538721 331 + 108143057 I
e proCoq1.NW_012155062v1     3580633 311 +  11683526 I
e otoGar3.GL873679           3068501 3 +   4132165 I
e cebCap1.NW_016107590v1        6759 355 -   3089952 I
e dasNov3.JH567306           2629547 27 +   3667625 I
e mm10.chr18                55512076 3525 +  90702639 I

a score=17241.000000
s hg38.chr5_KI270796v1_alt     88056 3 +    172708 aat
s panTro5.chr5             125192045 3 + 181907262 aat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528914 3 + 183735486 aat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720525 3 +   8933513 aat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139851281 3 + 163208435 aat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122840157 3 + 180051392 aaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124263777 3 + 181584905 aaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16262143 3 +  18395747 aaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5273785 3 +  26952557 aaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28376012 3 +  82825804 aaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4044890 3 -   4237731 aaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      313422 3 -   1175262 aaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123659900 3 - 204313951 AAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55704085 3 -  71252344 aat
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13205050 3 -  42888418 aat
i aotNan1.NW_018505940v1   I 305 C 0
s otoGar3.GL873679           3068504 3 +   4132165 aac
i otoGar3.GL873679         I 3 C 0
s canFam3.chr11             14913320 1 +  74389097 --t
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60538721 331 + 108143057 I
e proCoq1.NW_012155062v1     3580633 311 +  11683526 I
e cebCap1.NW_016107590v1        6759 355 -   3089952 I
e dasNov3.JH567306           2629547 27 +   3667625 I
e mm10.chr18                55512076 3525 +  90702639 I

a score=63140.000000
s hg38.chr5_KI270796v1_alt     88059 5 +    172708 aacac
s panTro5.chr5             125192048 5 + 181907262 aacac
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528917 5 + 183735486 aacac
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720528 5 +   8933513 aacac
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139851284 5 + 163208435 aacac
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122840160 5 + 180051392 aaCAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124263780 5 + 181584905 aaCAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16262146 5 +  18395747 aaCAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5273788 5 +  26952557 aaCAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28376015 5 +  82825804 aacaC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4044893 5 -   4237731 aaCAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      313425 5 -   1175262 aaCAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123659903 5 - 204313951 AACAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55704088 5 -  71252344 aacac
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        7114 5 -   3089952 AACAC
i cebCap1.NW_016107590v1   I 355 C 0
s aotNan1.NW_018505940v1    13205053 5 -  42888418 aaCAC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3068507 5 +   4132165 aacgg
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14913321 5 +  74389097 aacaa
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60538721 331 + 108143057 I
e proCoq1.NW_012155062v1     3580633 311 +  11683526 I
e dasNov3.JH567306           2629547 27 +   3667625 I
e mm10.chr18                55512076 3525 +  90702639 I

a score=54899.000000
s hg38.chr5_KI270796v1_alt     88064 5 +    172708 taact
s panTro5.chr5             125192053 5 + 181907262 taact
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528922 5 + 183735486 taact
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720533 5 +   8933513 caact
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139851289 5 + 163208435 taact
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122840165 5 + 180051392 taact
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124263785 5 + 181584905 taact
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16262151 5 +  18395747 taact
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5273793 5 +  26952557 taact
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28376020 5 +  82825804 taact
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4044898 5 -   4237731 taact
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      313430 5 -   1175262 taact
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123659908 5 - 204313951 TAAct
i calJac3.chr2             C 0 I 310
s saiBol1.JH378106          55704093 5 -  71252344 taaca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        7119 5 -   3089952 TCACT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13205058 5 -  42888418 taaca
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3068512 5 +   4132165 taaca
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14913326 5 +  74389097 gaaca
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2629574 5 +   3667625 taaca
i dasNov3.JH567306         I 27 C 0
e micMur3.chr12             60538721 331 + 108143057 I
e proCoq1.NW_012155062v1     3580633 311 +  11683526 I
e mm10.chr18                55512076 3525 +  90702639 I

a score=232354.000000
s hg38.chr5_KI270796v1_alt     88069 20 +    172708 ctaatctccacctaaaaaaa
s panTro5.chr5             125192058 20 + 181907262 ctaatctccacctaaaaaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528927 19 + 183735486 ctaatctccacct-aaaaaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720538 20 +   8933513 ctaatctccagctaagaaaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139851294 20 + 163208435 ctaatctccacctgaaaaaa
i nomLeu3.chr2             C 0 I 1
s rheMac8.chr6             122840170 20 + 180051392 ctaatctccacctggagaaa
i rheMac8.chr6             C 0 I 1
s macFas5.chr6             124263790 20 + 181584905 ctaatctccacctggagaaa
i macFas5.chr6             C 0 I 1
s macNem1.NW_012012355v1    16262156 20 +  18395747 ctaatctccacctggagaaa
i macNem1.NW_012012355v1   C 0 I 1
s cerAty1.NW_012002512v1     5273798 20 +  26952557 ctaatctccacctggagaaa
i cerAty1.NW_012002512v1   C 0 I 1
s chlSab2.chr23             28376025 20 +  82825804 ctaatctccacctggagaaa
i chlSab2.chr23            C 0 I 1
s manLeu1.NW_012103321v1     4044903 20 -   4237731 ctaatctccacctggagaaa
i manLeu1.NW_012103321v1   C 0 I 1
s colAng1.NW_012119644v1      313435 20 -   1175262 ctaatctccacctgaagaaa
i colAng1.NW_012119644v1   C 0 I 1
s calJac3.chr2             123660223 20 - 204313951 ctaatCTccacctgaaaaaa
i calJac3.chr2             I 310 I 1
s saiBol1.JH378106          55704098 20 -  71252344 ctaatctccacctgaaaaaa
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107590v1        7124 20 -   3089952 ctaatctccacctgaaaaaa
i cebCap1.NW_016107590v1   C 0 I 1
s aotNan1.NW_018505940v1    13205063 20 -  42888418 ctaatctccacctgaaaaaa
i aotNan1.NW_018505940v1   C 0 I 1
s otoGar3.GL873679           3068517 20 +   4132165 ctagcctctacccaaactga
i otoGar3.GL873679         C 0 I 1
s canFam3.chr11             14913331 20 +  74389097 tttatctccaccagaaatta
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2629579 20 +   3667625 ctcatttccacctgaaatta
i dasNov3.JH567306         C 0 I 1
e micMur3.chr12             60538721 331 + 108143057 I
e proCoq1.NW_012155062v1     3580633 311 +  11683526 I
e mm10.chr18                55512076 3525 +  90702639 I

a score=1604997.000000
s hg38.chr5_KI270796v1_alt     88089 132 +    172708 attgcat----attcattcatctacctattt-gttttccgtctcttctagaacatgag-atcttgtggacagagactcagagtttcctcagtgctgataagaaactgg------caattaccagacaattaacaaacatttttg-
s panTro5.chr5             125192078 132 + 181907262 attgcat----attcattcatctacctattt-gctttccgtctcttctagaacatgag-atcctgtggacagagactcagagtttcctcagtgctgataagaaactgg------caattaccagacaattaacaaacatttctg-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126528946 132 + 183735486 attgcat----attcattcatctacctattt-gctttccgtctcttctagaacatgag-atcctgtggacagagactcagagtttcctcagtgctgataagaaactgg------caattaccagacaattaacaaacatttctg-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720558 132 +   8933513 attgcac----attcattcatctacctattt-gttttccatctcttctagaacatgag-atcctgtggacagagactcagagtttcctcagtgctgataagaaactgg------caattaccagacaattaacaaacatttttg-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139851315 128 + 163208435 attgcat----attcattcatctacc----t-gttttccatctcttctagaacatgag-agcctgtggacagagacttagagtttcctcagtgctgacaagaaactgg------caattaccagacaattaacaaacatttttg-
i nomLeu3.chr2             I 1 C 0
s rheMac8.chr6             122840191 130 + 180051392 attgcat----attcattcatctacctattt-gttttccatctcttctagaacatgaa-atcctgtggacagagactc--agtttcctcagtgctgataagaaactgg------caattaccaggcaattaacaaacatttttg-
i rheMac8.chr6             I 1 C 0
s macFas5.chr6             124263811 130 + 181584905 attgcat----attcattcatctacctattt-gttttccatctcttctagaacatgaa-atcctgtggacagagactc--agtttcctcagtgctgataagaaactgg------caattaccaggcaattaacaaacatttttg-
i macFas5.chr6             I 1 C 0
s macNem1.NW_012012355v1    16262177 130 +  18395747 actgcat----attcattcatctacctattt-gttttccatctcttctagaacatgaa-atcctgtggacagagactc--agtttcctcagtgctgataagaaactgg------caattaccaggcaattaacaaacatttttg-
i macNem1.NW_012012355v1   I 1 C 0
s cerAty1.NW_012002512v1     5273819 130 +  26952557 actgcat----attcattcatctacctattt-gttttccatctcttctagaacacgaa-atcctgtggacagagactc--agtttccccagtgctgataagaaactgg------caattaccagacaattaacaaacatttttg-
i cerAty1.NW_012002512v1   I 1 C 0
s chlSab2.chr23             28376046 130 +  82825804 actgcat----attcattcatctacctattt-gttttccatctcttctagaacatgag-atcctgtggacagagactc--agtttcctcagggctgataagacactgg------caattaccagacaattaacaaacatttttg-
i chlSab2.chr23            I 1 C 0
s manLeu1.NW_012103321v1     4044924 130 -   4237731 actgcat----attcattcatctacctattt-gttttccatctcttctagaacatgaa-atcctgtggacagagactc--agtttcctcagtgctgataagaaaccgg------caattaccagacaattaacaaacatttttg-
i manLeu1.NW_012103321v1   I 1 C 0
s colAng1.NW_012119644v1      313456 136 -   1175262 attgcatattcattcattcatctacctattt-gttttccatctcttctagaacatgag-atcctgtggacagagactcagagtttcctcagtgctgataagaaactgg------caattaccagacaattaacaaacatttttg-
i colAng1.NW_012119644v1   I 1 C 0
s calJac3.chr2             123660244 137 - 204313951 attacat----gttcattcatctacttattt-gttttccatctcttct-gagcatgag-atcctgtggacagagacccagagtttcctcagtgctgataagaaactggcacatacaggtactagacaattaacaaacatttttg-
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55704119 137 -  71252344 attacat----attcgttcatctacttattt-gttttccatctcttct-ggacatgag-atcctgtggacagagacccagagtttcctcagtgctgataagaaactggcatatacaggtactagacaattaacaaacatttttg-
i saiBol1.JH378106         I 1 C 0
s cebCap1.NW_016107590v1        7145 137 -   3089952 attatat----gttcattcatctacttattt-gttttccatctcttct-gaacatgag-atcctgtggacagagacccagagtttcctcaatgctgataagaaactggcatatacaggtaatagataattaacaaacatttttg-
i cebCap1.NW_016107590v1   I 1 C 0
s aotNan1.NW_018505940v1    13205084 137 -  42888418 attacat----gttcattcatctacttattt-gttttccatctcttct-gaacatgag-atcctgtggacagagacccagagtttcctcagtgctgataagaaactggcatatacatgtactagacaattaacaaacatttttg-
i aotNan1.NW_018505940v1   I 1 C 0
s otoGar3.GL873679           3068538 137 +   4132165 attacac----attcactgatccacttattt-gttttctgtctcttctagaatacaca-ttcctgtggacagagtctca-actttccttagtacttataagtaattgacatatataggtaccaggtatttaataaacattgtta-
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55515601 119 +  90702639 ATTATGT----ATTCCTTGATTAACAT-TTT-GTCTTCTGCTTCTTGTAAAACAGAAG-ACCCT-----TAGAAACTCCAAATTTCCTTAATTCTCTTAAG--ACTAT------CAGATATTTAACAACCAACCATCAG------
i mm10.chr18               I 3525 C 0
s canFam3.chr11             14913352 138 +  74389097 attacac----attcattcatctacctgtttggttttgtgtctcttctggaacatgagtaccttgtgggcagagactt--cacttcctccatactcataagtaattggcagatatatatgtctgacacttcacaaacattgttg-
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2629600 128 +   3667625 attacat----attcattcatatacctgttt-gttttccatctcttctagaatatgag-ttcctttgggctacaacttagtgtttcctctgtgcttatatgtaattgt-----------accaggcatttaacaaatatttgttg
i dasNov3.JH567306         I 1 C 0
e micMur3.chr12             60538721 331 + 108143057 I
e proCoq1.NW_012155062v1     3580633 311 +  11683526 I

a score=215371.000000
s hg38.chr5_KI270796v1_alt     88221 20 +    172708 aataaatgaatGACTGAATA----
s panTro5.chr5             125192210 20 + 181907262 aataaatgaatGACTGAATA----
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126529078 20 + 183735486 aataaatgaatGACTGAATA----
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720690 20 +   8933513 aataaatgaatGACTGAATA----
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139851443 20 + 163208435 aattaatgaatGACTGAATA----
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122840321 20 + 180051392 aataaatgaatGACTGAATA----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124263941 20 + 181584905 aataaatgaatGACTGAATA----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16262307 20 +  18395747 aataaatgaatGACTGAATA----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5273949 20 +  26952557 aataaatgaatGACTGAATA----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28376176 20 +  82825804 aataaatgaatGACTGAATA----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4045054 20 -   4237731 aatatatgaatGACTGAATA----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      313592 20 -   1175262 aataaatgaatGACTGAATA----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123660381 13 - 204313951 aataaatgaCTGG-----------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55704256 13 -  71252344 aataagtgaCTGG-----------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        7282 13 -   3089952 aataaatgaCTGG-----------
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13205221 13 -  42888418 aataaatgaCTGG-----------
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3580944 20 +  11683526 aataaatgaatgaCTCAATC----
i proCoq1.NW_012155062v1   I 311 I 4
s otoGar3.GL873679           3068675 20 +   4132165 aataaattaatGACTGAATT----
i otoGar3.GL873679         C 0 I 4
s mm10.chr18                55515720 20 +  90702639 AATAAAAGAATGACTAACCT----
i mm10.chr18               C 0 I 3
s canFam3.chr11             14913490 20 +  74389097 aataaatgaatGAATAAGTA----
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2629728 24 +   3667625 aataaatgaatGATTGGGTGAGTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60538721 331 + 108143057 I

a score=4392127.000000
s hg38.chr5_KI270796v1_alt     88241 320 +    172708 AATGACTGGTGTT---ATTACCGTTGACCCATCTGGCATCCTAGTTTTGAAGTTTCTTTCCCTTTATAGCTCTTACAG-CT---------------------------------------TTCACTTACTTTTG-CCTTC-------------------AACAATA-TATTATA--GTTCATCTTGAAACTAGTCACTTCCTAGAGTGACTCCTTTTCTCagtcttccctgtctaattttggcctctt-acagctatgataaaatcttggcaatcctttttgtggcatgtctctgaaatatgtctcattctttccatttttactaccattgtctcaggccagggatttatca-------tagtct--------------cttatctaaatt--gttacaaaaatacccta
s panTro5.chr5             125192230 320 + 181907262 AATGACTGGTGTT---ATTACCGTTGACCCATCTGGCATCCTAGTTTTGAAGTTTCTTTCCCTTTATAGCTCTTACAG-CT---------------------------------------TTCACTTACTTTTG-CCTTC-------------------AACAATA-TATTATA--GTTCATCTTGAAACTAGTCACTTCCTAGAGTGACTCCTTTTCTCAGTCTTCCCTGTCTAATTTTGGCCTCTT-ACAGCTATGATAAAATCTTGGCAATCCTTTTTGTAGCATGTCTCTGAAATATGTCTCATTCTTTCCATTTTTACTACCATTGTCTCAGGCCAGGGATTTATCA-------TAGTCT--------------CTTATCTATATT--GTTACAAAAATACCCTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126529098 320 + 183735486 AATGACTGGTGTT---ATTACCGTTGACCCATCTGGCATCCTAGTTTTGAAGTTTCTTTCCCTTTATAGCTCTTACAG-CT---------------------------------------TTCACTTACTTTTG-CCTTC-------------------AACAATA-TATTATA--GTTCATCTTGAAACTAGTCACTTCCTAGAGTGACTCCTTTTCTCAGTCTTCCCTGTCTAATTTTGGCCTCTT-ACAGCTATGATAaaatcttggcaatcctttttgtagcatgtctctgaaatatgtctcattctttccatttttactaccattgtctcaggccagggatttatca-------tagtct--------------cttatctaaatt--gttacaaaaatacccta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1720710 319 +   8933513 AATGACTGGTGTT---ATTACCGTTGACCCATCTGGCATCCTAGTTTTGAAGTTTCTTTCCCTTTATAGCTCTTACAG-CT---------------------------------------TTCACTTACTTTTG-CCTTC-------------------AACAATA-TATTATA--GTTCATCTTGAAACTAGTCACTTCCTAGAGTGACTCCTTTTCTCagtcttccctgtctaattttggcctctt-acagctatgataaaatcttggcaatcc-ttttgtggcatgtctctgaaatatgtctcattctttccatttttactaccattgtctcaggccagggatttatca-------tagtct--------------cttatctaaatt--gtcacaaaaatacccta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139851463 320 + 163208435 AATGACTGGTGTT---GTTACCGTTGACCCATCTGGCATCCTAGTTTTGAAGTTTCTTTCCCTTTATAGCTCTTACAG-CT---------------------------------------TTCACTTACTTTTG-CCTTC-------------------AGCAATA-TGTCATA--GTTCATCTTGAAACTAGTCACTTCCTAGAGTGACTTCTTTACTCAGTCTTCCCTGTCTAATGTTGACCTCTT-ACAGCTATGATAAAATCTTGGCAATCCTTTTTGTGGCATGTCTCTGAAATATGTCTCATTCTTTCTCTTTTTACTACCATTGTCTCAGGCCAGGGGTTTATCA-------TAATCT--------------CTTATCTAAATT--GTTACAAAAATACCCTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122840341 319 + 180051392 AATGACTGGTGTT---ATTACCGTTGACCCATCTGGCATCCTAGTTTTGAAGTGTCTTTCCCTTTATAGCTCTTACAG-CT---------------------------------------TTCACTTACTTTTG-CCTTC-------------------AGCAATA-TATTATA--GTTCATCTTGAAACTAGTCACTTCCTAGAGTGAGTCCTTTTCTCAGTCTTCCCTCTCTAATA-TGGCCTCTT-ACAGTTATGATAAAATCTTGGCAATCCTTTTTGTGGCatgtgtctgaaatatgtctcattctttccatttttactaccattgtctcaggccagggatttatca-------taatct--------------cttatctaaatt--gttacaaaaatacccta
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124263961 319 + 181584905 AATGACTGGTGTT---ATTACCGTTGACCCATCTGGCATCCTAGTTTTGAAGTGTCTTTCCCTTTATAGCTCTTACAG-CT---------------------------------------TTCACTTACTTTTG-CCTTC-------------------AGCAATA-TATTATA--GTTCATCTTGAAACTAGTCACTTCCTAGAGTGAGTCCTTTTCTCAGTCTTCCCTCTCTAATA-TGGCCTCTT-ACAGTTATGATAAAATCTTGGCAATCCTTTTTGTGGCATGTGTCTGAAATATGTCTCATTCTTTCCATTTTTACTACCATTGTCTCAGGCCAGGGATTTATCA-------TAATCT--------------CTTATCTAAATT--GTTACAAAAATACCCTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16262327 319 +  18395747 AATGACTGGTGTT---ATTACCGTTGACCCATCTGGCATCCTAGTTTTGAAGTGTCTTTCCCTTTATAGCTCTTACAG-CT---------------------------------------TTCACTTACTTTTG-CCTTC-------------------AGCAATA-TATTATA--GTTCATCTTGAAACTAGTCACTTCCTAGAGTGAGTCCTTTTCTCAGTCTTCCCTCTCTAATA-TGGCCTCTT-ACAGTTATGATAAAATCTTGGCAATCCTTTTTGTGGCatgtgtctgaaatatgtctcattctttccatttttactaccattgtctcaggccagggatttatca-------taatct--------------cttatctaaatt--gttacaaaaatacccta
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5273969 317 +  26952557 AATGACTGGTGTT---ATTACCGTTGACCCATCTGGCATCCTAATTTTGAA--GTCTTTCCCTTTATAGCTCTTACAG-CT---------------------------------------TTCACTTACTTTTG-CCTTC-------------------AGCAATA-TATTATA--GTTCATCTTGAAACTAGTCACTTCCTAGAGTGAGTCCTTTTCTCAGTCTTCCCTCTCTAATA-TGGCCTCTT-ACAGTTATGATAAAATCTTGGCAATCCTTTTTGTGGCatgtgtctgaaatatgtctcattctttccatttttactaccattgtctcaggccagggatttatca-------taatct--------------cttatctaaatt--gttacaaaaatacccta
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28376196 319 +  82825804 AATGACTGGTGTT---ATTACCGTTGACCCATCTGGAATCCTAATTTTGAAGTGTCTTTCCCTTTATAGCTCTTACAG-CT---------------------------------------TTCACTTACTTTTG-CCTTC-------------------AGCAATA-TATTATA--GTTCATCTTGAAACTAGTCACTTCCTAGAGTGAGTCCTTTTCTCAGTCTTCCCTCTCTAATA-TGGCCTCTT-ACAGTTATGATAAAATCTTGGCAATCCTTTTTGTGGCATGTGTCTGAAATATGTCTCATTCTTTCCATTTTTACTACCATTGTCTCAGGCCAGGGATTTATCA-------TAATCT--------------CTTATCTAAATT--GTTACAAAAATACCCTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4045074 319 -   4237731 AATGACTGGTGTT---ATTACCGTTGACCCATCTGGCATCCTAATTTTGAAGTGTCTTTCCCTTTATAGCTCTTACAG-CT---------------------------------------TTCACTTACTTTTG-CCTTC-------------------AGCAATA-TATTATA--GTTCATCTTGAAACTAGTCACTTcctagagtgagtccttttctcagtcttccctctctaata-tggcctctt-acagttatgataaaatcttggcaaccctttttgtggcatgtgtctgaaatatgtctcattctttccatttttactaccattgtctcaggccagggatttatca-------taatct--------------cttatctaaatt--gttacaaaaatacccta
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      313612 319 -   1175262 AATGACTGGTGTT---ATTACCGTTGACCCATCTGGCATCCTAGTTTTGAAGTGTCTTTCCCTTTATAGCTCTTACAG-CT---------------------------------------TTCACTTACTTTTG-CCTTC-------------------AGCAATA-TATTATA--GTTCATCTTGAAACTAGTCACTTCCTAGAGTGAGTCCTTTTCTCAGTCTTCCCTCTCTAATA-TGTCCTCTT-ACAGTTATGATAAAATCTTGGCAATCCTTTTTGTGGCATGTCTCTGAAATATGTCTCATTCTTTCCATTTTTACTACCATTGTCTCAGGCCAGGGATTTATCA-------TAATCT--------------CTTATCTAAATT--GTTACAAAAATACCCTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123660394 290 - 204313951 ------------T---ATTACTGTTGACCCATCTGGCATCCTAGTTTTGA---TTTTTTCCCTTTATAA--CTTACAG-CT---------------------------------------TTCACTTATGTTTGCCCTTC-------------------AACAATATTATTACA--GTTCATCTTGAAGCTAGTCACTTCCTAAAGTGACTTCTTTTCTTAGTCTCCCCTCTCTAATTATGGCCTCTT-ACAGCTGAGATAAAATCTTGGCAATCC---------------TCTTAAATATGTCTCTttctttccatgtttactaccattgtctcaggccagggatttatca-------taatct--------------cttatctaaatt--tttacaaaaatgcccta
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55704269 295 -  71252344 ------------T---ATTATTGTTGACCCATCTGGCATCCTAGTTTTGAAGTTTTTTTCCCTTTATAGCTCTTACAA-CT---------------------------------------TTCACTTATGTTTGCCCTTC-------------------AACAATATTATTACA--GGTCATTTTGAAGCTAGTCACTTCCTAAAGTGACTCCTTTTCTTAGTCTCCCCTCTCTAATTATGGCCTCTTAACAGCTGAGATAAAACCTTGGCAATCC---------------TCTGAAATATGTCTCTTTCTTTCCATG-TTACTACCATTGTCTCAGGCCAGGGATCTATCA-------AAATCT--------------CTTATCTAAATT--TTTATAAAAATACCCTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        7295 271 -   3089952 ------------T---ATTGCTGTTGATCCATCTGGCATCCTAGTTTTGAAGTTTTTTTCCCTTTATAGCTCTTACAG-CT---------------------------------------TTTACTTATGTTTGCCCTTC-------------------AACAATATTATTACA--GTTCATCTTGACGCTCGTCACTTCCTAAAGTGACTCCTTTTCTTAGTCTCCCCTCTCTAAGTATGGCCTCTT-ACAGCTAAGATAAAACCTTGGCAATCC---------------TCTGAAATCGCTCTCTCTCTTTCCATG-TTACTACTATTGTCTCAGGCCAGGGATTTATCA-------AAATCT--------------CTTATC-------------------------
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13205234 295 -  42888418 ------------T---ATTACTGTTGACCCATCTGGCATCCTAGTTTTGAAGTTTTTTTCCCTTTATAGCTCTTACAG-CT---------------------------------------TTCACTTATGTTTGCCCTTC-------------------AACAATATTATTACA--GTTCATCTTGAAGCTAGTCACTTCCCAAAGGGACTCCTTTTCTTAGTCTCCCCTCTCTAATTATGGCCTCTT-ACAGCCGAGATAAAATCTTGGCGATCC---------------TCTTAAATATGTCTCTTTCTTTCCATGTTTACTACCATTGTCTCAGGCCAGGGATTTATCA-------TAATCT--------------CTTATCTAAATT--TTTACAAAAATGCCCTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60539052 322 + 108143057 AATGACTTGGGTT---ATTACTGTTGACTCATCTGGCATCCTACTTTTGAAGTTTCTTTCCCTTTGTAAGTCTAACAG-TT---------------------------------------TTTATCTATTTTTG-GCTTC-------------------AATAATA------CA--GTTCATCTTAAAACTAGTCAATTCCTGTGACAACTCCTTTTTTCAATCTTCCCTCTCTGATTATGGCCTCCT-ACAGCTGTAATAAAACCTTGGTAATCCTTTCTGTGGCATGTCTCTGAAATACATCTCATTCTTTCAATTCTTACTACCATTGTCTCAGGCCAGGGATTCATCATGATCTCTGATCT--------------CTTATCTAAACC--ATTAGAAAAACACCCTA
i micMur3.chr12            I 331 C 0
s proCoq1.NW_012155062v1     3580968 322 +  11683526 AATGACTGGTGTT---ATTACTGTTGACTCATCTGGCATCCTAGTTTTGAAGTTTCTTTCCCTTTATAACTCTAACAA-TT---------------------------------------TTTATCTATTTTTG-ACTTC-------------------AATAATA------CA--GTTCATCTTAAAACTAGTCAATTCCTGAAACAATTCCTTTTTTCAATCTCCCCTCTCCGATTGTGGCCTCTT-ACAGCTATAATAAAACCTTGACAATCCTTTCTGTGGCATGTCTCTGAATTACATCTCATTCTTCCAATTCTTACTTCCATTGTCTCAGGCCAGGGATTCATCATGGTCTCTGATCT--------------CTTATCTAAACC--ATTAGAAAAATACCCTA
i proCoq1.NW_012155062v1   I 4 C 0
s otoGar3.GL873679           3068699 295 +   4132165 AATAACTGGTGTT---ATTACTGTTGACCCATGTGACATCCTAGATTTAAAG----TTTCCCTTTTTAACGCTAACAA-TT---------------------------------------TTTATCTGTTTTTG-ACTTA-------------------AGCCATA------CA--ATTCATCTGGAAACTAGTAACTTCCTGCAATGACTCCTTTTTTCAGTCTGCCTTTTCTGA-TATGGCCTCTT-ACAACTGTAATAAAACCTTGGCAATCTGTTCTAAGGCATGTCTCTGAAATAGGTCTCATTCTTTTAATTCTTACTACCATTGTCTCAGGCCAGGGATTCATCACGATCTCTGATCT--------------CTTATCT------------------------
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55515743 313 +  90702639 AAGTTATGGTGTTGAAATGACAGCTGGGTCACTCGGTGTCCCCATTTTGAAATGTATTTCCCTTTATAGCTCTAACAGCCT---------------------------------------TTTACTCATGGGAA-GCTTG-------------------TGGAATA------GA--ACTTGTGTTGTAATTCAATACCTTCTGAAGCACTAACTTTGCCCAGTCTCCATCCTCTATCA-TGACCTATT-CCAGCTGTTACAAAGCCCTAGCAAGCATTTGGAAGTCATATCATTGAGACACATTCCATTTTGTCAATTCCTATTGCCATTCTTTCAGATCAGAGAGTTATCA-------CAACTT--------------CTTGCCT-------GCTACAAGAGTATTCTA
i mm10.chr18               I 3 I 8
s canFam3.chr11             14913510 394 +  74389097 AATGATTGGTATA---A--ATGACTGCCCAATCTGGTATCCTAGTTTTGAAGTCTCTTTACCTTTAGAGATCTAACAA-ctgtctgtctgtctgtctatctatccatctatcACACAAACCTTATCTGTTACAA-CCTTCCTAAGTTGTAACATATATGCACAATA-TATTATAGTGTTCATCTTGAAACCAGTTACTTCCTGGCACAGCTCCTTTTCTCTATCTCCTATCTCTGAATATGGCTTCTT-ACAGCTGCAATAAAATCCAGGCAACCCTTTCTGAGGTATTTCTTTGGTCTATGTCTTATTCTTTCAGTTCTGACTACCATTGTCTCAAACTCGGGATTCATCA-------TGATCTTTTAATGTAGATGCCTTAGCTAGTTTCCTTTCTCATCATGCCCTA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2629752 304 +   3667625 AATGACGGGCATT---GCCACTATTGAGTCCTCTGGCATCCTAGTTTTGCAGTTTCTTTATCTTTGTAGTTCTAATAA-TT---------------------------------------GTTGTCCATATTTG-ACTTA-------------------AAAAATA------GA--GGCCATCTTGAAACTAGTCATTTCCTGGTGCTGTTCTTTTTCTGACCCTCCCCTTTT--ATTTGGGCTTTTT-AAGGCTGGGATCAAATCATAGCAATCCTTTCTGATGCTTGTCTCTGAATTATGT----TTCTTTCAATTCCTGCTACCATTGTCTCCAACCTGGGAT---TCA-------TGAACT--------------CATACCTAAGCT--ATTACAAAA--GCCTTA
i dasNov3.JH567306         C 0 C 0

a score=1214465.000000
s hg38.chr5_KI270796v1_alt     88561 87 +    172708 ggtagttttcttcttcACTGTTTTCTAAAAGCATTAGCATCCTA-AAACATTGA-TTTTTGTAATATTATTCTGCTCTTCACAAAACTT
s panTro5.chr5             125192550 84 + 181907262 GGTAGTTTTCTTC---ACCGTTTTCTAAAAGCATTAGCATCCTA-AAACATTGA-TTTTTGTAATATTATTCTGCTCTTCACAAAACTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126529418 84 + 183735486 ggtagttttcttC---ACCGTTTTCTAAAAGCATTAGCATCCTA-AAACATTGA-TTTTTGTAATATTATTCTGCTCTTCACAAAACTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1721029 87 +   8933513 ggtagttttcttcttcACTGTTTTCTAAAAGCATTAGCATCCTA-AAACGTTGA-TTTTTGTAATATTATTCTGCTCTTCACAAAACTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139851783 87 + 163208435 GGTAGTTTTCTTCTTCACTGTTTTCTAAAAGCATTAGCATCCTA-AAACGTTGG-TTTTTGTAATATTATTCTGCTCTTCACAAAACTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122840660 87 + 180051392 ggtagttttcttcttcACTATTTTCTAAAAGCATTCGCATCCTA-AAATGTTGA-TTTTTGTAATATTATTCTGCTCTTCACAAAACTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124264280 87 + 181584905 GGTAGTTTTCTTCTTCACTATTTTCTAAAAGCATTCGCATCCTA-AAATGTTGA-TTTTTGTAATATTATTCTGCTCTTCACAAAACTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16262646 87 +  18395747 ggtagttttcttcttcACTATTTTCTAAAAGCATTCGCATCCTA-AAATGTTGA-TTTTTGTAATATTATTCTGCTCTTCACAAAACTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5274286 87 +  26952557 ggtagttttcttcttcACTATTTTCTAAAAGCATTCGCATCCTA-AAATGTTGA-TTTTTGTAATATTATTCTGCTCTTCACAAAACTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28376515 87 +  82825804 GGTAGTTTTCTTCTTCACTATTTTCTAAAAGCATTCGCATCCTA-AAATGTTGA-TTTTTGTAATATTATTCTGATCTTCACAAAACTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4045393 87 -   4237731 ggtagttttcttcttcACTATTTTCTAAAAGCATTCGCATCCTA-AAATATTGA-TTTTTGTAATATTATTCTGCTCTTCACAAAACTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      313931 87 -   1175262 GGTAGTTTTCTTCTTCGCTATTTTCTAAAAGCATTCGCATCCTA-AAATGTTGA-TTTTTTTAATATTATTCTGCTCTTCACAAAACTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123660684 88 - 204313951 ggtagttttcttcttcACTATTTTCTATAAGCATTAGTATCCTA-AAATGTTGATTTTTTGTAATATTATTCTGCTCTTGACAAAACTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55704564 87 -  71252344 AGTAGTTTTCTTCTTCACTATTTTCTACAAGCATTAGTATCCTA-AAATGTTGA-TTTTTGTAATATTATTCTGCTCTTGACAAAACTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        7566 85 -   3089952 --TAGTTTTCTTCTTCACTATTTTCTATAAGCATTAGTATCCTA-AAATGTTGA-TTTTTGTAATATTATTCTGCTCTTGACAAAACTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13205529 86 -  42888418 GGTAGTTTTCTTCTTCACTATTTTCTATAAGCATTAGTATCCTA-AAATGTTGA-TTTTTGTAATATTATTCTGCTCTTGAC-AAACTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60539374 84 + 108143057 GACAGTTTTCTTATTCACCATCTTCCACCAGCATTAGCATCCTAAAAACATTGA--TTTTGTAATG---TTATGTTCTTCAGAAAACCT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3581290 87 +  11683526 GACAATTTTCTTCTTCACCATCTTCCACCAGCATTAGCATCTTATAAACGTTGA--TTTTGTACTGTTATTATGTTCTTCAGAAAACCT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3068994 82 +   4132165 ----GTTTTCTTCTTCACCATCTTCCACCAGCATTCGTATCCTA-AGACACTGA--TAATGTAATATTATTATGTTCGTCAGAAAACCT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14913904 86 +  74389097 GATGGTTTCCTTTCTCATAATTTTCCACAAGCATTAGCATCCTG-AAACTTTAG--TTTTGTAATTTTATTCTGTTCTGCAGAAAACCT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2630056 83 +   3667625 ACTAGTTTCTTTCCTCATCATCTTCCACAGGCATTAGCATCCTG-AAACA--GA--TTTTG-AATGTTTCTCTCCTCTTTTGACAACCT
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55516056  8 +  90702639 I

a score=685499.000000
s hg38.chr5_KI270796v1_alt     88648 47 +    172708 TGGGTGGTTTACCCATGGCTATGGGATGAACTTCAGGCTTCTAAATA
s panTro5.chr5             125192634 47 + 181907262 TGGGTGGTTTACCCATGGCTATGGGATGAACTTCAGGCTTCTAAATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126529502 47 + 183735486 TGGGTGGTTTACCCATGGCTATGGGATGAACTTCAGGCTTCTAAATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1721116 47 +   8933513 TGGGTGGTTTACCCATGGCTATGGGATGAACTTCAGGCTTCTAAATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139851870 47 + 163208435 TGGGTGGTTTACCCATGGCTATGGGATGAGCTTCAGGCTTCTAAATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122840747 47 + 180051392 TGGGTGGTTTACCCATGGCAATGGGATGAACTTCAGGCTTCTAACTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124264367 47 + 181584905 TGGGTGGTTCACCCATGGCAATGGGATGAACTTCAGGCTTCTAACTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16262733 47 +  18395747 TGGGTGGTTTACTCATGGCTATGGGATGAACTTCAGGCTTCTAACTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5274373 47 +  26952557 TGGGTGGTTTACCCATGGCAATGGGATGAACTTCAGGCTTCTAAATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28376602 47 +  82825804 TGGGTGGTTTACCCATGGCAATGGGATGAACTTCAGGCTTCTAAATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4045480 47 -   4237731 TGGGTGGTTTACCCATGGCAATGGGATGAACTTCAGGCTTCTAAATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      314018 47 -   1175262 TCGGTGGTTTACCCATGGCTATGGGATGAACTTCAGGCTTCTAAATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123660772 47 - 204313951 TGGGTGGTTTACCCATGTCTATGGGATGAACTTCAGGCTCTTAAATC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55704651 47 -  71252344 TGGGTGGTTTACCCATGTCTGTGGGACGAACTTCAGACTCCTAAATC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        7651 47 -   3089952 TGGGTGGTTTATCCATGTCTATGGGACGAACTTCAGGCTCCTAAATC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13205615 47 -  42888418 TGGGTGGCTTACCCATGTCTATGGGACGAACTTCAGGCTCCTAAATC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60539458 47 + 108143057 TAGGTGGCACACCCATGCCTATAGGATGAATTGCAGGCTCCTAAATA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3581377 47 +  11683526 TAGGTGGCTCACCCATGCCTAGAGGATGAATTACAGGCTCCTAAATA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3069076 47 +   4132165 TAGGTGGCTCGCCCCTGCCTGGTGGATGAATTGCAGGCTCCTAAATA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55516064 47 +  90702639 TGGGTGGCACCCACATACCTATGGTAGGAATGGCAGACTCCTAAATA
i mm10.chr18               I 8 C 0
s canFam3.chr11             14913990 43 +  74389097 TGGGTGGTCTGC-CATGCCTCTCGGATGAATTAC---CTCTAGGATG
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2630139 46 +   3667625 TGGGAGGCCCACCTGAGCCTACTAGATGAAGTGGAGGCTCCTAATA-
i dasNov3.JH567306         C 0 C 0

a score=3215931.000000
s hg38.chr5_KI270796v1_alt     88695 206 +    172708 TTGTAGTCTTGTTGTGTCCTTATCTAGTTTCTGTCCACC-TTTTCCAGCTGCATGGACTTCCAACACTCCAACAACGAAAGCCCTCTAAAC----TGGTGTGTTTTCATCTCAagtgggcatacaaatcacctagaaatatcgttaaaa-tgtagattctgattcagaagtccaaggatggagcttgagattctgcatttctagcaagctcc
s panTro5.chr5             125192681 206 + 181907262 TTGTAGTCTTGTTGTGTCCTTATCTAGTTTCTGTCCACC-TTTTCCAGCTACATGGACTTCCAACAATCCAACAACGAAAGCCCTCTAAAC----TGATGTGTTTTCATCTCAagtgggcatacaaatcacctagaaatatcgttaaaa-tgtagattctgattcagaagtccaaggatggagcttgagattctacatttctagcaagctcc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126529549 206 + 183735486 TTGTAGTCTTGTTGTGTCCTTATCTAGTTTCTGTCCACC-TTTTCCAGCTACATGGACTTCCAACAATCCAACAACGGAAGCCCTCTAAAC----TGATGTGTTTTCATCTCAagtgggcatacaaatcacctagaaatatcgttaaaa-tgtagattctgattcagaagtccaaggatggagcttgagattctgcatttctagcaagctcc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1721163 206 +   8933513 TTGTAGTCTTGTTGTGTCCTTATCTAGTTTCTGTCCACC-TTTTCCAGCTGCATGGACTTCCAACACTCCAACAACGAAAGCCCTCTAAAC----TGGTGTGTTTTCATCTCAagtgggcatacaaatcacctagaaatatcgttaaaa-tgtagattctgattcagaagttcaaggatggagcttgagattctgcatttctagcaagctcc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139851917 205 + 163208435 TTGTAGTCTTGTTGTGTCCTTATCTAG-TTCTGTCCACG-TTTTCCAGCTGCATGGACTTCCAACACTCCAACAATGAAAGCCCTCTAAAC----TGGTGTGTTTTGATCTCAagtgggcatacaaatcacctagaaatattgttaaaa-tgtagattctgattcagaagttcaaggatggagcttgagattctgcatttctagcaagctcc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122840794 206 + 180051392 TTGTAGTCTTGTTGTGTCCCTATCTAGTTTCTGTCCACC-TTTTCCAGCTGCATGGACTTCCAACACTCCAACAACGAAAGCCCTCTAAAC----TGGTGTGTTTTCATCTCAagtgggcatacaaatcacctagaaatagtgttaaaa-tggagattctgattcagaagttcaaggatggagcttgagattctgcatttctaacaagctcc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124264414 206 + 181584905 TTGTAGTCTTGTTGTGTCCCTATCTAGTTTCTGTCCACC-TTTTCCAGCTGCATGGACTTCCAACACTCCAACAACGAAAGCCCTCTAAAC----TGGTGTGTTTTCATCTCAagtgggcatacaaatcacctagaaatagtgttaaaa-tggagattctgattcagaagttcaaggatggagcttgagattctgcatttctaacaagctcc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16262780 206 +  18395747 TTGTAGTCTTGTTGTGTCCCTATCTAGTTTCTGTCCACC-TTTTCCAGCTGCATGGACTTCCAACACTCCAACAACGAAAGCCCTCTAAAC----TGGTGTGTTTTCATCTCAAGtgggcatacaaatcacctagaaatagtgttaaaa-tggagattctgattcagaagttcaaggatggagcttgagattctgcatttctaacaagctcc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5274420 206 +  26952557 TTGTAGACTTGTTGTGTCCCTATCTAGTTTCTGTCCACC-TTTTCCAGCTGCATGGACTTCCAACACTCCAACAATGAAAGCCCTCTAAAC----TGGTGTGTTTTCATCTCAAGtgggcatacaaatcacctagaaatattgttaaaa-tgtagattctgattcagaagttcaaggatagagcttgagattctgcatttctaacaagctcg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28376649 206 +  82825804 TTGTAGTCTTGTTGTGTCCCTATCTAGTTTCTGTCCACC-TTTTCCAGCTGCATGGACTTCCAACACTCCAACAATGAAAGCCCTCTAAAC----TGGTGTGTTTTCATCTCAagtgggcatacaaatcacctagaaatattgttaaaa-tgtagattctgattcagaagttcaaggatggagcttgagattctgcatttctaacaagctcc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4045527 206 -   4237731 TTGTAGACTTGTTGTGTCCCTATCTAGTTTCTGTCCACC-TTTTCCAGCTGCATGGACTTCCAACACTCCAACAATGAAAGCCCTCTAAAC----TGGTGTGTTTTCATCTCAagtgggcatgcaaatcacctagaaatattgttaaaa-tgtagaatctgattcagaagttcaaggatagagcttgagattctgcatttctaacaagctcc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      314065 206 -   1175262 TTGTAGTCTTGTTGTGTCCCTATCTAGTTTCTGTCCACC-TTTTTCAGCTGCATGGACTTCCAACACTCCAACAATGAAAGCCCTCTAAAC----TGGTGTGTTTTCATCTCAagtgggcatacaaatcacctagaaatattgttaaaa-tgtagattctgattcagaagttcaaggatggagcttgagattctgcatttctaacaagctcc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123660819 206 - 204313951 CTGTAGTCCTGTTGTGTCCCTATCTAGTTTCTGTCCACC-TTTTCCAGTTGCATGCACTTCCAACACTCCAACAATGAAAGCCCTCAAAAC----TGGGGTATTTTCATcttgagtgggcatatgaataaactagaaatattgttaaaa-tgtagatcctgattcagaagtttaaggatggagcttgagagtctgcatttctagcaagctcc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55704698 206 -  71252344 CTGTAGTCTTGTTGTGTCCCTATCTAGTTTCTGTCTACC-TTTTCCAGTTGCATGCACTTCCAACACTCCAACAATGGCAGCCCTCTAAAC----TGGTGTGTTTTCATcttgagtgggcatatgcatcacctagaaatattgttaaaa-tatagatcctgattcagaagttcaaggatggagcttgagagtctgcatttctggcaagctcc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        7698 206 -   3089952 CTGTAGTCTTGTTGTGTCCCTGTCTAGTTTCTGTCCACC-TTTTCCAGTTGCATGCACTTCCAACACTCCAACAATGAAAGCCCTCTAAAC----TGGTGTGTTTTCATcttgagtgggcatatgaattacctagaaatatcgttaaaa-tgtagatcctgattcagaagttcaaggatggagcttgagagtctgcatttctagcaagctcc
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13205662 206 -  42888418 CTGTAGTCTTGTTGTGTCCCTATCTAGTTTCTGTCCACC-TTTTCCAGTTGCATGCACTTCCAACACTCCAACAATGAAAGCCCTCTAAAC----TGGTGTGTTTTCATcttgaatgggcatatgaatcacctagaaatattgttgaaa-tgtagatcctgattcagaagttcaaggatggagcttgagagtctgcatttctagcaagctcc
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60539505 206 + 108143057 TTGTAGTCTTGTTGTGTCTATATATAGCATCTGTCGTTT-TTTTCCAATAGCATGGACTTCCAACACTCCAACAATGCAAGCCCTGTGAAC----Tagtgtgtttcagtctctagtgggcatacaaatcacctgggaatattgttaaaa-tatagattctgactcagaagttcaaggacagagcttgagattctgcatatctagcaagctcc
i micMur3.chr12            C 0 I 624
s proCoq1.NW_012155062v1     3581424 206 +  11683526 CTGTAGTCTTTTTGTGTCTGTATCTAGTTTCTGTCCATC-TTTTCCAGTAGCGTGGACTTCCAACACTGCAGCAATGCAAGCCCTCTGAAC----Tagtgtgtttcaatcattagtgggtatacaaatcacctgggaatattgttaaaa-tatagattctgattcagaagttcaaggatagagctagagattctgcatttctagccagctcc
i proCoq1.NW_012155062v1   C 0 I 392
s otoGar3.GL873679           3069123 201 +   4132165 TTGAA---TTCTTGCGTCTGCATCGAGTTTCTGTCCACC-TTTTCCAATAGCATGGACTTCCCACTCTCCAACAGTGCAAGCACCCTAAAC----Tagtgtcttccagtctttagtgggtatacgaa--gactgggaatattactaata-tacaaattctgattcagaccttccaggatcgagcttgagattttccatgtctagcaagctcg
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14914035 210 +  74389097 TTATGGTCTAGCTGTGACCCCATCTAGTTTCTGTCTACCTTTTTTCAGGAGGGTAGACTTCCAACAGTCCAACAATGCAAGCGTTCTAAACTAGTTAGTATATTTTACTctttcctgggcatacaaagaacctggg-atactgttaata-tatagattctgattcagaagttcaaggatagaacttaagattctgcatttctagccagctcc
i canFam3.chr11            I 2 C 0
s dasNov3.JH567306           2630185 206 +   3667625 TTGTACGCTAAGGGCGTCCCTATCTAGGATCTGTCCACC-TTTTCCAGTGGCATGGACTTTGAACAGTCCACTGCTCTAAGCCTTCTAAAC----AGGTGTGCTGCAGTctttagtgggcacacaaattccctggggatactgttaaaactctagaatctgattcagatgg-caaggatggggcttgagattctgcatttctagaaagctcc
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55516111   0 +  90702639 C

a score=2382833.000000
s hg38.chr5_KI270796v1_alt     88901 223 +    172708 caggc-gatgccaatgcctccactcaagcctctgttggagtaggaaggCTCCGTCAT------TGAGcgtagatgccacgtgcttctgcctgtc--tgccttatgctgtt-tcc-aggcttgaa----------ggttcttcattcacctctctgtctggtgaattcctatagtctgaagatctaaatcaaacatc---------------a-tcttcttaaaacctttttttttt---ttaacctttttcaggaagaattga
s panTro5.chr5             125192887 223 + 181907262 caggc-gatgccaatgcctccactcaagcctctgttggagtaggaaggCTCCGTCAT------TGAGCGTAGATGCCACGTgcttctgcctgtc--tgccttatgctgtt-tcc-aggcttgaa----------ggttcttcattcacctcactgtctggtgaattcctatagtctgaagatctaaatcaaacatc---------------a-tcttcttaaaaccttttttTTTT---TTAACCTTTTTCAGGAAGAATTGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126529755 221 + 183735486 caggc-gatgccaatgcctccactcaagcctctgttggagtaggaaggCTCCGTCAT------TGAGCGTAGatgccacgtgcttctgcctgtc--tgccttatgctgtt-tcc-aggcttgaa----------ggttcttcattcacctcactgtctggtgaattcctatagtctgaagatctaaatcaaacatc---------------a-tcttcttaaaacc--tttttttt---ttaacctttttcaggaagaattga
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1721369 223 +   8933513 caggc-gatgccaatgcctccactcaagcctctgttggagtaggaaggCTCCGTCAT------TGAGcgtagatgccacgtgcttctgcctgtc--tgccttatgctgtt-tcc-aggcttgaa----------gattcttcattcacctcactgtctggtgaattcctatagtctgaagatctaaatcaaacacc---------------a-tcttcttaaaaccttttttTTTT---TTAACCTTTTTCAGGAAGAATTGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139852122 217 + 163208435 caggc-aatgccagtgcctccactcaagcctctgttggagtaggaaggCTCCGTCAT------TGAACGTAGatgccacgtgcttctgcctgtc--tgccttatgctgtt-tcc-gggcttgaa----------ggttcttcactcacctcactgtctggtgaa---ctatattctgaagatctaaatcaaacacc---------------a-tcttcttaaagcc---ttttttt---ttaaccgttttctggaagaattga
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122841000 224 + 180051392 caggt-gatgccaatgcctccacttaagcctctgttggagtagcaaggCTCCATCAT------TGAGCGTAGATGCCACGTGCTTCTACCTGTC--TGCCTTATGCTGTT-TCC-AGGCTTGGA----------TGTTCTTCACTCACCTCACTGTTGGGTGAATTCCTATATTCTGAAGATCTAAATCAAACACC---------------ATTTTTCTTAAAGCCTTTTTTTTTT---TAAACCTTTTTCAGGAAGAATTAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124264620 223 + 181584905 caggt-gatgccaatgcctccacttaagcctctgttggagtagcaaggCTCCATCAT------TGAGCGTAGATGCCACGTGCTTCTACCTGTC--TGCCTTATGCTGTT-TCC-AGGCTTGGA----------TGTTCTTCACTCACCTCACTGTTGGGTGAATTCCTATATTCTGAAGATCTAAATCAAACACC---------------ATTTTTCTTAAAGCCTTTTTTTTTT----AAACCTTTTTCAGGAAGAATTAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16262986 224 +  18395747 caggt-gatgccaatgcctccacttaagcctctgttggagtagcaaggCTCCATCAT------TGAGCGTAGATGCCACGTGCTTCTACCTGTC--TGCCTTATGCTGTT-TCC-AGGCTTGGA----------TGTTCTTCACTCACCTCACTGTTGGGTGAATTCCTATATTCTGAAGATCTAAATCAAACACC---------------ATTTTTCTTAAAGCCTTTTTTTTTT---AAAACCTTTTTCAGGAAGAATTAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5274626 224 +  26952557 caggt-gatgccaatgcCTCCACTTAAGCCTCTGTTGGAGTAGCCAGGCTCCATCAT------TGAGcgtagatgccacgtgcttctacctgtc--tgccttatgctgtt-tcc-gggtttgga----------tgttcttcactcacctcactgttgggtgaattcctatattctgaagatctaaatcaaacacc---------------a-ttttcttaaagcctttttttttt--tttaacctttttcagaaagaattag
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28376855 223 +  82825804 caggt-gatgccaatgcCTCCAATTAAGCCTCTGTTAGAGTCTCAAGGCTCCATCAT------TGAGTGTAGATGCCACGTGCTTCTACCTGTC--TGCCTTATGCTGTT-TCC-GGGCTTGGA----------TGTTCTTCACTCACCTCACTGTTGGGTGAATTCCTGTATTCTGAAGATCTAAATCAAACACC---------------A-TTTTCTTAAGCCCTTTTTTTTTT---TAAACCTTTTTCAGGAAGAATTAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4045733 223 -   4237731 caggt-gatgccaatgcctccacttaagcctctgttggagtagcaaggCTCTATCAT------TGAGCGTAGatgccacgtgcttctacctgtc--tgccttatgctgtt-tcc-gggcttgga----------tgttcttcactcacctcactgttgggtgaattcctatattctgaagatctaaatcaaacacc---------------a-ttttcttaaagcctttttttttt---taaacctttttcagaaagaattag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      314271 226 -   1175262 caggt-gatgccaatgcctccactcaagcctctgttggagtagcaaggCTCCATCAT------TGAGcgtagatgccacgtgcttctgcctgtc--tgccttatgctgtt-tct-gggcttgga----------tgtttttcactcacctcactgttgggtgaattcctatattctgaagatctaaatcaaacacc---------------a-ttttcttaaagccttttttTTTTTCTTAAACCTTTTTCAGGAAGAATTAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123661025 219 - 204313951 cagat-gatgccagtgcctccacttaagcctctgtttgggtagcaaggCTCCATCAT------TGAGTGTAGATGCCACCTGCTTCCATCTGTC--TGCCTTATGCTGTT-TCC-CGGCTTAGA----------TATTCATCACTCACCTC-CTGTCTGGTGAATTCCTATATTCTGAAGATCTAAATCAAACACT---------------G-TCTTCTTAATGCC---TGTTTTT---AAAATCTTCTTCAGGAATAATTAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55704904 219 -  71252344 caggt-gatgccattgcctccactcaagcctctgttggggtagcaaggCTCCATCAT------TGAGGGAAGATGCCACCTGCTTCCATCTGTC--TGCCTTATGCTGTT-TCC-TGGCTTAGA----------TGTTCATCACTCGCCTC-CTGTCTGGTAAATTCCTATCTTCTGAAGATCAGAATCAAACACT---------------G-TCTTCTTAAAGCC---TGTTTCT---CAAAACTTTTTCAGGAATAATTAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        7904 219 -   3089952 caggt-gatgccagtgcctccactcaagcttctgttggggtagcaaggCTCCATCAC------TGAGTGTAGATGCCAcctgcttccatctgtc--tgcctcatgctgtt-tcc-cggcttaga----------tgttcgtcactcacctc-ctgtctcgtgaattcctatattctgcagatctaaatcaaacact---------------g-tcttcttaaagcc---tgttttt---taaaccttcttcaggaataattaa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13205868 219 -  42888418 cagat-gatgccagtggttccactcaagcctcttttggggtagcaaggCTCCATCAC------TGAGTATAGATGCCACCTGCTTCCATCTGTC--TGCCTTATGCTGTT-TCC-CAGCTTAGA----------TGTTCGTCACTCACCTC-CTGTCTGGTGAATTCCTGTATTCTGAAGAGCTAAATCAAACACT---------------A-TCTTCTTAAAGCC---TATTTTT---TAAACCTTCTTCAGGAATAATTAA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3069324 246 +   4132165 -aggt-ggtTCCAACACCTCTACTCAAACCTTTCCTGGAGCAGCATGGCTCCATCATTGACACTGAGTGCACATGCCATGTACGTCCTGATGTCTGTGTCTTATTCTGTC-CT-----TTTGAACTATTTTTTTTTTTTTTTACCCAATTCACCATCGGATAAATTCCTGTATTCTGGAGA-CTAAATTGAATAATCTGGAGACTAGATTAA-TTTTCTTAAAGGC----TTTCTT---TATACCTTCCCCAGAAAGAATTAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14914245 206 +  74389097 caggt-gg---------------tCAAACCTCTCTTGGACTAGCAAGGCTCCATAAT------AGATTGCATATGTCATGCACTTCCACATACccgtgtcttattctgttctcc-tgcccagaa----------tgttctttccttacctcaccgcctggtgaactcctctattccaaagacacagatcaaatacc---------------a--tttcttacagcc----tttctt---TCTACCTTTATCAAGAAGAATTGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2630391 213 +   3667625 cagatgGAATCTAAGAGCAATACTCAAACCTC-ATTGGAATAGCAAGACTCCATTTT------TGAGTGTA---------TACTTTGGCATGtctgtgctttattctgtt-ccctttgtctggg----------tgttcttttcccac----ctgttctgtgaatcgttatattccaaagatgtagatcaaatgcc---------------a-tcttcttgaagcctctctctctc---tctaccttgtccaggaagaattaa
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60539711 624 + 108143057 I
e proCoq1.NW_012155062v1     3581630 392 +  11683526 I
e mm10.chr18                55516111   0 +  90702639 C

a score=10285.000000
s hg38.chr5_KI270796v1_alt     89124 1 +    172708 t
s panTro5.chr5             125193110 1 + 181907262 T
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126529976 1 + 183735486 t
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1721592 1 +   8933513 T
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139852339 1 + 163208435 t
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122841224 1 + 180051392 T
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124264843 1 + 181584905 T
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16263210 1 +  18395747 T
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5274850 1 +  26952557 t
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28377078 1 +  82825804 T
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4045956 1 -   4237731 t
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      314497 1 -   1175262 T
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123661244 1 - 204313951 T
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55705123 1 -  71252344 T
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        8123 1 -   3089952 t
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13206087 1 -  42888418 T
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3069570 1 +   4132165 A
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2630604 1 +   3667625 t
i dasNov3.JH567306         C 0 I 9
e micMur3.chr12             60539711 624 + 108143057 I
e canFam3.chr11             14914451 0 +  74389097 C
e proCoq1.NW_012155062v1     3581630 392 +  11683526 I
e mm10.chr18                55516111 0 +  90702639 C

a score=36256.000000
s hg38.chr5_KI270796v1_alt     89125 3 +    172708 cat
s panTro5.chr5             125193111 3 + 181907262 CAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126529977 3 + 183735486 cat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1721593 3 +   8933513 CAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139852340 3 + 163208435 cat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122841225 3 + 180051392 CAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124264844 3 + 181584905 CAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16263211 3 +  18395747 CAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5274851 3 +  26952557 cat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28377079 3 +  82825804 CAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4045957 3 -   4237731 cat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      314498 3 -   1175262 TAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123661245 3 - 204313951 CAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55705124 3 -  71252344 CAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        8124 3 -   3089952 cat
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13206088 3 -  42888418 CAT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3069571 3 +   4132165 CAT
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60539711 624 + 108143057 I
e canFam3.chr11             14914451 0 +  74389097 C
e proCoq1.NW_012155062v1     3581630 392 +  11683526 I
e dasNov3.JH567306           2630605 9 +   3667625 I
e mm10.chr18                55516111 0 +  90702639 C

a score=1886571.000000
s hg38.chr5_KI270796v1_alt     89128 197 +    172708 gtgttttc-tttttttcttttaatatttttaatttttgtgggtacatagtagatgtatatatttatggggtacatgaaatattttgatacagtcatgcaatgtgaaata---agcac--------atcatggagaatggg--gcatctatcccctcaagcatttatcctttgtattacaaacaatccaattacactcttttagttat-----------------------tatt
s panTro5.chr5             125193114 196 + 181907262 GTGTTTTC-TTTTTT-CTTTTAATATGtttaatttttgtgggtacatagtagatgtatatatttatggggtacatgagatattttgatacagtcatgcaatgtgaaata---agcac--------atcatggagaatggg--gcatctatcccctcaagcatttatcctttgtattacaaacaatccaattacactcttttagttat-----------------------tatt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126529980 196 + 183735486 gtgttttc-tttttt-cttttaatatgtttaatttttgtgggtacatagtagatgtatatatttatggggtacatgagatattttgatacagtcatgcaatgtgaaata---agcac--------atcatggagaatggg--gcatctatcccctcaagcatttatcctttgtattacaaacaatccaattacactcttttagttat-----------------------tatt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1721596 197 +   8933513 GTGTTTTC-TTTTTTTCTTTTAATATttttaatttttgtgggtacatagtaggtgtatatatttatggggtacatgagatattttgatacagtcatgcaatgtgaaata---agcac--------atcatggagaatggg--gcatctatcccctcaagcatttatcctttgtattacaaacaatccaattacactcttttagttat-----------------------tatt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139852343 215 + 163208435 gtgttttt-tt-----cttttaatatttttaatttttgcgggtacatggtaggtgtatatatttatggggtacatgagatgttttgatacagtcatgcaatatgaaata---actac--------atcatggagaatggg--gtatctatgccctcgagcatttatcctttgtattacaaacaatccaattacactcttttagttattttaaaatgtaaaattaagttgctatt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122841228 218 + 180051392 GTGTTTTC-TTTTTT-CTTTTAATATttttaatttttgtggatacatagtaggtgtatatatttatagggtacatgagatgttttgatacaagcatgcaatgtgaacta---accac--------atcatggacaatggg--gtatccatcccctcaagcatttatcctttgtattacaaac-atccaattatagtcttttagttattttaaaatgtaaaattgagttattatt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124264847 218 + 181584905 GTGTTTTC-TTTTTT-CTTTTAATATttttaatttttgtggatacatagtaggtgtatatatttatagggtacatgagatgttttgatacaagcatgcaatgtgaacta---accac--------atcatggacaatggg--gtatccatcccctcaagcatttatcctttgtattacaaac-atccaattatagtcttttagttattttaaaatgtaaaattgagttattatt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16263214 218 +  18395747 GTGTTTTC-TTTTTT-CTTTTAATATttttaatttttgtggatacatagtaggtgtatatatttatagggtacatgagatgttttgatacaagcatgcaatgtgaacta---accac--------atcatggacaatggg--gtatccatcccctcaagcatttatcctttgtattacaaac-atccaattatagtcttttagttattttaaaatgtaaaattgagttattatt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5274854 218 +  26952557 gtgttttc-tttttt-cttttaatatttttaatttttgtggatacatagtaggtgtatatatttatagggtacatgagatgttttgatacaagcatgcaatgtgaacta---accac--------atcatggacaatggg--gtatccatcccctcaagcatttatcctttgtattacaaac-atccaattatagtcttttagttattttaaaatgtaaaattgagttattatt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28377082 218 +  82825804 GTGTTTTC-TTTTTT-CTTTTAATATttttaatttttgtggatacatagtaggtgtgtatatttatagggtacatgagatgttttgacacaagcatgcaatgtgaacta---accac--------atcatggacaatggg--gtatccatcccctcaagcatttatcctttgtattacaaac-atccaattatagtcttttagttattttaaaatgtaaaattaagttattatt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4045960 218 -   4237731 gtgttttc-tttttt-cttttaatatttttaatttttgtggatacatagtaggtgtatatatttatagggtacatgagatgttttgatacaagcatgcaatgtgaacta---accac--------atcatgcacaatggg--gtatccatcccctcaagcatttatcctttgtattacaaac-atccaattatagtcttttagttattttaaaatgtaaaattgagttattatt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      314501 219 -   1175262 GTGTTTTCTTTTTTT-CTTTTAATATttttaatttttgtgggtacatagtaggtgtatatatttatagggtacatgagatgttttgatacaagcatgcaatgtgaacta---accac--------atcatggacaatggg--gtatctatccccttaagcatttatcctttgtattaaaaac-atccaattatagtcctttagttattttaaaatgtaaaattgagttattatt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123661248 212 - 204313951 GTGTTTTC---------TTTTAATATttttaatttttctgggtacatagtaggtgtatatatttatggagtatatgagatgttttgatacaatcatgcaatgtgagata---atcac--------aacatggaggatggg--gtgtctatctcctcacgcatttatcctttgtcttacaaacaatccaattatactcttttagttattttaaaacataaaattaagttattatt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55705127 217 -  71252344 GTGTTTTC---------TTTTAATATttttaatttttgtgggtacatagtatgtgtatatatttatgaggtatatgagatgttttgatacaatcatgcaatgtgagataatcatcac--------atcgtggagaatggggtgtgtctatctcctcaagcatttatcctttgtcttacaaacaatccaattatactcttttagttattttaaaacgtaaaatcaagttattatt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        8127 212 -   3089952 gtgttttc---------ttttaatatttttaatttttgtgggtacatagtaggtgtatatatttatggggtatatgagatgttttgatacaatcatgcaatgtgagata---atcac--------atcatggagaatggg--gtgtctatctcctcaagcatttatcctttgtcttacaaacaatcaaattatactcttttagttattttaaaatgtaaaattaagttattatt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13206091 218 -  42888418 GTGTTTTC---------TTTTAATATttttaatttttgtgggtacatagtagatgtatatatttatggggtatatgagatgttttgatacaatcatgcaatgtgagata---atcacattgtggtatcatggagaatggg--gtgtctgtctcctcaagcatttatcctttgtcttacaaacaatccaattata--cttttagttattttaaaatgtaaaatcaagttattatt
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60539711 624 + 108143057 I
e canFam3.chr11             14914451   0 +  74389097 C
e proCoq1.NW_012155062v1     3581630 392 +  11683526 I
e otoGar3.GL873679           3069574   0 +   4132165 C
e dasNov3.JH567306           2630605   9 +   3667625 I
e mm10.chr18                55516111   0 +  90702639 C

a score=205787.000000
s hg38.chr5_KI270796v1_alt     89325 22 +    172708 gactatagtcacccagtggaat
s panTro5.chr5             125193310 22 + 181907262 gactatagtcacccagtGGAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126530176 22 + 183735486 gactatagtcacccagtggaat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1721793 22 +   8933513 gactatagtcacccagtGGAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139852558 22 + 163208435 ggctatagtcacccagtggaat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122841446 22 + 180051392 gactatagtcacccagtGGAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124265065 22 + 181584905 gactatagtcacccagtGGAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16263432 22 +  18395747 gactatagtcacccagtGGAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5275072 22 +  26952557 gactatagtcacccagtggaat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28377300 22 +  82825804 gactatagtcacccagtGGAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4046178 22 -   4237731 gactatagtcacccagtggaat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      314720 22 -   1175262 gactatagccacccagtGGAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123661460 22 - 204313951 tactatagtcaccctatGGAAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55705344 22 -  71252344 gactgtagtcaccctTTGAAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        8339 22 -   3089952 gactatagtcaccctgtgaaat
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13206309 22 -  42888418 gactatagtcacgctgtGAAAT
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14914451  5 +  74389097 AACTT-----------------
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60539711 624 + 108143057 I
e proCoq1.NW_012155062v1     3581630 392 +  11683526 I
e otoGar3.GL873679           3069574  0 +   4132165 C
e dasNov3.JH567306           2630605  9 +   3667625 I
e mm10.chr18                55516111  0 +  90702639 C

a score=9557.000000
s hg38.chr5_KI270796v1_alt     89347 1 +    172708 c
s panTro5.chr5             125193332 1 + 181907262 C
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126530198 1 + 183735486 c
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1721815 1 +   8933513 C
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139852580 1 + 163208435 c
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122841468 1 + 180051392 C
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124265087 1 + 181584905 C
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16263454 1 +  18395747 C
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5275094 1 +  26952557 c
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28377322 1 +  82825804 C
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4046200 1 -   4237731 c
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      314742 1 -   1175262 C
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123661482 1 - 204313951 C
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55705366 1 -  71252344 C
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        8361 1 -   3089952 c
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13206331 1 -  42888418 C
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3069574 1 +   4132165 T
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14914456 1 +  74389097 A
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60539711 624 + 108143057 I
e proCoq1.NW_012155062v1     3581630 392 +  11683526 I
e dasNov3.JH567306           2630605 9 +   3667625 I
e mm10.chr18                55516111 0 +  90702639 C

a score=31122.000000
s hg38.chr5_KI270796v1_alt     89348 2 +    172708 at
s panTro5.chr5             125193333 2 + 181907262 AT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126530199 2 + 183735486 at
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1721816 2 +   8933513 AT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139852581 2 + 163208435 at
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122841469 2 + 180051392 AT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124265088 2 + 181584905 AT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16263455 2 +  18395747 AT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5275095 2 +  26952557 at
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28377323 2 +  82825804 AT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4046201 2 -   4237731 at
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      314743 2 -   1175262 AT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123661483 2 - 204313951 AT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55705367 2 -  71252344 AT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        8362 2 -   3089952 at
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13206332 2 -  42888418 AT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3069575 2 +   4132165 AT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14914457 2 +  74389097 AT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2630614 2 +   3667625 at
i dasNov3.JH567306         I 9 C 0
e micMur3.chr12             60539711 624 + 108143057 I
e proCoq1.NW_012155062v1     3581630 392 +  11683526 I
e mm10.chr18                55516111 0 +  90702639 C

a score=1881804.000000
s hg38.chr5_KI270796v1_alt     89350 147 +    172708 ctgtctttttacagtactttgtcgata----ttta----gttg------tat-atatggttttctttttaaatt--gtgcattccttagaggcagtgatggtgccATCAC--------AGTTGGGAATAAAAACGTCATACCCAAAGAAATTATTATATCATGC----ATAGAGTG
s panTro5.chr5             125193335 147 + 181907262 CTGTCTTCTTACAGTACTTTGTCGATA----TTTA----GTTG------TAT-ATATGCTTTTCTTTTTAAATT--GCGCATTCCTTAGAGGCAGTGATGGTGCCATCAC--------AGTTGGGAATAAAAACGTCATACCCAAATAAATtattatatcatgc----atagagta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126530201 147 + 183735486 ctgtcttcttacagtactttgtcgata----ttta----gttg------tat-atatgcttttctttttaaatt--gtgcattccttagaggcagtgatggtgccATCAC--------AGTTGGGAATAAAAACGTCATACCCAAATAAATtattatatcatgc----atagagta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1721818 147 +   8933513 CTGTCTTCTTACAGTACTTTGTCGATA----TTTA----GTTG------TAT-ATATGCTTTTCTTTTTAAATT--GTGCATTCCTTAGAGGCAGTGATGGTGCCATCAC--------AGTTGGGAATAAAAATGTCATACCTAAAGAAATTATTAtatcttgc----atagagta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139852583 152 + 163208435 ctgtcttcttatagtactttgttgata----ttta----gttg------tat-atgtgcttttctttttaaatt--gtgcattccttagaggcagtgatggtgccATCAC---AGTTTAGTTGGGAATAAAAACCTCATACCCAAAGAAATTATTAtatgatgc----atagagta
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122841471 152 + 180051392 CTGTCTTCTTATAGTACTTTGTTGATA----TTTA----GTTG------TAT-ATGTGCTTTTCTTCTTAAATT--GTGCATTCCTTAGAGGCAGTGATGTTGCCATCAC---AGTTTAGTTGGGAATAAAAACCTCATACCCAAAGAAATtattatatcatgc----atagagta
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124265090 152 + 181584905 CTGTCTTCTTATAGTACTTTGTTGATA----TTTA----GTTG------TAT-ATGTGCTTTTCTTCTTAAATT--GTGCATTCCTTAGAGGCAGTGATGTTGCCATCAC---AGTTTAGTTGGGAATAAAAACCTCATACCCAAAGAAATtattatatcatgc----atagagta
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16263457 152 +  18395747 CTGTCTTCTTATAGTACTTTGTTGATA----TTTA----GTTG------TAT-ATGTGCTTTTCTTCTTAAATT--GTGCATTCCTTAGAGGCAGTGATATTGCCATCAC---AGTTTAGTTGGGAATAAAAACCTCATACCCAAAGAAATtattatatcatgc----atagagta
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5275097 152 +  26952557 ctgtcttcttatagtactttgttgata----ttta----gttg------tat-atgtgcttttcttcttaaatt--gtgcattccttagaggcagtgatggtgccATCAC---AGTTTAGTTGGGAATAAAAACCTCATACCCAAAGAAATTATTAtatcatgc----atagagta
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28377325 152 +  82825804 CTGTCTTCTTATAGTACTTTGTTGATA----TTTA----GTTG------TAT-ATGTGCTTTTCTTCTTAAATT--GTGCATTCCTTAGAGGCAGTGACGGTGCCATCAC---AGTTTAGTTGGGAATAAAAACCTCATACCCAAAGAAATTATTATATCATGC----ATAGAGTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4046203 152 -   4237731 ctgtcttcttatagtactttgttgata----ttta----gttg------tat-atgtgcttttcttcttaaatt--gtgcattccttagaggcagtgatggtgccATCAC---AGTTTAGTTGGGAATAAAAACCTCATACCCAAAGAAATtattatatcatgc----atagacta
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      314745 152 -   1175262 CTGTCTTCTTATAGTACTTTGTTGATA----TTTA----GTTG------TAT-ATGTGCTTTTCTTCTTAAGGT--GTGCATTCCTTAGAGGCAGTGATGGTGCCATCAC---ACTTTAGTTGGGAATAAAAACCTCATACCCAAAGAAATTATTATATCATGC----ATAGAGCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123661485 152 - 204313951 CTGCCTTCTTATAGTATTTTGTCAACA----TTTA----GTTG------TAT-ATATGCTTTTCTTCTTAAATT--GTGCATTCCCTAGAGGCAGTGATGGTGCCATCAC---AATTTAGTTGGGAATAAAAACCTCATACTCAAAGAAGTTATTATATTATGC----ATAGAGCa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55705369 153 -  71252344 CTGCCTTCTTATAGTATTTTGTTGACA----TTTA----GCTG------TGTAATATGCTTTTCTTCTTAAATT--GTGCATTCCCTAGAGGCAGTGATGGTGCCATCAC---AGTTTAGTTGGGAATATAAACCTCATACTCAAAGAAGTTATTATATCATGC----ATAGAGCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        8364 152 -   3089952 ctgccttcttatagtattttgttgaca----tttg----gttg------tat-acatgcttttcttcttaaatt--gtgcattccctagaggcagtgatggtaccATCAC---AGTTTAGTTGGGAATAAAAACCTCATACTCAAAGAAGTtattatatcatgc----atagagca
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13206334 149 -  42888418 CTGC---CTTATACTATTTTGTTGACA----TTCA----GTTG------TAT-ATATGCTTTTCTTCTTAAATT--GTGCATTCCCTAGAGGCAGTGATGGTGCCATCAC---AGTTTAGTTGGGAATAAAAACCTCATACTCAAAGAAGTTATTATATCATGC----ATAGAGCA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3069577 154 +   4132165 CTATTTTCTTACAGCACTTGATTGATA----GTTATTAGGTTA------TTT-ATGCACTTTTAGT-TTAAGTT--GAATATTCCTTGGAGGCAGTGACAGTGCCATAGC---AGTTTAGTTGGGAATAAAAAACTCATGCCCAAAGTAATTA-TATATGATGT----ATAAACTA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55516111 161 +  90702639 CTGCATTCTTATATATCTTTTTGGATA----CTTA----GTTAGTTGATTTT-ATATATTTTTCTGCCTAAGTT--GTGTGCATTTTTAAGGGTCTAACTTTTCCACTGA---AGTTTAGTTGGAAATAAAAAC-TCATGCTCAAAATAACTAGTGTGATGTATAAAGATAGatta
i mm10.chr18               C 0 C 0
s canFam3.chr11             14914459 154 +  74389097 CTGTTTTCTTCTAGTGCTTTGATGATA----CTGA----TTTA-------GT-ACGAGTTTTTCTTCCTAAGTTAGGTGAGTTCCTGGCAGGCAGTGACAATACCATTATTAGAATTTGTGTGGGAATAAAA--CTCATACCCAAAGTAATTATTTTGTGATGT----ATAACATA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2630616 154 +   3667625 ctgttctctcataatgccttgttaatacttgttta----gttg------tac-atgtctttttcttcctaaatt--gtgaatttcttgaaggaaatgatagtaccATTGC---AGATTTTTGGGGACTAAAA--CTCATACCCAAACTAATTATTATATAATGT----TAACATTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60539711 624 + 108143057 I
e proCoq1.NW_012155062v1     3581630 392 +  11683526 I

a score=1260734.000000
s hg38.chr5_KI270796v1_alt     89497  95 +    172708 TATATTATATAAAGTATAAAGT----ATAT-----CCAC-AAAATCCCCTGGAAATACAGGAGTACCTGAAACAATTGCCATATGTCTATT-ATGTGCTAGTTTAC
s panTro5.chr5             125193482  95 + 181907262 tatattatataaagtataaagt----atat-----CCAC-AAAATCCCCTGGAAATACAGGAGTACCTGAAACAATTGCCATATGTCTATT-ATGTGCTAGTTTAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126530348  95 + 183735486 tatattatataaagtataaagt----atat-----CCAC-AAAATCCCCTGGAAATACAGGAGTACCTGAAACAATTGCCATATGTCTATT-ATGTGCTACTTTAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1721965  95 +   8933513 tatattatataaagtataaagt----atat-----CCAC-AAAATCCCCTGGAAATACAGGGGTACCTGAAACAATTGCCATATGTCTATT-ATGTGCTAGTTTAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139852735  95 + 163208435 tatattatataaagtataaagt----atGT-----CCAC-AAAATCCTCTGGAAATACAGGAGTACCTGAAACAATTGCCATATGTCTACT-ATGTGCTAGTTCAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122841623  96 + 180051392 tatattatataaagtataaagt----atat-----CCAC-AAAATCCCTTGGAAATACAGGAGTACCTGAAACAATTGCCATATGTCTATTAATGTGCTAGTTTAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124265242  96 + 181584905 tatattatataaagtataaagt----atat-----CCAC-AAAATCCCTTGGAAATACAGGAGTACCTGAAACAATTGCCATATGTCTATTAATGTGCTAGTTTAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16263609  96 +  18395747 tatattatataaagtataaagt----atat-----CCAC-AAAATCCCTTGGAAATACAGGAGTACCTGAAACAATTGCCATATGTCTATTAATGTGCTAGTTTAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5275249  96 +  26952557 tatattatataaagtgtaaagt----ataT-----CCAC-AAAATCCCTTGGAAATACAGGAGTACCTGAAACAATTGCCATATGTCTATTAATGTGCTAGTTTAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28377477  96 +  82825804 TATATTATATAAAGTAAAAAAT----ATAT-----CCAC-AAAATCCCTTGGAAATACAGGAGTACCTGAAACAATTGCCATATGTCTATTAATGTGCTAGTTTAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4046355  96 -   4237731 tatattatataaagtataaagt----atat-----CCAC-AAAATCCCTTGGAAATACAGGAGTACCTGAAACAATTGCCATATGTCTATTAATGTGCTAGTTTAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      314897  95 -   1175262 T-TATTATATAAAGTATAAAGT----ATAT-----CCAC-AAAATCCCTTGGAAATACAGGAGTACCTGAAATAATTGCCATATGTCTATTAATGTGCTAGTTTAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123661637  82 - 204313951 tatatta-------tataaaat----atat-----ctat-aaaatCCCCTGGAAATATAGGAGTACCTGAAACA------ATGTGTCAAGT-ATGTACTAGTTTAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55705522  95 -  71252344 CGTATTATATAAAGTATAAAGT----ATAT-----CTAC-AAAATCCCCAGGAAATATAGGAGTACCTGAAACAATTGCCATACCTCAATT-ATGTACTGGTTTAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        8516  95 -   3089952 tatattatataaagtataaaat----atat-----CTAC-AAAATCCCCTGGAAATATAGGAGTACCTGAAACAATTGCCATATGTCAATT-ATGTACTAGTTTAC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13206483  95 -  42888418 TATATTACATAAAGTACAAAAT----ATTT-----CTAC-AAAATCCCCTGGAAATATAGGAGTACCTGAAACAATTGCCATATGTCAATT-ATGTACTAGTTTAC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3582022  95 +  11683526 tatattatataatgtatacagt----atat-----CCAC-AAAATCTTATGAAGAGATAGAAGTATCTGAAGAAATTGCCATGTGTCAATT-ATGTGCTAGTTTAC
i proCoq1.NW_012155062v1   I 392 I 129
s otoGar3.GL873679           3069731  96 +   4132165 TATATTATATAATGTACAAAGG----ATAT-----CCATAAAAATCTTATGAAAATATTGAAATACCGGAAATAATTATCATCTGTTAATT-ATGTGCTGGTTTAC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55516272  93 +  90702639 tatattaaataatatataaGGCAAAAATAT-----CTAT-AAAATCCTCTGGGAATACAGAAGAA--TGAGAT--TTCCTATATGTCATGT-ATGTGCTATTTT--
i mm10.chr18               C 0 C 0
s canFam3.chr11             14914613 100 +  74389097 TAAAATATATAATATAGAAAGT----AGATAGTGCTCAC-AAACTCCTATGTGACTACAGAGGTATATGAAATAATTGTTGCATGTCAATT-ATGTGCTAGCCTTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2630770  83 +   3667625 ----------TAATTGTGTAAT----GTAA-----GCAC-AAAATCC--TGAGAATACAGAGGTATATGAAACAATTGCTGTGCATCAATT-ATGTGCTAATTTAC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60539711 624 + 108143057 I

a score=1410095.000000
s hg38.chr5_KI270796v1_alt     89592 124 +    172708 CACACTATATTTAG-----TGCATAGCA-GGTGTGCAATACCGATTTGTTGAAACTGTTTTGAAGAA-----TTAAGTCC-AAAAATTGACTACAAAAAA-TGCTAGTCTGGTTGTCCGACTTTGGGATTTTCTGTT
s panTro5.chr5             125193577 124 + 181907262 CACACTATATTTAG-----TGCATAGCA-GGTGTGCAATACAGATTTGTTGAAACTGTTTTGAAGAA-----TTAAGTCC-AAAAATTGACTACAAAAAA-TGCTAGTCTGGTTGTCCGACATTGGGATTTTCTGTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126530443 124 + 183735486 CACACTATATTTAG-----TGTATAGCA-GGTGTGCAATACAGATTTGTTGAAACTGTTTTGAAGAA-----TTAAGTCC-AAAAATTGACTACAAAAAA-TGCTAGTCTGGTTGTCCGACATTGGGATTTTCTGTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1722060 124 +   8933513 CACACTATATTTAG-----TGCATAGCA-GGTGTGCAATGCAGATTTGTTGAAACTGTTTTGAAGAA-----TTAAATCC-AAAAATCGACTACAAAAAA-TGCTAGTCTGGTTGTCCGACATTGGGATTTTCTGTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139852830 124 + 163208435 CACACTATATTTAG-----TGCATAGCA-GGTGTGCAACACAGATTTGTTGAAATTGTTTTGAAGAA-----TTAAGTCC-AAAAATCAACTACAAAAAA-TGCTAGTCTGGTTGTCCGACATTGTGATTTTCTATT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122841719 124 + 180051392 CACACTATATTTAG-----TGCATAGCT-GGTGTGCAGTACAGATTTGTTGAAACTGTTTTGAAGAA-----TTAAGTCC-AAAAATTGACTACAAAAAA-TGCTAGTCTGGTTGTCCGACATTGTGATTTTCTGTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124265338 124 + 181584905 CACACTATATTTAG-----TGCATAGCT-GGTGTGCAGTACAGATTTGTTGAAACTGTTTTGAAGAA-----TTAAGTCC-AAAAATTGACTACAAAAAA-TGCTAGTCTGGTTGTCCGACATTGTGATTTTCTGTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16263705 124 +  18395747 CACACTATATTTAG-----TGCATAGCT-GGTGTGCAGTACAGATTTGTTGAAACTGTTTTGAAGAA-----TTAAGTCC-AAAAATTGACTACAAAAAA-TGCTAGTCTGGTTGTCCGACATTGTGATTTTCTGTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5275345 124 +  26952557 CACACTATATTTAG-----TGCATAGCT-GGTGTGCAGTACAGATTTGTTGAAACTGTTTTGAAGAA-----TTAAGTCC-AAAAATTGACTACAAAAAA-TGCTAGTCTGGTTGTCCGACATTGTGATTTTCTGTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28377573 124 +  82825804 CACACTATATTTAG-----TGCATAGCT-GGTGTGCAGTACAGATTTGTTGAAACTGTTTTGAAGAA-----TTAAGTCC-AAAAATTGACTACAAAAAA-TGCTAGTCTGGTTGTCCGACATTGTGATTTTCTGTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4046451 124 -   4237731 CACACTATATTTAG-----TGCATAGCT-GGTGTGCAGTACAGATTTGTTGAAACTGTTTTGAAGAA-----TTAAGTCC-AAAAATTGACTACAAAAAA-TGCTAGTCTGGTTGTCCGACATTGTGATTTTCTCTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      314992 124 -   1175262 CACACTATATTTAG-----TGCATAGCT-GGTGTGCAGTACAGATTTGTTGAAATTGTTTTGAAGAA-----TTAAGTCC-AAAAATTGACTACAAAAAG-TGCTAGTCTGGTTGTCCGACATTGTGATTTTCTGTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123661719 125 - 204313951 CACATTATTCTTAG-----TGCATAGCA-GGTGTGCAATACAGATTTGTTGAAATGGTTTTGAAGAA-----TTAAGTCC-AAAAATGAACTACAAAAAAATGCAACTCTTCTTGTCAGACATTTTGATTCTCTGTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55705617 124 -  71252344 CACGTTAATCTTAG-----TGCATAGCA-GGAGTGCAATATAGA-TTGTTGAAATGGTTTTGAAGAA-----TTAAGCCC-AAAAATGAACTACAAAAAAATGGAACTCTTCTTGTCAGACATTTTGATTCTCTGTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        8611 125 -   3089952 CACATTATTCTTAG-----TGCATAGCA-GGTGTGCAATACAGATTCGTTGAAATGGTTTTGAAGAA-----TTAAGTCC-AAAAATGAACTACAAAAAAATACAACTCTTCTTGTCAGACATTTTGATTCTCTGTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13206578 125 -  42888418 CACATTATTCTTAG-----GGCATAGCA-GGTGTGCAATACAGATTTGTTGAAATGGTTTTGAAGAA-----TTAAGTTC-GAAAATGAACTACAAAAAATTGCAACTCTTCTTGTCAGACATTTTGATTCTCTGTT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3069827 121 +   4132165 -------AATACAG-----CACCCAGGA-GGTATTCAATACATATTTGTAG-AATTATTTTGAAGAATTATCTTACATCC-AAAAATTTACTATGGAAAA-TGCTGGTCTGGTTGTCAGACATGTTTATTTTGTGCA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55516365 123 +  90702639 -----------TAGGGGCCTGTAGAGAATGGTGGACAATAAATATATGGTAAGAAAATTTTGAAGAATTATCTTAGGTCC-AAGAAATTATTATGATTAA-AATTGGTCTGATTGTC-ATCATTTTTAGTCCCTGTT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14914713 128 +  74389097 --TATAAAATGCCA-----CATGTAGCA-GGTGCACAATATATATCTGTTACAATGGTTTTAAAGAATGATTTTAAGTTCTAACACTTTACTAGAGAAAA-TGCTGGTCTGGTCATCAGACATTCTTACTCTCTGTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2630853 120 +   3667625 -----TAAATGACA-----T---TAGCA-GGTGTATAA-ACATATTTGTCGAAATGGTTTTGAAGAATGATCTTAAGTTC-AAAAATTTACTAAGGAAAA-TGCTGGTCTGGTTGTCAGACGTTTGTACTATGTGTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60539711 624 + 108143057 I
e proCoq1.NW_012155062v1     3582117 129 +  11683526 I

a score=757548.000000
s hg38.chr5_KI270796v1_alt     89716 44 +    172708 GGAAAATTTGTTAGGCCATAAATTATTTTCCTG-AAAAATGTATA
s panTro5.chr5             125193701 44 + 181907262 GGAAAATTTGTTAGGCCATAAATTATTTTCCTG-AAAAATGTATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126530567 44 + 183735486 GGAAAATTTGTTAGGCCATAAATTATTTTCCTG-AAAAATGTATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1722184 44 +   8933513 GGAAAATTTGTTAGGCCATAAATTATTTTCCTG-AAAAATGTATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139852954 44 + 163208435 GGAAAATTTGTTAGGCCATAAATTATTTTCCTG-AAAAATGTATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122841843 44 + 180051392 GGAAAATTTGTTAGGCCATAAATTATTTTCCTG-AAAAATGTTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124265462 44 + 181584905 GGAAAATTTGTTAGGCCATAAATTATTTTCCTG-AAAAATGTTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16263829 44 +  18395747 GGAAAATTTGTTAGGCCATAAATTATTTTCCTG-AAAAATGTTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5275469 44 +  26952557 GGAAAATTTGTTAGGCCATAAATTATTTTCCTG-AAAAATGTTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28377697 44 +  82825804 GGAAAATTTGTTAGGCCATAAATTATTTTCCTG-AAAAATGTTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4046575 44 -   4237731 GGAAAATTTGTTAGGCCATAAATTATTTTCCTG-AAAAATGTTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      315116 44 -   1175262 GGAAAATTTGTTAGGCCATAAATTATTTTCCTG-AAAAATGTTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123661844 43 - 204313951 GAAAAATTTGTTAGGCCATAAATTATCTTCCTG--AAAATGTATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55705741 43 -  71252344 GAAAAATTTGTTAGGCCATAAATTATCTTCCTG--AAAATGTATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        8736 43 -   3089952 GAAAAATTTGTTAGGCCATAAATTATCTTCCTG--AAAATGTGTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13206703 43 -  42888418 GAAAAAATTGTTAGGCTATAAATTATCTTCCTG--AAAATGTATA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60540335 45 + 108143057 GGAAAATTTGTTAGATCATAAATTATCTTCCTGAAAAAATGTATA
i micMur3.chr12            I 624 C 0
s proCoq1.NW_012155062v1     3582246 45 +  11683526 GGAAAATTTGTTAGATCATAAATTATCTTCCTGAAAAAATGTATA
i proCoq1.NW_012155062v1   I 129 C 0
s otoGar3.GL873679           3069948 45 +   4132165 GGAAAATTTGTTAGATCATAAATTATTTTCCTGAACGGAAGTATA
i otoGar3.GL873679         C 0 I 210
s mm10.chr18                55516488 45 +  90702639 GGAAAATTTGCTAGGCCATAAATTATCTTCCTTGAAGGAAGTGTA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14914841 44 +  74389097 GGAGAATTTGGTAGACCATAAATTACCTTCCTG-AAAAATGTATA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2630973 44 +   3667625 TGAGAATTTGTTAGATCACAAATTATCTCCCTG-AAAAATGTATA
i dasNov3.JH567306         C 0 C 0

a score=9222013.000000
s hg38.chr5_KI270796v1_alt     89760 540 +    172708 ATATTTACTATCGTACTTAATGATCCAAAAATCTGTACTGAATCAGAAGTAGAAATGTTAAAGTAATTACATTGAGAAGTCAATTTAACGAATACCTGGTATGTGACAGCATTATTTCTATAATTTTT--TATTGCCCAATTTATCACTTTTATTGTTCATTTACTTATGTTATATAGTTTCAGAATGAATTATAATATCTATTCCTCTCCCCCATTTTTTTCCAATATGAGCCCTTACAAAGCCACAGAAAGCTTTTATGTGAACAGAGTTTTTATATTTGTTAAAGTGAGTCTATTTGATTCTT-ATGTGCTTTGGATAATTTCCCTAGAGTCTTTCCTTAATTATATCATACATGTG-T-TAAACAAGCACTTGC-TTTCTTG-CAGTCCAACT-----CAACTTGATCATCCAGAGTGGCCACAGGACTCAAACTGTGCTGTTTATTATCACTTAATGTCTGTGGTCTTCTAAGCACAGAATTCTGAG-TAGAAAAGCAAAGCCTTTGCATGATATAAATATTTGTATCTCACAAAAAGCAGGAGAAAT
s panTro5.chr5             125193745 539 + 181907262 ATATTTACTATCTTACTTAATGATCCAAAAATCTGTACTGAATCAGAAGTAGAAATGTTAAAGTAATTACATTGAGAAGTCAATTTAATGAATACCTAGTATGTGAAAGCATTATTTCTATAATTTTT---ATTGCCCAATTTATCACTTTTATTGTTCATTTACTTATGTTACATAGTTTCAGAATGAATTATAATATCTATTCCTCTCCCCCATTTTTTTCCAATATGAGCCCTTACAAAGCCACAGAAAGCTTTTATTTGAACAGAGTTTTTATATTTGTTAAAGTGAGTCTATTTGATTCTT-ATGTGCTTTGGATAATTTCCCTAGAGTCTTTCCTTAATTATATCATACATGTA-T-TAAACAAGCACTTGC-TTTCTTG-CAGTCCAACT-----CAACTTGATCATCCAGAGTGGCCACAGGACTCAAACTGTGCTGTTTATTATCACTTAATGTCTGTGGTCTTCTAAGCACAGAATTCTGAG-TAGAAAAGCAAAGCCTTTCCATGATATAAATATTTGTATCTCACAAAAAGCAGGAGAAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126530611 540 + 183735486 ATATTTACTATCTTACTTAATGATCCAAAAATCTGTACTGAATCAGAAGTAGAAATGTTAAAGTAATTACATTGAGAAGTCAATTTAATGAATACCTAGTATGTGAAAGCATTATTTCTATAATTTTT--TATTGCCCAATTTATCACTTTTATTGTTCATTTACTTATGTTACATAGTTTCAGAATGAATTATAATATCTATTCCTCTCCCCCATTTTTTTCCAATATGAGCCCTTACAAAGCCACAGAAAGCTTTTATTTGAACAGAGTTTTTATATTTGTTAAAGTGAGTCTATTTGATTCTT-ATGTGCTTTGGATAATTTCCCTAGAGTCTTTCCTTAATTATATCATACATGTA-T-TAAACAAGCACTTGC-TTTCTTG-CAGTCCAACT-----CAACTTGATCATCCAGAGTGGCCACAGGACTCAAACTGTGCTGTTTATTATCACTTAATGTCTGTGGTCTTCTAAGCACAGAATTCTGAG-TAGAAAAGCAAAGCCTTTCCATGATATAAATATTTGTATCTCACAAAAAGCAGGAGAAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1722228 540 +   8933513 ATATTTACTATCTTACTTAATGATCCAAAAATCTGTACTGAATCAGAAATAGAAATGTTAAAGTAATTACATTGAGAAGTCAATTTAATGAATACCCAATATGTGAAAGCATTATTTCTATAATCTTTTTTATTGCCCAATTTATCACTTTTATTGTTCATTTACTTATGTTATATAGTTTCAGAATGAATTATAATATCTATTCCTCTCCCCCATTTTTTTCCAATATGAGCCCTTACAAAGCCACAGGAAGCTTTTATTTGAACAGAGTTTTTATATTTGTTAAAGTGAGTCTATTTGATTCTT-ATGTGCTTTGGATAATTTCCCTAGAGTCTTTCCTTAATTATATCATACATGTG-T-TAAACAAGCACTTGC-TTTCTTG-CAGTCCAACT-----CAACTTGATCATCCAGAGTGGCCACAGGACTCAAAC--TGCTGTTTATTATCACTTAATGTCTGTGGTCTTCTAAGCACAGAATTCTGAG-TAGAAAAGCAAAGCCTTTGCATGATATAAATATTTGTATCTCACAAAAAGCAGGAGAAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139852998 542 + 163208435 ATATTTACTATCTTATTTAATGATCCAAAAATCTGTACTGAATCAGAAGTAGAAATGTTAAAGTAATTACATTGAGAAGTCAATTTAATGCATACCCAATATGTGAAAGCATTATTTCTATAATCTTTTTTATTGCCCAATTTATCACTTTTATTGTCCATTTACTTATGTTATATAGTTTCAGAATGAATTATAATATCTATTCCTCTCCCCCATTTTTTTCCAATGTGAGCCCTTACAAAGCCACAGAAAGCTTTTATTTGAACAGAGTTTTTATATTTGTTAAAGTAAATCTATTTGATTCTT-ATGTGCTTTGGATAATTTCCCTAGAGTCTTTCCTTAAGTATATCATACATGTG-T-TAAACAAGCATTTGC-TTTCTTG-CAGTCCAACT-----CAACTTGATCATCCAGAGTGGCCACAGGACTCAAACTGTGCTGTTTACTATCACCTAATATCTGTGGTCTTCTAAGCACAGAATTCTGAG-TAGAAAAGCAAAGTCTTTGCATGATATAAATATTTGTATCTCACAAAAAGCAAGAGAAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122841887 540 + 180051392 ATATTTACTCTCTTATTTAATGATCCAAAAATCTGTACTGAATCAGAAGTAGAAATGTTAAAGTAATTACATTGAGAAGTCAATTTAATGAATGCCTGATATGTGAAAGCATTATTTCTATAATCTTCTTTACTGCCCAATTTATCACTTTTATTGTTCATTTACTTATGTTATATAGTTTCAGAGTGAATTATAATATCTATTCCCCTCCCCCA-TTTTTTCCAATATGAGCCCTTACAAAGCCACAGAAAGCTTTTATTTGAACAGAGTTTTTGTATTTGTTAAAGTGAATCTATTTGATTCTT-ATGTGCTTTGGATAATTTCCCTACAGTA------TAATTATATCATACATGTG-T-TAAACCAGCATTTAC-TTTCTTG-CAGTCCAACTTCTTCCAACTTGATCATCCAGAGTGGCCACAGGACTCAAATTGTGCTGTTTACTATCACTTAATGTCTGTGGTCTTCTAAGCACAGAATTCTGAA-TAGAAAAGCAAAGCCGTCGTATGATATATATATTTGTATCTCACAAAAAGCAGGAGAAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124265506 540 + 181584905 ATATTTACTCTCTTATTTAATGATCCAAAAATCTGTACTGAATCAGAAGTAGAAATGTTAAAGTAATTACATTGAGAAGTCAATTTAATGAATGCCTGATATGTGAAAGCATTATTTCTATAATCTTCTTTACTGCCCAATTTATCACTTTTATTGTTCATTTACTTATGTTATATAGTTTCAGAGTGAATTATAATATCTATTCCCCTCCCCCA-TTTTTTCCAATATGAGCCCTTACAAAGCCACAGAAAGCTTTTATTTGAACAGAGTTTTTGTATTTGTTAAAGTGAATCTATTTGATTCTT-ATGTGCTTTGGATAATTTCCCTACAGTA------TAATTATATCATACATGTG-T-TAAACCAGCATTTAC-TTTCTTG-CAGTCCAACTTCTTCCAACTTGATCATCCAGAGTGGCCACAGGACTCAAATTGTGCTGTTTACTATCACTTAATGTCTGTGGTCTTCTAAGCACAGAATTCTGAA-TAGAAAAGCAAAGCCGTCGTATGATATATATATTTGTATCTCACAAAAAGCAGGAGAAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16263873 540 +  18395747 ATATTTACTCTCTTATTTAATGATCCAAAAATCTGTACTGAATCAGAAGTAGAAATGTTAAAGTAATTACATTGAGAAGTCAATTTAATGAATGCCTGATATGTGAAAGCATTATTTCTATAATCTTCTTTACTGCCCAATTTATCACTTTTATTGTTCATTTACTTATGTTATATAGTTTCAGAGTGAATTATAATATCTATTCCCCTCCCCCG-TTTTTTCCAATATGAGCCCTTACAAAGCCACAGAAAGCTTTTATTTGAACAGAGTTTTTGTATTTGTTAAAGTGAATCTATTTGATTCTT-ATGTGCTTTGGATAATTTCCCTACAGTA------TAATTATATCATACATGTG-T-TAAACCAGCATTTAC-TTTCTTG-CAGTCCAACTTCTTCCAACTTGATCATCCAGAGTGGCCACAGGACTCAAATTGTGCTGTTTACTATCACTTAATGTCTGTGGTCTTCTAAGCACAGAATTCTGAA-TAGAAAAGCAAAGCCATCGTATGATATATGTATTTGTATCTCACAAAAAGCAGGAGAAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5275513 540 +  26952557 ATATTTACTCTCTTATTTAATGATCCAAAAATCTGTACTGAATCAGAAGTAGAAATGTTAAAGTAATTACATTGAGAAGTCAATTTAATGAATGCCCGATATGTGAAAGCATTATTTCTATAATCTTCTTTATTGCCCAATTTATCACTTTTATTGTTCATTTACTTATGTTATATAGTTTCAGAGTGAATTATAATATCTATTCCCCTCCCCCA-TTTTTTCCAATATGAGCCCTTACAAAGACACAGAAAGCTTTTATTTGAACAGAGTTTTTGTATTTGTTAAAGTGAATCTATTTGATTCTT-ATGTGTTTCGGATAATTTCCCTACAGTA------TAATTATATCATACATGTG-T-TAAACCAGCATTTAC-TTTCTTG-CAGTCCAACTTCTTCCAACTTGATCATCTAGAGTGGCCACAGGACTCAAATTGTGCTGTTTACTATCACTTAATGTCTGTGGTCTTCTAAGCACAGAATTCTGAA-TAGAAAAGCAAAGCCGTTGTATGATATATATATTTGTATCTCACAAAAAGCAGGAGAAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28377741 526 +  82825804 ATATTTACTATCTTATTTAATGATCCAAAAATCTGTACTGAATCAGAAGTAGAAATGTTAAAGTAATTACATTGAGAAGTCAATTTAATGAATGCCCGATATGTGAAAGCATTATTTCTATAATCTTCTTTATTGCCCAATTTATCACTTTTATTGTTCATTTACTTATGTTATATAGTTTCAGAGTGAATTATAATATCTATTCCCCTCCCCCA-TTTTTTCCAATATGAGCCCTTACAAAGCCACAGAAAGCTTTTATTTGAACAGAGTTTTTGTATTTGTTAAAGTGAATCTATTTGATTCTT-ATGTGCTTTGGATAATTTCCCTAGAGTA------TAATTATATCATATATGTG-T-TAAACCAGCATTTGC-TTTCTTG-CAGTCCGACTTCTTCCAACTTGATCATCCAGAGTGGCCACAGGACTCAAATTGTGCTATTTACTATCACTTAATGTCTGTGGTCTTCTAAGCACGGAATTCTGAA-TAGAAAAGCAAAGCCTTTGTATGATATATAT--------------AAAAGCAGGAGAAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4046619 540 -   4237731 ATATTTACTCTCTTATTTAATGATCCAAAAATCTGTACTGAATCAGAAGTAGAAATGTTAAAGTAATTACATTGAGAAGTCAATTTAATGAATGCCCGATATGTGAAAGCATTATTTCTATAATCTTCTTTATTGCCCAATTTATCACTTTTATTGTTCATTTACTTATGTTATATAGTTTCAGAGTGAATTATAATATCTATTCCCCTCCCCCA-TTTTTTCCAATATGAGCCCTTACAAAGCCACAGAAAGCTTTTATTTGAACAGAGTTTTTGTATTTGTTAAAGTGAATCTATTTGATTCTT-ATGTGCTTCAGATAATTTCCCTACAGTA------TAATTATATCATACATGTG-T-TAAACCAGCATTTAC-TTTCTTG-CAGTCCAACTTCTTCCAACTTGATCATCCAGAGTGGCCACAGGACTCAAATTGTGCTGTTTACTATTACTTAATGTCTGTGGTCTTCTAAGCACAGAATTCTGAA-TAGAAAAGCAAAGCCGTTGTATGATATATATATTTGTATCTCACAAAAAGCAGGAGAAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      315160 540 -   1175262 ATATTTACTATCTTATTTAATGATCCAAAAATCTATACTGAATCAGAAGTAGAAATGTTAAAGTAATTACCTTGAGAAGTCAATTTAATGAATGCCCGATATGTGAAAGCATTATTTCTATAATCTTCTTTATTGCCCAATTTATCACTTTTATTGTTCATTTACTTATGTTATATAGTTTCAGAGTGAAATATAATAGCTATTCCCCTCCCCCA-TTTTTTCCAATATGAGCCCTTACAAAGCCACAGAAAGCTTTTATTTGAACAGAGTTTTTGTATTTGTTAAAGTGAATCTATTTGATTCTT-ATGTGCTTTGGATAATTTCCCTAGAGTA------TAATTATATCATACACATG-T-TCAACCAGCATTTGC-TTTCTTG-CAGTCCAACTTCTTCCAACTTGATCATCCAGAGCAGCCACAGGACTCAAACTGTGCTGTTTACTCTCACTTCATGTCTGTGGTCTTCTAAGCATGGAATTCTGAA-TAGAAAAGCAAAGCCTTTGTATGATATATATATTTGTATCTCACAAAAAGCAGGAGAAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123661887 546 - 204313951 ATATTTACTATCTTATTTAATAATCCAAAAATCTGTACTGAATCAGAAGTAGAAATGTTAAAGTAATTACATTGAGAAGTCAATTTAATGAGTGCCCAGTATGGGAAAGCATTATTTCTGTAATCTTTTTTATGGCCTAATTTATCACTTTTATTGTTCATTTACTTATGTTATATAGTTCCAGAATGAATTATAATATCTATTCCCCTCCCCCA-TTTTTTCAAATATGAGTCCTTACAAAGCCACAAAAAGCTTTTGTTTGAACAGAGTTTTTATACTTGTTAAAGTGAATCTATTTGATTCTT-ATGTGCTTTGGATAATTTCCCTAGAGTCTTTCCTTAATTATATCATACATGTG-T-TAAACAAGCATTTGC-TTTCTTG-AAGCCCAGCTTCTTTCAACTTGATCCTCCAGAGTGGCCACAGGACTCAAATTGTGCTGTTTACCATCACTTAATGCCTGTGGTCTTCTAAGCACAGAATTCTGCG-TAGAAAGGCAAAGCCTTTGCATGGTGTAAATAATCGTATCTGACAAATAGCAGGAGTAAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55705784 547 -  71252344 ATATTTACTATCTTATTTAATGATCCGAAAATCTGTACTGAATCAGAAGTAGAGATGTTAAAATAATTACATTGAGAAGTCAATTTAATGAATGCCCAGTATGTGAAAGCATTATTTCTGTAATCATTTTTATGTCCTAATTTATCACTTTTATTGTTCATTTACTTATGTTATATAGTTCCAGAATGAATTATAATATCTATTCCCCTCCCCCATTTTTTTCAAATATGAGTCCTTACAAAGCCACAAAAAGCTTTTATTTGAACAGAGTTTTTATACTTGTTAAAGTGAATCTATTTGATTCTT-ACGTGCTTTGGATAATTTCCCTAGAGTCTTTCCTTAATTATATCATACATGTG-T-TAAACAAGCATTTGC-TTTCTTG-AAGCCCAGCTTCTTTCAACTTGATCCTCCAGAGTGGCCACAGGACTCAAACTGTGCTGTTTACCATCACTTAATGCCTGTGGTCTTCTAAGCACAGAATTCTAAG-TAGAAAAGCAAAGCCTTTGCATGGCGTAAATAATTGTATCTCACAAATAGCAGGAGTAAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        8779 546 -   3089952 ATATTTACTATCTTATTTAATGATCCAAAAGTCTGTACTGAATCAGAAGTAGAAATGTTAAAGTAATTACATTGAGAAGTCAATTTAATGAATGCCCAGTATGTGAAAGCATTATTTATGTAATCTTTTTTATGGCCTAATTTATCACTTTTATTGTTCATTTACTTATGTTATCTAGTTCCGGAATGAATTATAATATCTATTCCCCTCCCCCA-TTTTTTCAAATATGAGTCCTTACAAAGCAACAAAAAGCTTTTATTTGAACAGAGTTTTTATACTTGttaaagtgaatctatttgattctt-atatgctttggatcatttccctagagtctttccttaattatattacacatgtg-t-taaacaagcatttgc-tttcttg-aagcccaacttctttcaacttgatcctccagagtggccacaggactcaaattgtgctgtttaccatcacttaatgcctgtggtcttcaaagcacagaattctgaG-TAGAAAAGCAAAGCCTTTGCATGGTGTAAATAATCGTATCTCACAAATAGCAGGGATAAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13206746 546 -  42888418 ATATTTACTATCTTATTTAATGATCTAAAAATCTGTTCTGAATCAGAAGTAGAAATGTTAAAGTAATTACATTGAGAAGTCAATTTAATGAATGCCCAGTATGTGAAAGCATTATTTCTGTAATCTTTTTTATGGCCTAATTTATCACTTTTATTGTTCATTTACTTATGTTATATAGTTCCAGAATGAATTATAATATCTATTCCCCTCCCCCA-TTTTTTCAAATATGAGCCCTTACAAAGCCACAAAAAGCTTTTATTTGAACAGAGTTTTTATACTTGTTAAAGTGAATCTATTTGATTCTT-ATGTGCTTTGGATAATTTCCCTAGAGTCTTTCCTTAATTATGTCATACATGTG-T-TACACAAGCATTTGC-TTTCTTG-AAGCCCAGCTTCTTTCAACTTGATCCTCCGGAGTGGCCACAGGACTCAAACTGTGCTGTTTACCATCACTTAATGCCTGTGGTCTTCTAAGCACAGAATTCTGAG-TAGAAAAGCAAAGCCTTTGCATGGTGTAAATAATTTTATCTCACAAATAGCAGGAGTAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60540380 545 + 108143057 ATATTTACTATCTTATTTAATGATCCAAAAATCTGTACTGAATCAGAAGTAGAAATGTTAAAGTAATTACATTGAGAAGTCAATTTAATGAATGACCAATATGTGAAAGCATTATTTCTGTAATCTTTTTTATTGCCCAATTTATCATTTTTATTGTTCATTTACTTATGTTATATAGTTCTAGAATGAATTATAATCTCTATTTCCCTCCCCCA-TTTTTTCAAGTATGAGCTCTTATTAAGCCACAAAAAGCTTTTATTTGAATAGAGTTTTTATACTTGttaaagtgaatctatttgattcttaatgtgctttgaataatttccctagagtcttcccttattaatatcatacatgtgtt-taaacaagcatttgc-tttcttt-cactccaaattctttcaacttgatcatccacgggggccacaatactcaaattgttctgtttacaatcacttaatggctgtggtcttctaagcacagaactctgaG-TAGGAAAGTAAAGTTTTTGCATGGTATAAATATTTGTATTTCGCAAATAGCAGGAGA---
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3582291 546 +  11683526 ATATTTACTATCTTATTTAATGATCCAAAAATCTGTACTGAATCAGAAGTAGAAATGTTAAAGTAATTACATTGAGAAGTCAATTTAATGAATGACCAATATGTGAAAGCATTATTTCTGTAATCTTTTTTATTGCCCAATTTATCATTTTTATTGTTCATTTACTTATGTTATATAGTTCTAGAATGAATTATAATCTCTATTTCCCTCCCCCATTTTTTTCAAGTATGAGCTCTTATTAAGCCATGAAAAGCTTTTATTTGAATAGAGTTTTTATACTTGTTAAAGTGAATCTATTTGATTCTTAATGTGCTTTGAATAATTTCCCTACAGTCTTCCCTTAATTATATCATACATGTGTT-TAAACCAGCATTTGC-TTTCTTT-CACTCCAAATTGTTTCAACTTGATCATCCAGGGTGGCCACAAGACTCAAATTGTTCTGTTTATAGTCACTTAATGGCTGTGGTCTTCTAAGCACAGAACTCTGAG-TAGGAAAGTAAAGTCTTTGCATGGTATAAATATTTGTATTTCACAAATAGCAGGGGA---
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3070203 545 +   4132165 ATATTTACTATCTTATTTAATGATTC-AAAATCTGTACTGAATCAGAAGTAGAAATGTTAACGTAATTATGTTAAGAAGTCAATTTAATGAATGACCACTATGTGAAAGCATTATTTCTGTAATCTTTTTTATTGCCCAATTTATCATTTTTATTGTTCATTTACTGATGTTATATAGTTTGAGAATGAATTATAATCTCTATTTCCCTCCCCCATTTTTTTCAAGCATGGGCTCTTAGTAAGCTACAAAAAGCTTTTATTTGAACAGAGTTTTTATACTTGTTAAAGTGAATCTATTTGATTCTTAATATGCTTTGAATAATTTCCCTGGAGTCTTCCCTTAATTATATCATACATGTATT-TCAACAAGCATTTGC-TTTCTTT-CACTCCAAATTCTTTCCATGTGATCATGCGGGGGGG---GGGGGCACTGGATGTTCTGTTTACAATCACTTAATAGCTATAGTCATCTAAGCACAGAACCCTGAA-TAGAAAAGTAAAGTCTTTCTATGGTGTAAATATTCGTATTTCACAAATAGCAGGTGGAAT
i otoGar3.GL873679         I 210 I 415
s mm10.chr18                55516533 529 +  90702639 ATATTTACTATCTTATTTAATGATCCAAAAATCTGTACTGAATAAGAAGTAGAAATGTTAAAGTAATTACATTTGGAAGTCAATTTAATGAATGTCCAATATGTGAAAGCATTATTTCTGTAATCTTTTTTATTGCCCAATTTATCATCTTTATTGTTAATTTACTTATGCTATATAGTTCTAGGATGAATTATAATCTCTGGCCCCCACCCCCAGTTTTTCCCAGAAT-----------AAAGCACAGAAAGCCTTTGTGAGAAT-GAATTCTTGTACTTGCTACTGTGAAACTGTTTGTTACGT-ATGGGCTTTGGATAATTTCCT---AGTCTTGCCTTAATTATGTCATGCATGTA-TATAAACACACATTTCC-TTTCTTGCCAGTCTAAATTTCTTCAGCTTGAT-ATCCACAGTAGCCACAAGACTGGTACTGTGCTGTTTACAGTCACTTACTGACTGTGGTCTTCTAGTTTCAGAATCTTGAG-TTAGAAAGACAAATCTTTGCAGAGTTTG----TTTGTATTTCACAAACAGCAGGAGGAAT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14914885 546 +  74389097 ATATTTACTATCTAATTTAATGATCCAAAAATCTGTACTGAATCAGAAATAGAAATGTTAAAGTAATTACACTGAGAAGTCAATTTAATGAATGCCCAATATGTGAAAGCATTATTTCTGTAATCTTTTTTATTGCCCAATTTATCATTTTTATTGTTCATTTACTTATGCTATATAGTTCAAGAATGAATTATAATCTCTA--CCCCTCCCCGT-TTTTTTCAAGTAGGATCTCTTAGAAAGTAACAAAAAGCTTCTATATGAATAGTATTTTTGTCCTTGTTGAAGTGAATCTGTTTGATTCTT-AGGTGCTTTGGATGATTTCCCTAGAGCCTTCCCTTAATTATATCATACATATGTT-TAAACAAGCATTTGCTTTTCTCA-CAGTCTAAATTCTTCTAACTTGATTTTTTAGGGTGGCCGCAAGATCCAAATTGTGCTGTCTGCAATCACTTAATGGCTCTGGTCTTATAAGCACAGAATTCCGAGTTTGGAAGGCAAAGTCTCTGTGCAGTTTGAATATTTGCATCGCACAAACAGCAGAATATA-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2631017 522 +   3667625 ATATTTACTATCTTATTTAATGATCCAAAAATCTGTGCTGAATAAGAAGTAGAAATGTTAAAGTAATTACATTGAGAAGTCAATTTAATGAATGCCCAATAAGTGAAAGCATTATTTCTGTAATCTTTTTTATTGCCCAATTTATCATTTTTATTGTTCATTTACTTATGTTATATAGTTCTACAATGAATTATAATCTCTA-CCCCATCCCCCA--TTATTTAAGCATGATCTCTTAGAAAGGCATGAAAAGCTTTTATTTGAAAAGAGTTTTTATACTTGTTAAAGTGAAACTATTTGATTCCT-ACGTG-TTTGGAGAATTTTCCTAGAGTC-----TTAATTATTTCATACACATATT-TAAACAAGCATTTCC-TTTT-------------------CAACTTGATCTTCCAGGGTGGCCACAAGATTCAAATCATACTGTTTACAATCACTTATTGACTGTGGTCTTCCATGCACTAACTTCCAAGTTAAGAAGGCAAAGCCTTTGTATGGTATAAATATTTGTGTTGTACATATAGCGGGAGGAGT
i dasNov3.JH567306         C 0 C 0

a score=1788843.000000
s hg38.chr5_KI270796v1_alt     90300 129 +    172708 GTACAACACGGCTG-GCACAGGTCATGACATGATGTTGG-----CCACCCCCACCCCCTCTTCAGATGCAAAACGGGAAATAACAAATATCATTTGTTACTATCACAATGAGGTA-AT---------------------TTTTCCTGTTGGGATATA
s panTro5.chr5             125194284 126 + 181907262 GTACAACACGGCTG-GCACAGGTCATGACATGATGTTGG-----CCACCCCCACCCCCTCTTCAGATGCAAAACAGGAAATAA---ATATCATTTGTTACTATCACAATGAGGTA-AT---------------------TTTTCCTGTTGGAATATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126531151 129 + 183735486 GTACAACACGGCTG-GCACAGGTCATGACATGATGTTGG-----CCACCCCCACCCCCTCTTCAGATGCAAAACAGGAAATAACAAATATCATTTGTTACTATCACAATGAGGTA-AT---------------------TTTTCCTGTTGGAATATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1722768 129 +   8933513 GTACAACACGGCTG-GCACAGGTCATGACATGATGTTGG-----CCACCCCCACCCCCTCTTCAGATGCAAAACAGGAAATAACAAATATCATTTGTTACTATCACAACGAGGTA-AT---------------------TTTTTCTGTTGGAATATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139853540 129 + 163208435 GTACAACATGGCTG-GCACAGGTCATGACATGACGTTGG-----CCACCCCCACCCCCTCTTCAGATGCAAAACAGGAAATAACAAATATCATTTGTTACTATCACAATGAAGTA-AT---------------------TTTTCCTGTCAGAATATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122842427 129 + 180051392 GTACAATATGGCTG-GCACAGGTCATGACATGACTTTGG-----CCACCCCTACCCGCTCTTCAGATGCAAAACAGGAAATAACAAATATCATTTGTTACTATCACACTGAAGTA-AT---------------------TTTTCCTGTCAGAATATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124266046 129 + 181584905 GTACAATATGGCTG-GCACAGGTCATGACATGACTTTGG-----CCACCCCTACCCGCTCTTCAGATGCAAAACAGGAAATAACAAATATCATTTGTTACTATCACAATGAAGTA-AT---------------------TTTTCCTGTCAGAATATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16264413 129 +  18395747 GTACAATATGGCTG-GCACAGGTCATGACATGACTTTGG-----CCACCCCTACCCGCTCTTCAGATGCAAAACAGGAAATAACAAATATCATTTGTTACTATCACAATGAAGTA-AT---------------------TTTTCCTGTCAGAATATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5276053 129 +  26952557 GTACAATATGGCTG-GCACAGGTCATGACATGACTTTGG-----CCACCCCTACCCCCTCTTCAGATGCAAAACAGGAAATAACAAATATCATTTGTTACTATCACAATGAAGTA-AT---------------------TTTTCCTGTCAGAATATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28378267 129 +  82825804 GTACAATATGGCTG-GCACAGGTCATGACATGACTTTGG-----CCACCCCTACCCCCTCTTCAGATGCAAAACAGGAAATAACAAATATCATTTGTTACTATCACAATGAAGTA-AT---------------------TTTTCCTGTCAGAATATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4047159 129 -   4237731 GTACAATATGGCTG-GCACAGGTCATGACATGACTTTGG-----CCACCCCTACCCACTCTTCAGATGCAAAACAGGAAATAACAAATATAATTTGTTACTATCACAATGAAGTA-AT---------------------TTTTCCTGTCAGAATATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      315700 129 -   1175262 GTACAATATGGCTG-GCACAGGTCATGACGTGACGTTGG-----CCACCCCTTCCCCCTCTTCAGATGCAAAACAGGAAATAACAAATATCATTTGTTACTGTCATAATGAAGTA-AT---------------------TTTTCCTGTCAGAATATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123662433 129 - 204313951 GTACAGTGTGGTTG-GCACAGGTCATGACGTGACGTTGG-----CCAACCCCACCCTCTCTTCAGATGCAATACAGGAAATAACAAATATCATTTGTTACTGTCACAATGAAGCA-TT---------------------TTTTCCTGTCAGAATATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55706331 129 -  71252344 GTACACCATGGTTG-GCACAGGTCATTACGTGACGTTGG-----CCAACCCCACCCTCTCTTCAAATGCAAAACAGGAAATAACAAATATCCTTTGTTACTATCACAATGAAGCA-TT---------------------TTTTCCTGTTAGAATATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        9325 129 -   3089952 GTACAGCATGGTTG-GCACCGGTCATGACGTGACATTGG-----CCAACCCCACCCTCTCTTCAGATGCAAAACAGGAAATAACAAATATCATTTGTTACTATCACAATGAAGCG-TT---------------------CTTTCCTGTCAGAATATA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13207292 128 -  42888418 GTACAGCGTGGTTG-ACGCAGGTCATGATGTGATGTTGG-----CCAACCCCACCCTCTCTTCAGATGCAAAACAGGAAATAACAAATATCATTTGTTACTATCACAATGAAGCA-TT----------------------TTTCCTGTCAGAGTCTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60540925 120 + 108143057 -------ATGGCTG-ACATAGGTCATTATATGACTTTGT-----CCACCCC-ACGCCCTCCTTAGATGCAA-ACAAGAAGTGACACATATCATTTGTTGCCATCCCAATAAAGGA-GT---------------------TTTTCCTGTCAGAGTATA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3582837 120 +  11683526 -------ATGGCTG-ACACAGGTCATTATATGACCTTGT-----CCACCCC-ACACCCTCCTTAGATGCAA-ACAAGAATTGACACATATCATTTGTTGCCATCCCAATGAAGGA-GT---------------------TTTTCCTGTCAGACTATA
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55517062 126 +  90702639 ---ATACATGACTG-ATACAGGTCAGCACATGACTTCAG-----CCAGCACATCCCTCTC-TGAGATGCAAAATAGGAAGTAACAGATGCCCTTTGTTAACATTAAAGGGAAGAAGGC---------------------TTTTCCTGTTAGAATATG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14915431 152 +  74389097 --ACCGCATAGCTG-ACACAGGTCATCATGTGACTTCAGCGGCCCCATCCCCAACCCATCCT-GGTTGCAAAACAAAAAGTAGCATACATCATGTGTCACCATCACAATGAAAGA-GTTTTGTTTTTTTTGTTTGTCTGTTTTTCTGTCAGAATATA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2631539 130 +   3667625 ATACAACGTGGATGAACACAGGTCATTCCATGACTTTGG-----CTGCCACCACACTCACCCTAGATTCAAAACAAGAAGTAACGTGTATCATTTGTTACCATCACAATGAAGGG-GT---------------------TTTTCTAGGCAGAATATA
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3070748 415 +   4132165 I

a score=176123.000000
s hg38.chr5_KI270796v1_alt     90429 9 +    172708 CAGAGAAAA
s panTro5.chr5             125194410 9 + 181907262 CAGAGAAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126531280 9 + 183735486 CAGAGAAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1722897 9 +   8933513 CAGAGAAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139853669 9 + 163208435 CAGAGAAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122842556 9 + 180051392 CAGAGAAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124266175 9 + 181584905 CAGAGAAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16264542 9 +  18395747 CAGAGAAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5276182 9 +  26952557 CAGAGAAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28378396 9 +  82825804 CAGAGAAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4047288 9 -   4237731 CAGAGAAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      315829 9 -   1175262 CAGAGAAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123662562 9 - 204313951 AAGAGAAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55706460 9 -  71252344 CAGAGAAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        9454 9 -   3089952 CAGAGAAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13207420 9 -  42888418 CAGAGAAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60541045 9 + 108143057 CAGAGAAAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3582957 9 +  11683526 CAGAGAAAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3071163 9 +   4132165 CAGAGAAAA
i otoGar3.GL873679         I 415 C 0
s mm10.chr18                55517188 9 +  90702639 TGGAGACAA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14915583 9 +  74389097 CAGAAAAAg
i canFam3.chr11            C 0 I 140
s dasNov3.JH567306           2631669 9 +   3667625 CAGAGAAAA
i dasNov3.JH567306         C 0 C 0

a score=169092.000000
s hg38.chr5_KI270796v1_alt     90438 13 +    172708 CTCTGTAAG------------TATG
s panTro5.chr5             125194419 22 + 181907262 CTCTGTAAGAATG---GAGTGTATC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126531289 22 + 183735486 CTCTGTAAGAATG---GAGTGTATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1722906 22 +   8933513 CTCTGTAAGAATG---GAGTGTATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139853678 22 + 163208435 TTCTATAAGAATG---GAGTGTATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122842565 22 + 180051392 CTCTGTAAGAATG---GAGTGTATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124266184 22 + 181584905 CTCTGTAAGAATG---GAGTGTATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16264551 22 +  18395747 CTCTGTAAGAATG---GAGTGTATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5276191 22 +  26952557 CTCTGTAAGAATG---GAGTGTATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28378405 22 +  82825804 CTCTGTAAGAATG---GAGTGTATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4047297 22 -   4237731 CTCTGTAAGAATG---GAGTGTATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      315838 22 -   1175262 CTCTGTCAGAATG---GAGTATATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123662571 22 - 204313951 CTCTGCAAGAATG---GAGTGTATG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55706469 22 -  71252344 CTCTGCAAGAATG---GAGTGTATG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        9463 22 -   3089952 CTCTCCAAGGATG---GAGTGTATG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13207429 22 -  42888418 CTCTGCAAGAATG---GAGTGTATG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60541054 13 + 108143057 ATCTGTAAGAATG------------
i micMur3.chr12            C 0 I 4
s proCoq1.NW_012155062v1     3582966 13 +  11683526 ATCTGTAAGAATG------------
i proCoq1.NW_012155062v1   C 0 I 82
s otoGar3.GL873679           3071172 13 +   4132165 ATCTGCAGGCATG------------
i otoGar3.GL873679         C 0 I 25
s mm10.chr18                55517197 24 +  90702639 -TTTGTAGGAAGACCCAAACAACTA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14915732 13 +  74389097 ctctgtgactatc------------
i canFam3.chr11            I 140 I 21
s dasNov3.JH567306           2631678  3 +   3667625 ACC----------------------
i dasNov3.JH567306         C 0 C 0

a score=948016.000000
s hg38.chr5_KI270796v1_alt     90451  81 +    172708 ATTAAAACAACAAGAAA--------------------------------------------------------------------TCTGATTTA-------------GCTTTAG-CT--TCATAC----CCTGTTAAGAACTCCCTGCAC--AATTTTGGCCTAAATTTTA
s panTro5.chr5             125194441  83 + 181907262 ATTAAAACAACAAGAAA--------------------------------------------------------------------TCTGATTTA-------------GCTTTAG-CTAGGCATAC----TCTGTTAAGAACTCCCTGCAC--AATTTTGGCCTAAATTTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126531311  83 + 183735486 ATTAAAACAACAAGAAA--------------------------------------------------------------------TCTGATTTA-------------GCTTTAG-CTAGGCATAC----TCTGTTAAGAACTCCCTGCAC--AATTTTGGCCTAAATTTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1722928  81 +   8933513 ATTAAAACAACAAGAAA--------------------------------------------------------------------TCTGATTTA-------------GCTTTAG-CT--TCATAC----CCTGTTAAGAACTCCCTGCAC--AATTTTGGCCTAAATTTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139853700  81 + 163208435 ATTAAAACAACAAGAAA--------------------------------------------------------------------TCTGATTTA-------------GCTTTAG-CT--TCATAC----CCTATTAAGAACTCCCTGCAC--AATTTTGGCCTAAATTTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122842587  79 + 180051392 ATTAA---AACAAGAAA--------------------------------------------------------------------TCTGATTTA-------------GCTTTAG-CT--TCATAC----CCTATTAAGAACTTCCTGCAC-AAATTTTGGCCTAAATTTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124266206  79 + 181584905 ATTAA---AACAAGAAA--------------------------------------------------------------------TCTGATTTA-------------GCTTTAG-CT--TCATAC----CCTATTAAGAACTTCCTGCAC-AAATTTTGGCCTAAATTTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16264573  79 +  18395747 ATTAA---AACAAGAAA--------------------------------------------------------------------TCTGATTTA-------------GCTTTAG-CT--TCATAC----CCTATTAAGAACTTCCTGCAC-AAATTTTGGCCTAAATTTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5276213  82 +  26952557 ATTAAAACAACAAGAAA--------------------------------------------------------------------TCTGATTTA-------------GCTTTAG-CT--TCATAC----CCTATTAAGAACTTCCTGCAC-AAATTTTGGCCTAAATTTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28378427  82 +  82825804 ATTAAAACAACAAGAAA--------------------------------------------------------------------TCTGATTTA-------------GCTTTAG-CT--TCATAC----CCTATTAAGAACTTCCTGCAC-AAACTTTGGCCTAAATTTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4047319  79 -   4237731 ATTAA---AACAAGAAA--------------------------------------------------------------------TCTGATTTA-------------GCTTTAG-CT--TCATAC----CCTATTAAGAACTTCCTGTAC-AAATTTTGGCCTAAATTTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      315860  82 -   1175262 ATTAAAACAACAAGAAA--------------------------------------------------------------------TCTGATTTA-------------GCTTTAG-CT--TCATAC----CCTATTAAGAACTTCCTGCAC-AAATTTTGGCCTAAATTTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123662593  81 - 204313951 ATTAAAACAGCAAGAAA--------------------------------------------------------------------TCTGATTTA-------------GCTTTAG-CT--TCAAAC----TCTATTAAGAACTTCCTGCAC--AATTTTGGCCTAAATTTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55706491  81 -  71252344 ATTAAAACAACAAGAAA--------------------------------------------------------------------TCTGATTTA-------------GATTTAG-CT--TCAAAC----TCTATTAAGAACTTCCTGCAC--ACTTTTGGCCTAAATTTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        9485  81 -   3089952 ATTAAAACAACGAGAAA--------------------------------------------------------------------TCTGATTTA-------------GCTTTAG-CT--TCAAAC----TCTGTTAAGAACTTCCTGCAC--AATTTTGGCCTAAATTTTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13207451  81 -  42888418 ATTAAAACAACAAGAAA--------------------------------------------------------------------TCTGATTTA-------------GCTTTAG-CT--TCAAAC----TCTATTAAGAACTTCCTGCAC--AATTTTGGCCTACATTTTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60541071  75 + 108143057 ATCTGATTAA----AAA--------------------------------------------------------------------TCTGATTCC-------------ACTTCAG-TG--TTAGAC----TCTGTTAAGAATTTCTTGCAC--GATTTTGGCCTAAATTC--
i micMur3.chr12            I 4 C 0
s otoGar3.GL873679           3071210  73 +   4132165 aataaaacaa----aaG--------------------------------------------------------------------TCTTGTTTT--------------CTCCAG-CA--TTAGTC----TCTGTTAAGAATTTCTTGCAC--AATTTTGGCCTAACTT---
i otoGar3.GL873679         I 25 C 0
s mm10.chr18                55517221 100 +  90702639 ATTAAAATGCCaaaaaaaaaaaaaaaaa----------------------------------------------------aaaGGTCTGATCAG-------------ACTTCAGACT--TCAGTT----CCTACTAAGAATTTCTTAAATGATACTTTTGCCTAAATCATA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14915766 144 +  74389097 atttaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaagaataTACAGAAAAAATTCTTGGTAAGAATGGAGCATCAGCTTTTAAAAAATTGATTCA-------------GCTTTAG-CT--TCAGAC----CCTATTAAGAATTTCTTGCAT--GATTTTGGCCTAAT-----
i canFam3.chr11            I 21 C 0
s dasNov3.JH567306           2631681  98 +   3667625 ATGGAAAGAATAGAGTT--------------------------------------------------------------------TCTGGTTTTAAATATGCACTCTACCTCAG-CT--TCAGGCTTTGTCTGTTCAGATTTTCTTACAC--GATTTTGGCCtaaatttta
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3582979  82 +  11683526 I

a score=5066297.000000
s hg38.chr5_KI270796v1_alt     90532 340 +    172708 GTACATTATATACTTG-TTATGAAAACCTTTAA-CTGAAG---CTTTGCAAAATG---CTTCCAAAATAGGCTTAGATC------------ACCTAACAAATCATACATGCCAACAGAATAATGTTACTTCCTAGTTCCAAGTTTATTGTGTTACAGAACTTTAAGGATCAAATGAATATAAATTTACA-AAGACACTACCGATTTTCCACTTGGAGCATGAACTGAATAATTTAAAAAGAAATGT--------------------------AATAGTA-ATCCAAATATTGCCCAAGTTGTTCTTAAACCTATTAAACAGAGATG-AGT-AGGAAAGATTGATAATGTTGA--AGGGAA-AGGGAGG---CTTTTAAA--GTAAACTCCAGCAAAGA
s panTro5.chr5             125194524 340 + 181907262 GTACATTATATACTTG-TTATGAAAACCTTTAA-CTGACG---CCTTGCAAAATG---CTTCCAAAATAGGTTTAGATC------------ATCTAACAAATCATACATGCCAACAGAATAATGTTACTTCCTAGTTCCAAGTTTATTGTGTTACAGAACTTTAAGGATCAAATGAATATAAATTTACA-AAGACACTACCGATTTTCCACTTGGAGCATGAACTGAATAATTTAAAAAGAAATAT--------------------------AATAGTA-ATCCAAATATTGCCCAAGTTGTTCTTAAACCTATTAAACAGAGATG-AGT-AGGAAAGATTGATAATGTTGA--AGAGAA-AGGGAGG---CTTTTAAA--GTAAACTCCAGCAAAGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126531394 340 + 183735486 GTACATTATATACTTG-TTATGAAAACCTTTAA-CTGACG---CCTTGCAAAATG---CTTCCAAAATAGGTTTAGATC------------ATCTAACAAATCATACATGCCAACAGAATAATGTTACTTCCTAGTTCCAAGTTTATTGTGTTACAGAACTTTAAGGATCAAATGAATATAAATTTACA-AAGACACTACCGATTTTCCACTTGGAGCATGAACTGAATAATTTAAAAAGAAATAT--------------------------AATAGTA-ATCCAAATATTGCCCAAGTTGTTCTTAAACCTATTAAACAGAGATG-AGT-AGGAAAGATTGATAATGTTGA--AGAGAA-AGGGAGG---CTTTTAAA--GTAAACTCCAGCAAAGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1723009 340 +   8933513 GTACATTATATACTTG-TTATGAAAACCTTTAA-CTGAAG---CTTTGCAAAATG---CTTCCAAAATAGGCTTAGATC------------ATCTAACAAATCATACATGCCAACAGAATATTGTTACTTCCTAGTTGCAAGTTTATTGTGTTACAGAACTTTAAGGATCAAATGAATATAAATTTACA-AAGACACTACCGATTTTCTACTTGGAGCATGAACTGAATAATTTAAAAAGAAATAT--------------------------AATAGTG-ATCCAAATATTGCCCAAGTTGTTCTTAAACCTATTAAACAGAGATG-AGT-AAGAAAGATTGATAATGTTGA--AGAGAA-AAAGAGG---CTTTTAAA--GTAAACTCCAGTGAAGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139853781 339 + 163208435 GTACATTATATACTTG-TTATGAAAACCTTTAA-CTGAAG---CTTTGCAAAATG---CTTCCAAAATAGGCTTAGATC------------ATCTAACAAATCATACATGCCAACAGAATAATGTTACTTCCTAGTTCCAAGTTTATTGTGTTACAGAACTTTAAGGATCAAATGAATATAAATGTACA-AAGACACTACAAATTTTCTACTTGGAGCATGAAGTGAATAATTTAAAAAGAAATAT--------------------------AATGGTA-ATCC-AATATTGCCCAAGGTGTTCTTAAACCTATTAAACAGAGATG-AGT-AAGAAAGATTGATGATGTTGA--AGAGAA-AGGGAGG---CTTTTAAA--GAAAACTCCAGCAAAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122842666 340 + 180051392 GTACATTATATACTTG-TTATGAAAACCTTTAA-CTGAAG---CTTTGCAAAATG---CTTCCAAAATAGGCTTAGATT------------ATCTAACAAATCATACATGCCAACAGAATAATGCTACTTCCTAGTTCCAAGTTTATTGTGTTATAGAACTTTAAGGATCAAATGAATataaatttaca-aagacgctaccaattttctacttggagcatgaactgaATAATTTAAAAAGAAATAT--------------------------AATAGTA-ATCCAAATATTGCCCAAGGTGTTCTTAAACCTATTAAACAGAGATG-AGT-AAGAAAGATTGATAACGTTGA--AGAGAA-AGGGAGG---CTTTTAAA--GTAAACTCCAGCAAAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124266285 340 + 181584905 GTACATTATATACTTG-TTATGAAAACCTTTAA-CTGAAG---CTTTGCAAAATG---CTTCCAAAATAGGCTTAGATT------------ATCTAACAAATCATACATGCCAACAGAATAATGCTACTTCCTAGTTCCAAGTTTATTGTGTTATAGAACTTTAAGGATCAAATGAATataaatttaca-aagacgctaccaattttctacttggagcatgaactgaATAATTTAAAAAGAAATAT--------------------------AATAGTA-ATCCAAATATTGCCCAAGGTGTTCTTAAACCTATTAAACAGAGATG-AGT-AAGAAAGATTGATAACGTTGA--AGAGAA-AGGGAGG---CTTTTAAA--GTAAACTCCAGCAAAGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16264652 340 +  18395747 GTACATTATATACTTG-TTATGAAAACCTTTAA-CTGAAG---CTTTGCAAAATG---CTTCCAAAATATGCTTAGATT------------ATCTAACAAATCATACATGCCAACAGAATAATGCTACTTCCTAGTTCCAAGTTTATTGTGTTATAGAACTTTAAGGATCAAATGAATATAAATTTACA-TAGACGCTACCAATTTTCTACTTGGAGCATGAACTGAATAATTTAAAAAGAAATAT--------------------------AATAGTA-ATCCAAATATTGCCCAAGGTGTTCTTAAACCTATTAAACAGAGATG-AGT-AAGAAAGATTGATAACGTTGA--AGAGAA-AGGGAGG---CTTTTAAA--GTGAACTCCAGCAAAGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5276295 339 +  26952557 GTACATTATATACTTG-TTATGAAAACCTTTAA-CTGAAG---CTTTGCAAAATG---CTTCCAAAATAGGCTTAGATC------------ATCTAACAAATCATACATGCCAACAGAATAATGCTACTTCCTAGTTCCAAGTTTATTGTGTTATAGAACTTTAAGGATCAAATGAATataaatttaca-aagacgctaccaattttctacttggagcatgaactgaATAATTTAAAAAGAAATAT--------------------------AATAGTA-ATCCAAATATTGCCCAAGGTGTTCTTAAACCTATTAAAC-GAGATG-AGT-AAGAAAGATTGATAATGTTGA--AGAGAA-AGGGAGG---CTTTTAAA--GTAAACTCCAGCAAAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28378509 340 +  82825804 GTACATTATATACTTG-TTATGAAAACCTTTAA-CTGAAG---CTTTGCAAAATG---CTTCCAAAATAGGCTTAGATC------------ATCTAACAAATCATACATGCCAACAGAATAATGCTACTTCCTAGTTCCAAGTTTATTGTGTTATAGAACTTTAAGGATCAAATGAATataaatttaca-aagacgctaccaattttctacttggagcatgaactgaATAATTTAAAAAGAAATAT--------------------------AATAGTA-ATCCAAATATTGCCCAAGGTGTTCTTAAACCTATTAAACAGAGATG-AGT-AAGAAAGATTGATAATGTTGA--AGAGAA-AGGGAGG---CTTTTAAA--GTAAACTCCAGCAAAGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4047398 340 -   4237731 GTACATTATATACTTG-TTATGAAAACCTTTAA-CTGAAG---CTTTGCAAAATG---CTTCCAAAATAGGCTTAGATC------------ATCTAACAAATCATACATGCCAACAGAATAATGCTACTTCCTAGTTCCAAGTTTATTGTGTTATAGAACTTTAAGGATCAAATGAATataaatttaca-aagacgctaccaattttctacttggagcatgaactgaATAATTTAAAAAGAAATAT--------------------------AATAGTA-ATCCAAATATTGCCCAAGGTGTTCTTAAACCTATTAAACAGAGATG-AGT-AAGAAAGATTGATAACGTTGA--AGAGAA-AGGGAGG---CTTTTAAG--GTAAACTCCAGCAAAGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      315942 340 -   1175262 GTATATTATATACTTG-TTATGAAAACCTTTAA-CTGAAG---CTTTGCAAAATG---CTTCCAAAATAGGCTTAGATC------------ATCTAACAAATCATACATGCCAACAGAATAATGCTACTTCCTAGTTCCAAGTTTATTGTGTTACAGAACTTTAAGGATCAAATGAATataaatttaca-aagacgctaccaattttctacttggagcatgaactgaATAATTTAAAAAGAAATAT--------------------------AATAGTA-ATCCAAATATTGCCCAAGGTGTTCTTAAACCTATTAAACAGAGATG-AGT-AAGAAAGATTGATAATGTTGA--AGAGAA-AGGGAGG---CTTTTAAA--GTAAACTCCAGCAAAGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123662674 363 - 204313951 GTACATTGCATACTCA-GTATGAAAACCTTTAA-CTGAAG---CTTTGCAAAATG---CTT-CAAAATAGGCTTAGATC------------ATCTAACAAATCATACATGCCAACAGAATAATGACAGTTCCTAGTTCCAAGTTTATTGTGTTATAGAACTTTAGGGATCAAATGAATAT--ATTTAC--AAGACACTACCAATTTTCTACTTGGAGCATGAACTGAATAATTTAAAAAGAAATAGTAATCCAAATAGTAATAGTAATCCAAAATAGTA-ATCCAAACATTGCCCAAGGTGTTCTTAAACCTATTAAACAGAGATG-AGT-AAGAATGATTGATGATGTTGA--AGAGAA-AGAAAGTTTACTTTTAGA--GTAAACTCCAGC--AGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55706572 339 -  71252344 GTACATTACATACTCA-GTATGAAAACCTTTAA-CTGAAG---CTTTGCAAAATG---CTT-CAAAATAGGCTTAGATC------------ATCTAACAAATCATACATGCCAACAGAATAATGATAGTTCCTAGTTCCAAGTTTATTGTGTTATAGAACTTGAGGGATCAAATGAATATAAATTTACA-AAGACACTACCAATTTTCTACTTGGAGCATGAACTGAATAATTTAAAAAGAAATAT--------------------------AATAGTA-ATCCAAATATTGCCCAAGGTGTTCTTAAACCTATTAAACAGAGATG-AGT-AAGAATGATTGATGATGTCGA--AGAGAA-AGGGAGC---CTTTTAAA--GTAAACTCCAGCAAAGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1        9566 338 -   3089952 GTACATTACATACTCA-GTATGAAAACCTTTAA-CTGAAG---CTTTGCAAAATG---CTT-CAAAATAGGCTTAGATC------------ATC-AACAAATCATACATGCCAACAGAATAATGACAGTTTCTAGTTCCAAGTTTATTGTGTTATAGAACTTTAGGGATCAAATGAATAAAAATTTACA-AAGACACTACCAATTTTCTACTTGGAGTATGAACTGAATAATTTAAAAAGAAATAT--------------------------AATGGTA-ATCCAAATATTGCCCAAGGTGTTCTTAAACCTATTAAACAGAGATG-AGT-AAGAATGATTGATGATATTAA--AGAGGA-AGGGAGT---CTTTTAAA--GTAAACTCCAGCAAAGA
i cebCap1.NW_016107590v1   C 0 I 268
s aotNan1.NW_018505940v1    13207532 337 -  42888418 GTACATTACATACTCA-GTATGAAAACCTTTAA-CTGAAG---CTTTGCAAAGTG---CTT-CAAAATGGGCTTAGATC------------ATCTAACAAATCATACATACCAACAGAATAATGATAGTTCCTAGTTCCAAGTTTATTGTGTTATACAACTTTATGGATCAAATGAATATAAATTTACA-AAGACACTACCAATTTTCTACTTGGAGCATGAACTGAATAATTTAAAAAGAAATAT--------------------------AATAGTA-ATCCAAATATTGCCCAAGGTGTTCTTAAACCTATTAAACAGAGATG-AGT-AAGAATGATTGATGATGTTGA--AGAGAA-AGGGAGC---CTTTTAAA--GTAAACTCCAAC--AGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60541146 339 + 108143057 ATACATTATATACTTT-TTATAAAAACCTTTAA-CTGAAG---CTTTGCAAAATG---CTTCCACGGCATAATTAGATC------------ATCTAACAAATCACATATTCCAGCAGAATAATGATACGTCTCCATTCCAAGTTTATTGTATGATAGAACTTTAAGAATCAAATGAATATAAATATACA-ATGATACCAAAAATTTTCTACTTTGAGTATGAACTGAATAATTTGAAAAGGAATAG--------------------------AATAGTA-ATCCAAACATTGCCCAAGGTGTTCTTAAACCTATTAACCAGGGAGA-----AAGAATGATTGATGATGTTAAAGAAAAAA-AGAGAGG---CTTTTAAA--GTAAACTGCAGAAAAGA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3583061 343 +  11683526 ATACATTATATACTTT-TTATAAAAACTTTTAA-CTGTAG---CTTTGCAAAATG---CTTCCACAGCATAATTAGATC------------ATCTAACAAATCACACATGCCAACAGAATAATGATACTTCTCCGTTCCAAGTTTATTGTATGATAGAACTTTTAGAATCAAATGAATATAAATATACA-ATCTTACTAAAAATTTTCTGCTTTGAGTATGAACTGCATAATTTGAAAAGAAACAG--------------------------AATAGTA-ATCCAAACATTGCTCAAGGTGTTCTTAAACCTATTAACCAGAGAGAGAGT-AAGAATGATTGATGATGTTGAAGAAAAAA-AGAGAGG---CTTTTAAA--GTAAACTCCAGAAGAAA
i proCoq1.NW_012155062v1   I 82 C 0
s otoGar3.GL873679           3071283 303 +   4132165 ------------CGTA-TTATAAAAACCTTTAA-CTGAAG---CTTTACAAAGTA---CTTTCAAAGCATGATTAGAT---------------------------------CAACAGCACAATGATACTTCTTAGTTCCAAGTTGGTTGTATGAGAGAACATTAAGATTAAAATGAATATTAATATATA-ACGATACTAAAATTTTTCTACTGTGAGTATGAACTGAACAATTTGAGAAGAAATAG--------------------------AACAGTA-ATC----CATTGCCTGAGAGGTTCTTGAACCTG--AAACAGAGATCGAGG-GATAATGATTGATGATGTTGAC-AAAAAA-GGGGAAG---CTTTAGAA--GTGAACCCCAGAAAGAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55517321 334 +  90702639 -----GCGCATACT-G-TTACAAAAAGCTTCAA-AGTAAGAACATAAATAAAATGACCCTTCAAGGGTAAGTTGAAAGCCTGCTTCCAGTGATTTGCCAAAACATGCGTGCTACCCAAAGGCTGGAACAGTCTACTTCAAAATTTACTGAGTTATAGAGGTTCATAATTTGGGCGGATATAGAT-------------TATATATCTTTT--TTTGAATCTGAAGTGACTAGCTGGAGAGAAATGAT--------------------------CATGACATGTCAAAACACCGCCT--GGTGTGCTTAGCCCTACTACACAGAGGGA-AATCAAGACTGGGTGATGGTGCCGA----AGAA-CAGACAG---CTTTTGAA--GTAACTTGTGGAAGA--
i mm10.chr18               C 0 C 0
s canFam3.chr11             14915910 321 +  74389097 ATATCTTAAATACCTG-TTAAAAAAACCCGTAA-CTGAAA---CATTGCAAAATG---CTTCCAAAGCATTTTTAGATC------------ATCAGGCAATTCATACATGGCAAGAGAATA-------CTTCTACCTTCAAGTTGATTGTGTTAGAGAACTTTAAGAATCAAACAAATGTACATTTACACAAGATAGTAACAATTTTCAATTTTGTATATTAACCAAATAATTCAAAAAGAAATGT--------------------------AATAGTA-ATCCAAGTATTACCAGATAAGTTCTTGAGCCCA-----------TG-----AAGAATGATTAATGATGATGA--AGA-AA-AGGAAAG---CTTTTAAAACATAAGCTCCAGAAAAGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2631779 307 +   3667625 -taaaatttataaaagtttataaaaaCCTTAAACCTGAAA---CTTTGCAAAATA---CTTTCAAAGCATTCTTAGATC------------ATCTAACAAATCATACCTGCCAACAGAATA------CTTCCTAGCTCCAAACTCTTTGTGTTACAGAACTTTAAGAATCAAATGAATATAAATTTACA-AAAATACTAACAATTTTCTACTTTGAACATGAACCAAATAATTTGGAAATAAATAT--------------------------AATAGTA-ATCCAAACATTGCCCAA------------------------------GGT-AAGAATGATTGATGATGTTGA--AGAAAATGGGGAGG---TTTTTATA--ACAATCTGTAGAAAAGA
i dasNov3.JH567306         C 0 C 0

a score=146829.000000
s hg38.chr5_KI270796v1_alt     90872 9 +    172708 GTGAAACAT
s panTro5.chr5             125194864 9 + 181907262 GTGAAACAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126531734 9 + 183735486 GTGAAACAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1723349 9 +   8933513 GTGAAACAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139854120 9 + 163208435 GTGAAACAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843006 9 + 180051392 GTGAAACGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124266625 9 + 181584905 GTGAAACAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16264992 9 +  18395747 GTGAAACAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5276634 9 +  26952557 GTGAAACAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28378849 9 +  82825804 GTGAAACAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4047738 9 -   4237731 GTGAAACAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      316282 9 -   1175262 GTGAAACAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123663037 9 - 204313951 GTGAAACAT
i calJac3.chr2             C 0 I 261
s saiBol1.JH378106          55706911 9 -  71252344 GTGAAACAT
i saiBol1.JH378106         C 0 I 262
s aotNan1.NW_018505940v1    13207869 9 -  42888418 GTGAAACAT
i aotNan1.NW_018505940v1   C 0 I 262
s micMur3.chr12             60541485 9 + 108143057 GTAGAACAT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3583404 9 +  11683526 GTAAAACAT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3071586 9 +   4132165 GTGAAACAT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55517655 9 +  90702639 GAAAAACAT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14916231 9 +  74389097 GTAATTCAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2632086 9 +   3667625 GTGAAACTT
i dasNov3.JH567306         C 0 I 285
e cebCap1.NW_016107590v1        9904 268 -   3089952 I

a score=60501.000000
s hg38.chr5_KI270796v1_alt     90881 3 +    172708 TAA
s panTro5.chr5             125194873 3 + 181907262 TAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126531743 3 + 183735486 TAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1723358 3 +   8933513 TAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139854129 3 + 163208435 TAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843015 3 + 180051392 TAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124266634 3 + 181584905 TAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265001 3 +  18395747 TAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5276643 3 +  26952557 TAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28378858 3 +  82825804 TAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4047747 3 -   4237731 TAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      316291 3 -   1175262 TAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123663307 3 - 204313951 TAA
i calJac3.chr2             I 261 C 0
s saiBol1.JH378106          55707182 3 -  71252344 TAA
i saiBol1.JH378106         I 262 C 0
s cebCap1.NW_016107590v1       10172 3 -   3089952 TAA
i cebCap1.NW_016107590v1   I 268 C 0
s aotNan1.NW_018505940v1    13208140 3 -  42888418 TAA
i aotNan1.NW_018505940v1   I 262 C 0
s micMur3.chr12             60541494 3 + 108143057 TAA
i micMur3.chr12            C 0 I 373
s proCoq1.NW_012155062v1     3583413 3 +  11683526 TAA
i proCoq1.NW_012155062v1   C 0 I 387
s otoGar3.GL873679           3071595 3 +   4132165 TAA
i otoGar3.GL873679         C 0 I 287
s mm10.chr18                55517664 3 +  90702639 CAA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14916240 3 +  74389097 TAA
i canFam3.chr11            C 0 I 295
s dasNov3.JH567306           2632380 3 +   3667625 TAA
i dasNov3.JH567306         I 285 C 0

a score=53616.000000
s hg38.chr5_KI270796v1_alt     90884 4 +    172708 TGTA
s panTro5.chr5             125194876 4 + 181907262 TGTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126531746 4 + 183735486 TGTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1723361 4 +   8933513 TGTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139854132 4 + 163208435 TGTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843018 4 + 180051392 TGTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124266637 4 + 181584905 TGTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265004 4 +  18395747 TGTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5276646 4 +  26952557 TGTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28378861 4 +  82825804 TGTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4047750 4 -   4237731 TGTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      316294 4 -   1175262 TGTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123663310 4 - 204313951 TGTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55707185 4 -  71252344 TATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       10175 4 -   3089952 TGTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13208143 4 -  42888418 TGTA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3071885 4 +   4132165 TGTG
i otoGar3.GL873679         I 287 C 0
s mm10.chr18                55517667 4 +  90702639 AATA
i mm10.chr18               C 0 I 549
s canFam3.chr11             14916538 2 +  74389097 --TA
i canFam3.chr11            I 295 I 2
s dasNov3.JH567306           2632383 4 +   3667625 TATA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60541497 373 + 108143057 I
e proCoq1.NW_012155062v1     3583416 387 +  11683526 I

a score=39253.000000
s hg38.chr5_KI270796v1_alt     90888 4 +    172708 TCGG
s panTro5.chr5             125194880 4 + 181907262 TCGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126531750 4 + 183735486 TCGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1723365 4 +   8933513 TCAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139854136 4 + 163208435 TCGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843022 4 + 180051392 TTGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124266641 4 + 181584905 TTGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265008 4 +  18395747 TTGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5276650 4 +  26952557 TTGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28378865 4 +  82825804 TTGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4047754 4 -   4237731 TTGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      316298 4 -   1175262 TTGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123663314 4 - 204313951 TTGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55707189 4 -  71252344 TCGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       10179 4 -   3089952 TCGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13208147 4 -  42888418 TCGG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3071889 4 +   4132165 TCAG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14916542 4 +  74389097 TCAA
i canFam3.chr11            I 2 C 0
s dasNov3.JH567306           2632387 4 +   3667625 TCAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60541497 373 + 108143057 I
e proCoq1.NW_012155062v1     3583416 387 +  11683526 I
e mm10.chr18                55517671 549 +  90702639 I

a score=882400.000000
s hg38.chr5_KI270796v1_alt     90892 69 +    172708 TTTGGTTGGAAGAGAT-CTGGAA-TATCAAGCAAACTCTACTTTGTAAGCT-------TA------TAT-TATATCATGATGGCA
s panTro5.chr5             125194884 69 + 181907262 TTTGGTTGGAAGAGAT-CTGGAA-TATCAAGCAAACTCTACTTTGTAAGCT-------TA------TAT-TATATCATGATGGCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126531754 69 + 183735486 TTTGGTTGGAAGAGAT-CTGGAA-TATCAAGCAAACTCTACTTTGTAAGCT-------TA------TAT-TATATCATGATGGCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1723369 69 +   8933513 TTTTGTTGGAAGAGAT-CTGGAA-TATCAAGCAAACTCTACTTTGTAAGCT-------TA------TAT-TATATCATGATGGCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139854140 69 + 163208435 TTTGGTTGGAAGAGAT-CTGGAA-TATCAAGCAAACTCTACTTTGTAAGCT-------TA------TGT-TATATCATGATGGCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843026 69 + 180051392 TTTGGTTGGAAGAGAT-CTGGAA-TATCAAACAAACTCTACTTTGTAAGCT-------TA------TAT-TATGCTATGATGGCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124266645 69 + 181584905 TTTGGTTGGAAGAGAT-CTGGAA-TATCAAACAAACTCTACTTTGTAAGCT-------TA------TAT-TATGCTATGATGGCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265012 69 +  18395747 TTTGGTTGGAAGAGAT-CTGGAA-TATCAAACAAACTCTACTTTGTAAGCT-------TA------TAT-TATGCTATGATGGCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5276654 69 +  26952557 TTTGGTTGGAAGAGAT-CTGGAA-TATCAAACAAACTCTACTTTGTAAGCT-------TA------TAT-TATGCTATGATGGCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28378869 69 +  82825804 TTTGGTTGGAAGAGAT-CTGGAA-TATCAAACAAACTCTACTTTGTAAGCT-------TA------TAT-TATGCTATGATGGCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4047758 69 -   4237731 TTTGGTTGGAAGAGAT-CTGGAA-TATCAAACAAACTCTACTTTGTAAGCT-------TA------TAT-TATGCTATGATGGCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      316302 69 -   1175262 TTTGGTTGGAAGAGAT-CTGGAA-TATCAAACAAACTCTACTTTGTAAGCT-------TA------TAT-TATGCCATGATGGCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123663318 69 - 204313951 TTTGGTTGGAAGAGAT-CTGGAA-TACCAAACAAACTCTACTTTGTAAGCT-------TA------TGT-TATGTCATGATGGCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55707193 69 -  71252344 TTTGGTTGGAAGAGAT-CTGGAA-TATCAAGCAAACTCTACTTTGTAAGCT-------TA------TGT-TATGTCATGGTGGCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       10183 69 -   3089952 TTTGGTTGGAAGAGAT-CTGGAA-TATCAAGCAAACTCTACTTTGTAAGCT-------TA------TGT-TATGTCATGATGGCA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13208151 69 -  42888418 TTTGGTTGGAAGAGAT-CTGGAA-TACCAAGCAAACTCTACTTTGTAACCT-------TA------TGT-TATGTCATGATGGCA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3071893 74 +   4132165 TGTGCTTGGAGTAGATGCAGAAA-TACCAAACAAACGCTACTTGATAAACT-AGTA--TA------CAT-TATGTTGTGAGGGTG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55518220 77 +  90702639 TTGGGTTAGAACTGAT-CTGGAACTAACAGGGAGACTCTACTTGGCAAGCCAAATAGCTT------CAT-TTGTTCATGATAATA
i mm10.chr18               I 549 C 0
s canFam3.chr11             14916546 66 +  74389097 GTTGGTTGAAATAGGT-CTAGAAATGTCAAGCAAACCCTACTTGCTAAGTG-------TA-----------ATAGCTTGATGGTA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2632391 77 +   3667625 TTTGGTTAGAATAGTT-CTAGAAATTCCAAGCAAACTCTGCTTGGGAAACT-------TAATAACCTACATGTGTCTTGATGGTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60541497 373 + 108143057 I
e proCoq1.NW_012155062v1     3583416 387 +  11683526 I

a score=83203.000000
s hg38.chr5_KI270796v1_alt     90961 5 +    172708 ACTGC
s panTro5.chr5             125194953 5 + 181907262 ACTGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126531823 5 + 183735486 ACTGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1723438 5 +   8933513 ACTGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139854209 5 + 163208435 ACTGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843095 5 + 180051392 ACTGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124266714 5 + 181584905 ACTGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265081 5 +  18395747 ACTGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5276723 5 +  26952557 ACTGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28378938 5 +  82825804 ACTGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4047827 5 -   4237731 ACTGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      316371 5 -   1175262 ACTGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123663387 5 - 204313951 ACTGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55707262 5 -  71252344 ACTGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       10252 5 -   3089952 ACTGC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13208220 5 -  42888418 ACTGC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60541870 5 + 108143057 ACTGA
i micMur3.chr12            I 373 C 0
s otoGar3.GL873679           3071967 5 +   4132165 ACTGC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55518297 5 +  90702639 ACTGA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14916612 5 +  74389097 GCCGC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2632468 5 +   3667625 ATTGC
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3583416 387 +  11683526 I

a score=2154974.000000
s hg38.chr5_KI270796v1_alt     90966 130 +    172708 AAATTATAAATCAGACAGGTTTGTATTTCCATAGGCAA-ATGGAAA-TTTTCCTTCATGAATTTGGACAGTGTGAACCAGAGTCAATTCAACCCTgtctgtgaataagtagctcagttt-attgaagcatgat
s panTro5.chr5             125194958 130 + 181907262 AAATTGTAAATCAGACAGGTTTGTATTTCCATAGGCAA-ATGGAAA-TTTTCCTTCATGAATTTGGACAGTGTGAACCAGAGTCAATTCAACCCTgtctgtgaataagtagctcagttt-attgaagcatgat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126531828 130 + 183735486 AAATTGTAAATCAGACAGGTTTGTATTTCCATAGGCAA-ATGGAAA-TTTTCCTTCATGAATTTGGACAGTGTGAACCAGAGTCAATTCAACCCTgtctgtgaataagtagctcagttt-attgaagcatgat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1723443 130 +   8933513 AAATTGTAAATCAGACAGGTTTGTATTTCCATAGGCAA-ATGGAAA-TTTTCCTTCATGAATTTGGACAGTGTGAACCAGAGTCAATTCAACCCTgtctgtgaataagtagctcagttt-attgaagcatgat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139854214 130 + 163208435 AAATTATAAATCAGACAGGTTTGTATTTCCATAGGCAC-ATGGAAA-TTTTCCTTCATGAATTTGGACAGTGTGAACCAGAGTCAGTTGAACCCTgtctgtgaataagtagctcagttt-attgaagcatgat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843100 130 + 180051392 AAATTATAAATCAGACAGGTTTGTATTTCCATAGGCAA-ATGGAAA-TTTTCCTTCATGAATTTGGACAGTGTGAACCAGAGTCAATTCAACCCTgtctgtgaataagtagctcagttt-atttaagcatgat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124266719 130 + 181584905 AAATTATAAATCAGACAGGTTTGTATTTCCATAGGCAA-ATGGAAA-TTTTCCTTCATGAATTTGGACAGTGTGAACCAGAGTCAATTCAACCCTgtctgtgaataagtagctcagttt-atttaagcatgat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265086 130 +  18395747 AAATTATAAATCAGACAGGTTTGTATTTCCATAGGCAA-ATGGAAA-TTTTCCTTCATGAATTTGGACAGTGTGAACCAGAGTCAATTCAACCCTgtctgtgaataagtagctcagttt-atttaagcatgat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5276728 130 +  26952557 AAATTATAAATCAGACAGGTTTGTATTTCCATAGGCAA-ATGGAAA-TTTTCCTTCATGAATTTGGACAGTGTGAACCAGAGTTAATTCAACCCTgtctgtgaataagtagctcagttt-atttaagcatgat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28378943 130 +  82825804 AAATTATAAATCAGACAGGTTTGTATTTCCATAGGCAA-ATGGAAA-TTTTCCTTCATGAATTTGGACAGTGTGAACCAGAGTCAATTCAACCCTgtctgtgaataagtagctcagttt-atttaagcatgat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4047832 130 -   4237731 AAATTATAAATCAGACAGGTTTGTATTTCCATAGGCAA-ATGGAAA-TTTTCCTTCATGAATTTGGACAGTGTGAACCAGAGTCAATTCAACCCTgtctgtgaataagtagctcagttt-atttaagcatgat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      316376 130 -   1175262 AAATTATAAATCAGACAGGTTTGTATTTCCATAGGCAA-ATGGAAA-TTTTCCTTCATGAATTTGGACAGTGTGAACCAGAGTCAATTCAACCCTAtctgtgaataagtagctcagttt-atttaagcatgat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123663392 130 - 204313951 GAATTATAGGTCAGACAAGTTTGCATTTCCATAGGCAA-ATGGAAA-TTTTCCTTCATGAATTTGGACAGTGTGAACCAGAGTCAATTCAACCCTgcctgtgaataagtagctcagttt-attgaagcatgat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55707267 130 -  71252344 GAATTGTAGATCAGACAAGTTTGCATTTCCATAGGCAA-ACGGAAA-TTTTCCTTCATGAATTTGGACAGTGTGAACCAGAGTCGATTCAACCCTgcctgtgaataagtagctcagttt-attgaagcatgat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       10257 130 -   3089952 GAATTATAGATCAGACAAGTTTGCATTTCCATAGGTAA-ATGGAAA-TTTTCCTTCATGAATTTGGACAGTGTGAGCCAGAGTCAATTCAACCCTgtctgtgaataagtagctcagttt-attgaagcatgat
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13208225 130 -  42888418 GAATTATAGATCAGACAAGTTTGCATTTCCATAGGCAA-ATGGAAA-TTTTCCTTCATGAATTTGGACAGTGTGAACCAGAATCGATTCAACCCTgtctgtgaataagtagctcagttt-attgaagcatgat
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60541875 131 + 108143057 AAATTACAGATCAGACAGGTTTGTATTTCCATAGGTAAAATGGAAA-TTTTCTTTTATGAATTTGAACACTGTGGACCAGCGTCAATTCAATCCTgtctgtgaatgggtagctccgttt-attgaagcatgat
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3583803 131 +  11683526 AAATTACAGATCAGACAGGTTTGCTTTTCCACAGGTAAAATGGAAA-TTTTCTTTTGTGAATTTGGACACTGTGGACTGGAGTCAATTCAATCCTgtctgtgaatgggtagctcagatt-attgaagcatgat
i proCoq1.NW_012155062v1   I 387 C 0
s otoGar3.GL873679           3071972 131 +   4132165 AAATTACAGGTTTGGGAAGTTCATGGTTCCATAGGCAACATGGAAA-TTTCCTTCTATACATTTGGATAGGGTGGACCAGAATCAATTCAATTCCATCTGTGAATGGGTAGGTCAGTTT-ATTGAGGGATGAT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55518302 105 +  90702639 -ACATATACATTAGATAGGTTTGTGTTTCTGGAGGCAA-AGGGAAAGTTTTCCTTTGTGAATGTAGACAAGGTGGACCAGGG-------------------------GAGGCTGGGTTT-ATTGAAGTATGAT
i mm10.chr18               C 0 I 271
s canFam3.chr11             14916617 131 +  74389097 AAATTATAGTTTGGATAGTCTAGTGTTTCCAAAGGCAAAATGGAAA-TAGTCTTTCATAAATCTGAA-AGTGTAGACCAGAGTCATTTCAATCCCATCTGTGAATGGGTATCTCAATTTAATTGAAGCATGAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2632473 112 +   3667625 ACATTATTGATTAGACAGACTTGTGTTTCCATAGGCAAAATAGAAA-TTTTCTTC------------------AGACCAAAGTCAATTC-ATCCTATCTGTGAAGAGGTAGCTTAGTTT-ATTGGAGCATGAT
i dasNov3.JH567306         C 0 C 0

a score=2545615.000000
s hg38.chr5_KI270796v1_alt     91096 171 +    172708 tctttagtttaagcatagagatggctactatctatgctgtgtgggtagctagcta-----gctttggtgtttttcatggtaatgggacaccccattcatgaaaagccatcctaaaattgtccacagttgttctttgcaaggaaccaacaaagaggactgtggtctgattagcataa
s panTro5.chr5             125195088 171 + 181907262 tctttagtttaagcatagagatggctactatctatgctgtgtgggtagctagcta-----gctttggtgtttttcatggtaatgggacaccccattcatgaaaagccatcctaaaattgtccacagttgttctttgcaaggaaccaacaaagaggactgtggtctgattagcataa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126531958 171 + 183735486 tctttagtttaagcatagagatggctactatctatgctgtgtgggtagctagcta-----gctttggtgtttttcatggtaatgggacaccccattcatgaaaagccatcctaaaattgtccacagttgttctttgcaaggaaccaacaaagaggactgtggtctgattagcataa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1723573 171 +   8933513 tctttagtttaagcatagagatggctactatctatgctgtgtgggtagctagcta-----gctttggtgtttttcatggtaatgggacaccccattcatgaaaagccatcctaaaattgtccacagttgttctttgcaaggaaccgacaaagaggactgtggtctgattagcataa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139854344 171 + 163208435 tctttagtttaaccatagagatggctactatctatgctgtgtgggtagctggcta-----gctttggtgtttttcatggtaatgggacaccccattcatgaacaactatcctaaaattggccacagttgttctttgcaaggaaccaacaaagaggactgtggtctgattagcataa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843230 171 + 180051392 tctttagtttaaccatagagatggctactatctatgctgtgtgggtagctagcta-----gctttggtgtttttcatggtactgggacaccccattcatgaacaaccatcctaaaattgtccacagttgttctttgcaaggaaccaacaaagaggactgtgatctgattagcataa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124266849 171 + 181584905 tctttagtttaaccatagagatggctactatctatgctgtgtgggtagctagcta-----gctttggtgtttttcatggtactgggacaccccattcatgaacaaccatcctaaaattgtccacagttgttctttgcaaggaaccaacaaagaggactgttatctgattagcataa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265216 171 +  18395747 tctttagtttaaccatagagatggctactatctatgctgtgtgggtagctagcta-----gctttggtgtttttcatggtactgggacaccccattcatgaacaaccatcctaaaattgtccacagttgttctttgcaaggaaccaacaaagaggactgtgatctgattagcataa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5276858 171 +  26952557 tctttagtttaaccatagagatggctactatctatgctgtgtgggtagctagcta-----gctttggtgtttttcatggtactgggacaccccattcatgaacaaccatcctaaaattgtccacagttgttctttgcaaggaaccaacaaagaggactgtgatctgattagcataa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28379073 167 +  82825804 tctttagtttaaccatagagatggctactatctatgctgtgtggg----tagcta-----gctttggtgtttttcatggtactgggacaccccattcatgaacaaccatcctaaaattgtccacagttgttctttgcaaggaaccaacaaagaggactgtgatctgattagcataa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4047962 171 -   4237731 tctttagttcaaccatagagatggctactatctatgctgtgtgggtagctagcta-----gctttggtgtttttcatggtactgggacaccccattcatgaacaaccatcctaaaattgtccacagttgttctttgcaaggaaccaacaaagaggactgtgatctgattagcataa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      316506 171 -   1175262 tctttagtttaaccatagagatggctactatctatgctgtgtgggtagctagcta-----gctttagtgtttttcatggtaatgggacaccccattcatgaaaaaccatcctaaaattgtccacagttgttctttgcaaggaaccaacaaagaggactgtggtctgattagcataa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123663522 171 - 204313951 tctttagtttagccatagagatggctactatctatgctgtgtgggtagctagcta-----gctttggtgtttttcatggtaatgggactccccattcatgaacaaccatcctaaaattgtccacagttgttcattgcaaggaaccaacaaagagaaatgtgggctgattagcataa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55707397 171 -  71252344 tctttagtttagccatagagatggctactatctatgctgtgtgggtagctagcta-----gctttggtgtttttcatggtaatgggactccccattcatgaacaaccatcctaaaattgtccgcagttgttctttgcaaggaaccaacaaagagaattgtgggctgattagcataa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       10387 171 -   3089952 tctttagtttagccatagtgatggctactatctatgctgtgtgggtagccagcta-----gctttggtgtttttcatggtaatggggctccccattcatgaacaaccatcctaaaattgtccacagttgttctttgcaaggaaccaacaaagagaattgtggGCTGATTTGCATAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13208355 171 -  42888418 tctttagtttagccatagagatggctactatctatgctgtgtgggtagctagcta-----gctttggtgtttttcatggtattgggactccccattcatgaacaaccatcctaaaattgtccatagttgttctttgcaaggaaccaacaaagagaattgtgggctgattagcataa
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60542006 172 + 108143057 cctttggt--agccatagagatgactactatgaatggtgtgagggtagctagcta-tatagctctggtggtttgcaca-taatggagtaccccatcccagaacaaccatcctaaaattgttcacagttgttctttgcaagaaaccaataaagagaaacgtgtgcttattagcataa
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3583934 174 +  11683526 tctttggt--agccatagagatgactactgtcaatgctgtgtgggtagctagctattatagctttggtgtttttcacagtaatggaatatcccattcctgaataaccatcctaaaattgttcacagttgttctttgcaagaaactaataaagaggattgtgtgtttattagcataa
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3072103 143 +   4132165 TCCTTGGT--AGCCATAGCGATCACTGTTACTGATGCCATGTGGGTAG-------------------------------TGATAGAATATCCCATTCGTGAAAAGCCATCCTAAAATTGTTCACAGTTGTTTTTTGCAAAAAACCAATGAAGAGAATGGTGTGTTAATTAGCATAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14916748 161 +  74389097 ------TTTCTACCATAGAGATGGCCACTACCTATATTGTGTGGGTAGCTAGCTA------CTTTGGTG-TTTTCACAGTGGTGAAATGCCCCATTCCTGAATAACCATTCTAAAACTGTCCACAGTTGTTCTTTTCCAGGAATCAAT--AGAAAATTGTGGGCTTTTCAGCATAC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2632585 159 +   3667625 TCTCTAGT--GGACACTGAGATGGTTACAG---AGGCGATGTGA-----TAGTTA-----GCACTGGTGATTTTTACAGTAACTAAATACCCCATCCCTG-ACAACTATCCTCAAATTGTTCACATTTG-TCTTTTCAAGGAACTTTAAAAGAGAAATGTGAGCTAATTAGCATAA
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55518407 271 +  90702639 I

a score=1353968.000000
s hg38.chr5_KI270796v1_alt     91267 84 +    172708 cacatctaggcttctgtctcttgagaataaaagc-atgtgccccttttagatggtgaatcagaggctttatctttgcatctaagg
s panTro5.chr5             125195259 84 + 181907262 cacatctaggcttctgtctcttgagaataaaagc-atgtgccccttttagatggtgaatcagaggctttatctttgcatctaagg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126532129 84 + 183735486 cacatctaggcttctgtctcttgagaataaaagc-atgtgccccttttagatggtgaatcagaggctttatctttgcatctaagg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1723744 84 +   8933513 cacatctaggcttctgtctcttgagaataaaagc-atgtgccccttttagatggtgaatcagaggctttatctttgcatctaagg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139854515 84 + 163208435 cacatccaggcttctgtctcttgagaataaaagc-atgtgccccttttagatggtgaatcagaggctttatgtttgcatctaagg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843401 84 + 180051392 cacatctaggcttctgtctcttgagaataaaagc-atgtgcccctattagatggtgaatctgaggctttatctttgcatccaagg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124267020 84 + 181584905 cacatctaggcttctgtctcttgagaataaaagc-atgtgcccctattagatggtgaatctgaggctttatctttgcatccaagg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265387 84 +  18395747 cacatctaggcttctgtctcttgagaataaaagc-atgtgcccctattagatggtgaatctgaggctttatctttgcatccaagg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5277029 84 +  26952557 cacatctaggcttctgtctcttgagaataaaagc-atgtgcccctattagatggtgaatctgaggctttatctttgcatccaagg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28379240 84 +  82825804 cacatctaggcttctgtctcttgagaataaaagc-atgtgcccctattagatggtgaatctgaggctttatctttgcatccaagg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4048133 84 -   4237731 cacatctaggcttctgtctcttgagaataaaagc-atgtgcctctattagatggtgaatctgaggctttatctttgcatccaagg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      316677 84 -   1175262 cacatctaggcttctgtctcttgagaataaaagc-atgtgcccctattagatggtgaatctgaggctttatctttgcatccaagg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123663693 84 - 204313951 CACATCTAGGCTTCTGTCTCTTAAGAATAAAAGC-ATGTTCCCCTTTTAGATGGTGAATTTGAGGCTTTATCTTTGCATCTAAGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55707568 84 -  71252344 CACATCTAGGCTTCTGTCTCTTGAGAATAAAAGC-ATGTTCCCCTTTTAGATGGTGAATTTGAGGCTTTATCTTTGCATCTAAAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       10558 84 -   3089952 CACATCTAGGCTTCTGTCTCTTGAGAATAAAAGC-GTGTTCCCCTTTTAAATGGTGAATTTGAGGCTTTATCTTTGCATCTAAGG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13208526 84 -  42888418 cacatctaggcttctgtctcttgagaataaaagc-atgttccccttttagatggtgaatttgaggctttatctttgcatctaagg
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60542178 82 + 108143057 cacggctaggcttctgtctcttgagaataaaaac-atgtgccctaat--gatggtgaatttgaagctttatctttgcatctaagg
i micMur3.chr12            C 0 I 145
s proCoq1.NW_012155062v1     3584108 82 +  11683526 catggctaggcttctgtctcttgagaataaaaac-atgtgccctaat--gatggtgaatttgaagctttatcttcacatgtaagg
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3072246 82 +   4132165 CACGTCTAGTCTTCTGTCTCTTGAGGATAAGAAC-ATGCACCATAAT--GATCGTGAACCTGAGGCTTTAACTTTGCATCTACAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55518678 76 +  90702639 CACATGCAGGTTT-----TATGGAGAATAAAAGC-ATGCATCCCAGT--GAAAGTACAT-TGAAGCTTTCTCTTTGCATCTAAAA
i mm10.chr18               I 271 C 0
s canFam3.chr11             14916909 83 +  74389097 TAAACCTAGGCTTCTGTCCCTTGAGACTAAAAGCAATGTGCGGTAAT--GAGGGTAGATTTCAGGCTTTATCTTTACATCTAAAG
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2632744 77 +   3667625 -----CCCATTTTCTGTCACTTGAGAATAAAAAC-ATGTGTTCTAAT--GATGGTGGATTTGAGACTCTATCTTTTCACATAACA
i dasNov3.JH567306         C 0 C 0

a score=1106254.000000
s hg38.chr5_KI270796v1_alt     91351  87 +    172708 -gatggtaATAGT-GAATATTAT---T---------ATTATA-CATGGAAATCATTG-G--A----TTTTGTCTCTCTTGCTTAGATTTTTATTTGGA-----TAA-TAT-ATTGA-----
s panTro5.chr5             125195343  87 + 181907262 -gatggtaATAGT-GAATATTAT---T---------ATTATA-CATGGAAATCATTG-G--A----TTTTGTCTCTCTTGCTTAGATTTTTATTTGGA-----TAA-TAT-ATTGA-----
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126532213  87 + 183735486 -gatggtaATAGT-GAATATTAT---T---------ATTATA-CATGGAAATCATTG-G--A----TTTTGTCTCTCTTGCTTAGATTTTTATTTGGA-----TAA-TAT-ATTGA-----
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1723828  87 +   8933513 -gatggtaATAGT-GAATATTAT---T---------ATTATA-CATGGAAATCGTTG-G--A----TTTTGTCTCTCTTGCTTAGATTTTTATTTGGA-----TAA-TAT-ATTGA-----
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139854599  87 + 163208435 -gacggtaATAGT-GAATATTAC---T---------ATTATA-CATGGAAATCATTG-G--A----TTTTGTCTCTCTTGCTTAGATTTTTATTTGGA-----TAA-TAT-ATTGA-----
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843485  87 + 180051392 -gatggtaATAGT-AAATATTAT---T---------ATTATT-CATGGAAATCATTG-G--A----TTTTGTTTCTCTTGCTTAGATTTTTATTTGGA-----TAA-TAC-ATTGA-----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124267104  87 + 181584905 -gatggtaATAGT-AAATATTAT---T---------ATTATT-CATGGAAATCATTG-G--A----TTTTGTTTCTCTTGCTTAGATTTTTATTTGGA-----TAA-TAC-ATTGA-----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265471  87 +  18395747 -gatggtaATAGT-AAATATTAT---T---------ATTATT-CATGGAAATCATTG-G--A----TTTTGTTTCTCTTGCTTAGATTTTTATTTGGA-----TAA-TAC-ATTGA-----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5277113  87 +  26952557 -gatggtaATAGT-AAATATTAT---T---------ATTATT-CATGGAAATCATTG-G--A----TTTTGTTTCTCTTGCTTAGATTTTTATTTGGA-----TAA-TAT-ATTGA-----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28379324  87 +  82825804 -gatggtaATAGT-AAATATTAT---T---------GTTATT-CATGGAAATCATTG-G--A----TTTTGTTTCTCTTGCTTAGATTTTTATTTGGA-----TAA-TAT-ATTGA-----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4048217  87 -   4237731 -gatggtaATAGT-AAATATTAT---T---------ATTATT-CATGGAAATCATTG-G--A----TTTTGTTTCTCTTGCTTAGATTTTTATTTGGA-----TAA-TAA-ATTGA-----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      316761  87 -   1175262 -gatggtaATAGT-AAATATTAT---T---------ATTATA-CATGGAAATCATTG-G--A----TTTTGTTTCTCTTGCTTAGATTTTTATTTGGA-----TAA-TAT-ATTGA-----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123663777  87 - 204313951 -GATGGTAATAGT-GAATATTAT---T---------ATTATA-TATGAAAATCATTG-G--A----TTTTGTTTCTCCTGCTTAGATTTTTATTTGGA-----TAA-TAT-GTTAA-----
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55707652  87 -  71252344 -GATGGTAATAGT-GAATATTAT---T---------ATTATA-CATGGAAATCATTG-G--A----TTTTGTTTCTCCTGCTTAGATTTTTACTTGGA-----TAA-TAT-GTTAA-----
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       10642  87 -   3089952 -GATGGTAATAGT-GAATATTAT---T---------ATTATA-CATGGAAATCATTG-G--A----TTTTGTTTCTCCTGCTTAGATTTTTATTTGGA-----TAA-TAT-GTTAA-----
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13208610  85 -  42888418 -gatggtaATAGT-GAATATTAT---T---------ATTATA-CATGGAAATCATTGCG--A----TTTTGTTTCTCCTGCTTAGATTTTTATTTGGA-----TAA-TAT-GT--------
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3584190 103 +  11683526 -catagTGATAGTGGAAAATTAT---TAATATCAATATCATA-TGTGGAAATCATTA-GAGA----TTTTGTATCTGGTGTTTATATTCTTATTTGGTTTGGATAA-TAT-ATTG------
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3072328  77 +   4132165 -CACAGT-------AGAAATTAT---T------GGCATTATA-CATGGAAATCA-------G----TTTTTTATCT--TGTTTTGATTCTTATGTGGC-----TAA-TAT-ATTG------
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55518754  87 +  90702639 -GGCAGGGGTGGT-GAAAATTCT---T---------AACGTTGCATGAAA--CATTT-G--A----ATTTGCTACTCACGTTTAGATTTTTAATTAAA-----AAACTATCATTG------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14916993  92 +  74389097 -GATAATGATAGT-AAACATTATGAAT---------ATTGTT-CATGGAAATCATTG-GAGA----TTTTGTTTCTCATGTTTAGATCCTTATTTGGG-----TAA-TAT-ATTGG-----
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2632821 100 +   3667625 GAAGGATGATAGT-GAAAATTAT---T------AGTATCATA-AATGATAATCATTG-G--AGATTTTCTGCTTCTTATGTTGTTATCCTTATTTGGA-----CAA-TAT-ACCACTTTGG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60542260 145 + 108143057 I

a score=222939.000000
s hg38.chr5_KI270796v1_alt     91438 13 +    172708 GGGTAAAGTACCC
s panTro5.chr5             125195430 13 + 181907262 GGGTAAAGTACCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126532300 13 + 183735486 GGGTAAAGTACCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1723915 13 +   8933513 GGGTAAAGTACCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139854686 13 + 163208435 GGGTAAAGTACCC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843572 13 + 180051392 GGGTAAAGTACCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124267191 13 + 181584905 GGGTAAAGTACCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265558 13 +  18395747 GGGTAAAGTACCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5277200 13 +  26952557 GGGTAAAGTACCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28379411 13 +  82825804 GGATAAAGTACCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4048304 13 -   4237731 GGGTAAAGTACCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      316848 13 -   1175262 GGGTAAAGTACCC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123663864 13 - 204313951 GGGTAAAGTACCC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55707739 13 -  71252344 GGGTAAAGTACCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       10729 13 -   3089952 GGGTAAAGTACCC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13208695 10 -  42888418 ---TAAAGTACCC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60542405 13 + 108143057 GGGTAAGGTACCC
i micMur3.chr12            I 145 C 0
s proCoq1.NW_012155062v1     3584293 13 +  11683526 GGGTAAGGTGCCC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3072405 13 +   4132165 GGGCAAGGTTCTC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55518841 13 +  90702639 ACATAAAGAACCC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14917085 13 +  74389097 GGGTGAGATACTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2632921 13 +   3667625 GGGGAAAGTACCC
i dasNov3.JH567306         C 0 C 0

a score=902220.000000
s hg38.chr5_KI270796v1_alt     91451 62 +    172708 TGAAGCAAAGAAGAATGTCTGTT-CCTGCTCCCCAGCC------AAAGGGTGGTAAAG----------AGAAGGGCTTC-
s panTro5.chr5             125195443 62 + 181907262 TGAAGCAAAGAAGAATGTCTGTT-CCTGCTCCCCAGCC------AAAGGGTGGTAAAG----------AGAAGGGCTTC-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126532313 62 + 183735486 TGAAGCAAAGAAGAATGTCTGTT-CCTGCTCCCCAGCC------AAAGGGTGGTAAAG----------AGAAGGGCTTC-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1723928 62 +   8933513 TGAAGCAAAGAAGAATGTCTGTT-CCTGCTCCCCAGCC------AAAGGGTGGTAAAG----------AGAAGGGCTTC-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139854699 62 + 163208435 TGAAGCAAAGAAGAATGTCTATT-CCTGCTCCCCAGCC------AAAGAGTGGTAAAG----------AGAAGGGCTTC-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843585 62 + 180051392 TGAAGCAAAGAAGAATGTCTGTT-CCTGCTCCCCAGCC------AAAGGGTGGTAAAG----------AGAAGGGCTTC-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124267204 62 + 181584905 TGAAGCAAAGAAGAATGTCTGTT-CCTGCTCCCCAGCC------AAAGGGTGGTAAAG----------AGAAGGGCTTC-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265571 62 +  18395747 TGAAGCAAAGAAGAATGTCTGTT-CCTGCTCCCCAGCC------AAAGGGTGGTAAAG----------AGAAGGGCTTC-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5277213 62 +  26952557 TGAAGCAAAGAAGAATGTCTGTT-CCTGCTCCCCAGCC------AAAGGGTGGTAAAG----------AGAAGGGCTTC-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28379424 62 +  82825804 TGAAGCAAAGAAGAATGTCTGTT-CCTGCTCCCCAGCC------AAAGGGTGGTAAAG----------AGAAGGGCTTC-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4048317 62 -   4237731 TGAAGCAAAGAAGAATGTCTGTT-CCTGCTCCCCAGCC------AAAGGGTGGTAAAG----------AGAAGGGCTTC-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      316861 62 -   1175262 TGAAGCAAAGAAGAACGTCTGTT-CCTGCTCCCCAGCC------AAAGGGTGGTAAAG----------AGAAGGGCTTC-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123663877 62 - 204313951 TAAAGCAGAGAAGAATGTGTGTT-TCTGCTCTTCAGCC------AAAGGGTGGTAAAG----------AGAAGGGCTTC-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55707752 62 -  71252344 TAAAGCAAAGAAGAATGTGTGTT-TCTGCTCTCCAGTC------AAAGGCTGGTAAAG----------AGAAGGGCTTC-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       10742 62 -   3089952 TAAAGCGAAGAAGAATGTGTGTT-TCTGCTCTCCAGCC------AAAGGGTGGTAAAG----------AGAAGGGCTTC-
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13208705 62 -  42888418 TAAAGCAAAGAAGAATGTGTGTT-TCCGCTCTTCAGCC------AAAGGGTGGTAAAG----------AGAAAGGCTTC-
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60542418 63 + 108143057 GAAAACAAGGAAGAATGTGTGTTCCCTGCATCCCAGCC------AAAGGATGGTAGAA----------AGAAGGGCTTC-
i micMur3.chr12            C 0 I 133
s proCoq1.NW_012155062v1     3584306 63 +  11683526 TAAAGCAAAGAAGAATGTATGTTCCCTGCACCCCAGCC------AAGAGGTGGTAGAG----------AGAAGGGCTTC-
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3072418 63 +   4132165 GAAAGCAAAGAAGAACATATGTTCCCTGCATCCCAGCC------AAAGTATGGTAAAG----------AGAAGAACTTC-
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14917098 58 +  74389097 TAAAGCAAAAAAGA---TATATT-TCTTCCCCGTAGGC------AAAG-ATAGTAGAG----------AGGAAAGCTTT-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2632934 80 +   3667625 TCAAGTGAAGAAGATTGTGTATTCCCTCCTTCCAAGGCTCTTGAAAAAGAAAACAACAACAACAATGTAGAGTGGATCCC
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55518854  0 +  90702639 C

a score=639054.000000
s hg38.chr5_KI270796v1_alt     91513 53 +    172708 CAGATCTGAAATACAAATAAC-TAGAAAATTGCAGTTTCCCTTGGGACTGGGGG
s panTro5.chr5             125195505 53 + 181907262 CAGATCTGAAATACAAATAAC-TAGAAAATTGCAGTTTCTCTTGGGACTGGGGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126532375 53 + 183735486 CAGATCTGAAATACAAATAAC-TAGAAAATTGCAGTTTCTCTTGGGACTGGGGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1723990 53 +   8933513 CAGATCTGAAATACAAATAAC-TAGAAAATTGCAGTTTCCCTTGGGACTGGGGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139854761 53 + 163208435 CAGATCTGCAATACAAATAAC-TAGCACATTGCAGTTTCCCTTGGGACTGGGGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843647 53 + 180051392 CAGATCTGCAATAGAAATAAC-TAGAAAATTGCAGTTTCCGTTGGGACTGGGGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124267266 53 + 181584905 CAGATCTGCAATAGAAATAAC-TAGAAAATTGCAGTTTCCCTTGGGACTGGGGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265633 53 +  18395747 CAGATCTGCAATAGAAATAAC-TAGAAAATTGCAGTTTCCCTTGGGACTGGGGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5277275 53 +  26952557 CAGATCTGCAATAGAAATAAC-TAGAAAATTGCAGTTTCCCTTGGGACTGGGGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28379486 53 +  82825804 TAGATCTGCAATAGAAATAAC-TAGAAAATTGCAGTTTCCCTTGGGACTGGGGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4048379 53 -   4237731 CAGATCTGCAATAGAAATAAC-TAGAAAATTGCAGTTTCCCTTGGGACTGGGGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      316923 53 -   1175262 CAGATCTGCAATAGAAATAAC-TAGAAAATTGCAGTTTCCCTTGGGACTGGGGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123663939 53 - 204313951 TGGACCTGCAATAGAAATAACGTAGAAAATTGCAGTTTCCC-CGGGAATGGGGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55707814 52 -  71252344 TGGACCTGCAATAGAAATAAC--AGAAAATTGCAGTTTCCCTTGGGACTGGGGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       10804 54 -   3089952 TGGACCTGCAATAGAAATAACATAGAAAATTGCAGTTTCCCTTGGGACTGGGGG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13208767 54 -  42888418 TGGACCTGCAATAGAAATAACGTAGAAAATTGCAGTTTCTCCTGGGACTGGGGG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3584369 54 +  11683526 AAGGCCTGCAACAGAAATTACGTAGCAAGTAGCAGTTTCCCTTGGGATTGGGGG
i proCoq1.NW_012155062v1   C 0 I 84
s otoGar3.GL873679           3072481 54 +   4132165 AAAGCCTGCAATAGAATTTATGTAGCAAATAGCAGGTTCCCCGGAGGCCTGGGG
i otoGar3.GL873679         C 0 I 2
s canFam3.chr11             14917156 54 +  74389097 ATGGACTGCAACCAAATTAAGGTAGATAATTACAGCTTTATCTGGGATTGTGTA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2633014 51 +   3667625 AAGGCCTGCAACCAAAATAATGTAGACAA---CAGTTTCACCTGGGATTGACTG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60542481 133 + 108143057 I
e mm10.chr18                55518854  0 +  90702639 C

a score=1015388.000000
s hg38.chr5_KI270796v1_alt     91566 84 +    172708 TGGTGATTAG-----CCCATGAGACTAGTAACAAGAAGATGGCAAAAGAGAAAAATGCCCTGCTTGGGAGTGG--TTTTGTTTTTTGTTTG
s panTro5.chr5             125195558 84 + 181907262 TGGTGATTAG-----CCCATGAGACTAGTAACAAGAAGAAGGCAAAAGAGAAAAATGCCTTGCTTGGGAGTGG--TTTTGTTTTTTGTTTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126532428 84 + 183735486 TGGTGATTAG-----CCCATGAGACTAGTAACAAGAAGAAGGCAAAAGAGAAAAATGCCTTGCTTGGGAGTGG--TTTTGTTTTTTGTTTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724043 84 +   8933513 TGGTGATTAG-----CCCATGAGACTAGTAACAAGAAGACGGCAAAAGAGAAAAATGCCCTGCTTGGGAGTGG--TTTTGTTTTTTGTTTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139854814 84 + 163208435 TGGTGATTAG-----CCCATGAGACTAGTAACAAGAAGAAGGGGAAAGAGAAAAATGCCCTGCTTGGGAGTGG--TTTTGTTTTTTGTTTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843700 84 + 180051392 TGGTGATTAG-----CCCGTGAGACTAGTAACAAGAGGAAGGCAGAAGAGAAAAATGCCCTGCTTGGGAGTGG--TTTTGTTTTTTGTTTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124267319 84 + 181584905 TGGTGATTAG-----CCCGTGAGACTAGTAACAAGAGGAAGGCAGAAGAGAAAAATGCCCTGCTTGGGAGTGG--TTTTGTTTTTTGTTTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265686 84 +  18395747 TGGTGATTAG-----CCCGTGAGACTAGTAACAAGAGGAAGGCAGAAGAGAAAAATGCCCTGCTTGGGAGTGG--TTTTGTTTTTTGTTTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5277328 84 +  26952557 TGGTGATTAG-----CCCGTGAGACTAGTAACAAGAGGAAGGCAGAAGAGAAAAATGCCCTGCTTGGGAGTGG--TTTTGTTTTTTGTTTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28379539 84 +  82825804 TGGTGATTAG-----CCCATGAGACTAGTAACAAGAGGAAGGCAGAAGAGAAAAATGCCCTGCTTGGAAGTGG--TTTTGTTTTTTGTTTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4048432 84 -   4237731 TGGTGATTAG-----CCCGTGAGACTAGTAACAAGAGGAAGGCAGAAGAGAAAAATGCCTTGCTTGGGAGTGG--TTTTGTTTTTTGTTTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      316976 84 -   1175262 TGGTGATTAG-----CCCATGAGACTGGTAACAAGAGGAAGACAGAAGAGAAAAATGCCCTGCTTGGGAGTGG--TTTTGTTTTTTGTTTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123663992 83 - 204313951 TGGTGAGTAG-----CCCATGAGACTAGTAGGAAGAGGAAGGTGGAAGAGAAATATGCCCTGCTTGGGAGTGG--TTTT-CTCTTTGTTTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55707866 81 -  71252344 TGGTGATTAG-----CCCGTGAGACCAGT---AACAGGAAGGCAGAAGACAAAAATGCCCTGCTTGGGAGTGG--TTTTGTTTTTTGTTTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       10858 81 -   3089952 TGGTGATTAG-----CCCCTGAGACTAGT---AACAGGAAGGCAGAAGAGAATAATGCCCTGCTTGGGAGTGG--TTTTGTTTTTTGTTTG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13208821 84 -  42888418 TGGTGATTAG-----CCCATGACACTAGTAACAAGAGGAAGGCGGAAGAGAAAAATGCCCTGCTTGGGAATGG--TTTTGTTTTTTGTTTG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3072537 83 +   4132165 TGTTGACGGGTGTTATGCACGTGACTAGCAACAAGAGAAAGGGCGAAGAGAAAAATGCGCTGCCTGGGAGTGT--TTTTGGTTTA------
i otoGar3.GL873679         I 2 C 0
s canFam3.chr11             14917210 86 +  74389097 TGCTGATGAG-----TACATGTGACCACTAACAAAAGAAAGGCTAAAGAGAAAAATGACCTTCCTGGGAGCGGGTTTTTTTTGTTTGTTTG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2633065 83 +   3667625 TGATGACTGC-----TAGAAGTGACTAGTAACAAAAGAAGGCCTGAAGTAAAAAATGCCCTGC-TGGGAGTGG--TTTTTTCTTTTATTTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60542481 133 + 108143057 I
e proCoq1.NW_012155062v1     3584423 84 +  11683526 I
e mm10.chr18                55518854  0 +  90702639 C

a score=44505.000000
s hg38.chr5_KI270796v1_alt     91650 3 +    172708 Ttt
s panTro5.chr5             125195642 3 + 181907262 TTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126532512 3 + 183735486 Ttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724127 3 +   8933513 Ttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139854898 3 + 163208435 TTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843784 3 + 180051392 TTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124267403 3 + 181584905 TTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265770 3 +  18395747 TTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5277412 3 +  26952557 TTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28379623 3 +  82825804 TTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4048516 3 -   4237731 TTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317060 3 -   1175262 TTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664075 3 - 204313951 TTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55707947 3 -  71252344 TTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       10939 3 -   3089952 TTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13208905 3 -  42888418 TTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60542614 3 + 108143057 TTT
i micMur3.chr12            I 133 C 0
s otoGar3.GL873679           3072620 3 +   4132165 TTT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14917296 2 +  74389097 -TT
i canFam3.chr11            C 0 I 1
e proCoq1.NW_012155062v1     3584423 84 +  11683526 I
e dasNov3.JH567306           2633148 0 +   3667625 C
e mm10.chr18                55518854 0 +  90702639 C

a score=1023058.000000
s hg38.chr5_KI270796v1_alt     91653 72 +    172708 aattaattcatttattaatgtaaCTGCAGTATAGGA-----A-AT-AAAGAGCT-A-TTTCCTTTGCTAAGAT----TAAAAGTT
s panTro5.chr5             125195645 72 + 181907262 AATTCATTCATTTATTAATGTAACTGCAGTATAGGA-----A-AT-AAAGAGCT-A-TTTCCTTTGTTAAGAT----TAAAAGTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126532515 72 + 183735486 aattaattcatttattaatgtaaCTGCAGTATAGGA-----A-AT-ATAGAGCT-A-TTTCCTTTGTTAAGAT----TAAAAGTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724130 74 +   8933513 aattaattcatttattaatgtaaCTGCAGTATAGGA-----A-AT-AAAGAGCT-A-TTTCCTTTGCTAGGAT--AGGGGAAGTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139854901 72 + 163208435 TATTAATTCATTTATTAATGTAACTGCAGTATAGGA-----A-AT-AAAGAGCT-A-TTTCCTTTGCTAAGAT----TAAAAGTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843787 72 + 180051392 TATTAATTAATTTACTAATGTAACTGCAGTATAGGA-----A-AT-AAAGAGCT-A-TTTCCTTTGCTAAGAT----TAAAAGTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124267406 72 + 181584905 TATTAATTAATTTACTAATGTAACTGCAGTATAGGA-----A-AT-AAAGAGCT-A-TTTCCTTTGCTAAGAT----TAAAAGTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265773 72 +  18395747 TATTAATTAATTTACTAATGTAACTGCAGTATAGGA-----A-AT-AAAGAGCT-A-TTTCCTTTGCTAAGAT----TAAAAGTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5277415 72 +  26952557 TATTAATTCATTTACTAATGTAACTGCAGTATAGGA-----A-AT-AAACAGCT-A-TTTCCTTTGCTAAGAT----TAAAAGTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28379626 72 +  82825804 TATTAATTCATTTACTAATGTAACTGCAGTATAGGA-----A-AT-AAAGAGCT-G-TTTCCTTTGCTAAGAT----TAAAAGTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4048519 72 -   4237731 TATTAATTCATTTACTAATGTAACTGCAGTATAGGA-----A-AT-AAACAGCT-A-CTTCCTTTGCTAAGAT----TAAAAGTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317063 72 -   1175262 TATTAATTCATTTACTAATGTAACTGCAGTATAGGA-----A-AT-AAAGAGCT-A-TTTCCTTTGCTAAGAT----TAAAAGTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664078 72 - 204313951 TATTAATTCATTTACTAATGTAACTTGAGTATAGGA-----A-AT-AAAGAGCT-A-TTTGCTTTGCTAAGAT----GAAAGGTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55707950 72 -  71252344 TATTAATTCATTTACTAATGTAACTGCAGTACAGGA-----A-AT-AAAGAGCT-A-TTTGCTTTGTTAAGAT----TAAAAGTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       10942 72 -   3089952 TATTAATTCATTTACTAATGTAACTGCAGTTTAGGA-----A-AT-ACAGAGCT-A-TTTGCTTTGTTAAGAT----TAAAAGTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13208908 72 -  42888418 TATAAATTCATTTACTAATGTAACTGTAGTATAGGA-----A-AT-AAAGAGCT-A-TTTGCTTTGTTAAGAT----TGAAAGTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60542617 72 + 108143057 AATTAACTCATTTACTAAAATAGCTGCTGTATAAGA-----G-AA-AAATAGCT-A-TTTCCTTTGCTAAGAT----TAAAAGTT
i micMur3.chr12            C 0 I 89
s proCoq1.NW_012155062v1     3584507 73 +  11683526 AATTAACTCATTTACTAAAATAGCTGCTGTATAAGA-----GAAA-AAATAGTT-A-TTTCCTTTGCTAAGGT----TAGAAGTT
i proCoq1.NW_012155062v1   I 84 C 0
s otoGar3.GL873679           3072623 73 +   4132165 -ATTAAGTCATTTGCTAAAATAGCTGCAGTATAGGA-----GAAATAAACGGCT-A-TTTCCTTCACTAAGAT----GAAAAGTT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14917299 78 +  74389097 TATTCAATCATTTAGTAAAATAATCACAATATAGGAGGGGGA-AA-AAAGTGCT-GTTTTTCTCTGTTAAGAT----GAAAAGTT
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2633148 76 +   3667625 -ATTCATTCATTTATTAAAATAGCCACAGTGTAGGA-----G-AA-AAAAGCCTCA-TTTCTTCTGTCAAGATTAATTAAAAGTT
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55518854  0 +  90702639 C

a score=564143.000000
s hg38.chr5_KI270796v1_alt     91725 50 +    172708 TTAAATGAAAACTCTGCAGC-----CATCTAAGAAAGTAAAAGGAGGG---------------GAGTAAG
s panTro5.chr5             125195717 50 + 181907262 TTAAATGAAAACTCTGCAGC-----CATCTAAGAAAGTAAAAGGAGGG---------------GAGTAAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126532587 50 + 183735486 TTAAATGAAAACTCTGCAGC-----CATCTAAGAAAGTAAAAGGAGGG---------------GAGTAAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724204 50 +   8933513 TTAAATGAAAACTCTGCAGC-----CATCTAAGCAAGTAAAAGGAGGG---------------GAGTAAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139854973 50 + 163208435 TTAAATGAAAACTCTGCAGC-----CATCTAAGAAAGTAAAAGGAGGG---------------GAGTAAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843859 50 + 180051392 TTAAATGAAAACTCTACAGC-----CATCTAAGAAAGGAAAAGGAGGG---------------GAGTAAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124267478 50 + 181584905 TTAAATGAAAACTCTACAGC-----CATCTAAGAAAGGAAAAGGAGGG---------------GAGTAAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265845 50 +  18395747 TTAAATGAAAACTCTACAGC-----CATCTAAGAAAGGAAAAGGAGGG---------------GAGTAAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5277487 50 +  26952557 TTAAATGAAAACTCTGCAGC-----CATCTAAGAAAGGAAAAGGAGGG---------------GAGTAAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28379698 50 +  82825804 TTAAATGAAAACTCTGCAGC-----CATCTAAGAAAGGAAAAGGAGGG---------------GAGTAAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4048591 50 -   4237731 TTAAATGAAAACTCTGCAGC-----CATCTAAGAAAGGAAAAAGAGGG---------------GAGTAAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317135 50 -   1175262 TTAAATGAAAACTCTGCAGC-----CGTCTAAGAAAGGAAAAGGAGGG---------------GAGTAAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664150 65 - 204313951 TTAAATGAAAACACTGCAGC-----CACCTAAGAAAGTAAAAGCAGAGAAGGTAAAAGCAGGGGAACAAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708022 65 -  71252344 TTAAATGAAAACACTGCAGC-----CACCTAAGAAAGTAAAAGCAGAGAAGGTAAAAGCAGCGGAACAAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11014 65 -   3089952 TTCAATGAAAACACTGCAGC-----CACCTAAGAAAGTAAAAGCAGAGAAGGTAAAAGCAGCGGAACAAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13208980 65 -  42888418 TTAAATGAAAACACTGCAGC-----CACCTAAGAAAGTAAAAGCAGAGAAGGTAAAAGCAGGAGAACAAG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3584580 36 +  11683526 ----AT----------CAGC-----TATCTAAGAAAGCAAAGGAAGGG---------------CAGCAAG
i proCoq1.NW_012155062v1   C 0 I 101
s otoGar3.GL873679           3072696 41 +   4132165 ----AT----------CAGCTACAGTATCTAAGAAAGTGAAGGAAGGG---------------TAGCAAG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14917377 50 +  74389097 TTGAAAGGGAACACTGAAGC-----TATCTAAGAAACTGAGGGAAGTG---------------CAGCAAG
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2633224 50 +   3667625 CTGAATGCAAATACTGAAAC-----TATCTAAGAAACTATGAGAAGGG---------------CATCAAG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60542689 89 + 108143057 I
e mm10.chr18                55518854  0 +  90702639 C

a score=602994.000000
s hg38.chr5_KI270796v1_alt     91775 65 +    172708 ---AAATGACCA--CCAC--AT-GGCCAT--CTAAGGCA-CCAGGAGAGTTTTCTATGTCAGCAGGTAGAAGAAAG
s panTro5.chr5             125195767 65 + 181907262 ---AAATGACCA--CCAC--AT-GGCCAT--CTAAGGCA-CCAGGAGAGTTTTCTATGTCAGCAGGTAGAAGAAAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126532637 65 + 183735486 ---AAATGACCA--CCAC--AT-GGCCAT--CTAAGGCA-CCAGGAGAGTTTTCTATGTCAGCAGGTAGAAGAAAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724254 65 +   8933513 ---AAATGACCA--CCCC--AT-GGCCAT--CTAAGGCA-CCAGGAGAGTTTTCTATGTCAGCAGGTAGAAGAAAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855023 63 + 163208435 ---AAATGACCA--CCACA-AT-GGCCAT--CTAAGGCA-CC---AGAGTTTTCTATGTCAGCAGGTAGAAGAAAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843909 64 + 180051392 ---AAATGACCA--CCAC--AT-GGCCAT--CTAA-GCA-CCAGGAGAGTTTTCTATGTCAGCAGTTAGAAGAAAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124267528 64 + 181584905 ---AAATGACCA--CCAC--AT-GGCCAT--CTAA-GCA-CCAGGAGAGTTTTCTATGTCAGCAGTTAGAAGAAAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265895 64 +  18395747 ---AAATGACCA--CCAC--AT-GGCCAT--CTAA-GCA-CCAGGAGAGTTTTCTATGTCAGCAGTTAGAAGAAAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5277537 64 +  26952557 ---AAATGACCA--CCAC--AT-GGCCAT--CTAA-GCA-CCAGGAGAGTTTTCTATGTCAGCAGTTAGAAGAAAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28379748 64 +  82825804 ---AAATGACCA--CCAC--AT-GGCCAT--CTAA-GCA-CCAGGAGAGTTTTCTATGTCAGCAGTTAGAAGAAAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4048641 64 -   4237731 ---AAATGACCA--CCAC--AT-GGCCAT--CTAA-GTA-CCAGGAGAGTTTTCTATGTCAGCAGTTAGAAGAAAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317185 63 -   1175262 ---AAATGACCA--CCAC--AT-GGCCAT--CTAA-GCA-CCAGGAGAGTTTTCTATGTCAGCAGTTAGAAGAAA-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664215 62 - 204313951 ---AGATGA-----CCAC--AA-GGCCAC--GTAAGGTA-CCGGGAGAGTTTTCTACGTCAGCAGGTAGAAGAAAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708087 63 -  71252344 ---AAATGA-----CCAC--AA-GGCCAT--GTAAGGCACCCGGGAGAGTTTTCTATGTCAGCAGGTAGAAGAAAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11079 67 -   3089952 ---AAATGAGCATGGCAC--AA-GGCCAT--GTAATGCA-CCGGGAGAGTTTTCCGTGTCAGCAGGTAGAAGCAAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209045 62 -  42888418 ---AAATGA-----CCAC--AA-GGCCAC--GTAAGGCA-CTGGGAGAGTTTTCTACGTCAGCAGGTAGAAGAAAG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3072737 54 +   4132165 ------------------CAGA-AGCCAC--AGGAAACA-CGGGGAGAGGGTTCCATGCCAGAAGACAGCAGAAAG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14917430 65 +  74389097 ---AAATGACCA---CAC--A--AGCTATTACTGCGGCA-CTAAGAGAGTGGTCCAAGCTAGAGGGTAGGAGAAAG
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2633274 65 +   3667625 AAGAAGTGA-----CCAC--ATGGGCCATTACTGAGATA-C---GAGAGGATTGCAAACCAGGAGATAGGCGAAAG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60542689 89 + 108143057 I
e proCoq1.NW_012155062v1     3584616 101 +  11683526 I
e mm10.chr18                55518854  0 +  90702639 C

a score=571481.000000
s hg38.chr5_KI270796v1_alt     91840 45 +    172708 TGTCACACAGCA------------GAGGCATTACTAATGTAGGGAGAAGAATGTTCT--
s panTro5.chr5             125195832 45 + 181907262 TGTCACACAGCA------------GAGGCATTACTAATGTAGGGAGAAGAATGTTCT--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126532702 45 + 183735486 TGTCACACAGCA------------GAGGCATTACTAATGTAGGGAGAAGAATGTTCT--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724319 45 +   8933513 TGTCACACAGCA------------GAGGCATTACTAATGTAGGGAGAAGAATGTCCT--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855086 45 + 163208435 TATCACACAGCA------------GAGGCATTACTAACGTAGGGAGAAGAAAGTTCT--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122843973 45 + 180051392 TGTCACACGGCA------------GAGGCATCACTAATGTAGGGAGAAGAATGTTCT--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124267592 45 + 181584905 TGTCACACGGCA------------GAGGCATCACTAATGTAGGGAGAAGAATGTTCT--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16265959 45 +  18395747 TGTCACACGGCA------------GAGGCATCACTAATGTAGGGAGAAGAATGTTCT--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5277601 45 +  26952557 TGTCACACGGCA------------GAGGCATCACTAATGTAGGGAGAAGAATGTTCT--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28379812 45 +  82825804 TGTCACACGGCA------------GAGGCATCACTAATGTAGGGAGAAGAATGTTCT--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4048705 45 -   4237731 TGTCACACGGCA------------GAGGCATCACTAATGTAGGGAGAAGAATGTTCT--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317248 44 -   1175262 -GTCACACGGCA------------GAGGCATCACTAATGTAGGGAGAAGAATGTTCT--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664277 45 - 204313951 TGTCACATAGCA------------GAGGCATCACTAATGCAGGGAGAAGAATGTTCT--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708150 45 -  71252344 TGTCACACAGCA------------GAGGCATCACTAATGCAGGGAGGAGAATGTTCT--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11146 45 -   3089952 TGTCACACATCA------------GAGGCATCACTAATGCAGGGAGAAGAATATTCT--
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209107 45 -  42888418 TGTCACACAGCA------------GAGGAATCACTAATGCAGGGAGAAGAATGTTCT--
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60542778 45 + 108143057 TGTCACACAGCA------------GAGGTATAGCTAGTGTGGGGAGAAGAATGCTCT--
i micMur3.chr12            I 89 C 0
s otoGar3.GL873679           3072791 42 +   4132165 TGT--CACAGCA------------GTGGTGCAGCTAGGGC-AAAAGAAGATCGCCCT--
i otoGar3.GL873679         C 0 I 2
s canFam3.chr11             14917495 56 +  74389097 GGTCACAATGCACGAAATAGCAATGAGGCATAAGTAGTGTA-GGACAAGAATGTTCC--
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2633339 59 +   3667625 GACCATGGAGCAAAGTGTAGTACTGAGACATAACCCTTGTGGGGAGAAGAATGTTCTCT
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3584616 101 +  11683526 I
e mm10.chr18                55518854  0 +  90702639 C

a score=1478379.000000
s hg38.chr5_KI270796v1_alt     91885  98 +    172708 GTCACCTCTAGTCATTTACAGACCCAAGAGATTGAGGCATTGTGAGATATTTACACAGCA----TATTTGGATTGTATGGTTAATGCTTGT-------------------------------------------------------TGCT---------------------TTCAGTT
s panTro5.chr5             125195877  98 + 181907262 GTCACCTCTAGTCATTTACAGACCCAAGAGATTGAGGCATTGTAAGATATTTATACAGCA----TATTTGGACTGTATGGTTAATGCTTGT-------------------------------------------------------TGCT---------------------TTCAGTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126532747  98 + 183735486 GTCACCTCTAGTCATTTACAGACCCAAGAGATTGAGGCATTGTAAGATATTTATACAGCA----TATTTGGACTGTATGGTTAATGCTTGT-------------------------------------------------------TGCT---------------------TTCAGTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724364  98 +   8933513 GTCACCTCTAGTCATTTACAGACCCAAGAGATTGAGGCATTGTGAGATATTTACACAGCA----TATTTGGACTGTATGGTTAATGCTTGT-------------------------------------------------------TGCT---------------------TTCAGTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855131  98 + 163208435 GTCACCTCTAGTCATTTAGAGACCCAAGAGATTGAGGCACTGTGAGATATTTACACAGCA----TATTTGGACTGTATGCTTAATGCTTGT-------------------------------------------------------TGCT---------------------TTCAGTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844018  98 + 180051392 GTCACCTCTAGTCATTTAGAGACCCAAGAGATTGAGGCATTGTGAGATATTTACACAGCA----TATTTGGACTGTATGGTTAACGCTTGT-------------------------------------------------------TGCT---------------------TTCAGTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124267637  98 + 181584905 GTCACCTCTAGTCATTTAGAGACCCAAGAGATTGAGGCATTGTGAGATATTTACACAGCA----TATTTGGACTGTATGGTTAACGCTTGT-------------------------------------------------------TGCT---------------------TTCAGTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266004  98 +  18395747 GTCACCTCTAGTCATTTAGAGACCCAAGAGATTGAGGCATTGTGAGATATTTACACAGCA----TATTTGGACTGTATGGTTAACGCTTGT-------------------------------------------------------TGCT---------------------TTCAGTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5277646  98 +  26952557 GTCACCTCTAGTCATTTAGAGACCCAAGAGATTGAGGCATTGTGAGATATTTACACAGCA----TATTTGGACTGTATGGTTAACGCTTGT-------------------------------------------------------TGCT---------------------TTCAGTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28379857  98 +  82825804 GTCACCTCTAGTCATTTAGAGACCCAAGAGATTGAGGCATTGTGAGATATTTACACAGCA----TATTTGGACTGTATGGTTAACGCTTGT-------------------------------------------------------TGCT---------------------TTCAGTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4048750  98 -   4237731 GTCACCTCTAGTCATTTAGAGACCCAAGAGATGGAGGCATTGTGAGATATTTACACAGCA----TATTTGGACTGTATGGTTAACGCTTGT-------------------------------------------------------TGCT---------------------TTCAGTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317292  98 -   1175262 GTCACCTCTAGTCATTTAGAGACCCAAGAGACTGAGACATTGTGAGATATTTACACAGCA----TATTTGGACTGTGTGGTTAACGCTTGT-------------------------------------------------------TGCT---------------------TTCAGTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664322  98 - 204313951 GTTACCTCTGGCCACTTAGAGACCCAAGAGACTGAGATATCATGAGACATTTACACAGCA----TATTTGGACTGCCTGGTTAATACTTGT-------------------------------------------------------TGCT---------------------TTCAGTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708195  98 -  71252344 GTCACCTCTGGTCACTTAGAGGCCCAAGAGACTGAGATATCATGAGATATTTATACAGCA----TGTTTGGACTGCATGGTTAATGCTTGC-------------------------------------------------------TGCT---------------------TTCAGTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11191  98 -   3089952 GTCACCTCTCGTCACTTAGAGACCCAAGAGACTGAGATATCATGAGATATTTACACAGCA----TATTTGGACTGCATGGTTAATGCTTGT-------------------------------------------------------TGCT---------------------TTCAGTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209152  98 -  42888418 GTCACCTCTGGTCATTTAGAGACCCAAGAGACTGAGATATCATGAGATATTTACACAGCA----TATTTGGACAGCATGGTTAATGCTTGT-------------------------------------------------------TGCT---------------------TTCAGTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60542823 102 + 108143057 GTCACCGCTAGTCACTTAAGGGCACAAGAGATTGGGACTTCATGAGATGTTGACACAGCAAGCGTATTTGGACTGTGAGGTTAATGCTTAT-------------------------------------------------------TTCT---------------------TTCAGTT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3584717  98 +  11683526 GTCACCTCTAGCCACTTAGAGATGCAAGAGATTGGGACTTCATAAGATATTGACACGGCA----TATTTGGACTGTGAGGTTAATGCTTAT-------------------------------------------------------TTCT---------------------TTTAGTT
i proCoq1.NW_012155062v1   I 101 C 0
s otoGar3.GL873679           3072835  97 +   4132165 GCCACCCCTC-TCACTTAGAGACCCAAGAGAGTGGCACTTAATGAGATATTGACAGAGCG----TACTTGGACTGTGAGGTTAATGCTTGT-------------------------------------------------------TGCC---------------------TTCCGTT
i otoGar3.GL873679         I 2 C 0
s canFam3.chr11             14917553  98 +  74389097 GTTACCTCTAGTCACTTAGAGACCCAAGAAACTGGGACATCACGAGCCATTTACATAGCA----TATTTGAACTGCATGGTTAATGCTTGT-------------------------------------------------------TGCT---------------------CTCTGTT
i canFam3.chr11            I 2 C 0
s dasNov3.JH567306           2633398 174 +   3667625 GTCTCTTCTAGTAATTTAGAGACCCAAGGGATGGAGACAATGTGAGACATACGCTTAGCA----TATTTAATCTGCATGGTTAATGCTTTTTTTCTGTTAAAATCTCATCCTACgagagcacatgtggctcagatagtcgagcgtctgcttaccacataggaagtcccaggttcggtt
i dasNov3.JH567306         C 0 I 146
e mm10.chr18                55518854   0 +  90702639 C

a score=248339.000000
s hg38.chr5_KI270796v1_alt     91983 15 +    172708 AAATTTCTTCCTAAA
s panTro5.chr5             125195975 15 + 181907262 AAATTTCTTCCTAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126532845 15 + 183735486 AAATTTCTTCCTAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724462 14 +   8933513 -AATTTCTTCCTAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855229 15 + 163208435 AAATTTCTTCCTCAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844116 15 + 180051392 AAATTTCTTCCTAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124267735 15 + 181584905 AAATTTCTTCCTAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266102 15 +  18395747 AAATTTCTTCCTAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5277744 15 +  26952557 AAATTTCTTCCTAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28379955 15 +  82825804 AAATTTCTTCCTAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4048848 15 -   4237731 AAATTTCTTCCTAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317390 15 -   1175262 AAATTTCTTCCTAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664420 15 - 204313951 AAATTTCTTCCTAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708293 15 -  71252344 AAATTTCTTCCTAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11289 15 -   3089952 AAATTTCTTCTTAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209250 15 -  42888418 AAATTTCTTCCTAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60542925 15 + 108143057 AATTTTTTTCCTAAA
i micMur3.chr12            C 0 I 74
s proCoq1.NW_012155062v1     3584815 15 +  11683526 AAATTTCTTCCTAAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3072932 15 +   4132165 GTATTTCGTCCTAAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14917651 15 +  74389097 AAATTTCTTCCCACG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2633718 15 +   3667625 AAAATTCATCCTAAA
i dasNov3.JH567306         I 146 C 0
e mm10.chr18                55518854  0 +  90702639 C

a score=1368222.000000
s hg38.chr5_KI270796v1_alt     91998 107 +    172708 GTACTACATAGTGTTCTTTTCAGTAGGAAGCTTTGACCTATCCTATAGAAATTGTTTTGCAGTTGCTGAGTGGGGGCTTCAT-----GTG------AAAATAAAAGCCCCTTA-AAAAA
s panTro5.chr5             125195990 107 + 181907262 GTACTACATAGTGTTCTTTTCAGTAGGAAGCTTTGACCTATCCTATAGAAATTGTTTTGCAGTTGCTGAGTGGGGGCTTCAT-----GTG------AAAATAAAAGCCCCTTA-AAAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126532860 107 + 183735486 GTACTACATAGTGTTCTTTTCAGTAGGAAGCTTTGACCTATCCTATAGAAATTGTTTTGCAGTTGCTGAGTGGGGGCTTCAT-----GTG------AAAATAAAAGCCCCTTA-AAAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724476 107 +   8933513 GTACTACATAGCGTTCTTTTCAGTAGGAAGCTTTGACCTATCCTATAGAAATTGTTTTGCAGTTGCTGAGTGGGGGCTTCAT-----GTG------AAAATAAAAGCCCCTTA-AAAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855244 105 + 163208435 GTACTGCATCGTGTTCTTTACAGTAGGAAGATTTGACCTATCCTATAGAAATTGTTTTGCAGTTGCTGAGTGGGGGCTTCAT-----GTG------AAAATAAAAGCCCCTT---AAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844131 107 + 180051392 GTACTGTATTGTGTTCTTTTCAGTAGGAAGCTTTGACCTATCCCATAGAAATTATTTTGCACTTTCTGAGTGGGGGCTTCAA-----GTG------AAAATAAAAGCCCCTTA-AAAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124267750 107 + 181584905 GTACTGTATTGTGTTCTTTTCAGTAGGAAGCTTTGACCTATCCCATAGAAATTATTTTGCACTTTCTGAGTGGGGGCTTCAA-----GTG------AAAATAAAAGCCCCTTA-AAAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266117 107 +  18395747 GTACTGTATTGTGTTCTTTTCAGTAGGAAGCTTTGACCTATCCCATAGAAATTATTTTGCACTTTCTGAGTGGGGGCTTCAA-----GTG------AAAATAAAAGCCCCTTA-AAAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5277759 107 +  26952557 GTACTGTATTGTGTTCTTTTCAGTAGGAAGCTTTGACCTATCCCATAGAAATTATTTTGCACTTTCTGAGTGGGGGCTTCAA-----GTG------AAAATAAAAGCCCCTTA-AAAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28379970 106 +  82825804 GTACTGTATTGTGTTCTTTTCAGTAGGAAGCTTTGACCTATCCCATAGAAATTATTTTGCACTTTCTGAGTGGGGGCTTCAA-----GTG------AAAATAAAAGCCCCTT--AAAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4048863 107 -   4237731 GTACTGCATTGTGTTCTTTTCAGTAGGAAGCTTTGACCTATCCTATAGAAATTATTTTGTACTTTCTGAGTGGGGGCTTCAA-----GTG------AAAATAAAAGCCCCTTA-AAAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317405 107 -   1175262 GTACTGCATTGTGTTCTTTTCAGTAGGAAGCTTTGACCTATCCTACAGAAATTATTTTGCAGTTTCTGAGTGGGGGCTTCAA-----GTG------AAAATAAAAGCCCCTTA-AAAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664435 105 - 204313951 GTACTGCCTCGTGTTCTTTTCAATAGGAAGTTTTGGCCTATCCTACAGAAATTATTTTGCAGCTGCTGAGT---GGCTTCAT-----ATG------AAAATAAAAGCCCCTTGAAAAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708308 107 -  71252344 GTACTGCATTGTGTTCTTTTCAGTAGGAAGCTTTGGCCTATCCTACAGTAATGATTTTGCAGTTGCTGAGTGGGGGCTTCAT-----ATG------AAAATAAAAGCCCCTTG-AAAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11304 106 -   3089952 GTACTGCATTGCGTTCTTTTCAGTA-GAAGTTTTGGCCTATCCTACAGAAATTATTTTGCAGTTGCTGAGTGGAGGCTTCAT-----ATG------AAAATAAAAGCCGCTTG-AAAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209265 107 -  42888418 GTACTGCATTGTGTTCTTTTCAGTAGGAAGCTTTGGCCTATCCTACAGAAATTATTTTGCATTTGCTGAGTGGGGGCTTCAT-----ATG------AAAATAAAAGCCCCTTG-AAAAA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3584830  96 +  11683526 ----------------ATTTCAACAGGAAGCTTTGACCTATCCAGTAGAAATCATTTCCCGGTTGCTGAGTGGGGGCTTCATGGGAAGTG------AAAATCAAAGCCCCTTA-AAAAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3072947  96 +   4132165 ----------------GTTTCTGTGAGCAGCTTTTACCTCTCCAATAGAAATCATTTTCCAGCTGCTGAATGGGGGCTTCATATGAAGTG------AAAATCAAAGCCTCTTA-AATAT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14917666 112 +  74389097 GTACTGCATTGTGCTCTTTTAAATAGGAAGCTTTGGCTTATCTAATAGAAATGGTTTCCCATTTGCTGAGTGG-GACCTCAT-----GTGAAGTGAAAAATCAAAGCCCCTTA-AAAAA
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2633733 111 +   3667625 GTATTACATTGTCTTTACTCAAACAGGAAGCTTTGACCAGTCCAGTAGGAATACTTTTACAGTTGCTGAGTGG-GACTTCAT-----GTGAAACG-AAAATGCAAGCCCTTTG-AAAAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60542940  74 + 108143057 I
e mm10.chr18                55518854   0 +  90702639 C

a score=1913456.000000
s hg38.chr5_KI270796v1_alt     92105 134 +    172708 ATCACC-CAGTCCTTTGGGCCAAGGTCATCTTAACACTAGAA-TTAAATTATGCTAATATTAATTGAAATTCAAGGTGTTTGCCCTAT---ATAATCCACTCA---TCTCTCCACTTCACTTTGCCTGCAGAAACAGTCAGA
s panTro5.chr5             125196097 134 + 181907262 ATCACC-CAGTCCTTTAGGCCAAGGTCATCTTAACACTAGAA-TTAAATTATGCTAATATTAATTGAAATTCAAGGTGTTTGCCCCAT---GTAATCCACTCA---TCTCTCCACTTCACTTTGCCTGCAGAAACAGTCAGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126532967 134 + 183735486 ATCACC-CAGTCCTTTAGGCCAAGGTCATCTTAACACTAGAA-TTAAATTATGCTAATATTAATTGAAATTCAAGGTGTTTGCCCCAT---GTAATCCACTCA---TCTCTCCACTTCACTTTGCCTGCAGAAACAGTCAGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724583 134 +   8933513 ATCACC-CAGTCCTTTGGGCCAAGGTCATCTTAACACTAGAA-TTAAATTATGCTAATATTAATTGAAATCCAAGGTGTTTGCCCTAT---ATAATCTACTCA---TCTCTCCACTTCACTTTGCCTGCAGAAACAGTCAGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855349 134 + 163208435 ATCACT-CAGTCCTTTGAGCCAAGGTCATCTTAACACTAGAA-TTAAATTATGCTAATATTAATTGAAATTCAAGGTGTTTGCCCTAT---ATAATCCACTCA---TCTCTCCACTTCACTTTGCCTGCAGAAACAGTCTGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844238 129 + 180051392 ATTGCA-CAGTCCTTTGGGCCAAGGTCATCTTAATACTAGAA-TTAAATTATTGTAATATTAATTGAAATTCAAGGCATTTGCCCTAT---ATAATCCACTCA---TCTCTCTACTTCAC-TTGCCTGCAGAAA----CAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124267857 129 + 181584905 ATTGCA-CAGTCCTTTGGGCCAAGGTCATCTTAATACTAGAA-TTAAATTATTGTAATATTAATTGAAATTCAAGGCGTTTGCCCTAT---ATAATCCACTCA---TCTCTCTACTTCAC-TTGCCTGCAGAAA----CAGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266224 129 +  18395747 ATTGCA-CAGTCCTTTGGGCCAAGGTCATCTTAATACTAGAA-TTAAATTATTGTAATATTAATTGAAATTCAAGGCGTTTGCCCTAT---ATACTCCACTCA---TCTCTCTACTTCAC-TTGCCTGCAGAAA----CAGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5277866 133 +  26952557 ATTGCA-CAGTCCTTTGGGCCAAGGTCATCTTAATACTAGAA-TTAAATTATTGTAATATTAATTGAAATTCAAGGCGTTTGCCCTAT---ATAATCCACTCA---TCTCTCTACTTCAC-TTGCCTGCAGAAACAGTCAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380076 129 +  82825804 ATTACT-CAGTCCTTTGGGCCAAGGTCATCTTAATACTAGAA-TTAAATTATTGTAACATTAATTGAAATTCAAGGCGTTTGCCCTAT---ATAATCCACTCA---TCTCTCTACTTCAC-TTGCCTGCAGAAA----CAGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4048970 133 -   4237731 ATTACT-CAGTCCTTTGGGCCAAGGTCATCTTAATACTAGAA-TTAACTTATTGTAATATTAATTGAAATTCAAGGCGTTTGCCCTAT---ATAATCCACTCA---TCTCTCTAGTTCAC-TTGCCTGTAGAAACAGTCAGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317512 133 -   1175262 ATCACC-CAGTCCTTTGGGCCAAGGTCATCTTAACACTAGAA-TTAAATTATGCTAATATTAATTGAAATTCAAGGTGTTTGCCCTAT---ATAATCCACTCA---TCTCTCCACTTCAC-TTGCCTGCAGAAACAGTCAGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664540 134 - 204313951 ATCACC-CAGTCCTTTGGGCCAAGGTCATCTTAACACTAGAA-GTAAATTATGCTAATATTAATTGAAATTCAAGGTGTTTGTCCTAT---GTAATTCACTCA---TCTCTCTACTTCACTTTGCCTCCAGAAACAGTCAGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708415 134 -  71252344 ATCACC-CAGTCCTTTGGGCCAAGGTCATCTTAACACTAGAA-TTAAATTATGCTAATATTAATTGAAATTCAAGGTGTCTGCCCTAT---GGAATCCACTCA---TCTCTCTACTTCACTTTGCCTGCAGAAACAGTCGGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11410 132 -   3089952 ATCACC-CAGTCCTTTGGGCCAAAGTCATCTTAACACTAGAA-TTAAATTATGCTAATATTAAGTGAAATTCAAGGTGTTTGTCCTAT---GTAATCCACTCA-----TCTCTACTTCACTTTGCCTGCAGAAACAGTAGGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209372 134 -  42888418 ATCACC-CAGTCCTTTGGGCCAAGGTCATCTTAACACTAGAA-TTAAATTATGCTAATATTAATTGAAATTCAAGGTGTTTGCCCTAT---GTAATCCACTCA---TCTCTCTACTTCACTTTGCCTGCAGAAACAGTCAGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60543014 135 + 108143057 ATCATC-CAGTCCTTTGGGCCAGGGTCATGTCA--ACTAGAA-TTAAATTATGCTAATCTTATTTAAAATTCAGGGTGTTTTCCCTATCCCTTAATCCATTCA---TCTGTCCCCTACACTTTTTCTACAGAAAGAGTCAGA
i micMur3.chr12            I 74 C 0
s proCoq1.NW_012155062v1     3584926 136 +  11683526 GTAAGC-CAGTCCTTTGGGCCAGGGTCATGTCA--ACTAGAATTTAAATTATGCTAATCTTATTTAAAATTCAAGGTGTTTTCCCTATTCCCTAATCCATTCA---TCTCTCCTCTACACTTTCTCTACAGAAAGAGTCAGA
i proCoq1.NW_012155062v1   C 0 I 73
s otoGar3.GL873679           3073043 132 +   4132165 -GGAGC-CAGTCC-TTAGGCCAGAGTCATCTTAACACTAGAA-TGAAATTACACGGACATTATTTAAAATTTAAGGTGTTTTCCTTATAGCATAATCATTTCA---TCT---CTCTACCATTTGTCCACAGAAAAAGTCAGA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14917779 137 +  74389097 GTAACC-TAGTCCTTTGGGCCAGGGTCATCTTAACACTAGAA-TTAAATTATGCAAATATAAATTGAAATTCAAGGTGATTGCTCTGT---ATAATCCATTCATCATCTCTCTATTTCTCTTTGCTTGCAGAAACAGCTAGA
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2633844 131 +   3667625 GTAACTGCAGTCCTTTGGGCCAAAGTCATCTTACATCTAGAA-TTAAATTATGCTAATATTAATTGAGATTCAAGATGATTGCCCTGT---ATAATCCTCTCA---TCCTTCCACTTCACTTTGCCTGTAGAAA----TAGA
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55518854   0 +  90702639 C

a score=719375.000000
s hg38.chr5_KI270796v1_alt     92239 58 +    172708 CAGTAATTTTTATTAAAGCACAAACTCAAAT-GTAGGGTTCACTATAAAATAATTCAAT
s panTro5.chr5             125196231 58 + 181907262 CAGTAATTTTTATTAAAGCACAAACTCAAAT-GTAGGGTTCACTATAAAATAATTCAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533101 58 + 183735486 CAGTAATTTTTATTAAAGCACAAACTCAAAT-GTAGGGTTCACTATAAAATAATTCAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724717 58 +   8933513 CAGTAATTTTTATTAAAGCACAAACTCAAAT-GTAGGGTTCACTATAAAATAATTCAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855483 58 + 163208435 CAGTAATTTTTATTAAAGCACAAACTCAAAT-GTAGGGTTCACTATAAAATAATTCAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844367 58 + 180051392 CAGTAATTTTTATTAAAGCACAAATGCAAAT-GTTGGGTTCACTATAAAATAATTCAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124267986 58 + 181584905 CAGTAATTTTTATTAAAGCACAAATGCAAAT-GTTGGGTTCACTATAAAATAATTCAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266353 58 +  18395747 CAGTAATTTTTATTAAAGCACAAATGCAAAT-GTTGGGTTCACTATAAAATAATTCAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5277999 58 +  26952557 CAGTAATTTTTATGAAAGCACAAATGCAAAT-GTTGGGTTCACTATAAAATAATTCAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380205 58 +  82825804 CAGTAATTTTTATTAAAGCACAAATGCAAAT-GTTGGGTTCACTATAAAATAATTCAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049103 58 -   4237731 CAGTAATTTTTATTAAAGCACAAATGCAAAT-GTTGGGTTCACTATAAAATAATTCAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317645 58 -   1175262 CAGTAATTTTTATTAAAGCACAAATGCAAAT-GTTGGGTTCACTATAAAATAATTCAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664674 54 - 204313951 CAGTAATTTTTATTAAAGAACAAACTCAAAT-GTCAGGTTCACTATAAAA----TCAGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708549 54 -  71252344 CAGTAATTTTTATTAAAGAACGAACTCAAAT-GTAGGGTTTACTATAAAA----TCAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11542 54 -   3089952 CAGTAATTTTTATTAAAGAACAAACTAAAAT-GTAGGGTTCACTATAAAA----TCAAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209506 54 -  42888418 CAGTAATTTTTATGAAAGAACAAACTCAAAT-GTAGGGTTCACTATAAAA----TCAGT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60543149 53 + 108143057 TGGTAAC-----TTAAAGAATAAACTCAAAT-GTAAGGTTAGCTGTATAATGATTTAAC
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3073175 53 +   4132165 CAGTAAC--TTGTTAAAGAACAAACTCAAAT-GTAAGTTTCATTATCTAATAATTC---
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14917916 59 +  74389097 CAGTATCTTTTGTTATAGAACAAACTCAAATGGCAGGGTTCACCATAGAGTAATTCAAC
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2633975 58 +   3667625 CAATAACTTTTGTTATAGAACAACTTCAAAT-GTAGGATTCACTATGTAATAATCCAAC
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3585062 73 +  11683526 I
e mm10.chr18                55518854  0 +  90702639 C

a score=20510.000000
s hg38.chr5_KI270796v1_alt     92297 3 +    172708 -GAG
s panTro5.chr5             125196289 3 + 181907262 -GAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533159 3 + 183735486 -GAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724775 3 +   8933513 -GAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855541 3 + 163208435 -GAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844425 3 + 180051392 -GAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268044 3 + 181584905 -GAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266411 3 +  18395747 -GAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5278057 3 +  26952557 -GAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380263 3 +  82825804 -GAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049161 3 -   4237731 -GAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317703 3 -   1175262 -GAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664728 3 - 204313951 -GAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708603 3 -  71252344 -GAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11596 3 -   3089952 -GAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209560 3 -  42888418 -GAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60543202 3 + 108143057 -TAG
i micMur3.chr12            C 0 C 0
s dasNov3.JH567306           2634033 3 +   3667625 TGG-
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14917975 3 +  74389097 I
e proCoq1.NW_012155062v1     3585062 73 +  11683526 I
e otoGar3.GL873679           3073228 0 +   4132165 C
e mm10.chr18                55518854 0 +  90702639 C

a score=175255.000000
s hg38.chr5_KI270796v1_alt     92300 12 +    172708 ATTACAGAAGAT
s panTro5.chr5             125196292 12 + 181907262 ATTACAGAAGAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533162 12 + 183735486 ATTACAGAAGAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724778 12 +   8933513 ATTACAGAAGAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855544 12 + 163208435 ATTACAGAAGAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844428 12 + 180051392 ATTACAGAAGAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268047 12 + 181584905 ATTACAGAAGAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266414 12 +  18395747 ATTACAGAAGAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5278060 12 +  26952557 ATTACAGAAGAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380266 12 +  82825804 ATTACAGAAGAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049164 12 -   4237731 ATTACAGAAGAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317706 12 -   1175262 ATTACAGAAGAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664731 12 - 204313951 ATTACAGAAGAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708606 12 -  71252344 ATTAAAGAAGAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11599 12 -   3089952 ATTACAGAAGAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209563 12 -  42888418 ATTACAGAAGAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60543205 12 + 108143057 AACACAGAAAAG
i micMur3.chr12            C 0 I 5
s otoGar3.GL873679           3073228 12 +   4132165 AACACAGAAAAG
i otoGar3.GL873679         C 0 I 5
s canFam3.chr11             14917978 12 +  74389097 ATTACAGAAGAG
i canFam3.chr11            I 3 I 5
s dasNov3.JH567306           2634036 12 +   3667625 ATTACAGAAATT
i dasNov3.JH567306         C 0 I 3
e proCoq1.NW_012155062v1     3585062 73 +  11683526 I
e mm10.chr18                55518854  0 +  90702639 C

a score=1451479.000000
s hg38.chr5_KI270796v1_alt     92312  95 +    172708 AT-----GACTAATACAAA----CGAGTTGGTCTTTGAACTTGTTTGATTATGAATAGAAATGCTGACTTCAAATTCCCTTGAGATGAAA-GTTTGCTAGA-TTGA
s panTro5.chr5             125196304 100 + 181907262 ATCTTATGACTAATACAAA----CGAGTTGGTCTTTGAACTTGTTTGATTATGAATAGAAATGCTGACTTCAAATTCCCTTGAGATGAAA-GTTTGCTAGA-TTGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533174 100 + 183735486 ATCTTATGACTAATACAAA----CGAGTTGGTCTTTGAACTTGTTTGATTATGAATAGAAATGCTGTCTTCAAATTCCCTTGAGATGAAA-GTTTGCTAGA-TTGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724790 100 +   8933513 ATCTTATGACTAATACAAA----CGAGTTGGTCTTTGAACTTGTTTGATTATGAATAGAAATGCTGACTTCAAATTCCCTTGAGATGAAA-GTTTGCTAGA-TTGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855556 100 + 163208435 ATCTTATGACTAATACAAA----CGAGTTGGTCTTTGAACTTGTTTGATTATGAATAGAAATGCTGACTTCAAATTCCCTTGAGATGAAA-GTCTGCTAGA-TTGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844440 100 + 180051392 ATCTTATGACTAATAGAAA----CAAGTTGGTCTTTGAACTTGTTTGATTATGAATAGAACTGCTGACTTCAAATTCCCTTGAGATGAAA-TTTTGCTAGA-TTGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268059 100 + 181584905 ATCTTATGACTAATAGAAA----CAAGTTGGTCTTTGAACTTGTTTGATTATGAATAGAACTGCTGACTTCAAATTCCCTTGAGATGAAA-TTTTGCTAGA-TTGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266426 100 +  18395747 ATCTTATGACTAATAGAAA----CAAGTTGGTCTTTGAACTTGTTTGATTATGAATAGAACTGCTGACTTCAAATTCCCTTGAGATGAAA-TTTTGCTAGA-TTGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5278072 100 +  26952557 ATCTTATGACTAATAGAAA----CAAGTTGGTCTTTGAACTTGTTTGATTATGAATAGAACTGCTGACTTCAAATTCCCTTGAGATGAAA-TTTTGCTAGA-TTGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380278 100 +  82825804 ATCTTATGACTAATAGAAA----CAAGTTGGTCTTTGAACTTGTTTGATAATGAATAGAACTGCTGACTTCAAATTCCCTTGAGATGAAA-TTTTGCTAGA-TTGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049176 100 -   4237731 ATCTTATGACTAATAGAAA----CAAGTTGGTCTTTGAACTTGTTTGATTATGAATAGAACTGCTGACTTCAAATTCCCTTGAGATGAAA-TTTTGCTAGA-TTGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317718 100 -   1175262 ATCTTATGACTAATAGAAA----CAAGTTGGTCTTTGAACTTGTTTGATTATGAATAGAACTGCTGACTTCAAATTCCCTTGAAATGAAA-TTTTGCTGGA-TTGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664743 100 - 204313951 ATCATATGACCAATACAAA----CAAGTTGGTCTTTGAACTTTTTTTGTTATGAATAGAAATGCTGAGTTCAAATTTCCTTGAGATGGAA-TTTTGCTAGA-TTGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708618 100 -  71252344 ATCTTATGACCAATGCAAG----CAAGTTGGTCTTTGAACTTTTTTCGTTATGAATAGAAATGCTGAGTTCAAATTTCCTTGAGATGGAA-TTTTGCTAGA-GTGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11611 100 -   3089952 ATCTTATGACCAATACAAA----CAAGTTGGTCTTTGAACCTTTTTCATTATGAATAGAAATGCTGAGTTCAAATTTCCCTGAGGTGGAA-TTTTGCTAGA-TTGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209575 100 -  42888418 ATCTTATGACCAATACAAA----CAAGTTGGTCTTTGAACTTTTTTCGTTATGAATAGAAATGCTGAGTTCAAATTTCCTTGAGATGGAA-TTTTGCTAGA-TTGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60543222  93 + 108143057 -----ATGACTAATACAAA----TGATATGGTCTTTGAACTTGTTTCATTATGAATAGAAATGCTGAC--AAAATTTCCTTGAGATGGAA-TTTTGCCAGA-TTAA
i micMur3.chr12            I 5 C 0
s proCoq1.NW_012155062v1     3585135  93 +  11683526 -----ATGACTAACACAAA----CTATATGGTCTTTGAGCTTGTTTCATTATGAATAGAAATGCTGAC--AAAATGTCCTTGAGATGGAA-TTTTGCCAGA-TTAA
i proCoq1.NW_012155062v1   I 73 C 0
s otoGar3.GL873679           3073245  99 +   4132165 -----ATGATTAATACGAATATGTAATCCAGTCTTTGAACTTGTTTCATCATGCCTGGAAATTCTGACTTAAAATTTCTTTGAGATGGAA-TTTTGCCAGG-TTAA
i otoGar3.GL873679         I 5 C 0
s canFam3.chr11             14917995  96 +  74389097 -----ATGATTAATATAAA----CCATTTGGTCTTTGAAGTTGTCTCATTATAAATAGAAATGCTGTAGTCAAATTCCCTTGAGATGGAA-TTTTGCTAGATTTGA
i canFam3.chr11            I 5 C 0
s dasNov3.JH567306           2634051  94 +   3667625 -----ATGACTGATATAAA----TGATTTGGGCCTAGAACTTGTTTCACTATAGATAGAGATGCTGCAGTCACACT--CTAGAGATAGAATTTTTGCTAGA-TTGA
i dasNov3.JH567306         I 3 C 0
e mm10.chr18                55518854   0 +  90702639 C

a score=319472.000000
s hg38.chr5_KI270796v1_alt     92407 33 +    172708 TCTGttttctttatttcttttgtcttctctttc
s panTro5.chr5             125196404 33 + 181907262 tctgttttctttatttctcttgtcttctcttcc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533274 33 + 183735486 tctgttttctttatttctcttgtcttctcttcc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724890 33 +   8933513 tctgttttctttatttctcttgtcttctcttcc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855656 33 + 163208435 tctgttttctttatttctcttgtcttctcttcc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844540 33 + 180051392 TCTGTtttctttctttctcttgtcttcacttcc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268159 33 + 181584905 TCTGTtttctttctttctcttgtcttcacttcc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266526 33 +  18395747 TCTGTtttctttctttctcttgtcttcacttcc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5278172 33 +  26952557 TCTGTtttctttctttctcttgtcttcacttcc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380378 33 +  82825804 TCTGTtttctttctttctcttgtcttcacttcc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049276 33 -   4237731 tctgttttctttctttctcttgtcttcacttcc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317818 33 -   1175262 TCTGttttctttctttctcttgtcttcacttcc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664843 26 - 204313951 TC--Ttttctttatttc-----tcttctcttcc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708718 31 -  71252344 TC--Ttttctttatttcttttgtcttctcttcc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11711 31 -   3089952 tc--ttttctttatttcttttgtcttctcttcc
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209675 31 -  42888418 Tc--tttcctttatttctcttgtcttctcttcc
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60543315 32 + 108143057 tctcttttcttttttcttttcttttctctttc-
i micMur3.chr12            C 0 I 1743
s proCoq1.NW_012155062v1     3585228 32 +  11683526 tctcttttctttttccttcctttctctttctc-
i proCoq1.NW_012155062v1   C 0 I 4
s otoGar3.GL873679           3073344 13 +   4132165 TCTcttttctttc--------------------
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14918091 29 +  74389097 TC----Tcctttccctgccttcacttcccttcc
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2634145  0 +   3667625 C
e mm10.chr18                55518854  0 +  90702639 C

a score=113219.000000
s hg38.chr5_KI270796v1_alt     92440 10 +    172708 ttttcctttc
s panTro5.chr5             125196437 10 + 181907262 ttttcctttc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533307 10 + 183735486 ttttcctttc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724923 10 +   8933513 ttttcctttc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855689 10 + 163208435 ttttcttttc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844573 10 + 180051392 tttccctttc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268192 10 + 181584905 tttccctttc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266559 10 +  18395747 tttccctttc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5278205 10 +  26952557 tttccctttc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380411 10 +  82825804 tttccctttc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049309 10 -   4237731 tttccctttc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317851 10 -   1175262 tttccctttc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664869 10 - 204313951 tgtccctttt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708749 10 -  71252344 tgtctctttc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11742 10 -   3089952 tgtccctttc
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209706 10 -  42888418 tgtccctttc
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3585264 10 +  11683526 ttttcctttc
i proCoq1.NW_012155062v1   I 4 I 97
s otoGar3.GL873679           3073357  3 +   4132165 -------ttc
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14918120 10 +  74389097 ttttccttct
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60543347 1743 + 108143057 I
e dasNov3.JH567306           2634145  0 +   3667625 C
e mm10.chr18                55518854  0 +  90702639 C

a score=126059.000000
s hg38.chr5_KI270796v1_alt     92450 16 +    172708 agttcctt--t-tttcttc
s panTro5.chr5             125196447 16 + 181907262 agttcctt--t-tttcttc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533317 16 + 183735486 agttcctt--t-tttcttc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724933 16 +   8933513 agttcctt--t-tttcttc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855699 17 + 163208435 agttcctt-ct-ttccttc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844583 17 + 180051392 agttcctt-ct-ttccttc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268202 17 + 181584905 agttcctt-ct-ttccttc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266569 17 +  18395747 agttcctt-ct-ttccttc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5278215 17 +  26952557 agttcctt-ct-ttccttc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380421 17 +  82825804 agttcctt-ct-ttccttc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049319 17 -   4237731 agttcctt-ct-ttccttc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317861 18 -   1175262 agttcctt-ttcttccttc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664879 16 - 204313951 agttcctt-ct-ttcctt-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708759 16 -  71252344 cgttcctt-ct-ttcctt-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11752 16 -   3089952 agttcctt-ct-ttcctt-
i cebCap1.NW_016107590v1   C 0 I 1
s aotNan1.NW_018505940v1    13209716 16 -  42888418 agttcctt-ct-ttcctt-
i aotNan1.NW_018505940v1   C 0 I 1
s canFam3.chr11             14918130 16 +  74389097 --cccctcccc-tttcttc
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60543347 1743 + 108143057 I
e proCoq1.NW_012155062v1     3585274 97 +  11683526 I
e otoGar3.GL873679           3073360  0 +   4132165 C
e dasNov3.JH567306           2634145  0 +   3667625 C
e mm10.chr18                55518854  0 +  90702639 C

a score=7085.000000
s hg38.chr5_KI270796v1_alt     92466 1 +    172708 c
s panTro5.chr5             125196463 1 + 181907262 c
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533333 1 + 183735486 c
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724949 1 +   8933513 c
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855716 1 + 163208435 c
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844600 1 + 180051392 c
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268219 1 + 181584905 c
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266586 1 +  18395747 c
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5278232 1 +  26952557 c
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380438 1 +  82825804 t
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049336 1 -   4237731 c
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317879 1 -   1175262 c
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664895 1 - 204313951 c
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708775 1 -  71252344 c
i saiBol1.JH378106         C 0 C 0
s canFam3.chr11             14918146 1 +  74389097 t
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60543347 1743 + 108143057 I
e proCoq1.NW_012155062v1     3585274 97 +  11683526 I
e otoGar3.GL873679           3073360 0 +   4132165 C
e aotNan1.NW_018505940v1    13209732 1 -  42888418 I
e cebCap1.NW_016107590v1       11768 1 -   3089952 I
e dasNov3.JH567306           2634145 0 +   3667625 C
e mm10.chr18                55518854 0 +  90702639 C

a score=61441.000000
s hg38.chr5_KI270796v1_alt     92467 10 +    172708 tttttctccc
s panTro5.chr5             125196464 10 + 181907262 tttttctccc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533334 10 + 183735486 tttttctccc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724950 10 +   8933513 tatttctccc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855717 10 + 163208435 ttcctctccc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844601 10 + 180051392 tttctctccc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268220 10 + 181584905 tttctctccc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266587 10 +  18395747 tttctctccc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5278233 10 +  26952557 tttctctcCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380439 10 +  82825804 tttctctccc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049337 10 -   4237731 tttctctccc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317880 10 -   1175262 tttctctccc
i colAng1.NW_012119644v1   C 0 C 0
s canFam3.chr11             14918147 10 +  74389097 ttccccttcc
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60543347 1743 + 108143057 I
e proCoq1.NW_012155062v1     3585274 97 +  11683526 I
e otoGar3.GL873679           3073360  0 +   4132165 C
e aotNan1.NW_018505940v1    13209732  1 -  42888418 I
e cebCap1.NW_016107590v1       11768  1 -   3089952 I
e dasNov3.JH567306           2634145  0 +   3667625 C
e mm10.chr18                55518854  0 +  90702639 C
e saiBol1.JH378106          55708776  0 -  71252344 C
e calJac3.chr2             123664896  0 - 204313951 C

a score=6006.000000
s hg38.chr5_KI270796v1_alt     92477 1 +    172708 t
s panTro5.chr5             125196474 1 + 181907262 t
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533344 1 + 183735486 t
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724960 1 +   8933513 t
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855727 1 + 163208435 t
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844611 1 + 180051392 t
i rheMac8.chr6             C 0 I 1
s macFas5.chr6             124268230 1 + 181584905 t
i macFas5.chr6             C 0 I 1
s macNem1.NW_012012355v1    16266597 1 +  18395747 t
i macNem1.NW_012012355v1   C 0 I 1
s cerAty1.NW_012002512v1     5278243 1 +  26952557 T
i cerAty1.NW_012002512v1   C 0 I 1303
s chlSab2.chr23             28380449 1 +  82825804 t
i chlSab2.chr23            C 0 I 1
s manLeu1.NW_012103321v1     4049347 1 -   4237731 t
i manLeu1.NW_012103321v1   C 0 I 1
s colAng1.NW_012119644v1      317890 1 -   1175262 t
i colAng1.NW_012119644v1   C 0 C 0
e micMur3.chr12             60543347 1743 + 108143057 I
e canFam3.chr11             14918157 0 +  74389097 C
e proCoq1.NW_012155062v1     3585274 97 +  11683526 I
e otoGar3.GL873679           3073360 0 +   4132165 C
e aotNan1.NW_018505940v1    13209732 1 -  42888418 I
e cebCap1.NW_016107590v1       11768 1 -   3089952 I
e dasNov3.JH567306           2634145 0 +   3667625 C
e mm10.chr18                55518854 0 +  90702639 C
e saiBol1.JH378106          55708776 0 -  71252344 C
e calJac3.chr2             123664896 0 - 204313951 C

a score=39421.000000
s hg38.chr5_KI270796v1_alt     92478 29 +    172708 cttttttttttttttttctattttttttt--
s panTro5.chr5             125196475 29 + 181907262 ctttttttttttttttttttttttttttt--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533345 29 + 183735486 cttttttttttttttctatttttttttgt--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724961 22 +   8933513 ctttttttt-------tctattttttttt--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855728 25 + 163208435 cttttttttttt----ttcgatttttttt--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844613 15 + 180051392 c--tttttt-------tttttttt-------
i rheMac8.chr6             I 1 C 0
s macFas5.chr6             124268232 16 + 181584905 c-ttttttt-------tttttttt-------
i macFas5.chr6             I 1 C 0
s macNem1.NW_012012355v1    16266599 17 +  18395747 ctttttttt-------tttttttt-------
i macNem1.NW_012012355v1   I 1 C 0
s chlSab2.chr23             28380451 22 +  82825804 ctttttttt-------tttttttttttgt--
i chlSab2.chr23            I 1 C 0
s manLeu1.NW_012103321v1     4049349 22 -   4237731 ctttttttt-------ttttttttttttt--
i manLeu1.NW_012103321v1   I 1 C 0
s colAng1.NW_012119644v1      317891 21 -   1175262 -tttttttt-------ttttttttttttt--
i colAng1.NW_012119644v1   C 0 I 8
s otoGar3.GL873679           3073360 23 +   4132165 -tttccttt-------tctctaccctttcct
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60543347 1743 + 108143057 I
e canFam3.chr11             14918157  0 +  74389097 C
e proCoq1.NW_012155062v1     3585274 97 +  11683526 I
e cerAty1.NW_012002512v1     5278244 1303 +  26952557 I
e aotNan1.NW_018505940v1    13209732  1 -  42888418 I
e cebCap1.NW_016107590v1       11768  1 -   3089952 I
e dasNov3.JH567306           2634145  0 +   3667625 C
e mm10.chr18                55518854  0 +  90702639 C
e saiBol1.JH378106          55708776  0 -  71252344 C
e calJac3.chr2             123664896  0 - 204313951 C

a score=2997.000000
s hg38.chr5_KI270796v1_alt     92507 1 +    172708 t
s panTro5.chr5             125196504 1 + 181907262 t
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533374 1 + 183735486 t
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724983 1 +   8933513 t
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855753 1 + 163208435 c
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844628 1 + 180051392 t
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268248 1 + 181584905 t
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266616 1 +  18395747 t
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5279547 1 +  26952557 t
i cerAty1.NW_012002512v1   I 1303 C 0
s otoGar3.GL873679           3073383 1 +   4132165 t
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60543347 1743 + 108143057 I
e canFam3.chr11             14918157 0 +  74389097 C
e proCoq1.NW_012155062v1     3585274 97 +  11683526 I
e manLeu1.NW_012103321v1     4049371 0 -   4237731 C
e chlSab2.chr23             28380473 0 +  82825804 C
e aotNan1.NW_018505940v1    13209732 1 -  42888418 I
e cebCap1.NW_016107590v1       11768 1 -   3089952 I
e dasNov3.JH567306           2634145 0 +   3667625 C
e mm10.chr18                55518854 0 +  90702639 C
e saiBol1.JH378106          55708776 0 -  71252344 C
e calJac3.chr2             123664896 0 - 204313951 C
e colAng1.NW_012119644v1      317912 8 -   1175262 I

a score=1400256.000000
s hg38.chr5_KI270796v1_alt     92508 284 +    172708 ttttt----------------------------------gagacggagtctcactc-tgtca--------------------------------------------------------------------------------ccaggctggagtgcagtggcagaatcttggctcactgcaacctccgcctcccaggttcaagtgagtctcctgcctcagcctcctgagtagctgggactacaggcgtccgccaccttgcccggctaatttttttgtatttttagtagagacggggtttcaccttattggccagggtggcctcaatctcttgacctcgtggtccacccacctcggcctcccaaagtgctgggattacaggtatgagccactgtgcccag
s panTro5.chr5             125196505 318 + 181907262 tttttttttttttttttttttttttttttttttttttttgagacggagtctcactc-tgtca--------------------------------------------------------------------------------ccaggctggagtgcagtggcagaatcttggctcactgcaacctccacctcccaggttcaagtgattctcctgcctcagcctcctgagtagctgggactacaggcgtccgccaccatgcccggctaatttttttgtatttttagtagagacggggtttcaccttattggccagggtggcctcaatctcttgacctcatggtccacccacctcggcctcccaaagtgctgggattacaggtatgagccactgtatccag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533375 289 + 183735486 tgttt-----------------------------gttttgagacggagtctcactc-tgtca--------------------------------------------------------------------------------ccaggctggagtgcagtggcagaatcttggctcactgcaacctccacctcccaggttcaagtgattctcctgcctcagcctcctgagtagctgggactacaggcgtccgccaccatgcccggctaatttttttgtatttttagtagagacggggtttcaccttattggccagggtggcctcaatctcttgacctcatggtccacccacctcggcctcccaaagtgctgggattacaggtatgagccactgtatccag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1724984 284 +   8933513 ttttt----------------------------------gagatggagtctcactc-tgtca--------------------------------------------------------------------------------tcaggctggagtgcagtggcagaatcttggctcactgcaacctccacctcccaggttcaagtgattctcctgcctcagcctcctgagtagctgggactacaggcgtccgccaccatgcccagctaatttttttgtatttttagtagagatggggtttcaccttattggccagggtggcctcaatctcttgacctcgtggtccacccacctcggcctcccaaagtgctgggattacaggtatgagccactgtgcccag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139855754 278 + 163208435 ttttt----------------------------------gagacggagtctcactc-cgtca--------------------------------------------------------------------------------ccaggctggagtgcagtggcacaatcttggctcactgaaacctcagcctcctgggttcaagtgatcctcctgcctcagccccctgagtagctgggactacaggcgtctgccaccatgcccggctaacttttttgtatttttagtagagacgggatttcaccttgttggccaggatggcctcaatctcttgaac------tccacctgcctcgacctcccaaagtgctgggattacaggtgtgagccactgtgcccag
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844629 283 + 180051392 ttttt----------------------------------gagatggagtctgactc-tgtcg--------------------------------------------------------------------------------ccgggctggagggcagtggcacaatctcggctcactgcaacctccacctcccaggttcaagtgattcttctgcctcagcctcctgagtagctgggactacaggtatccaccaccatgcctggctaa-ttttttgtatttgtagtagatacagggtttcaccacgttggccaggatggtctggatctcttgaccttgtgatccacccgccttggcctcccaaagtgctgggattacaggtgtaagccaccgtgtccag
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268249 283 + 181584905 ttttt----------------------------------gagatggagtctgtctc-tgtcg--------------------------------------------------------------------------------ctgggctggagggcagtggcacaatctcggctcactgcaacctccacctcccaggttcaagtgattcttctgcctcagcctcctgagtagctgggactacaggtatccaccaccatgcctggctaa-ttttttgtatttgtagtagatacagggtttcaccacgttggccaggatggtctggatctcttgaccttgtgatccacccgccttggcctcccaaagtgctgggattacaggtgtaagccaccgtgtccag
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266617 283 +  18395747 ttttt----------------------------------gagatggagtctgactc-tgtcg--------------------------------------------------------------------------------ccgggctggagggcagtggcacaatctcggctcactgcaacctccacctcccaggttcaagtgattcttctgcctcagcctcctgagtagctgggactacaggcatccaccaccatgcctggctaa-ttttttgtatttgtagtagatacagggtttcaccacgttggccaggatggtctggatctcttgaccttgtgatccacccgccttggcctcccaaagtgctgggattacaggtgtaagccaccgtgtccag
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5279548 283 +  26952557 ttttt----------------------------------gagacggagtctgactc-tgtcg--------------------------------------------------------------------------------ccgggctggagggcagtggcacaatctcggctcactgcaacctccacctcccaggttcaagtgattcttctgcctcagcctcctgagtagctgggactacaggtatccaccaccatgcctggctaa-ttttttgtatttgtagtagatacagggtttcaccacgttggccaggatggtctggatctcttgaccttgtgatccacccgccttggcctcccaaagtgctgggattacaggtgtaagccaccgtgtccag
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380473 277 +  82825804 ----------------------------------------agacagagtctcactc-tgtcg--------------------------------------------------------------------------------ccaggctggagggcagtggcacaatctcagctcactgcaacctccgcctcccaggttcaagtgattcttctgcctcagcctcctgagtagctgggactacaggtatctaccaccatgcctggctaa-ttttttgtatttttagcagatacagggtttcaccatgttggccaggatggtctggatctcttgaccttgtgatccaccttccttggcctcccaaagtgctgggattacaggtgtaagccaccgtgtccag
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049371 277 -   4237731 ------------------------------------------atggagtttcactcttgttgc-------------------------------------------------------------------------------ccaggctggagtgcagtggcacggtctcggctcactgcaacctctacctcccaggttcaagtgattcttctgcctcagcctcctgagtagctgggactacaggtatccaccaccatgcctggctaa-ttttttgtatttgtagtagatacagggtttcaccacgttggccaggatggtctggatctcttgaccttgtgatccacccgccttggcctcccaaagtgctgggattacaggtgtaagccactgtgtccag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      317920 318 -   1175262 --------------------------------------------------------------NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN------------------gcacaatctcggctcactgcaacctccgcctcccgggttcaagtgattctcctgcctcagcctcctgagtagctgggactacaggtatccaccaccatgcctggctaa-ttttttgtatttttagtagatacagggtttcgccatgttggccaggatggtctcgatctcttgaccttgtgatccacctgccttggcctcccaaagtgctgggattacaggtgtaagtcaccgtgtccag
i colAng1.NW_012119644v1   I 8 C 0
e micMur3.chr12             60543347 1743 + 108143057 I
e canFam3.chr11             14918157   0 +  74389097 C
e proCoq1.NW_012155062v1     3585274  97 +  11683526 I
e otoGar3.GL873679           3073384   0 +   4132165 C
e aotNan1.NW_018505940v1    13209732   1 -  42888418 I
e cebCap1.NW_016107590v1       11768   1 -   3089952 I
e dasNov3.JH567306           2634145   0 +   3667625 C
e mm10.chr18                55518854   0 +  90702639 C
e saiBol1.JH378106          55708776   0 -  71252344 C
e calJac3.chr2             123664896   0 - 204313951 C

a score=963.000000
s hg38.chr5_KI270796v1_alt     92792 2 +    172708 cg
s panTro5.chr5             125196823 2 + 181907262 cg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533664 2 + 183735486 cg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1725268 2 +   8933513 cg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139856032 2 + 163208435 cg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844912 2 + 180051392 tc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268532 2 + 181584905 tc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266900 2 +  18395747 tc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5279831 2 +  26952557 tc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380750 2 +  82825804 tc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049648 2 -   4237731 tc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      318238 2 -   1175262 cc
i colAng1.NW_012119644v1   C 0 C 0
s otoGar3.GL873679           3073384 2 +   4132165 cc
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60543347 1743 + 108143057 I
e canFam3.chr11             14918157 0 +  74389097 C
e proCoq1.NW_012155062v1     3585274 97 +  11683526 I
e aotNan1.NW_018505940v1    13209732 1 -  42888418 I
e cebCap1.NW_016107590v1       11768 1 -   3089952 I
e dasNov3.JH567306           2634145 0 +   3667625 C
e mm10.chr18                55518854 0 +  90702639 C
e saiBol1.JH378106          55708776 0 -  71252344 C
e calJac3.chr2             123664896 0 - 204313951 C

a score=295211.000000
s hg38.chr5_KI270796v1_alt     92794 27 +    172708 ctttctctccc-ttttta-tttttcattt
s panTro5.chr5             125196825 27 + 181907262 ctttctctccc-ttttta-tttttcattt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533666 27 + 183735486 ctttctctccc-ttttta-tttttcattt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1725270 27 +   8933513 ctttctctccc-ttttta-tttttcattt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139856034 27 + 163208435 ctttctctccc-ttttta-tttttcattt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844914 27 + 180051392 ctttctctccc-ttttta-tttttcattt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268534 27 + 181584905 ctttctctccc-ttttta-tttttcattt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266902 28 +  18395747 ctttctctccctttttta-tttttcattt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5279833 27 +  26952557 CTTTCTCTCCC-TTTTTA-TTTTTCATTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380752 27 +  82825804 ctttctctccc-ttttta-tttttcattt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049650 28 -   4237731 ctttctctccc-tttttattttttcattt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      318240 27 -   1175262 Ctttctctccc-ttttta-tttttcattt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664896 27 - 204313951 ctttctctccc-atttta-ttttttattt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708776 27 -  71252344 ctttctctccc-ttttta-ttttttgttt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11769 27 -   3089952 ctttctctccc-ttttta-ttttttgttt
i cebCap1.NW_016107590v1   I 1 C 0
s aotNan1.NW_018505940v1    13209733 27 -  42888418 ctttctctccc-ttttta-tttttcgttt
i aotNan1.NW_018505940v1   I 1 C 0
s otoGar3.GL873679           3073386 27 +   4132165 cttcctttcct-ttcttt-cttttccttg
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60543347 1743 + 108143057 I
e canFam3.chr11             14918157  0 +  74389097 C
e proCoq1.NW_012155062v1     3585274 97 +  11683526 I
e dasNov3.JH567306           2634145  0 +   3667625 C
e mm10.chr18                55518854  0 +  90702639 C

a score=86120.000000
s hg38.chr5_KI270796v1_alt     92821 7 +    172708 tca--ttct
s panTro5.chr5             125196852 7 + 181907262 tca--ttct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533693 7 + 183735486 tca--ttct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1725297 7 +   8933513 tca--ttct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139856061 7 + 163208435 tca--ttct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844941 7 + 180051392 tca--ttct
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268561 7 + 181584905 tca--ttct
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266930 7 +  18395747 tca--ttct
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5279860 7 +  26952557 TCA--TTCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380779 7 +  82825804 tca--ttct
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049678 7 -   4237731 tca--ttct
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      318267 7 -   1175262 tca--ttct
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664923 7 - 204313951 tta--ttct
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708803 7 -  71252344 tca--ttct
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11796 7 -   3089952 tca--ttct
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209760 7 -  42888418 tca--ttct
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3073413 9 +   4132165 tcactttcc
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2634145 7 +   3667625 TTA--TTCT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60543347 1743 + 108143057 I
e canFam3.chr11             14918157 0 +  74389097 C
e proCoq1.NW_012155062v1     3585274 97 +  11683526 I
e mm10.chr18                55518854 0 +  90702639 C

a score=458706.000000
s hg38.chr5_KI270796v1_alt     92828 41 +    172708 ctttAT--TCTAATGTCAAGGTAAACA-----------CCA-----------GTTCTTGGTGACT
s panTro5.chr5             125196859 41 + 181907262 ctttat--tctAATGTCAAGGTAAACA-----------CCA-----------GTTCTTGGTGACT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533700 41 + 183735486 ctttat--tctAATGTCAAGGTAAACA-----------CCA-----------GTTCTTGGTGACT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1725304 41 +   8933513 ctttat--tctAATGTCAAGGTAAACA-----------CCA-----------GTTCTTGGTGACT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139856068 41 + 163208435 ctttat--tctAATGTCAAGGTAAACA-----------CCA-----------GTTCTTGGTGACT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844948 41 + 180051392 ctttct--tCTAATGTCAAGGTAAACT-----------CCA-----------GTTCTTAGTGACT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268568 41 + 181584905 ctttct--tCTAATGTCAAGGTAAACT-----------CCA-----------GTTCTTAGTGACT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266937 41 +  18395747 ctttct--tCTAATGTCAAGGTATACT-----------CCA-----------GTTCTTAGTGACT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5279867 41 +  26952557 CTTTCT--TCTAATGTCAAGGTAAACT-----------CCA-----------GTTCTTAGTGACT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380786 41 +  82825804 ctttct--tCTAATGTCAAGGTAAACT-----------CCA-----------GTTCTTAGTGACT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049685 41 -   4237731 ctttct--tCTAATGTCAAGGTAAACT-----------CCA-----------ATTCTTAGTGACT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      318274 41 -   1175262 ctttct--tctAATGTCAAGGTAAACT-----------CCA-----------GTTCTTAGTGACT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664930 41 - 204313951 ttttat--tctAATGTCAAGGTAAACA-----------CCG-----------ATTTTTGGTGatt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708810 41 -  71252344 ttTTAT--TCTAATGTCAAGGTAAACA-----------CCC-----------ATTTTTGGTGatt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11803 41 -   3089952 ttttat--tctAATGTCAAGGTAAACA-----------TCC-----------ATTTTTGGTGATT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209767 41 -  42888418 tttTAT--TCTAATGTCAAGGTAAACA-----------CCC-----------ATTTTTGGTGATT
i aotNan1.NW_018505940v1   C 0 I 23
s otoGar3.GL873679           3073422 52 +   4132165 tttTAT--TCGAAAGTCAAGGTAAACA-----------TTAGGGTTACACACGTTTTTGGTGATT
i otoGar3.GL873679         C 0 I 2
s canFam3.chr11             14918157 54 +  74389097 cCTTACTATCAAGTATCAAGGTAAACA-----------CTAGGGGTACTCTAGGTTATGATGATT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2634152 52 +   3667625 TTAAAT--TCTAATGTCAAGGTAAACATTAAAAGCGCTCCA-----------GTTTTGGGTGAGT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60543347 1743 + 108143057 I
e proCoq1.NW_012155062v1     3585274 97 +  11683526 I
e mm10.chr18                55518854  0 +  90702639 C

a score=911.000000
s hg38.chr5_KI270796v1_alt     92869 17 +    172708 TTTTTTTAA---------------------ATAA--------AGTT
s panTro5.chr5             125196900 16 + 181907262 TTTTTT-AA---------------------ATAA--------AGTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533741 15 + 183735486 TTTTT--AA---------------------ATAA--------AGTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1725345 16 +   8933513 TTTTTT-AA---------------------ATAA--------AGTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139856109 16 + 163208435 TTTTTT-AA---------------------ATAA--------AGAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122844989 24 + 180051392 TTTTAA-AA---------------------ataaatatatatatat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268609 24 + 181584905 TTTTAA-AA---------------------ataaatatatatatat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16266978 22 +  18395747 TTTTAA-AA---------------------ATAA--ATATATATAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5279908 24 +  26952557 TTTTAA-AA---------------------ataaatatatatatat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380827 43 +  82825804 TTTTAA-Aatatatatatatatatatatatatat--atatatatat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049726 22 -   4237731 TTTTAA-AA---------------------ATAA--ATATATATAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      318315 22 -   1175262 TTTTTA-AA---------------------ATAA--ATATATATAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664971 20 - 204313951 --taaa-aa---------------------atat--atatatatat
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55708851 15 -  71252344 --taaa-at---------------------atat--atata-----
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11844 20 -   3089952 --TTTA-AA---------------------ATAT--ATATATATAT
i cebCap1.NW_016107590v1   C 0 I 1
s otoGar3.GL873679           3073476 16 +   4132165 TTTCTT-AA---------------------ATAA--AAAC------
i otoGar3.GL873679         I 2 C 0
s canFam3.chr11             14918211 11 +  74389097 -TTTTT-TC---------------------ATAA------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2634204  8 +   3667625 --TTTA-AG---------------------AT--------------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60543347 1743 + 108143057 I
e proCoq1.NW_012155062v1     3585274 97 +  11683526 I
e aotNan1.NW_018505940v1    13209808 23 -  42888418 I
e mm10.chr18                55518854  0 +  90702639 C

a score=120298.000000
s hg38.chr5_KI270796v1_alt     92886 17 +    172708 TTTTTTT---GCCTAAATAA
s panTro5.chr5             125196916 19 + 181907262 TTTTTTT-TTGCCTAAATAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533756 18 + 183735486 TTTTTTT--TGCCTAAATAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1725361 17 +   8933513 TTTTTTT---GCCTAAATAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139856125 20 + 163208435 TTTTTTTTTTGCCTAAATGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122845013 17 + 180051392 atatTTT---GCCTAAATAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268633 17 + 181584905 atatTTT---GCCTAAATAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16267000 17 +  18395747 ATATTTT---GCCTAAATAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5279932 17 +  26952557 atatTTT---GCCTAAATAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380870 17 +  82825804 atatata---GCCTAAATAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049748 17 -   4237731 ATATTTT---GCCTAAATAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      318337 17 -   1175262 ATTTTTT---GCCGAAATAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123664992 17 - 204313951 ttatttt---GCCTAAATAA
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55708866 13 -  71252344 ----ttt---GCCTAAATAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11865 16 -   3089952 TTT-TTT---TCCTAAATAA
i cebCap1.NW_016107590v1   I 1 C 0
s aotNan1.NW_018505940v1    13209831 17 -  42888418 ttatTTT---GCCTAAATAA
i aotNan1.NW_018505940v1   I 23 C 0
s otoGar3.GL873679           3073492 14 +   4132165 ---ATTT---GCTAATGTGG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14918222 13 +  74389097 ----TTT---TCATTAATAC
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2634212 17 +   3667625 TATTTTT---GCTAATACAG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60543347 1743 + 108143057 I
e proCoq1.NW_012155062v1     3585274 97 +  11683526 I
e mm10.chr18                55518854  0 +  90702639 C

a score=1195697.000000
s hg38.chr5_KI270796v1_alt     92903 92 +    172708 GACATAAGCAACTTGATCCCTCACACTTAATACATCCAGTCC--------TAACTTGTATT--GGAAAGCTAGTTCCAAGGCTGGTGTTTTGTATATATGGT
s panTro5.chr5             125196935 92 + 181907262 GACATAAGCAACTTGATCCCTCACACTTAATACATCCAGTCC--------TAACTTGTATT--GGAAAGCTAGTTCCAAGGCTGGTGTTTTGCATATATGGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533774 92 + 183735486 GACATAAGCAACTTGATCCCTCACACTTAATACATCCAGTCC--------TAACTTGTATT--GGAAAGCTAGTTCCAAGGCTGGTGTTTTGCATATATGGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1725378 92 +   8933513 GACATAAGCAACTTGATCCCTCACACTTAGTACATCCAGTCC--------TAACTTGTATT--GGAAAGCTAGTTCCAAGGCTGGTGTTTTGCATATATGGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139856145 92 + 163208435 GACATAAGCAACTTGATCCCTCACACTTAATACATCCAGTCC--------TAACTTGTATT--GGAAAGCTAGTTCCAAGGCTAGTGTTTTGCATATATGGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122845030 92 + 180051392 GACATAAGTAACCTGATCCCTCACACTTAATACATCCAGTTC--------TAACTTGTATT--GGAAAGCTAGTTCCAAGGCTGGTGTTTTGTGTATATGGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268650 92 + 181584905 GACATAAGTAACCTGATCCCTCACACTTAATACATCCAGTTC--------TAACTTGTATT--GGAAAGCTAGTTCCAAGGCTGGTGTTTTGTGTATATGGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16267017 92 +  18395747 GACATAAGTAACCTGATCCTTCACACTTAATACATCCAGTTC--------TAACTTGTATT--GGAAAGCTAGTTCCAAGGCTGGTGTTTTGTGTATATGGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5279949 92 +  26952557 GACATAAGTAACCTGATCCTTCACACTTAATACATCCAGTTC--------TAACTTGTATT--GGAAAGCTAGTTCCAAGGCTGGTGTTTTGTGTATATGGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380887 92 +  82825804 GACATAAGCAACCTGATCCCTCACACTTAATACATCCAGTTC--------TAACTTGTATT--GGAAAGCTAGTTCCAAGGCTGGTGTTTTGTGTATATGGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049765 92 -   4237731 GACATAAGTAACCTGATCCCTCACACTTAATACATCCAGTTC--------TAACTTGTATT--GGAAAGCTAGTTCCAAGGCTGGTGTTTTGTGTATATGGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      318354 92 -   1175262 GACATAAGCAACCTGATTCCTCACACTTACTACATCCAGTTC--------TAACTTGTATT--GGAAAGCTAGTTCCAAGGCTGGTGTTTTGTGTATATGGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123665009 94 - 204313951 GACATAAGCAATTTGATTCCTCACACTTAATACATCCAGTCC--------TAACTTGTATTGAGAAAAGCTAGTTCCGAGGCTGGTGTTTTACTTATTTGGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708879 92 -  71252344 GACATAAGCAATTTGATTCCTCACACTTAATACATCCAGTCC--------TAACTTGTATT--GAAAAGCTAGTTCCGAGGCTGGTGTTTTATATATTTGGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11881 88 -   3089952 GACATAAGCAATTTGATTCCTCAC----AATACATCCAGTCC--------TAACTTGTATT--GAAAAGCTAGTTCTGAGGCTGGTGTTTTATATATTTGGT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209848 92 -  42888418 GACATAAGCAATTTGATTCCTCACACTTAATACATCCAGTCC--------TAACTTGTATT--GAAGAGCTAGTTCCGAGGCTGGTGTTTTATATATTTGGT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3585371 91 +  11683526 GACATAAGGAACTAGAGTCCTCACACT-AATACATTTAGTCC--------TAGTTTGTATT--GAAAGGCTAGTTTCATGGCTGGTGCTTTGCAAATACTGG
i proCoq1.NW_012155062v1   I 97 C 0
s otoGar3.GL873679           3073506 91 +   4132165 GACGTAAGGAAGTAGATTCCCCACACA-AATACATGTGGTCC--------TAGTTTGTCTC--GAAAAGCTCGTTTCGGGGATGGTGCTTTGCCAATGCTGT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14918237 90 +  74389097 GATGTCAGTGAC-AAATGCCACATATT-AATACTTCTAGCTG--------AAGTTTGTATC--AAAATGCTAGTTTCAAGGCTGGTATTTTGCATGTACTGG
i canFam3.chr11            I 2 C 0
s dasNov3.JH567306           2634229 99 +   3667625 AGCATAAATTGCTAGTTTCCTCACACT-AATAGATCCAGCACAGTAAATATAGCTTGTATT--GAAAAGCTAGTTCCAAGACTGGTAATTTGCATATACTGG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60543347 1743 + 108143057 I
e mm10.chr18                55518854  0 +  90702639 C

a score=261067.000000
s hg38.chr5_KI270796v1_alt     92995 15 +    172708 GAGCCTAATACCACA
s panTro5.chr5             125197027 15 + 181907262 GAGCCTAATACCACA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533866 15 + 183735486 GAGCCTAATACCACA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1725470 15 +   8933513 GAGCCTAATACCACG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139856237 15 + 163208435 GAGCCTAATACCACA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122845122 15 + 180051392 GAGCCTAATACCACA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268742 15 + 181584905 GAGCCTAATACCACA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16267109 15 +  18395747 GAGCCTAATACCACA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5280041 15 +  26952557 GAGCCTAATACCACA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380979 15 +  82825804 GAGCCTAATGCCACA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049857 15 -   4237731 GAGCCTAATACCACA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      318446 15 -   1175262 GAGCCTAATACCACA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123665103 15 - 204313951 GAGCCTAATACCACG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708971 15 -  71252344 GAGCCTAATACCACG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11969 15 -   3089952 GAGCCTAATACCACG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209940 15 -  42888418 GAGCCTAATACCACG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60545090 15 + 108143057 GAGCCTAATACCACT
i micMur3.chr12            I 1743 C 0
s proCoq1.NW_012155062v1     3585462 15 +  11683526 GAGCCTAATACCATT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3073597 15 +   4132165 GAGCCTAATACCACC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14918327 15 +  74389097 GAGCCTAATATCACT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2634328 15 +   3667625 AAGCCTAATGCCATT
i dasNov3.JH567306         C 0 I 691
e mm10.chr18                55518854  0 +  90702639 C

a score=287874.000000
s hg38.chr5_KI270796v1_alt     93010 20 +    172708 GATGGCCTCTGTGTGGATGC
s panTro5.chr5             125197042 20 + 181907262 GATGGCCTCTGTGTGGATGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533881 20 + 183735486 GATGGCCTCTGTGTGGATGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1725485 20 +   8933513 GATGGCCTCTGTGTGGATGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139856252 20 + 163208435 GATGGCCTCTGTGTGGCTGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122845137 20 + 180051392 GATGGCCTCTATGTAGATGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268757 20 + 181584905 GATGGCCTCTATGTAGATGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16267124 20 +  18395747 GATGGCCTCTATGTAGAGGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5280056 20 +  26952557 GATGGCCTCTATGTAGATGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28380994 20 +  82825804 GATGGCCTCTATGTAGATGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049872 20 -   4237731 GATCGCCTCTATGTAGATGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      318461 20 -   1175262 GATGGCCTCTGTGTAGATGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123665118 20 - 204313951 GATAGCCTCTGTGTGGATGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55708986 20 -  71252344 GATAGCCTCTGGGTGGATGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       11984 20 -   3089952 GATAGCCTCTGTGTGGATGC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209955 20 -  42888418 GATAGCCTCTGTGTGGATGC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60545105 20 + 108143057 GATGGCCTCTGTGTGAGTGC
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3585477 20 +  11683526 GATGGCCTCTGTGTGAATGC
i proCoq1.NW_012155062v1   C 0 I 220
s otoGar3.GL873679           3073612 20 +   4132165 GGTGGCGTGTGTGTGGCTGC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14918342 17 +  74389097 GGTGGCCTCCATATGGA---
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2635034 20 +   3667625 GATAGTCTTTGATGGGGTGC
i dasNov3.JH567306         I 691 C 0
e mm10.chr18                55518854  0 +  90702639 C

a score=104400.000000
s hg38.chr5_KI270796v1_alt     93030 9 +    172708 AGGGACCCT
s panTro5.chr5             125197062 9 + 181907262 AGGGACCCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533901 9 + 183735486 AGGGACCCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1725505 9 +   8933513 AGGGACCCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139856272 9 + 163208435 AGGGACCCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122845157 9 + 180051392 AGGGACCCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268777 9 + 181584905 AGGGACCCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16267144 9 +  18395747 AGGGACCCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5280076 9 +  26952557 AGGAACCCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28381014 9 +  82825804 GGGGACCCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049892 9 -   4237731 AGGGACCCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      318481 9 -   1175262 AGGGACCCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123665138 8 - 204313951 AGGGACCC-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55709006 8 -  71252344 AGGGACCC-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       12004 8 -   3089952 AGGGACCC-
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209975 8 -  42888418 AGGGACCC-
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60545125 9 + 108143057 AGGGACCCT
i micMur3.chr12            C 0 I 210
s otoGar3.GL873679           3073632 9 +   4132165 AGGAACCCT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14918359 4 +  74389097 -----CTCT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2635054 9 +   3667625 AGAGAACCT
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3585497 220 +  11683526 I
e mm10.chr18                55518854 0 +  90702639 C

a score=888909.000000
s hg38.chr5_KI270796v1_alt     93039  92 +    172708 ACATTGTAGATTATTCTGAAAGTTCTACTATTAATAGCCAGTGT-AATAATTGAACACT--------------TTCTTGATTAGCTTAT-TTTGTGGAGTGGGGGGAG
s panTro5.chr5             125197071  92 + 181907262 ACATTGTAGATTATTCTGAAAGTTCTACTATTAATAGCCAGTGT-AATAATTGAACACT--------------TTCTTGATTAGCTTAT-TTTGTGGAGTGGGGGGAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126533910  92 + 183735486 ACATTGTAGATTATTCTGAAAGTTCTACTATTAATAGCCAGTGT-AATAATTGAACACT--------------TTCTTGATTAGCTTAT-TTTGTGGAGTGGGGGGAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1725514  92 +   8933513 ACATTGTAGATTATTCTGAAAGTTCTACTATTAATAGCCAGTGT-AATAATTGAACACT--------------TTCTTGATTAGCTTAT-TTTGTGGAGTGGGGGGAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139856281  92 + 163208435 ACATTGTAAATTATTCTGAAAGTTCTACTATTAATAGCCAGTGT-AATAATGGAACGTT--------------TTCTTGATTAGCTTAT-TTTGTTCAGTGGGGGGAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122845166 101 + 180051392 ACATTGTATTTTATTCTGAAAGTTCTACT----TTAGCCAGTGT-AATAACTGAACACT-AAATTATGGTAGATTCTTGATTAGCTTAT-TTTGTGGAGTGGGGGGAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268786 101 + 181584905 ACATTGTATTTTATTCTGAAAGTTCTACT----TTAGCCAGTGT-AATAACTGAACACT-AAATTATGGTAGATTCTTGATTAGCTTAT-TTTGTGGAGTGGGGGGAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16267153 101 +  18395747 ACATTGTATTTTATTCTGAAAGTTCTACT----TTAGCCAGTGT-AATAACTGAACACT-AAATTATGGTAGATTCTTGATTAGCTTAT-TTTGTGGAGTGGGGGGAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5280085 101 +  26952557 ACATTGTATTTTATTCTGAAAGTTCTACT----TTAGCCAGTGT-AATAACTGAACACT-AAATTATGGTAGATTCTTGATTAGCTTAT-TTTGTGGAGTGGGGGGAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28381023 101 +  82825804 ACATTGTATTTTATTCTGAAAGTTCTACT----TTAGCCAGTGT-AATAACTGAACACT-AAATTATGGTAGATTCTTGATTAGCTTAT-TTTGTGGAGTGGGGGAAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4049901 101 -   4237731 ACATTGTATTTTATTCTGAAAGTTCTACT----TTAGCCAGTGT-AATAACTGAACACT-AAATTATGGTAGATTCTTGATTAGCTTAT-TTTGTGGAGTGGGGGGAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      318490 101 -   1175262 ACATTGTATTTTATTCTGAAAGTTCTACT----TTAGCCAGTGT-AATAACTGAACACT-AAATTATGGTAGATTCTTGATTGGCTTAT-TTTGTGGAGTGGGGGGAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123665146  91 - 204313951 -----------TATTCTGAAAGTTTTACTATAAATAGCCAATGA-AATGATTGAACACT-AAATGATGATAGATTCTTGATTAGCTTAT-TTTGTGG---GAGGGGAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55709014  91 -  71252344 -----------TATTCTGAAAGTTTTACTATAAATAGCCAATGA-AATGATTGAACAAT-AAATGATGATAGATTCTTGATTAGCTTAT-TTTATGG---GAGGGGAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       12012  91 -   3089952 -----------TATTCTGAAAGTTTTGCTATAAATAGCCAATGA-AATGATTGAACACT-AAATGATGATAGATTCTTGATTAGCTTAT-TTTGTGG---GAGGGGAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13209983  91 -  42888418 -----------TATTCTGAAAGTTTTACTATAAATAGCCAATGA-AATGATTGAACACT-AAATGATGATAGATTCTTGATTAGCTTAT-TTTTTGG---GAAGGGAG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3073641 104 +   4132165 GGATTGTGAATTGTCCTGAAAGCTCTGCCATTGGTAGCTAATGTAAATTATTGAACTCAAAAATGATGGTAGATTCTAGATTAGGCTAT-ATTGGGA---GGTGGTGT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14918363 103 +  74389097 GAATTGTGGATCATTCTGAAAATTCTACCATGAATAGCCAGT---AATCCCCAAATACA-AAACAATAGTGGAATCTAGGGTAGACTCC-TATTTGGGGAGGCTAGTG
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2635063 100 +   3667625 GGATTGTGGGTTATCCTGAAAGCATCA------ATAGCCAAAGT-AATGATTGAATACA-AAATGATAGTAGATGCTAGATTAGATTCTACCTTTGGGGTGTGTTAAT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60545134 210 + 108143057 I
e proCoq1.NW_012155062v1     3585497 220 +  11683526 I
e mm10.chr18                55518854   0 +  90702639 C

a score=1177702.000000
s hg38.chr5_KI270796v1_alt     93131 114 +    172708 TGGAACAGAGGACAA----AATGATTTC-----TTATGCTTAC-------C-------C-------AGA-------------GTAT---GGAATAACTGCGAGGCATTGCTTAAAGCTATTT---AATTAAAATATTAAAATGAC-----------------------CAAAAAACACAGGAATCG
s panTro5.chr5             125197163 114 + 181907262 TGGAACAGAGGACAA----AATGATTTC-----TTATGCTTAC-------C-------C-------AGA-------------GTAT---GGAATAACTGCAAGGCATTGCTTAAAGCTATTT---AATTAAAATACTAAAATGAC-----------------------CAAAAAACACAGGAATCG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126534002 114 + 183735486 TGGAACAGAGGACAA----AATGATTTC-----TTATGCTTAC-------C-------C-------AGA-------------GTAT---GGAATAACTGCAAGGCATTGCTTAAAGCTATTT---AATTAAAATACTAAAATGAC-----------------------CAAAAAACACAGGAATCG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1725606 106 +   8933513 TGGAACAGAGGACAA----AATGATTTC-----TTATGCCTAC-------C-------C-------AGA-------------GTAT---GGAATAACTGCAAGGCATTGCTTAAAGCTATTT---AAT--------TAAAATGAC-----------------------CAAAAAACACAGGAATCG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139856373 106 + 163208435 TGGAACAGCGGACAA----AATGATTTC-----TTATGCCTAC-------C-------C-------AGA-------------GTAT---GTAATAACTGCAAGGCATTGCTTAAAGCTATTT---AAT--------TAAAATGAC-----------------------CAAAAAACGCTTGAAACA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122845267 122 + 180051392 TGGAACAGAGGACAA----AATGATTTC--TTTTTATGCCTAC-------C-------C-------AGAGTATGTCATAACCGTAT---GTAATAACTGCAAGGCATTGCTTAAAGCTATTT---AAT--------TAAAATGAC-----------------------CAAAAAACACATGAAATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124268887 122 + 181584905 TGGAACAGAGGACAA----AATGATTTC--TTTTTATGCCTAC-------C-------C-------AGAGTATGTCATAACCGTAT---GTAATAACTGCAAGGCATTGCTTAAAGCTATTT---AAT--------TAAAATGAC-----------------------CAAAAAACACATGAAATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16267254 122 +  18395747 TGGAACAGAGGACAA----AATGATTTC--TTTTTATGCCTAC-------C-------C-------AGAGTATGTCATAACCGTAT---GTAATAACTGCAAGGCATTGCTTAAAGCTATTT---AAT--------TAAAATGAC-----------------------CAAAAAACACATGAAATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5280186 122 +  26952557 TGGAACAGAGGACAA----AATGATTTC--TTTTTATGCCTAC-------C-------C-------AGAGTATGTCATAACCGTAT---GTAATAACTGCAAGGCATTGCTTAAAGCTATTT---AAT--------TAAAATGAC-----------------------CAAAAAACACATGAAATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28381124 122 +  82825804 TGGAACAGAGGACAA----AATGATTTC--TTTTTATGCCTAC-------A-------C-------AGAGTATGTAATAACCGTAT---GTAATAACTGCAAGGCATTGCTTAAAGCTATTT---AAT--------TAAAATGAC-----------------------TAAAAAACACATGAAATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4050002 122 -   4237731 TGGAACAGAGGACAA----AATGATTTC--TTTTTATGCCTAC-------C-------C-------AGAGTATGTCATAACCGTAT---GTAATAACTGCAAGGCATTGCTTAAAGCTATTT---AAT--------TAAAATGAC-----------------------CAAAAAACACATGAAATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      318591 122 -   1175262 TGGAACAGAGGACAA----AATGATTTC--TTTTTATGCCTAC-------C-------C-------GGAGTATGTAGTAACTGTAT---GTAATAACTGCAAGGCATTGCTTAAAGCTATTT---AAT--------TAAAATGAC-----------------------CAAAAACCACATGAAATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123665237 119 - 204313951 TGGAAGAGAAGA-AA----AATGATTTC--TTTTTATGCCTAC-------C-------C-------AGAGTATGTAATAA--CTAT---GTAATAACTGCAAGGCATTGCTTAAAGCTATTG---AAT--------TAAAATAAC-----------------------CAAAATACACATGAAACG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55709105 119 -  71252344 TGGAAGAGAGGA-AA----AATGATTTC--TTTTTATGCATAC-------C-------C-------GGAGTATGTAATAA--CTAT---GTAATAACTGCAAGGCATTGCTTAAATCTATTG---AAT--------TAAAATAAC-----------------------CGAAAACCACATGAAACG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       12103 119 -   3089952 TGGAAGAGAGGA-AA----AATGATTTC--TTTTTATGCCTAC-------C-------C-------AGAGTATGCAATAA--CTAT---GTAATAACTGCAAGGCATTGCTTAAGGCTATTG---AAT--------TAAAATAAC-----------------------CGAAAAACACATGAAACG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13210074 108 -  42888418 TGGAAGAGAGGA-AA----AATGATTTC--TTTTTATGCCTAC-------C-------C-------AGAG-------------TAT---GTAATAACTGCAAGGCATTGCTTAAAGCTATTG---AAT--------TAAAATAAC-----------------------CAAAAAACACATGAAACG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3073745 130 +   4132165 TGGAAATGAGGGCAA----AATGATTTTTTTTTCTATGCCTGC-------C-------C-------AGA-------------GTAT---GTAACAAGTGGGAGACAGAACT--AAATTAAAA---GAA--------TGAAACAACATATAACCTTACTACCATAGTTACATATAACACATGTAA--
i otoGar3.GL873679         C 0 I 12
s mm10.chr18                55518854 126 +  90702639 TAAAGCAAAGAAGAATATGAATGACTTC--TTTCTCTACCTACTGTCTTTT-------C-------AGA-------------CTATAAGGTAATAACAGGAAGGCATTTCTTAAAGCTATTTTCAaaa--------aaaaaaaac-----------------------cagaaaaaacaagaacag
i mm10.chr18               C 0 I 27
s canFam3.chr11             14918467 116 +  74389097 TGGAAGGGAGGACAG----GATGATTTC--ATGCTATGCCTAC-------CCTCCTTTC-------AGA--------------TAA---GTAATAACTGGAAGACATTGCTTAAAGCTATTT--GAAT--------TAAAAGAAC-----------------------AAACTAACACATAAAACT
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2635163 111 +   3667625 TTTTCCCTATGGTGT----GATAATTTT--TTTCTATGCCTGT-------C-------CTCTTCTAAGA-------------GTAG---GTAATAAGTGGAAGGCATTGCTTAAAGCCATTG--------------TAAAA--AC-----------------------AAAAGAACACATAAAACC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60545134 210 + 108143057 I
e proCoq1.NW_012155062v1     3585497 220 +  11683526 I

a score=1160922.000000
s hg38.chr5_KI270796v1_alt     93245 71 +    172708 CCAGCAATGTTACGAGTCAGCAGTGGAAATGTTCCTTGTCAATCATGGGAAGAATGCTGAGCTTCAA-----CCAT
s panTro5.chr5             125197277 71 + 181907262 CCAGCAATGTTACGAGTCAGCAGTGGAAATGTTCCTTGTCAGTCATGGGAAGAATGCTGAGCTTCAA-----CCAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126534116 71 + 183735486 CCAGCAATGTTACGAGTCAGCAGTGGAAATGTTCCTTGTCAGTCATGGGAAGAATGCTGAGCTTCAA-----CCAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1725712 71 +   8933513 CCAGCAATGTTACGAGTCAGCAGTGGAAATGTTCCTTGTCAGTCATGGGAAGAATGCTGAGCTTCAA-----CCAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139856479 71 + 163208435 CCAGCAGTGTTATGAGTCAGCAGTAGAAATGTTCCTTGTCAGTCATGGGAAGAATGCTGAGCTTCAG-----CAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122845389 71 + 180051392 CCAGCAATGTTATGAGTCAGCAGTAGAAATGTTCCTTGTCAGTCACGGCAAGAATGCTGAGCTTCAA-----CCAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124269009 71 + 181584905 CCAGCAATGTTATGAGTCAGCAGTAGAAATGTTCCTTGTCAGTCACGGCAAGAATGCTGAGCTTCAA-----CCAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16267376 71 +  18395747 CCAGCAATGTTATGAGTCAGCAGTAGAAATGTTCCTTGTCAGTCACGGCAAGAATGCTGAGCTTCAA-----CCAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5280308 71 +  26952557 CCAGCAATGTTATGAGTCAGCAGTAGAAATGTTCCTTGTCAGTCACGGCAAGAATGCTGAGCTTCAA-----CCAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28381246 71 +  82825804 CCAGCAATGTTATGAGTCAGCAGTAGAAATGTTCCTTGTCAGTCACTGCAAGAATGCTGAGCTTCAA-----CCAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4050124 71 -   4237731 CCAGCAATGTTATGAGTCAGCAGTAGAAATGTTCCTTGTCAGTCACGGCAAGAATGCTGAGCTTCAA-----CCAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      318713 71 -   1175262 CCGGCAATGTTATGAGTCAGCAGTAGAAATGTTCCTTGTCAGTCATGGCAAGAATGCTGAGCTTCAA-----CCAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123665356 71 - 204313951 CCAGCGATGTTATGAGTCAGCAGTAGAAATGTTCCTTGTCAGTCATGGGAAGAATGCTGAGCTTCAA-----CCAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55709224 71 -  71252344 CCAGCGATGTTATGAGTCAGCAGTAGAAATGTTCCTTGTCAGCCATGAGAAGAATGATGAGCTTCAG-----CCAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       12222 71 -   3089952 CCAGCGATGTTATGAGTCAGCAGTAGAAATGTTCCTTGTCAGTCATGGGAAGAATGCTGAACTTCAA-----CCAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13210182 71 -  42888418 CCAGCGATGTTGTAAGTCAGCAGTAGAAATGTTGCTTGGCAGTCATGGGAAGAATGCTGAGCTTCAA-----CCAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60545344 71 + 108143057 CCAGCAATGTTATGAGTCAGCAGTAGAAATGTTCCTTGTCAGTCATGGAAGGGATGCTGAGCTTCAT-----CCAT
i micMur3.chr12            I 210 I 70
s proCoq1.NW_012155062v1     3585717 71 +  11683526 CCAGCAATGTTATGAGTCAGCAGTAGAAATGTTCCTTGTCAGTCATGGGAGGGATGCTGAGCTTCAT-----CCAT
i proCoq1.NW_012155062v1   I 220 C 0
s otoGar3.GL873679           3073887 70 +   4132165 ACAGAACCGCCAT-AGTTGGCAGTCGAAATGTTCCTTGTCCATCCTGGGAGGGATGCGGAGCTTCAT-----CCAT
i otoGar3.GL873679         I 12 C 0
s mm10.chr18                55519007 72 +  90702639 CCTGCCATATCAGAATTCAGAAGTAGGACTGTTCTTTGTCAGCCA-AGTAGGTATCC---GCGTCAGTGTGTCCAC
i mm10.chr18               I 27 C 0
s canFam3.chr11             14918583 67 +  74389097 CCAGAAATATTATGAGTCAGCAGTAGGAATGTTCCTTGTCAATCAC----AGGATGCTAAGCTTCAT-----CCAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2635274 67 +   3667625 ATAGCAAGGTTATGAGTCAGCAGGAAGAATTTTCCTTGTCTGTCAC----AGGATGAGGAGTTTTGT-----CCAT
i dasNov3.JH567306         C 0 C 0

a score=508785.000000
s hg38.chr5_KI270796v1_alt     93316 77 +    172708 CTCAAGCGCATATAACCCCATTGG------TTT------------TT-----CT-TT--------------------TT------------GG--CAGTCTTGGTCC--aaaaaaaaaaaaaaa-aaaa------ccacaccaa
s panTro5.chr5             125197348 83 + 181907262 CTCAAGCGCATATAACCCCATTGG------TTT------------TT-----CT-TT--------------------TT------------GG--CAGTCTTGGTCC--aaaaaaaaaaaaaaa-aaaaaaaaaaccacaccaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126534187 83 + 183735486 CTCAAGCGCATATAACCCCATTGG------TTT------------TT-----CT-TT--------------------TT------------GGTCTAGTCTTGGTAC--Caaaaaaaaaaaaaa-aaaa--aaaccaacaccaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1725783 78 +   8933513 CTCAAGTGCATATAACCCTGTTGG------TTT------------TT-----CT-TT--------------------TT------------GG--CAGTCTTGGTCC--aaaaaaaaaaaaaaa-aaaa-----aacacaccaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139856550 68 + 163208435 CTCAAGCGCATATAACCCCATTGG------TTT------------TT-----CT-TT--------------------TT------------GG--CAGTCTTGGTCC--aaaaaaaaaaaaaaa-aaaa---------------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122845460 83 + 180051392 CTCAAGCGCACATAACCCCATTGG------TTT------------TT-----CT-TT--------------------TT------------GT--CAGTCTTGGTCC--aaaaaaaaaaaaaac-aaaaaaccaaaaccaccaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124269080 75 + 181584905 CTCAAGCGCACATAACCCCATTGG------TTT------------TT-----CT-TT--------------------TT------------GT--CAGTCTTGGTCC----------AAAAAAC-AAAAAACCAAAACCACCAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16267447 86 +  18395747 CTCAAGCGCACATAACCCCATTGG------TTT------------TT-----CTGTT--------------------TT------------GT--CAGTCTTGGTCCaaaaaaaaaaaaaaaac-aaaaaaccaaaaccaccaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5280379 83 +  26952557 CTCAAGCGCACATAACCTCATTGG------TTT------------TT-----CT-TT--------------------TT------------GT--CAATCTTGGTCC--aaaaaaaaaaaaaaa-aaaaaaCCGAAACCACCAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28381317 79 +  82825804 CTCAAGCGCACATAACCTCATTGG------TTT------------TT-----CT-TT--------------------TT------------GT--CAGTCTTGGTCC--aaaaaaaaaaa-----aaaaaaCTGAAACCACCAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4050195 84 -   4237731 CTCAAGCGCACATAACCCCATTGG------TTT------------TT-----CT-TT--------------------TT------------GT--CGGTCTTGGTcc--aaaaaaaaaaaaaaccaaaaaaccaaaaccaccaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      318784 78 -   1175262 CTCAAGCGCACATAACCCCATTGG------TTT------------TT-----CT-TT--------------------TT------------GT--CAGTCTTGGTCC--aaaaaaaaaa------aaaaaaccaaaaCCACCAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123665427 63 - 204313951 CTCAAACTCGTATAACCTTATTGG------CGG------------TT-----CT-TT--------------------TT------------GG--CAGTCTTGGTCC--AAAAC-----------AAAAAAC----------AA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55709295 74 -  71252344 TTCAAACTCACATAACCTCGGTGG------TGG------------TT-----CT-TT--------------------TT------------GG--CAGTGTTGGTCC--AAAACAAACAAAAAA-AAAAAACA---------AA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       12293 64 -   3089952 CTCAAACTCATATAACCTCATTGG------TGG------------TT-----CT-TT--------------------TT------------GG--CAGTGTTGGTCG--aaaaa---------a-aaaaaac----------aa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13210253 62 -  42888418 CTCAAACTCATATAACCTCATTGG------T-G------------TT-----CT-TT--------------------TT------------GG--CAGTTTTGGTCC--AAAAC-----------AAAAAAC----------AA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3585788 72 +  11683526 -TTGAAGTGATATAACCCCATTAT------GCT------------TTGGGGATT-TT--------------------TT-----------AGG--CAGTCTCGGTCa--aaaaaaaaaaaaaaa-aaa----------------
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3073957 86 +   4132165 -TTCAAGTCATATAACCCCACTGA------GCT------------TTGGGTGCT-TT--------------------TTCCCCCCCCCTCAGG--CAGTCTCAGTCA--AAAAGAAAGAAAAAA-AAAAAC-------------
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55519079 78 +  90702639 TTCAAAC-CATGTAAGCTCTTAGG------CTTAATGTTATTTTATT-----TA-TT--------------------TT------------AT--CAGTCTCA-TCC--AAGAAGGAAGACAAA-AACA---------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14918650 79 +  74389097 TTAGAGTGTATATAAACCCTTAGG------GCT------------TT-----TT-TTGGCCGGGGGGGAGGGAGAGGGT------------CG--CTGTCTCAGTCC--AAAAAAAGAA-------------------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2635341 65 +   3667625 TTCAAGTCCTTATAACCCATTAGGCGCCCCTCC------------CC-----CT-TC--------------------TT------------TC--CAATCTCAATTC--AAAAAGAGGA-------------------------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60545415 70 + 108143057 I

a score=31859742.000000
s hg38.chr5_KI270796v1_alt     93393 1960 +    172708 aaaaaCCTCAAAACATTGATCATGCCAGGTTAGATTTTACCAGGGATTTAAAGTCA----CCACCACCCTCCACAGC--------CCTCA-TTCATGCTCAGCTGCTA-----------------CAAATAATGGCCTAGCACGAATTGGTTTACAATCCTGGTGGACTCCT---ACAGAGCTAATAAATCCAGAAATATTACTT-GGATGGAAACATATGATAATCAC----ATGATGA----------CTTTTTA-----AATACATTCCGTAGTCTCATGTATAAAAAT-------------------AAAAAACGTG-CAGGGCTTAGATATCCCTTCATTGTATCAAATTAAATTGGATTTAATGCCTGGTGGTGTGTCATCCAGCTCAGACCCATTTGCACAAGGCTGTGGAGTA-CAGAGCTGGTTCAGATGAATGAATAGCTTTCTCATGACTTCACCCCCACTCTGCTGTCTCTTTTCCTGTCCTTTGTATTGTAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCTGGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTAAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACCTGAAAAGTCCTCCCAAGCCCTTCC---CCCACCCCCACCCCC-------------TTTTTTTT--AATCCCTTAGACTAATTAGTCTGATGTAAACTCACAGCACTTCATTTACTGTTACTGAGTCTGCTGTTTAGCTGATCTAGGCTCTGAGCTTAACAGCTTGTAATAG-AA-G-GGAAGTTGTAAAAA--GAAAGA-----------------------AATTAGGTTCACTGCACACAGCTAGTTAAT---AAAAAAAAA--------TCCTTTTAATAAACCACCAATCATCGCTAGTCATTTCCTCATTCat---atacatata----------------------------------------------ta--tgtatata------------tCAGAATGGCT-TATTTC--------AGTTACAATA--TTAGTTACAGGAGATTCAGGAAAGCCAAATAACAAATATATTAGTGAAGAATCAC-TTCTATCAAAATAATTATTCTGTGTCCATATAGAT-----TGAAAAATACTATTTACATATAAATTTGGA----AG----AGACAG---AT-CCTTT--TTTGTAAACTAAACAACCAAAGAAATAAAATAAAAAACAAATGAAGAATGATGGA-----AAAATCATTAAAATTTAAATCCCATTCTC-TGATTGATGCGTGATACTACCTGAC------CTGTTAC--ATGTTCATTCACTCATCCAAACATC-AAACATTT-ATTAATGATATAATGTGACTCGATGGGATGATACAAATACATTATTGTAAATCTGTACATTGACACCTATAGAATGTTTT-AAAATGCCACAACAGAAA------AGTTTATATGACCTATCTACTGAGTATCATTTTCTACTTGGATTCTTAGA-AAAGACCTTGCCATT-AATAATTGCGAGAATAAAACACAGTAACACTTCAAAAGG---T----CTCTTATTCAGCAAGCTAAGAAAAGAA-----ACAAGAATCATAAAATAACAACAA----A---AATATTGCCATTGagaaccaaaacaagtcccagagctattaaaggagcttaaagacca-ctgagtc----cagctccatattttac----------agaag-aaaaaaactgaaattcagagagtttaagtgattttccagggctatatgaagaactattatcaagttcatcagaaggtcacc-tgaGgcccctctaggc-ccccattccaggc-----atgttcccttttatctgatattggatacaattatagcaagatgcattatttgatttcccaaactgcagcagattagaagtcacaaa----ttagaggctgaaagagaatttctagaggcTTAGTGTTCAGATGCTGTGAAACATGAGAACACATG--ATAAAATTTGGAACCTGCTAAGCAAAAAT-----TAATCTGG-A-CAAGATGGTCTCTTGG-TAACACTCAAATCTAGGGGACAAATAAATGTC---------------------------------------------------------------------------AG-AAAAAAA-TTCTTAATTTTACAATGCAGAACTGTGCTGCCTTTGATCATCCTATTT----GAT
s panTro5.chr5             125197431 1968 + 181907262 aaaaaCCTCAAAACATTGATCATGCCAGGTTAGATTTTACCAGGGATTTAAAGTCA----CCACCACCCTCCACAGC--------CCTCA-TTCATGCTCAGCTGCTA-----------------CAAATAATGGCCTAGCACGAATTGGTTTACAATCCTGGTGGACTCCT---ACAGAGCTAATAAATCCAGAAATACTACTT-GGATGGAAACATATGATAATCAC----ATGATGA----------CTTTTTT-----AATACATTCCGTAGTCTCATGTATAAAAAT-------------------AAAAAACGTG-CAGGGCTTAGATATCCCTTCATTGTATCACATTAAATTGGATTTAATGCCTGGTGGTGTGTCATCCAGCTCAGACCCATTTGCACAAGGCTGTGGAGTG-CAGAGCTGGTTCAGATGAATGAATAGCTTTCTCATGACTTCACCCCCACTCTGCTGTCTCTTTTCCTGTCCTTTGTATTGTAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCCGGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTAAAAAATATTTAACCATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACATGAAAAGTCCTCCCAAGTCCTCCCAAGCCCTTCCCCACCCCCC-----------CTTTTTTTT--AATCCCTTAGACTAATTAGTCTGATGTAAACTCACAGCACTTCATTTACTGTTACTGAGTCTGCTGTTTAGCTGATCTAGGCTCTGAGCTTAACAGCTTGCAATAG-AA-G-GGAAGTTGTAAAAA--GAAAGA-----------------------AATTAGGTTCACTGCACACAGCTACTTAAT---AAAAAAAAAA-----AATCCTTTTAATAAACCACCAATCATCGCTAGTCATTTCCTCATTCat---atacatata----------------------------------------------ta--tgtatata------------tCAGAATGGCT-TATTTC--------AGTTACAATA--TTAGTTATGGGAGATTCAGGAAAGCCAAATAACAAATATATTAGTGAAGAATCAC-TTCTATCAAAATAATTATTCTGTGTCCATATAGAT-----TGAAAAATACTATTTACATATAAATTTGGA----AG----AGACAG---AT-CCTTT--TTTGTAAACTAAACAACCAAAGAAATAAAATAAAAAACAAATGAAGAATGATGGA-----AAAATCATTAAAATTTAAATCCCATTCTC-TGATTGATGCGTGATACTACCTGAC------CTGTTAC--ATGTTCATTCACTCATCCAAACATC-AAACATTT-ATTAATGATATAATGTGACTCGATGGGATGATACAAATACATTATTGTAAATCTGTACATTGACACCTATAGAATGTTTT-AAAATGCCACAACAGGAA------AGTTTATATGACCTATCTACTGAGTATCATTTTCTACTTGGATTCTTAGA-AAAGACCTTGCCATT-AATAATTGCGAGAATAAAACACAGTAACACTTCAAAAGG---T----CTCTTATTCAGCAAACTAAGAAAAGAA-----ACAAGAATCATAAAATAACAACAA----A---AATATTGCCATTGagaaccaaaacaagtcccagagctattaaaggagcttaaagacca-ctgagtc----cagctccatattttac----------agaag-aaaaaaactgaaattcagagagtttaagtgattttccagggctatatgaagaactattatcaagttcatcagaaggtcacc-tgaGgcccctctaggc-ccccattccagac-----atgttcccttttatctgatattggatacaattacagcaagatgcattatttgatttcccaaactgcagcagattagaagccacaaa----ttagaggctgaaagagaatttctagaggcTTAGTGTTCAGATGCTGTGAAACATGAGAACACATG--ATAAAATTTGGAACCTGCTAAGCAAAAAT-----TAATCTGG-A-CAAGATGGTCTCTTGG-TAACACTCAAATCCAGGGGACAAATAAATGTC---------------------------------------------------------------------------AG-AAAAAAA-TTCTTAATTTTACAATGCAGAACTGTGCTGCCTTTGATCATCCTATTT----GAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126534270 1965 + 183735486 aaaaaCCTCAAAACATTGATCATGCCAGGTTAGATTTTACCAGGGATTTAAAGTCA----CCACCACCCTCCACAGC--------CCTCA-TTCATGCTCAGCTGCTA-----------------CAAATAATGGCCTAGCACGAATTGGTTTACAATCCTGGTGGACTCCT---ACAGAGCTAATAAATCCAGAAATACTACTT-GGATGGAAACATATGATAATCAC----ATGATGA----------CTTTTTT-----AATACATTCCGTAGTCTCATGTATAAAAAT-------------------AAAAAACGTG-CAGGGCTTAGATATCCCTTCATTGTATCACATTAAATTGGATTTAATGCCTGGTGGTGTGTCATCCAGCTCAGACCCATTTGCACAAGGCTGTGGAGTG-CAGAGCTGGTTCAGATGAATGAATAGCTTTCTCATGACTTCACCCCCACTCTGCTGTCTCTTTTCCTGTCCTTTGTATTGTAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCCGGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTAAAAAATATTTAACCATTAGTGGTTAGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACATGAAAAGTCCTCCCAAGTCCTCCCAAGCCCTTCCCCCACCCCC-----------CTTTTTTTT--AATCCCTTAGACTAATTAGTCTGATGTAAACTCACAGCACTTCATTTACTGTTACTGAGTCTGCTGTTTAGCTGATCTAGGCTCTGAGCTTAACAGCTTGTAATAG-AA-G-GGAAGTTGTAAAAA--GAAAGA-----------------------AATTAGGTTCACTGCACACAGCTACTTAAT---AAAAAAAAA--------TCCTTTTAATAAACCACCAATCATCGCTAGTCATTTCCTCATTCat---atacatata----------------------------------------------ta--tgtatata------------tCAGAATGGCT-TATTTC--------AGTTACAATA--TTAGTTATGGGAGATTCAGGAAAGCCAAATAACAAATATATTAGTGAAGAATCAC-TTCTATCAAAATAATTATTCTGTGTCCATATAGAT-----TGAAAAATACTATTTACATATAAATTTGGA----AG----AGACAG---AT-CCTTT--TTTGTAAACTAAACAACCAAAGAAATAAAATAAAAAACAAATGAAGAATGATGGA-----AAAATCATTAAAATTTAAATCCCATTCTC-TGATTGATGCATGATACTACCTGAC------CTGTTAC--ATGTTCATTCACTCATCCAAACATC-AAACATTT-ATTAATGATATAATGTGACTCGATGGGATGATACAAATACATTATTGTAAATCTGTACATTGACACCTATAGAATGTTTT-AAAATGCCACAACAGGAA------AGTTTATATGACCTATCTACTGAGTATCATTTTCTACTTGGATTCTTAGA-AAAGGCCTTGCCATT-AATAATTGCGAGAATAAAACACAGTAACACTTCAAAAGG---T----CTCTTATTCAGCAAACTAAGAAAAGAA-----ACAAGAATCATAAAATAACAACAA----A---AATATTGCCATTGagaaccaaaacaagtcccagagctattaaaggagcttaaagacca-ctgagtc----cagctccatattttac----------agaag-aaaaaaactgaaattcagagagtttaagtgattttccagggctatatgaagaactattatcaagttcatcagaaggtcacc-tgaGgcccctctaggc-ccccattccagac-----atgttcccttttatctgatattggatacaattatagcaagatgcattatttgatttcccaaactgcagcagattagaagccacaaa----ttagaggctgaaagagaatttctagaggcTTAGTGTTCAGATGCTGTGAAACATGAGAACACATG--ATAAAATTTGGAACCTGCTAAGCAAAAAT-----TAATCTGG-A-CAAGATGGTCTCTTGG-TAACACTCAAATCCAGGGGACAAATAAATGTC---------------------------------------------------------------------------AG-AAAAAAA-TTCTTAATTTTACAATGCAGAACTGTGCTGCCTTTGATCATCCTATTT----GAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1725861 1959 +   8933513 aaaaaCCTCAAAACATTGATCATGCCAGGTTAGATTTTACCAGGGATTTAAAGTCA----CCACCACCCTCCACAGC--------CCTCA-TTCATGCTCAGCTGCTA-----------------CAAAAAATGGCCTAGCACGAATTGGTTTACAATCCTGGTGGACTCCT---ACAGAGCTAATAAATCCAGAAATACTACTT-GGATGGAAACATATGATAATCAC----ATGATGA----------CTTTTTT-----AATACATTCCGTAGTCTCATGTATAAAAAT------------------AAAAAAACGTG-CAGGGCTTAGATATCCCTTCATTGTATCAAATTAAATTGGATTTAATGCCTGGTGGTGTGTCATCCAGCTCAGACCCATTTGCACAAGGCTGTGGAGTG-CAGAGCTGGTTCAGATGAATGAATAGCTTTCTCATGACTTCACCCCCACTCTGCTGTCTCTTTTCCTGTCCTTTGTATTGTAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCCGGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCCGTTAATGCCTAAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACCTGAAAAGTCCTCCCAAGCCCTTCC---------CCCACCCCC-------------CTTTTTTT--AATCCCTTAGACTAATTAGTCTGATATAAACTCACAGCACTTCATTTACTGTTACTGAGTCTGCTGTTTAGCTGATCTAGGCTCCGAGCTTAACAGCTTGTAATAG-AA-G-GGAAGTTGTAAAAA--GAAAGA-----------------------AATTAGGTTCACTGCACACAGCTACTTAAT---AAAAAAAAA--------TCCTTTTAATAAACCACCAATCATCGCTAGTCATTTCCTCATTCat---atacatata----------------------------------------------ta--tgtatata------------tCAGAATGGCT-TATTTC--------AGTTACAATA--TTAGTTATGGGAGA-TCAGGAAAGCCAAATAACAAATATATTAGTGAAGAATCAC-TTCTATCAAAATAATTATTCTGTGTCCATATAGAT-----TGAAAAATACTATTTACATATAAATTTGGA----AG----AGACAG---AT-CCTTT--TTTGTAAACTAAACAACCAAAGAAATAAAATAAAAAACAAATGAAGAATGATGGA-----AAAATCATTAAAATTTAAATCCCATTCTC-TGATTGATACGTGATACTACCTGAC------CTGTTAC--ATGTTCATTCACTCACCCAAACATC-AAACATGT-ATTAATGATATAATGTGACTCGATGGGATGATACAAATACATTATTGTAAATCTGTACATTGACACCTATAGAATGTTTTAAAAATGCCATAACAGGAA------AGTTTATATGACCTATCTACTGAGTATCATTTTCTACTTGGATTCTTAGA-AAAGACCTTGCCATT-AATAATTGCGAGAATAAAACACAGTAACACTTCAAAAGG---T----CTCTTATTCAGCAAACTAAGAAAAGAA-----ACAAGAATCATAAAATAACAACAA----A---AATATTGCCATTGagaaccaaaacaagtcccagagctatt-aaggagcttaaagacca-ctgagtc----cagctccatattttac----------agaag-aaaaaaactgaaattcagagagtttaagtgattttccagggctatatgaagaactattatcaagttcatcagaaggtcacc-tgaGgccccactaggc-ccccattccagacatgttatgttcccttttatctgatattggatacaattatagcaagatgtattatttgatttcccaaactgcagcagattagaagccacaaa----ttagaggctgaaagagaatttctagaggcTTAGTGTTCAGATGCTGTGAAACATGAGAACACATG--ATAAAATTTGGAACCTGCTAAGCAAAAAT-----TAATCTGG-A-CAAGATGGTCTCTTGG-TAACACTCAAATCCAGGGGACAAATAAATGTC---------------------------------------------------------------------------AG-AAAAAAA-TTCTTAATTTTACAATGCAGAACTGTGCTGCCTTTGATCATCCTATTT----GAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139856618 1948 + 163208435 -aaaaCCTC-AAACATTGATCATGCCAGGTTACATTTTACCAGGGATTT-AAGTCA-----CACCACCTTCCACAGC--------CCTCA-TTCATGCTCAGTTGCTA-----------------CAAATAATGGCCTACCACGAATTATTTTACTATCCTGGTGGACTCCT----CAGAGCAAATAAATCCAGAAATACTACTTGGGATGGAAACTATTGATAATCACCAATGTGGTGG----------AATTCTT-----ACT--TTCCCGTAGTCTCATGTATAAAAAT-------------------AAAAAACGTG-AAGGGCTTAGATATCCCTTCATTGTATCGAATTAGATTGGATTTAATGCCTGGTGGTGTGTCATCCAGCTCAGACCCATTTGCACAAGGCTGTGGAGTG-CAGAGTTGGTTCAGATGAATGAATAGCTTTCTCATGACTTCA-CCCCACTCTGCTGTCTCTTTTCCTGTCCTTTGTATTGTAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCCGACAAATATCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTAAAAAATATTTAACAATTAGTAGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACCTGAAAAGTCCTCCCAAGCCCTTCC---------CCCACCCCCC-----------CTTTTTTTT--AATCCCTTAGACTAATTAGTCTGATGTAAACTCACAGCACTTCATTTACTGTTACTGAGTCTGCTGTTTAGCTGATCTAGGCTCTGAGCTTAACAGCTTGTAATAG-AA-G-GGAAGTTGTAAAAA--GAAAGA-----------------------AATTAGGTTCACTGCACACAGCTACTTAAT---AAAAAAAA---------TCCTTTTAATAAACCACCAATCATCACTAGTCATTTCCTCATTCAT---ATACATAGA----------------------------------------------TA--TGTGTATA------------TCAGAATGGCT-TATTTC--------AGTTATAATA--TTAGTTATGGGACATTCAGGAAAGCCAAATAACAAATATATTAGTGAAGAATCAC-TTCTATCAAAATAATTATTCTGTGTCCATATAGAT-----TGGAAAATATTATTTACATATAAATTTGGA----AG----AGACAG---ATACTTTT--TTTGTaaactaaacaaccaaag-----aaataaaaaacaaaTGAAGAATTATGGA-----AAAGTCATTAAAATTTAAATCCCATTCTC-TGATTGATGCATGATACTACCTGACCT-AGTCTGTTAC--ATGTTCATTCACTCATCCAAACACC-AAACATTT-ATTAATGATATAATGTGACTC---GGGATGATACAAATACATTATTGTAAATCTTTACATTGACACCTATAGAATGTTTT-AAAATGCCACAGCAGGAA------AGTTTATATGACGTATCTACTGAGTATCATTTTCTACTTGAATTCTTAGA-AAAGACCTTGCCATT-AATAATTGTGAGAATAAAACACGGTAACACTTCAAAAGG---T----CTCTTATTCAGCAAACTAAGAAAAGAA-----ACCAGAATCATAAAATAACAACAA----A---AATATTGCCACTGagaaccaaaacaagtcccagagctatt-aaggagcttaaagacca-ctgagtc----cagctccatattttac----------agaag-aaaaaaactgaaattcagagagtttaagtgattttccagggctatatgaagaactattatcaagttcatcagaaggtcacc-tgaGgcccctctaggc-ccccattccagac-----ttgttcccttttatctgatattggatacaattatagcaagatgcattatttgatttcccaaactgcagcagattagaagccacaaa----ttagaggctgaaagagaatttctagaggcTTAGTGTTCAGATGCTGTGAAACATGAGAACACATG--ATAAAATTTGGAGCCTGCTAAGCAAAAAT-----TAATCTGG-A-CAAGATGGTCTCTTGG-TAATACTCAAATCCAGGGGACAAATAAATGTC---------------------------------------------------------------------------A--CAAAAAA-TTCTTAAGTTTACAATGCAGAACTGTGCTGTTTTTAATCATCCTATTT----TAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122845543 1959 + 180051392 aaaaCCCTCAAAACATTGATCATGCCAGGTTAGATTTTACCAGGGATTTAAAGTCA----CTACCACCGTCCACAGC--------ACTTA-TTCATGCTCAGCTGGGA-----------------CAAATAATGGCCTAGCATGAATTGGTTTACAATCCTGGTGGACTCCT---ACAGAGCTAATAAATCCAGAAATACTACTT-GGATGGAAACATATGATAATCAC----ATGATGA-----------TTTTTT-----AATACATTCCATAGTCTCATGTATAAAAAT-------------------AAAAAACGTG-CAGGGCTTAGCTATCCCTTTATTGTATGAAATTAAATTGTATTTAATGCCTGGTGGTGTGTCATCCAGCTCAGACCCATTTGCACAAGGCTATGGAGTG-CAGAGCTGGTTCAGATGAATGAATAGCTTTCTCATGACTTCACCCCCACTCTGCTGTCTCTTTTCCTGTGCTTTGTATTGTAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCCGGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTAAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACGTGAAAAGTCTTCCCAAGCCCTTCC---------CCCACCCCCC-------------TTTTTTT--TATCCCTTAGACTAATTAGTCTGATGTAAACTCACAGCACTTCATTTACTGTTACTGAGTCTGCTGTTTAGCTGATCTAGGCTCTGAGCTTAACAGCTTGTAATAG-AA-G-GGAAGTTGTAAAAA--GAAAGA-----------------------AATTAAGTTCACTGCACACAGCTACTTATT---TAAAAAAA---------TCCTTTTAATAAACTACTAATCATTGTTAGTCATTTCCTCatttat---atatatata---------------------tg-tgtgtgtg------------tata--tatatgta------------tCAGAATGGCT-TATTTC--------AGTTACAATA--TTAGTTATGGGAGATTCAGGAAAGCCAAATAACAAATATATTAGTGAAGAATCAC-TTCTATAAAAATAATTATTCTGTGTTCATATAGAT-----TGAAAAATATTATTTACATATAAATTTGGA----AG----AGACAG---AT-ACTTT--TTTGTAAACTAAACAACCAAAG---------GAAAAAAAATTGAAGAATGATGGA-----AAAGTCATTAAAATTTAAATTCCATTCTC-TAATTGATGCATGATACTACCTGACCT-AGTCTGTTAC--ATGTTCATTCACTCATCCAAACATC-AAACATTT-ATTAATGATATAATGTGACTCGATGGGATGATACAAATCCATTATTGTAAATCTTTACATTGACACCTATAGAATGTTTT-AAAATGCCACAACAGGAT------AGTTTATATGACCTATCTGCTGAGTATCATTTTGTACTTGAATTCTTAGA-AAATACCTTGCCATT-AATAATTGTGAGAATGAAACACAGTAACACTTCAAAAGG---T----CTCTTATTCAGCAAACTAAGAAAAGAA-----ACAAGAATCATAAAATAACAACAA----A---AATATTGCCATTGagaaccaaaacaagtcccagagctatt-aaggagcttaaagacca-ctgaatc----cagctccatattttac----------agaag-aaaaaaactgaaattcagagagtttaagtgattttccagggctatatgaagaactattatcaagttcatcagaaggtcacc-tgaGgcccctctaggc-ccctattccagac-----atgttcccttttatctgatattggatacaattatagcaagatgcattatttgatttcccaaactgcagcagattagaagccacaaa----ttagaggctgaaagagaatttctagaggcTTAGTGTTCAGATGCTGTGAAACATGAGAACACATG--ATAAAAATTGGAACCTGCTAAGCAAAAAT-----TAATCTGG-A-CAAGATGGTCTCTTGG-TAACACTCAAATCCAGGGGACAAATAAATGTC---------------------------------------------------------------------------AC-AAAAAAA-TTCTTAATTTTACAATGCAGAACTGTGCTGCCTTTGATCATCCTATTT----TAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124269155 1961 + 181584905 AAAACCCTCAAAACATTGATCATGCCAGGTTAGATTTTACCAGGGATTTAAAGTCA----CTACCACCGTCCACAGC--------ACTTA-TTCATGCTCAGCTGGGA-----------------CAAATAATGGCCTAGCATGAATTGGTTTACAATCCTGGTGGACTCCT---ACAGAGCTAATAAATCCAGAAATACTACTT-GGATGGAAACATATGATAATCAC----ATGATGA-----------TTTTTT-----CATACATTCCATAGTCTCATGTATAAAAAT-------------------AAAAAACGTG-CAGGGCTTAGCTATCCCTTTATTGTATGAAATTAAATTGGATTTAATGCCTGGTGGTGTGTCATCCAGCTCAGACCCATTTGCACAAGGCTATGGAGTG-CAGAGCTGGTTCAGATGAATGAATAGCTTTCTCATGACTTCACCCCCACTCTGCTGTCTCTTTTCCTGTCCTTTGTATTGTAATGGAGGACAGCTGTGGCAGTCAAGTGAATATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCCGGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTAAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACGTGAAAAGTCTTCCCAAGCCCTTCC---------CCCACCCCCC-----------TTTTTTTTT--TATCCCTTAGACTAATTAGTCTGATGTAAACTCACAGCACTTCATTTACTGTTACTGAGTCTGCTGTTTAGCTGATCTAGGCTCTGAGCTTAACAGCTTGTAATAG-AA-G-GGAAGTTGTAAAAA--GAAAGA-----------------------AATTAAGTTCACTGCACACAGCTACTTATT---TAAAAAAA---------TCCTTTTAATAAACTACTAATCATTGTTAGTCATTTCCTCatttat---atatatata---------------------tg-tgtgtgtg------------tgtg--tatatata------------tCAGAATGGCT-TATTTC--------AGTTACAATA--TTAGTTATGGGAGATTCAGGAAAGCCAAATAACAAATATATTAGTGAAGAATCAC-TTCTATAAAAATAATTATTCTGTGTTCATATAGAT-----TGAAAAATATTATTTACATATAAATTTGGA----AG----AGACAG---AT-ACTTT--TTTGTAAACTAAACAACCAAAG---------GAAAAAAAATTGAAGAATGATGGA-----AAAGTCATTAAAATTTAAATTCCATTCTC-TAATTGATGCATGATACTACCTGACCT-AGTCTGTTAC--ATGTTCATTCACTCATCCAAACATC-AAACATTT-ATTAATGATATAATGTGACTCGATGGGATGATACAAATCCATTATTGTAAATCTTTACATTGACACCTATAGAATGTTTT-AAAATGCCACAACAGGAT------AGTTTATATGACCTATCTGCTGAGTATCATTTTCTACTTGAATTCTTAGA-AAAGACCTTGCCATT-AATAATTGTGAGAATGAAACACAGTAACACTTCAAAAGG---T----CTCTTATTCAGCAAACTAAGAAAAGAA-----ACAAGAATCATAAAATAACAACAA----A---AATATTGCCATTGagaaccaaaacaagtcccagagctatt-aaggagcttaaagacca-ctgaatc----cagctccatattttac----------agaag-aaaaaaactgaaattcagagagtttaagtgattttccagggctatatgaagaactattatcaagttcatcagaaggtcacc-tgaGgcccctctaggc-ccccattccagac-----atgttcccttttatctgatattggatacaattatagcaagatgcattatttgatttcccaaactgcagcagattagaagccacaaa----ttagaggctgaaagagaatttctagaggcTTAGTGTTCAGATGCTGTGAAACATGAGAACACATG--ATAAAAATTGGAACCTGCTAAGCAAAAAT-----TAATCTGG-A-CAAGATGGTCTCTTGG-TAACACTCAAATCCAGGGGACAAATAAATGTC---------------------------------------------------------------------------AC-AAAAAAA-TTCTTAATTTTACAATGCAGAACTGTGCTGCCTTTGATCATCCTATTT----TAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16267533 1956 +  18395747 aaaaCCCTCAAAACATTGATCATGCCAGGTTAGATTTTACCAGGGATTTAAAGTCA----CTACCACCGTCCACAGC--------ACTTA-TTCATGCTCAGCTGGGA-----------------CAAATAATGGCCTAGCATGAATTGGTTTACAATCCTGGTGGACTCCT---ACGGAGCTAATAAATCCAGAAATACTACTT-GGATGGAAACATATGATAATCAC----ATGATGA-----------TTTTTT-----AATACATTCCATAGTCTCATGTATAAAAAT-------------------AAAAAACGTG-CAGGGCTTAGCTATCCCTTTATTGTATGAAATTAAATTGGATTTAATGCCTGGTGGTGTGTCATCCAGCTCAGACCCATTTGCACAAGGCTATGGAGTG-CAGAGCTGGTTCAGATGAATGAATAGCTTTCTCATGACTTCACCCCCACTCTGCTGTCTCTTTTCCTGTCCTTTGTATTGTAATGGAGGACAGCTGTGGCAGTGAAGTGACTATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCCGGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTAAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACCTGAAAAGTCTTCCCAAGCCCTTCC---------CCCACCCCCC--------------TTTTTT--TATCCCTTAGACTAATTAGTCTGATGTAAACTCACAGCACTTCATTTACTGTTACTGAGTCTGCTGTTTAGCTGATCTAGGCTCTGAGCTTAACAGCTTGTAATAG-AA-G-GGAAGTTGTAAAAA--GAAAGA-----------------------AATTAAGTTCACTGCACACAGCTACTTATT---TAAAAAAA---------TCCTTTTAATAAACTACTAATCATTGTTAGTCATTTCCTCATTTTt---atatatata------------------------tgtgtgtg------------tgta--tatatata------------tCAGAATGGCT-TATTTC--------AGTTACAATA--TTAGTTATGGGAGATTCAGGAAAGCCAAATAACAAATATATTAGTGAAGAATCAC-TTCTATAAAAATAATTATTCTGTGTTCATATAGAT-----TGAAAAATATTATTTACATATAAATTTGGA----AG----AGACAG---AT-ACTTT--TTTGTAAACTAAACAACCAAAG---------GAAAAAAAATTGAAGAATGATGGA-----AAAGTCATTAAAATTTAAATTCCATTCTC-TAATTGATGCATGATACTACCTGACCT-AGTCTGTTAC--ATGTTCATTCACTCATCCAAACATC-AAACATTT-ATTAATGATATAATGTGACTCGATAGGATGATACAAATCCATTATTGTAAATCTTTACATTGACACCTATAGAATGTTTT-AAAATGCCACAACAGGAT------AGTTTATATGACCTATCTGCTGAGTATCATTTTCTATTTGAATTCTTAGA-AAAGACCTTGCCATT-AATAATTGTGAGAATGAAACACAGTAACACTTCAAAAGG---T----CTCTTATTCAGCAAACTAAGAAAAGAA-----ACAAGAATCATAAAATAACAACAA----A---AATATTGCCATTGagaaccaaaacaagtcccagagctatt-aaagagcttaaagacca-ctgaatc----cagctccatattttac----------agaag-aaaaaaactgaaattcagagagtttaagtgattttccagggctatatgaagaactattatcaagttcatcagaaggtcacc-tgaGgcccctctaggc-ccccattccagac-----atgttcccttttatctgatattggatacaattatagcaagatgcattatttgatttcccaaactgcagcagattagaagccacaaa----ttagaggctgaaagagaatttctagaggcTTAGTGTTCAGATGCTGTGAAACATGAGAACACATG--ATAAAAATTGGAACCTGCTAAGCAAAAAT-----TAATCTGG-A-CAAGATGGTCTCTTGG-TAACACTCAAATCCAGGGGACAAATAAATGTC---------------------------------------------------------------------------AC-AAAAAAA-TTCTAAATTTTACAATGCAGAACTGTGCTGCCTTTGATCATCCTATTT----TAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5280462 1958 +  26952557 AAAACCCTCAAAACATTGATCATGCCAGGTTAGATTTTACCAGGGATTTAAAGTCA----CTACCACCGTCCGCAGC--------ACTTA-TTCATGCTCAGCTGGGA-----------------CAAATAATGGCCTAGCATGAATTGGTTTACAATCCTGGTGGACTCCT---ACAGAGCTAATAAATCCAGAAATACTACTT-GGATGGAAACATATGATAATCAC----ATGATGA-----------TTTTTT-----AATACATTCCATAGTCTCATGTATAAAAAT-------------------AAAAAACGTG-CAGGGCTTAGCTATCCCTTTATTGTATGAAATTAAATTGGATTTAATGCCTGGTGGTGTGTCATCCAGCTCAGACCCATTTGCACAAGGCTATGGAGTG-CAGAGCTGGTTCAGATGAATGAATAGCTTTCTCATGACTTCACCCCCACTCTGCTGTCTCTTTTCCTGTCCTTTGTATTGTAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCCGGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTAAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCCTTCACAAAGCAACCTGAAAAGTCTTCCCAAGCCCTTCC---------CCCACCCCCC--------------TTTTTT--TATCCCTTAGACTAATTAGTCTGATGTAAACTCACAGCACTTCATTTACTGTTACTGAGTCTGCTGTTTAGCTGATCTAGGCTCTGAGCTTAACAGCTTGTAATAG-AA-G-GGAAGTTGTAAAAA--GAAAGA-----------------------AATTAAGTTCACTGCACTCAGCTACTTATT---TAAAAAAA---------TCCTTTTAATAAACTACTAATCATTGTTAGTCATTTCCTCatttat---atatatata------------------------tatgtgtg------------tgtg--tgtatata------------tCAGAATGGCT-TATTTC--------AGTTACAATA--TTAGTTATGGGAGATTCAGGAAAACCAAATAACAAATATATTAGTGAAGAATCAC-TTCTATAAAAATAATTATTCTGTGTTCATATAGAT-----TGAAAAATATTATTTACATATAAATTTGGA----AG----AGACAG---AT-ACTTT--TTTGTAAACTAAACAACCAAAG---------GAAAAAAAATTGAAGAATGATGGA-----AAAGTCATTAAAATTTAAATTCCATTCTC-TAATTGATGCATGATACTACCTGACCT-AGTCTGTTAC--ATGTTCATTCACTCATCCAAACATCAAAACATTT-ATTAATGATATAATGTGACTTGATGGGATGATACAAATCCATTATTGTAAATCTTTACATTGACACCTATAGAATGTTTT-AAAATGCCACAACAGGAT------AGTTTATATGACCTATCTGCTGAGTATCATTTTCTACTTGAATTCTTAGA-AAAGACCTTGCCATT-AATAATTGTGAGAATGAAACACAGTAACACTTCAAAAGG---T----CTCTTATTCAGCAAACTAAGAAAAGAA-----ACAAGAATCATAAAATAACAACAA----A---AATATTGCCATTGAGAACTAAAACAAGTCCcagagctatt-aaggagcttaaagacca-ctgaatc----cagctccatattttac----------agaagaaaaaaaactgaaattcagagagtttaagtgattttccagggctatatgaagaactattatcaagttcatcagaaggtcacc-tgaGgcccctctaggc-ccccattccagac-----atgttcccttttatctgatattggatacaattatagcaagatgcattatttgatttcccaaactgcagcagattagaagccacaaa----ttagaggctgaaagagaatttctagaggcTTAGTGTTCAGATGCTGTGAAACATGAGAACACATG--ATAAAAATTGGAACCTGCTAAGCAAAAAT-----TAATCTGG-A-CAAGACGGTCTCTTGG-TAACACTCAAATCCATGGGACAAATAAATGTC---------------------------------------------------------------------------AC-AAAAAAA-TTCTTAATTTTACAATGCAGAACTGTGCTGCCTTTGATCATCCTATTT----TAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28381396 1949 +  82825804 AAAACCCTCAAAACATTGATCATGCCAGGTTAGATTTTACCAGGGATTTAAAGTCA----CTACCACCATTCACAGC--------ACTTA-TTCATGCTCAGCTGGGA-----------------CAAATAATGGCCTAGCATGAATTGGTTTACAATCCTGGTGGACTCCT---ACAGAACTAATAAATCCAGAAATACTACTT-GGATGGAAACATATGATAATCAC----ATGATGA-----------TTTTTT-----AATACATTCCATAGTCTCATGTATAAAAAT-------------------AAAAAACGTG-CAGGGCTTAGCTATCCCTTTATTGTATGAAATTAAATTGGATTTAATGCCTGGTGGTGTGTCATCCAGCTCAGACCCATTTGCACAAGGCTATGGAGTG-CAGAGCTGGTTCAGATGAATGAATAGCTTTCTCATGACTTCACCCCCACTCTGCTGTCTCTTTTCCTGTCCTTTGTATTGTAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCCGGCAAATACCTCTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTAAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACCTGAAAAGTCTTCCCAAGCCCTTCC---------CCCACCCCCC---------------TTTTT--TATCCCTTAGACTAATTAGTCTGATGTAAACTCACAGCACTTCATTTACTGTTACTGAGTCTGCTGTTTAGCTGATCTAGGCTCTCAGCTTAACAGCTTGTAATAG-AA-G-GGAAATTGTAAAAA--GAAAGA-----------------------AATTAGGTTCACTGCACACAGCTACTTATT---TAAAAAAA---------TCCTTTTAATAA---ACTAATCATTGTTAGTCATTTCCTCATTTAT---ATATATATA---------------------TG-TGTGTGTG------------TGTG--------TA------------TCAGAATGGCT-TATTTC--------AGTTACAATA--TTAGTTATGGGAGATTCAGGAAAGCCAAATAACAAATATATTAGTGAAGAATCAC-TTCTATAAAAATAATTGTTATGTGTCCATATAGAT-----TGAAAAATATTATTTACATATAAATTTGGA----AG----AGACAG---AT-ACTTT--TTTGTAAACTAAACAACCGAAG---------GAAAAAACATTGAAGAATGATGGA-----AAAGTCATTAAAATTTAAATTCCATTCTC-TAATTGATGCATGATACTACCTGACCT-AGTCTGTTAC--ATGTTCATTCACTCATCCAAACATC-AAATATTT-ATTAACGATATAATGTGACTCGATGGGATGATACAAATCCATTATTGTAAATCTTTACATTGACACCTATAGAATGTTTT-AAAATGCCACAACAGGAT------AGTTTATATGACCTATCTGCTGAGTATCATTTTCTACTTGAATTCTTAGA-AAAGACCTTGCCATT-AATAATTGTGAGAATGAAACACAGTAACACTTCAAAAGG---T----CTCTTATTCAGCAAACTAAGAAAAGAA-----ACAAGAATCATAAAATAACAACAA----A---AATATTGCCATTGagaaccaaaacaagtcccagagctatt-aaggagcttaaagacca-ctgagtc----cagctctatattttac----------agaag-aaaaaaactgaaattcagagagtttaagtgattttccagggctatatgaagaactattatcaagttcatcagaaggtcacc-tgaGgcccctctaggc-ccccattccagac-----atgttcccttttatctgatattggatacaattatagcaagatgcattatttgatttcccaaactgcagcagattagaagccacaaa----ttagaggctgaaagagaatttctagaggcTTAGTGTTCAGATGCTGTGAAACATGAGAACACATG--ATAAAAATTGGAACCTGCTAAGCAAAAAT-----TAATCTGG-A-CAAGATGGTCTCTTGG-TAACACTCAAATCCAGGGGACAAATAAATGTC---------------------------------------------------------------------------ACAAAAAAAA-TTCTTAATTTTACAATGCAGAACTGTGCTGCCTTTGATCATCCTATTT----TAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4050279 1962 -   4237731 aaaaccCTCAAAACATTGATCATGCCAGGTTAGATTTTACCAGGGATTTAAAGTCA----CTACCACCGTCCACAGC--------ACTTA-TTCATGCTCAGCTGGGA-----------------CAAATAATGGTCTAGCATGAATTGGTTTACAATCCTGGTGGACTCCT---ACAGAGCTAATAAATCCAGAAATACTACTT-GGATGGAAACATATGATAATCAC----ATGATGA-----------TTTTTT-----AATACATTCCATAGTCTCATGTATAAAAAT-------------------AAAAAACGTG-CAGGGCTTAGCTATCCCTTTATTGTATGAAATTAAATTGGATTTAATGCCTGGTGGTGTGTCATCCAGCTCAGACCCATTTGCACAAGGCTATGGAGTG-CAGAGCTGGTTCAGATGAATGAATAGCTTTCTCATGACTTCACCCCCACTCTGCTGTCTCTTTTCCTGTCCTTTGTATTGTAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCCGGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTAAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACCTGAAAAGTCTTCCCAAGCCCTTCC---------CCCACCCCCC--------------TTTTTT--TATCCCTTAGACTAATTAGTCTGATGTAAACTCACAGCACTTCATTTACTGTTACTGAGTCTGCTGTTTAGCTGATCTAGGCTCTGAGCTTAACAGCTTGTAATAG-AA-G-GGAAGTTGTAAAAA--GAAAGA-----------------------AATTAAGTTCACTGCACACAGCTACTTATT---TAAAAAAA---------TCCTTTTAATAAACTACTAATCATTGTTAGTCATTTCCTCatttat---atatatata---------------------ta-tatgtgtg------------tgtgtgtatatata------------tCAGAATGGCT-TATTTC--------AGTTACAATA--TTAGTTATGGGAGATTCAGGAAAGCCAAATAACAAATATATTAGTGAAGAATCAC-TTCTGTAAAAATAATTACTCTGTGTTCATATAGAT-----TGAAAAATATTATTTACATATAAATTTGGA----AG----AGACAG---AT-ACTTT--TTTGTAAACTAGACAACCAAAG---------GAAAAAAAATTGAAGAATGATGGA-----AAAGTCATTAAAATTTAAATTCCATTCTC-TAATTGATGCATGATACTACCTGACCT-AGTCTGTTAC--ATGTTCATTCACTCATCCAAACATCAAAACATTT-ATTAATGATATAATGTGACTCGATGGGATGATACAAATCCATTATTGTAAATCTTTACATTGACACCTATAGAATGTTTT-AAAATGCCACAACAGGAT------AGTTTATATGACCTATCTGCTGAGTATCATTTTCTACTTGAATTCTTAGA-AAAGACCTTGCCATT-AATAATTGTGAGAATGAAACACAGTAACACTTCAAAAGG---T----CTCTTATTCAGCAAACTAAGAAAAGAA-----ACAAGAATCATAAAATAACAACAA----A---AATATTGCCATTGAGAACTAAAATAAGTCCcagagctatt-aaggagcttaaagacca-ctgaatc----cagctccatattttac----------agaagaaaaaaaactgaaattcagagagtttaagtgattttccagggctatatgaagaactattatcaagttcatcagaaggtcacc-tgaGgcccctctaggc-ccccattccagac-----atgttcccttttatctgatattggatacaattatagcaagatgcattatttgatttcccaaactgcagcagattagaagccacaaa----ttagaggctgaaagagaatttctagaggcTTAGTGTTCAGATGCTGTGAAACATGAGAACACATG--ATAAAAATTGGAACCTGCTAAGCAAAAAT-----TAATCTGG-A-CAAGATGGTCTCTTGG-TAACACTCAAATCCAGGGGACAAATAAATGTC---------------------------------------------------------------------------AC-AAAAAAA-TTCTTAATTTTACAATGCAGAACTGTGCTGCCTTTGATCATCCTATTT----TAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      318862 1984 -   1175262 AAAGTCCTCAAAACATTGCTCATGCCAGGTTAGATTTTACCAGGGATTTAAAGTCA----CTACCACCATCCGCAGC--------ACTTA-TTCATGCTCAGCTGGGA-----------------CAAATAATGGCCTAGCATGAATTGGTTTACAATCCTGGTGGACTCCT---ACAGAGCTAATAAATCCAGAAATACTACTT-GGATGGAAACATATGATAATCAC----ATGATGA-----------TTTTTT-----AATACATTCCATAGTCTCCTGTATAAAAAT-------------------AAAAAACGTG-CAGGGCTTAGCTGTCCCTTTATTGTATGAAATTAAATCGGATTTAATGCCTGGTGGTGTGTCATCCAGCTCAGACCCATTTGCACAAGGCTATGGAGTG-CAGAGCTGGTCCAGATGAATGAATAGCTTTCTCATGACTTCACCCCCACTCTGCTGTCTCTTTTCCTGTCCTTTGTATTGTAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCCGGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTAAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACCTGAAAAGTCCTCCCAAGCCCTTCC---------CCCAACCCCC---------CCTTTTTTTTT--TATCCCTTAGACTAATTAGTCTGATGTAAACTCACAGCACTTCATTTACTGTTACTGAGTCTGCTGTTTAGCTGATCTAGGCTCTGAGCTTAACAGCTTGTAATAG-AA-G-GGAAGTTGTAAAGA--GAAAGA-----------------------AATTAGGTTCACTGCACACAGCTACTTATT---TAAAAAAA---------TCCTTTTAATAAACTACTAATCATTGTTAGTCATTTCCTCatttat---gtatatatatatatgtgtgttt-gtgtgtgtg-tgtgtgtg------------tgtg--tgtgtATA------------TCAGAATGGCT-TATTTC--------AGTTACAATA--GTAGTTATGGGAGATTCAGGAAAGCCAAATAACAAATATATTAGTGAAGAATCAC-TTCTATAAAAATAATTATTCTGTGTCCATATAGAT-----TGAAAATTATTATTTACATATAAATTTGGA----AG----AGACAG---AT-ACTTT--TTTGTAAACTAAACAACCAAA----------GAGAAAAAATTGAAGAATGATGGA-----AAAGTCATTAAAATTTAAATTCCATTCTC-TAATTGATGCATGATACTACCTGACCT-AGTCTGTTAC--ATGTTCATTCACTCATCCAAACATC-AAACATTT-ATTAATGATATAATGTAGCTCGATGGGATGATACAAATACATTATTGTAAATCTTTACATTGACACCTATAGAATGTTTT-AAAATGCCACAACAGGAT------CGTTTATATGACCTATCTGCTGAGTATCGTTTTCTACTTGAATTCTTAGA-AAAGACCTTGCCATT-AATAATTGTGAGAATAAAACGCAGTAACACTTCAAAAGG---T----CTCTTATTCAGCAAACTAAGGAAAGAA-----AAAATAATCATAAAATAACAACAA----A---AATATTGCCATTGagaaccaaaacaagtcccagagctatt-aaggagtttaaagacca-ctgagtc----cagctccatattttac----------agaag-aaaaaaactgaaattcagagagtttacgtgattttccagggctatatgaagaactattatcaagttcatcagaaggtcacc-tgaGgcccctctaggc-ccccactccagac-----atgttcccttttatctgatattggatacaattatagcaagatgcattatttgatttcccaaactgcagcagattagaagccacaaa----ttagaggctgaaagagaatttctagaggcTTAGTGTTCAGATGCTGTGAAACATGAGAACACATGATATAAAAATTGGAACCTGCTAAGCAAAAAT-----TAATCTGG-A-CAAGATGGTCTCTTGG-TAACACTCAAATCCAGGGGACAAATAAATGTC---------------------------------------------------------------------------AC-AAAAAAA-TTCTTAATTTTACAATGCAGAACTGTGCTGCCTTTGATCATCCTATTT----TAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123665490 1961 - 204313951 AAAAACCTTGAAACATTGATCATGCTAGGTTAGATTTTACCAGGGATTTAATGTCA----CCACCACCTTCCACAGT--------GTTCA-TTTGTGCTCAACTGGGA-----------------CAAATGATGGCCTAGCATGAATTGGTTTACAATCCTGGTGGACTCCT---ACAGAGATAATAAATCCAGAAATACTACTT-GGATGGAAACATAGGATAATCAC----ACAATGA-----------TTTTTT-----AATATATTCCATGGTCTCATGTATAAAAAT-------------------AAAAAATGTG-CAGGGCTTAGATCTCCCTTTATTGTATCAAATTAAATTGGATTTAATGCCTGGTTGTGTGTCACCCAGCTCAGACCCATTTGTACAAGGCTGTGGAGTG-CAGAGCTGGTTCAGATGAATGAATAGCTTTCTCATGACTTCACTCCCACTCTGCTGTCTCTTTTCCTGTCCTTTGTATTGTAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCCGGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTAAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACCTGAAAAGTCCTCCCAAGCCCTTCC---------CCCATCCC----------------TTTTTT--TATCCCTTAGACTAATTAGTCTGATGTAAACTCACAGCATTTCATTTACTGTTACTGAGTGTGCTGTTTAGCTGATCTAGGCTCTGAGCTTAACAGCTTGTAATAG-AA-G-GGAAGTTGTAAAAG--GAAAGA-----------------------AATTAGGTTTACTGCACGCAGCTACTTAAT----AAAAAAA---------TCCTTTTAATAAACCACTAATCATTGCTAGTCATTTCCTCATTCAT---Atgtgtgtg--------tgtgt-gtgtgtgtg-tgtgtgtg------------tgta--tgtATATA------------TCAGAAGGACT-TATTTC--------AGTTACAATA--TAAATTATGGG------AGGAAAACCAAATAACAAATATATTAATGAAGAATCAC-TTCTATCAAAATCATTACTCTGTGTCCATATAGAT-----TGAAAAATATTATTTACATATAAATTTGGA----AT----AGACAG---AT-ACCTT--TTTGTAAATGAAACAACCAAAG-----AAACAAAAAGCAAATGAAGAATGATGGA-----AAAGTCATTAAAATTTAAACCCCATTCTC-TGACTGATGCATGATACTACCTGACCT-AGTCTGTTAC--ATGTTCATTCACTCATTCAAGCATC-AGACATTT-ATTAATGATAAAATGTGACTTGGTGGGATGATACAAATATCTTATTGTAAATCTTTACATTGACACCTACAGAATGTCTT-AAAATGCCACAACAGGAT------AAATTATATAACCTATCTATTGAGTTTCATTTTCTACTTGAATTCTTAGA-AAAGACCTTGCCACTAAATAATTGCGAGAATAAAACACAGTAACACTTCAAAAGG---T----CCCTTATTCAGCAAACTAAGAAAAGAA-----ACAAGAATAATAAAATAACAACAA----A---AATATTGCCATTGagaaccaaaacaggtcccagagctatt-aaggagcttaaagatca-ccgagta----caactccatattttac----------agaag--aaaaaactgaaatttagagagtttaagtgattttccaaagCTATATGAAGAACTATTATCAAGTTCATCCAGAGGtcatc-tgaggcccctctaggc-ccccattccagac-----atgttcccttttatctgatattggatacaattatagcaagatgcattatttgatttcccaaactgcagcagattagaagccacaaa----ttagaggctgaaagagaatttctagaggcTTAGTGTTCAGATACTGTGAAATATGAGAACACATG--ATAAAATTTGGAACTTGCTAAGCAAAAAT-----TAATCTGG-A--AAGATGGTCTCTTGGTTAACACTCAAATCCAGGGGACAAATAAATGTC---------------------------------------------------------------------------AC-AAAAAAG--TCTTAATTTTACAGTGCAGAACTGTGCTGCCTTTGATCATCTTACCG-------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55709369 1998 -  71252344 AAAAACCTTGAAACATTGATCATGCTAGGTTAGATTTTACCAGAGATTTAATGTCA----CCACCACCTTCCACAGT--------GTTTA-TTCATGCTCAGCTGGGA-----------------CAAATAATGGCCTAGCATGAATTGGTTTACAATCCTGGTGGACTCCTCCGACAGAGATAATAAATCCAGAAATACTACTT-GGATGGAAACATAGGATAATCAC----ATGATGA-----------TTTTTT-----AATACATTCCATGGTCTCATGTATAAAAAT-------------------AAAAAATGTG-CAGGGCCTAGATATCCCTTTATTGTATCAAATTAAATTGGATTTAATGCCTGCTTGTGTGTCATCCAGCTCAGACCCATTTGTACAAGGCTGTGGAGTG-CAGAGCTGGTTCAGATGAATGAATAGCTTTCTCATGACTTCACTCCCACTCTGCTGTCTCTTTTCCTGTCCTTTGTATTGTAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCTGGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTAAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACCTGAAAAGTCCTCCCAAGCCCTTCC---------TCCATCCCTT------TTTTTTTTTTTTTT--TATCCCTTAGACTAATTAGTCTGATGTAAACTCACAGCATTTCATTTACTGTTACTGAGTGTGCTGTTTAGCTGATCTAGGCTCTGAGCTTAACAGCTTGTAATAG-AA-G-GGAAGTTGTAAAAA--GAAAGA-----------------------AATTAGGTTCACTGCACACAGCTACTTAAT---AAAAAAAA---------TCCTTTTAATAAACCACTAATCGTTGCTAGTCATTTCCTCATTtgt---gtgtgtgtg--------tgtgt-gtgtgtgtg-tgtgtgtgtatg--tatgtatgta--tgtATATA------------TCAGAATGGCT-TATTTC--------AGTTACAATA--TAAGTTATGGG------AGGAAAACCAAATAACAAATATATTAATGAAGATTCAC-TTCTTTCAAAATCATTACTGTGTGTCCGTATAGAT-----TGAAAAATATTATTTACATATAAATTTGGA----AG----AGACAG---AT-ACCAT--TTTGTAAACAAAACAACCAAAG-----AAACAAAAAGCAAATGAAGAATGATGGA-----AAAGTCATTAAAATTTAAATCCCATTCTCTTGATTGATGCATGATACTACCTGACCT-AGTCTGTTAT--GTGTTAATTCACTCATTCAAGCATC-AGATACTT-ATTAATGATAAAATGTGACTTGGTGGGATGATACAAATATGTTATTGTAAATCTTTACATTGACACCTACAGAATGTCTT-AAAATGCCACAACAGGAT------AAATTATATAACCTATCTATTGAGTATCATTTTCTACTTGAATTCTTAGA-AAAGACCTTGCCACTAAATAATTGCGAGAATAAAACACAGTAACACTTCAAAAGG---T----CCCTTATTCAGCAAACTAAGAAAAGAA-----ACAAGAATCATAAAATAACAACAA----A---CATATTGCCATTGagaaccaaaacaggtcccagagctaat-aaggagcttaaagacca-ccgcgtc----caactccatgttttacaaaaaaaaaaaaaaa--aaaaaactgaaatttagagagtttaagtgattttccaaagCTATATGAAGAACTATTATCAAGTTCATCAGAAGGtcatc-tgaggcccctctaggc-ccccattccagac-----atgttcctttttatctgatattggatacaattatagcaagatgcattatttgatttcccaaactgcagcagattagaagccacaaa----ttagacgctgaaagagaatttctagaggcTTAGTGTTCAGATATTGTGAAATACGATAACACATG--ATAAAATTTGGAACCTGCTAAGCAAAAAT-----TAATCTGG-A--AAGATGGTCTCTTGG-TAACACTCAAATCTAGGGGACAAATAAATGTC---------------------------------------------------------------------------AC-AAAAAAG--TCTTAAGTTTACAGTGCAGAACTGTGCTGCTTTTGATCATCTTACTA----TGT
i saiBol1.JH378106         C 0 I 11
s cebCap1.NW_016107590v1       12357 1956 -   3089952 aaaaaTCTTGAAACATTGATCATGCTAGGTTAGATTTTACCAGGGATTTAATGTCA----CCACCACCTTCCACAGT--------GTTCA-TTCATGCTCAGCTGGGA-----------------CAAATAATGGCCTAGCATGAATTGGTTTACAATCCTGGTGGACTCCT---ACAGAGATAATAAATCCAGAAATACTACTT-GGATGGAAACATAGGATAATCAC----ATGATGA-----------TTTTTT-----AATACATTCCATGGTCTCATGTATAAAAAT-------------------AAAAAATGTG-CAGGGCTTAGATATTCCTTTCTTGTATCAAATTAAATTGGATTTAATGCCTGGTTGTGTGTCATCCAGCTCAGACCCATTTGTTCAAGGCTGTGGAGTG-CAGAGCTGGTGCAGATGAATGAATAGCTTTCTCATGACTTCACTCCCACTCTGCTGTCTCTTTTCCTGTCCTTTGTATTGTAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCTGGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTAAAAAATATTTAGCAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACCTGAAAAGTCCTCCCAAGCCCTTCC---------CCCATCCC--------------CTTTTTTT--TATCCCTTAGACTAATTAGTCTGATGTAAACTCACAGCATTTCATTTACTGTTACTGAGTGTGCTGTTTAGCTGATCTAGGCTCTGAACTTAACAGCTTGTAATAG-AA-G-GGAAGTTGTAAAAA--GAAAGA-----------------------AATTAGGTTCACTGCACACAGCTACTTAATA--AAAAAAAA---------TCCTTTTAATAAA-CACTAATCATTGCTAGTCATTTCCTCATTCAT---ATATGTGTG--------TG----------------------------------TATA--TATATATA------------TCAGAATGGCT-TATTTC--------AGTTACAATA--TAAGTTATGGG------AGGAAAACCAAATAACAAATATATTAATGAAGAATCAT-TTCTATCAAAATCATTACTCTGTGTCCATATAGAC-----TGAAAAATATCATTTACTTATAAATTTGGA----AG----AGGCAG---AT-ACCTT--TTTGTAAATGAAACAACCAAAG-----AAACAAAAAGCAAATGAAGAATGATGGA-----AAAGTCATTAAAATTTAAATTCCATTCTC-TGATTGATGCATGATACCACCTGACCT-AGTCTGTTAC--ATGTTCATTCACTCATTCAAGCATC-AGATATTT-ATTAATGATAAAATGTGACTTGGTGGGATGATACAAATATGTTATTGTAAATCTTTACATTGACACCTACAGAATGTCTT-AAAATGCCACAACAGGATTATATATAATAATATAACCTATCTGTTGAGTATCATTTTCTACTTGAATTCTTAGA-AAAGACCTTGCCACTAAATAATTGCAAGAATAAAACACAGTAACACTTCAAAAGG---T----CCCTTATTCAGCAAACTAAGAAAAGAA-----ACAAGAATCATAAAATAACAACAA----A---AATATTGCCATTGagaaccaaaacaggtcccagagctatt-aaggagcttaaagacca-ccaagtt----caactccatattttac----------aaaag--aaaaaactgaaatttagagagtttaagtgattttccaaagCTATATGAAGAACTATTATCAAGTTCATCAGAAGGtcatc-tgaggcccctctaggc-ccccattccagac-----atattcccttttatctgatattggatacaattatagcaagatgcattatttgatttcccaaactgcagcagattagaagccacaaa----ttagaggctgaaagagaatttctagaggcTTAGTGTTCAGATACTGTGAAATATGAGAACGCATG--ATAAAATTTGGAACCTGCTAAGCAAAAAT-----TAATCTGG-A--AAGATGGTCTCTTGG-TAACACTCAAATCCAGGGGACAAATAAATGTC---------------------------------------------------------------------------AC-AAAAAAG--TCTTAATTTTGCAGTGCAGAACTGCGCTGCCTTTGATCATCTTACTGAGTATGT
i cebCap1.NW_016107590v1   C 0 I 11
s aotNan1.NW_018505940v1    13210315 1986 -  42888418 AAAAACCTTGAAACATTGATCATGCTAGGTTAGATTTTACCAGGGATTTAATGTCA----CCACCACCTTCCACAGT--------GTTCA-TTCATGCTCAGCTGGGA-----------------CAAATAATGGCCTAGCATGAATTGGTTTACAATCCTGGTGGACTCCT---ACAGAGATAATAAATCCAGAAATACTACTT-GGATGGAAACATAGGATAATCAC----ATGATGA-----------TTTTTT-----AATACATTCCATGGTCTCATGTATAAAAAT-------------------AAAAAATGTG-CAGGGCTTAGATATCCCTGTATTGTATCAAATTAAATTGGATTTAATGCCTGGTTGTGTGTCATCCAGCTTAGACCCATTTGTACAAGGCTGTGGAGTG-CAGAGCTGGTTCAGATGAATGAATAGCTTTCTCATGACTTCACTCCCACTCTGCTGTCTCTTTTCCTGTCCTTTGTATTGTAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCCGGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTAAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACCTGAAAAGTCCTCCCAAGCCCTTCC---------CCCATCCC---------------CTTTTTT--TATCCCTTAGACTAATTAGTCTGATGTAAACTCACAGCATTTCATTTACTGTTACTGAGTGTGCTGTTTAGCTGATCTAGGCTCTGAGCTTAACAGCTTGTAATAG-AA-G-GGAAGTTGTAAAA---GAAAGA-----------------------AATTAGGTTCACTGCACACAGCTACTTAATA--AAAAAAAA---------TCCTTTTAATAAACCACTAATCATTGCTAGTCATTTCCTCATTCAT---Atgtgtgtg--------tgtgt-gtgtgtgtg-tgtgtgtgtgtgtatatgtgtgtA--TGTATATA------------TCAGAATGGCT-TATTTCTGATATATAGTTATAATA--TAAGTTATGGG------AGGAAAACCAAATAACAAATATATTAATGAAGAATCAC-TTCTATCAAAATCATTACTCTGTGTCCATATAGAT-----TGAAAAATATTATTTACATATAAATTTGGA----AG----AGACAA---AT-ACCTT--TTTGTAAATGAAACAACCAAAG-----AAACAAAAAGCAAATGACGAATGATGGA-----AAAGTCATTAAAATTTAAATCCCATTCTC-TGATTGATGCATGATACTACCTGACCT-CGTCTGTTACTTCTGTTCCTTCACTCATTCAAGCATC-AGACATTT-ATTAATGATAAAATGTGACTTGGTGGGATGATACAAATATGTTATTGTAAATCTTTACATTGACACCTACAGAATGTCTT-AAAATGCCACAACAGGAT------AAATTATATAA-CTATCTATTGAGTATCATTTTCTACTTGAATTCTTAGA-AAAAACCTTGCCGCTAAATAATTGTGAGAATAAAACACAGAAACACTTCAAAAGG---T----CCCTTATTCAGCAAACTAAGAAAAGAA-----ACAAGAATCATAAAATAACAACAA----A---AATATTGCCATTGagaaccaaaacaggtcccagagctatt-aaggagcttaaagacca-ccgagtc----caactccatattttac----------agaag--aaaaaactgaaatttagagagtttaagtgattttccaaagCTATATGAAGAACTATTATCAAGTTCATCAAAAGGtcatc-tgaggcccctctaggc-ccccattccagac-----atgttcccttttatctgatattggatacaattatagcgagatgcattatttgatttcccaaactgcagcagattagaagccacaaa----ttagaggctgaaagagaatttctagaggcTTAGTGTTCAGATACTGTGAAATATGAGAACACATG--ATGAAATTTGGAACCTGCTAAGCAAAAAT-----TAATCTGG-A--AAGATGGTCTCTTGG-TAACACTCAAATCCAGGGGACAAATAAATGTC---------------------------------------------------------------------------AC-AAAAAAG--TCTTAATTTTACAGTGCAGAACTGTGCTGCCTTTGATCATCTTACTG----AGT
i aotNan1.NW_018505940v1   C 0 I 16
s micMur3.chr12             60545485 1986 + 108143057 AAAAGCCTCAAAACATTGATCCTGCCAGTTTAGATTTTACCAGGGATTTAAAGTCA----CCACCACCTTCTACAGG--------GTTCA-TTCATGCTCAGCTGGAA-----------------CAAATAATGGCTTAGCAGGAATTGGTTTACGATCCTGGTGGACTCCT---GCAGGGCTAATAAGTCCAGAAATACTACTT-GGAGGAAAATATATGGTAATCAT----ATGATGA----------TTTCTTT-----TATCCGTTCCATAGTTTCATGTTTAAAAAT------------------AAAAAAATTCA-CAGGGCTTAGATATCCCTTTGTTGTATCAAATTAAATTGGATTTAATGCCTGGCTGTGTGTCATCCAGCTCAGACCCATTTGTACAAGGCTGTGGAGTG-CAGAGCTGGTTCAGATGAATGAATAGCTTTCTCATGACTTCACCCCCATTCTGCTGTCTCTTTTCCTGTCCTTTGTATCGTAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCGCAGTGCCTCAGCAGATTGTGACTTTAATCCCTGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTGAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACCTGAAAAGTCTTCCCGAGCCCTTCC---------CCCATCCATT--------------TTTTTT--CATCCCTTGGACTAATTAGTCTGATGTAAGCTCACAGCACTTCATTTACTGTTACTGAGGCTGCTGTTTAGCTGATCTAGGCTCCTAGCTTAACAGCTTGTAATAG-AA-G-GGAAGTTGTAAAAA--GAAAGA-----------------------AATTAGGTTCGATGCACACAGCTACTTAAT---AAAAAAAAA--------TCCTTTTAATAAACCACTAATCATTGTTAGTCATTTCCTCatttatataatatatatc---------------------ta-tatatcta------------tatc--tatatata------------tCAGAATGACTGTATTTC--------AGTAACAGTG--TCAGTTATGGGAGATTCAGGAAAACCAAATAGCCA----ATTAACACAAAATCACTTCTTATCAAAAGAATTATTC--TGTCTGTATAGAT-----TGGAAAACACTATTTACATTTAAATTTCGA----AGAAAGAGATAATGTAT-ACTTTTGTTTATAAACCAAACGAGCACGG-----AAA-CAAAAGCAAATGAAGAATGATGGAAAGA-AAATTTGTTAGAGTTTAAATCCTGCTCTC-TGATTGATACATGATACTTCCTGACCT-ATTCTGTTAC--AAGTTCATTCACTCATCCAAGCATC-AGTCGTTT-ATTGATGATGTGGTGTGACTTGCTGGGGCAATACAAATATGTTATTGTAAAGCTTGGAATTGGTGCCTATGGAATGTTTA-AAC--GTCACTAAAGGAT------ACTTTATGTGGTATATTTATTTAGTTTAATTTTCTACTTGAATTTTTAAG-AAAGACCTTGCCACTAAATAACTAAGAGAATAAAATAAAGTAACACTTCAAAAGGAGAT----CACTTGCTCAGTaaactaagaaaagaa-----acaaaaatcataaaataacaacaa----caacaaAATGGCCATacagaaccaaagtaagtcccagagctatc-aagaagtttaaagacaa-ctgtgtc----caacaccatattttac----------agaag--agaaaactgaaagttagagagtttaagtgatcctccaagactataTGAAGAACTGCTATCAAGTTCATCAGAGGTTCATC-TTagacccttgtaggc-ccccattctacac-----ctgttcccttttatctgctattggacacaattatagcaagatgcattattggatttcccaaagtgtggcagattagaagccacaaa----ttagaggctgaaggagggtttctagaggcTTAGTGTTCAAATGCTGTGAAATACAAGAACACATG--ATAAAATCTGGAACCTGCTAAGTAAAAATGAAAGCAATCCGG-A-AAAGATGGTCTCTTGG-TAACACTCAAATCCAGGGGACAAATAAACATC---------------------------------------------------------------------------TC-AAAAACAAATCTTAATTTTACAGTGCAGGTCTGTGCTACCTCTGCTCAACTTACTT----TAG
i micMur3.chr12            I 70 C 0
s proCoq1.NW_012155062v1     3585860 1991 +  11683526 -----CCTCAAAACATTGATCCTGCCAGTTTAGATTTTACCAGGGATTTAAAGTCA----CCACCACCTTCTACAGG--------GTTCA-TTCATGCTCAGCTGGGA-----------------CAAATAATGGCTTAGCAGGAATCGGTTTACGATCCTGGTGGACTCCT---GTAGGGCTAATAAGTCCAGAAATACTACTT-GGAGGAAAATATATGGTAATCAT----ATGATGA----------TTTCTTT-----TATCCGTTCCGTAGTTTCATGTATAAAAAT-------------------AAAAAATGCA-CAGGGCTTAGATATCCCTTTATTGTATCAAATTAAATTGGATTTAATGCCTGGTTGTGTGTCATCGAGCTCAGACCCATTCGTACAGGGCTGTGGAGTG-CAGAGCTGGTTCAGATGAATGAGTAGCTTTCTCATGACTTCACCCCCATTCTGCTGTCTCTTTTCCTGTCCTTTGTATCATAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACTGCAGTGCCTCAGCAGATTGTGACTTTAATCCCTGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTGAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACCTGAAAAGTCTTCCCGAGCCCTTCC---------CCCATCCATT--------------TTTTTT-CCATCCCTTGGACTAATTAGTCTGATGTCAGCTCACAGCACTTCATTTACTGTTACTGAGTCTGCTG-TTAGCTGATCTAGGCTCCAAGCTTAACAGCTTGTAATAG-AA-G-GGAAGTTGTAAAAA--GAAAGA-----------------------AATTAGGTTCGATGCACACAGCTACTTAAT---AAAAAAAAA--------TCCTTTTAATAAACTACTAATCATTGTTAGTCATTTCCTCATTCatataatacatata---------------------ta-tatatata------------tata--tatatatatatatatatatCTCAAAATGACTGTATTTT--------AGTTACAGTG--TCACTTATGGGAGATTCAGGAAAACCAAATAACCA----ATTAACACAAAATCACTTCTTATCAAAAGAATTATTC--TGTCTGTATAGAT-----TGGAAAACACTATTTACATTTAAATTTGGA----AGAA--AGATAGTGTAT-ACTTTTGTTTATAAACCAAACAAGCAAGG-----AAA-CAAAAACAAATGAAGAATGATGGAAAGA-CAAGTTGTTAAAATTTAAATCCTACTCTC-TGATTGATATACGATGCTACCTGACCT-ATTCTGTTAC--AAGTTCattcactcatccaagcatc-aatcattt-attgaggatttaatgtgacttgctggggaaatgcaaatatgTTATTGTAAATTTTGGAATTGGTACCTATGGAATGTTTA-AACATGTCGCAAAAGGAT------ACTTTATATGATGTATTTATGGAGCTTCATTTTCTACTTGAATTTTTAAG-AAAGATCTTGCCACTAAATAACTAAGAGAATAAAATAAAGTAATACTTCAAAAGGAAAT----CTCTTACTCAGCaaactaagaaaagaa-----acaaaaatcataaaataacaacaa----cagcaaaaTGGCCATacagaaccaaaccaaatcccagagctatc-aaggagcttaaagacca-ttgtgtc----caacaccatattttac----------agaag--agaaaactgaaatttagagagtttaagtgatcctccaagactataTGAAGAACTGTTACCAAGTTCATCAGAGGGTCATC-TTagacccctgtaggc-ccccattctagac-----ctgttcccttttatctgctattggacataattatagcaagatggattattggattttcaaaactgtggcagattagaagccacaaa----ttagaggctgaaggagggtttctagaggcTTAGTGTTCAGATGCTGTGAAATACAAGAACACATG--ATAAAATCTGGAACCTGCTAAGTAAAAATGAAAGTAATCTGG-A-AAAGATGGTCTCTTGG-TAACACTCAAAT-CAGGGGACAAATAAACATC---------------------------------------------------------------------------TC-AAAAAAAAATCTTAATTTTACAATGCAGGTCTGTGCTGCCTCTGCTAACCTTACTT----TAG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3074043 1893 +   4132165 -----CCTCAAAACATTGATCCTGCCAGTTTAGATTTTACCAGGGATTTAAAATCC----CTGCCACCTTCTGCAGG--------GTCCA-TTCATGCTCAGCTGGGC-----------------CAAATAATGGCTTAGCAGGAATGGGTTTACAATCCTGGTGAACTCCT---GTAGAGCTAATAAGTCCAGAAATACTACTT-GGAGGGAAACATACGATAATCAT----ATGATGA----------TTTCTTT-----TACCCATTCTGTAGTTTCATGTATAAAAAT-------------------AAAAAATGCACCAGGGCTTAGATATCCCTTTATTGTATCAAATTAAATTGGATTTAATGCTCGGCTGTGTGTCATCCAGCTCAGACCCATTTGTACAAGGCTGTGGCATG-CAGAGCCCGTTCAGATGAATGAATAGCTTTCTCAGGACTTCACCCCCATTCTGCTGTCTCTTTTCCTGTCCTTTGTATTCTAATGGAGGACAGCTGTGGCGGTGAAGTGAATATTAACTAGCCGCAGTGCCTCAGCAGATTGTGACTTTAATCCCTGCAAATACCACTAAAATCAAAATTTAATTACACTCGGAGTAGCTCTGTTAATGCCTGAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACCTGAAAAGTCCTCCCGAGCCCTTCC---------CCCATCCTTT--------------TTTTTTTTTATCCCTTAGACTAATTAGTCTGATGTAAGCTCACAGTCCTTCATTTACTGTTACTGAGTCTGCTGTTTAGCTGATCTAGGCTCTGAGCTTAACAGCTTGTAATAG-AA-G-GGAAGTTGTAAAAA--GAAAGA-----------------------AATTAGGTTCACTGCACACAGCTACTTAAT---AAAAAAGAA--------TCCTTTTAATAAACCACTAATTATTGTTAGCCATTTCCTCATTCATATAATACACATA---------------------TG-----------------------------------------------TCAGAATGACTGTATGTC--------AATTGTAGTG--TCAGTTATGGGAGATTCAAGAAAACCAAAT-----------------AAAAACAC-TCTTATCAAAAGAATTATTCTATGTCTGCATAGAT-----TGG-------------------------------------AAACAGTGTAT-ACTTTTGTTTATAAACCAAACAAGCACAG-----AAA-CAAGAACAAATAAAGAATGATAGAGAGATTAAGTTGTTAAAATTTCAATCCTACTCTC-----TGATACATGATCTCACCTGACCT-ACACGGTTAC--AAGTTCATTCACTCATCCAAGCATC-AATCGTTT-ATTGATGATTTAATGTGACTTGCTGGGGTGATACAAATTCGTTATTGTAAATCTTGACATTGACACCTATGGAATGTCAT-AAAATATCACAAAAGGAT------ACTTTGTGTGATGTATTTATTGACCTTCATTTTCCTCTTGGATTCTTAGG-AAAGACCTTGCCACTAAATAATTGAGAGAATAAAATAAAGTAACATGTCAAAAGGAGGT----CATTTATTCAGCAAAGTAAGAAAAGAA-----ACAAAAAATTTTAAATAACAACAA----CA--AGAATCGCCATGGAGAACCTAAATAAGTCTGagaactgtc-gaggagcttaaagaccatttgtgtc----caacatcatattttac----------agaag--tgaaaagtgaaatttagagagtttaagggatcttccaagactataGGAGGAACGGGTGTCAAGTTCATC--------------agacccctccaggc-ctccattctaga------------ctttttacatgatattggacataattacagcaagatgcattatttgatttcccggatggtggcagattagaagctactag----ttagagactggaggagagtttctagaggcTTAGTGTTCAGATGCTGTGAAATACAAGAACACGTG--ATAAAATCTGGAACCTGCTCAGTAAAAATGAAAGTGATCTGGAA-AAAGATAGTCTCTTAG-CAACACTCAAATCCAGGCGACAAATAAACATC---------------------------------------------------------------------------AC-CAAAAT--GTCTTAATTTTACAATGCAGGTCTGT--TACCCATGCTCATCTTACAT----AAG
i otoGar3.GL873679         C 0 I 5
s mm10.chr18                55519157 2061 +  90702639 --AAACC-----ACATTAAT----CTGGTTTTGATTTTGCCACAGACTTAAAGCCACCGCCCGCCACCTTTGACAAG--------ACCCC-TACTT--TTGGCTGGGaacaaaacaaaacaaaacaaaacaaGAGCTCATCAGGAATTGCTTTGCAGTCCTGATAGACT-CT---GAGGAACTCCTGAGTCCACAAATGCCATTG-GGATGGAAACATACCCTCACCAT----AT-ATGAGGGTTTTTTTTTTTTCC-----TATCCTTTCTGCAGTCTCATATACAAAAATTTaaaaaaaaaaaaaaaaaaaaaaaaGGT-CAGGGTTCAGACATCCCTGTATTGTATCAAATTAGACTGGATTTAATGCCTGCCTGTGTGTCATC-GGCTTAGATCCATTTGTACAAGGCTGTGGAGAG-CGAGGCTGGTGGAGATGAATGACTGGCTTTCTCATTACTTCACGCCTCCACTGCTGTCCCTGCTCCTGTCCTTTGTATTATAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCCCCGTGCCTCAGCAGATTGTGACTTTAATCCCTGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTGAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACCTGTAAAGTCCTCCCAAGTCCCTCC---------CCCTCCCCCC------ACCTTTTTTTTTTT--TA-ACCATAGACTAATTAGTCTGATGTAAGCTCACAGCACTTCATTTAGTGCTATTGAGTCTGCTGCT---------TAGGTCCTGAGTTTAACAGCATGTAATAGAAA-G-GGAAGTTGTAAAAAAGGAAGGAAAAAAAGCAAAAACAAAAAAACCAAACAGGTTTACAGTACACAGCTACTTAATAATAAAGAAAA---------TGCTCTTAATATGCCACTAAACATTGAAAGCTATGTCTTCATTCAT---ATAGATATT--------------------------------------------TGAC--TAAACATA------------TGAGAATGGTTGTATCTC------------ACAGTGCTTTTGTTTCATGAGATTT-GGAAAGCAAAATAATAAATA-------ACACAACCAC-TTTGATCAAAAGATCTGTCCTCTGTCTATATAGACCAGAGTAGAAAATCCTGTTTGTATTTGCACCTTGGGAATAG----AGACAGTGCAT-ACTGCTGCCCATGAAGGGAAGACGCCAAG-----------AAATAAAATGTAAAACAATGAG-----CACGCTGCTAGGATTTAAATCTGCCTTTC-TGATTTACACATGTCATCACCTGACCTCCTTGGGTTAT--GGGTTCATTCACTGATACAAGCATC-TAGCATTTCATGGATGA-----------------GAGAGATGCAGACGTGTCACTCTATAGCTTTGTGTTAACAGCCACAG-GTGT-TG-AAAGTGCCACAA-GTGAC------ATATGACCTTATCTGATCATGTAGCTTCA-TTTCTAGTTGAACACTTAGACCAAGATCTTACCACGAAATATTCGGGAGAATAACTCACAGCAGTCTTTGGAAAGG---TACTCCCCCCTCAAAGAAAACTAAGAAAAGAATAGCCTCAAGCCTCAGAAAATTACAACAA---TA---AACAGTGCC-CCAAGAATGAAAACAAATCCCAGAGCAGTC-AGGGAGATTGCAAACTG-TTAAGGC----CAAAGTTGTGTTTTCC----------AGAAC----TTTCCTGAGATTCAGACAGTGGCA-TGGATTTCCAGAGCCATGTGAAGATCT-CTGTCCagttcac--aacctttaca-gcacagccctccaggg-cgctactccagaa-----ctattcccttttatttaactctgtacacgattg-agcgtg------catttgctttcccaaactgttgaaaatcagaagccaaaaaaaatatagagtcggaggcatggcttctagagg----ATGCTCAGATGGTAGGAACTAGGTGAACATATG--ATACAACTTAGAAACTGCTAAGTAAAACT-----TAATCTGC-A-AGACATGGTCTCTAGA-TGCCACTCAAACTCACAGAACAAATGAACATTTAAAAGAATCATGTgttggagatgtggctcagtggcaaagtacttacctagaacaggcaattgattcccatattgaa-aaaaaaA-ATCTTAGTTTTACAGTTCAGATTTCTGCTAACTCTGCTCATGCTAT---------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14918729 1971 +  74389097 ------CTCCAAACATTAATCCTGCCAGTTTAGATTTTACTGGGGATTTAAAGTCA----CCACTACCTTCCATAGG--------GTTCA-TTCACGCTCAGTTGGGA-----------------CAAATAATGGCTTAGCAGGAATTGGTTTACAATCCTGGTGGACCCCT---GTGGAGTTAATAAGTCCAGAAATACCACTT-GGATGGAAACGTATGATAATCAT----ATGATTA-----------TCTTTTTAAAAAATCCATTCCTTAGTCTCATGTATAAAAAT-------------------AAAAAATGCA-CAGGGCTTAGACATCCCTTTATTGTATCAAATTAAATCGGATTTAATGCTTGGTTGTGTGTCATCCAGCTCAGACCCATTTGTACAAGGCTGTGGAGTG-ACGAGCTGGTTCAGATGAATGAATAGCTTTCTCATTACTTCACCCCCATTCTGCTGTCTCTTTTCCTGTCCTTTGTATTATAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCCTGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTGAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGCAACCTGAAAAGTCCTCCCAAACCCTTCC---------CCCATCCTTT--------TTTTTTATTTTT--TATCCCTTAGACTAATTAGTCTGATGTAAGCTCACAGCACTTCATTTACTGTTACTGAGTCTGCTGCGTAGCTGATCTAGGCTCTGAGCTTAACAGCCTGTAATAG-AAGG-GGAAGTTGTAAGAA--GAAAGA-----------------------AATTAGGTTCACTGCACGCAGATACTTAAT---AAAAAATAA--------TCCTTTTAATAAACTGCTAATCATTGTTAGTCATTTCCTCATTCAT---ATTCATATC--------TGTATAATATATGAA-TATATGTT------------AACA--TGTATACA------------CAACAGTGGCTATCTCTC--------ATTTACAGTA--TTAGTTATGGAATATTCAGGAAAGCC-ATTAACAAATAAATTAACCCAGAATAAC-TTCTAGCGAAAGAATTATTCTTTGTCCATATGGAT-----TGGAAAAC------TACATTTGAATTTAGA----AGAAAGGGACAATATAT-ACTTTTGTTTGTAAACTAAA------GAG---------GATGATAGAAGAATGAATGACAAA-----ATAGCTGTTAAAATGTAAATCCTATTCTC-TGATTGATACATGATACCACCTGACCT-ACTTTGTTAC--ATGTTTATTCCCTCATCCAGGCATC-AAATATTT-ATTGATGATTTAATATGACTTGCTGGGCCAATACAAGTATATTACTATAAATCTTTGCATCAACACCTATGGAATGTTTT-AAAATGGCACAGAAGGGT------GGCTTATACAATCTATTTTTTAAGCTTCATTTTCTACTTGGATTCTTAGG-AAAGATCTTGCCACTAAATAATTGAGAGACTAAAATACAATAACACTTGAGAAGAAGGT----CACTTATTTGGCAAACTAAGAAAAGAA-----ACAGGGATCAGAGAATAGCAGCAACAACA---AAAATTGCCTTGAagaaccaaa-caagtcccagaactatc-aatgagcttagagacca-cagaatccgatcaacctcatgttttac----------aaaag--agaaaactgaaattcag--agttgaagtgatcatccagggtcatatgaagaactgttgcagagtt------------ACT-GTagagccctccagacttcctgctccagac-----ctattctctttcatctgatattggacacaattagagcaaaggatattacatgatttcccaaatcacagcagatgagaagtcacaaa----ttagaggctgaggga-agtttctagaagTTGAGAGTTCAGCTGTTGTGAAATAGTAGAATCTATG--ATCAAATTTGGACATTGCTAAGTAGAAATTTAAGTAATCTGG-A-AAAGATAGTCTCTTGG-TAACACTCAAATGCAGGGTATGAATAAACATC---------------------------------------------------------------------------AC-AT------TTTAAAATTTGGTAATGCATATCTGTGCTGCCTCAGCTTATCTAATTT----TAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2635406 1964 +   3667625 ------CTCAAAACACTGATCCTGCCAGCTTAAACTTTATCACGGATTTAAAGTCA----CTGTCACTGTCCACAGTTGTGAAGGATTCATTTCACATTCACTTGGGA-----------------CAAATAGTGGCTTAGCAGGAATTGGTTTACAATCCTG---GACTCCT---GTACACCTAATAAGTCCAAAAATACTACTT-GGCTAGAAACGT--GATAAATGC----ATGATTG--------TATAATTTT-----TATCCATTGCATACTCTCGTGTATAAAAAC-------------TTTAAAAAAAAATGTGTCATGGCTTAGGCTTCCCTTTATTGTAAAAAATGAAATTGGATTTAATGCCTGGTTGTGTGTCATGCAGATCAGATCCATTTGTAGAAGGCTGTGGAGTGACTGAACTGGTTCAGATGAATGAATAGCTTTCTCATTACTTCACTCCCAGTCTGCTGTCTCTTTTCCTGTCCTTTGTATTATAATGGAGGACAGCTGTGGCAGTGAAGTGAATATTAACTAACCCCAGTGCCTCAGCAGATTGTGACTTTAATCCCTGCAAATACCACTAAAATCAAAATTTAATTACACTCAGAGTAGCTCTGTTAATGCCTGAAAAATATTTAACAATTAGTGGTTGGCTTAATTAAGCAAACTGCCTTTCACAAAGTAACCTGAAAAGTCCTCCCAAGCCCTTCC---------CCCATTCGttattttattttatttattttt--tatCCCTCAGACTAATTAGTCTGATGTAAGCTCACAGCACTTCATTTACTGTTACTGAGTCTGCTGCTTAGCTGATCTGGTCTCTGAGCTTAACAGGCTGTAATAG-AA-GAGGAAGTTGTTAAAG--GAAAAA-----------------------AATTAGGTTCACTGCACTCAACTACTTAAT---AAAAAAGAAAAAAATAATCCTTTTAATAAACCACTAATCATTGTTAGTCATTTCCTCatttat---atatatata---------------------tattttatGAA------------TACA--TATATATG------------ACATAATGACTGTATCTC--------AGCTATAGTA--TTAGTTATGGGAGATTCAGGAAAAACAAAT----AATATATAAACAAAGAATGAC-TGATCTTAAAATAATTTTCATTTGTCCATATAAAT-----TGGAAAACACTATTTATATTTAATTTAGGA----AGAAAGGGACAGCTTAT-ACTTTTGTTTGTCAAC--AACGAC--AAC---------AAAAAACAAATGAGGAATGATGGG--------------AAAACTTAAATCCCAGTGTC-TGATTCATTCAT-TCACTACCTGGCCT-ACTTGGCTAC--ATGTTCGttcactcatccaaacatc-caacattt-gttgaagatttaatgtggattgctggggtgatacaaagatgTTATTGTAAATCTTTGCCTCCACACCTATAGCATGTTTT-AAAATGCTACAA-AGGCT------GGCTTATACGATCTATTTGTTGAGCTTTATTTTCTACTTGAATTCCCTGG-AAAGATTTAACCTCTAAATAATTGAAAGAATAAAATACAGTAACACTTCAAAAGGAGGT----CACTTATTCCACAAACTAAGAAAAGAA-----ACAAGAATCAGAAATAGCTCAAAG----A---AAAATGGCCTTGGAGAAGCAAA-CATGCTGTagagctatc-agagagctcagagacca-ttaagtt----caaccccatatttcaa----------agaag--ataaaactgaaattcagcgaatttaagtgacCATTGAGAGCCATGTAATGAACCATCAACAAGTTCACCAGAA--tcatagtagggcccatccaggc-ccctgcttcagat-----ctattttctgttatctgacattagacacgataataacaaaatgtgtaacataatttcttaaatcatggcagattataaaccacaaa----ttagaggctgaaggagggtttctaaaggcTTAATGTTCAGATGCTGTGAAATATGAGAACACATG--ATGAAATTTAGAAACCGTTAAGTAAAAATTAAAATAATCTGG-ATAAAGATGGTCTCCTGG-TAACATTCATATCCAGTGGACAAATAA--------------------------------------------------------------------------------AC-AAAA----TTCT------------------CTGTACTGCCTTAGCTCACCTCATTT----TAT
i dasNov3.JH567306         C 0 I 8

a score=26451.000000
s hg38.chr5_KI270796v1_alt     95353 2 +    172708 tg
s panTro5.chr5             125199399 2 + 181907262 tg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126536235 2 + 183735486 tg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1727820 2 +   8933513 tg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139858566 2 + 163208435 tg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122847502 2 + 180051392 tg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124271116 2 + 181584905 tg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16269489 2 +  18395747 tg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5282420 2 +  26952557 tg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28383345 2 +  82825804 TA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4052241 2 -   4237731 tg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      320846 2 -   1175262 tg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123667451 2 - 204313951 AG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55711378 2 -  71252344 tg
i saiBol1.JH378106         I 11 C 0
s cebCap1.NW_016107590v1       14324 2 -   3089952 tg
i cebCap1.NW_016107590v1   I 11 C 0
s micMur3.chr12             60547471 2 + 108143057 TG
i micMur3.chr12            C 0 I 55
s proCoq1.NW_012155062v1     3587851 2 +  11683526 TG
i proCoq1.NW_012155062v1   C 0 I 4
s canFam3.chr11             14920700 2 +  74389097 tg
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2637378 2 +   3667625 tg
i dasNov3.JH567306         I 8 C 0
e otoGar3.GL873679           3075936 5 +   4132165 I
e aotNan1.NW_018505940v1    13212301 16 -  42888418 I
e mm10.chr18                55521218 0 +  90702639 C

a score=78017.000000
s hg38.chr5_KI270796v1_alt     95355 10 +    172708 tgtatgcata
s panTro5.chr5             125199401 10 + 181907262 tgtatgcgta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126536237 10 + 183735486 tgtatgcgta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1727822 10 +   8933513 tgtatgcgta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139858568 10 + 163208435 tgtatgtgta
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122847504 10 + 180051392 tatgtgtgta
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124271118 10 + 181584905 tatgtgtgta
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16269491 10 +  18395747 tatgtgtgta
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5282422 10 +  26952557 tgtgtgtgta
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28383347 10 +  82825804 tgtgtgtgta
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4052243 10 -   4237731 tgtgtgtgta
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      320848 10 -   1175262 tgtgtgtgta
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123667453 10 - 204313951 TATGTGCAGg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55711380 10 -  71252344 tgtgtgtgtg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       14326 10 -   3089952 tgtgtgtgtg
i cebCap1.NW_016107590v1   C 0 C 0
s proCoq1.NW_012155062v1     3587857  5 +  11683526 tgtgt-----
i proCoq1.NW_012155062v1   I 4 C 0
s otoGar3.GL873679           3075941  5 +   4132165 TCTCt-----
i otoGar3.GL873679         I 5 C 0
s mm10.chr18                55521218 10 +  90702639 TGTATGCAGA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14920702 10 +  74389097 tgtaggtatg
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2637380 10 +   3667625 tgtgtgcaca
i dasNov3.JH567306         C 0 I 7
e micMur3.chr12             60547473 55 + 108143057 I
e aotNan1.NW_018505940v1    13212301 16 -  42888418 I

a score=165163.000000
s hg38.chr5_KI270796v1_alt     95365 15 +    172708 gtatt--------tg--tgtgtgtg
s panTro5.chr5             125199411 15 + 181907262 gtatt--------tg--tgtgtgtg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126536247 15 + 183735486 gtatt--------tg--tgtgtgtg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1727832 15 +   8933513 gtatt--------tg--tgtgtgtg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139858578 15 + 163208435 gtatt--------tg--tgtgtgcg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122847514 15 + 180051392 gtatt--------tg--tgtgtgtg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124271128 15 + 181584905 gtatt--------tg--tgtgtgtg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16269501 13 +  18395747 gtatt------------tgtgtgtg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5282432 17 +  26952557 gtatt--------tgtatgtgtgtg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28383357 15 +  82825804 gtatt--------tg--tgtgtgtg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4052253 15 -   4237731 gtatt--------tg--tgtgtatg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      320858 15 -   1175262 gtatt--------tg--tgtgtgtg
i colAng1.NW_012119644v1   C 0 I 875
s calJac3.chr2             123667463 10 - 204313951 -------------tg--tgtgtgtg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55711390 10 -  71252344 -------------tg--tgtgtgtg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       14336 10 -   3089952 -------------tg--tgtgtgtg
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13212317 23 -  42888418 gtgtgtgtgtgtgtg--tgtgtgtg
i aotNan1.NW_018505940v1   I 16 C 0
s proCoq1.NW_012155062v1     3587862 15 +  11683526 gtgtg--------tg--tgtgtgtg
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3075946 15 +   4132165 gtatg--------tg--tgtgttta
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55521228  8 +  90702639 -----------------TGTGAATG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14920713 15 +  74389097 gtgtg--------tg--cgtgcgtg
i canFam3.chr11            I 1 I 6
s dasNov3.JH567306           2637397 15 +   3667625 gtgtt--------tg--tgtgtgca
i dasNov3.JH567306         I 7 C 0
e micMur3.chr12             60547473 55 + 108143057 I

a score=-25063.000000
s hg38.chr5_KI270796v1_alt     95380 25 +    172708 ggtgtgtgtgt----gagag---------------------------agag--agaga
s panTro5.chr5             125199426 25 + 181907262 ggtgtctgtgt----gagag---------------------------agag--agaga
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126536262 52 + 183735486 ggtgtctgtgt----gAGAGNNNNNNNNNNNNNNNNNNNNTGTGTGTagag--agaga
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1727847 25 +   8933513 ggggtgtgtgt----gtgag---------------------------agag--agaga
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139858593 24 + 163208435 ggtgtgtgtgt----gtgag---------------------------agag--agag-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122847529  9 + 180051392 ------tgtga----gagc---------------------------------------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124271143  9 + 181584905 ------tgtgt----gaga---------------------------------------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16269514  9 +  18395747 ------tgtgt----gaga---------------------------------------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5282449  9 +  26952557 ------tgtga----gaga---------------------------------------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28383372  7 +  82825804 ------tgtgt------ga---------------------------------------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4052268 13 -   4237731 ------tgtgtgagagaga---------------------------------------
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123667473 25 - 204313951 tgtgtgtgtgt----gAGAG---------------------------AGAG--AGAGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55711400 25 -  71252344 tgtgtgtgtgt----gagag---------------------------agag--agaga
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       14346 25 -   3089952 tgtgagtgtgt----gtgag---------------------------tgag--agaga
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13212340 25 -  42888418 tgtgtgtgtgt----gagag---------------------------agag--agaga
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3587877 25 +  11683526 tgtgtgtgtgt----gtgag---------------------------agag--agaga
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3075961 26 +   4132165 tatgtgtgtgt----gtgGG---------------------------GGGG-CAGGGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55521236 25 +  90702639 --AGTGTACAT----GAGAG---------------------------AGACCCAGAGA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14920734 15 +  74389097 tgcgtgtgtgt----gtgA---------------------------------------
i canFam3.chr11            I 6 C 0
s dasNov3.JH567306           2637412 11 +   3667625 ggtttgtttgt-----------------------------------------------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60547473 55 + 108143057 I
e colAng1.NW_012119644v1      320873 875 -   1175262 I

a score=110123.000000
s hg38.chr5_KI270796v1_alt     95405 39 +    172708 gagagagagagagga-ag------------------------gagaga----------gagagaTTCTCTCCTT
s panTro5.chr5             125199451 33 + 181907262 gagag---ga-agga---------------------------gagaga----------gagagaTTCTCTCCTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126536314 40 + 183735486 gagagagagagaganaag------------------------gagaga----------gagagaTTCTCTCCTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1727872 29 +   8933513 g----------agga-ag------------------------gagaga----------gagagaTTCTCTCCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139858617 28 + 163208435 -----------agga-ag------------------------gagaga----------gagagaTTCCCTCCTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122847538 39 + 180051392 gagagagagagaggt-gg------------------------gagagg----------gagagaTTCCCTCCTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124271152 39 + 181584905 gagagagagagagga-gg------------------------gagagg----------gagagaTTCCCTCCTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16269523 39 +  18395747 gagagagagagagga-gg------------------------gagagg----------gagagaTTCCCTCCTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5282458 39 +  26952557 gagagagagagagga-gg------------------------gagagg----------gagagaTTCCCTCCTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28383379 39 +  82825804 gagagagagagagga-gg------------------------gagagg----------gagagaTTCCCTCCTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4052281 39 -   4237731 gagagagagagagga-gg------------------------gagagg----------gagagaTTCCCTCCTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      321748 39 -   1175262 gagagagagagagga-gg------------------------gagaga----------gagagaTTTCCTCCTT
i colAng1.NW_012119644v1   I 875 C 0
s calJac3.chr2             123667498 17 - 204313951 -----------------G----------------------------------------GAGAGATTTCCTCCTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55711425 47 -  71252344 -----------------gagagagagagggagagagagagagagggga----------gagagaTTTCCTCCTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       14371 23 -   3089952 -----------------g------------------------agagga----------gagagaTTTCCTTCTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13212365 23 -  42888418 -----------------g------------------------agagga----------gagaAATTTCCTCCTT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3587902 32 +  11683526 ------------------------------------------gagagagagagagagagagagaTTTCCTCCTC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3075987 14 +   4132165 ------------------------------------------CAGAGA------------------TCTTCCTT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55521261  9 +  90702639 ------------------------------------------CAAAGA----------AGG-------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14920749 10 +  74389097 ----------------------------------------------------------------TTCTCTCCTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2637423 16 +   3667625 ----------------------------------------------------------atgCAATTTCCTCCCT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60547473 55 + 108143057 I

a score=23445548.000000
s hg38.chr5_KI270796v1_alt     95444 1400 +    172708 CAGGGCTTTTAAGATAATACT--------GA-AAAAGATTGAGAT-AATAAGCTAATTTAGTGATTTTCTTTTTGAGACTATCAAAAGAAAAA-TATTTTTCTCTGCTCCTAGAAAGTGCCTACTGAGGGTTTTAGTGTAAGTGATATGTTCATTT-TTCAATCTA---GGAAATAAAA-ACCTGTAATCTCCCCCATATGAGA-TGGTTTCACCTGTATGGATTTC----TTTAGGCCTTCCTTTTGTTTCATATTTAAAACTA---GTT-----TTTGA-------------------------GAATTTTGGTTGTTGCTTT-----------------------------------------AATTCAA--------------------------------CAATTA--GG-------------------------------------------------------------------------------------AGACAGAAATGAAGACAGCAAGTATCATTCATGTGTATGTGTCTAAAAGGATG-T--TAGGTACAC-CACACCTAA--CT--GCAAGCACTCTGCAACCCGGTACAATTCTGTACATTTCCATTTAATTGGCAGGC-TGTGTTTCAAGTCTCATGGTTGGTTGAGGATGAAGATGAATTTGCAGTTCATAGTACAGAAGAGGAAGTACATATGGTTTGTGATTGAGATACTTATGTTTTGACTGAAGAATTGTGCAGCATCTGG------CAAGTGTATAAATCCTTCAGTGGCAGCTATTTAACTTTTTAATACCAGAGGAAACAGCATATTATATTTCAAAATTGATAGCTTTG-AAAAATGGGTATTAACATGATGATATAAGTGGATACAAAATCTTCTTATGGGTTTTCCATGAATAATTGTACCTTAATGGTATATGCAACTTATGTTTCAAATTCTTTTGTCTATTAGTCGCATACATATATCTTTATTTCTTCTTGAAT--------GTATGCTGCATAACTATTAACCAAATGTTCATTCACCATCAAGTTCTGTTTCTTCAGTGTGTTTTCTCATTCAAAAGCATATAACAATTCTCCTTAATGATACAAATAACCCACTTCTAATGGACTATTATGCCTCTTTTCCATTCTTGAAAAGCATTATTGCTTTCAGGTTTTTAGTTAAATGCTATACAATTTCAAAATAGTATAATACACTTAAATGATCTTTAAGT------TTCTCTTT-----AAAAGAGCAGTAAGTATTAAAAGCCAAACAGAAAAATTGCCAAAGTCAGTTCACCTCAATTCAACTGTCAAAACTTTTCATGTG-----------------------------AAAAATAAATGGAAATGTTTTTCTATTTCAAGTAAGCAAATTTGTGGGTACAGCATTCTCTTTTGACTCTGAAAATCATTTGAAAAC-CAAAAAGCTTGTCCATGTTTGTTTTCAATTTGCAAAAAGTCAGCTGCATCCGTGAAACAGGCACTGAGCCTCATTATCTTGGCTAATAGAGAAAG-AACTGCCCTCTCTTGAAAGGTGCAATAAATCTTTCATG-TTCTTAAGTATTGCTTCATGTTCATCAGCAAGAATTTATCTA-----------------ACAGTGTGCGACTAACATAAACATGTAACATCACCTCTT
s panTro5.chr5             125199484 1400 + 181907262 CAGGGCTTTTAAGATAATACT--------GA-AAAAGATTGAGAT-AATAAGCTAATTTGGTGATTTTCTTTTTGAGACTATCAAAAGAAAAA-TATTTTTCTCTGCTCCTAGAAAGTGCCTACTGAGAGTTTTAATGTAAGTGATATGTTCATTT-TTCAATCTA---GGAAATAAAA-ACCTGTAATCTCCCCCATATGAGA-TGGTTTCACCTGTATGGATTTC----TTTAGGCCTTCCTTTTGTTTCATATTTAAAACTA---GTT-----TTTGA-------------------------GAATTTTGGTTGTTGCTTT-----------------------------------------AATTCAA--------------------------------CAATTA--GG-------------------------------------------------------------------------------------AGACAGAAATGAAGACAGCAAGTATCATTCATGTGTATGTGTCTAAAAGGATG-T--TAGGTACAC-CACACCTAA--CT--GCAAGCACTCTGCAACCCGGTACAATTCTGTACATTTCCATTTAATTGGCAGGC-TGTGTTTCAAGTCTCATGGTTGGTTGAGGATGAAGATGAAATTGCAGTTCATAGTACAGAAGAGGAAGTACATATGGTTTGTGATTGAGATACTTATATTTTGACTGAAGAATTGTGCAGCATCTGG------CAAGTGTATAAATCCTTCAGTGGCAGCTATTTAACTTTTTAATACCAGAGGAAACAGCATATTATATTTCAAAATTGATAGCTTTG-AAAAATGGGTATTAACATGATGATATAAGTGGATACAAAATCTTCTTATGGGTTTTCCATGAATAATTGTACTTTAATGGTATATGCAACTTATGTTTCAAATTCTTTTGTCTATTAGTCACATACATATATCTTTATTTCTTCTTGAAT--------GTATGCTGCATAACTATTAACCAAATGTTCATTCACCTTCAAATTCTGTTTCTTCAGTGTGTTTTCTCATTCAAAAGCATATAACAATTCTCCTTAATGATACAAATAACCCACTTCTAATGGACTATTATGCCTCTTTTCCATTCTTGAAAAGCATTATTGCTTTCAGGTTTTTAGTTAAATGCTATACAATTTCAAAATAGTATAATACACTTAAATGATCTTTAAGT------TTCTCTTT-----AAAAGAGCAGTAAGTATTAAAAGCCAAACAGAAAAATTGCCAAAGTCAATTCACCTCAATTCAACTGTCAAAACTTTTCATGTG-----------------------------AAAAATAAGTGGAAATGTTTTTCTATTTCAAGTAAGCAAATTTGTGGGTACAGCATTCTCTTTTGACTCTGAAAATCATTTGAAAAC-AAAAAAGCTTGTCCATGTTTGTTTTCAATTTGCAAAAAGTCAGCTGCATCCGTGAAACAGGCACTGAGCCTCATTATCCTGGCTAATAGAGAAAG-AACTGCCCTCTCTTGGAAGGTGCAATAAATCTTTCATG-TTCTTAAGTATTGCTTCATGTTCATCAGCAAGAATTTATCTA-----------------ACAGTGTGCGACTAACATAAACATGTAACATCACCTCTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126536354 1400 + 183735486 CAGGGCTTTTAAGATAATACT--------GA-AAAAGATTGAGAT-AATAAGCTAATTTGGTGATTTTCTTTTTGAGACTATCAAAAGAAAAA-TATTTTTCTCTGCTCCTAGAAAGTGCCTACTGAGAGTTTTAATGTAAGTGATATGTTCATTT-TTCAATCTA---GGAAATAAAA-ACCTGTAATCTCCCCCATATGAGA-TGGTTTCACCTGTATGGATTTC----TTTAGGCCTTCCTTTTGTTTCATATTTAAAACTA---GTT-----TTTGA-------------------------GAATTTTGGTTGTTGCTTT-----------------------------------------AATTCAA--------------------------------CAATTA--GG-------------------------------------------------------------------------------------AGACAGAAATGAAGACAGCAAGTATCATTCATGTGTATGTGTCTAAAAGGATG-T--TAGGTACAC-CACACCTAA--CT--GCAAGCACTCTGCAACCCGGTACAATTCTGTACATTTCCATTTAATTGGCAGGC-TGTGTTTCAAGTCTCATGGTTGGTTGAGGATGAAGATGAAATTGCAGTTCATAGTACAGAAGAGGAAGTACATATGGTTTGTGATTGAGATACTTATATTTTGACTGAAGAATTGTGCAGCATCTGG------CAAGTGTATAAATCCTTCAGTGGCAGCTATTTAACTTTTTAATACCAGAGGAAACAGCATATTATATTTCAAAATTGATAGCTTTG-AAAAATGGGTATTAACATGATGATATAAGTGGATACAAAATCTTCTTATGGGTTTTCCATGAATAATTGTACTTTAATGGTATATGCAACTTATGTTTCAAATTCTTTTGTCTATTAGTCGCATACATATATCTTTATTTCTTCTTGAAT--------GTATGCTGCATAACTATTAACCAAATGTTCATTCACCTTCAAATTCTGTTTCTTCAGTGTGTTTTCTCATTCAAAAGCATATAACAATTCTCCTTAATGATACAAATAACCCACTTCTAATGGACTATTATGCCTCTTTTCCATTCTTGAAAAGCATTATTGCTTTCAGGTTTTTAGTTAAATGCTATACAATTTCAAAATAGTATAATACACTTAAATGATCTTTAAGT------TTCTCTTT-----AAAAGAGCAGTAAGTATTAAAAGCCAAACAGAAAAATTGCCAAAGTCAATTCACCTCAATTCAACTGTCAAAACTTTTCATGTG-----------------------------AAAAATAAGTGGAAATGTTTTTCTATTTCAAGTAAGCAAATTTGTGGGTACAGCATTCTCTTTTGACTCTGAAAATCATTTGAAAAC-AAAAAAGCTTGTCCATGTTTGTTTTCAATTTGCAAAAAGTCAGCTGCATCCGTGAAACAGGCACTGAGCCTCATTATCTTGGCTAATAGAGAAAG-AACTGCCCTCTCTTGGAAGGTGCAATAAATCTTTCATG-TTCTTAAGTATTGCTTCATGTTCATCAGCAAGAATTTATCTA-----------------ACAGTGTGCGACTAACATAAACATGTAACATCACCTCTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1727901 1396 +   8933513 CAGGGCTTTTAAGATAATACT--------GA-AAAAGATTGAGAT-AATAAGCTAATTTAGTGATTTTCTTTTTGAGACTATCAAAAGAAAAA-TATTCTTCTCTGCTCCTAGAAAGTAC---CTGAGAGTTTTAATGTAAGTGATATGTTCATTT-TTCAATCTA---GGAAATAAAA-ACCTGTAATCTCCCCCATATGAGA-TGGTTTCACCTGTATGGATTTC----TTTAGGCCTTCCTTTTATTTCATATTTAAAACTA---GTT-----TTTGA-------------------------GAATTTTGGTTGTTGCTTT-----------------------------------------AATTCAA--------------------------------CAATTA--GG-------------------------------------------------------------------------------------AGACAGAAATGAAGACACCAAGTATCATTCATGTGTATGTGTCTAAAAGGATG-T--TAGGTACAC-CACACCTAA--CT--GCAAGCACTCTGCAACCCGGTACAATTCTGTACATTTCCATTTAATTGGCAGGC-TGTGTTTCAAGTCTCACGGTTGGTTGAGGATGAAGATGAAATTGCAGTTCATAGTACAGAAGAGGAAGTACATATGGTTTGTGATTGAGATACTTATATTTTGACTGAAGAATTGTGCAGCATCTGG------CAAGTGTATAAATCCTTCAGTGGCAGCTATTTAACTTTTTAATACCAGAGGAAACAGCATATTATATTTCAAAATTGATAGCTTTG-AAAAATGGGTATTAACATGATGATATAAGTGGATACAAAATCATCTTAT-GGTTTTCCATGAATAATTGTACCTTAATGGTATATGCAACTTATGTTTCAAATTCTTTTGTCTATTAGTCGCATACATATATCTTTATTTCTTCTTGAAT--------GTATGCTGCATAACTATTAACCAAATGTTCATTCACCATCAAATTCTGTTTCTTCAGTGTGTTTTCTCATTCAGAAGCATATAACAATTCTCCTTAATGATACAAATAACCCACTTCTAATGGACTATTATGCCTCTTTTCCATTCTTGAAAAGCATTATTGCTTTCAGGTTTTTAGTTAAATGCTATACAATTTCAAAATAGTATAATACACTTAAATGATCTTTAAGT------TTCTCTTT-----AAAAGAGCAGTAAGTATTAAAAGCCAAACAGAAAAATTGCCAAAGTCAATTCACCTCAATTCAACTGTCAAAACTTTTCATGTG-----------------------------AAAAATAAATGGAAATGTTTTTCTGTTTCAAGTAAGCAAATTTGTGGGTACAGCATTCTCTTTTGACTCTGAAAATCATTTGAAAAC-AAAAAAGCTTGTCCATGTTTGTTTTCAATTTGCAAAAAGTCAGCTGCATCCGTGAAACAGGCACTGAGCCTCATTATCTTGGCTAATAGAGAAAG-AACTGCCCTTTCTTGGAAGGTGCAATAAATCTTTCATG-TTCTTAAGTATTGCTTCATGTTCATCAGCAAGAATTTATCTA-----------------ACAGTGTGCGACTAACATAAACATGTAAGATCATCTCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139858645 1398 + 163208435 CAGGGCTTTTAAGATAATACT--------GA-AAAGGGTTGAGAT-AATAAGCTAATTTAGTGATTTTCTTTTTGAGACTATCAAAAGAAAAA-TATTTTTCTCTGCTCCTAGAAAGTGCCTACTGAGAGTTTTAATGTAGGTGATATGTTCATTT-TTCAATCTA---GGAGATAAAA-ACCTGTAATCTCCCCCATATGAGA-TGGTTTCACCTGTATGGATTTC----TTTAGGCCTTCGTTTTGTTTCATATTTAAAACTA---GTT-----TTTGA-------------------------GAATTTTGGTTGTTGCTTG-----------------------------------------AATTCAA--------------------------------CAATTA--GG-------------------------------------------------------------------------------------AGACAGAAATGAAGAGAGCAAGTATCATTCATGTGTATGTGTCTAAAAGGATG-T--TAGGTACAC-CACACCTAA--CT--GCCAGCACTCTGCAACCCGGTACAATTCTGTACATTTCCATTTAATTGGCAGGC-TATGTTTCAAGTCTCATGGTTGGTTGAGGATGAAGATGAAATTGCAGTTCATAGTACGAAAGAGGAAGTACATATGGTTTGTGATTGAGATACTTATATTTTGACTGAAGAATTTTGCAGCATCTGG------CAGGTGTATAAATCCTTCAGTGGCAGCTATTTAACTTTTTAGTAGTAGAGGAAACAGCATATTATTCTTCAAAATTGATAGCTTTG-AAAAATGGGTATTAACATGATGATATAAGTGGATACAAAATCTTCTTATGGGTTTTCCATGAATAATTGTACCTTAATGGTATATGCAACTTATGTTTCAAATTCTTTTGTCTATCAGTCACATACATATATCTTTATTTCTTCTTGAAT--------GTATGCTGCATAACTATTAACCAAATGTTCATTCACCATCAAATTCTGTTTCTTCAGTGTATTTTCTCATTCGAAAGCACATAACAGTTCTCCTTAATGATACAAATAACCCACTTCTAATGGACTATTATGCCTCTTTTCCATTCTTGGAAAGCGTTATTGCTTTCAGGTTTTTAGTTAAATGCTATACAATTTCAAAATAGTATAATACACTTAAATGATCTTTAAGT------TTCTCTTT-----AAAAGAGCAGTAAGTATTAAAAGCCAAACAGAAAAATTGCCAAAGTCAATTCACCTCAATTCAACTGTCAAAACTTTTCATGTG-----------------------------AAAAATAAATGGAAATGTTTTTCTATTTCAAGTAAGCAAATTTGTGGGTACAGCATTCTCTTTTGACTCTGAAAATCATTTGAAAAC-AAAAAAGCTTGTCCATGTTTGTTTTCAATTTGCAAAAAGTCAGCTGCATCCGTGAAACAGGCACTGAGCCTCGTTATCTTGGCTAATAGAGAAAG-AACTGCCCTCTCTTGGAAGGTGCGATAAATCTTTCATG-TTCTTAAGTATTGCTTCATGTTCATCAGCAAGAATTTATCTA-------------------AGTGTGCGACTAACATAAACATGTAACATCACCTCTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122847577 1398 + 180051392 CAGGGCTTTTAAGATAATACT---------A-AATAGATTGAGAT-AATAAGCTAATTTAGTGATTTTCTTTTTGAGATTATCAAAAGAAAAA-CATTTTTCTCTGCTCCTAGAAAGTGCCTACTGAGAGTTTTAATGTAAGTGATATGTTCATTT-TTCAATCTA---GGAAATAAAA-ACCTGTAATCTCACCCATATGAGA-TGGTTTCACTCGTATGGATTTC----TTTAGGCCTTCCTTTTAGTTCATATTTAAAACTA---GTT-----TTTGA-------------------------GAATTTTGGTTGTTGCTTT-----------------------------------------AATTCAA--------------------------------CAATTA--GG-------------------------------------------------------------------------------------AGACAGAAATGAAGACAGTAAGTCTCATTCGTGTGTATGTGTCTAAAAGGATG-T--CAGGTACACTCACACCTAA--CT--GCCAGCACTCTGCAACCCAGTACAATTCTGTACATTTCCATTTAATTGGCAGGC-TATGTTTCAAGTCTCATGGTTGGTTGAGGATGAAGATGAAATTGTGGTTCATAGTACAGAAGAGGAAGTACATATGGTTTGTGATTGAGATACTTATATTTTGACTGAAGAATTGTGCAGCATCTGG------CAGGTGTATAAATTCTTCAGAGGCAGCAATTTCACTTTTTAATACTAGAGGAAACAGCATATTATATTTCAAAATTGATAGCTTTG-AAAAATGTATATTAACATGATGATATAAGTGGATACAAAATCTTCTTATGGGGTTTCCAGGAATAATTGTACCTTAATGGTATATGCAACTTATGTTTCAAATTCTTTTGTCTATTAGTCACATACATATATCTTTATTTCTTCTTGAAT--------GTATGCTGCATAACTATTAACCAAATGTTCATTCACCATCAAATTCTGTTTCTTCAGTGTGTTTTCTCATTCAAAAGCACATAACAATTCTCCTTAATGATACAAATAACCCACTTCTAATGGACTATTATGCCTCTTTTCCATTCTTGAAAAGCATTATTGCTTTCAGGTTTTTAGTTAAATGCTATACAATTTCAAAATAGTATAATACACTTAAATGATCTTTAAGT------TTCTCTTT-----AAAAGAGCAGTAAGTATTAAAAGCCAAACAGAAAAATTGCC--AGTCAATTCACCTCAATTCAACTGTCAAAACTTCTCATGTG-----------------------------AAAAATAAATGGAAATGTTCTTCTATTTCAAGTAAGCAAATTTGTGGGTACAGCATTCTCTTTTGACTCTGAAAATCATTTGAAAAC-AGAAAAGCTTGTCCATGCTGGTTTTCGATTTGCAAAAAGTCAGCTGCATCCGTGAAATAGGCACTGAGCCTCATTATCTTGGCTAATAGAGAAAG-AACTGCCCTCTCTTGGAAGGTGCAATAAATGTTTCATG-TTCTTAAGTACTGCTTCACGTTCATCAGCAAGAATTTATGTA-----------------ACAGTGTGGGACTGACATAAACATGTAACATCACCTCTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124271191 1398 + 181584905 CAGGGCTTTTAAGATAATACT---------A-AATAGATTGAGAT-AATAAGCTAATTTAGTGATTTTCTTTTTGAGATTATCAAAAGAAAAA-CATTTTTCTCTGCTCCTAGAAAGTGCCTACTGAGAGTTTTAATGTAAGTGATATGTTCATTT-TTCAATCTA---GGAAATAAAA-ACCTGTAATCTCACCCATATGAGA-TGGTTTCACTCGTATGGATTTC----TTTAGGCCTTCCTTTTAGTTCATATTTAAAACTA---GTT-----TTTGA-------------------------GAATTTTGGTTGTTGCTTT-----------------------------------------AATTCAA--------------------------------CAATTA--GG-------------------------------------------------------------------------------------AGACAGAAATGAAGACAGTAAGTCTCATTCGTGTGTATGTGTCTAAAAGGATG-T--CAGGTACACTCACACCTAA--CT--GCCAGCACTCTGCAACCTGGTACAATTCTGTACATTTCCATTTAATTGGCAGGC-TATGTTTCAAGTCTCATGGTTGGTTGAGGATGAAGATGAAATTGCGGTTCATAGTACAGAAGAGGAAGTACATATGGTTTGTGATTGAGATACTTATATTTTGACTGAAGAATTGTGCAGCATCTGG------CAGGTGTATAAATTCTTCAGAGGCAGCAATTTCACTTTTTAATACTAGAGGAAACAGCATATTATATTTCAAAATTGATAGCTTTG-AAAAATGGATATTAACATGATGATATAAGTGGATACAAAATCTTCTTATGGGGTTTCCAGGAATAATTGTACCTTAATGGTATATGCAACTTATGTTTCAAATTCTTTTGTCTATTAGTCACATACATATATCTTTATTTCTTCTTGAAT--------GTATGCTGCATAACTATTAACCAAATGTTCATTCACCATCAAATTCTGTTTCTTCAGTGTGTTTTCTCATTCAAAAGCACATAACAATTCTCCTTAATGATACAAATAACCCACTTCTAATGGACTATTATGCCTCTTTTCCATTCTTGAAAAGCATTATTGCTTTCAGGTTTTTAGTTAAATGCTATACAATTTCAAAATAGTATAATACACTTAAATGATCTTTAAGT------TTCTCTTT-----AAAAGAGCAGTAAGTATTAAAAGCCAAACAGAAAAATTGCC--AGTCAATTCACCTCAATTCAACTGTCAAAACTTCTCATGTG-----------------------------AAAAATAAATGGAAATGTTCTTCTATTTCAAGTAAGCAAATTTGTGGGTACAGCATTCTCTTTTGACTCTGAAAATCATTTGAAAAC-AGAAAAGCTTGTCCATGCTGGTTTTCGATTTGCAAAAAGTCAGCTGCATCCGTGAAATAGGCACTGAGCCTCATTATCTTGGCTAATAGAGAAAG-AACTGCCCTCTCTTGGAAGGTGCAATAAATCTTTCATG-TTCTTAAGTACTGCTTCACGTTCATCAGCAAGAATTTATGTA-----------------ACAGTGTGGGACTGACATAAACATGTAACATCACCTCTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16269562 1400 +  18395747 CAGGGCTTTTAAGATAATACT---------A-AATAGATTGAGAT-AATAAGCTAATTTAGTGATTTTCTTTTTGAGATTATCAAAAGAAAAA-CA-TTTTCTCTGCTCCTAGAAAGTGCCTACTGAGAGTTTTAATGTAAGTGATATGTTCATTT-TTCAATCTGTTTTTCAATAAAA-ACCTGTAATCTCACCCATATGAGA-TGGTTTCACTCGTATGGATTTC----TTTAGGCCTTCCTTTTAGTTCATATTTAAAACTA---GTT-----TTTGA-------------------------GAATTTTGGTTGTTGCTTT-----------------------------------------AATTCAA--------------------------------CAATTA--GG-------------------------------------------------------------------------------------AGACAGAAATGAAGACAGTAAGTCTCATTCGTGTGTATGTGTCTAAAAGGATG-T--CAGGTACACTCACACCTAA--CT--GCCAGCACTCTGCAACCCGGTACAATTCTGTACATTTCCATTTAATTGGCAGGC-TATGTTTCAAGTCTCATGGTTGGTTGAGGATGAAGATGAAATTGCGGTTCATAGTACAGAAGAGGAAGTACATATGGTTTGTGATTGAGATACTTATATTTTGACTGAAGAATTGTGCAGCATCTGG------CAGGTGTATAAATTCTTCAGAGGCAGCAATTTCACTTTTTAATACTAGAGGAAACAGCATATTATATTTCAAAATTGATAGCTTTG-AAAAATGGATATTAACATGATGATATAAGTGGATACAAAATCTTCTTATGGGGTTTCCAGGAATAATTGTACCTTAATGGTATATGCAACTTATGTTTCAAATTCTTTTGTCTATTAGTCACATACATATATCTTTATTTCTTCTTGAAT--------GTATGCTGCATAACTATTAACCAAATGTTCATTCACCATCAAATTCTGTTTCTTCAGTGTGTTTTCTCATTCAAAAGCACATAACAATTCTCCTTAATGATACAAATAACCCACTTCTAATGGACTATTATGCCTCTTTTCCATTCTTGAAAAGCATTATTGCTTTCAGGTTTTTAGTTAAATGCTATACAATTTCAAAATAGTATAATACACTTAAGTGATCTTTAAGT------TTCTCTTT-----AAAAGAGCAGTAAGTATTAAAAGCCAAACAGAAAAATTGCC--AGTCAATTCACCTCAATTCAACTGTCAAAACTTCTCATGTG-----------------------------AAAAATAAATGGAAATGTTCTTCTATTTCAAGTAAGCAAATTTGTGGGTACAGCATTCTCTTTTGACTCTGAAAATCATTTGAAAAC-AGAAAAGCTTGTCCATGCTGGTTTTCGATTTGCAAAAAGTCAGCTGCATCCGTGAAATAGGCACTGAGCCTCATTATCTTGGCTAATAGAGAAAG-AACTGCCCTCTCTTGGAAGGTGCAATAAATCTTTCATG-TTCTTAAGTACTGCTTCACGTTCATCAGCAAGAATTTATGTA-----------------ACAGTGTGGGACTGACATAAACATGTAACATCACCGCTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5282497 1398 +  26952557 CAGGGCTTTTAAGATAATACT---------A-AATAGATTGAGAT-AATAAGCTAATTTAGTGATTTTCTTTTTGAGACTATCAAAAGAAAAA-CATTTTTCTCTGCTCCTAGAAAGTGCCTACTGAGAGTTTTAATGTAAGTGATATGTTCATTT-TTCAATCTA---GGAAATAAAA-ACCTGTAATCTCACCCATATGAGA-TGGTTTCACTCATATGGATTTC----TTTAGGCCTTCCTTTTAGTTCATATTTAAAACTA---GTT-----TTTGA-------------------------GAATTTTGGTTGTTGCTTT-----------------------------------------AATTCAA--------------------------------CAATTA--GG-------------------------------------------------------------------------------------AGACAGAAATGAAGACAGTAAGTCTCATTCGTGTGTATGTGTCTAAAAGGATG-T--CAGGTACACTCACACCTAA--CT--GCCAGCACTCTGCAACGCGGTCCAATTCTGTACATTTCCATTTAATTGGCAGGC-TATGTTTCAAGTCTCATGGTTGGTTGAGGATGAAGATGAAATTGCGGTTCATAGTACAGAAGAGGAAGTACATATGGTTTGTGATTGAGATACTTATATTTTGACTGAAGAATTGTGCAGCATCTGG------CAGGTGTATAAATTCTTCAGAGGCAGCAATTTCACTTTTTAATACTAGAGGAAACAGCATATTATATTTCAAAATTGATAGCTTTG-AAAAATGGATATTAACATGATGATATAAGTGGATACAAAATCTTCTTATGGGGTTTCCAGGAATAATTGTACCTTAATGGTATATGCAACTTATGTTTCAAATTCTTTTGTCTATTAGTCACATACATATATCTTTATTTCTTCTTGAAT--------GTATGCTGCATAACTATTAACCAAATGTTCATTCACCATCAAATTCTGTTTCTTCAGTGTGTTTTCTCATTCAAAAGCACATAACAATTCTCTTTAATGATACAAATAACCCACTTCTAATGGACTATTATGCCTCTTTTCCATTCTTGAAAAGCATTATTGCTTTCAGGTTTTTAGTTAAATGCTACACAATTTCAAAATAGTATAATACACTTAAATGATCTTTAAGT------TTCTCTTT-----AAAAGAGCAGTAAGTATTAAAAGCCAAACAGAAAAATTGCC--AGTCAATTCACCTCAATTCAACTGTCAAAACTTCTCATGTG-----------------------------AAAAATAAATGGAAATGTTCTTCTATTTCAAGTAAGCAAATTTGTGGGTACAGCATTCTCTTTTGACTCTGAAAATCATTTGAAAAC-AGGAAAGCTTGTCCATGCTTGTTTTCGATTTGCAAAAAGTCAGCTGCATCCATGAAATAGGCACTGAGCCTCATTATCTTGGCTAATAGAGAAAG-AACTGCCCTCTCTTGGAAGGTGCAATAAATCTTTCATG-TTCTTAAGTACTGCTTCATGTTCATCAGCAAGAATTTATGTA-----------------ACAGTGTGCGACTGACATAAACATGTAACATCACCTCTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28383418 1399 +  82825804 CAGGGCTTTTAAGATAATACT--------GA-AATAGATTGAGAT-AATAAGCTAATTTAGTGATTTTCTTTTTGAGACTATCAAAAGAAAAA-CATTTTTCTCTGCTCCTAGAAAGTGCCTACTGAGAGTTTTAATGTAAGTGATATGTTCATTT-TTCAGTCTA---GGAAATAAAA-ACCTGTAATCTCACCCATATGAGA-TGGTTTCACCCGTATGGATTTC----TTTAGGCCTTCCTTTTAGTTCATATTTAAAACTA---GGT-----TTTGA-------------------------GAATTTTGGTTGCTGCTTT-----------------------------------------AATTCAA--------------------------------CAATTA--GG-------------------------------------------------------------------------------------AGACAGAAATGAAGACAGTAAGTCTCATTAATGTGTATGTGGCTAAAAGGATG-T--CAGGTACACCCACACCTAA--CT--GCCAGCAGTCTGCAACCCGGTACAATTCTGTACATTTCCATTTAATTGGCAGGC-TATGTTTCAAGTCTCATGGTTGGTTGAGGATGAAGATGAAATTGCGGTTCATAGTACAGAAGAGGAAGTACATATGGTTTGTGATTGAGATACTTATATTTTGACCGAAGAATTGTGCAGCATCTGG------CAGGTGTATAAATTCTTCAGAGGCAAAAATTTCACTTTTTAATACTAGAGGAAACAGCATATTATATTTCAAAATTGATAGCTTTG-AAAAATGGATATTAACATGACGATATAAGTGGATACAAAATCTTCTTACGGGGTTTCCAGGAATAATTGTACCTTAATGGTATATGCAACTTATGTTTCAAATTCTTTTGTCTATTAGTCACATACATATATCTTTATTTCTTCTTGAAT--------GTATGCTGCATAACTATTAACCAAATGTTCATTCACCATCAAATTCTGTTTCTTCAGTGTGTTTTCTCATTCAAAAGCACATAACAATTCTCCTTAATGATACAAATAACCCACTTCTAATGGACTATTATGCCTCTTTTCCATTCTTGAAAAGCATTATTGCTTTCAGGTTTTTAGTTAAATGCTATACAATTTCAAAATAGTATAATACACTTAAATGATCTTTAAGT------TTCTCTTT-----AAAAGAGCAGTAAGTATTAAAAGCCAAACAGAAAAATTGCC--AGTCAATTCACCTCAATTCAACTGTCAAAACTTCTCATGTG-----------------------------AAAAATAAATGGAAATGTTCTTCTATTTCAAGTAAGCAAATTTGTGGGTACAGCATTCTCTTTTGACTCTGAAAATCATTTGAAAAC-AGAAAAGCTTGTCCATGCTTGTTTTCGATTTGCAAAAAGTCAGCTGCATCCGTGAAATAGGCACTGAGCCTCATTATCTTGGCTAATAGAGAAAG-AACTGCCCTCTCTTGGAAGGTGCAATAAATCTTTCATG-TTCTTAAGTACTGCTTCATGTTCATCAGCAAGAATTTATCTA-----------------ACAGTGTGCGACTGACATAAACATGTAACATCACCTCTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4052320 1398 -   4237731 CAGGGCTTTTAAGATAATACT---------A-AATAGATTGAGAT-AATAAGCTAATTTAGTGATTTTCTTTTTGAGACTATCAAAAGAAAAA-CATTTTTCTCTGCTCCTAGAAAGTGCCTACTGAGAGTTTTAATGTAAGTGATATGTTCATTT-TTCAATCTA---GGAAATAAAA-ACCTGTAATCTCACCCATATGAGA-TGGTTTCACCCGTATGGATTTC----TTTAGGCCTTCCTTTTAGTTCATATTTAAAACTA---GTT-----TTTGA-------------------------GAATTTTGGTTGTTGCTTT-----------------------------------------AATTCAA--------------------------------CAATTA--GG-------------------------------------------------------------------------------------AGACAGAAATGAAGACAGTAAGTCTCATTCGTGTGTATGTGTCTAAAAGGATG-T--CAGGTACACCCACACCTAA--CT--GCCAGCACTCTGCAACCCGGTACAATTCTGTACATTTCCATTTAATTGGCAGGC-TATGTTTCAAGTCTCATGGTTGGTTGAGGATGAAGATGAAATTGCGGTTCATAGTACAGAAGAGGAAGTACATATGGTTTGTGATTGAGATACTTATATTTTGACTGAAGAATTGTGCAGCATCTGG------CAGGTGTATAAATTCTGCAGAGGCAACAATTTCACTTTTTAATACTAGAGGAAACAGCATATTATATTTCAAAATTGATAGCTTTG-AAAAATGGATATTAACATGATGATATAAGTGGATACAAAATCTTCTTATGGGGTTTCCAGGAATAATTGTATCTTAATGGTATATGCAACTTATGTTTCAAATTCTTTTGTCTATTAGTCACATACATATATCTTTATTTCTTCTTGAAT--------GTATGCTGCATAACTATTAACCAAATGTTCATTCACCATCAAATTCTGTTTCTTCAGTGTGTTTTCTCATTCAAAAGCACATAACAATTCTCCTTAATGATACAAATAACCCACTTCTAATGGACTATTATGCCTCTTTTCCATTCTTGAAAAGCATTATTGCTTTCAGGTTTTTAGTTAAATGCTATACAATTTCAAAATAGTATAATACACTTAAATGATCTTTAAGT------TTCTCTTT-----AAAAGAGCAGTAAGTATTAAAAGCCAAACAGAAAAATTGCC--AGTCAATTCACCTCAATTCAACTGTCAAAACTTCTCATGTG-----------------------------AAAAATAAATGGAAATGTTCTTCTATTTCAAGTAAGCAAATTTGTGGGTACAGCATTCTCTTTTGACTCTGAAAATCATTTGAAAAC-AGAAAAGCTTGTCCATGCTTGTTTTGGATTTGCAAAAAGTCAGCTGCATCCATGAAATAGGCACTGAGCCTCATTATCTTGGCTAATAGAGAAAG-AACTGCCCTCTCTTGGAAGGTGCAATAAATCTTTCATG-TTCTTAAGTACTGCTTCACGTTCATCAGCAAGAATTTATGTA-----------------ACAGTGTGCGACTGACATAAACATGTAACATCACCTCTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      321787 1399 -   1175262 CAGGGCTTTTAAGATAATACT--------GA-AATAGATTGAGAT-AATAAGCTAATTTAGTGATTTTCTTTTTGAGACTATCAAAAGAAAAA-CATTTTTCTCTGCTCCTAGAAAGTGCCTACTGAGAGTTTTAATATAAGTGATATGTTCATTT-TTCAATCTA---GAAAATAAAA-ACCTGTAATCTCACCCATATGAGA-TGGTTTCCTCTGTATGGATTTC----TTTAGGCCTTCCTTTTAGTTCATATTTAAAACTA---GTT-----TTTGA-------------------------GAATTTTGGTTGTTGCTTT-----------------------------------------AATTCAA--------------------------------CAATTA--GG-------------------------------------------------------------------------------------AGACAGAAATGAAGACAGCAAGTCTCATTCGCGTGTATGTGTCTAAAAAGATG-T--CAGGTACACCCACACCTAA--CT--GCCAGCACTCTGCAACCCGGTACAATTCTGTACATTTCCATTTAATTGCCAGGC-TATGTTTCAAGTCTCATGGTTGGTTGAGGATGAAGATGAAATTGCGGTTCATAGTACAGAAGAGGAAGTACATATGGTTTGTGATTGAGATACTTATATTTTGACTGAAGAATTGTGCAGCATCTGG------CAGGTGTATAAATTCTTCAGAGGCAGCAATTTAACTTTTTAATACTAGAGGAAACAGCATATTATATTTCAAAATTGATAGCTTTG-AAAAATGGGTATTAACATGATGATATAAGTGGATACAAAATCTTCTTATGGGGTTTCCAGGAATAATTGTACCTTAATGGTATATGCAACTTATGTTTCAAATTCTTTTGTCTATTAGTCACATACATATATCTTTATTTCTTCTTGAAT--------GTATGCTGCATAACTAGTAACCAAATGTTCATTCACCATCAACTTCTGTTTCTTCAGTGGGTTTTCTCATTCAAAAGCACATAACAATTCTCCTTAATGATACAAATAACCCACTTCTAATGGACTATTATGCCTCTTTTCCATTCCTAAAAAGCATTATTGCTTTCAGGTTTTTAGTTAAATGCTATACAATTTCAAAATAGTATAATACACTTAAATGATCTTTAAGT------TTCTCTTT-----AAAAGAGCAGTAAGTATTAAAAGGCAAACAGAAAAATTGCC--AGTCAATTCACCTCAATTCAACTGTCAAAACTTCTCATGTG-----------------------------AAAAATAAACGGAAATGTTCTTCTATTTCAAGTAAGCAAATTTGTGGGTACAGCATTCTCTTTTGACTCTGAAAATCATTTGAAAAC-AGAAAAGCTTGTCCATGCTTGTTTTCGATTTGCAGAAAGTCAGCTGCATCCGTGAAATAGGCACTGAGCCTCATTATCCTGGCTAAGAGAGAAAG-AACTGCCCTCTCTTGGAAGGTGCAATAAACCTTTCATG-TTCTTAAGTACTGCTTCATGTTCATCAGCAAGAATTTATCTA-----------------ACAGTGTGCGACTGACATAAACATGTAACATCACCTCTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123667515 1404 - 204313951 CAGGGCTTTTAAGATAATACT--------GA-AAAAGATTGAGAT-AATAAGCTAATTTAGTTATTTTCTTTTCCAGACTATCAAAAGAAAAA-TATTTTTCTCTGCTCCTAGAAAGTGACTACTGAGAGTTTTAATGTAAGTGATAAGTTCATTT-TTCAATCTA---GAAAATAAAA-ACCTGTAATCTCA-CCAGATGAGA-TGGGTTCATCTGCATGGAGTTC----TTTAGGCCTTCCTATTATTTCATATTTAAAACTA---AGT-----TTTGA-------------------------GAATTTTGGTTGTCGCTTT-----------------------------------------AATTCAA--------------------------------CAATT------------------------------------------------------------------------------------------AGAAAGAAATAAAGAGAGCAAGTATCACTTGTGTGTATGTGTCTAAAAGGAAT-T--TAGGTACACCCACGCTTAA--CT--GTCAGCAGTCTGCAACCTAATGCAATTCTGTACATTTCCATTTAATTGGCAGGC-TATGTTTCAAGTCTCATGGTTGGTTGAGGATGAAGATGAAATTGCAGTTCATAGTACAGAAGAGAAAGTACATATGTGTTGTGATTGAGATACTTGTATTTTGACTGAAGAATTGTGCAGCATCTGG------CAGGTGTATAAATCCTTCAGTGGCAGCAATTTAACTTTTTAATACTAGAGGAAATAGCATATTATATTTCAAAATTGATAGCTTTG-AAAAATGGGTATTAACATGATGATATAAGTGGATACAAAATCTTCTTATGGGTTTTCCAGGAATAATTGTAGCTTAATGGTATATGCAACTTATGTTTCAAATTCTTTTGTCTATTAGTCACATACATATATCTTTATTTCTTCTTGAATGTATGCTGGTATGCTGCATAACTATTAGCCAAATGTTCATTCACCATCAAATTCTGTTTCTTCAGTGTTTTTTCTCATTCAAAAGCACATAACGATTCTCCTTAATGATACAAATAACCCACTTTTAATGGACTATTATGCCTCTTTTCCATTCTTGAAAAGCATTATTGTGTTCAGGTTTTTACTTAAATGCTATACAATTTCAAAATAGTATAATACACTTAAATGATCTTTAAGT------TTCTCTTT-----AAAAGAGCAATAAGTATTAAAAGCCAAATAGAAAAATTGCCAAAGTCAATTCACTTCAATTCAATTGTCAAAACTTTTCATGTG-----------------------------AAAAATAAATGGAAATGTTCTTCTATTTGAAGGAAGCAAATTTGTGGGTACAGCATTCTCCATTGACTCTGAAAATCATTTGTAAAC-AAAAAAGCTTGTCCACGCTTGTTTTAAATTTTCAAAAAGTCAGCTGCATCCATGAAATAGGCACTGAGCCTCAATATCTTGGCTAATAGAGAAAG-AACTGCCCTCTCTTGGAAGGTGCAATAAATCTTTCACG-TTCTTAAGTATTGCTTCATGTTCATCAGCAACAATTTATCTA-----------------ATA-TGTGCTACTGACATAAATATATAATGTCACCTCTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55711472 1397 -  71252344 CAGGGCTTTTAAGATAATACT--------GA-AAAAGATTGAGAT-AATAAGCTAATTTAGTTATTTTCTTTTTGAGGCTATCAAAAGAATAA-TGTTTTTCTCTGCTCCTAGAAAGTGACCACTGAGAGTTTTAATGTAAGTGATATGTTCATTT-TTCAATCTA---GAAAATAAAA-ACCTGTAATCTCACCCATATGAGA-TGGTTTCACCTGTATGGAGTTC----TTTAGGCCTTCCTATTATTTCATATTTAAAGCTA---ATT-----TTTGA-------------------------GAATTTTCATTGTTGCTTT-----------------------------------------AATTCAA--------------------------------CAATT------------------------------------------------------------------------------------------AGAGAGAAATGAAGAGAGCAAGTATCACTTGTGTGTATGTGTCTAAAAGGATG-T--TAGGTACACCCACGCCTAA--CT--GTCAGCAGTCTGCAACCTGGTACAATTCTGTACATTTCCATTTAATTGGCAGGC-TATGTTTCAAGTCTCATGGTTGGTTGAGGATGAAGTTGAAATTGCAGTTCATAGTACAGAAGAGGAAGTACATATGTGTTGTGATTGAGATACTTGTATTTTGACTGAAGAATTGTGCAGCATCTGG------CAGGTGTATAAATCCTTCAGTGGCAGCAATTTAACTTTTTAATACTAGAGGAAATAGCATATTATATTTCAAAATTGATAGCTTTG-AAAAATGGGTATTAACATGATGATGTAAGTGGATACAAAATCTTCTTATGGGTTTTCCAGGAATAATTGTACCTTAATGGTATATGCAACTTATGTTTCAAATTCTTTTGTCTATTAGTCACATACATATATCTTTATATCTTCTTGAAT--------GTATGCTACATAACTATTAGCCAAATGTTCATTCACCGTCAAATTCTGTTTCTTCAGTGTTTTTTCTCATTCAAAAGCACATAACAATTCTCCTTAATGATACAAATAACCCACTTCTAATGGACTATTATGCCTCTTTTCCATTCTTGAAAAGCATTATTGCTTTCAGGTTTTTAGTTAAATGCTATACAATTTCAAAATAGTATAATACACTTAAATGATCTTTAAGT------TTCTCTTT-----AAAAGAGCAGTAAGTATTAAAAGCCAAACAGAAAAATTGCCAAAGTCAATTCACCTCAATTCAATTGTCAAAACTTTTCATGTG-----------------------------GAAAATAAATGGAAATGTTCTTCTATTTCAAGGAAGCAAATTTGTGGGTACAGCATTCTCCTTTGACTCTGAAAATCATTTGTAAAC-AAAATAGCTTGTCCAAGCTTGTTTTAAATTTGCAAAAAGTCGGCTGCATCCATGAAATAGGCACTGAGCCTGAATATCTTGGCTAATAGAGAAAG-AACTGCCCTCTCTTGGAAGGTGCAATAAATCTTTCATG-TTCTTAAGTATCGCTTCATGTTCATCAGCAAGAATTTATCTA-----------------ATA-TGTGCTACTGACATAAATATATAATGTCACCTCTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       14394 1394 -   3089952 CAGGGCTTTTAAGATAATAC---------GA-AAAAGATTGAGAT-AATAAGCTAATTTAGTTATTTTCTTTTTGAGGCTATCAAAAG---AA-TATTTTTCTCTGCTCCTAGAAAGTGACCACTGAGAGTTTTAATGTAAGTGATATGTTCATTT-TTCAATCTA---GAAAATAAAA-ACCTGTAATCTCACCCATATGAGA-TGGTTTCACCTGTATGGAGTTC----TTTAGACCTTCCTATTATTTCATATTTAAAGCTA---ATT-----TTTGA-------------------------GAATTTTCATTGTTGCTTT-----------------------------------------AATTCAA--------------------------------CAATT------------------------------------------------------------------------------------------AGAGAGAAATGAAGACAGGAAGTATCACTTGTGTGTATGTGTCTAAAAGGATG-T--TAGGTACACCCACGCCTAA--CT--GTCAGCAGTCTGCAACCTGGCACAATTCTGTACATTTCCATTTAATTGGCAGGC-TATGTTTCAAGTCTCATGGTTGGCTGAGGATGAAGATGAAATTGCAGTTCATAGTACAGAAGAGGAAGTACATATGTGTTGTGATTGAGATACTTGTATTTTGACTGAAGAATTGTGCAGCATCTGG------CAGGTGTATAAATCCTTCAGTGGCAGCAATTTAACTTTTTAATACTAGAGGAAATAGCATATTATATTTCAAAATTGATAGCTTTGAAAAAATGGGTATTAATATGATGATATAAGTGGATACAAAATCCTCTTATGGGTTTTCCAGGAATAATTGTACCTTAATGGTATATGCAACTTATGTTTCAAATTCTTTTGTCTATTAGTCACATACATATATCTTTATTTCTCCTTGAAT--------GTATGCTGCATAACTATTAGCCAAATGTTCATTCACCATCAAATTCTGTTTCTTCAGTGTTTTTTCTCATTCAAAAGCACATAACAATTCTCCTTAATGATACAAATAACCCACTTCTAATGGACTATTATGCCTCTTTTCCATTCTTGAAAAGCATTATTGCTTTCAGGTTTTTAGTTAAATGCTATACAATTTCAAAATAGTATAATACACTTAAATGATCTTTAAGT------TTCTCTTT-----AAAAGAACAGTAAGTATTAAAAGCCAAACAGAAAAATTGTCAAAGTCAATTCACCTCAATTCAATTGTCAAAACTTTTCATGTG-----------------------------GAAAATAAATGGAAATGTTCTTCTATTTCAAGGAAGCAAATTTGTGAGTACAGCATTCTCCTTTGACTCTGAAAATCATTTGTAAAC-AAAGAAGCTTGTCCAAGCTTGTTTTAAATTTGCAAAAAGTCAGCTGCATCCGTGAAATAGGCACTGAGCCTCAATATATTGGCTAATAGAGAAAG-AACTGCCCTCTCTTGGAAGGTGTAATAAATCTTTCATG-TTCTTAAGAATCGCTTCATGTTCATCAGCAAGAATTTATCTA-----------------ATA-TGTGCTACTGACATAAATATATAACGTCACGTCTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13212388 1393 -  42888418 CAGGGCTTTTAAGATAATACT--------GA-AAAAGATTGAGAT-AATAAGCTAATTTAGTTATTTTCTTTTTGAGACTCTCAAAAGAAAAA-TATTTTTCTCTGCTCCTAGAAAGTGACCACTGAGAGTTTTAATGTAAGTGATATGTTCATTT-TTCAATCTA---GAAAATAAAA-ACCTGTAATCTCACCCATATGAGA-TGGTTTCACCTGTATGGAGTTC----TTTAGGCCTTCCTATTATTTCTTATTTAAAACTA---ATT-----TTTGA-------------------------GAATTTTGGTTGTTGCTTT-----------------------------------------AATTTAA--------------------------------CAATT------------------------------------------------------------------------------------------AGAGAGAAATGAAGACAGCAAGTATCACTTGTGTGTATGTGTCTAAAAGGATG-T--TAGGTACACCCACGC------CT--GTCAGTTGTCTGCAACCTGGTACAATTCTGTACATTTCCATTTAATAGGCAGGC-TATGTTTCAAGTCTCATGGTTGGTTGAGGATGAAGATGAAATTGCAGTTCATAGTACAGAAGAGGAAGTACATATGTGTCGTGATTGAGATACTTGTATTTTGACTGAAGAATTGTGCAGCATCTGG------CAGGTGTATAAATCCTTCAGTGGCAGCAATTTAACTTTTTAATACTAGAGGAAATAGCATATTATATTTCAAAATTGATAGCTTTG-AAAAATGGGTATTAACATGATGATATAAGTGGATACAAAATCTTCTTATGGGTTTTCCAGGAATAATTGTACCTTAATGGTATATTCAACTTATGTTTCAAATTCTTTTGTCTATTAGTCACATACATATATCTTTATTTCTTCTTGAAT--------GTATGCTGCATAACTATTAGCCAAATGTTCATTCACCATCAAATTCTGTTTCTTCAGTGTTTTTTCTCATTCAAAAGCACATAACAATTCTCCTTAATGATACAAATAACCCACTTCTAATGGACTATTATGCCTCTTTTCCATTCTTGAAAAGCATTATTGCTTTCAGGTTTTTAGTTAAATGCTGTACAATTTCAAAATAGTATAATACACTTAAATGATCTTTAAGT------TTCTCTTT-----AAAAGAGCAGTAAGTATTAAAAGCCAAACAGAAAAATTGCCAAAGTCAATTCACCTCAATTCAATTGTCAAAACTTTTCATGTG-----------------------------AAAAATAAATGGAAATGTTCTTCTATTTCAAGGAAGCAAATTTGTGGGTACAGCATTCTCCTTTGACTCTGAATATCATTTGTAAAC-AAAAAAGCTTGTCGAAGCTTGTTTTAAATTTGCAAAAAGTCAGCTGCATCCATGAAATAGGCACTGAGCCTCAATATCTTGGCTAATAGAGAAAG-AACTGCCCTCTCTTGGAAGGTGCAATAAATCTTTCATG-TTCTTAAGTATCACTTCATGTTCATCAGCAAGAATTTATCTA-----------------ATA-TGTGCTACTGACATAAATATATAACGTCACCTCTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60547528 1400 + 108143057 CAGGGCTTTTAAGATAATGCC--------AA-AAAAGATTAAGATAAATAAGCAGATTTAGTTACTTTCTTTTTGAGAATAACAGAAGAACAC-TATTTTTCTTTGCCCCTAGTAAATTCTTACTGAGAGTTTTAATGTAAATGATATGTTCA-TT-TTCAATCTA---GAAAATAAAG-ACCTGTAATCTCATCTATATGACA-TATATTCACCTGTATGAAGTTCTTCCTCTATGCTTTCCTATTATTCTGTATTTAATACTA---GCT-----TTTAA-------------------------GTATTTTGGTTGTTGCTT------------------------------------------AATTCAG--------------------------------TAATTA--AG-------------------------------------------------------------------------------------GG---GAAAAGAACAGAGCAAGTCTTACTCATGTGTATGTATCTAAAGGGATG-T--TAGGTGAACCCACACCTAA--CT--GCCAGCA-TCCTCAATCTCGTACAATTTTGTACATTCACACTGAATTGGCAAGGCTCTGTTTCAAGTCTCATGGTTGGTTGAGGATGGAGATGAAATTGCAGTTAATAATACAGAATAGGAAGTACATATGGGTTGTGATTGAGATACTTGTATTTTGACTGAGGAATTGTGCAGCATCTGG------CAGGTGTATAAATCCTTCAGTGGTAGCAGTTTAACTTTTTAATAGTAAAGGAAATGGCATATTATAGTTCAAAATTGATAGCTTTG-ATAAATGTGTGTTAATGTGATGATATGAATTGATATAAAATCTTCTTATGAGTTTTCCAGAAATAATTATACTTTAATGGTTTATGCAGCTTGCATTTCAAGTTCTGTTGTCTGTTAGTCACATACTTATATCTTTATTTCTTCTTGAAT--------GTATGTTGCTTAACGATTAACCAAATGTTCGTTCATCATCAAATTCTGTTTCTTCAATGTGTTTTCTCCTTCAAAAGCACATAACAACTCTCCTTAATGATACAAAAAATCCACTTCTAATGGACTATTATACCTTTTTTCCATTCTTGAAAAGCATTATTGCTTTTAGCTTTTTAGTTAAATGCTATACAATTTCAAAATGGTATAATGTACTTAAATGATCTTTAAGT------TTCTCTGT-----AAAAGAGCAATAAGTATTAAAAGCCAAACAGCAAATTTGCCAAAGTCAATTCACCTCCGTTCAACTGTCAAAACTTTTTCTGTG-----------------------------GAAAATGAAT-GAAAGGCTTTTCTACTTCAAGTAAGCAAATTTGTGGGTGTAGTGTTCTCTTTTAACTGTGAAAATCATTTGAAAAC-AAAAAAGATTGTCTGTGCTTGTTTTCAATTTGCAGAGTGTCAGCCGTGTCCGTAAAATAGGCGCTGAGCAGCGTCATCTTGCCTAATAGGGAAAG-AACTGCCCTCTCTTGGAAGGTACAATAAATCTTTCGTG-TTCTCAAGTATCACTTCATGTTTATCAGCAAGAATTTATCTA-----------------ATAGTCTGCTGCTGACATAAACATATCACACCACCTCTT
i micMur3.chr12            I 55 I 295
s proCoq1.NW_012155062v1     3587934 1397 +  11683526 CAGGGCTTTTAAGATAATGCC--------AG-AAAAGATTAAGATAAATAAGCAGATTTAGTTACTTTCTTTTTGAGAATAACAGAAGAAAAA-TATTTTTCTTTGCTCCTAGTAAGTTCTTACTGAGAGTTTTAATGTAAATGATATGTTCATTT-TTCAATCTA---GAAAATAAAG-ACCTGTAATCTCATCTATATGAGA-TATTTTCATCTGTATGAAGTTCTTCCTCTATGCTTTCCTATTATTCTGTATTTAATACTA---GTT-----TTTAA-------------------------GTATTTTGGTTGTTGCTT------------------------------------------AATTCAA--------------------------------TAATTA--AG-------------------------------------------------------------------------------------GG---GAAAAGAAGAGAGCAAGTCTCATTCATGTGTATGTATCTAAAGGGACG-T--TAGGTGCACCCACACCTAA--CT--GCCAGCA-CCTCCAACCTCATACAATTTTGTACATTTACGCTGAACTGGCGAGGCTCTGTTTCAGGCCTCATGGTTGGTTGAGGATGGAGATGAAATTGCAGTTCATAATACAGAATAGGAAGTGCATATGGGTTGTGATTGAGATACTTGTA-TTTGACTGAGGAATTGTGCAGCATCTGA------CAGGTGTATAAATCCTTCAGTGGCAGCAATTTAACTTTTTAATAGTAGAGGAAATGGCATATTACAGTTCAAAATTGATAGCTTTG-ATAAATGTGTATTAATATGATGATAGGAATTGATGTAAAA---TCTTATGAGTTTTCCAGAAATAATTATACTCTAATGGTATATGCAACTTGCATTTCAAGTTCTTTTGTCTGTTAGTCACATACATATATCTTTATTTCTTCTTGAAT--------ATATGTTGCTTAACTGTTAACCAAACGTTCGTTCATCATCAAATTCTGTTTCTTCAATGTGTTTGCTCATTCAAAAGCACATAACAACTCTCCTTAATGATACAAATAATCCACTTCTAATGGACTATTATACCTCTTTTCCATTCTTGAAAAGCATTATTGCTTTTAGCTTTTTAGTTAAATGCTATACAATTTCAAAATAGTATAATATACTTAAACGATCTTTAAGT------TTCCCTGT-----AAAAGAGCAATAAGTATTAAAAGCCAAACAGCAAATTTGCCAAAGTCAATTCACCTCAGTTCAACTGTCAAAACTTTTTCTGCG-----------------------------AAAAATGAAT-GAAAGGCTCTTCTATTTCAAGTAAGCAAATTTGTGGGCATAGCGTTCTCTTTTAACTGTGAGAATCATTTGAAAAC-AAAAAAGATTGTCTGTGTTTGTTTTCAATTTGCAAAGTGTCAGCTGTGTCCATAAAATAGGCACTGAGCCTCATCATCTTGGCTAATAAGGAGAG-AACTGCCCTGTCTCAGAAAGTACAATAAATCTTTCATG-TTCTCAAGTATCAATTCATGTTTATCAGCAAGAATTTATCTA-----------------ATAGTGTGCTGCTGACATTAATATGTCACACCACCTCTT
i proCoq1.NW_012155062v1   C 0 I 128
s otoGar3.GL873679           3076001 1398 +   4132165 CAGGGATTTTAAGATAATGCC------G-AA-AAAAGATTGAGAT-AATAAGCAGATTTAGTTGTTTTCTATTTGAAAATAGCAGAAGAAAAA-TCTTTTTCTTTGCTCCTACTAAGTTCTTATTGAGCATTTTAATGTAAATGATATGCTCACTT-TCCAATCTG---GAAAGT-AAG-ACCTGCAATCTCATCTTCATTAGA-TATTTTCATCTGCATAAAGT------TCTGTGCCTTTCTATTATTCTGCTTTTAAAAGTA---ATG-----TTTAA-------------------------GTGTTTGGGTTGTTGCTT------------------------------------------AATTCAA--------------------------------TAATTA--AG-------------------------------------------------------------------------------------GG--AGAAAAGAAAAGAGCAAGTTTTATTCATATGTGTGCTTCTGGAGGGAAGTT--TATGTACACCCACACCTGG--CT--GCCAGCAGTCTCCAACCCCATATGATTTTGTACATTCACTCTTAATTGGCAGGG-TATGTTTCAAGCCTCATGGTTGGCTGAGGATGAAGATGGAATTGT-GTTCATAATACAGAATAGGCAGTACAGATGGGTTGTGATTGAGATACTTGTATTTTGACTGAAGAATTGTGTACTCTCCAG------CAGGTGTATAAATCCTTCTGTGGCAGCAATTTAACTTCTTAATAGTAGAGGAAATGGCATATTATATTTCAAAATTGATAGCTTTG-AT-AATGCATATTAACATGATGATAAGAATTGATGTGAAATCTTCTTCTGAGTTCTCCAGGCATAATTATACTATAATGCTATATGCAACATGTGTTTCAAATTCT----TATATTAGTCACATACATATATCTTTATTTCTTCTTGAAT--------GTATGTTGTTTAACTATTAACCAAATGTTCATTCACCATCAAATTCTGTTTCTTCAAAGTGTTTTCTCATTCAGAAGCACATAACAACTCTCCTTGATGACACAAATAATCCACTCCTAATGGACTATTATACCTCTTTTCCATTCTTGAAAAGCATTATTGCTTTTCGTTTCTTAGTTAAATGCCATATAATTTCAAAATAGTATCATATACTTAAATGATCCTTCAAT------TTCTTTGTGTTTAGAAAGAGCAGTAAGTATTAAAAGCCAAACGAAAAAATTGCCAAAGTCAATTCACCTTGATTCAACTGTCAAAACTTTCTCTATG-----------------------------AAAAATGAATGGAAATGCTCCTCTATTTCAAGTGAGCAAATTTGTGGATATAGCATTCTCTTTTAACTGTGAAAATCATTTGAAAACAAAAAAAGATCGTCTACGCTTGTTTTCAATTTGCAAAGTGTCAGCTGTGTCCATAAAATACACACTGAGCCTCATCATCTTGGCTAATAGGAAAAGAAACTGCCCAGTCTTAGAAGGTACAATAAATCTTTCATG-GTCTCAAGTATCACTTCATGTTTATCAGCAAGAATTTATCTA-----------------ACAGTGTGCTGCTGACATAAACATATAACACCACCTCTG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55521270 1548 +  90702639 ---------------------------TCAA-AAACTATTATACT-AATAAGCTGGT---GTGCCTTTTCTTTTAGG----------------------TTCTAAGCCTTCCATGAGTTCTCACTGATCACTTTAGTGGACGTGATAAGTTAATTT-TTCAGTGTA---G-AAATACTG-CCCAGTCATACCATCCTTCTGGAA-Ttgtttcactgttatagaaatc----ttcatttcacattgctacttaat-ttgataaata---gttgataatttgatacttaagagcagaggggaagcagggcattttggcacttgcatttgattccagtactccagagcagaggtaggtgggtctctgtgagttcaagcacaccctggtctacacagtgagttgcaggccagcta--ggtctacatagggaaaGGAAAACTCGGCTCAAat--agatagatagatagatagatagatagatagatagatagatagatagataCTAAATAGAAGAGACAAAAACAAGGGTC---TACGGGTATTTCTCTAAAAGGTTG-TGCTAGGAGCACCCACATCGGACCCT--GCCAACAATCTCCAACTCCATATAATACTGTGTATCTCCACTCAACGAGCAGAC-CACGCCTCAGGTCTCCCTGTT-------TATGGAGATGAA--------------------------AGTAAACATAGGCTGTGATTGGGATATCTGTGTT----CTCAAGAATTGGACAGCACCTGG------CAGGTGTGTAAGTCATTCAGTGGGAGAAATGTAACTTTTTAATAGTAGAGGAAACAGGATATTACATTTCAAAAGCGATAGCCTTG-AAAAATGTGTATTTACACAATGATACAAATTGGTGTAAAATCCTCTTCTGGGTTTCCCAGGACTAATTGTGCTTTAATGGAACACAAAACTTATGCTTCAAATCCTTTTGTCTATTAGTCACAAAC--ACGTCTTAATTTCTTTTTGAAT--------GCACGCTGCATGACTATTAACCAAATGTTCATTCACCATCAAATTCAGTTTCTTCACTGTGTTTTCTCATTCAAAAGCACATAATGATTCCCCGTAATGATACAAAAGCCCTGCTTCTAATGGATGCTTAGACCTCATTTCCATTCTTGAAGAGCATTGCCGATTTTAGGTTTTCGGTTAAATGCAACATAATTTC-AAATAGTATAATATGCTTAAGTGATCTTTCAGGGTTTTATCTTCTGT-----AAGAGAGCAGCAAGTGCCAAAAGCCAAACAAAAAAATTACTAGCATCAATTCACCTCAGTTCAACTGCCAAAACTTtgtgtgtgtgtgtgtgtgtgtgtgAAAGAGAGAGAGAGAGAATGAATGGAAGTCCTCTTCTATTTCAATGAAGAAAATTTGTGAGTAGAGTGCTCATTTTTGACAATGGAGATCATTTGTAAAC-AAGAAAGCCACCCTATGCTTGTTTTCAATTTGCACA-TGTCAGCTGT-TCCATGAAATAGACACTGAGACTCACAATCTTGGCTAACAGTGTAAG-CAGTG-CCTCTGTAGGAAGGTACTGAGAATCTTTCATA-ACTACCAATAGTACTCT---TTTATTAGAAAG-ATTTAGTTATTAGAGAGACAGCACAcacagtgtgctggtgccatatgttcacagaactccctctt
i mm10.chr18               C 0 C 0
s canFam3.chr11             14920759 1444 +  74389097 TGGGGCTTTTAAGACAATAGGACACACACAC-ACAAGATTAAGAT-AATAAACTGATTTAGTTATTTTCTTTTTGAGAATATCAAAAGGAAAA-TACTTTTCTCTGCTCCTAGTAAACT----TTGAGAGTTTTAGCTTCAATGATATGTTAATTTGTCCAGTGAA---GAAAAAAAAAGACCTGTAGTCTAATTATTAAGAGATTTTTTTCACTTGTATGGAGTTA------------------TTATTCCTTACTTAAGACTA---GTT-----CCTGA-------------------------ATATTTTGGCTATTGCTT------------------------------------------AATTCAA--------------------------------TGATTA--AGGGGAAAGagaaagaagaaagaaagaaagaaagaaagaaagaaagaaagaaagaa-------------------------------agaaagaaagaaagaaagaaagaaTCATTCATGTGTAAGTGTCTATACATGTG-T--TCCATACACCCACACCTAA--CTCAGTCAGCCATCTCTAATCCCATACAGTTCTGTACATTGCCACATAATTGGCAGGT-TATGTTTCAAGTCTCATGGTTGGTTGAGGATGGAGATGAAATCACAGTTTATAATACAGAA---GGAGTGCATATGGGTTGTGATTGAGATACTTGTATTTTGACTGAAGAATTGTGGAGCAACTGGATTAACCAC---TATAAATCCTTCAGTGGCAGCAATTTAACTTTTTAATAGTAAGGAAAATGGCATATTACATTTCAAAATTGGTATATTTG-AAAAATGAGTATTAACATGATGATATGAACTGATGCAAAATCTTCTTATGGGTTTTCCAGAAATAAATGTGTTTTAATGCTACATGCAACTTGTGTTTCAAATTCTTGTGTCTATTAGTCACATACACATATCTTTATTTCTTCTTGAAT--------GTATTCTGCATAACTATTAACCAAATGTTCACTCACCATCAAATTCTGTTTCTTTAGTGTGTTTTCTCATTCAAAAGCACATAATCATTCTCCTTAATGATACAAATAATCCACTTCTAATGGACTATTATACCTCTTTTCCATTCTTGAAAAGCATTATTGCTTTTAGGTTTTTAGTTAAATGTTATACAATTTCAACATAGTATAATATACTTAATTGAACTTTAAGT------TTCTCTGT-----AAAAGAGCAGCAAGTATTAAAAGCCAAACAGAAAAATTGCCAAAGTCAATTCACTTCAATTCAACTGTCAAAACTTTCCATGTG-----------------------------AAAAATGAATGGAAACA---TTCTGTTTCAAATAAGCATATTTATGGGTATGGTATTCTCTTTTGACTCTGAAAATCCTTTGAAAAT-AAAGTAGCTTGTCCATGCTTGTTTTCAATTTGCAAAATGTCAGCTATATCTACGAAATGGTCAGTGAGCATCGTCATCTTGACTAATAAGGAAAG-AACTG--TTCTCTTGGAAGAGACATTAAATCTTTTGTGTTTCCAAAGTATCATTTCATATTTTTCAGCAAGAATTTATCTA-----------------ATAGTG-GCTAGTGACATAAATATATAACACCACCTCTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2637439 1379 +   3667625 TGGGGTTTTTATGATCATAAT--------GATAAAAGATGAAAAT-AGTAAGCTGATTTAGTAATTTTCTTTTTGAGAACATCAAAAGAAAAACTGTTGTTTTCTGCCCCTACTAAATTCTCACTGAGAGTTTTAGTGTAAATGACA--TTAATTT-TTTAGTCTA---GAAAATAAAG-GCCTGTAAT--------TATGGGA-TGTTTTCACTTATATGGAGTTC----T-----------------TTCTTACTTAAGACTAGGTGTT-----TCTGA-------------------------GTATTTTGGTTGTTGCTT------------------------------------------AATTCAG--------------------------------TAAATAAGGG-------------------------------------------------------------------------------------GGAAAAAAGAAAAAAGAGTGAGTATTGTTCACGTTCATGTGTTTGAAAGGATG-TCCTTTGTACACCCACATCTAA--CTCCACCAGCAATCTCCTACCCCATTCAACTTTGTACATTTCCATTTAATTGGCAGGC-TACACTTTAAGTCTCATAGTTGGTTGAGGATGGAGAGGAAATCACAGTTCCTAATATAGAAAAGGGAGTACAGATGGGTTGTGATCGAAACACTTGTATTTTAACTGAAGAGTTGTGCAGCAGCTGG------CAGGTATATAAATCCTTCAATGGCAGCAATCTAACTCTTTAATAGTAGAGGAAATCACATACCATATTTCAAAATTGATATCTTTG-CAGAATGCATATTAACATGAGGATATGAGTTGATGCAAAGTCTTCTTATGGGTTTTCCAGGAATAACTGTGTTTTAATGGTATATGCAACTT--GTTTCAAATTCTTTTGTCTGTTAGTCACATACACATATCTTTATTTCTTCTTGAAT--------CTATGCTGCATAACTATTAACCAAATGTTCGTTCGCCATCAAATTCTGCTTCTTCAGTGTGTTTTCTCATTCAAAAGCACATAATGATTTTCCTTAATGATACAAAATATCCACCTCTAATGGACTATTATACCTCTTTTCCATTCTTGAAAAGCATTATTGCTTTTAGGTTTTTAGTTAAATGCTATATAATTTCAAAATAATATAATATACTTAAATGATCTTTAAGC------TTCTCTGT-----AAAATAGTAGCAAGTTTTAAAAGCTAAACAGAAATATTATC--AGTCAACTCACCTCAATTTAACTGTCAAAACTTTTCTTGTG-------------------------AAAAAAAAATGAATGGTACCACTCTTGTACTTTAAATAAGCAGGATTGTGGGTATGGCATTC---TTTAACTCTGAAAATCATATGGAAAC-ACAAAAGCATGTCCACCCTTGTTTTCAATTTGCAAAATATCAACTGTATCTATGATATGGACACTCAACCTCATCACCTTAATTAATAAGGAAAG-AACAGCCTTCTCTTGGAAGGTATATTAAATCTTTGC---TTTGAAAGTATGGCTTCAAGTTTTTCAGCAAGAATTTTTCTA-----------------ATAGTgtgctggtgacataaatatataagatgatccctc
i dasNov3.JH567306         C 0 C 0

a score=165242.000000
s hg38.chr5_KI270796v1_alt     96844 16 +    172708 --TCCTACTTCATACGTT--
s panTro5.chr5             125200884 16 + 181907262 --TCCTACTTCATACATT--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126537754 16 + 183735486 --TCCTACTTCATACATT--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729297 16 +   8933513 --TCCTACTTCATACATT--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860043 16 + 163208435 --TCCTACTTCATACATT--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122848975 16 + 180051392 --CCCTACTTCATACATT--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124272589 16 + 181584905 --CCCTACTTCATACATT--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16270962 16 +  18395747 --CCCTACTTCATACATT--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5283895 16 +  26952557 --CCCTACTTCATACATT--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28384817 16 +  82825804 --CCCTACTTCATACATT--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4053718 16 -   4237731 --CCCTACTTCATACATT--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323186 16 -   1175262 --CCCTACTTCATACATT--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123668919 16 - 204313951 --CCCTACCTCACATATT--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55712869 16 -  71252344 --CCCTACTTCGCATATT--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       15788 16 -   3089952 --CCCTACCTCGCATATT--
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13213781 16 -  42888418 --CCCTACCTCGCATATT--
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3077399 16 +   4132165 --CCATACATCCTACTTA--
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55522818 16 +  90702639 --tcccacaacctgtgtt--
i mm10.chr18               C 0 I 741
s canFam3.chr11             14922203 16 +  74389097 --CCCTACATCCTGCATT--
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2638818 20 +   3667625 ccttccagggcctacacatg
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60548928 295 + 108143057 I
e proCoq1.NW_012155062v1     3589331 128 +  11683526 I

a score=901530.000000
s hg38.chr5_KI270796v1_alt     96860 91 +    172708 GCCTacccacgc--aa--acacacacacact--------cacaTTCAAACTAACGTGCGC---ACATACACTATCCCTCCCCCAAGCCTCTACCACTAATGCCCTA
s panTro5.chr5             125200900 93 + 181907262 GCCTGCCCATGc--aaacacacacacacact--------cacattcaaactaacGTGTGC---ACATACACTATCCCTCCCCCAAGCCTCTACCACTAATGCCCTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126537770 91 + 183735486 GCCTGCCCATGC--AA--ACACACACACACT--------CACATTCAAACTAACGTGTGC---ACATACACTATCCCTCCCCCAAGCCTCTACCACTAATGCCCTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729313 91 +   8933513 GCCTacccacgc--aa--acacacacacact--------cacaTTCAAACTAACGTGTGC---ACATACACTATCCCTCCCCCAAGCCTCTACCACTAATGCCCTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860059 93 + 163208435 GCCTacccacgc--aaacacacacacacact--------cacattcaaactAATGTGTGC---ACACACACTATCCTTCCCCCAAGCCTCTACCACTAATGCCCTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122848991 87 + 180051392 GCCTACCCACGC--AA--ACACACACA------------CACTTTCAAACTAATGTGTTC---ACACACACTATCCCTCCCTCAAGCCTCTACCACTAATGCCCTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124272605 87 + 181584905 GCCTACCCACGC--AA--ACACACACA------------CACTTTCAAACTAATGTGTTC---ACACACACTATCCCTCCCTCAAGCCTCTACCACTAATGCCCTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16270978 87 +  18395747 GCCTACCCACGC--AA--ACACACACA------------CACTTTCAAACTAATGTGTTC---ACACACACTATCCCTCCCTCAAGCCTCTCCCACTAATGCCCTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5283911 87 +  26952557 GCCTACCAACGC--AA--ACACACACA------------CACATTCAAACTAATGTGTTC---ACACACACTATCCCTCCCTCAAGCCTCTATCACTAATGCCCTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28384833 87 +  82825804 GCCTACCCATGC--AA--ACACACACA------------CACATTCAAACTAATGTGTGC---ACTCACACTATCCCTCCCTCAAGCCTCTACTACTAATGCCCTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4053734 87 -   4237731 GCCTACCCACGC--AA--ACACACACA------------CACATTCAAACTAATGTGTTC---ACACACACTATCCCTCCCTCAAGCCTCTACCACTAATGCCCTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323202 89 -   1175262 GCCTACCCACGCCAAC--ACACACACA------------CACATTCAAACTAATGTGTGC---ACACACACTATCCCTCCCTCAAGCCTCTACCACTAATGCCCTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123668935 91 - 204313951 GCCTATCCATGC--AA--ACACATGCACACT--------CACATTCACACTCATGTGTGC---ACACACACTATCTCACCCCCAGCCCTCTACCACTAATGCCCTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55712885 87 -  71252344 GCCTacccatgc--aa--acacacgcaca----------cacattcacaccca--tgtgc---acacacacTGTCTCACCCCCAACCCTCTACCACTAATGCCCTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       15804 89 -   3089952 GCCTACCCCTGC--AA--ACACACGCACATT--------CACATTCACACTCG--TGTGC---ACACACACTGTCTCACCCCCAACCCTCTACCACTAATGCCCTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13213797 91 -  42888418 GCCTACCCATGC--AA--ACACACGCACACT--------CACATTCACACTCATGTGTGC---ACACACACTATCTCACCCCCAACCCTCTACCACTAATGCCCTA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3077415 72 +   4132165 GCCTAGacacac--ac--acacacaca------------caca--------------cac---acacacacT-TCCCTTCCCCAACCCTCTGCCACTAATGCCCTG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14922219 55 +  74389097 ------------------------------------------------GCCATCCTGGCC---ACACGTACCATCCCTCCCCCAACCCTCCTCCACTAATGTCCTA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2638838 98 +   3667625 ---cacccatgc--ac--acatacacacactctcttacatacacttgcactcacatacgcTGTGCACACAGTAACTCTCCC-CAACTCTCCACCACCAATGCCCTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60548928 295 + 108143057 I
e proCoq1.NW_012155062v1     3589331 128 +  11683526 I
e mm10.chr18                55522834 741 +  90702639 I

a score=13923.000000
s hg38.chr5_KI270796v1_alt     96951 1 +    172708 a
s panTro5.chr5             125200993 1 + 181907262 A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126537861 1 + 183735486 A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729404 1 +   8933513 a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860152 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849078 1 + 180051392 A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124272692 1 + 181584905 A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271065 1 +  18395747 A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5283998 1 +  26952557 A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28384920 1 +  82825804 A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4053821 1 -   4237731 A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323291 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669026 1 - 204313951 A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55712972 1 -  71252344 A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       15893 1 -   3089952 A
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13213888 1 -  42888418 a
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3077487 1 +   4132165 A
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14922274 1 +  74389097 A
i canFam3.chr11            C 0 I 1
e micMur3.chr12             60548928 295 + 108143057 I
e proCoq1.NW_012155062v1     3589331 128 +  11683526 I
e dasNov3.JH567306           2638936 0 +   3667625 C
e mm10.chr18                55522834 741 +  90702639 I

a score=2720612.000000
s hg38.chr5_KI270796v1_alt     96952 283 +    172708 gaatgagaagagaggccgggc--------gc-agtggctcacgcctgtaatcccagaactgcg-----------gga--------------gactaaggca---------------ggtggat-------------cacttg-aggtcag-gagttccagaccagcct----------ggctaacatggtgaaaccccatctctaccaa--------aaatataaaaaaattagccaggtatggtggcatgcgcctgcaattcccagctacttgggaggctgaggcaggagaatagcttgaacccgggagacagaggttgcagcagtgagccgagattgtgccattgcattccagcctgggcaac
s panTro5.chr5             125200994 283 + 181907262 GTATGAGAAGAGAggccgggc--------gc-ggtggctcacgcctgtaatcccagaactgtg-----------gga--------------ggctaaggca---------------ggtggat-------------cacttg-aggtcag-gagttccagaccagcct----------ggctaacatggtgaaaccccatctctaccaa--------aaatataaaaaaattagccaggtatggtggcatgcgcctgtaattcccagctacttgggaggctgaggcaggagaatcgcttgaacctgggagacagaggttgcagcagtgagccgagattgtgccattgcattccagcctgggcaac
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126537862 283 + 183735486 GAATGAGAAGAGAggccaggc--------gc-ggtggctcacgcctgtaatcccagaactgtg-----------gga--------------ggctaaggca---------------ggtggat-------------cacttg-aggtcag-gagttccagaccagcct----------ggctaacatggtgaaaccccatctctaccaa--------aaatataaaaaaattagccaggtatggtggcatgcgcctgtaattcccagctacttcggaggctgaggcaggagaatcgcttgaacctgggagacagaggttgcagcagtgagccgagattgtgccattgcattccagcctgggcaac
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729405 283 +   8933513 gaatgagaagacaggccgggc--------ac-ggtggctcacgcctgtaatcccagaactgtg-----------gga--------------ggctaaggca---------------ggtggat-------------cacttg-aggtcag-gagttccagaccagcct----------ggctaacatggtgaaaccccatctctaccaa--------aaatataaaaaaattagccaggtatggtggcatgcgcctgtaatttccagctacttgggaggctgaggcaggagaatcgcttgaacccgggagacagaggttgcagcagtgagccgagattgtgccattgcattccagcctgggcaac
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860153 279 + 163208435 GAATGAGAAGAGACgctgggc--------gc-ggtggctcacgcctgtaatcccagcactgtg-----------gga--------------ggctaaggca---------------ggcggat-------------cagttg-aggtcag-gagttccagaccagcct----------ggctaacatggtgaaaccccatctctaccaa--------aaacat-aaaaaattagccaggtgtggtggtgtgcgcctgtaattcccagctacttgggaggctgaggcaggagaatcgcttgaacccgggagacagaggtt---gcagtgagctgagactgtgccattgcactccagcctgggcaac
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849079 279 + 180051392 GAATGAGAAGAGAggccggac--------acaggtggctcacgcctgtaatcccagcactgtg-----------gga--------------ggccaggaca---------------gatgaat-------------cacttg-agttcag-gagttccagaccagcct----------ggttaacatggtgaaaccccatctctaccaa--------acatat-aaaaaattagccaggtgtggtggtatgcgcctgtaa-tcccagctacttgggaggctgaggcaagagaattgcttgaacccgggaggcagaggtt---gcagtgagccgagatcgtgccattgcactccagcctgggcaac
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124272693 279 + 181584905 GAATGAGAAGAGAggccggac--------acaggtggctcacgcctgtaatcccagcactgtg-----------gga--------------ggccaggaca---------------gatgaat-------------cacttg-agttcag-gagttccagaccagcct----------ggttaacatggtgaaaccccatctctaccaa--------acatat-aaaaaattagccaggtgtggtggcgtgcgcctgtaa-tcccagctacttgggaggctgaggcaagagaattgcttgaacccgggaggcagaggtt---gcagtgagccgagatcgtgccattgcactccagcctgggcaac
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271066 279 +  18395747 GAATGAGAAGAGAggccggac--------acaggtggctcacgcctgtaatcccagcactgtg-----------gga--------------ggccaggaca---------------gatgaat-------------cacttg-agttcag-gagttccagaccagcct----------ggttaacatggtgaaaccccatctctaccaa--------acatat-aaaaaattagccaggtgtggtggcatgcgcctgtaa-tcccagctacttgggaggctgaggcaagagaattgcttgaacctgggaggcaaaggtt---gcagtgagccgagatcgtgccattgcactccagcctgggcaac
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5283999 279 +  26952557 GAATGAGAAGAGAggccggac--------gcaggtggctcacgcctgtaatcccagcactgtg-----------gga--------------ggccagggca---------------gacgaat-------------cacttg-agttcag-gagttccagaccagcct----------ggttaacatggtgaaaacccatctctaccaa--------acatat-aaaaaattaaccaggtgtggtagcatgtgcctgtaa-tcccagctacttgggaggctgaggcaagagaattgcttgaacccgggaggcagaggtt---gcagtgagccgagatcgtgccattgcactccagcctgggcaac
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28384921 279 +  82825804 GAATGAGAAGAGAggctggat--------gcagatggctcacgcctgtaatcccagcactgta-----------gga--------------ggccagggca---------------gacgaat-------------cacttg-agttcag-gagttccagaccagcct----------ggttaacatggtgaaaccccatctctacaaa--------acatat-aaaaagttagccaggtgtggtggcatgtgcctgtaa-tcccagctacttgggaggctgaggcaagagaattgcttgaacccgtgaggcagaggtt---gcagtgagccgagatcgtgccattgcactccagcctgggcaac
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4053822 279 -   4237731 GAATGAGAAGAGAggccggac--------gcaggtggctcacgcctgtaatcccagcactgtg-----------gga--------------ggccagggca---------------gacaaat-------------cacttg-agttcag-gagttccagaccagcct----------ggttaacatggtgaaaccccatctctaccaa--------acatat-aaaaaattagccaggtgtggtagcatgtgcctgtaa-tcccagctacttgggaggctgaggcaagagaattgcttgaacccgggaggcagaggtt---gcagtgagccgagatcgtgccattgcactccagcctgggcaac
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323292 279 -   1175262 GAATGAGAAGAGAGAAcggat--------gcaggtggctcacgcctgtaatcccagcaccgtg-----------gga--------------ggccagggca---------------gatgaat-------------cacttg-agttcag-gagttccaaaccagcct----------agctaacatggtgaaaccccatctctaccaa--------acatat-aaaaaattagccaggtgtggtggcatgtacctgtaa-tcccagctacttgggaggctgaggcaagggaattgcttgaacctgggaggcagaggtt---gcagtgagccgagatcatgccatggcactccagcctgggcaac
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669027 276 - 204313951 GAATGAGAAGAGAggccaggc--------at-ggtggctcatgcctgtaatcccagcactgt------------gga--------------ggccgaggtg---------------ggcagat-------------cactta-aggtcag-gagttccagaccagcct----------ggccaacatggtgaaaccccatctctacaaa--------aaatat-aaaaagttagct-ggtgtggtggcatgcacctgtaa-tcccaactacttgggaggccgaggcaggagaatcacttgaacctgggaggcggaggtt---gcagtgagctgagatcatgccactgcactccagcctgggcaac
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55712973 277 -  71252344 GAATGAGAAGAGAggccagac--------ac-ggtggcttatgcttttaatcccagcactgt------------gga--------------ggccaaggtg---------------ggcggat-------------cactcg-aggtcag-gagttccagaccagcct----------ggccaacatggtgaaaccccatctctacaaa--------aaatat-aaaaagttagctgggtgtggtggcatgcgcctgtaa-tcccaactacttaaggggccaaggcaggagaatcacttgaacctgggaggcagaggtt---gcagtgagctgagatcatgccactgcactccagcctgggcaac
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       15894 272 -   3089952 GAATGAGAAGAGAggccagac--------at-ggtggctcatgcttgtaatcccagcactgt------------gga--------------ggccaagtt--------------------gat-------------cacttg-agatcag-gagttccagaccagcct----------ggccaacatggtgaaaccccatctctacaaa--------aaatat-aaaaagttagctgggtgtggtggcatgcacctgtaa-tcccaactacttgggaggccaaggcaggagaatcacttgaacctgggaggcggaggtt---gcagtgagctgagatcatgccactgtactccagcctgggcaac
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13213889 277 -  42888418 gaatgagaagagaggccaggc--------at-gatggctcatgcctgtaatcccagcactgt------------gga--------------ggccaaggtg---------------ggtgggt-------------cacttg-aggtcag-gagttccagaccagcct----------ggccaacatggtgaaaccccatctctacaaa--------aagtat-aaaaagttagccgggtgtggtggcatgcgcctgtaa-tcccaactacttgggaggccgagacaggagaatcacttgaacctgggaggcggaggtt---gcagtgagctgagatcatgccactgcactccagcctgggcaac
i aotNan1.NW_018505940v1   C 0 I 77
s otoGar3.GL873679           3077488 356 +   4132165 GAAGAGAAATATATTCTTAACTATGTTCAAT-ATTTGTTTTCATCTAAATTACAAGAATTGTGTTTAACTATATGGATTTATTTAATATTTGATCATGGCATAGTGAAAAGGTCCTAATAAATGTTTGCAgggtggcacctgtggctcagtgagtagggcaccagccccatataccaagggtggctagttcaaacccagccccggccaaactgcgacaacaac-aaaaaaatagccaggtgttgtggcaggtgcctatag-tcccagttactccagaggctgaggcaagagaatcggctaagcccaagagctggaggtt---gctgtgagctgtgac---accacagcactctaccgagggcaac
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60548928 295 + 108143057 I
e canFam3.chr11             14922275   1 +  74389097 I
e proCoq1.NW_012155062v1     3589331 128 +  11683526 I
e dasNov3.JH567306           2638936   0 +   3667625 C
e mm10.chr18                55522834 741 +  90702639 I

a score=11537.000000
s hg38.chr5_KI270796v1_alt     97235 9 +    172708 aagagcgag-
s panTro5.chr5             125201277 9 + 181907262 aagagcgag-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538145 9 + 183735486 aagagcgag-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729688 9 +   8933513 aagagctag-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860432 9 + 163208435 aagagcgag-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849358 7 + 180051392 a--agtaag-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124272972 7 + 181584905 a--agtaag-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271345 7 +  18395747 a--agtaag-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284278 7 +  26952557 a--cgtaag-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385200 7 +  82825804 a--agtaag-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054101 7 -   4237731 a--agtaag-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323571 7 -   1175262 g--agtaag-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669303 8 - 204313951 -agagtgag-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55713250 8 -  71252344 -agactgag-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       16166 8 -   3089952 -agagtgag-
i cebCap1.NW_016107590v1   C 0 I 77
s otoGar3.GL873679           3077844 9 +   4132165 -aaagttcag
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60548928 295 + 108143057 I
e canFam3.chr11             14922275 1 +  74389097 I
e proCoq1.NW_012155062v1     3589331 128 +  11683526 I
e aotNan1.NW_018505940v1    13214166 77 -  42888418 I
e dasNov3.JH567306           2638936 0 +   3667625 C
e mm10.chr18                55522834 741 +  90702639 I

a score=115318.000000
s hg38.chr5_KI270796v1_alt     97244 19 +    172708 cctctatctcacaaaaaaa
s panTro5.chr5             125201286 19 + 181907262 cctctatctcacaaaaaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538154 19 + 183735486 cctctatctcacaaaaaaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729697 19 +   8933513 cctctatctcacaaaaaaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860441 19 + 163208435 cctctatctcacaaaaaaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849365 19 + 180051392 actccatctcacacaaaca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124272979 19 + 181584905 actccatctcacacaaaca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271352 19 +  18395747 actccatctcacacaaaca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284285 19 +  26952557 actccatctcacataaaca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385207 19 +  82825804 actccatctcacacaaaca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054108 19 -   4237731 actccatctcacacaaaca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323578 19 -   1175262 actccatctcacacaaaca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669311 19 - 204313951 actccatcacacacacaca
i calJac3.chr2             C 0 I 28
s saiBol1.JH378106          55713258 19 -  71252344 actccatcacacacacaca
i saiBol1.JH378106         C 0 I 16
s otoGar3.GL873679           3077853 12 +   4132165 actctgtctcta-------
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60548928 295 + 108143057 I
e canFam3.chr11             14922275  1 +  74389097 I
e proCoq1.NW_012155062v1     3589331 128 +  11683526 I
e aotNan1.NW_018505940v1    13214166 77 -  42888418 I
e cebCap1.NW_016107590v1       16174 77 -   3089952 I
e dasNov3.JH567306           2638936  0 +   3667625 C
e mm10.chr18                55522834 741 +  90702639 I

a score=-46829.000000
s hg38.chr5_KI270796v1_alt     97263 28 +    172708 aaaaaaaaaaaaaaaaaggaaaaaaa-------------------------------------------------a--a
s panTro5.chr5             125201305 77 + 181907262 aaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaaagaaaaaaaaaagaaaagaaagaaaga--a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538173 28 + 183735486 aaaaaaaaaaaaaaaagaaaagaaag-------------------------------------------------a--a
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729716 22 +   8933513 aaaaaaaaaaaaaagaaaga-------------------------------------------------------a--a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860460  6 + 163208435 aaaa-----------------------------------------------------------------------a--a
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849384  2 + 180051392 ---------------------------------------------------------------------------c--a
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124272998  2 + 181584905 ---------------------------------------------------------------------------c--a
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271371  2 +  18395747 ---------------------------------------------------------------------------c--a
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284304  2 +  26952557 ---------------------------------------------------------------------------c--a
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385226  2 +  82825804 ---------------------------------------------------------------------------c--a
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054127  2 -   4237731 ---------------------------------------------------------------------------c--a
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323597  4 -   1175262 ---------------------------------------------------------------------------caaa
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55713293 28 -  71252344 cacagacacacacacacagacacaca-------------------------------------------------c--a
i saiBol1.JH378106         I 16 C 0
s otoGar3.GL873679           3077865 28 +   4132165 aaaaattaaattaaaaattaaaaaaa-------------------------------------------------a--a
i otoGar3.GL873679         C 0 T 387
e micMur3.chr12             60548928 295 + 108143057 I
e canFam3.chr11             14922275  1 +  74389097 I
e proCoq1.NW_012155062v1     3589331 128 +  11683526 I
e aotNan1.NW_018505940v1    13214166 77 -  42888418 I
e cebCap1.NW_016107590v1       16174 77 -   3089952 I
e dasNov3.JH567306           2638936  0 +   3667625 C
e mm10.chr18                55522834 741 +  90702639 I
e calJac3.chr2             123669330 28 - 204313951 I

a score=55065.000000
s hg38.chr5_KI270796v1_alt     97291 10 +    172708 aaaaaggaat
s panTro5.chr5             125201382 10 + 181907262 aaaaaagaat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538201 10 + 183735486 aaaaaagaaT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729738 10 +   8933513 aaaaaagaat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860466 10 + 163208435 aaaagagaaT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849386 10 + 180051392 aaaaaaGTAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273000 10 + 181584905 aaaaaaGTAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271373 10 +  18395747 aaaaaaGTAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284306 10 +  26952557 aaaaaagaaT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385228 10 +  82825804 aaaaaagaaT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054129 10 -   4237731 aaaaaagaaT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323601 10 -   1175262 aaaaaagaaT
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55713321 10 -  71252344 cacacaGAAT
i saiBol1.JH378106         C 0 C 0
e micMur3.chr12             60548928 295 + 108143057 I
e canFam3.chr11             14922275  1 +  74389097 I
e proCoq1.NW_012155062v1     3589331 128 +  11683526 I
e otoGar3.GL873679           3077893 387 +   4132165 T
e aotNan1.NW_018505940v1    13214166 77 -  42888418 I
e cebCap1.NW_016107590v1       16174 77 -   3089952 I
e dasNov3.JH567306           2638936  0 +   3667625 C
e mm10.chr18                55522834 741 +  90702639 I
e calJac3.chr2             123669330 28 - 204313951 I

a score=9100.000000
s hg38.chr5_KI270796v1_alt     97301 1 +    172708 g
s panTro5.chr5             125201392 1 + 181907262 g
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538211 1 + 183735486 G
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729748 1 +   8933513 g
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860476 1 + 163208435 G
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849396 1 + 180051392 G
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273010 1 + 181584905 G
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271383 1 +  18395747 G
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284316 1 +  26952557 G
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385238 1 +  82825804 G
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054139 1 -   4237731 G
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323611 1 -   1175262 G
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55713331 1 -  71252344 G
i saiBol1.JH378106         C 0 C 0
s micMur3.chr12             60549223 1 + 108143057 G
i micMur3.chr12            I 295 C 0
e canFam3.chr11             14922275 1 +  74389097 I
e proCoq1.NW_012155062v1     3589331 128 +  11683526 I
e otoGar3.GL873679           3077893 387 +   4132165 T
e aotNan1.NW_018505940v1    13214166 77 -  42888418 I
e cebCap1.NW_016107590v1       16174 77 -   3089952 I
e dasNov3.JH567306           2638936 0 +   3667625 C
e mm10.chr18                55522834 741 +  90702639 I
e calJac3.chr2             123669330 28 - 204313951 I

a score=80989.000000
s hg38.chr5_KI270796v1_alt     97302 7 +    172708 agaagag
s panTro5.chr5             125201393 7 + 181907262 agaagag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538212 7 + 183735486 AGAAGAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729749 7 +   8933513 agaagag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860477 7 + 163208435 AGAAGAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849397 7 + 180051392 AGAAGAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273011 7 + 181584905 AGAAGAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271384 7 +  18395747 AGAAGAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284317 7 +  26952557 AGAAGAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385239 7 +  82825804 AGAAGAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054140 7 -   4237731 AGAAGAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323612 7 -   1175262 AGAAGAG
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55713332 7 -  71252344 AGAAGAG
i saiBol1.JH378106         C 0 C 0
s micMur3.chr12             60549224 7 + 108143057 AGAAAAG
i micMur3.chr12            C 0 C 0
s mm10.chr18                55523575 7 +  90702639 AGGAGAT
i mm10.chr18               I 741 C 0
s canFam3.chr11             14922276 7 +  74389097 AGAAGAG
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2638936 7 +   3667625 AGAAAAG
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3589331 128 +  11683526 I
e otoGar3.GL873679           3077893 387 +   4132165 T
e aotNan1.NW_018505940v1    13214166 77 -  42888418 I
e cebCap1.NW_016107590v1       16174 77 -   3089952 I
e calJac3.chr2             123669330 28 - 204313951 I

a score=20848.000000
s hg38.chr5_KI270796v1_alt     97309 2 +    172708 aa
s panTro5.chr5             125201400 2 + 181907262 aa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538219 2 + 183735486 AA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729756 2 +   8933513 aa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860484 2 + 163208435 AA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849404 2 + 180051392 AA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273018 2 + 181584905 AA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271391 2 +  18395747 AA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284324 2 +  26952557 AA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385246 2 +  82825804 AA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054147 2 -   4237731 AA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323619 2 -   1175262 AA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669358 2 - 204313951 AG
i calJac3.chr2             I 28 C 0
s micMur3.chr12             60549231 2 + 108143057 AA
i micMur3.chr12            C 0 C 0
s mm10.chr18                55523582 2 +  90702639 GA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14922283 2 +  74389097 AA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2638943 2 +   3667625 AA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3589331 128 +  11683526 I
e otoGar3.GL873679           3077893 387 +   4132165 T
e aotNan1.NW_018505940v1    13214166 77 -  42888418 I
e cebCap1.NW_016107590v1       16174 77 -   3089952 I
e saiBol1.JH378106          55713339 0 -  71252344 C

a score=68191.000000
s hg38.chr5_KI270796v1_alt     97311 8 +    172708 ATATACCC
s panTro5.chr5             125201402 8 + 181907262 aTATACCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538221 8 + 183735486 ATATACCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729758 8 +   8933513 ATATACCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860486 7 + 163208435 ATATA-CC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849406 8 + 180051392 ATATACCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273020 8 + 181584905 ATATACCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271393 8 +  18395747 ATATACCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284326 8 +  26952557 ATATACCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385248 8 +  82825804 ATATACCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054149 8 -   4237731 ATATACCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323621 8 -   1175262 ATATACCC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669360 8 - 204313951 ACACTCTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55713339 8 -  71252344 ACACTCTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       16251 8 -   3089952 ACACTCTT
i cebCap1.NW_016107590v1   I 77 C 0
s aotNan1.NW_018505940v1    13214243 8 -  42888418 aCACTCTT
i aotNan1.NW_018505940v1   I 77 C 0
s micMur3.chr12             60549233 8 + 108143057 ATATACTC
i micMur3.chr12            C 0 I 2
s mm10.chr18                55523584 8 +  90702639 CTATTCTT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14922285 8 +  74389097 ATAAACTC
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2638945 8 +   3667625 AGATACTC
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3589331 128 +  11683526 I
e otoGar3.GL873679           3077893 387 +   4132165 T

a score=1571148.000000
s hg38.chr5_KI270796v1_alt     97319 105 +    172708 AACTAAATTCAATATTTGTTTTGATTTAGATTGCAAGATGATCTGTGTTTC---AC-TGTATGGATTTATTTAATATTTGATCATGGCACAGGGAAAAAAACTTAATAG-----
s panTro5.chr5             125201410 105 + 181907262 AACTAAATTCAATATTTGTTTTGATTTAGATTGCAAGATAATCTGTGTTTC---AC-TGTATGGATTTATTTCATATTTGATCATGGCACAGGGAAAAAATCTTAATAG-----
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538229 105 + 183735486 AACTAAATTCAATATTTGTTTTGATTTAGATTGCAAGATAATCTGTGTTTC---AC-TGTATGGATTTATTTCATATTTGATCATGGCACAGGGAAAAAATCTTAATAG-----
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729766 105 +   8933513 AACTAAATTCAATATTTGTTTTGATTTAGATTGCAAGATGATCTGTGTTTC---AC-TGTATGGATTTATTTCATATTTGATCATGGCACAGGGAAAAAATCTTAACAG-----
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860493 105 + 163208435 AACTAAATTCAATATTTGTTTTGATTTAGATTGCAAGACAATCTGTGTTTA---AC-TGTATGGATTTATTTCATATTTGATCATGGCACAGGGAAAAAATCTTAATAG-----
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849414 105 + 180051392 AACTAAATTAAATATTTGTTTTGATTTAGATTGCAAGATGATCTGTGTTTA---AC-TGTATGGATTTATTTCATATTGGATTGTGGCACAGGGAAAAGATCCTAATAG-----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273028 105 + 181584905 AACTAAATTAAATATTTGTTTTGATTTAGATTGCAAGATGATCTGTGTTTA---AC-TGTATGGATTTATTTCATATTGGATTGTGGCACAGGGAAAAGATCCTAATAG-----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271401 105 +  18395747 AACTAAATTAAATATTTGTTTTGATTTAGATTGCAAGATGATCTGTGTTTA---AC-TGTATGGATTTATTTCATATTGGATTGTGGCACAGGGAAAAGATCCTAATAG-----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284334 105 +  26952557 AACTAAATTAAATATTTGTTTTGATTTAGATTGCAAGATGATCTGTGTTTA---AC-TGTATGGATTTATTTCATATTGGATTGTGGCACAGGGAAAAGATCCTAATAG-----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385256 105 +  82825804 AACTAAATTAAATATTTGTTTTGATTTAGATTGCAAGATGATCTGTGTTTA---AC-TGTATGGATTTATTTCATATTGGATTGTGGCATAGGGAAAAGATCCTAATAG-----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054157 105 -   4237731 AACTAAATTAAATATTTGTTTTGATTTAGATTGCAAGATGATCTGTGTTTA---AC-TGTATGGATTTATTTCATATTGGATTGTGGCACAGGGAAAAGATCCTAATAG-----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323629 105 -   1175262 AACTAAATTAAATATTTGTTTTGATTTAGATTGCAAGATGATCTGTGTTTA---AC-TGTATGGATTTATTTCATATTGGATTGTGGCATAGGGAAAAGATCCTAATAG-----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669368 104 - 204313951 AACTAAGTTTAGTATTTGTTTTGATTTAAATTGCAAGATGATCT-TGTTTA---TC-TATATGAATTTATTTCATATTTGATCATGGCACAGGGAAAAGATCTTAATAG-----
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55713347  97 -  71252344 AACTAAGTTCAGTATTTGTTTCAATTTAAATTGCAAGAT--------CTTG---TT-TATAAAAATTTATTTCATATTTGATCGTGACACAGGGAAAAGATCTTAACAG-----
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       16259 104 -   3089952 AACTAAGTTCAGTATTTATTTCAATTTAAATTGCAAGATCATCT-TGTTTA---TC-TGTATGAATTTATTTCATATTTGATCGTAGCACAGGTAAAAGATCTTAATAG-----
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13214251 104 -  42888418 AACTAAGTTCAGTATTTGTTTCGATTTAAATTGCAAGATGATCT-TGTTTA---TC-TATATGAATTTATTTCATGTTTGATCGTGACACAGGGAAAAGATCTTAATAG-----
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60549243 104 + 108143057 AACTAAGTTCAGTATTT-TTTTTATTTAAACTGCAAGATGATTTGTGTTTA---CC-TATATGGATTTATTTAATATTTGATCATGGCATAGTGAAAAGATCTTAATAA-----
i micMur3.chr12            I 2 C 0
s proCoq1.NW_012155062v1     3589459 105 +  11683526 AACTAAGTTCAGTATTTGTTTTGATTTAAATTGCAAGATGATTTGTGTTTA---CC-TATATGGATTTATTTAATATTTGATCATGGCATAGTGAAAAGATCTTAATAA-----
i proCoq1.NW_012155062v1   I 128 C 0
s otoGar3.GL873679           3077506 102 +   4132165 AACTATGTTCAATATTTGTTTTCATCTAAATTACAA---GAATTGTGTTTA---AC-TATATGGATTTATTTAATATTTGATCATGGCATAGTGAAAAGGTCCTAATAA-----
i otoGar3.GL873679         T 387 I 285
s mm10.chr18                55523592 106 +  90702639 AACCAAGTTCATTACTTGTTGAAATTTCAATTATAAGATGACTTAAGTGTACTTTT-TATATTGGTTCATTTCTTAGTTGATCATGGTACAGTAATGTGATCTTAGT-------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14922295  99 +  74389097 AACTAAGTTTAATATTTGTTATGATTTAAATTTCAAGTCGATTTATGTTTA---AA-TGTATGGATATATT---TATTCGATCATAATACAGGAAAAAGATCTTAA--------
i canFam3.chr11            I 2 C 0
s dasNov3.JH567306           2638953 108 +   3667625 ---TAAGTTCAATATTTGTTATGATTTAAATTGCAAGGTAATATGTGTTTA---ACTTATATGGATTTATTTCTTATTTAATCATTGCACAAAAGAAACACTTTAATTTAATAA
i dasNov3.JH567306         C 0 C 0

a score=51385.000000
s hg38.chr5_KI270796v1_alt     97424 3 +    172708 ATG
s panTro5.chr5             125201515 3 + 181907262 ATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538334 3 + 183735486 ATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729871 3 +   8933513 ATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860598 3 + 163208435 ATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849519 3 + 180051392 ATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273133 3 + 181584905 ATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271506 3 +  18395747 ATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284439 3 +  26952557 ATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385361 3 +  82825804 ATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054262 3 -   4237731 ATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323734 3 -   1175262 ATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669472 3 - 204313951 ATG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55713444 3 -  71252344 ATG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       16363 3 -   3089952 ATG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13214355 3 -  42888418 ATG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60549347 3 + 108143057 ATG
i micMur3.chr12            C 0 I 206
s proCoq1.NW_012155062v1     3589564 3 +  11683526 ATG
i proCoq1.NW_012155062v1   C 0 I 203
s otoGar3.GL873679           3077893 3 +   4132165 ATG
i otoGar3.GL873679         I 285 C 0
s mm10.chr18                55523698 1 +  90702639 --G
i mm10.chr18               C 0 C 0
s canFam3.chr11             14922394 1 +  74389097 --G
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2639061 3 +   3667625 AGG
i dasNov3.JH567306         C 0 C 0

a score=966174.000000
s hg38.chr5_KI270796v1_alt     97427 86 +    172708 CTTGTAGTTGCCTGAAG--TAAATAAA-ACTTTAACTTGTGC--------TT--------A---------AGA---TCTGTAGAAAAATAACTTTGGAAGGACACAAGGATCTCAAC
s panTro5.chr5             125201518 86 + 181907262 CTTGTAGTTGCCTGAAG--TAAATAAA-ACTTTAATTTGTGC--------TT--------A---------AGA---TCTGTAGAAAAATAACTTTGGAAGGACACAAGGATCTCAAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538337 86 + 183735486 CTTGTAGTTGCCTGAAG--TAAATAAA-ACTTTAACTTGTGC--------TT--------A---------AGA---TCTGTAGAAAAATAACTTTGGAAGGACACAAGGATCTCAAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729874 86 +   8933513 CTTGTAGTTGCCTGAAG--TAAATAAA-ACTTTAACTTGTGC--------TT--------A---------AGA---TCTGTAGAAAAATAACTTTGGAAGGACACAAGGATCTCAAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860601 79 + 163208435 CTTGTAGTTGCCTAAAG--TAAATAAA------AACTTCTGC--------TT--------A---------AGA---TCTATAGGATAATAAC--TGAAAGGACACAAAAATCTCAAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849522 86 + 180051392 CTTGTAGTGGCCTAAAG--TAAATAAA-ACCTTAACTGCTGC--------TT--------A---------AGA---TCTATAGAATAATAACTTTGGAAGGACATAAAGATCTCAAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273136 86 + 181584905 CTTGTAGTGGCCTAAAG--TAAATAAA-ACCTTAACTTCTGC--------TT--------A---------AGA---TCTATAGAATAATAACTTTGGAAGGACATAAAGATCTCAAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271509 86 +  18395747 CTTGTAGTGGCCTAAAG--TAAATAAA-ACCTTAACTTCTGC--------TT--------A---------AGA---TCTATAGAATAATAACTTCGGAAGGACATAAAGATCTCAAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284442 86 +  26952557 CTTGTAGTGGCCTAAAG--TAAATAAA-ACCTTAACTTCTGC--------TT--------A---------ATA---TCTATAGAATAATAACTTTGGAAGGACATAAAGATCTCAAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385364 86 +  82825804 CTTGTGGTGGCCTAAAG--TAAATAAA-ACCTTAACTTCTGC--------TT--------A---------AGA---TCTATAGAATAATAACTTTGGAAGGACATAAAGATCTCAAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054265 86 -   4237731 CTTGTAGTGGCCTAAAG--TAAATAAA-ACCTTAACTTCTGC--------TT--------A---------AGA---TCTATAGAATAATAACTTTGGAAGGACATAAAGATCTCAAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323737 86 -   1175262 CTTGTAGTGGCCTAAAG--TAAATAAA-ACCTTAACTTCTGC--------TT--------A---------AGA---TCTATAGAATAATAACTTTGGAAAGACATAAAGATCTCAAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669475 89 - 204313951 CCTGTAGTCGCCTAAAG--TAAATGAA-ACCTCAACTTCTGCTCT-----TT--------A---------AGA---TCTATAGAATAATAACTTTGGAAGGACACAAAGATCTCAAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55713447 89 -  71252344 CCTGTAGTCGCCTAAAG--TAAATGAA-ACCTCAACTTCTGCTCT-----TT--------A---------AGA---TCTATAGAATAATAACTTTGGAAGGACACAAAGATCTCAAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       16366 89 -   3089952 CCTGTAGTTGCCTAAAG--TAAATGAA-ACTTCAACTTCTGCTCT-----TT--------A---------AGA---TCTGTAGAATAATAACTTTGGAAGGATACAAAGATCTCAAC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13214358 89 -  42888418 CCTGTAGTCGCCTAAAG--TAAATGAA-GCCTCAGCTTCTGCTCT-----TT--------A---------AGA---TCTATAGAATAATAGCTTTGGAAGGACACAAAGATCTCAAC
i aotNan1.NW_018505940v1   C 0 I 13
s otoGar3.GL873679           3077896 96 +   4132165 TTTGCA---ACCTAAAG--GAAATAAAAACCTTAAGTTCTGACTC-----TT--------ACAAAGCTATATA---TTAACAGAATAATAACTTCTGAAGGACACAAAGAACCCAAC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55523699 88 +  90702639 CCTGGA---GCCTATAG--TCAACAAA-TTCTCCAATTCTGA-CT-----TT--------A---------AAAGACTGGATAGACTAATAACTTTGTACTTACACTAAGATCCCACC
i mm10.chr18               C 0 I 2
s canFam3.chr11             14922395 96 +  74389097 CTCATTAAGGCCTGTAGCATAAAGTAA-ACCTCAACCTCGAA--------TTCTATTACAA---------AGA---TACATTGAATAATAATTTTGGAAGGACAGAAAAAGCTCAAC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2639064 84 +   3667625 TTTTTA---GCTTAAAG--TAAATAAG-AACTCAAGTTCTGACTTTCTTATA--------A---------AGA---TATGAAGAATAATAACTTTGAAAGGGCACAGAGT-------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60549350 206 + 108143057 I
e proCoq1.NW_012155062v1     3589567 203 +  11683526 I

a score=18758.000000
s hg38.chr5_KI270796v1_alt     97513 4 +    172708 CTTT
s panTro5.chr5             125201604 4 + 181907262 CTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538423 4 + 183735486 CTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729960 4 +   8933513 CTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860680 4 + 163208435 CTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849608 4 + 180051392 TTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273222 4 + 181584905 TTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271595 4 +  18395747 TTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284528 4 +  26952557 TTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385450 4 +  82825804 TTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054351 4 -   4237731 TTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323823 4 -   1175262 TTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669564 4 - 204313951 TTCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55713536 4 -  71252344 TTCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       16455 4 -   3089952 TTCT
i cebCap1.NW_016107590v1   C 0 I 8
s otoGar3.GL873679           3077992 1 +   4132165 C---
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55523789 2 +  90702639 CT--
i mm10.chr18               I 2 I 2
s canFam3.chr11             14922491 4 +  74389097 CTCC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2639148 4 +   3667625 CTTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60549350 206 + 108143057 I
e proCoq1.NW_012155062v1     3589567 203 +  11683526 I
e aotNan1.NW_018505940v1    13214447 13 -  42888418 I

a score=29148.000000
s hg38.chr5_KI270796v1_alt     97517 6 +    172708 GTACTT
s panTro5.chr5             125201608 6 + 181907262 CTACTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538427 6 + 183735486 CTACTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729964 6 +   8933513 CTACTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860684 6 + 163208435 ATACTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849612 6 + 180051392 CTACTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273226 6 + 181584905 CTACTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271599 6 +  18395747 CTACTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284532 6 +  26952557 CTACTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385454 6 +  82825804 CTACTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054355 6 -   4237731 CTACTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323827 6 -   1175262 CGACTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669568 5 - 204313951 -CATTC
i calJac3.chr2             C 0 I 3
s saiBol1.JH378106          55713540 5 -  71252344 -CATTC
i saiBol1.JH378106         C 0 I 3
s otoGar3.GL873679           3077993 4 +   4132165 --ACTT
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55523793 3 +  90702639 CTA---
i mm10.chr18               I 2 C 0
s canFam3.chr11             14922495 6 +  74389097 CTACTT
i canFam3.chr11            C 0 I 4
s dasNov3.JH567306           2639152 4 +   3667625 AGAC--
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60549350 206 + 108143057 I
e proCoq1.NW_012155062v1     3589567 203 +  11683526 I
e aotNan1.NW_018505940v1    13214447 13 -  42888418 I
e cebCap1.NW_016107590v1       16459 8 -   3089952 I

a score=11504.000000
s hg38.chr5_KI270796v1_alt     97523 1 +    172708 C
s panTro5.chr5             125201614 1 + 181907262 C
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538433 1 + 183735486 C
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729970 1 +   8933513 C
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860690 1 + 163208435 C
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849618 1 + 180051392 C
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273232 1 + 181584905 C
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271605 1 +  18395747 C
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284538 1 +  26952557 T
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385460 1 +  82825804 C
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054361 1 -   4237731 C
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323833 1 -   1175262 C
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669576 1 - 204313951 C
i calJac3.chr2             I 3 C 0
s saiBol1.JH378106          55713548 1 -  71252344 C
i saiBol1.JH378106         I 3 C 0
s cebCap1.NW_016107590v1       16467 1 -   3089952 C
i cebCap1.NW_016107590v1   I 8 C 0
s mm10.chr18                55523796 1 +  90702639 C
i mm10.chr18               C 0 C 0
s canFam3.chr11             14922505 1 +  74389097 C
i canFam3.chr11            I 4 C 0
e micMur3.chr12             60549350 206 + 108143057 I
e proCoq1.NW_012155062v1     3589567 203 +  11683526 I
e otoGar3.GL873679           3077997 1 +   4132165 I
e aotNan1.NW_018505940v1    13214447 13 -  42888418 I
e dasNov3.JH567306           2639156 0 +   3667625 C

a score=530155.000000
s hg38.chr5_KI270796v1_alt     97524 48 +    172708 AGATGAA-TTTTACCATTCAGAACCAGTAATTTTCAACCTTTC------------------------TTAAAC-----------------------------------
s panTro5.chr5             125201615 48 + 181907262 AGATGAA-TTTTACCATTCAGAACGAGTAATTTTCAACCTTTC------------------------TTAAAC-----------------------------------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538434 48 + 183735486 AGATGAA-TTTTACCATTCAGAACGAGTAATTTTCAACCTTTC------------------------TTAAAC-----------------------------------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1729971 48 +   8933513 AGATGAA-TTTTACCATTCAGAACCAGTAATTTTCAACCTTTC------------------------TTAAAC-----------------------------------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860691 48 + 163208435 AGATGAA-TTTTACCATTCAGAACCAGTAATTTTCAACCTTTC------------------------TTAAAC-----------------------------------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849619 48 + 180051392 AGACAAA-TTTTACCATTCAGAAGGAGTAATTTTCAACCTTTC------------------------TTAAAC-----------------------------------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273233 48 + 181584905 AGACAAA-TTTTACCATTCAGAAGGAGTAATTTTCAACCTTTC------------------------TTAAAC-----------------------------------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271606 48 +  18395747 AGACAAA-TTTTACCATTCAGAAGGAGTAATTTTCAACCTTTC------------------------TTAAAC-----------------------------------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284539 48 +  26952557 AGACAAA-TTTTACCATTCAGAATGAGTAATTTTCAACCTTTC------------------------TTAAAC-----------------------------------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385461 48 +  82825804 AGACAAA-TTTTACCATTCAGAACGAGTAATTTTCAACCTTTC------------------------TTAAAC-----------------------------------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054362 48 -   4237731 AGACAAA-TTTTACCATTCAGAATGAGTAATTTTCAACCTTTC------------------------TTAAAC-----------------------------------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323834 48 -   1175262 AGACAAA-TTTTACCATTCAGAACGAGTAATTTTCAACCTTTC------------------------TTAAAC-----------------------------------
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669577 48 - 204313951 AGATGAA-TTTTACCAATCAGAACAAGTAATTTTCAACCTTTA------------------------TTAAAC-----------------------------------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55713549 49 -  71252344 AGATGAATTTTTACCAATCAGAACAAGTAATTTTCAACCTTTC------------------------TTAAAC-----------------------------------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       16468 48 -   3089952 AGATGAA-TTTTACCAATCAGAACAAGTAATTTTCAACCTTTC------------------------TTAAAG-----------------------------------
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13214460 48 -  42888418 AGATGAA-TTTTACCAATCAGAACAAGTAATTTTCAACCTTTC------------------------TTAAAC-----------------------------------
i aotNan1.NW_018505940v1   I 13 C 0
s otoGar3.GL873679           3077998 54 +   4132165 GGATGAG-T------------------TAATTTTCAAACTTTTGTTGAAGATCTCTAGGGCTGGAGATTCTAC-----------------------------------
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55523797 36 +  90702639 AGACTAA-CATCACCA------------AGTCTCATTTCTTGC------------------------TCAGAC-----------------------------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14922506 48 +  74389097 AGATGGA-TTTTATTACTCAGAATAATTCATTTTCAACTTTTT------------------------CTTAAC-----------------------------------
i canFam3.chr11            C 0 I 38
s dasNov3.JH567306           2639156 83 +   3667625 AGATGAA-TTTCATCATTCAGGACAAGTTATTTTCAACCTTTC------------------------CTTAAATGTCTCTGGGGCTGGATATTCTAAAGTTTTCTTGC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60549350 206 + 108143057 I
e proCoq1.NW_012155062v1     3589567 203 +  11683526 I

a score=46262.000000
s hg38.chr5_KI270796v1_alt     97572  5 +    172708 A--------GTTA
s panTro5.chr5             125201663  5 + 181907262 A--------GTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538482  5 + 183735486 A--------GTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1730019  5 +   8933513 A--------GTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860739  5 + 163208435 A--------GTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849667  5 + 180051392 A--------GTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273281  5 + 181584905 A--------GTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271654  5 +  18395747 A--------GTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284587  5 +  26952557 A--------GTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385509  5 +  82825804 A--------GTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054410  5 -   4237731 A--------GTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323882  5 -   1175262 A--------GTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669625  5 - 204313951 A--------ATTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55713598  5 -  71252344 A--------ATTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       16516  5 -   3089952 A--------ATTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13214508  5 -  42888418 A--------ATTA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3078052  5 +   4132165 A--------GTTA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55523833 13 +  90702639 ATCCCTGTGGCTG
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2639239  4 +   3667625 A--------GTT-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60549350 206 + 108143057 I
e canFam3.chr11             14922554 38 +  74389097 I
e proCoq1.NW_012155062v1     3589567 203 +  11683526 I

a score=89725.000000
s hg38.chr5_KI270796v1_alt     97577  9 +    172708 AC---------ATCATAG
s panTro5.chr5             125201668  9 + 181907262 AC---------ATCGTAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538487  9 + 183735486 AC---------ATCGTAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1730024  9 +   8933513 AC---------ATCGTAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860744  9 + 163208435 AC---------ATCATAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849672  9 + 180051392 AC---------ATCATAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273286  9 + 181584905 AC---------ATCATAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271659  9 +  18395747 AC---------ATCATAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284592  9 +  26952557 AC---------ATCATAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385514  9 +  82825804 AC---------ATCATAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054415  9 -   4237731 AC---------ATCATAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323887  9 -   1175262 AC---------ATCATAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669630  9 - 204313951 AC---------ATCATAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55713603  9 -  71252344 AC---------ATTATAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       16521  9 -   3089952 AC---------ATGATAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13214513  9 -  42888418 AC---------ATCATAA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3078057 18 +   4132165 ACCAACAGTTAATCATAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55523846  9 +  90702639 GG---------ATCACTG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14922592  9 +  74389097 AT---------ATCATCC
i canFam3.chr11            I 38 C 0
s dasNov3.JH567306           2639243  8 +   3667625 -T---------ATCACCC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60549350 206 + 108143057 I
e proCoq1.NW_012155062v1     3589567 203 +  11683526 I

a score=33613.000000
s hg38.chr5_KI270796v1_alt     97586 3 +    172708 TGA
s panTro5.chr5             125201677 3 + 181907262 TGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538496 3 + 183735486 TGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1730033 3 +   8933513 TGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860753 3 + 163208435 TGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849681 3 + 180051392 TGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273295 3 + 181584905 TGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271668 3 +  18395747 TGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284601 3 +  26952557 TGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385523 3 +  82825804 TGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054424 3 -   4237731 TGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323896 3 -   1175262 TGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669639 3 - 204313951 TTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55713612 3 -  71252344 TTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       16530 3 -   3089952 TTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13214522 3 -  42888418 TTA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3589770 3 +  11683526 tgA
i proCoq1.NW_012155062v1   I 203 C 0
s otoGar3.GL873679           3078075 3 +   4132165 TGG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55523855 3 +  90702639 CAA
i mm10.chr18               C 0 I 1
s canFam3.chr11             14922601 3 +  74389097 TGA
i canFam3.chr11            C 0 I 4
s dasNov3.JH567306           2639251 3 +   3667625 GGA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60549350 206 + 108143057 I

a score=281178.000000
s hg38.chr5_KI270796v1_alt     97589 17 +    172708 TACTTAGTTGTTTCTTG
s panTro5.chr5             125201680 17 + 181907262 TACTTAGTTGTTTCTTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538499 17 + 183735486 TACTTAGTTGTTTCTTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1730036 17 +   8933513 TACTTAGTTGTTTCTTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860756 17 + 163208435 TACTTAGTTGTTTCTTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849684 17 + 180051392 TACTTAGTTGTTTCTTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273298 17 + 181584905 TACTTAGTTGTTTCTTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271671 17 +  18395747 TACTTAGTTGTTTCTTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284604 17 +  26952557 TACTTAGTTGTTTCTTG
i cerAty1.NW_012002512v1   C 0 I 8
s chlSab2.chr23             28385526 17 +  82825804 TACTTAGTTGTTTCTTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054427 17 -   4237731 TACTTAGTTGTTTCTTG
i manLeu1.NW_012103321v1   C 0 I 8
s colAng1.NW_012119644v1      323899 17 -   1175262 TACTTAGTTGTTTCTTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669642 17 - 204313951 TACCTAGCTGTTTCTTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55713615 17 -  71252344 TACCTAGCTGTTTCTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       16533 17 -   3089952 TACCTAGTTGTTTCTTG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13214525 17 -  42888418 TACCTAGTTGTTTCTTG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60549556 17 + 108143057 TACTTAGTTGTTTCTTA
i micMur3.chr12            I 206 C 0
s proCoq1.NW_012155062v1     3589773 17 +  11683526 TACTTAGTTGTTTCTTA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3078078 17 +   4132165 TACTTAGTTTTTTCTTA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55523859 17 +  90702639 GAACTAGTAGTTAATCA
i mm10.chr18               I 1 I 21
s canFam3.chr11             14922608 17 +  74389097 TAAATAGTAATTTCTAA
i canFam3.chr11            I 4 C 0
s dasNov3.JH567306           2639254 17 +   3667625 TACTTTGTCATTTCTTA
i dasNov3.JH567306         C 0 C 0

a score=59837.000000
s hg38.chr5_KI270796v1_alt     97606 17 +    172708 TGTCCACTTGCAACTGT
s panTro5.chr5             125201697 17 + 181907262 TGTCCACTTGCAACTGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538516 17 + 183735486 TGTCCACTTGCAACTGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1730053 17 +   8933513 TGTCCACTTGCAACTGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860773 17 + 163208435 TGTCCACTTGAAACTGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849701  8 + 180051392 --------AACAACTG-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273315  8 + 181584905 --------AACAACTG-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271688  8 +  18395747 --------AACAACTG-
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28385543  8 +  82825804 --------AACAACTG-
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      323916  8 -   1175262 --------AACAACTG-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669659 17 - 204313951 TATCCATTTGGAACTGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55713632 17 -  71252344 TATCCATTTGGAACTGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       16550 17 -   3089952 TATCCATTTGGAACTGT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13214542 17 -  42888418 TATCCATTTGGAACTGT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60549573 15 + 108143057 TGTCCACTTGAAATT--
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3589790 15 +  11683526 TGTCCACTTGAAACT--
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3078095 15 +   4132165 AGCCCATTTAAAATT--
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55523897 16 +  90702639 TGTCCATTTA-AGCTGT
i mm10.chr18               I 21 C 0
s canFam3.chr11             14922625 17 +  74389097 TTTCCATTTGAAACCAC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2639271 17 +   3667625 TATTCATTTGAAACTGA
i dasNov3.JH567306         C 0 C 0
e manLeu1.NW_012103321v1     4054444  8 -   4237731 I
e cerAty1.NW_012002512v1     5284621  8 +  26952557 I

a score=782030.000000
s hg38.chr5_KI270796v1_alt     97623 56 +    172708 TTCTATTTCCTTCTATGAGATTGTCCATGGTAGTCAAGAACAGCT------------------TGACACTCCCT
s panTro5.chr5             125201714 56 + 181907262 TTCTATTTCCTTCTATGAGATTGTCCATGGTATTCAAGAACAGCT------------------TCACACTCCCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538533 56 + 183735486 TTCTATTTCCTTCTATGAGATTGTCCATGGTATTCAAGAACAGCT------------------TCACACTTCCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1730070 56 +   8933513 TTCTATTTCCTTCTATGAGATTGTCCATGGTAGTCAAGAACAGCT------------------TGACACTCCCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860790 56 + 163208435 TTCTATTTCCTTCTATGAGATTGTCCATGGTAGTCAAGAGCAGCT------------------TGACACTCCCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849709 56 + 180051392 TCCTATTTCCTTCTATGAGATTGTCCATGGTAGTCAAGAACAGCT------------------TGACACTCCCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273323 56 + 181584905 TTCTATTTCCTTCTATGAGATTGTCCATGGTAGTCAAGAACAGCT------------------TGACACTCCCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271696 56 +  18395747 TTCTATTTCCTTCTATGAGATTGTCCATGGTAGTCAAGAACAGCT------------------TGACACTCCCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284629 56 +  26952557 TTCTATTTCCTTCTATGAGACTGTCCATGGTAGTCAAGAACAGCT------------------TGACACTCCCT
i cerAty1.NW_012002512v1   I 8 C 0
s chlSab2.chr23             28385551 56 +  82825804 TTCTATTTCCTTCTATGAGATTGTCCATGGTAGTCAAGAACAGCT------------------TGACACTCCTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054452 56 -   4237731 TTCTATTTCCTTCTATGAGACTGTCCATGGTAGTCAAGAACAGCT------------------TGACACTCCCT
i manLeu1.NW_012103321v1   I 8 C 0
s colAng1.NW_012119644v1      323924 56 -   1175262 TTCTATTTCCTTCTATGAGATTGTCCATGGTAGTCAAGAACAGCT------------------TGACACTCCCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669676 55 - 204313951 TTCTATTTCCTTCTAAGAGATTGTCCA-GATAGTCAAGAACAGCT------------------GGACACTCCCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55713649 55 -  71252344 TTCTGTTTCCTTCTATGAGATTGCCCA-GATAGTCAAGAACAGCT------------------GGACACTCCCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       16567 55 -   3089952 TTCTATTTCCTTCTATGAGATTGTCCA-GATAGTCAAGAACAGCT------------------GGACACTCCCT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13214559 55 -  42888418 TTCTATTTCCTTCTGTGAGATTGTCCA-GATAGTCAAGAACAGCT------------------GGACACTCCCT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60549588 60 + 108143057 TTCATTTTCCTCT-ATAAGATTGTCCATGGTGGTCAAGAGTAGCTGTTA-------------CTTACACTCTGT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3589805 60 +  11683526 TTCTGTTTCCTTT-ATAAGATTGTCCATGGTGGTCAAGAGTAGCTGTTT-------------CGGACACTCCCT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3078110 59 +   4132165 TTccatttccttc--cgtgattgtctatagtggtcaagaatagctggtt-------------atgacattccct
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55523913 56 +  90702639 TTCTCTTTCCATCTATATCATTTTTCTTGGTTATCAGAAATAACT------------------GGTTATTCTTT
i mm10.chr18               C 0 I 1587
s canFam3.chr11             14922642 74 +  74389097 TTCCACTTCCTTCTACCAGATTTTCCATGGTGCTCAAGAAGAGCTGGTTAGCACACAAATAGAGAAGACACCAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2639288 61 +   3667625 TTTCACTTTCTTCTACTTGATTTTCCATAGTGATCAAGAAGAGATGCTTA-------------GGACACTCCCA
i dasNov3.JH567306         C 0 C 0

a score=1957636.000000
s hg38.chr5_KI270796v1_alt     97679 133 +    172708 ATACAATAGTGATTGAGTTACCCCTTCTGTCTTGCAGGGTGAATGGCCAGGGTTC-ATGTAATTCTTCCTTTTGGGACTTAAATGCTTTCCAAA--TCAGATGTCCCCAACTGTT----CTTTTAGGAGTCATCTTTCCC
s panTro5.chr5             125201770 133 + 181907262 ATACAATAGTGATTGAGTTACCCCTTCTCTCTTGTAGGGTGAATGGCCAGGGTTC-ATGTAATTCTTCCTTTTGGGACTTAAATGCTTTCCAAA--TCAGATGTCCCCAACTGTT----CTTTTAGGAGTCATCTTTCCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538589 133 + 183735486 ATACAATAGTGATTGAGTTACCCCTTCTCTCTTGTAGGGTGAATGGCCAGGGTTC-ATGTAATTCTTCCTTTTGGGACTTAAATGCTTTCCAAA--TCAGATGTCCCCAACTGTT----CTTTTAGGAGTCATCTTTCCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1730126 133 +   8933513 ATACAATAGTGATTGAGTTACCCCTTCTCTCTTGTAGGGTGAATGGCCAGGGTTC-ATGTAATTCTTCCTTTTGGGACTTAAATGCTTTCCAAA--TCAGATGTCCCCAACTGTT----CTTTTAGGAGTCATCTTTCCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860846 133 + 163208435 ATCCAATAGTGATTGAGTTACCCCTTCTCTCTTGTAGGGTGAATGGCCAGGGTTC-ATGTAATTCTTCATTTTGGGACTTGAATGCTTTCCAAA--TCAGATGTCCCCAACTGTT----CTTTAAGGAGTCTTCCTTCCC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849765 133 + 180051392 ATACAATAGTGATTGAATTACCCCTTCTCTCTTGTAGGGTGAATGGCCAGTGTTC-ATATAATTCTTCCTTTTGGGACTTAAATGCTTTCCAAA--TAAGATGTCCCCAACTGTT----CTTTTAGGAGTCATCCTTCCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273379 133 + 181584905 ATACAATAGTGATTGAATTACCCCTTCTCTCTTGTAGGGTGAATGGCCAGTGTTC-ATATAATTCTTCCTTTTGGGACTTAAATGCTTTCCAAA--TAAGATGTCCCCAACTGTT----CTTTTAGGAGTCATCCTTCCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271752 133 +  18395747 ATACAATAGTGATTGAATTACCCCTTCTCTCTTGTAGGGTGAATGGCCAGTGTTC-ATATAATTCTTCCTTTTGGGACTTAAATGCTTTCCAAA--TAAGATGTCCCCAACTGTT----CTTTTAGGAGTCATCCTTCCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284685 133 +  26952557 ATACAATAGTGATTGAATTACCCCTTCTCTCTTGTAGGGTGAATGGCCAGTGTTC-ATATAATTCTTCCTTTTGGGACTTAAATGCTTTCCAAA--TAAGATGTCCCCAACTGTT----CTTTTAGGAGTCATCCTTCCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385607 133 +  82825804 ATACAATAGTGATTGAATTACCCCTTCTCTCTTGTAGGGTGAATGGCCAGTGTTC-ATATAATTCTTCCTTTTGGGACTTAAATGCTTTCCAAA--TAAGATGTCTCCAACTGTT----CTTTTAGGAGTCATCCTTCCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054508 133 -   4237731 ATACAATAGTGATTGAATTACCCCTTCTCTCTTGTAGGGTGAATGGCCAGTGTTC-ATATAATTCTTCCTTTTGGGACTTAAATGCTTTCCAAA--TAAGATGTCCCCAACTGTT----CTTTTAGGAGTCATCCTTCCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      323980 133 -   1175262 ATACAATAGTGATTGAATTATCCCTTCTCTCTTGTAGGGTGAATGGCCAGTGTTC-GTAGAATTCTTCCTTTTGGGACTTAAATGCTTTCCAAA--TAAGATGTCCCCAACTGTT----CTTTTAGGAGTCATCCTTCCC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669731 133 - 204313951 CTCCAATAGTGATTGAGTTACCCTTTCTCTCTTGTTGGGTGAGTGGCCAGGGTTC-ATGTAATTCTTCCTTTTGGAACCTGAATGCTTTTCAAA--TCAGATGTCCCCAACTGTT----CTTTTAGGAGTCATCCTTCCC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55713704 133 -  71252344 ATACAATAGTGATTGAGTTACCCCTTCTCTCTTGTTGGGTGAGTGGCCAGGGTTC-ATGTAATTCTTCCTTTTGGAACTTGAATGCTTTCCAAA--TCAGATGTCCCCAACTGTC----CTCTTAGGAGTCATCCTTCCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       16622 133 -   3089952 ATACAATAGTGATTGAGTTACCCCTTCTCTCTTGTTGGGTGAGTGGCCAGGGTTC-ATGTAATTCTTCCTTTTGGAACTTGAATGCTTTCCAAA--TCAGCTGTCCCCAACTGTC----CTTTTAGGAGTCATCCTTCCC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13214614 133 -  42888418 ATACAATAATGATTGAGTTACCCCTTCTCTCTTGTTGGGTGAGTGGCCAGGGTTC-ATGTAATTCCTCCTTTTGGAACTTGAATGCTTTCCAAA--TCAGATGTCCCCAACTATT----CTTTTAGGAGTCATCCTTCCC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60549648 136 + 108143057 ATGCAATGGTGATTGAGTTATTCCTTCTCTCCTGTAGGGTGAACTTCCAGGGTTCGACTTAATCTCTCCTTTTAGAACTTAAATTCTTTCCAAATGTCAGATGTCCCTGACTGTT----CTTTCAAGAGTCACCCTTCCC
i micMur3.chr12            C 0 I 623
s proCoq1.NW_012155062v1     3589865 136 +  11683526 GTGCAATGGTGATTGAGTTATTCCTTCTCTCCTGTAGGGTGAACTTCCAGGGTTCGACTTAATCCCTCCTTTTAGAACTTAAATCCTTTCCAAATTTCAAATGTCCCTGACTGTT----CTTTCAAGAGTCACCCTTCCC
i proCoq1.NW_012155062v1   C 0 I 314
s otoGar3.GL873679           3078169 136 +   4132165 atgtaatGGTGACTGAGTCACCCCTTCTTTGTGTTAGGACAAACTTCCAGGGTTCAATTTAATCCTTCCTATTGGAACTTAAATACTTTCCAAATCTTAGATGCCCCTGACTGTT----CTTTTAGGAGTCACCCTTCTC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14922716 139 +  74389097 ATATAATAGAAATTGATTTATTCCTTCTCTCCTGTAGGCTGAATGTCTAAGATTC-ACTTACTTCTTACTTTTAGAACTTACATTCTTTCCAAATCTCATGTGTTCTTGAATATTCTACCTTTAAGGAATCATCCTTCCT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2639349 110 +   3667625 -----ATACTTATTGGACTACTCTTACTCT--TGTAGGCTGAACATCCAAGGTTC-AGCTATTTTTTCTTTTAGGAACT----TTCTTTCCAAATATGAGATGTTCCTGAGTATT----CT-------GCCAT-------
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55523969 1587 +  90702639 I

a score=1511820.000000
s hg38.chr5_KI270796v1_alt     97812 130 +    172708 CATAATGATCAAATAGTGTTTTCAGCACCGATTCCACAGAATACAG-GATGTCTGCTC-TTTACCAAGTCTCCTTCCCTGCTGAGTTTCTGGCTGTCTCTGAGGAATAGTTCCATTAAC-TAAGTCTGAATGA
s panTro5.chr5             125201903 129 + 181907262 CATAATGATCAAATAGTGTTTTCAGC-CCGATTCCATAGAATACAG-GATGTCTGGTC-TTTACCAAGTCTCCTTCCCTGCTGAGTTTCTGGCTGTCTCTGAGGAATAGTTCCATTAAC-TAAGTCTGAATGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538722 129 + 183735486 CATAATGATCAAATAGTGTTTTCAGC-CCGATTCCATAGAATACAG-GATGTCTGGTC-TTTACCAAGTCTCCTTCCCTGCTGAGTTTCTGGCTGTCTCTGAGGAATAGTTCCATTAAC-TAAGTCTGAATGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1730259 131 +   8933513 CATAATGATCAAATAGTGTTTTCAGCACCGATTCCATAGAATACAACGATGTCTGGTC-TTTACCAAGTCTCCTTCCCTGCTGAGTTTCTGGCTGTCTCTGAGGAATAGTTCCATTAAC-TAAGTCTGAATGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139860979 131 + 163208435 CATAACGACCAAATAGTGTTTTCAGCACCGATTCCAAAGAATACAG-GATGTCTGGTCGTTTACCGAGTCTCCTTCCCTGCTGAGTTTCTGGGTGTCTCTGAGGAATAGTTCCATTAAC-TGAGTCTGAATGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122849898 131 + 180051392 CATAATGACCAAATAGTATTTTCAGCACCGATTCCATAGAATACAG-GATGTCTGGTCGTTTACAAAGTCTCCTTCCCCTCTGAGTTTCTGGATATCTCTGAGGAATAGTTCCATTAAC-TGAGTCTGAGTGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273512 131 + 181584905 CATAATGACCAAATAGTATTTTCAGCACCGATTCCATAGAATACAG-GATGTCTGGTCGTTTACAAAGTCTCCTTCCCCTCTGAGTTTCTGGATATCTCTGAGGAATAGTTCCATTAAC-TGAGTCTGAGTGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16271885 131 +  18395747 CATAATGACCAAATAGTATTTTCAGCACCGATTCCATAGAATACAG-GATGTCTGGTCGTTTACAAAGTCTCCTTCCCCTCTGAGtttctggatatctctgaggaatagttccattaac-tgagtctgagtga
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284818 131 +  26952557 CATAATGACCAAATAGTATTTTCAGCACCAATTTCATAGAATGCAG-GATGTCTGGTCGTTTACAAAGTCTCCTTCCCCTCTGAGtttctggatatctctgaggaatagttccattaac-tgagtctgagtga
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385740 131 +  82825804 CATAATGACCAAATAGTATTTTCAGCACCGATTCCATAGAATGCAG-GATGTCTGGTCATTTACAAAGTCTCCTTCCCCTCTGAGTTTCTGGATATCTCTGAGGAATAGTTCCATTAAC-TGAGTCTGAGTGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054641 131 -   4237731 CATAATGACCAAATAGTATTTTCAGCACCAATTTCATAGAATGCAG-GATGTCTGGTCGTTTACAAAGTCTCCTTCCCCTCTGAGtttctggatatctctgaggaatagttccattaac-tgagtctgagtga
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      324113 131 -   1175262 CATAATGACCAAATAGTATTTTCAGCACCAATTCCATAGAATACAG-GATGTCTGGTCGTTTACAAAGTCTCCTTCCCCTCTGAGTTTCTGGATATCTCTGAGGAATAGTTCCATTAAC-TGAGTCTGAGTGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669864 131 - 204313951 TATAATGACCAAATAGTATTTTGAGTGCCAATTCCATAAAATACAG-GAAGTGTGATTGTTTACCAGGTCTCCTTCCCTGCTAAATTTCTGGGTCTCTCTGAGGAATAGTTCCATTAAC-TGAGTCTGAGTGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55713837 131 -  71252344 TGTAATGACCAAATAGTATTTTGAGTGCTGATTCCATAAAATACAG-GAAGTCTGATTGTTTACCAAGTCTCCTTCCCTGCTGAATTTCTGGGTCTCTCTGAGGAATAGTTCCATTAAC-TGAGTCTGAGTGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       16755 130 -   3089952 TGTAATGACCAAATAGTGTTTTGAGTGCCGATT-CATAAAATACAG-GAAGTATGATTGTTTACCAAGTCTCCTTCCCTGCTGAATTCCTGGGTCTCTCTGAGGAAAAGTTCCATTAAC-TGAATCTGAGTGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13214747 131 -  42888418 TATAATGACCAAATAGTATTTTGAGTGCCAATTCGATAAAATACAG-GAAGCCTGATTGTATACCAGGTCTCCTTCCCTGCTGAATTCCTGGGTCTCTCTGAGGAATAGTTCCATTAAC-TGAGTCTGAGAGA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3078305 130 +   4132165 TTTAAAGCCCAAATAGTCTCTTAAACTCCCACTCCA-GGAATATAG-GAAACCTGGTCATTTGTCATGTCTTCTTCCCAACTGAATTTCTGGGTCT-TGACAGAAATAATGCAATTAACATAAGTCTGAATGG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14922855 131 +  74389097 CATAATGGCCAGATAGTATTTTGAGCTTCCATTCCAGGAAATACAA-AAAGTCTGGCCTTTTACCAAGTGTTCTTCCTCATTGAGTTTCTGGATCTCTCTGAGGAATGGTTCCACTAAC-TCATTCTGAGGGG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2639459 128 +   3667625 -ATAATGGCCAAATAGTAT-TTGAGCTTCCATTCCATGGAACGAAG-GATATACATTT-TTTAATAAGTCTTTTTGCCCACTGAGTTTCTGGATCTCTTTGAGGAATGATTCTATTAAA-TCAGTCTTAGTGA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60549784 623 + 108143057 I
e proCoq1.NW_012155062v1     3590001 314 +  11683526 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=2119922.000000
s hg38.chr5_KI270796v1_alt     97942 163 +    172708 TTACTTGTAATTTTTAAAAGCTTCCTAGC-TCAGGCCACTG-CCT-TCTGGAGCACAGCAGCCTACCTCTTCCAGGCTGCTAGTCTTCATCCAATAACTTTTCAGTCTCTAAGTAGAATTTA---------GGtagtatttccaaattcctgaca--tcat-aatcttcaggattctg
s panTro5.chr5             125202032 163 + 181907262 TTACTTGTAATTTTTAAAAGCTTCCTAGC-TCAAGCCACTG-CCT-TCTGGAGCACAGCAGCCTACCTCTTCCAGGCTGCTAGTCTTCATCCATTAACTTTTCACTCTCTAAGTAGAATTTA---------GGtagtatttccaaattcctgaca--tcat-aatcttcaggattctg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126538851 163 + 183735486 TTACTTGTAATTTTTAAAAGCTTCCTAGC-TCAAGCCACTG-CCT-TCTGGAGCACAGCAGCCTACCTCTTCCAGGCTGCTAGTCTTCATCCATTAACTTTTCACTCTCTAAGTAGAATTTA---------GGtagtatttccaaattcctgaca--tcat-aatcttcaggattctg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1730390 163 +   8933513 TTACTTGTAATTTTTAAAAGCTTCCTAGC-TCAGGCCACTG-CCT-TCTGGAGCACAGCAGCCTACCTCTTCCAGGCTGCTAGTCTTCATCCAATAACTTTTCACTCTCTAAGTAGAATTTA---------GGtagtatttccaaattcctgaca--tcat-aatcttcaggattctg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139861110 163 + 163208435 TTACTTGTAATTTTTAAAAGCTTCCTAGC-TCAGGCCACTG-CCT-TCTGGAGCATAGCAGCCTACCTCTTCCAGGCTGCTAGTCTTCATCCAACAACTTTTCACTCTCTACGTAGAATTTA---------GGtagtatttccaaattcctgaca--tcat-aattttcaggattctg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122850029 161 + 180051392 TTACTTGTAATGTCTAAAAGCTTCCTAGT-TCAGGCCACTG-CCT-TCTGGAGCACAGCAGCCTACGTCTTCCAGGCTGCTAGTCTTCGTCCAACAACTTTTCA--CTCTAAGTAGAATTTA---------GGtagtatttccaaattcctgata--tcat-aatcttcaggattctg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273643 161 + 181584905 TTACTTGTAATGTCTAAAAGCTTCCTAGT-TCAGGCCACTG-CCT-TCTGGAGCACAGCAGCCTACCTCTTCCAGGCTGCTAGTCTTCGTCCAACAACTTTTCA--CTCTAAGTAGAATTTA---------GGtagtatttccaaattcctgata--tcat-aatcttcaggattctg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16272016 161 +  18395747 ttacttgtaatgtctaaaagcttcctagt-tcaggccactg-cct-tctggagcacagcagcctacctcttccaGGCTGCTAGTCTTCGTCCAACAACTTTTCA--CTCTAAGTAGAATTTA---------GGtagtatttccaaattcctgata--tcat-aatcttcaggattctg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5284949 161 +  26952557 ttacttgtaatgtctaaaagcttcctagt-tcaggccactg-cct-tctggagcacagcagcctacctcttccaGGCTGCTAGTCTTCATCCAACAACTTTTCA--CTCTAAGTAGAATTTA---------GGtagtatttccaaattcctgata--tcat-aatctttgggattctg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28385871 161 +  82825804 TTACTTGTAATGTCTAAAAGCATCCTAGT-TCAGGCCACTG-CCT-TCTGGAGCACAGCAGCCTACCTCTTCCAGGCTGCTAGTCTTCATCCAACAACTTTTCA--CTCTAAGTAGAATTTA---------GGtagtatttccaaattcctgata--tcat-aatcttcaggattctg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054772 161 -   4237731 ttacttgtaatgtctaaaagcttcctagt-tcaggccactg-cct-tctggagcacagcagcctacctcttccaGGCTGCTAGACTTCGTCCAACAACTTTTCA--CTCTAAGTAGAATTTA---------GGtagtatttccaaattcctgata--tcat-aatctttgggattctg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      324244 162 -   1175262 TTACTTGTAATGTCTAAAAACTTCCTAGT-TCAGGCCACTG-CCT-TGTGGAGCACAGCAGCCTACCTCTTCCAGGCTGCTAGTCTTGATCCAACAACTTTTCA--CTCTAAGTAGAATTTA---------GGtagtatttccaaattcctgata--tcataaatcttcaggattctg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123669995 163 - 204313951 TTACTAATAATTTTTAAAAGCTTCCTAGC-TCTGGTCACTG-CCT-TCTGAAGCGCAGCAGCCTCCTTCTTCCAGGTTGCTAGACTTCATCCAACAACTTTTCACTCTCTAAGTAGAATTTA---------GGCaatatttccaaattcctgaca--tcat-aatctttaggattctg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55713968 163 -  71252344 TTACTAGGAATTTTTAACAGCTTCCTAGC-TCTGGTCACTG-CCT-TCTGAAGCACAGCAGCCTACTTCTTCCAGGCTGCTAGACTTCATCCAAGAACTTTTCACTCTCTAAGTAGAATTTA---------GGtaatatttccaaattcctgata--tcat-aatctttaggattctg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       16885 163 -   3089952 TTACTAGTAATTTTTAAAAGCTTCCTAGC-TCTGGTCACTG-CCT-TCTGAAGCACAGTAGCCTCCTTCTTCCAGGCTGCTAGACTTCATCCAACAACTTTTCACTCTCTAAGTAGAATTTA---------GGtaatatttccaaattcctgaca--tcgt-aatttttaggattctg
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13214878 163 -  42888418 TTACTAGTAATTTTTAAAAGCTTCCTAGC-TCTGGTTACTG-CCT-TCTAAAGCACAGCAGCCTACTTCTTCCAGGCTGCTAGACTTCATCCAACAACTTTTCACTTTCTAAGTAGAATTTA---------GGtaatatttccaaattcctgaca--tcat-aatctttaggattctg
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3590315 158 +  11683526 TTACTTGTAATTTTTAAAAGCTTCCTCGC-TCAGGCCACTG-CCC-TTCAGAGCACAACAG-------CTTCCAGGCTGCTGTTCATTATCCAATAACTCTTCACTCTCAAAATAGAATTCA---------GGtagtatgtccaaattcctgacaagtagt-aatcttcaggattctg
i proCoq1.NW_012155062v1   I 314 I 147
s otoGar3.GL873679           3078435 165 +   4132165 CTACTTATAATTTTTAAAAGGTTCCTAGC-TTAGTCTACTGCCCC-TTCAGAGCACAACAGTCCAGCTCTTTCAGGCTGTTGTTTG-TATCCAATAGCTCTTCACTCTCAAAATAGAACTCA---------GGtagtatttccaaattcctaacagataat-aaccttcaggttcacg
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14922986 176 +  74389097 TCACTAGTCATTTTTAAAAGCTTCCTAGCTTTATGCCACTG-TCTCTCTGGAATATAATATGCCAATAACTCCATGCTTCTCATCTTCATACAATAGCTCATCACCTTCATTATAGAATGTATTTCCAAATAGCagtatttccaaattcctgacagagacc-aatattcaagattctg
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2639587 159 +   3667625 TCACTTGTCATGTCTAAAAGCTTCCTAGC-TT------CAG-GCC-ACTGGAGTACAACATACCAACACTTATAGGCTGCTAGTCTTCACCGAATAGCTCTTCACCCCTCAAATAGAACTCA---------GGTCATCtttccaagttcctggcagataat-aatctctgggatttgt
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60549784 623 + 108143057 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=1588242.000000
s hg38.chr5_KI270796v1_alt     98105 150 +    172708 gaactagaaatagaaattcctggaaattctaagacagccctgaaataata-tg-ttttttt-CCATTTTTCATAATAC-TTTTCCTGTGTTCATGAGTGGTAACGATA-----------AACTATGAACCATTTTTAT-ATAAAAATTTAAGAGGTTTTATGTAAA
s panTro5.chr5             125202195 149 + 181907262 gaactagaaatagaaattcctagaaattctaagacagccctgaaataata-tg-ttttttt-CCATTTTTCATAATAC-TTTTCCTGTGTTCATGAGTGGTAATGATA-----------AACTATGAACCATTTTTAT-ATAAAAATTTAAGAGGTTTTATGTAA-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126539014 149 + 183735486 gaactagaaatagaaattcctagaaattctaagacagccctgaaataata-tg-ttttttt-CCATTTTTCATAATAC-TTTTCCTGTGTTCATGAGTGGTAATGATA-----------AACTATGAACCATTTTTAT-ATAAAAATTTAAGAGGTTTTATGTAA-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1730553 151 +   8933513 gaactagaaatagaaattcctggaaattctaagacagccctgaaataataTTT-TTTTTTT-CCATTTGTCATAATAC-TTTTCCTGTGTCCATGAGTGGTAATGATA-----------AACTATGAACCATTTTTAT-ATAAAAATTTAAGAGGTTTTATGTAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139861273 150 + 163208435 gaactagaaatagaaatttctggaaattctcagacagtcctgaaataata-tg-ttttttt-CCATTTTTCATAATAC-TTTTCCTGTGTTCATGAGTGGTAACAATA-----------AACTATGAACCATTTTTAT-ATAAAAATTTAAGAGTTTTTATGTAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122850190 151 + 180051392 caactagaaatagaaattcctggaaattctcagatagtcctgaaataata-CT-TTTTTTTTCCATTTTTCATAATAC-TTTTCCTGTGTTCATGAGTGGTAACAATA-----------AACTATGAACAATTTTTAT-ATAAAAATGTAATAGCTTTTATGTAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273804 151 + 181584905 gaactagaaatagaaattcctggaaattctcagatagtcctgaaataata-CT-TTTTTTTTCCATTTTTCATAATAC-TTTTCCTGTGTTCATGAGTGGTAACAATA-----------AACTATGAACAATTTTTAT-ATAAAAATTTAATAGCTTTTATGTAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16272177 151 +  18395747 gaactagaaatagaaattcctggaaattctcagatagtcctgaaataata-CT-TTTTTTTTCCATTTTTCATAATAC-TTTTCCTGTGTTCATGAGTGGTAACAATA-----------AACTATGAACAATTTTTAT-ATAAAAATTTAATAGCTTTTATGTAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5285110 151 +  26952557 gaactagaaatagaaattcctggaaattctcagatagtcctgaagtaata-CC-TTTTTTTCCCATTTTTCATGATAC-TTTTCCTGTGTTCATGAGTGGTAACAATA-----------AACTATGAACAATTTTTAT-ATAAAAATTTAATAGCTTTTATGTAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28386032 150 +  82825804 gaactagaaatagaaattcctggaaattctcagatagtcctgaagtaata-cg-ttttttt-CCATTTTTCATAATAC-TTTTCCTGTGTTCATGAGTGATAACAATA-----------AACTATGAACAACTTTTAT-ATAAAAATTTAATAGCTTTTATGTAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4054933 151 -   4237731 gaactagaaatagaaattcctggaaattctcagatagtcctgaagtaata-cg-tttttttCCCATTTTTCATGATAC-TTTTCCTGTGTTCATGAGTGGTAACAATA-----------AACTATGAACAATATTTAT-ATAAAAATTTAATAGCTTTTATGTAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      324406 150 -   1175262 gaactagaaatagaaattcctggaaattctcagatagtcctgaaataata-cg-ttttttt-CCATTTTTCATAATAC-TTTTCCTGTATTCATGAGTGGtaacaatt-----------aactatgaacaatttttat-ataaacatttaaTAGCTTTTATGTAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123670158 148 - 204313951 gaactagaaataaaaattcctggaaattctcagacagtcctaaaataata-ag-ttttttt-CCATTTTTCATAATACTTTTTCCTGTGCTCATGAATGGTAACAATA-----------AACTATAAACCATTTTCAT-ATAAAATTT---GAGtttttatataaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55714131 150 -  71252344 gaactagaaataaaaattcctgaaaattctcagacagtcctaaaataata-ag--ttTTTT-CCATTTTTCATAATACTTTTTCCTGTGCTAATGAGTGGTAACAATA-----------AACTATGAACCATTTTCAT-ATAAAAATGTAAGAGtttttatataaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       17048 150 -   3089952 gaactagaaataaaaattcctggaaattctcagacagtcttaaaataata-ag--ttTTTT-CCATTTTTCATAATATTTTTTCCTGTGCTTATGAGTGGTAACAATA-----------AATTATGAACCATTTTCAT-ATAAAAATTTAAGAGTTTTTATATAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13215041 152 -  42888418 gaactagaaataaaaattcctggaaattctcaggcagtcctaaaataata-attttttttt-CCATTTTTCATAATACTTTTTCCTGTGCTCATGAGTGGTAACAATA-----------AACTATGAACCATTTTCAT-ATAAAAATTTAAGAGTTTTTATATAAA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3078600 140 +   4132165 aaatgagaaatcagaatccttg----ttc------agttctgaaatcata-ag--ttTGTC-CCATTGCTCATAATATTTTTTCCTGTGGTAATGA--GATAATGATAATCATTACTCTAATAATAACCCATTTTTAT-ACTCAAA---------GTTCATGTAAA
i otoGar3.GL873679         C 0 I 4
s canFam3.chr11             14923162 145 +  74389097 gaatgagaagccaaaattcctggaaattctcaggtagtccagaaatcata-aa-ttctcct-tTATTTTTC-TAATT--TTTTTCTGTGGTAATGAGTG---AAAATA-----------AACTGTAAGCCATTTTTAT-ACTACAGTTTCAGAGACTTTATGTAAA
i canFam3.chr11            C 0 I 4
s dasNov3.JH567306           2639746 136 +   3667625 gaatgagaaactggaattcctgggagttatcaggcagttctgaaatcatg----ttatttt-atatttttcataacat-tttt-------------ATGATAGCGCTA-----------AATGTGAATCAATTTTTGTAACCAAAGAGTCAGAGAACTCCTGTAAA
i dasNov3.JH567306         C 0 I 4
e micMur3.chr12             60549784 623 + 108143057 I
e proCoq1.NW_012155062v1     3590473 147 +  11683526 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=1123905.000000
s hg38.chr5_KI270796v1_alt     98255  81 +    172708 ATATAATAATAAAAGCATGATTTTC--------------------ACAGCATTGTATCTTTCAGTAACATATAAAAATGATCTCCACCTGGTATGGAAATT
s panTro5.chr5             125202344  77 + 181907262 ----AATAATAAAAGCATGATTTTC--------------------ACAGCATTGTATCTTTCAGTAACATATAAAAATGATCTCCACCTGGTATGGAAATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126539163  77 + 183735486 ----AATAATAAAAGCATGATTTTC--------------------ACAGCATTGTATCTTTCAGTAACATATAAAAATGATCTCCACCTGGTATGGAAATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1730704  81 +   8933513 ATACAATAATAAAAGCATGATTTTC--------------------ACAGCATTGTATCTTTCAGTAACATATAAAAATGATCTCCACCTGGTATGGAAATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139861423  80 + 163208435 ATATAATAATAAAAGCATGATTTTC--------------------ACAGCACTGTATCTTTCAGTAACATATAAAAATGATCTCCACCTGGTATGG-AATT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122850341  81 + 180051392 ATATCATAATAAAAGCATGGTTTTC--------------------ACAGCACTGTATCTTTCAGTAATATATAAAAATGATCTCCACCTGGCATGGAAATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124273955  81 + 181584905 ATATCATAATAAAAGCATGGTTTTC--------------------ACAGCATTGTATCTTTCAGTAATATATAAAAATGATCTCCACCTGGCATGGAAATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16272328  81 +  18395747 ATATCATAATAAAAGCATGGTTTTC--------------------ACAGCATTGTATCTTTCGGTAATATATAAAAATGATCTCCACCTGGCATGGAAATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5285261  81 +  26952557 ATATCATAATAAAAGCATGGTTTTC--------------------ACAGCATTGTATCTTTCAGTAATATATAAAAATGATCCCCACCTGGCATGCAAATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28386182  81 +  82825804 ATATCATAATAAAAGCATGGTTTTC--------------------ACAGCATTGTATCTTTCAGTAATGTATAAAAATGATCTCCACCTGGCATAGAAATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4055084  81 -   4237731 ATATCATAATAAAAGCATGGTTTTC--------------------ACAGCATTGTATCTTTCAGTAATATATAAAAATGATCCCCACCTGGCATGGAAATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      324556  81 -   1175262 ATATCATAGTAAAAGCATGGTTTAC--------------------ACAGCATTGTATCTTTCAGTAATATATAAAAATGTTCTCCACCTGGCATGGAAATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123670306  80 - 204313951 atataataataaaaGCATGGATTTC--------------------ACAGCATTGTATCTTTCAGTAACACATAAAAATGAACTCCACAT-GGATGGAAATT
i calJac3.chr2             C 0 I 2
s saiBol1.JH378106          55714281  81 -  71252344 atataataataaaaGCATTGATTTC--------------------ACAACATTGTCTCTTTCAGTAACACATAAAAATGATCTCTATGTGGGATGGAAATT
i saiBol1.JH378106         C 0 I 2
s cebCap1.NW_016107590v1       17198  79 -   3089952 ATATAATAATAAAAGCATGGATTTC--------------------ACAGCATTGTATCTTTCAGTA--ACATAAAAATGATCTCCACGTGGGATGGAAATT
i cebCap1.NW_016107590v1   C 0 I 11
s aotNan1.NW_018505940v1    13215193  81 -  42888418 GTATAATAATAAAAGCATGGATTTC--------------------ACAGCATTGTATCTTTTAGTAACACATAAAAATGATCTCCACGTGGGGTGGAAATT
i aotNan1.NW_018505940v1   C 0 I 11
s micMur3.chr12             60550407  81 + 108143057 atataataataaAAGCATGGCTTTC--------------------ACAGGATTATATATTTGAATATCATATAAAAATGCTCTCTATCTGGTATAGAAATT
i micMur3.chr12            I 623 C 0
s proCoq1.NW_012155062v1     3590620  77 +  11683526 ATATAATAATAAAAGCATGGCTTTC--------------------ACAGGATTATATATTTGAATATCATATAAAAATGCTC----TCTGATATAGAAATT
i proCoq1.NW_012155062v1   I 147 C 0
s otoGar3.GL873679           3078744  79 +   4132165 ATATAGTAATAAAAGCATGGCTTTC--------------------ACAGGGT--TATGTTTCAGTAACGTATAAAAATGATCTCTAACTGATATAGAAATT
i otoGar3.GL873679         I 4 C 0
s canFam3.chr11             14923311  79 +  74389097 ATATAATAATAAAAACATGGCTTT---------------------ACACGATTGTATCTTTTAATAACGTA-AAAAAAACTCTCCTTCTGATATGAACATT
i canFam3.chr11            I 4 C 0
s dasNov3.JH567306           2639886 101 +   3667625 ATATAATAATAATAACATAGTATTATAATGAAGCAATTTATTGTGACAAGATTATATATTTCAATAACATGTAAAAATGATCTCTACCTGATGTAGACATT
i dasNov3.JH567306         I 4 C 0
e mm10.chr18                55523969 1587 +  90702639 I

a score=89353.000000
s hg38.chr5_KI270796v1_alt     98336 8 +    172708 GGATAATA
s panTro5.chr5             125202421 8 + 181907262 GGATAATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126539240 8 + 183735486 GGATAATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1730785 8 +   8933513 GGATAATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139861503 8 + 163208435 GGATAATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122850422 8 + 180051392 GGATAATA
i rheMac8.chr6             C 0 I 1
s macFas5.chr6             124274036 8 + 181584905 GGATAATA
i macFas5.chr6             C 0 I 1
s macNem1.NW_012012355v1    16272409 8 +  18395747 GGATAATA
i macNem1.NW_012012355v1   C 0 I 1
s cerAty1.NW_012002512v1     5285342 8 +  26952557 GGATAATA
i cerAty1.NW_012002512v1   C 0 I 1
s chlSab2.chr23             28386263 8 +  82825804 GGATAATA
i chlSab2.chr23            C 0 I 1
s manLeu1.NW_012103321v1     4055165 8 -   4237731 GGATAATA
i manLeu1.NW_012103321v1   C 0 I 1
s colAng1.NW_012119644v1      324637 8 -   1175262 GGATAGTA
i colAng1.NW_012119644v1   C 0 I 1
s calJac3.chr2             123670388 8 - 204313951 AAATGATA
i calJac3.chr2             I 2 I 1
s saiBol1.JH378106          55714364 8 -  71252344 AAATGATA
i saiBol1.JH378106         I 2 I 1
s micMur3.chr12             60550488 8 + 108143057 GAATGATA
i micMur3.chr12            C 0 I 1
s proCoq1.NW_012155062v1     3590697 8 +  11683526 GAATGATA
i proCoq1.NW_012155062v1   C 0 I 1
s otoGar3.GL873679           3078823 8 +   4132165 GAATGACA
i otoGar3.GL873679         C 0 I 1
s canFam3.chr11             14923390 8 +  74389097 TTATGATA
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2639987 8 +   3667625 TGATGATA
i dasNov3.JH567306         C 0 I 2
e aotNan1.NW_018505940v1    13215274 11 -  42888418 I
e cebCap1.NW_016107590v1       17277 11 -   3089952 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=1344318.000000
s hg38.chr5_KI270796v1_alt     98344  96 +    172708 AAACATTAAAGAAAATGACATTTATATGAAATAAGTG---ACAA--AAGCCAGTTAAATAATTGA-----AATGCCACAT--------ATATTTAATAATTAGAAGTTATAT---TT--
s panTro5.chr5             125202429  96 + 181907262 AAACATTAAAGAAAATGACATTTATATGAAATAAGTG---ACAA--AAGCCAATTAAATAATTGA-----AATGCCACAT--------ATATTTAATAATTAGAAGTTATAT---TT--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126539248  96 + 183735486 AAACATTAAAGAAAATGACATTTATATGAAATAAGTG---ACAA--AAGCCAATTAAATAATTGA-----AATGCCACAT--------ATATTTAATAATTAGAAGTTATAT---TT--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1730793  99 +   8933513 AAACATTAAAGAAAATGACATTTATATGAAATAAGTG---ACAA--AAGCCAGTTAAATAATTGA-----AATGCCACAT--------ATATTTAATAGTTAGAAGTTATATTTCTT--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139861511  96 + 163208435 AAACATTAAAGAAAATAACATTTATATGAAATAAGTG---ACAA--AAGCCAGTTAAATAATTGA-----AATGCCACAT--------ATGTTTAATAATTAGAAGTTATAt---tt--
i nomLeu3.chr2             C 0 I 313
s rheMac8.chr6             122850431  93 + 180051392 AAACATTAAAGAAA---ACGTTTATATGAAATAAGTG---ATAA--AAGCCAGTTAAATAATTGA-----AATGCCACAT--------ATATTTAATAATTAGAAGTTATCT---TT--
i rheMac8.chr6             I 1 I 3
s macFas5.chr6             124274045  93 + 181584905 AAACATTAAAGAAA---ACGTTTAGATGAAATAAGTG---ATAA--AAGCCAGTTAAATAATTGA-----AATGCCACAT--------ATATTTAATAATTAGAAGTTATCT---TT--
i macFas5.chr6             I 1 I 3
s macNem1.NW_012012355v1    16272418  93 +  18395747 AAACATTAAAGAAA---ACGTTTATATGAAATAAGTG---ATGA--AAGCCAGTTAAATAATTGA-----AATGCCACAT--------ATATTTAATAATTAGAAGTTATCT---TT--
i macNem1.NW_012012355v1   I 1 I 3
s cerAty1.NW_012002512v1     5285351  93 +  26952557 AAACATTAAAGAAA---ACATTTATATGAAATAAGTG---ATAA--AAGCCAGTTAAATAATTGA-----AATGCCACAT--------ATACTTAATAATTAGAAGTTATCT---TT--
i cerAty1.NW_012002512v1   I 1 I 3
s chlSab2.chr23             28386272  93 +  82825804 AAACATTAAAGAAA---ACGTTTATATGAAATAAGTG---ATAA--AAGCCAGTTAAATAATTGA-----AATGCCACAT--------ATATTTAATAATTAGAAGTTATCT---TT--
i chlSab2.chr23            I 1 I 3
s manLeu1.NW_012103321v1     4055174  93 -   4237731 AAACATTAAAGAAA---ACATTTATATGAAATAAGTG---ATAA--AAGCCAGTTAAATAATTGA-----AATGCCACAT--------ATACTTAATAATTAGAAGTTATCT---TT--
i manLeu1.NW_012103321v1   I 1 I 3
s colAng1.NW_012119644v1      324646  93 -   1175262 AAACATTAAAGAAA---ACATTTATATGAAATAAGTG---ATAA--AAGCTAGTTAAATAATTGA-----AATGCCACAT--------ATATTTAATAATTAGAAGTTATGT---TT--
i colAng1.NW_012119644v1   I 1 I 3
s calJac3.chr2             123670397  95 - 204313951 AAACATTAAATAAAGTAACATTTATATGAAGTAAGTG----CAA--AAGCCAGTTAAATAATTGA-----AATGCCACAT--------GTATTTAATAATTAGAAGTTATCT---TT--
i calJac3.chr2             I 1 I 3
s saiBol1.JH378106          55714373  95 -  71252344 AAACATTAAAGAAAATAAAACTTATATGAAATAAGTG----CAA--AAGCCAGTTAAATAATTGA-----AATGCCACAT--------GTATTTAATAATTAGAAGTTGTCT---TT--
i saiBol1.JH378106         I 1 I 3
s cebCap1.NW_016107590v1       17288  95 -   3089952 AAACATTAAAGAAAATAACACTTATATGAAATAAGTG----CAA--AAGCCAGTTAAATAATTGA-----AATGCCACAT--------GTATTTAATAATTAGAAGTTATCT---TT--
i cebCap1.NW_016107590v1   I 11 I 3
s aotNan1.NW_018505940v1    13215285  95 -  42888418 AAACATTAAAGAAAATAACATTTATATGAAATAAGTG----CAA--AAGCCAGTTAAATAATTGA-----AATGCCACAT--------GTATTTAATAATTAGAAGTTATCT---TT--
i aotNan1.NW_018505940v1   I 11 I 3
s micMur3.chr12             60550497  96 + 108143057 AAACATTAAAGAAAATAACATTGACATAAAATGAATG---ACAA--AAGTCAATTAAATAATTGA-----AATGCCACAC--------ACATTTAATAATTAGAAATTATCT---TT--
i micMur3.chr12            I 1 I 3
s proCoq1.NW_012155062v1     3590706  96 +  11683526 AAACATTAAAGAAAATAACATGCACATAAAATAAATG---ATAA--AAGTCATTTAAATAATTGA-----AATGTCACAC--------ATATTTAATAATTAGAAATAATCT---TT--
i proCoq1.NW_012155062v1   I 1 I 3
s otoGar3.GL873679           3078832 101 +   4132165 aaatattaaagaaaataacattcaaataaaataaat------aa--aagtcatttaaataattta-----aatgacaaacataatttgatatttaatgattaaaaattatCT---GC--
i otoGar3.GL873679         I 1 I 3
s canFam3.chr11             14923400  99 +  74389097 AAACATTAAAGAAAATAACATCCATATAAAATTAATG---ATAAATAATTTAGTTCACTGAAAGA----TAATGCCACAC--------ATATTTAATAATTAGAAATGATCT---TC--
i canFam3.chr11            I 2 I 27
s dasNov3.JH567306           2639997 105 +   3667625 AGATATTAAAGAAGAA-ACATTCACGTAGAATAATGGCAAATAA--AAGTAATATAAACAATTGAAAGATAATGCCATCA--------GTATTTAATGATTAAAATTTATCT---TTTT
i dasNov3.JH567306         I 2 C 0
e mm10.chr18                55523969 1587 +  90702639 I

a score=810628.000000
s hg38.chr5_KI270796v1_alt     98440 59 +    172708 AAGATGAAATTTTAAAACTCACAAAGCATTAATTG-CCTACT-T-ATAGTCTTGGTC-TTTTT
s panTro5.chr5             125202525 59 + 181907262 AAGATGAAATTTTAAAACTCACAAAGCATTAATTG-CCTATT-T-ATAGTCTTGGTC-TTTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126539344 60 + 183735486 AAGATGAAATTTTAAAACTCACAAAGCATTAATTG-CCTATT-T-ATAGTCTTGGTCTTTTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1730892 59 +   8933513 AAGATGAAATTTTAAAACTCACAAAGCATTAATTG-CCTATT-T-ATAGTCTTGGTC-TTTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139861920 59 + 163208435 AAGATGAAATTTTAAAACTCACAAAGCATTAATTG-CCTATT-T-ATAGTCTTGGTC-TTTTT
i nomLeu3.chr2             I 313 C 0
s rheMac8.chr6             122850527 59 + 180051392 AAGATGAAGTTTTAAAACTTACAAAGCATTAATTG-CCTATT-T-AGAGTCTTGGTC-TTTTT
i rheMac8.chr6             I 3 C 0
s macFas5.chr6             124274141 59 + 181584905 AAGATGAAGTTTTAAAACTTACAAAGCATTAATTG-CATATT-T-AGAGTCTTGGTC-TTTTT
i macFas5.chr6             I 3 C 0
s macNem1.NW_012012355v1    16272514 59 +  18395747 AAGATGAAGTTTTAAAACTTACAAAGCATTAATTG-CCTATT-T-AGAGTCTTGGTC-TTTTT
i macNem1.NW_012012355v1   I 3 C 0
s cerAty1.NW_012002512v1     5285447 59 +  26952557 AAGATGAAGTTTTAAAACTTACAAAGCATTAATTG-CCTATT-T-AGAGTCTTGGTC-TTTTT
i cerAty1.NW_012002512v1   I 3 C 0
s chlSab2.chr23             28386368 59 +  82825804 AAGATGAAGTTTTAAAACTTACAAAGCATTAATTG-CCTATT-T-AGAGTCTTGGTT-TTATT
i chlSab2.chr23            I 3 C 0
s manLeu1.NW_012103321v1     4055270 59 -   4237731 AAGATGAAGTTTTAAAACTTACAAAGCATTAATTG-CCTATT-T-AGAGTCTTGGTC-TTTTT
i manLeu1.NW_012103321v1   I 3 C 0
s colAng1.NW_012119644v1      324742 59 -   1175262 AAGATGAAGTTTTAAAACTTACAAAGCATTAATTG-CCTATT-T-AGAGTCTTGGTC-TTTTT
i colAng1.NW_012119644v1   I 3 C 0
s calJac3.chr2             123670495 59 - 204313951 AAGATGAAAATTTAGAACTCACAAAACATTAATTG-CCTATT-T-ATAGTCATGGTC-ATTTT
i calJac3.chr2             I 3 C 0
s saiBol1.JH378106          55714471 58 -  71252344 AAGGTGAAATTTTAAAACCCACAAAGCATTAATTG-CCTATT-T-ATAGTCTTGGTC--TTTT
i saiBol1.JH378106         I 3 C 0
s cebCap1.NW_016107590v1       17386 58 -   3089952 AAGGTAAAATTTTAAAACTCACAAAGCATTAATTG-CCTATT-T-ACAGTCTTGGTC--TTTT
i cebCap1.NW_016107590v1   I 3 C 0
s aotNan1.NW_018505940v1    13215383 58 -  42888418 AAGGTGAAATTTTAAAACTCACAAAGCATTAATTT-CCTATT-T-ATAGTCTTGGTC--TTTT
i aotNan1.NW_018505940v1   I 3 C 0
s micMur3.chr12             60550596 45 + 108143057 AAAATAAAATTTTGAAACTGACAAGGCAT-----------------TAGTCTTGGTC-TTTTT
i micMur3.chr12            I 3 I 5
s proCoq1.NW_012155062v1     3590805 59 +  11683526 AAAATGAAATTTTAAAACTCACAAAGCATTAATTA-CTCATTAT-ATAGTATTGGTC-TTTT-
i proCoq1.NW_012155062v1   I 3 C 0
s otoGar3.GL873679           3078936 60 +   4132165 AAAATGAAAATTTAAAATTCACAAAGTATTAATTA-CTCATTAG-ATAGTCTTGGTC-TTTTT
i otoGar3.GL873679         I 3 C 0
s canFam3.chr11             14923526 61 +  74389097 AAAATGAAGTTTTAAAACCCACCAAGTGTTAATTGCCCTATTAC-ATGATCTTGCTC-TTTTT
i canFam3.chr11            I 27 C 0
s dasNov3.JH567306           2640102 61 +   3667625 TGAATGAAATTTTAAAATTTACAAGGCACTAATTGCCCTATT-TGATGGTCTTGACC-TTTTT
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55523969 1587 +  90702639 I

a score=212764.000000
s hg38.chr5_KI270796v1_alt     98499 25 +    172708 TTCATTTTTCCATTGTCAGTTTTCA
s panTro5.chr5             125202584 25 + 181907262 TTCATTTTTCCATTGTCAGTTTTCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126539404 25 + 183735486 TTCATTTTTCCATTGTCAGTTTTCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1730951 25 +   8933513 TTCATTTTTCCATTGTCAGTTTTCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139861979 25 + 163208435 TTCATTTTTCCATTGTCAGTTTTCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122850586 25 + 180051392 TTCATTTTTTCATTGTCAATTTTCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124274200 25 + 181584905 TTCATTTTTTCATTGTCAATTTTCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16272573 25 +  18395747 TTCATTTTTTCATTGTCAATTTTCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5285506 25 +  26952557 TTCATTTTTCCATTGTCAATTTTCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28386427 25 +  82825804 TTCATTCTTCCATTGTCAATTTTCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4055329 25 -   4237731 TTCATTTTTCCATTGTCAATTTTCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      324801 25 -   1175262 TTCATTTTTCCATTATCAATTTTCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123670554 25 - 204313951 TTCATCTTTCCATTGTCAATTTTCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55714529 25 -  71252344 TTCATCTGTCCATTGCCAATTTTCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       17444 25 -   3089952 TTCATCTTTCCATTGTCAATTTTCA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13215441 25 -  42888418 TTCATCTTTCCATTGTCAATTGTCA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3590864  7 +  11683526 --------TTCATGA----------
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3078996 13 +   4132165 ---------TCATGAT---TTTTCA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14923587  2 +  74389097 -----CT------------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2640163 11 +   3667625 ----TTTTTTCATGA----------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60550641  5 + 108143057 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=1848007.000000
s hg38.chr5_KI270796v1_alt     98524 144 +    172708 CAAATATTCCAGTCCAG-AAAAGTTTCATGTATTTTTCAAAGACGCTGATCAAATTTGTTAAGAATATGTCCACAAGCTTCTTAACATTATGCATTAGGATATATGTTGCTTCATGAATCTCATT----TTTTTAATAATGCAAACATT
s panTro5.chr5             125202609 133 + 181907262 CAAATATTCCAGTCCAG-AAAAG-----------TTTCAAAGACGCTGATCAAATTTGTTAAGAATATGTCCACAAGCTTCTTAACATTATGCATTAGGATATATGTTGCTTCATGAATCTCATT----TTTTTAATAATGCAAACATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126539429 133 + 183735486 CAAATATTCCAGTCCAG-AAAAG-----------TTTCAAAGACGCTGATCAAATTTGTTAAGAATATGTCCACAAGCTTCTTAACATTATGCATTAGGATATATGTTGCTTCATGAATCTCATT----TTTTTAATAATGCAAACATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1730976 144 +   8933513 CAAATATTCCAGTCCAG-AAAAGTTTCATGTATTTTTCAAAGATGCTGATCAAATTTGTTAAGAATATGTCCACAAGCTTCTTAACATTATGCATTAGGATATATGTTGCTTCATGAATCTCATT----TTTTTAATAATGCAAACATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139862004 144 + 163208435 CAAATATTCTAGTCCAG-AAAAGTTTCATGTATTTTTCAAAGACGCCAGTCAAATTTGTTAAGAATATGTCCACAAGCTTCTTAACATTATGCATTAGGATATATGTTGCTTCATGAATCTCATT----TTTTTAATAATGCAAACATT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122850611 144 + 180051392 CAAATATTCCAGTCCGG-AAAAGTTTCACGTATTTTTCAAAAATGCTGATCAAATTGGTTAAGAATATGTCCACAAGCTTCTTAACATTATGCATTAGGATATATGTTGCTTCATGAATCTCACT----TTTTTAATAATGCAAACATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124274225 144 + 181584905 CAAATATTCCAGTCCGG-AAAAGTTTCACGTATTTTTCAAAAATGCTGATCAAATTGGTTAAGAATATGTCCACAAGCTTCTTAACATTATGCATTAGGATATATGTTGCTTCATGAATCTCACT----TTTTTAATAATGCAAACATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16272598 144 +  18395747 CAAATATTCCAGTCCGG-AAAAGTTTCACGTATTTTTCAAAAATGCTGATCAAATTGGTTAAGAATATGTCCACAAGCTTCTTAACATTATGCATTAGGATATATGTTGCTTCATGAATCTCACT----TTTTTAATAATGCAAACATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5285531 144 +  26952557 CAAATATTTCAGTCCGG-AAAAGTTTCATATGTTTTTCAAAGATGCTGATAAAATTTGTTAAGAATATGTCCACAAGCTTCTTAACATTATGCATTAGGATATATGTTGCTTCATGAATCTCACT----TTTTTAATAATGCAAACATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28386452 144 +  82825804 CAAATATTCCAGTCCGG-AAAAGTTTCATGGGTTTTTCAAAGATGCTGATCAAATTTGTTAAGAATATGTCCACAAGCTTCTTAACATTATGCATTAGGATATATGTTGCTTCATGAATCTCACT----TTTTTAATAATGCAAACATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4055354 144 -   4237731 CAAATATTTCAGTCCGG-AAAAGTTTCATATGTTTTTCAAAGATGCTGATAAAATTTGTTAAGAATATGTCCACAAGCTTCTTAACATTATGCATTAGGATATATGTTGCTTCATGAATCTCACT----TTTTTAATAATGCAAACATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      324826 144 -   1175262 CAAATATTCCAGTCCGG-AAAAGTCTCATGTATTTTTCAAAGATGCTGATCAAATTTGTTAAGAATATGTCCACAAGCTTCTTAACATTATGCATTAGGATATATGTTGCTTCGTGAATTTCATT----TTTTTAATAATGCAAACATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123670579 138 - 204313951 CAAATATTCCAGTCCAG-AAAAGTTTCATGTGTTTCTCAAAGACACTACACAAATTTGTTAAGAATATGTCCACAAACT-----ACATTAGGCATTAGGATATATGTTGCTTCATTAATCTCA-T----TTTTTAATGATGCAAACATC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55714554 138 -  71252344 CAAATATTCCAGTCCAG-AAAAGTTTCATGTATTTTTCAAAGACGCTGGACAAATTTGCTAAGAATATGTCCACAAACT-----ACATTAGGCCTTAGGTTATATGTTGCTTCATTAATCTCA-A----TTTTTAATGATGCAAACATC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       17469 138 -   3089952 CAAATATTCCAGTCCAG-AAAAGTTTCATGTATTTTTCAAAGATGCTGGACAAATTTGTTAAGAATATGTCCACAAACT-----ACATTAAGCATTAGGATATATGTTGCTTCATTAATCTCA-T----TTTTTAATGATGCAAACATC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13215466 138 -  42888418 CAAATATTCCAGTCCAG-AAAAGTTTCATGTATTTTTCAAAGATGCTGGAGAAATTTGTTAAGAATATGTCCACAAACT-----ACATTAGGCATTAGGATATATATTACTTCATTAATCTCA-T----TTTTTAATGATGCAGACATC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60550646 142 + 108143057 CAAGTATTCCAGTCCAG-AAAAATTTTATGTATTTTTCAATAATGTTGATCAAAAT-GTT---AAGATGTCCA-AAGGTTTTTATCACTAAGCATTAGGATACATGTTGCTTCGTAAATCTTATTTCC-TTTTTAACGATGAAAATatt
i micMur3.chr12            I 5 C 0
s proCoq1.NW_012155062v1     3590871 146 +  11683526 CAAATATTCCAGTCCAG-AAAAATTTCATGTATTTTTCAATGATATTGATCAAAAT-GTTAAGAAGATGTCCACAAGCTTTTTATCATTAAGCATTAGAATACATGTTGCTTCATAAATCTTATTTCC-TTTTTAATGATGAAAATATT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3079009 119 +   4132165 TGAATATTCCAGTCTGGAAAAAATTTTAAATATTTTCCAATAATATTGATCGAAAT-GTTAAGAAGATGTCCA-CAAGtttttatta---------------------------taaattttattttc-ttttaaataatGAGAATATT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14923589 127 +  74389097 ---------CAGTCCAG-AAAATTTTCA----TTTTTCAACAACATTGACCAAATT-GTTACAAATTTGTCCACAAGGTTCTTTAAG------ATTACTATACCTGTTCCTTCATAAATCTCATTTCC-TTTTTCATGATAAAAATATT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2640174 146 +   3667625 AAAATACTCCAGGTCAG-AAGAATTTCTTTTATTTTCC-ATGATATTGGTTGAATT-GTTAAGAATATGTCCAAAGTCTTCTTCAAGTTAAGCATTAGGGTACATGTTGCTTCATAAATCTCATTTCCTTTTTAAATGGTGAAGGTATT
i dasNov3.JH567306         C 0 I 5863
e mm10.chr18                55523969 1587 +  90702639 I

a score=3481593.000000
s hg38.chr5_KI270796v1_alt     98668 268 +    172708 TTGTTTGCTTGACATTGATTTGGATATTGTCACTTAAATTAATACTGCTTTTGTTAATAGAGATTTTAGATCAATTTCTGAATTCCTGTTGTAATATTCCACAATAACATCTTTTTCTATTTGCA--TGTTTTTTCTgtttaagtatttacaagaaactctaccatagcacttaccctatttctggggaatgccagagaatat---gattaactagcattcaaataa-------cata--acatttagatcttctagcaaggctaatagcaacacatagaat
s panTro5.chr5             125202742 268 + 181907262 TTGTTTGCTTGACATTGATTTGGATATTGTCACTTAAATTAATACTGCTTTTGTTAATAGAGATTTTAGATCAATTTCTGAATTCCTGTTGTAATATTCCACAATAACATCTTTTTCTATTTGCA--TTTTTTTTCTgtttaagtatttacaagaaactctaccatagcacttaccccatttctggggaatgccagagaatat---gattaactagcattcaaataa-------cata--acatttagatcttctagcaaggctaatagcaacacatagaat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126539562 268 + 183735486 TTGTTTGCTTGACATTGATTTGGATATTGTCACTTAAATTAATACTGCTTTTGTTAATAGAGATTTTAGATCAATTTCTGAATTCCTGTTGTAATATTCCACAATAACATCTTTTTCTATTTGCA--TTTTTTTTCTgtttaagtatttacaagaaactctaccatagcacttaccccatttctggggaatgccagagaatat---gattaactagcattcaaataa-------cata--acatttagatcttctagcaaggctaatagcaacacatagaat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1731120 267 +   8933513 TTGTTTGCTTGACATTGATTTGGATATTGTCACTTAAATTAATACTGCTTTTGTTAATAGAGATTTTAGATCAACTTCTGAATTCCTGTTGTAATATTCCACAATAACATCTTTTTCTATTTGCA--TTTTTTTTCTgtttaagtatttacaagaaactctaccatagcacttacccc-tttctggggaatgccagagaatat---gattaactagtattcaaataa-------cata--acatttagatcttctagcaaggctaatagcaacacatagaat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139862148 265 + 163208435 TTGTTTGCTTGACATTGATTTGGATTTTGTCAT-----TTAATACTACTTTTGTTAGTAGAGATTTTAGATCAATTTCTGAATTTCTGTTGTAATATTCCACAATAACATCTTTTTCTAATTGCATTTTTTTTTTCTgtttaagtatttacaagaaactctaccatagcacttaccccatttctggggaatgtcagagaacac---gattaagtagtgttcaaataa-------cgta--acatttagatcttctagcaaggctaatagcaacacatagaat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122850755 267 + 180051392 TTGTTTGCTTGACATTGATTTGGATGTTGTCACTTAAATTAACACTGCTTTTGTTAATAGAGATTTTAGATCAATTTCTGAATTCCTGTTGTAACATTCCACAATAACATCTTTTTCTATTTGCA---TTTTTttatgtttaagtatttacaagaaactctatcatagcatttaccccatttccggggaaagccagagaatat---gattaagtagtattcaaatag-------cata--acatttaaatattctagcaaggataatagcaacacatagaat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124274369 267 + 181584905 TTGTTTGCTTGACATTGATTTGGATGTTGTCACTTAAATTAACACTGCTTTTGTTAATAGAGATTTTAGATCAATTTCTGAATTCCTGTTGTAACATTCCACAATAACATCTTTTTCTATTTGCA---TTTTTttatgtttaagtatttacaagaaactctatcatagcatttaccccatttccggggaaagccagagaatat---gattaagtagtattcaaatag-------cata--acatttaaatattctagcaaggataatagcaacacatagaat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16272742 267 +  18395747 TTGTTTGCTTGACATTGATTTGGATGTTGTCACTTAAATTAACACTGCTTTTGTTAATAGAGATTTTAGATCAATTTCTGAATTCCTGTTGTAACATTCCACAATAACATCTTTTTCTATTTGCA---TTTTTttatgtttaagtatttacaagaaactctatcatagcatttaccccatttccggggaaagccagagaatat---gattaagtagtattaaaatag-------cata--acatttaaatattctagcaaggataatagcaacacatagaat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5285675 268 +  26952557 TTGTTTGCTTGACATTGATTTGGATGTTGTCACTTAAATTAATACTGCTTTTGTTAGTAGAGATTTTAGATCAGTTTCTGAATTCCTGTTGTAACATTCCACAATAACATCTTTTTCTATTTGCA--TTTTTTttatgtttaagtatttacaagaaattctatcacagcatttaccccatttccggggaaagccagagaacat---gattaagtagtattcaaatag-------cata--acatttaaatattctagcaaggataatagcaacacatagaat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28386596 268 +  82825804 TTGTTTGCTTGACATTGATTTGGATGTTGTCACTTAAATTAATACTGCTTTTGTTAATAGAGATTTTAGATCAATTTCTGAATTCCTGTTGTAACATTCCCCAATAACATCTTTTTCTATTTGCA--TTTTTTttatgtttaagtatttacaagaaactctatcatagcacttaccccatttctggggaatgccagagaacat---gattaagtagtattcaaatag-------cata--acatttaaatattctagcaaggataatagcaacacatagaat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4055498 268 -   4237731 TTGTTTGCTTGACATTGATTTGGATGTTGTCACTTATATTAATACTGCTTTTGTTAATAGAGATTTTAGATCAGTTTCTGAATTCCTGTTGTAACATTCCACAATAACATCTTTTTCTATTTGCA--TTTTTTttatgtttaagtatttacaagaaactctatcacagcatttaccccatttccggggaaagccagagaacat---gattaagtagtattcaaatag-------cata--acatttaaatattctagcaaggataatagcaacacatagaat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      324970 268 -   1175262 TTGTTTGCTTGACATTGATTTGGATTTTGTCACTTAAATTAATACTGCTTTTGTTAATAGAGATTTTAGATCAATCTCTGAATTCCTGTTGTAACATTCCACAATAACATCTTTTTCTATTTGCA--TTTTTTttatgtttaagtatttacaagaaactctatcatagcatttaccccatttccggggaatgccagagaatat---gattaagtagtattcaaatag-------cata--acatttaaatattctagcaaggataatagcaacacatagaat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123670717 267 - 204313951 TTGTTTGCTTGATATTGATTTGGATTTTGTCATTTAAATTAATATTGCTTTTGTCAATAGAGATTTTAGATCAATTTCTGAATTCCTGTTGTAATATTGCACAATAACATCTTTTTCTATGTAAA---TTTTTTTCTgtttaagtatttacaacaaactctaccatagcacatatcccatttctggggaatgacagagaatat---atttaagtagtattcaaataa-------tata--acatttggatcttctagcaaggttaatagcaacacatagaat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55714692 270 -  71252344 TTGTTTGCTTGATGTTGATTTGGATTTTGTAATTTAAATTAATATTGCTTTTGTTAATAGAGATTGTAGATCAATTTCTGAATTCCTGTTGTAATATTGCACAATAACATCTTTTTCTATGTGCATTTTTTTTTTCTgtttaagtatttacaaaaaactctaccatagcacatatctcatttctggggaatgacagagaatat---gtttaagtagtattcaaataa-------taca--acacttagattttctagcaaagctgatagtaacacatagaat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       17607 260 -   3089952 TTGTTTGCTTGATATTGATTTGGATTTTGTCATTTAAATTAATAATGCTTTTGTCAATAGAGATTTTAGATCGATTTCTGAATTCCTGTTGTAATATTGCACAATAACATCTTTTTCTATGTGCA---TTCTTTTCTgtttaagtatttacaaaaaactcgaccatagca-------catttctggggaatgacagagaacat---gtttaagtagtattcaaataa-------taca--acacttagatcttctagcaaggctaatagtaacacatagaat
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13215604 265 -  42888418 TTGTTTGCTTGATATTGATTTGGATTTTGTCATTTAAATTAATATTGCTTTTGTCAATAGAGATTTTAGATCAATTTCTGAATTCCTGTTGTAATATTGCACAATAACATCTTTTTCTACGTGCA---TTTTTTTCTgtttaagcatttgcaa-aaactctacggtagcacatacc-catttctggggaatgacagagaatat---gtttaagtagtattcaaataa-------taca--ccatttagatcttctacgaaggctaatagcaacacatagaat
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60550788 258 + 108143057 ttgtttgc-------tgatttggattttgtcattgaaattaatattgcttttgTTAATATAGATTTGAGATCAATTTCTGAATTCCTGTTGGAATATTCTACAATAAAATCTTA---TATTTGCA----TTTCTTCTCCTCAagtatttccaaagtactgtaccatagcacatatgtaatcactgggaaattccagagaacat---tattcagtggtattcaaatat-------catataacattcagatcttttagcaagattagtaacaatacacaaaat
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3591017 261 +  11683526 TTGTTTGCTTGCA-TTGATTTGAATTTTGTCATTGAAATTAA------ATTTATTAATATAGATTTGAGATAAATTTCTGAACTCCTGTTGGAATATTCTACAATAACATCTTG---TATTTGTA----TTTCTTCTCTTCAagtatttacaaagaactgtaccatagcacatatgtaatcactgggaaattccagagaacatgaatattcaatagcattcaaatat-------catataacattcagatcttctagcgagattaataacaatacacagaat
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3079128 272 +   4132165 TTCTCTGTTTGCATTTGATTTGAATTTTGTCACTGAAATTAATATTACCTTTATTAATATCAATTTGAGATCTATTTCTAAATTCCTGTTGGAATGTTCCACTATGACATCTTG---TATTTATA----TTTCTTCTGTTCAagtatttacaaagaactctaccatagcacatatctaataaatgggaaatcccagaggacat---tatttggtagcattcaaatattaattaacataatacactaagatcttctagcaagattaatagcaacacacagaat
i otoGar3.GL873679         C 0 I 277
s canFam3.chr11             14923716 254 +  74389097 TTGTTTGCTT-ACCCTGGATTGGCTTTTGTCATTGAAATCAATAATGTTTTT-TTAATAGAGATTT-AGATCAGTTTCTGAATTCCTCTTGAAATACTCCACACTAATATCTTC---TGTTTGCA----TTTCTTCTTTTCAGAtatttacaaag-----caccacagcatatatccaattcct-ggaaacgccagggaatat---tattgggtagcatttaaatag-------cata--acattcaaataccctagcaaagttaatagcaatacacagaat
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=3511096.000000
s hg38.chr5_KI270796v1_alt     98936 273 +    172708 ggtatat---caaaattaccagtttaaggact-----tattttggttctaaagcttatttcttggaccaccattgataggattggtataaagtatatta-tgtgaataagctcattaatatttatattatttgtgaaaatgactcactgtttgcagca---------------------gtcagagccaagaacaca--------------t------------ccaactacaagtaagagtggctagatgagaactacttctctcttatgtgctcttctcct-attcatgaaaatgtcagccttaacccttgactcccatgtcagcatt
s panTro5.chr5             125203010 274 + 181907262 ggtatat---caaaattaccaatttaaggact-----tattttggttctaaagcttatttcttggaccaccattgataggattggtataaagtatatta-tgtgaataagctcattaatatttatattatttgtgaaaatgactcacggtttgcagca---------------------gtcagagccaggaacaca-------------ct------------ccaactacaagtaagagtggctagatgagaactacttctctcttatgtgctcttctcct-attcatgaaaatgtcaaccttaacccttgactcccatgtcagcatt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126539830 274 + 183735486 ggtatat---caaaattaccaatttaaggact-----tattttggttctaaagcttatttcttggaccaccattgataggattggtataaagtatatta-tgtgaataagctcattaatatttatattatttgtgaaaatgactcatggtttgcagca---------------------gtcagagccaggaacaca-------------ct------------ccaactacaagtaagagtggctagatgagaactacttctctcttatgtgctcttctcct-attcatgaaaatgtcaaccttaacccttgactcccatgtcagcatt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1731387 274 +   8933513 ggtatat---caaaattaccaatttaaggact-----tattttggttctaaagcttatttcttggaccaccattgataggattggtataaagtatatta-tgtgaataagctcattaatatttatattatttgtgaaaatgactcactgtttgcagca---------------------gtcagagccaggaacaca-------------ct------------ccaactacaagtaagagtggctagatgagaactacttctctcttatgtgctcttctcct-attcatgaaaatgtcaaccttaacccttgactcccatgtcagcatt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139862413 274 + 163208435 ggtatat---caaaattactaatttaaggact-----tattttggttctaaagcttatttcttggaccaccattgataggattggtataaagtatgtta-tgtgagtaaactcattaatatttatattatttgtgaaaatgactcactgtttgcagca---------------------gtcagagccaggaacaca-------------ct------------ccaactacaagtaagagtgaccagatgagaactacttctctcttatgtgctctcctcct-attcatgaaaatggcaaccttaacccttgactcccatgtcagcatt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122851022 274 + 180051392 ggtatat---caaaattatgaatttgaggact-----tattttgattctaaagcttatttcttggactaccattgatagaatctgtataaagtatatta-tgtgaataagctcattaatatttatattatttgtgaaaatgactcactgtttgcagca---------------------gtcagagccaggaactct-------------ct------------ccaactacaagtaagagtgaccagatgagaactacttctctcttatgtgcttttctcct-attcatgaaaatgtcaaccttaacccttgactcccatgtcagcatt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124274636 274 + 181584905 ggtatat---caaaattatgaatttgaggact-----tattttgattctaaagcttatttcttggactaccattgatagaatctgtataaagtatatta-tgtgaataagctcattaatatttatattatttgtgaaaatgactcactgtttgcagca---------------------gtcagagccaggaactct-------------ct------------ccaactacaagtaagagtgaccagatgagaactacttctctcttatgtgcttttctcct-attcatgaaaatgtcaaccttaacccttgactcccatgtcagcatt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16273009 274 +  18395747 ggtatat---caaaattatgaatttgaggact-----tattttgattctaaagcttatttcttggactaccattgatagaatctgtataaagtatatta-tgtgaataagctcattaatatttatattatttgtgaaaatgactcactgtttgcagca---------------------gtcagagccaggaactct-------------ct------------ccaactacaagtaagagtgaccagatgagaactacttctctcttatgtgcttttctcct-attcatgaaaatgtcaaccttaacccttgactcccatgtcagcatt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5285943 274 +  26952557 ggtatat---caaaattatgaatttaaggact-----tattttgattctaaagcttatttcttggaccaccattgatagaatctgtataaagtatatta-tgtgaataagctcattaatatttatattatttgtgaaaatgactcactgtttgcagca---------------------gtcagagccaggaaatct-------------ct------------ccaactacaagtaagagtgaccagatgagaactacttctcttttacgtgctcttctcct-agtcatgaaaatgtcagccttaacccttgactcccatgtcagcatt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28386864 274 +  82825804 ggtatat---caaaattatgaatttaaggact-----tattttgattctaaagcttatttcttggaccaccattgataaaatctgtataaagtatatta-tgtgaataagctcattaatatttatattatttgtgaaaatgactcactgtttgcagca---------------------gtcagagccaggaactct-------------ct------------ccaactacaagtaaaagtgaccagatgagaactacttctctcttacatgctcttctcct-attcatgaaaatgtcaaccttaacgcttgactcccatgtcagcatt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4055766 274 -   4237731 ggtatat---caaaattatgaatttaaggact-----tattttgattctaaagcttatttcttggaccaccattgatagaatctgtataaagtatatta-tgtgaataagctcattaatatttatattatttgtgaaaatgactcactgtttgcagca---------------------gtcagagccaggaaatct-------------ct------------ccaactacaagtaagagtgaccagatgagaactacttctctcttatgtgctcttctcct-agtcatgaaaatgtcagccttaacccttgactcccatgtcagcatt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      325238 265 -   1175262 ggtatat---caaaattatgaatttaaggact-----tattttgattctaaagcttatttcttggatgaccattgatagaacctgtataaaatatatta-tgtgaataagctcattaatatttatattatttgtgaaaataattcaccgtttgcagca---------------------gtcagagccagaaactct-------------tt------------ccaactacaagtaagagtgaccagatgagaactacttctctcttatgtgctcttctcct-attcatgaaaa---------taacccttgactcccatgtcagcatt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123670984 274 - 204313951 ggtatgt---caaaattactaatttaaggact-----taatttggttttaaa-cttatttcttaggccaccattgataggatttgtatgaggtatgtaa-tggaaatgagctcattaatattcacattatttgtgaaaatgactcacagtttgcaaca---------------------gtcagagccaggaatgca-------------cc------------gcaactacaagtaacagtgaccagatgagaactacctctctctaatgtgctcctcttctggttcctgaaaatgtcaaccttgacccttgactcccatgtcagcatt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55714962 271 -  71252344 ggtatgt---caaaattactaatttaaggact-----tactttggttctaaa-cttatttcttagaccactattgataggatttgtataaggtatgtta-tggaaatgagctcattactgttcctattatttgtgaaaatgactcttggtttacaata---------------------atcagagccaggaatgta----------------------------caactacaagtaagagtgaccagatgagaactacctctctctaatgtgctcctcttatggttcctgaaaatgtcaaccttaacccttgactcccatgtcagcatt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       17867 271 -   3089952 ggtatgt---caaaattactaatttaaggact-----tgctttggttctaaa-cttatttcttagaccgccattgataggatttgtataagatatgtta-tggaaatgagctcattaatattcatattatttgtgaaaatgactcacggtttgcaaca---------------------gtcagagccaggaatgca----------------------------caactacaagtaagagtgaccagatgagaactacctctctctaatgtgctcctcttctggttcctgaaaatgtcaaccttaacccttgactcccatgtcagcatt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13215869 274 -  42888418 ggtatgt---caaaattactaatgtaaggact-----tactttggttctaaa-cttatttcttagaccaccattgataggatttgtataaggtatgtta-tggaaataagctcattaatattcattttatttgtgaaaatgactcacgatttccaaca---------------------gtcagaggcaggaatgca-------------ct------------acaactacaagtaagagtgaccagatgagaactacctctctctaatgtgctcctcttctggttcctgaaaatgtcaaccttaacccttgactcgcatgtcagcatt
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60551046 279 + 108143057 --taagttaataatattgctaacttaaggact-----tatttcaattcaaaaacttatttcttagaccaccattcatagcatttgtataaagtattgta-tgtgaatgagcatattaaaatttatgttatttgcgaaaacgagtcactgttagcagca---------------------gtcagtgccagcaataca-------------ct---------acaacaactacaggtaaaactgactcgatcagaactacttctcacgaatgtgctcctctcctggttcctggaactgtcagccttagccttttactcccacgtcagcatt
i micMur3.chr12            C 0 I 10062
s proCoq1.NW_012155062v1     3591278 273 +  11683526 --taagt---taatattgctaacttaaggact-----tatttcggttcaaaaacttatttcttagaccaccattcatagcatttgtataaagtattata-tgttaatgagcctattaatatttgtattatttgcaaaaatgagtcactgttagcaaca---------------------gtcagggccagcaacaaa-------------ct------------acaactacaggtaaaactgcctagatcagaactacttctcactaatgtgctcctctcttggttcctggaactgtcagccttaaccttttacttccatgtcagcatt
i proCoq1.NW_012155062v1   C 0 I 2619
s otoGar3.GL873679           3079677 295 +   4132165 ggtaagt---taaaattgttaacttaaggacttattatattttggttctaaaacata-ttcttagatcaccatttacaggatttgcacaaagtatgata-tgtgaatgagcttatttacatttatattatttgcaaaaatttgtcacttttagtacca---------------------gtcagggccagaaaaaaaaaaaaaaaaaaacct---------gctacaactataagcaaaactgaccagatcagaactacttcttgctaatgtttctttctcctggttcctacaattatcaaccttaacattttacttccacgtcagcatt
i otoGar3.GL873679         I 277 C 0
s canFam3.chr11             14923970 292 +  74389097 gccatgt---caaaatcactaacttgagaatg-----tattttggctctaaaattcatttctgagaacatc-------gaatttgtataaaatatactactcttaacaatcttattaatat-----ctgtttgcaaaaaaaa---attgtcagcaaaaaaaaaatctgcaaaaaaacctgtcagggtcaggaacaca-------------cttaaaacatggcaacaacctcaagtaagataggttagatcagaattacttctctccaatgtgctcttgtcct-ggttccagaaatatcaactttaagctttcact-ctgtgtctgcatt
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=4241723.000000
s hg38.chr5_KI270796v1_alt     99209 400 +    172708 cccgg------ctcttgctttcaacttgacatcagtgatttcttctaatca-tacagtccttatgttgattgtcaagctccaaatcttgtaggagcattgaaatgcttgtctcctgttttcctga-------------------------------------------------------------------------------------ttttttcgactatttg------tttttcacaatttaggagtggaaaa------------------------------------------------------------------------acatatacatattctgagatatactgagaaagcatttctacatgggaaAAGTAAACCCGAGTCATTTACATTCTTATTCCAAAGCTGT-AAAATAGTGATGTTGTACCTGATTGTTCAACTTTTTAt---------ttttttatttttatatatttaaagtgtcaaatatataaaaattagaatagtgtaatgaacctctgtgcatatatcatccagtttcaacaattaccaaaacatggccaatcttttt
s panTro5.chr5             125203284 400 + 181907262 cccag------ctcttgctttcaacttgacatcagtgatttcttctaatca-tactgtccttatgttgattgtcaagctccaaatcttgtaggagcattgaaatgcttgtctcctgttttcctga-------------------------------------------------------------------------------------ttttttcgactatttg------tttttcacaatttaggagtggaaaa------------------------------------------------------------------------acatatacatattctgagatatactgagaaagcatttctacatgggaaAAGTAAACCCGAGTCATTTACATTCTTATTCCAAAGCTGT-AAAATAGTGATGTTGTACCTGATTGTTCAACTTTTTAt---------ttttttatttttatatatttaaagtgtcaaatatataaaaattagaatagtgtaatgaacctctgtgcatatatcatccagtttcaacaattaccaaaacatggccaatcttttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126540104 399 + 183735486 cccag------ctcttgctttcaacttgacatcagtgatttcttctaatca-tactgtccttatgttgattgtcaagctccaaatcttgtaggagcattgaaatgcttgtctcctgttttcctga-------------------------------------------------------------------------------------ttttttcgactatttg------tttttcacaatttaggagtggaaaa------------------------------------------------------------------------acatatacatattctgagacatactgagaaagcatttctacatgggaaAAGTAAACCCGAGTCATTTACATTCTTATTCCAAAGCTGT-AAAATAGTGATGTTGTACCTGATTGTTCAACTTTTTA----------ttttttatttttatatatttaaagtgtcaaatatataaaaattagaatagtgtaatgaacctctgtgcatatatcatccagtttcaacaattaccaaaacatggccaatcttttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1731661 400 +   8933513 cccag------ctcttgctttcaacttgacatcagtgatttcttctaatca-tactgtccttatgttgattgtcaagctccaaatcttataggagcattgaaatgcttgtctcctgttttcctga-------------------------------------------------------------------------------------ttttttcgactatttg------tttttcacaatttaggagtggaaaa------------------------------------------------------------------------acatatacatactctgagatatactgagaaagcatttctacatgggaaAAGTAAACCCGAGTCATTTACATTCTTATTCCAAAGCTGT-AAAATAGTGATGTTGTACCTGATTGTTCAAGTTTTTAt---------ttttttatttttatatatttaaagtgtcaaatatataaacattataatagtgtaatgaacctctgtgcatatatcatccagtttcaacaattaccaatacatggccaatcttttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139862687 397 + 163208435 cccag------ctcttgctttcaacttgacatcagcgatttcttctaatca-tactgtccttatgttgattgtcaagctccaaatcttataggggcattgaaatgcttgtctcctgttttcctga-------------------------------------------------------------------------------------tttttttgactctttg------tttttcacaatttaggagtagaaaa------------------------------------------------------------------------acatatacatattctgagatatactgggaaactgtttctacatgggaaAAGTAAACCCAAGTCATTTACATACTTATTCCAAAGCTGTAAAAATCGTGATGTTGTACCTGA---TTCATCTTTTTA----------ttttttatttttatatatttaaagtgtcaaatatataaaaattagaatagtgtaacgaacctctgtgcatatatcatccagtttcaacaattaccaacacgtggccaatcttttt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122851296 398 + 180051392 cccag------ctcttgctttcaacttgacatcagtaatttcttctaatca-tattgtccttatgttgattgtcaagctccagatcttataggagcattgaaatgcttatctcctgttttcctga-------------------------------------------------------------------------------------tttttttcactattcg------tttttcacaatttaggagtagaaaa------------------------------------------------------------------------acatatacatattctgagatatactgggaaagcatttctacatgggaaAAGTAAACCCAAGTCATTTATATACTTATTCCAAAGCTGT-AAAATAGTGATGTTGTACCTGATTGTTCATTTTTTTA----------ttttttatttttatatatttaaagtgtcaaatatataaaaattagaacagtgtaacaaacctctgtgcatatatcatccagtttcaacaattactaacacatggccaa-cttttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124274910 398 + 181584905 cccag------ctcttgctttcaacttgacatcagtaatttcttctaatca-tattgtccttatgttgattgtcaagctccagatcttataggagcattgaaatgcttatctcctgttttcctga-------------------------------------------------------------------------------------tttttttcactattcg------tttttcacaatttaggagtagaaaa------------------------------------------------------------------------acatatacatattctgagatatactgggaaagcatttctacatgggaaAAGTAAACCCAAGTCATTTATATACTTATTCCAAAGCTGT-AAAATAGTGATGTTGTACCTGATTGTTCATTTTTTTA----------ttttttatttttatatatttaaagtgtcaaatatataaaaattagaacagtgtaacaaacctctatgcatatatcatccagtttcaacaattactaacacatggccaa-cttttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16273283 391 +  18395747 cccag------ctcttgctttcaacttgacatcagtaatttcttctaatca-tattgtccttatgttgattgtcaagctccagatcttataggagcattgaaatgcttatctcctgttttcctga-------------------------------------------------------------------------------------tttttttcactattcg------tttttcacaatttaggagtagaaaa------------------------------------------------------------------------acatatacatattctgagatatactgggaaagcatttctacatgggaaAAGTAAACCCAAGTCATTTATATACTTATTCCAAAGCTGT-AAAATAGTGATGTTGTACCTGATTGTTCAt-----------------ttttttatttttatatatttaaagtgtcaaatatataaaaattagaacagtgtaacaaacctctatgcatatatcatccagtttcaacaattactaacacatggccaa-cttttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5286217 396 +  26952557 cccag------ctcttgctttcaacttgacatcagtaatttcttctaatca-tactgtccttatgttgattgtaaagctccagatcttataggagcactgaaatgcttgtctcctgttttcctga-------------------------------------------------------------------------------------tttttttgactatttg-------ttttcacaatttagaagtagaaaa------------------------------------------------------------------------acatatacatattctgagatatactgggaaagcatttctacatgggaaAAGTAAACCCAAGTCATTTATATACTTATTCCAAAGCTGT-AAAATAGTGATGTTGTACCTGATTGTTCATTTttt------------ttatttatttttatatatttaaagtgtcaaatatataaaaattagaacagtgtaatgaacctctatgcatatatcatccagtttcaacaattatcaacacatggccaatcttttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28387138 399 +  82825804 cccac------ctcttgctttcaacttgacatcagtaatttcttctaatca-tactgtccttatgttgattgtcaagctccagatcttataggagcattgaaatgcttgtctcctgttttcctga-------------------------------------------------------------------------------------tttttttgactatttg------tttttcacaatttaggagtagaaaa------------------------------------------------------------------------acatatacatattctgagatacactgggaaagcatttctacatgggaaAAGTAAACCCAAGTCATTTATATACTTATTCCAAAGCTGT-AAAATAGTGATGTTGTACCTGATTGTTCATTTTTTTA----------ttttttatttttatatatttaaagtgtcaaatatataaaaatcagaatggtgtaatgaacctctatgcatatatcatccagtttcaacaattaccaacacatggccaatcttttt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4056040 385 -   4237731 cccag------ctcttgctttcaacttgacatcagtaatttcttctaatca-tactgtccttatgttgattgtaaagctccagatcttataggagcactgaaatgcttgtctcctgttttcctga-------------------------------------------------------------------------------------tt--------------------tttttcacaatttagaagtagaaaa------------------------------------------------------------------------acatatacatattctgagatatactgggaaagcatttctacatgggaaAAGTAAACCCAAGTCATTTATATACTTATTCCAAAGCTGT-AAAATAGTGATGTTGTACCTGATTGTTCATTTTTTTA----------ttttttatttttatatatttaaagtgtcaaatatataaaaattagaacagtgtaatgaacctctaggcatatatcatccagtttcaacaattaccaacacatggccaatcttttt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      325503 405 -   1175262 ccccggaattcctcttgctttcaacttgacatcagtaatttcttctaatca-tactgtccttatgttgactgtcaagctccagatcttataagagtattgaaatgcttgtctcctgttttcctga-------------------------------------------------------------------------------------ttgttttgactatttg------tttttcacaatttaggagtagaaaa------------------------------------------------------------------------acatatatatattctgagatatactgggagagcatttctacatgggaaAAGTAAACCCAAGTCATTTATATGCTTATTCCAAAGCTGT-AAAATAGTGATGTTGTACCTGATTGTTCAttttttaa----------ttttttatttttatatatttaaagtgtcaaatatataaaaattagaacagtgtaacgaacctctatgcatatatcatccagtttcaacaattaccaacacatggccaatcttttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123671258 401 - 204313951 ctcag------ctcttgctttcaacttgacagcagtgatttcttttgataaatactgtcctgacgttgactgttaagctccaaatcttataggaggattgaaatgcttgtctcctgtttccctgattt--------------------------------------------------------------------------------tttttttttgactatttg------ttttttataatttaggagtagaaaa------------------------------------------------------------------------atatatacatagtctgagatatactggtaaagtgtttctacgtaggaaaAGTAAACCC--GTCATTTACATACTTATTCCAAAGCTGT-AAAATAGTGGTGTTGTAACT---TGCTCATTTATAATT---------TTTCTAatttttatatatttaaagtgtcaaacacgtaaagattagaatagtgtaaagaacctctgtacatatatcatccagtttcaacagttaccaacacatggccaatcttAtt
i calJac3.chr2             C 0 I 339
s saiBol1.JH378106          55715233 400 -  71252344 cccag------ctcttgctttcaacttgacagcagtgatttcttttgatcagtactgtcctgatgttgactgttaagctccaaatcttataggaggattgaaatgcttgtctcctgttttcctga-----------------------------------------------------------------------------------tttttttttgactatttg------tttttcataatttaggagtagaaaa------------------------------------------------------------------------atatctacatattctgagatatactgggaaagtgtttctacataggaaaAGTAAACCCAGGTGTTTTACATACTTATTCCAAAGCTGT-AAAATAGTGGGGTTGTACCT---TGTTCATTTATAAtt---------tttctaatttttatatatttaacgtgtcaaatacataaagattagaacagtgtaaagaacctctgtgtatatatcatccagtttcaacagttaccaacacatgaccaatcttttt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       18138 398 -   3089952 cccag------ctcttgctttcaacttgacaacagtgatttcttttgttcagttctgtcctgatgttgactgttaagctccacatcgtataggaggattgaaatgcttgtctcttgttttcttga-------------------------------------------------------------------------------------tttttttgactatttg------tttttcataatttaggagtagaaaa------------------------------------------------------------------------atatatacatattctgagatatactgggaaagtgtttctacataggaaaAGTAAACACAAGTCATTTACATTCTTATTCCAAAGCTGT-AAAATAGGGGTGTTGTACCT---TGTTCATTTTTAAtt---------tttctaatttttatatatttaaagtgtcaaatacgtaaagattagaatagtgtaaagaacctctgtgcatatatcatccagtttcgacagttaccaacacatgaccaatcttttt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13216143 399 -  42888418 cccag------ctcttgctttcaacttgacagcagtgatttcttttgatcagtactgtcctgatgttgactgttaagctccaaatcttataggaggattgaaatgcttgtctcctgttttcctga------------------------------------------------------------------------------------ttttttttgactatttg------tttttcataatttaggaatagaaaa------------------------------------------------------------------------atatatacatattctgagatatactgggaaagtgtttctacgtaggaaAAGTAAACCCAAGTCATTTACATACTTATTCCAAAGCTAT-AAAATAGTGCTGTTGTACCT---TGTTCATTTATAAtt---------tttctaatttttatatatttaaagcgtcaaatacgtaaagattagaatagtgtaaagaacctctgtgcatatgtcatccagtttcaacagttaccaacacatgaccaatcttttt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3079972 473 +   4132165 ------------gcttcttttcaactggacgtcagcaatttcttctaattaatattatcctaattttgattattaagctttaaattttacagggaaattaaaatactttcttcccattttcctga-------------------------------------------------------------------------------------attttttgagtaatt-------tttctgaggatttagcaggaggaaaaaAAAAAAatatatatatatatatctctacacacacacacacacacacatgtgtgtatacacatatgtgtgtatacatatatatTCTGAGATCTGATGAGAAAGTATTTCTACATGAAAACACCAAACCTGA-TCATTT-CCTACTTCTTAAAAAACTGT-AAGATGGTCATGGGGTGCGTAGATACCTATTTCATTTTCCCTACACGTTTCTGATTTTTATATGTTTAAAGGGCcaaacgtataaaaattagaatactataaagaacttctgttcatgcgtcacccagtttcaacaattaccaacacatgtccaatcttctt
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14924262 483 +  74389097 tcctc------ctcttgctttcagtttgacattggcaatttcttctaccag-taatgtttgtctgttga-tattaagctctaaatcttacaggaaaattatagtgcctttcttctgttttcttgattCTTTTATTCtcacatcagataggtaatatgctgaggttgtaacaagatttgagggaggtgaatgtcatcatgCTTATGATATgttttcttgattttttgactctttttctcaggattcaggagtaggaaa------------------------------------------------------------------------aaatatacatttcctgagatatgcttggaaagtatttccacatggaaaAGGTAAACCCAAGTTACTCCCTTAGTTCTCCCAGAGCTAT-AACATGGAGGTGATGGAGGTGGTGATACTCC----------------GTTCTTTTttttttttatcaaaaatataaaacatataaaaattaagatgtgttaaagaacctctgggcatatatcactcaggctcaacaactaccaatatatgaccaatgttgtt
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=462052.000000
s hg38.chr5_KI270796v1_alt     99609 47 +    172708 aaacttacatatttactcactcct-ccgcccccattatttataaccca
s panTro5.chr5             125203684 47 + 181907262 aaacttacatatttactcactcct-ccgcccccattatttataaccca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126540503 47 + 183735486 aaacttacatatttactcactcct-ccgcccccattatttATAACCCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1732061 47 +   8933513 aaacttacatatttactcactcct-ccacccccattatttataaccca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139863084 47 + 163208435 aaacttacatatttactcactcct-ccacccccattatttATAACCCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122851694 47 + 180051392 aaacttacatatttactcactcct-ctacccccattatttataaccca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124275308 47 + 181584905 aaacttacatatttactcactcct-ccacccccattatttataaccca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16273674 47 +  18395747 aaacttacatatttactcactcct-ccacccccattatttATAACCCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5286613 47 +  26952557 aaacttacatatttactcactcct-ccacccccattatttATAACCCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28387537 47 +  82825804 aaacttacatatttactcactcct-ccacccccattatttataaccca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4056425 47 -   4237731 aaacttacatatttactcactcct-ccacccccattatttATAACCCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      325908 47 -   1175262 aaacttacatatttactcactcct-ccacccccattatttATAACCTA
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55715633 47 -  71252344 aaacttacatatctacttactcct-ccacccccattatttATAACCCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       18536 47 -   3089952 aaacttacatatctagtcactcct-ccacccccattatttATAACCCA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13216542 47 -  42888418 aaacttacatatctactcactcct-ccACCCCCATTATTTATAACCCA
i aotNan1.NW_018505940v1   C 0 I 1
s otoGar3.GL873679           3080445 39 +   4132165 gaagttatacactttcccacccctcccatcctcatcacc---------
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14924745 39 +  74389097 taacttgtgtatctacccatt--t-ccatcactctcttttct------
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I
e calJac3.chr2             123671659 339 - 204313951 I

a score=19830.000000
s hg38.chr5_KI270796v1_alt     99656 3 +    172708 tta
s panTro5.chr5             125203731 3 + 181907262 tta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126540550 3 + 183735486 TTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1732108 3 +   8933513 tta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139863131 3 + 163208435 TTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122851741 3 + 180051392 tta
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124275355 3 + 181584905 tta
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16273721 3 +  18395747 TTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5286660 3 +  26952557 TTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28387584 3 +  82825804 tta
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4056472 3 -   4237731 TTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      325955 3 -   1175262 TTA
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55715680 3 -  71252344 CTa
i saiBol1.JH378106         C 0 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e canFam3.chr11             14924784 0 +  74389097 C
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e otoGar3.GL873679           3080484 0 +   4132165 C
e aotNan1.NW_018505940v1    13216589 1 -  42888418 I
e cebCap1.NW_016107590v1       18583 0 -   3089952 C
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I
e calJac3.chr2             123671659 339 - 204313951 I

a score=399467.000000
s hg38.chr5_KI270796v1_alt     99659  66 +    172708 tgggttattttaaagtaaatcctatacgttgtttcat----------Aggtgct---------------------------------------------------------------------------aaatatat---------------------------------gaaaatccacatac
s panTro5.chr5             125203734  66 + 181907262 tgggttattttaaagtaaatcctatacgttgtttcat----------Aggtgct---------------------------------------------------------------------------aaatatat---------------------------------gaaaatccacatac
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126540553  66 + 183735486 TGGGTTATTTTAAAGTAAATCCTATATGTTGTTTCAT----------Aggtgct---------------------------------------------------------------------------aaatatat---------------------------------gaaaatccacatac
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1732111  66 +   8933513 tgggttattttaaagtaaatcctatatgttgtttcat----------Aggtgct---------------------------------------------------------------------------aaatatat---------------------------------gaaaatccacatac
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139863134  66 + 163208435 TGGGTTATTTTAAAGTAAATCCTATACATTGTATCAT----------Aggtgct---------------------------------------------------------------------------aggtatat---------------------------------gaaaatccacatgc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122851744  66 + 180051392 tgggttattttaaagtaaatcctatactttgtatcat----------Aggtgct---------------------------------------------------------------------------agatatat---------------------------------gaaaatccacatgc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124275358  66 + 181584905 tgggttattttaaagtaaatcctatactttgtatcat----------Aggtgct---------------------------------------------------------------------------agatatat---------------------------------gaaaatccacatgc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16273724  66 +  18395747 TGGGTTATTTTAAAGTAAATCCTATACTTTGTATCAT----------Aggtgct---------------------------------------------------------------------------agatatat---------------------------------gaaaatccacatgc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5286663  66 +  26952557 TGGGTTATTTTAAAGTAAATCCTATACTTTGTATCAT----------Aggtgct---------------------------------------------------------------------------agatatat---------------------------------gaaaatccacatgc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28387587  66 +  82825804 tgggttattttaaagtaaatcctatactttgtatcat----------Agatgct---------------------------------------------------------------------------agatatat---------------------------------gaaaatccacatgc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4056475  66 -   4237731 TGGGTTATTTTAAAGTAAATCCTATACTTTGTATCAT----------Aggtgct---------------------------------------------------------------------------agatatat---------------------------------gaaaatccacatgc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      325958  66 -   1175262 TGGGTTATTTTAAAGTAAATCCTATACTTTATATCAT----------Aggtgct---------------------------------------------------------------------------agatatct---------------------------------gaaaatccacatgc
i colAng1.NW_012119644v1   C 0 C 0
s otoGar3.GL873679           3080484  66 +   4132165 tggattattttgaagtaaatactagatattgtaccTC----------Aggttct---------------------------------------------------------------------------ggtcaatt---------------------------------gaatgtacacatgc
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14924784 184 +  74389097 tggattattttgaactaaatcttatatatcatatcattttatctttaatatacttctgtgtaaaactacaaaagatgaagactttaaaaaatatacctacaaAGgacaaagtggaactgacataaggacagatatataagatcactggactagaactgagaatttagggggaaattccaaatac
i canFam3.chr11            C 0 I 106
e micMur3.chr12             60551325 10062 + 108143057 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e aotNan1.NW_018505940v1    13216589   1 -  42888418 I
e cebCap1.NW_016107590v1       18583   0 -   3089952 C
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I
e saiBol1.JH378106          55715683   0 -  71252344 C
e calJac3.chr2             123671659 339 - 204313951 I

a score=298233.000000
s hg38.chr5_KI270796v1_alt     99725 42 +    172708 aaaagattgaagttggaccccta-ccacacaccatatataaaa
s panTro5.chr5             125203800 42 + 181907262 aaaagattgaagttggaccccta-ccacacaccatatataaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126540619 42 + 183735486 aaaagattgaagttggaccccta-ccacacaccatatataaaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1732177 42 +   8933513 aaaagattgaagttggaccccta-ccacacaccatatataaaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139863200 42 + 163208435 aaaagattgaagttggaccccta-ccacataccgtatataaaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122851810 42 + 180051392 aaaagatggaagttggaccccta-ccacataccatatgtaaaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124275424 42 + 181584905 aaaagattgaagttggaccccta-ccacataccatatgtaaaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16273790 42 +  18395747 aaaagattgaagttggaccccta-ccacataccatatgtaaaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5286729 42 +  26952557 aaaagattgaagtcggaccccta-ccacataccatatgtaaaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28387653 42 +  82825804 aaaagattgaagtcggaccccta-ccacataccatatgtaaaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4056541 42 -   4237731 aaaagattgaagtcggaccccta-ccacataccatatgtaaaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      326024 42 -   1175262 aaaagattgaagttggaccccta-ccacataccatatgtaaaa
i colAng1.NW_012119644v1   C 0 C 0
s otoGar3.GL873679           3080550 42 +   4132165 aaatgaatgaaattggaccccta-tctcatttaataaacaaaa
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14925074 43 +  74389097 aaaaaaatgaagttgggcccttaccctcacaccatatacaaag
i canFam3.chr11            I 106 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e aotNan1.NW_018505940v1    13216589  1 -  42888418 I
e cebCap1.NW_016107590v1       18583  0 -   3089952 C
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I
e saiBol1.JH378106          55715683  0 -  71252344 C
e calJac3.chr2             123671659 339 - 204313951 I

a score=86746.000000
s hg38.chr5_KI270796v1_alt     99767 13 +    172708 cattactcacaat
s panTro5.chr5             125203842 13 + 181907262 cattactcacaat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126540661 13 + 183735486 cattactcacaat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1732219 13 +   8933513 cattactcacagt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139863242 13 + 163208435 cattactcacaat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122851852 13 + 180051392 cattagtcacaat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124275466 13 + 181584905 cattagtcacaat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16273832 13 +  18395747 cattagtcacaat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5286771 13 +  26952557 catttctcacaat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28387695 13 +  82825804 cattactcacaat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4056583 13 -   4237731 catttctcacaat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      326066 13 -   1175262 cattactcacaat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123671998 13 - 204313951 CATTATTTATAAC
i calJac3.chr2             I 339 I 3
s otoGar3.GL873679           3080592  9 +   4132165 ----actcaaaat
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14925117 13 +  74389097 gtttattcaaaat
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e aotNan1.NW_018505940v1    13216589  1 -  42888418 I
e cebCap1.NW_016107590v1       18583  0 -   3089952 C
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I
e saiBol1.JH378106          55715683  0 -  71252344 C

a score=12000.000000
s hg38.chr5_KI270796v1_alt     99780 1 +    172708 g
s panTro5.chr5             125203855 1 + 181907262 g
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126540674 1 + 183735486 g
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1732232 1 +   8933513 g
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139863255 1 + 163208435 g
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122851865 1 + 180051392 g
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124275479 1 + 181584905 g
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16273845 1 +  18395747 g
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5286784 1 +  26952557 g
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28387708 1 +  82825804 g
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4056596 1 -   4237731 g
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      326079 1 -   1175262 g
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123672014 1 - 204313951 G
i calJac3.chr2             I 3 C 0
s cebCap1.NW_016107590v1       18583 1 -   3089952 G
i cebCap1.NW_016107590v1   C 0 C 0
s otoGar3.GL873679           3080601 1 +   4132165 g
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14925130 1 +  74389097 g
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e aotNan1.NW_018505940v1    13216589 1 -  42888418 I
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I
e saiBol1.JH378106          55715683 0 -  71252344 C

a score=21472.000000
s hg38.chr5_KI270796v1_alt     99781 2 +    172708 ta
s panTro5.chr5             125203856 2 + 181907262 ta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126540675 2 + 183735486 ta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1732233 2 +   8933513 ta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139863256 2 + 163208435 ta
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122851866 2 + 180051392 ta
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124275480 2 + 181584905 ta
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16273846 2 +  18395747 ta
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5286785 2 +  26952557 ta
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28387709 2 +  82825804 ta
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4056597 2 -   4237731 ta
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      326080 2 -   1175262 ta
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123672015 2 - 204313951 TA
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107590v1       18584 2 -   3089952 Ta
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13216590 2 -  42888418 Ta
i aotNan1.NW_018505940v1   I 1 C 0
s otoGar3.GL873679           3080602 2 +   4132165 ta
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14925131 2 +  74389097 ga
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I
e saiBol1.JH378106          55715683 0 -  71252344 C

a score=2143897.000000
s hg38.chr5_KI270796v1_alt     99783 214 +    172708 tcaaagacctaagcataagag---caaaactctaa--aatgcttagagaaaaattttgtgac-ttggattaggtaacag-ttttttcagatgagacatctgaaatacaagcaacaaaagaaataagagataaaaattggacttcatcacaattaaacatttttgttctttaaaggacaccatcaaaatagtg-a-aaaaa-----acacagagaat-gggaaaatattt
s panTro5.chr5             125203858 214 + 181907262 tcaaagacctaagcataagag---caaaactctaa--aatgcttagagaaaaattttgtgac-ttggattaggtaacag-ttttttcagatgagacatctgaaatacaagcaacaaaagaaataatagataaaaattggacttcatcacaattaaacatttttgttctttaaaggacaccatcaaaatagtg-a-aaaaa-----ccacagagaat-gggaaaatattt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126540677 214 + 183735486 tcaaagacctaagcataagag---caaaactctaa--aatgcttagagaaaaattttgtgac-ttggattaggtaacag-ttttttcagatgagacatctgaaatacaagcaacaaaagaaataatagataaaaattggacttcatcacaattaaacatttttgttctttaaaggacaccatcaaaatagtg-a-aaaaa-----ccacagagaat-gggaaaatattt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1732235 215 +   8933513 tcaaagacctaagcataagag---caaaactctaa--aatgcttagagaaaaattttgtgac-ttggattaggtaacag-ttttttcagatgagacatctgaaatacaagcaacaaaagaaataatagataaaaattggacttcatcacaattaaacatttttgttctttaaaggacaccatcaaaatagtgaa-aaaaa-----acacagagaat-gggaaaatattt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139863258 211 + 163208435 tcaaagacctaagcataagag---caaaactctaa--aatgcttagagaaaaattttatgac-ttggattaggtaacgg-ttttttcagatgagacatctgaaatacaagcaacaaaagaaataatagat--aaattggacttcatcacaattaaacatttttgttctttaaaggacaccatcaagatagtg-a-aaaaa------cacacagaat-gggaaaatattt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122851868 209 + 180051392 tcaaagacctaagcataagag---caaaactctaa--aatgcttagaggaaaattt--tgac-ttgccttaggtaacgg-ttttttcagatgagacatctgaaatacaagcaacaaaagaaataatagat--aaattggacttgatcacaattaaaaatttttgttctttaagggacaccatcaagatagtg-a-aaaaa------cacacagaat-gggaaaatattt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124275482 209 + 181584905 tcaaagacctaagcataagag---caaaactctaa--aatgcttagaggaaaattt--tgac-ttgccttaggtaacgg-ttttttcagatgagacatctgaaatacaagcaacaaaagaaataatagat--aaattggacttgatcacaattaaaaatttttgttctttaagggacaccatcaagatagtg-a-aaaaa------cacacagaat-gggaaaatattt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16273848 209 +  18395747 tcaaagacctaagcataagag---taaaactctaa--aatgcttagaggaaaattt--tgac-ttgccttaggtaacgg-ttttttcagatgagacatctgaaatacaagcaacaaaagaaataatagat--aaatttgacttgatcacaattaaaaatttttgttctttaagggacaccatcaagatagtg-a-aaaaa------cacacagaat-gggaaaatattt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5286787 209 +  26952557 tcaaagacctaagcataagag---caaaactctaa--aatgcttagaggaaaattt--tgac-ttgccttaggtaacgg-ttttttcagatgagacatctgaaatacaagcaacaaaagaaataatagat--aaattggacttgatcacaattaaaaatttttgttctttaagagacaccatcaagatagtg-a-aaaaa------cacacagaat-gggaaaatattt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28387711 210 +  82825804 tcaaagacctaagcataagag---caaaactctaa--aatgcttagaggaaaattt--tgac-ttgccttaggtaacggtttttttcagataagacatctgaaatacaagcaacaaaagaaataatagat--aaattggacttgatcacaattaaaaatttttgttctttaagggacaccatcaagatagtg-a-aaaaa------cacatagaat-gggaaaatattt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4056599 209 -   4237731 tcaaagacctaagcataagag---caaaactctaa--aatgcttagaggaaaattt--tgac-ttgccttaggtaacgg-ttttttcagatgagacatctgaaatacaagcaacaaaagaaataatagat--aaattggacttgatcacaattaaaaatttttgttctttaagggacaccatcaagatagtg-a-aaaaa------cacacagaat-gggaaaatattt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      326082 211 -   1175262 tcaaagacctaagtgtaagag---caaaactctaa--aatgcttacaggaaaattttatgac-ttgcctcaggtaatgt-ttttttcagatgagacatctgaaatacaagcaacaaaagaaataatagat--aaattggacttgatcacaattaaaaatttttgttctttaagggacaccatcaagatagtg-a-aaaaa------cacacagaat-gggaaaatattt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123672017 210 - 204313951 TCAaagacctaagcat---------aaaactcttatgaaaatttagaggaaaattttgtgac-ttcgattaggtaa--c-ttttttcagatgtgacatctaaaatacaa-caacaaaagaaataatagct--aaattggacttcatcacaattaaaaa-ctttgttttttaaaggacaacatcaagatagtg-g-aaaaaaaaacctacacagaatggggaaaatactt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55715683 217 -  71252344 tcaaagacctaagcataagag---caaaactctaa--aatgcctaaaggaaaattttgcgac-ttcgattaggtaa--t-ttttttcagatgtgacgtctaaaatacaagcaacaaaagaaataatagct--aaattgtacttcatcacagttaaaaatttttgttttttaaaggacaacatcaagatagtg-gaaaaaaaaaacctacacagaatggggaaaatactt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       18586 216 -   3089952 tcaaagaccttagcataagag---caaaactctaa--aatgtctagaggaaaattttgtgac-ttcgattaggtaat-t-ttttttcagatgtgacatctaaaatacaagcaacaaaagaaataatagct--aaattggacttcatcacaattaaaaatttttgttttttaaaggacaacatcaagatagtg-g--gaaaaaaacctacacagaatggggaaaatactt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13216592 217 -  42888418 tcaaagacctaagcataagag---tacaactctaa--aattcttagaggaaaattttgtgac-ttcgatcaggtaat-g-ttttttcagatgtgacatctaaaatacaagcaacaaaagaaataatagct--aaattggacttcatcacaattaaaaatttttgttttttaaaggacaacatcaagatagtg-g-gaaaaaaaacctacacagaatggggaaaatactt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3080604 198 +   4132165 tcaaagacctaagcataagag---caaaactata---ggcccctggaagaacattttttgatattggattaggtaacag--tttttcagatttgacacctaaaacagaagtaaccaaagaaataacagat--aaattggactttaacataatta----------------aaaggataccatcaggaaagtg-t-aaaga---taacccacagaataggaaaaatattt
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14925133 204 +  74389097 tcaaagatgtaagtgtaagaaaactaaaactataa--gactcttagaagaaaattttatgaccttaaattaggtcatgg-tttctt-agttatgacacctaaaacacaagcaaccagagaaaaaatggac--aa-------------acaattaaa-acttctgttcttcaaaggatacacataagaaaatg-a-aaaaa-ctcaacccatggaatcgaaaaaatct--
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=903096.000000
s hg38.chr5_KI270796v1_alt     99997 107 +    172708 gcaacacatatatctgataagggtatagtaaccagactatataaagaactcttccactttgacaataaaaagacaaatatcccaattaaaagtggagaaa-----------------------------------------------------aggattt
s panTro5.chr5             125204072 107 + 181907262 gcaacacatatatctgataagggtatagtaaccagactatataaagagctcttccactttgacaataaaaagacaaatatcccaattaaaagtggagaaa-----------------------------------------------------aggattt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126540891 107 + 183735486 gcaacacatatatctgataagggtatagtaaccagactatataaagagctcttccactttgacaataaaaagacaaatatcccaattaaaagtggagaaa-----------------------------------------------------aggattt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1732450 106 +   8933513 gcaacacatatatctgataagggtatagtaaccagactatataaagaactcttccactttgacaataaaaagacaaatat-ccaattaaaagtggagaaa-----------------------------------------------------aggattt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139863469 107 + 163208435 gtaacacatatatctgataagggtacagtaaccagtctatataaagaactcttccactttcacaataaaaagacaaatatcccaattaaaagtggagaaa-----------------------------------------------------aggattt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122852077 106 + 180051392 gcaacacatatatctgataagggaacagtaacaagactatataaagaactcttccactttgacaataaaaagatgaatatcgcaattaaaagtggag-aa-----------------------------------------------------aggattt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124275691 106 + 181584905 gcaacacatatatctgataagggaacagtaaccagactatataaagaactcttccactttgacaataaaaagatgaatatcgcaattaaaagtggag-aa-----------------------------------------------------aggattt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16274057 106 +  18395747 gcaacacatatatctgatcagggaacagtaaccagactatataaagaactcttccactttgacaataaaaagatgaatatcgcaattaaaagtggag-aa-----------------------------------------------------aggattt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5286996 106 +  26952557 gcaacacatatatctaataagggaacagtaaccagactatataaagaactcttccactttgacaataaaaagatgaatatcgcaattaaaagtggag-aa-----------------------------------------------------aggattt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28387921 106 +  82825804 gcaacacatatatctgataaaggaacagtaaccaggctatataaagaactcttccactttgacaataaaaagatgaatatcccaattaaaagtggag-aa-----------------------------------------------------aggattt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4056808 106 -   4237731 gcaacacatatatctaataagggaacagtaaccagactatataaagaactcttccactttgacaataaaaagatgaatatcgcaattaaaagtggag-aa-----------------------------------------------------aggattt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      326293 106 -   1175262 gcaacacatatatctgataagggaacagtaaccagactatataaagaactcttccactttgacaataaaaagatgaatatcccaattaaaagtggag-aa-----------------------------------------------------aggattt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123672227  93 - 204313951 gcaacacatatatctgataac--------------tttatacgaataattctttcactttgacaataaaaagacaaatatcccaattaaaagtggggaaa-----------------------------------------------------atgattt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55715900  84 -  71252344 gcaacacatatatctgataac--------------tttatacaaagaattcttt---------aataaaaagacaaatgtcacaattaaaagtggggaaa-----------------------------------------------------atgattt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       18802  93 -   3089952 gcaacacatatatctgctaac--------------tttatacaaataattctttcactttgacaataaaaagacaaatatcccaattaaaagtggggaaa-----------------------------------------------------ataattt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13216809  91 -  42888418 gcaacacatatatctgataac----------------tatacaaataattctttcactttgacaataaaaagacaaatatcccaattaaaagtggggaaa-----------------------------------------------------atgatat
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14925337 154 +  74389097 gcaaatcatctatctgataagaatctaggattcagaatatataaaaaacttttcctactcaacaat--aaagacaatt----caattaaaaatagacaaagaaggggcaactgggtagcttagtctgttaagcatctgactttggcgcaggtcatgatct
i canFam3.chr11            C 0 I 135
e micMur3.chr12             60551325 10062 + 108143057 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e otoGar3.GL873679           3080802   0 +   4132165 C
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=2740904.000000
s hg38.chr5_KI270796v1_alt    100104 257 +    172708 gaataggcacatctcc-aaaaaagacatataagtgaccaatgagctcatgaaaagatgctgaaagttattagttattagatagatacaaatcaaaaccacaataagataccatttcatacccactaggatgtctataat----gaaaaagatg------aacaagtattgacaaggatgtggagaaatcaaaactctcgtacatttcgggtaaagatgtaaaatagttcaactgctttggaaaacattttgtcagttcctcaaaagat
s panTro5.chr5             125204179 256 + 181907262 gaataggcacatctcc-aaaaaagacatataagtgaccaatgagctcatgaaaagatgctgaaagttattagttattagatagatacaaatcaaaaccacaataagataccattttatacccactaggatgtctataat----gaaaaagatg------aacaagtattgacaaggatgtggagaaatcaaaactctcatacatttc-ggtaaagatgtaaaatagttcaactgctttggaaaacattttgtcagttcctcaaaagat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126540998 256 + 183735486 gaataggcacatctcc-aaaaaagacatataagtgaccaatgagctcatgaaaagatgctgaaagttattagttattagatagatataaatcaaaaccacaataagataccattttatacccactaggatgtctataat----gaaaaagatg------aacaagtattgacaaggatgtggagaaatcaaaactctcatacatttc-ggtaaagatgtaaaatagttcaactgctttggaaaacattttgtcagttcctcagaagat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1732556 257 +   8933513 gaataggcacatctccaaaaaaagacatataagtgaccaatgagctcatgaaaagatgctgaaagttattagttattagatagatacaaatcaaaa-cacaataagatatcatttcatacccactaggatgtctataat----gaaaaagatg------aacaagtattgacaaggatgtggagaaatcaaaactctcatacatttcgggtaaagatgtaaaatagttcaactgctttggaaaacattttgtcagttcctcaaaagat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139863576 257 + 163208435 gagtacgcatatctcc-aaaaaagacgtataagtgaccaacgagctcatgaaaagatgctgaaagttattagttattagatagatacaaatcaaaaccacaataagataccatttcatacccactaggatgtctataat----gaaaaagatg------aacaagtattgacaaggatgtggagaaatcaaaactctcatacatttcgggtaaagatgcaaaatagttcaactgctttggaaaacattttgtcagttcctcaaaagat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122852183 257 + 180051392 gaataggcatatctcc-aaaaaagacatataagtgaccaatgagctcatgaaaagatgctgaaagttattagttattagatagatacaaatcaaaaccacagtaagatagcatttcatagccactaggatgactataat----gaaaaagatg------aacaagtattgacaaggatatggagaaatcaaaactctcatacatttcaggtaaagatgtaaaatagttccactgctttggaaaacattttgtcagttcctcaaaagat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124275797 257 + 181584905 aaataggcatatctcc-aaaaaagacatataagtgaccaatgagctcatgaaaagatgctgaaagttattagttattagatagatacaaatcaaaaccacagtaagatagcatttcatagccactaggatgactataat----gaaaaagatg------aacaagtattgacaaggatatggagaaatcaaaactctcatacatttcaggtaaagatgtaaaatagttccactgctttggaaaacattttgtcagttcctcaaaagat
i macFas5.chr6             C 0 I 301
s macNem1.NW_012012355v1    16274163 257 +  18395747 gaataggcatatctcc-aaaaaagacatataagtgaccaatgagctcatgaaaagatgctgaaagttattagttattagatagatacaaatcaaaaccacagtaagatagcatttcatagccactaggatgactataat----gaaaaagatg------aacaagtattgacaaggatatggagaaatcaaaactctcatacatttcaggtaaagatgtaaaatagttccactgctttggaaaacattttgtcagttcctcaaaagat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5287102 257 +  26952557 gaatagtcatatctcc-aaaaaagacatataagtgaccaatgagcttatgaaaagatgctgaaagttattagttattagatagatacaaatcaaaaccacagtaagatagcatttcatagccactaggatgactgtaat----gaaaaagatg------aacaagtattgacaagaatatggagaaatcaaaactctcatacatttcaggtaaagatgtaaaatagttccactgctttggaaaacattttgtcagttcctcaaaagat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28388027 257 +  82825804 gaataggcatatctcc-aaaaaagacatataagtgaccaatgagctcatgaaaagatgctgaaagttattagttattagatagatacaaatcaaaaccacagtaagatagcatttcatagccactaggatgactataat----gaaaaagatg------aacaagtattgacaaggatgtggagaaatcaaaactctcatacatttcaggtaaaggtgtaaaatagttccactgctttggaaaacattttgtcagttcctcaaaagat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4056914 257 -   4237731 gaatagtcatatctcc-aaaaaagacatataagtgaccaatgagctcatgaaaagatgctgaaagttattagttattagatagatacaaatcaaaaccacagtaagatagcatttcatagccactaggatgactgtaat----gaaaaagatg------aacaagtattgacaagaatatggagaaatcaaaactctcatacatttcaggtaaagatgtaaaatagttccactgctttggaaaacattttgtcagttcctcaaaagat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      326399 257 -   1175262 caataggcatatctcc-agaaaagacatataagtgaccaatgagctcatgaaaatatgctgatagttattagttattagatagatacaaatcaaaacgacagtaagatagcatttcatagccactaggatgactataat----gaaaaagatg------aacaagtattgacaaggatgtgcagcaatcaaaactctcatacattttgggtaaagatttaaaatagttccactgctttgggaaacattttgtcagttcctcaaaagat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123672320 257 - 204313951 gaataggcataggtcc-aaaaaatacaaataagtgaccaataagctcatgaaaagatgctcaaagttatcagctactagatagatacaaatcaaaaccacaataagatacaatttcctacccactaggatgactataat----gaaaaagatg------aacaagtattgacaaggatgtggagaaattgaaacttttatacattttgtgtaaaaatgtaaaagaattcaactgctttggaaaacatgttgtcagttcctcacaagat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55715984 252 -  71252344 gaatagtcataggtcc-aaaaaatacatataagtgaccaataagctcatgaaaaggtgctcaaagttattagttactagatagatacaaatcaaaaccacaataagataccatttcctacccactagggtgactataat----gaaaaagatg------aacaagtattgacaaggatgtggaga-----aaactctcatacatgttgtgtaaaaatgtaaaatgattcaactgctttagaaagcattttgtcagttcctcacaatat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       18895 257 -   3089952 gaatagccgtaggtcc-aaaaaatacatgtaagtgaccaataagctcatgaaaagatgctcaaagttattagttactagatagatacaaatcaaaaccacaataagataccatttcctacccactaggatgactataat----gaaaaagatg------aacaagtattgacaaggatgtggagaaatcaaaactctcatacatgttgcgtaaaaatgtaaaataattcaactgctttggaaaacattttgtcagtttctcacaagat
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13216900 257 -  42888418 gaatgggcataggtcc-aaaaaatacatataaatgaccaataagctcatgaaaagatgctcaaagttattagttactagatagatacaaatcaaaaccacaataagataccatttcctacccactaggatgattataat----gaaaaagatg------aacaagtattgacaaggatgtggagaaatcaaaactctcatacattttgtctaaaaatgtgaaataattcaactgctttggaaaacattttgtcagttcctcacaagat
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14925626 263 +  74389097 gaataaacacttatcc-aaaaaagac--acaaatgacaaataagcccatgaaaagatgttcaaaataat--gttatcagataaatacaaatcaaagccacagtaagattccactttacatgcactaggatggctacaataaaaaaaaaagatggacaatagcaagtgttgatgaggatgtggagtaattgaagctcacatacattgctcttgagaatataaaatagagcaactgctttggaaagtattttggcagttcttccaaaagt
i canFam3.chr11            I 135 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e otoGar3.GL873679           3080802   0 +   4132165 C
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=130502.000000
s hg38.chr5_KI270796v1_alt    100361 12 +    172708 -aaacatagtatt
s panTro5.chr5             125204435 12 + 181907262 -aaacatagtatt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126541254 12 + 183735486 -aaacatagtatt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1732813 12 +   8933513 -aaacatagtatt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139863833 12 + 163208435 -aaacatagtgtt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122852440 12 + 180051392 -aaacatagtgtt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124276355 12 + 181584905 -aaacatagtgtt
i macFas5.chr6             I 301 C 0
s macNem1.NW_012012355v1    16274420 12 +  18395747 -aaacatagtgtt
i macNem1.NW_012012355v1   C 0 I 272
s cerAty1.NW_012002512v1     5287359 12 +  26952557 -aaacatagtgtt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28388284 12 +  82825804 -aaacatagtgtt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4057171 12 -   4237731 -aaacatagtgtt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      326656 12 -   1175262 -aaacatagtgtt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123672577 12 - 204313951 -aaatacagtgtt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55716236 12 -  71252344 -aaacatagtgtt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       19152 12 -   3089952 -aaacatagtgtt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13217157 12 -  42888418 -aaacatagtgtt
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14925889 12 +  74389097 taaac-tagtgct
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e otoGar3.GL873679           3080802  0 +   4132165 C
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=12376.000000
s hg38.chr5_KI270796v1_alt    100373 1 +    172708 a
s panTro5.chr5             125204447 1 + 181907262 a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126541266 1 + 183735486 a
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1732825 1 +   8933513 a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139863845 1 + 163208435 a
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122852452 1 + 180051392 a
i rheMac8.chr6             C 0 I 310
s macFas5.chr6             124276367 1 + 181584905 a
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16274704 1 +  18395747 a
i macNem1.NW_012012355v1   I 272 C 0
s cerAty1.NW_012002512v1     5287371 1 +  26952557 a
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28388296 1 +  82825804 a
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4057183 1 -   4237731 a
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      326668 1 -   1175262 a
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123672589 1 - 204313951 a
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55716248 1 -  71252344 a
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       19164 1 -   3089952 a
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13217169 1 -  42888418 a
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14925901 1 +  74389097 a
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e otoGar3.GL873679           3080802 0 +   4132165 C
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=16257.000000
s hg38.chr5_KI270796v1_alt    100374 3 +    172708 ccg
s panTro5.chr5             125204448 3 + 181907262 ctg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126541267 3 + 183735486 ctg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1732826 3 +   8933513 ccg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139863846 3 + 163208435 cca
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124276368 3 + 181584905 cca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16274705 3 +  18395747 cca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5287372 3 +  26952557 ccg
i cerAty1.NW_012002512v1   C 0 I 302
s chlSab2.chr23             28388297 3 +  82825804 cca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4057184 3 -   4237731 ccg
i manLeu1.NW_012103321v1   C 0 I 303
s colAng1.NW_012119644v1      326669 3 -   1175262 cca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123672590 3 - 204313951 tca
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55716249 3 -  71252344 tca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       19165 3 -   3089952 tca
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13217170 3 -  42888418 tca
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14925902 3 +  74389097 cta
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e rheMac8.chr6             122852453 310 + 180051392 I
e otoGar3.GL873679           3080802 0 +   4132165 C
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=45735.000000
s hg38.chr5_KI270796v1_alt    100377 5 +    172708 tacaa
s panTro5.chr5             125204451 5 + 181907262 tacaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126541270 5 + 183735486 tacaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1732829 5 +   8933513 tacaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139863849 5 + 163208435 gacaa
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124276371 5 + 181584905 tacaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16274708 5 +  18395747 tacaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5287677 5 +  26952557 tacaa
i cerAty1.NW_012002512v1   I 302 C 0
s chlSab2.chr23             28388300 5 +  82825804 tacaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4057490 5 -   4237731 tacaa
i manLeu1.NW_012103321v1   I 303 C 0
s colAng1.NW_012119644v1      326672 5 -   1175262 tacaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123672593 5 - 204313951 tacaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55716252 5 -  71252344 tacaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       19168 5 -   3089952 tacag
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13217173 5 -  42888418 tacaa
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14925905 5 +  74389097 taaga
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e rheMac8.chr6             122852453 310 + 180051392 I
e otoGar3.GL873679           3080802 0 +   4132165 C
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=4132395.000000
s hg38.chr5_KI270796v1_alt    100382 395 +    172708 cccagaaattccactcctaggtatatggtcaagaaaatggaaaacatatgtgcacacataaacttgtacatgaatgttcatagaagcattattcataatagccaaaaagtggaaacaacccagatgtcaatcaactgataaatgaaccaacaaaacttggcaca---accatgcaacattattcatccataaaaagaaatgaagtattgatacatgctacaacatggacaacatttccaaatattatactaagtgaaagaaggcag-aataaaaggccatgtgttgtgtgattccatttacgtgaaatacccagaatatgtaaatctccatagagataggaagtagattaatggtcaccagagcctgtgaggaggaaggaatgaagagt-gacagct----------------G-T-T
s panTro5.chr5             125204456 395 + 181907262 cccagaaattccactcctaggtatatggtcaagaaaatggaaaacatatgtgcacacataaacttgtacatgaatgttcatagaagcattattcataatagccaaaaagtggaaacaacccagatgtcaatcaactgataaatgaaccaacaaaacttggcaca---accatgcaacattattcatccataaaaagaaatgaagtattgatacatgctacaacatggacaacatttccaaatattatactaagtgaaagaaggcag-aataaaaggccatgtgttgtgtgattccatttacgtgaaatacccagaatatgtaaatctccatagagataggaagtagattaatggtcaccagagcctgtgaggaggaaggaatgaagagt-gacagct----------------G-T-T
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126541275 395 + 183735486 cccagaaattccactcctaggtatatggtcaagaaaatggaaaacatatgtgcacacataaacttgtacatgaatgttcatagaagcattattcataatagccaaaaagtggaaacaacccagatgtcaatcaactgataaatgaaccaacaaaacttggcaca---accatgcaacattattcatccataaaaagaaatgaagtattgatacatgctacaacatggacaacatttccaaatattatactaagtgaaagaaggcag-aataaaaggccatgtgttgtgtgattccatttacgtgaaatacccagaatatgtaaatctccatagagataggaagtagattaatggtcaccagagcctgtgaggaggaaggaatgaagagt-gacagct----------------G-T-T
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1732834 395 +   8933513 cccagaaattccactcctaggtatatggtcaagaaaatggaaaacatatgtgcacacataaacttgtacatgaatgttcatagaagcattattcataatagccaaaaagtggaaacaacccagatgtcaatcaactgataaatgaaccaacaaaacttggcaca---atcatgcaacattattcatccataaaaagaaatgaagtattgatacatgctacaacatggacaacatttccaaatattatactaagtgaaagaaggcag-aataaaaggccatgcgttgtgtgattccatttacgtgaaatacccagaatatgtaaatctccatagagataggaagtagattaatggtcaccagagcctgtgaggaggaaggaatgaagagt-gacagct----------------G-T-T
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139863854 394 + 163208435 cccagaaattccactcctgggtatatggtcaagaaaatagaaaacatatgttcacacataaacttgtacatgaatgttcatag-agcattattcataatagctaaaaagtggaaacaacccagatgtcaatcaactgataaatgaaccaacaaaacttggcaca---accatgcaacattattcatccataaaaagaaatgaagtattgatatacgatacaacacggacaacatttccaaatattatactaagtgaaagaaggcac-aataaaaggccatgtgttgtgtgattccatttacgtgaaatacccagaatatgtaaatctccgtagagatacgaagtagattaatggtcaccagagcctgtgaggaggaaggaatgaagagt-gacagct----------------G-T-T
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122852763 410 + 180051392 cccagaaattccactcctaggtatatggtcaagaaaatggaaaacatatgttcacacataaacttgtacatgaatgttcatagaagcattaatcataatagccaaaaagtggaaacaaaccagatgtcaatcaactgataaatgaaccaacaaaatgtggcacg---accatgcaacattattcgtccataaaaagaaatgaagtatcgttatgtgctacaacatggacaacatttccaaatattataataagtgaaagaaggcag-aataaaaggccatgttttgtgtggttccatttacatgaaatacccagaatatgtaaatctccatagagataggaagtagattaatggtcaccagagcctgtgagaa-gaaggaatgaagagt-gacagctattggataaagggtggg-t-t
i rheMac8.chr6             I 310 C 0
s macFas5.chr6             124276376 410 + 181584905 cccagaaattccactcctaggtatatggtcaagaaaatggaaaacatatgttcacacataaacttgtacatgaatgttcatagaagcattattcataatagccaaaaagtggaaacaaaccagatgtcaatcaactgataaatgaaccaacaaaatgtggcacg---accatgcaacattattcatccataaaaagaaatgaagtatcgttatgtgctacaacatggacaacatttccaaatattataataagtgaaagaaggcag-aataaaaggccatgtgttgtgtggttccatttacatgaaatacccagaatatgtaaatctccatagagataggaagtagattaatggtcaccagagcctgtgagaa-gaaggaatgaagagt-gacagctattggataaagggtggg-t-t
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16274713 410 +  18395747 gccagaaattccactcctaggtatatggtcaagaaaatggaaaacatatgttcacacataaacttgtacatgaatgttcatagaagcattattcataatagccaaaaagtggaaacaaaccagatgtcaatcaactgataaatgaaccaacaaaatgtggtacg---accatgcaacattattcatccataaaaagaaatgaagtatcgttatgtgctacaacatggacaacatttccaaatattataataagtgaaagaaggcag-aataaaaggccatgtgttgtgtggttccatttacatgaaatacccagaatatgtaaatctccatagagataggaagtagattaatggtcaccagagcctgtgagaa-gaaggaatgaagagt-gacagctattggataaagggtggg-t-t
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5287682 411 +  26952557 cccagaaattccactcctaggtatatggtcaagaaaatggaaaacatatgttcacacataaacttgtacatgaatgttcatagaagcattattcataatagccaaaaagtggaaacaaaccagatgtcaatcaactgataaatgaaccaacaaaatgtggcacg---accatgcaacattattcatccataaaaagaaatgaagtatcgttatgtgctacaacatggacaacatttccaaatattataataaatgaaagaaggcag-aataaaaggccatgtgttgtgtgattccatttacatgaaatacccagaatatgtaaatctccatagagataggaagtagattaatggtcaccagagcctgtgagaaggaaggaatgaagagt-gacagctattggataaagggtggg-t-t
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28388305 412 +  82825804 cccagaaattccactcctaggtatatggtcaagaaaatggaaaacatatgttcacacataaacttgtacatgaatgttcatagaagcattattcataatagccaaaaagtggaaacaacccagatgtcaatcaactggaaaatgaaccaacaaaatgtggcacg---accatgcaacattattcatccataaaaagaaatgaagtattgttatgtgctacaacatggacaacatttccaaatattataataagtgaaagaaggcag-aataaaagaccatgtgttgtgtgattccatttacatgaaatacccagaatatgtaaatctccatagagataggaagtagattaatggtcaccagagcctgtgagaaggaaggaatgaagagt-gacagctattggataaagggtgggtt-t
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4057495 411 -   4237731 cccagaaattccactcctaggtatatggtcaagaaaatggaaaacatatgttcacacataaacttgtacatgaatgttcatagaagcattattcataatagccaaaaagtggaaacaaaccagatgtcaatcaactaataaatgaaccaacaaaatgtggcacg---accatgcaacattattcatccataaaaagaaatgaagtgtcgttatgtgctacaatatggacaacatttccaaatattataataaatgaaagaaggcag-aataaaaggccatgtgttgtgtgattccatttacatgaaatacccagaatatgtaaatctccatagagataggaagtagattaatggtcaccagagcctgtgagaaggaaggaatgaagagt-gacagctattggataaagggtggg-t-t
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      326677 411 -   1175262 cccagaaattccactcctgggtgtatggtcaggaaaatggaaaacatatgttcacacataaacttgtacatgaatgttcataaaagcattattcataatagccaaaaagtggaaacaacccagatgtcaatcaactgataaatgaaccaacaaaatgtggcacg---accatgcaacattattcatccataaaaagaaatgaagtattgttacgtgctacaacatggacaacatttccaaatattataataagtgaaagaaggcag-aataaaaggccatgtgttgtgtgattccatttacatgaaatacccagaatatgtaaatatccatagagataggaagtagattaatggtcaccagagcctttgagaaggaaggaatgaagagt-gacagctattggataaagggtggg-t-t
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123672598 408 - 204313951 cccagaaatttcactccaaggtatacagtcaagagaatggaaaacatatgttcacacaaaaacttgtacataaatgttcatagaagcattattcttaatagccaaaaagtggaaacaactcaaatgttaatcaactgataaataaaccagcaaaacgtggcaca---accagacaacattattcatccataaaaggaaatgacatattgatacgagctacaacatggacaacatttccaaatattacactacgtgaaagaaggcag-aataaaaggccatgtgt--tgtgatttcatttatgtgaaa-atacagaatatgtaaatctccatagagaaaagaggtagattaatggtcaccagagcctgtgagggggaaggagtgaggagt-gacagctgttgaataaagggtggg-a-t
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55716257 405 -  71252344 cccagaaatttcactccaaggtatatagtcaagagaatggaaaacatatgttcacacaaaaacttgtacataaatgttcatagaagcattattcataatagccaaaaagtggaaacaactcaaatgtcaatcaactgacaaatgaaccagcaaaacgtgg--ca---accatgcaacattattcatccataagaagaaatgatgtattgatacgtgctacaacatggacaacatttccaaatat---actgtgtgaaagaaggcagaaaaaaaaggccatgtgt--tgtgatttcatttatgtgaaatatccagaatatgtaaatatccatagagaaaagaagtagattaatggtcaccagagcctgtgaggaagaaggagtgaggagt-gacagctgttgaataaaggatggg-a-t
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       19173 402 -   3089952 cccagaaatatcactccaaggtatatagtcaagagaatggaaaacatatgttcacacaaaaacttgtacgtaaatgttcatagaagcactattcatgatagccaaaaggtggaaacaactcaaatgtcaatcaactgataaatgaaccagcaaaacgtgg--ca---accatgcaacattattcatccataaaaagaaatgacgtattgatacgtgctacaacatgg---acatttccaaatattatactatgtgaaagaaggcag-aataaaaggccatgtgt--tgtgatttcatttatatgaaatatccagaatatgtaaatctccatagag-aaagaagtagattaatggtcaccagagcctgtgagg-agaaggagtgaggagt-gacagcttttgaataaaaggtggg-a-t
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13217178 410 -  42888418 cccagaaatttcactccaaggtatatagtcaagagaatagaaaacatatgttcacacaaaaagttgtacataaatgttcatagaagcattattcataatagccaaaaagtggaaacaactcaaatgtcaatcaactgataaatgaaccagcaaaatgtggtaca---accatggaacattattcatccgtaaaaagaaatggcgtactgatacatgctacaacatggacaacatttccaaatattatactacgtgaaagaaggcag-aataaaaggccatgtgt--catgatttcatttatgtgaaatatccagaatatgtaaatctccatagagaaaagaagtagattaatggtcaccagagcctgtgaggaggaaggagtgaggagt-gacagctgttgaataaagggtggg-att
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14925910 365 +  74389097 tccaacaattctattcctagatacatagttgaaa-----------acatgctcacctaaaaacttgtatatgaatattcatagtaacattattcataagggccaaaagttagaaataactcaaatgtccctcaactaatgaatgggtaaacaaaatatggtatacatataacagaatattattcattcacaaaaatgagtgaagtat-ggtatacaccataatatagacaaatctttcaaactttacacta----aaaaaagccat-aataaaaggccatatattgtac----------------aatacccagagcaggtaag--tccactgaaacaaaaagtagatcagtggctacctgtggctggaaggaaggaggaattggaactgGAGAGTTGTT------------------
i canFam3.chr11            C 0 I 34
e micMur3.chr12             60551325 10062 + 108143057 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e otoGar3.GL873679           3080802   0 +   4132165 C
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=6575634.000000
s hg38.chr5_KI270796v1_alt    100777 724 +    172708 -----------GTGATGAGAATATTCTGGATTATATCTTTTACAATGTTACAAACTATAAGTTAGTACTATATATACAGGGTTGAGATTATATATGTGTGcacacacacacac--atacacacttacacataca----------------------TGgttaagccttgaacaacatgcgggttaagaatgctgaccctccacatagtcaaaaatttctgtataattttgactttccagaaacttaacttatagcctcctgttgatcagcagaagccttaccgataacctaaaca----attaacacataatttgtatgttgtatgtattatatgctgtattcttataataaagtaatctagagaaaagaaaatgttattaagaaagtcataaggaagagaaaatatatttactattcattaaacagaagtgaatcatcataaagaccttcaggccaggcacactggctcaaatctgtaat-cccagcactttgggaggctgagatgggagaattgtctgaggccaggagttcaggaccagcctgggcaacatagtgtgactccttctctacaa-tttttttt-taattaaaaaaagaaaaagatctttatcctcatcatcttcatattgagtgtgttgaggagatggaggaagaagaggggttggtcttgctatctcaagggtgggagaggtggaagaaaatccacgtgtaagtggacctgtgcagttcaaacctatgttgttcaggggtcaactATATATTTAT
s panTro5.chr5             125204851 723 + 181907262 -----------GTGATGAGAATATTCTGGCTTATATCTTTTACAATGTTACAAACTATAAGTTAGTACTATATATACAGGGTTGAGATTATATATGTGTGcacacacacacac--aaacacacttacacataca----------------------TGgttaagccttgaacaacatgggggttaagaatgctgaccctccacatagtcaaaaatttatgtataattttgactttccagaaacttaactaatagcctactgttgatcagcagaagccttaccgataacctaaaca----attaacacataatttgtatgttgtatgtattatatgctgtattcttataataaagtaatctagagaaaagaaaatgttgttaaaaaagtcataaggaagagaaaatatatttactattcattaaacagaagtgaatcatcataaagaccttcaggccaggcacactggctcaaatctgtaat-cccagcactttgggaggctgagatgggagaattgtctgaggccaggagttcaggaccagcctgggcaacatagtgtgactccttctctacaa--ttttttt-taattaaaaaaagaaaaagatctttatcctcatcatcttcatattgagtgtgttgaggagatggaggaagaagaggggttggtcttgctatctcaagggtgggagaggtggaagaaaatccacgtgtaagtggacctgtgcagttcaaacctatgttgttcaggggtcaactATATATTTAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126541670 719 + 183735486 -----------GTGATGAGAATATTCTGGCTTATATCTTTTACAATGTTACAAACTATAAGTTAGTACTATATATACAGGGTTGAGATTATATATGTGTGcacacacacacac----acacacttacacataca----------------------TGgttaagccttgaacaacatgggggttaagaatgctgaccctccacatagtcaaaaatttatgtataattttgactttccagaaacttaactaatagcctactgttgatcagcagaagccttaccgataacctaaaca----attaacacataatttgtatgttgtatgtattatatgctgtattcttataataaagtaatctagagaaaagaaaatgttgttaagaaagtcataaggaagagaaaatatatttactattcattaaacagaagtgaatcatcataaagaccttcaggccaggcacactggctcaaatctgtaat-cccagcactttgggaggctgagatgggagaattgtctgcggccaggagttcaggaccagcctgggcaacatagtgtgactccttctctacaa---tttttt-taatt-aaaaaagaaaaagatctttatcctcatcatcttcatattgagtgtgttgaggagatggaggaagaagaggggttggtcttgctatctcaagggtgggagaggtggaagaaaatccacgtgtaagtggacctgtgcagttcaaacctatgttgttcaggggtcaactATATATTTAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1733229 726 +   8933513 -----------GTGATGAGAATATTCTGGATTATATCTTTTACAATGTTACAAACTATAAGTTAGTACTATATATACAGGGTTGAGATTATATATGTGCGcacacacacacacacatacacacttacacataca----------------------TGgttaagccttgaacaacatgggggttaagaatgctgaccctccacatagtcaaaaatttatgtataattttgactttccagaaacttaactaatagcctactgttgatcagaagaagccttaccgataacctaaaca----attaacacataatttgtatgttgtatgtattatatgctgtattcttataataaagtgatctagagaaaagaaaatgttattaagaaagtcataaggaagagaaaatatatttactattcattaaacagaagtgaatcatcataaagaccttcaggccaggcaccctggctcaaatctgtaat-cccagcactttgggaggctgagatgggagaattgtctgaggccaggagttcaggaccagcctgggcaacatagtgtgactccttctctacaa-tttttttt-taattaaaaaaagaaaaagatctttatcctcatcatcttcatattgagtatgttgaggagatggaggaagaagaggggttggtcttgctatctcaagggtgggagaggtggaagaaaatccacgtgtaagtggaccagtgcagttcaaacctatgttgttaaggggtcaactATATATTTAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139864248 721 + 163208435 -----------GTGATGAGAATATTCTGGATTATATCTTTTACAATGTTACAAACTATAATTTAGTACTATATATACAGGTTTGAGGTTATATATGTGcacacacacacacac--aaacacacttacacataca----------------------Tagttaagccttgaacaacatgggggttaagaatgctgaccctccacatagtcaaaaatttatgtataattttgactttccagaaacttaactaatagcctactgttgatc---agaagccttactgataacctaaaca----attaacacatattttgtatgttgtatgtattatatgctgtattcttataataaagtaatctagagaaaagaaaatgttattaagaaagttataaggaagagaaaatatatttactattcattaaacagaagtgaatcatcataaagaccttcaggccaggcacagtggctcacgtctgtaat-cccagcactttgggaggctgagatgggagaattgtctgaggccaggagttcaggaccagcctgggcaacatagtgagactccttctctaCAA-TTTTTTTT-TAATTAAAAAAAGAAaaagatctttgtcctcatcatcttcacattgagtaggttgaggagatggaggaagaagagaggttggtcttgctatctcaagggtggcagaggtagaagaaaatccatgtataagtggacctgtgcagttcaaacctatgttgttcaggggtcaactATATATTTAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122853173 716 + 180051392 tttttggtggagtgatggcaatattctgGATTATATCTTGTACAATGTTACAAACTATACGTTAATACTATATATACAGGGTTGAGATTACATACGTG--------CACACAC----ACACTCTTACACATATA----------------------TGgttaacccttgaacaacatgggggttgagaatgctgaccctccgcatagtcaaaaatatatgtataattatgactttccagaaacttaactaatagcctactggtgatc---agaagccttactgataacctaaacaattgattaactcatactttgtatgttgtatgtattatatgctgtattcttataata-----atctagacaaaagaaaatgttatgaagaaagtcataaggaagataaaatacatttactattcattaagcagaagtgaatcatcataaagaccttcaggccaggcacagtggctcacgtctgtaat-cccagcactttgggaagctgaggtgggagaattgtctgaggccaagagttcaggaccagcctggacaac--agtgagaatccttctctacaa-TTTTTTTT----TTAATTAAAGAGaaagatctttatcttcattatcttcacattgagtaggttgaggagatggaggaagaagaggggttggtcttgctatctcaagtgtggcagaggtagaagaaaatccatgtataagtggacctgtgcagttcaaacctatgttgttcaggggtcaactATATATTTAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124276786 716 + 181584905 tttttggtggagtgatggcaatattctgGATTATATCTTGTACAATGTTACAAACTATACGTTAATACTATATATACAGGGTTGAGATTACATACGTG--------CACACAC----ACACTCTTACACATATA----------------------TGgttaacccttgaacaacatgggggttgagaatgctgaccctccgcatagtcaaaaatatatgtataattatgactttccagaaacttaactaatagcctactggtgatc---agaagccttactgataacctaaacaattgattaactcatactttgtatgttgtatgtattatatgctgtattcttataata-----atctagacaaaagaaaatgttatgaagaaagtcataaggaagataaaatacatttactattcattaagcagaagtgaatcatcataaagaccttcaggccaggcacagtggctcacgtctgtaat-cccagcactttgggaagctgaggtgggagaattgtctgaggccaagagttcaggaccagcctggacaac--agtgagaatccttctctacaa-TTTTTTTT----TTAATTAAAGAAaaagatctttatcttcattatcttcacattgagtaggttgaggagatggaggaagaagaggggttggtcttgctatctcaagtgtggcagaggtagaagaaaatccatgtataagtggacctgtgcagttcaaacctatgttgttcaggggtcaactATATATTTAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16275123 716 +  18395747 tttttggtggagtgatggcaatattctgGATTATATCTTGTACAATGTTACAAACTATACGTTAATACTATATATACAGGGTTGAGATTACATACGTG--------CACACAC----ACACTCTTACACATATA----------------------TGgttaacccttgaacaacatgggggttgagaatgctgaccctccgcatagtcaaaaatatatgtataattatgactttccagaaacttaactaatagcctactggtgatc---agaagccttactgataacctaaacaattgattaactcatactttgtatgttgtatgtattatatgctgtattcttataata-----atctagacaaaagaaaatgttatgaagagagtcataaggaagataaaatacatttactattcattaagcagaagtgaatcatcataaagaccttcaggccaggcacagtggctcacgtctgtaat-cccagcactttgggaagctgaggtgggagaattgtctgaggccaagagttcaggaccagcctggacaac--agtgagaatccttctctacaa-TTTTTTTT----TTAATTAAAGAAaaagatctttatcttcattatcttcacattgagtaggttgaggagatggaggaagaagaggggttggtcttgctatctcaagtgtggcagaggtagaagaaaatccatgtataagtggacctgtgcagttcaaacctatgttgttcaggggtcaactATATATTTAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5288093 715 +  26952557 tttttggtggagtgatgggaatattctgGATTATATCTTGTACAATGTTACAAACTATACGTTAATACTACATATACAGGGTTGAGATTACATACGTG--------CACACAC----ACACTCTTACACATATA----------------------TGgttaactcttgcacaacatgggggttaagaatgctgaccctctgcatagtcaaaaatgtatgtataattatgactttccagaaact----taatagcctactgatgatc---agaagccttactgataacctaaacaattgattaactcatattttgtatgttgtatgtattatatgctgtattcttataata-----atctagagaaaagaaaatgttatgaaggaagtcataaggaagataaaatacatttactattcattaagcagaagtgaaccatcataaagaccttcaggccaggcacagtggctcacgtctgtaat-cccagcactttgggaagctgaggtgggagaattgtctgaggccaagagttcaggaccagcctggacaac--agtgagactccttctctacaa-TTTTTTTT-TAATTAAAAAAAGAAaaagatctttatcttcgttatcttcacattgagtaggttgaggagatggaggaagaagaggggttggtcgtgctatctcaagtgtggcagaggtagaagaaaatccatgtataagtggacctgtgcagttcaaacctatgttgttcaggggtcaactATATATTTAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28388717 719 +  82825804 tttttggtggagtgatggcaatattctgGATTATATCTTGTACAGTGTTACAAACTATACGTTAATACTATATATACAGGGTTGAGATTATATACGTG--------CACACAC----ACACACTTACACATATA----------------------TGgttaacccttgaacaacatgggggttaagaatgctgaccctccgcatagtcaaaaatgtatgtataattatgactttccagaaacttaactaatagcctactgatgatc---agaagccttcctgataacctaaacaattgattaactcatactttgtatgttgtatgtattatatgctgtattcttataata-----atctagagaaaagaaaatgttatgaagaaagtcataaggaagataaaatacatttactatttattaagcagaagtgaatcatcataaagaccttcaggccaggcacagtggctcatgtctgtaat-cccagcactttgggaagctgaggtgggagaattgtctgaggccaagagttcaggaccagcctggacaac--agtgagactccttctctacaa-TTTTTTTT-TAATTAAAAAAAGAAaaagatctttatcttcattatcttcacattgagtgggttgaggagatggaggaagaagaggggttggtcttgctatctcaagtgtggcagaggtagaagaaaatccatgtataagtggacctgtgcagttcaaacctatgttgttcaggggtcaactATATATTTAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4057906 716 -   4237731 tttttggtggagtgatgggaatattctgGATTATATCTTGTACAATGTTACAAACTATACGTTAATACTACATATACAGGGTTGAGATTACATACGTG--------CACACAC----ACACTCTTACACATATA----------------------TGgttaactcttgcacaacatgggggttaagaatgctgactctctgcatagtcaaaaatgtatgtataattatgactttccagaaact----taatagcctactgatgatc---agaagccttactgataacctaaacaattgattaactcatattttgtatgttgtatgtattatatgctgtattcttataata-----atctagagaaaagaaaatgttatgaaaaaagtcataaggaagataaaatacatttactattcattaagcagaagtgaatcatcatacagaccttcaggccaggcacagtggctcacgtctgtaat-cccagcactttgggaagctgaggtgggagaattgtctgaggccaagagttcaggaccagcctggacaac--agtgagactccttctctacaaTTTTTTTTT-TAATTAAAAAAAGAAaaagatctttatcttcgttatcttcacattgagtaggttgaggagatggaggaagaagaggggttggtcgtgctatctcaagtgtggcagaggtagaagaaaatccatgtataagtggacctgtgcagttcaaacctatgttgttcaggggtcaactATATATTTAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      327088 711 -   1175262 tttttgttggagtgatgggaatattctgGATTATATCTTGTACAATGTTACGAACTATACGTTAGTACTATATATACAGGGTTGAGATTATATACGTG--------CACACAC----ACACTCTTACACATACA----------------------TGgttaacccttgaacaacatgggggttaagaatgctgaccctccgcattgtcagaaacgtatgtataattatgactttccagaaacttaactaatagcctactgatgatc---agaagccttactgataacctaaacaattgattgactcatattttgtatgttgtatatattatatgctgtatgctgataata-----atctagagaaaagaaaatgttacgaagaaagtcataaggaagataaaatacatttactattcattaagcagaagtgaatcatcataaagagcttcaggccaggcacagtggctcacatctgtaat-cccagcactttgggaagctgaggtgggagaattgtctgaggccaagagttcaggaccagcctggacaac--agtgagattc---ctctacaa-TTTTTTTTTTAATTAAAAAAAGAAAAA------TatcttcattatcttcacattgagtaggttgaggagatggaggaagaagaggggtcggtcttgctatctcaggtgtggcagaagtagaagaaaatccaggtataagtggacctgtgcagttcaaacctacgttattcaggggtcaactgTATATTTAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123673006 718 - 204313951 tttttaggggagtgatgagaatattttgGATTATATCTTGTGCAATGTTA-AAACTATAA-TTAGTACTATGTATACAGGGCTGAGATTA------TGGATacacacacacac----acacacacacacacacacacacaTCC---------------gttgacccttgaacaatatgggagttaaaaatgctgaccctccacacagtcaaaaatttatgtctaattttgacctttcagaaatttatctagtagcctattgttgatc---agaaggcttaccaataacctaaacaactgattaacacgtattttgtgtgttgtatgtattatatactatattcccataa-----taatctagagaaaagaaaatgtt----agagagttataaggaagagaaaatatatttcctattcattaagcagaagtgagtcatcataaagaccttcaggctgggcacagtggttcacgtctgtaatccccaggactttgggagactgagatgggaaaattgcttgaggccaggagttcaagaccagcctgggaaacatagtgagactccttctatacaa--ttttttt-aacttgaaaaa------aaatctttatcctcatcatcttcacattgagtaggctgaggagatggaggaagaagaggggttggtcttattatctcaagggtggcagaggtggaagaaaatccacgtataagtggacctgcgcagttcaaacttatgttgttcaggggtcaactATATATTTAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55716662 732 -  71252344 tttttaggggaatgatgagaatcttctgGATTATATCTTGTGCAATGTTA-AAACTATAA-CTAGTACTATGTATACAGGATTGAGATTATATATGTGAacacacacacacac----acacacacacacacacacacacacacacttacacatacaTGgttgacccttgaacaatataggggttaaaaatgctgaccctccacacagtcaaaaatttatgtataattttgacctttcagaaacttatctagtagcctattgttgatc---agaagccttaccaataacgtaaacaactgattaacacatattttgtatgttgtatgtattatatactatattcgtataataaagtaatctagagaaaagaaaatgtt----agagagt---------------atatatttactattcactaagcagaagtgagtcatcataaagaccttcaGCctgggcacagtggctcatgtctgtaat-tccagcactttgggagactgagatgggaaaattgcttgaggccaggagttcaagaccagcctgggaaacatagtgagactccttctctaCAA--TTTTTTT-TAACTAAAAAA--GAAGAAATAtttatcctcatcatcttcacattgaataggttgaggagatggaggaagaagaggggttggtcttactctctcaagggtggcagaggtggaagaaaatccatgtataagtggacctgtgcagttcaaacttatgttgtgcaggggtcaactATATATTTAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       19575 746 -   3089952 tttttaggggagtgatgagaatattctgGATTATATCTTGTGCAATGTTA-AAACTATAA-TTAGTACTATGTATACAGGGTTGAGATTATATATGTGcacacacacacacac----acacgcacgcacacacacacacacacaGTTACACATACATGgttgacccttgaacaatataggggttaaaaatgctgaccctccacacagtcaaaaatttatgtttaattttgacctttcagaaacttacctagtagcctgttgttgatc---agaagccttacggataacctaaacaactgattaacacatattttgtatgttgtatgtattatatactatattcctataataaagtaatctagagaaaagaaaatgtt----agagagttataaggaagagaaaatatatttactattcattaagcagaagtgagtcttcataaagaccttcaAgctgggcacaatggctcacatctgtaat-cccagcactttgggagactgagatgggaaaattgcttgaggcctggagttcaagaccagcctgggaaacatagtgagactccttctatacaa--TTTTTTT-TAACTAAAAAA---AaaaaatctttatcctcatcatcttcacattgagtaggttgaggagatggaggaagaagaagggttggtcttactatctcaagggtggcagaggtggaagaaaatccatgtgtaagtggacctgtgcagttcaaacttatgttgttcaggggtcaactATATATTTAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13217588 730 -  42888418 ttttttggggtgtgataagaatattctgGATTATATCTTGTGCAATGTTA-AAACTATAA-TTAGTACTGTATATACAGGGTTGAGATTATATATGTGTacacacacacacac----acacacacacacacacTTATACA----------------TGgttgacccttgaacaatatgggggttaaaaatgctgaccctccacacagtcaaaaatttatgtataattttgacctttcagaaacttatctagtagcctattgttgatc---agaagccttaccaataacctaaacaactgattaacacatattttgtatgttgtatatattatatactatattcctataataaagtaatctagagaaaagaaaatgtt----agagagttataaagaagagaaaatatatttactattcattaagcagaagtgagtcatcataaagaccttcaggctgggtacagtggctcacgtctgtaat-cccagcactttgggagactgagatggtaaaattgcttgagactaggagttcaagaccagcctgggaaacatagtgagactccttctatacaa--TTATTTT-TAACTAAAAAA---AaaaaatctttatcctcatcatcttcacattgagtaggttgaagagatggaggaagaagaggggttggtcttactatctcaagggtggcagaggtggaagaaagtccatatgtaagtggacctgtgcagttcaaacttatgttgttcaggggtcaactATATATTTAT
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e canFam3.chr11             14926275  34 +  74389097 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e otoGar3.GL873679           3080802   0 +   4132165 C
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=12017.000000
s hg38.chr5_KI270796v1_alt    101501 8 +    172708 AAATAATT
s panTro5.chr5             125205574 8 + 181907262 AAATAATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126542389 8 + 183735486 AAATAATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1733955 8 +   8933513 AAATAATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139864969 8 + 163208435 AAATCATT
i nomLeu3.chr2             C 0 C 0
s cebCap1.NW_016107590v1       20321 8 -   3089952 AAAGAATT
i cebCap1.NW_016107590v1   C 0 I 36
s aotNan1.NW_018505940v1    13218318 8 -  42888418 AAAGAATT
i aotNan1.NW_018505940v1   C 0 I 25
e micMur3.chr12             60551325 10062 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e manLeu1.NW_012103321v1     4058622 0 -   4237731 C
e chlSab2.chr23             28389436 0 +  82825804 C
e cerAty1.NW_012002512v1     5288808 0 +  26952557 C
e macNem1.NW_012012355v1    16275839 0 +  18395747 C
e macFas5.chr6             124277502 0 + 181584905 C
e rheMac8.chr6             122853889 0 + 180051392 C
e otoGar3.GL873679           3080802 0 +   4132165 C
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I
e saiBol1.JH378106          55717394 0 -  71252344 C
e calJac3.chr2             123673724 0 - 204313951 C
e colAng1.NW_012119644v1      327799 0 -   1175262 C

a score=28494.000000
s hg38.chr5_KI270796v1_alt    101509 31 +    172708 TATGggctaacacagtgaaaccccatctcta
s panTro5.chr5             125205582 31 + 181907262 TATGggctaacacagtgaaaccccatctcta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126542397 31 + 183735486 TATGGGCTAACACAGTGAAACCCCATCTCTA
i panPan2.chr5             C 0 I 22
s gorGor5.CYUI01015135v1     1733963 31 +   8933513 TATGggctaacacagtgaaaccccatctcta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139864977 31 + 163208435 TATGggccaacacagtgaaaccccgtctcta
i nomLeu3.chr2             C 0 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e manLeu1.NW_012103321v1     4058622  0 -   4237731 C
e chlSab2.chr23             28389436  0 +  82825804 C
e cerAty1.NW_012002512v1     5288808  0 +  26952557 C
e macNem1.NW_012012355v1    16275839  0 +  18395747 C
e macFas5.chr6             124277502  0 + 181584905 C
e rheMac8.chr6             122853889  0 + 180051392 C
e otoGar3.GL873679           3080802  0 +   4132165 C
e aotNan1.NW_018505940v1    13218326 25 -  42888418 I
e cebCap1.NW_016107590v1       20329 36 -   3089952 I
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I
e saiBol1.JH378106          55717394  0 -  71252344 C
e calJac3.chr2             123673724  0 - 204313951 C
e colAng1.NW_012119644v1      327799  0 -   1175262 C

a score=88267.000000
s hg38.chr5_KI270796v1_alt    101540 175 +    172708 ctaaaagaaaatac-aaaaaaaattagccaggcctggtggtgggcgcctgtagacccagctactcgggaggctgaggcaggagaatggcgtgaacctgggaggtggagcttgcagtgagccgagattgcgccactgcactccagactaggcgacagagtgagactccatctcaaaa
s panTro5.chr5             125205613 174 + 181907262 ctaaaagaaaatac-aaaaaaaattagccgggcctggtggtgggcgcctgtagacccagctactcgggaggctgaggcaggagaatggcgtgaacctgggaggtggagcttgcagtgagccgagattgcgccactgcactccagactaggcgacagagcgagactccatctc-aaa
i panTro5.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1733994 176 +   8933513 ctaaaagaaaatacaaaaaaaaattagccaggcgtggtggtgggcgcctgtagtcccagctactcgggaggctgaggcaggagaatggcgtgaacctgggaggtggagcttgcagtgagctgagattgcaccactgcactccagactaggcgacagagcgagactccatctcaaaa
i gorGor5.CYUI01015135v1   C 0 I 3
s nomLeu3.chr2             139865008 176 + 163208435 ctaaaaaaaaatacaaaaaaatattagccgggcgtggtggtgggcgcttgtagtcccagctactcgggaggctgaggcaggagaatggcgtgaacccgggagatggagcttgcagtgagccgagatcacaccactgcactccagactgggagacagagcgagactctgcatcaaaa
i nomLeu3.chr2             C 0 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e canFam3.chr11             14926275  34 +  74389097 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e manLeu1.NW_012103321v1     4058622   0 -   4237731 C
e chlSab2.chr23             28389436   0 +  82825804 C
e cerAty1.NW_012002512v1     5288808   0 +  26952557 C
e macNem1.NW_012012355v1    16275839   0 +  18395747 C
e macFas5.chr6             124277502   0 + 181584905 C
e rheMac8.chr6             122853889   0 + 180051392 C
e otoGar3.GL873679           3080802   0 +   4132165 C
e aotNan1.NW_018505940v1    13218326  25 -  42888418 I
e cebCap1.NW_016107590v1       20329  36 -   3089952 I
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I
e saiBol1.JH378106          55717394   0 -  71252344 C
e calJac3.chr2             123673724   0 - 204313951 C
e colAng1.NW_012119644v1      327799   0 -   1175262 C
e panPan2.chr5             126542428  22 + 183735486 I

a score=8558.000000
s hg38.chr5_KI270796v1_alt    101715 11 +    172708 aaaaaaaaaaa
s panTro5.chr5             125205787 11 + 181907262 aaaaaaaaaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126542450 11 + 183735486 AAAAAAAAAAA
i panPan2.chr5             I 22 C 0
s gorGor5.CYUI01015135v1     1734173 11 +   8933513 aaaaaaaaaaa
i gorGor5.CYUI01015135v1   I 3 C 0
s nomLeu3.chr2             139865184  8 + 163208435 ---aaaaaaaa
i nomLeu3.chr2             C 0 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e manLeu1.NW_012103321v1     4058622  0 -   4237731 C
e chlSab2.chr23             28389436  0 +  82825804 C
e cerAty1.NW_012002512v1     5288808  0 +  26952557 C
e macNem1.NW_012012355v1    16275839  0 +  18395747 C
e macFas5.chr6             124277502  0 + 181584905 C
e rheMac8.chr6             122853889  0 + 180051392 C
e otoGar3.GL873679           3080802  0 +   4132165 C
e aotNan1.NW_018505940v1    13218326 25 -  42888418 I
e cebCap1.NW_016107590v1       20329 36 -   3089952 I
e dasNov3.JH567306           2640320 5863 +   3667625 I
e mm10.chr18                55523969 1587 +  90702639 I
e saiBol1.JH378106          55717394  0 -  71252344 C
e calJac3.chr2             123673724  0 - 204313951 C
e colAng1.NW_012119644v1      327799  0 -   1175262 C

a score=9555.000000
s hg38.chr5_KI270796v1_alt    101726 1 +    172708 a
s panTro5.chr5             125205798 1 + 181907262 a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126542461 1 + 183735486 A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1734184 1 +   8933513 a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139865192 1 + 163208435 a
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122853889 1 + 180051392 A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124277502 1 + 181584905 A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16275839 1 +  18395747 A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5288808 1 +  26952557 A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28389436 1 +  82825804 A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4058622 1 -   4237731 A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      327799 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123673724 1 - 204313951 A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55717394 1 -  71252344 A
i saiBol1.JH378106         C 0 C 0
s dasNov3.JH567306           2646183 1 +   3667625 A
i dasNov3.JH567306         I 5863 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e otoGar3.GL873679           3080802 0 +   4132165 C
e aotNan1.NW_018505940v1    13218326 25 -  42888418 I
e cebCap1.NW_016107590v1       20329 36 -   3089952 I
e mm10.chr18                55523969 1587 +  90702639 I

a score=237510.000000
s hg38.chr5_KI270796v1_alt    101727 30 +    172708 aagaaTT-TATGT--------TACATATACATATATATT
s panTro5.chr5             125205799 30 + 181907262 aagaaTT-TATGT--------TACATATACATATATATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126542462 30 + 183735486 AAGAATT-TATGT--------TACATATACATATATATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1734185 30 +   8933513 aagaaTT-TATGT--------TACATATACATATATATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139865193 28 + 163208435 aagaaTT---TGT--------TCCATATACATATGTATT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122853890 30 + 180051392 AAGAATT-TATGT--------TACATATGCATATATATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124277503 30 + 181584905 AAGAATT-TATGT--------TACATATGCATATATATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16275840 30 +  18395747 AAGAATT-TATGT--------TACATATGCATATATATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5288809 30 +  26952557 AAGAATT-TATGT--------TACATATGCATATATATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28389437 30 +  82825804 AAGAATT-TATGT--------TACATATGCATATATATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4058623 30 -   4237731 AAGAATT-TATGT--------TACATATGCATATATATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      327800 30 -   1175262 AAGAATT-TATGT--------TACATATGCACATATATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123673725 31 - 204313951 AAGAATTATATGT--------TATGTTTGCATATATATT
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55717395 31 -  71252344 AAGAATTATGTGT--------TATGTTTGCATATATATT
i saiBol1.JH378106         C 0 I 1
s mm10.chr18                55525556 38 +  90702639 AAGACTT-TATATCTGTACTGTGTACATGTATTTGTATT
i mm10.chr18               I 1587 I 3
s dasNov3.JH567306           2646184 31 +   3667625 AAGAATT-GATAT-------ATACACACATATATAGATT
i dasNov3.JH567306         C 0 I 3
e micMur3.chr12             60551325 10062 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e otoGar3.GL873679           3080802  0 +   4132165 C
e aotNan1.NW_018505940v1    13218326 25 -  42888418 I
e cebCap1.NW_016107590v1       20329 36 -   3089952 I

a score=98395.000000
s hg38.chr5_KI270796v1_alt    101757 13 +    172708 CTAGTTTT-----TCA--TC
s panTro5.chr5             125205829 13 + 181907262 CTAGTTTT-----TCA--TC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126542492 13 + 183735486 CTAGTTTT-----TCA--TC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1734215 13 +   8933513 CTAGTTTT-----TCA--TC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139865221 13 + 163208435 CTAGTTTT-----TCA--TC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122853920 13 + 180051392 CTAGTTTT-----TCA--TC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124277533 13 + 181584905 CTAGTTTT-----TCA--TC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16275870 13 +  18395747 CTAGTTTT-----TCA--TC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5288839 13 +  26952557 CTAGTTTT-----TCA--TC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28389467 13 +  82825804 CTAGTTTT-----TCA--CC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4058653 13 -   4237731 CTAGTTTT-----TCA--TC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      327830 13 -   1175262 CTAGTTTT-----TCA--TC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123673757 11 - 204313951 CTAGTTTT-----TTA----
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55717427 16 -  71252344 CTAGTTTTTCGTCTTA----
i saiBol1.JH378106         I 1 C 0
s aotNan1.NW_018505940v1    13218351 13 -  42888418 CTAGTTTT-----TCATC--
i aotNan1.NW_018505940v1   I 25 I 3
s mm10.chr18                55525597 13 +  90702639 CTTGTGTT-----TTG--TA
i mm10.chr18               I 3 C 0
s dasNov3.JH567306           2646218 13 +   3667625 CTAGATTT-----TTA--TC
i dasNov3.JH567306         I 3 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e otoGar3.GL873679           3080802  0 +   4132165 C
e cebCap1.NW_016107590v1       20329 36 -   3089952 I

a score=104518.000000
s hg38.chr5_KI270796v1_alt    101770  9 +    172708 ---TCTGTTCAC
s panTro5.chr5             125205842  9 + 181907262 ---TCTGTTCAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126542505  9 + 183735486 ---TCTGTTCAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1734228  9 +   8933513 ---TCTGTTCAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139865234  9 + 163208435 ---TCTGTTCAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122853933  9 + 180051392 ---TCTGTTCAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124277546  9 + 181584905 ---TCTGTTCAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16275883  9 +  18395747 ---TCTGTTCAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5288852  9 +  26952557 ---TCTGTTCAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28389480  9 +  82825804 ---TCTGTTCAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4058666  9 -   4237731 ---TCTGTTCAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      327843  9 -   1175262 ---TCTGTTCAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123673768  9 - 204313951 ---TCTGTTCAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55717443  9 -  71252344 ---TCTGTTCAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       20365  9 -   3089952 ---TCTGTTCAC
i cebCap1.NW_016107590v1   I 36 C 0
s aotNan1.NW_018505940v1    13218367  9 -  42888418 ---TCTGTTCAC
i aotNan1.NW_018505940v1   I 3 C 0
s mm10.chr18                55525610  8 +  90702639 ----TTGTCTGC
i mm10.chr18               C 0 I 7
s dasNov3.JH567306           2646231 12 +   3667625 TTGTCTGTTTTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60551325 10062 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e otoGar3.GL873679           3080802  0 +   4132165 C

a score=108894.000000
s hg38.chr5_KI270796v1_alt    101779 8 +    172708 TTATTCAT
s panTro5.chr5             125205851 8 + 181907262 TTATTCAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126542514 8 + 183735486 TTATTCAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1734237 8 +   8933513 TTATTCAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139865243 8 + 163208435 TTATTCAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122853942 8 + 180051392 TTATTCAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124277555 8 + 181584905 TTATTCAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16275892 8 +  18395747 TTATTCAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5288861 8 +  26952557 TTATTCAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28389489 8 +  82825804 TTATTCAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4058675 8 -   4237731 TTATTCAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      327852 8 -   1175262 TTATTCAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123673777 8 - 204313951 TTATTCAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55717452 8 -  71252344 TTATTCAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       20374 8 -   3089952 TTATTTAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13218376 8 -  42888418 TTATTCAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60561387 8 + 108143057 TTATTCAC
i micMur3.chr12            I 10062 C 0
s mm10.chr18                55525625 8 +  90702639 TCACTCAT
i mm10.chr18               I 7 C 0
s dasNov3.JH567306           2646243 8 +   3667625 TCATTTGC
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3591551 2619 +  11683526 I
e otoGar3.GL873679           3080802 0 +   4132165 C

a score=606521.000000
s hg38.chr5_KI270796v1_alt    101787 44 +    172708 ACAAATTAATGAATTATATAAATATGTACTGGGTGCTTATCCTA
s panTro5.chr5             125205859 44 + 181907262 ACAAATTAATGAATTATATAAATATGTACTGAGTGCTTATCCTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126542522 44 + 183735486 ACAAATTAATGAATTATATAAATATGTACTGAGTGCTTATCCTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1734245 44 +   8933513 ACAAATTAATGAATTATATAAATATGTACTGGGTGCTTATCCTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139865251 44 + 163208435 ACAAATTAATGAATTATATAAATATGTACTGGGTGCTTATCCTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122853950 44 + 180051392 ACAAATTAATGAATTATATAAATATGTACTCGGTGCTTATCCTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124277563 44 + 181584905 ACAAATTAATGAATTATATAAATATGTACTCGGTGCTTATCCTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16275900 44 +  18395747 ACAAATTAATGAATTATATAAATATGTACTCGGTGCTTATCCTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5288869 44 +  26952557 ACAAATTAATGAATTATATAAATATGTACTCGGTGCTTATCCTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28389497 44 +  82825804 ACAAATTAATGAATTATATAAATATGTACTCGGTGCTTACCCTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4058683 44 -   4237731 ACAAATTAATGAATTATATAAATATGTACTCGGTGCTTATCCTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      327860 44 -   1175262 ACAAATTAATGAATTATATAAATATGTACTTGGTGCTTATCCTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123673785 44 - 204313951 ATAAATTAATGAATTATATAAATACATACTGGGTGATTATCCTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55717460 44 -  71252344 ACAAATTAATGAATTATATAAATATGTACTGGGTGATTATCCTA
i saiBol1.JH378106         C 0 I 200
s cebCap1.NW_016107590v1       20382 43 -   3089952 ACAAATTAATGAATTATAT-AATATGTACTGGGTGATTATCCTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13218384 44 -  42888418 ACAAATTAACAAATTATATAACTATGTACTGGATGATTATCCTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60561395 44 + 108143057 ACAAATCAATTAATTAAATAGATATGTATTGGGTGCTTATCCTA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3594170 44 +  11683526 ACAAATCAATTAATTAAATAGACATGTATTGGTTGCTTATTCTA
i proCoq1.NW_012155062v1   I 2619 C 0
s mm10.chr18                55525633 44 +  90702639 ACAAATTAATTAATGAAGCAGATATTTGAGGAGTAATTATTCTG
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2646251 44 +   3667625 ACaaattaattaattaaataaatatGTATTAGTTGCCTATCCTA
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14926275 34 +  74389097 I
e otoGar3.GL873679           3080802  0 +   4132165 C

a score=89551.000000
s hg38.chr5_KI270796v1_alt    101831 9 +    172708 TGTGACATG
s panTro5.chr5             125205903 9 + 181907262 TGCGACATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126542566 9 + 183735486 TGCGACATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1734289 9 +   8933513 TGTGACATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139865295 9 + 163208435 TGTGACATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122853994 9 + 180051392 TGTGACATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124277607 9 + 181584905 TGTGACATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16275944 9 +  18395747 TGTGACATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5288913 9 +  26952557 TGTGACATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28389541 9 +  82825804 TGTGACATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4058727 9 -   4237731 TGTGACATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      327904 7 -   1175262 TGTGAC--G
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123673829 9 - 204313951 TGTAATATA
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107590v1       20425 9 -   3089952 TGTAATATA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13218428 9 -  42888418 TGTAATATA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60561439 9 + 108143057 TGCAACATA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3594214 9 +  11683526 TGTAACATA
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55525677 9 +  90702639 AGCACCATG
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2646295 9 +   3667625 TGCAACATA
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14926275 34 +  74389097 I
e otoGar3.GL873679           3080802 0 +   4132165 C
e saiBol1.JH378106          55717504 200 -  71252344 I

a score=428367.000000
s hg38.chr5_KI270796v1_alt    101840 34 +    172708 TGTCCATCAATATGGAAATCTGGTATATATAATT
s panTro5.chr5             125205912 34 + 181907262 TGTCCATCAATATGGAAATCTGGTATATATAATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126542575 34 + 183735486 TGTCCATCAATATGGAAATCTGGTATATATAATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1734298 34 +   8933513 TGTCCATCAATATGGAAATCTGGTATATATAAtt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139865304 34 + 163208435 TGTCCATCAATATGGAAATCTGGTATAGATAATT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122854003 34 + 180051392 TGTCCATCAATATGGAAATCTGATACATATCACT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124277616 34 + 181584905 TGTCCATCAATATGGAAATCTGATACATATCACT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16275953 34 +  18395747 TGTCCATCAATATGGAAATCTGATACATATCACT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5288922 34 +  26952557 TGTCCATCAATATGGAAATCTGATATATATCACt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28389550 34 +  82825804 TGTCCATCAATATGGAAATCTGATATATATCACT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4058736 34 -   4237731 TGTCCATCAATATGGAAATCTGATATATATCACt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      327911 34 -   1175262 TGTCCATCAATATGGAAATCTGATATATATCACt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123673838 34 - 204313951 TATCCATCAATATGGAAATCTGGTATATATCAtt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55717704 34 -  71252344 TGTCCATCAATATGGAAATCTGGTATATATCAtt
i saiBol1.JH378106         I 200 C 0
s cebCap1.NW_016107590v1       20434 34 -   3089952 TGTCCATCAATATGGAAATCTGGTATATATCAtt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13218437 34 -  42888418 TGTCCATCAATATGGAAATCTGTTATATATCCtt
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60561448 34 + 108143057 TGTACATCAGTATGGAAATCTAGTATATATAgtt
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3594223 34 +  11683526 TGTGCATCAGTATGGAAATCTAGTATATATAGTT
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55525686 15 +  90702639 --TACA-----------------TACACATCACT
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2646304 34 +   3667625 TATACATTGGTTTGTGAATCTAGAATGTACAGTT
i dasNov3.JH567306         C 0 I 545
e canFam3.chr11             14926275 34 +  74389097 I
e otoGar3.GL873679           3080802  0 +   4132165 C

a score=142519.000000
s hg38.chr5_KI270796v1_alt    101874 11 +    172708 CTTCATAAAAT
s panTro5.chr5             125205946 11 + 181907262 CTTCATAAAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126542609 11 + 183735486 CTTCATAAAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1734332 11 +   8933513 cttcataaaat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139865338 11 + 163208435 CTTCATGAAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122854037 11 + 180051392 CTTCATAAAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124277650 11 + 181584905 CTTCATAAAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16275987 11 +  18395747 CTTCATAAAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5288956 11 +  26952557 cttcataaaat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28389584 11 +  82825804 CTTCATAAAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4058770 11 -   4237731 cttcataaaat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      327945 11 -   1175262 cttcataaaat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123673872 11 - 204313951 cttcataaaat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55717738 11 -  71252344 tttcataaaat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       20468 11 -   3089952 cttcataaaat
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13218471 11 -  42888418 cttcataaaat
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60561482 11 + 108143057 ctttataaaat
i micMur3.chr12            C 0 I 1842
s proCoq1.NW_012155062v1     3594257 11 +  11683526 CTTTATAAAAT
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55525701 11 +  90702639 GTTCAGTTCTT
i mm10.chr18               C 0 C 0
e canFam3.chr11             14926275 34 +  74389097 I
e otoGar3.GL873679           3080802  0 +   4132165 C
e dasNov3.JH567306           2646338 545 +   3667625 I

a score=11849.000000
s hg38.chr5_KI270796v1_alt    101885 1 +    172708 A
s panTro5.chr5             125205957 1 + 181907262 A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126542620 1 + 183735486 A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1734343 1 +   8933513 a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139865349 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122854048 1 + 180051392 A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124277661 1 + 181584905 A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16275998 1 +  18395747 A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5288967 1 +  26952557 a
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28389595 1 +  82825804 A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4058781 1 -   4237731 a
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      327956 1 -   1175262 a
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123673883 1 - 204313951 a
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55717749 1 -  71252344 a
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       20479 1 -   3089952 a
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13218482 1 -  42888418 a
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3594268 1 +  11683526 A
i proCoq1.NW_012155062v1   C 0 I 1795
s mm10.chr18                55525712 1 +  90702639 G
i mm10.chr18               C 0 C 0
e micMur3.chr12             60561493 1842 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e otoGar3.GL873679           3080802 0 +   4132165 C
e dasNov3.JH567306           2646338 545 +   3667625 I

a score=3020472.000000
s hg38.chr5_KI270796v1_alt    101886 301 +    172708 --TCCAGTCTTGAGTATTTTGTTAGAACAGAAGAAATTGACTCAGAGAgaaactgatactagaaaaatgatgctgttgct-ataacaaatacctgaaaatgtggatgtggctttggaacttggtaataggtagtggctgaaacagttttaaagtgaatggtagaaaaagc-ctgcactgccattaacagagcattaagtgtgattctggtgacgt-------ctcagaaggagag----gagaactgcagaaaaagcctcagtcttagagat-----aactaagtggttgtgaacagaatgttagtagaaatatggacagt
s panTro5.chr5             125205958 301 + 181907262 --TCCAGTCTTGAGTATTTTGTTAGAACAGAAGAAATTGACTCAGAGAgaaactgatactagaaaaatgacgctgttgct-ataacaaatacctgaaaatgtggatgtggctttggaacttggtaataggtagcggctgaaacagttttaaagtgaatggtagaaaaagc-ccgcactgccattaacagagcattacgtgtgattctggtgaggt-------ctcagaaggagag----gagaactgcagaaaaagcctcagtcttagagat-----aactaagtggttgtgaacagaatgttagtagaaatatggacagt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126542621 301 + 183735486 --TCCAGTCTTGAGTATTTTGTTAGAACAGAAGAAATTGACTCAGAGAgaaactgatactagaaaaatgacgctgttgct-ataacaaatacctgaaaatgtggatgtggctttggaacttggtaataggtagcggctgaaacagttttaaagtgaatggtagaaaaagc-ccgcactgccattaacagagcattaagtgtgattctggtgaggt-------ctcagaaggagag----gagaactgcagaaaaagcctcagtcttagagat-----aactaagtggttgtgaacagaatgttagtagaaatatggacagt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1734344 301 +   8933513 --tccagtcttgagtattttgttagaacagaagaaattgactcagaGAgaaactgatactagaaaaatgacgctgttgct-ataacaaagacctgaaaatgtggatgtggctttggaacttggtaatacgtagcggctgaaacagttttaaagtgaatggtagaaaaagc-ctgcactgccattaacagagcattaagtgtgattctggtgaggt-------ctcagaaggagag----gagaactgcagaaaaagcctcagtcttagagat-----gactaagtggttgtgaatagaatgttagtagaaatatggacagt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139865350 297 + 163208435 --TCCAGTCTTGAGTATTTTGTTAGAACAGAAGAAATTGACTCAGAGACaaattgatactagaaaaatg----tcttgct-ataacaaatacctgaaaatgtggatgtggctttggaacttggtaataggtagaggctgaaacagttttaaagtgaatggtggaaaaagc-ctgcattgtcattaacagagcattaagtgtgattctggtgagtt-------ctcagaaggagag----gagaactgcagaaaaagcctcagtcttagagat-----aactaagtagttgtgaacagaatgttagtagaaatatggacagt
i nomLeu3.chr2             C 0 I 1
s rheMac8.chr6             122854049 292 + 180051392 --CCCAG----------ATTGTCAGAACAGAAGAAATTGACTCAGAGAgaaattgatactagaaaaatgatgctgttgctaataacaaatacctgaaaatgtgaatgtagctttggaacttggtaatgggtagaggctgaaacagctttgaagtgaatggtggaaaaagc-ctgcattgccattaacagagcattaagtgtgattctggtgaggg-------ctcagaaggagag----gagaactgcagaaaaagcctcagtcttagagat-----acataagtgattgtgaacagaatgttagcagaagtatggacagt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124277662 292 + 181584905 --CCCAG----------ATTGTCAGAACAGAAGAAATTGACTCAGAGAgaaattgatactagaaaaatgatgctgttgctaataacaaatacctgaaaatgtgaatgtggctttggaacttggtaatgggtagaggctgaaacagctttgaagtgaatggtggaaaaagc-ctgcattgccattaacagagcattaagtgtgattctggtgaggg-------ctcagaaggagag----gagaactgcagaaaaagcctcagtcttagagat-----acataagtgattgtgaacagaatgttagcagaagtatggacagt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16275999 292 +  18395747 --CCCAG----------ATTGTCAGAACAGAAGAAATTGACTCAGAGAgaaattgatactagaaaaatgatgctgttgctaataacaaatacctgaaaatgtgaatgtggctttggaacttggtaatgggtagaggctgaaacagctttgaagtgaatggtggaaaaagc-ctgcattgccattaacagagcattaagtgtgattctggtgaggg-------ctcagaaggagag----gagaactgcagaaaaagcctcagtcttagagat-----acctaagtgattgtgaacagaatgttagcagaagtatggacagt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5288968 302 +  26952557 --cccagtcctgagtattttgttagaacagaagaaattgactcagaGAgaaattgatactagaaaaatgatgctgttgctaataacaaatacctgaaaatgtgaatgtggctttggaacttggtaatgggtagaggctgaaacagctttgaagtaaatggtggaaaaagc-ctgcattgccattaacagagcattaagtgtgattctggtgaggg-------ctcagaaggagag----gagaactgcagaaaaagcctcagtcttagagat-----acataagtgattgtgaacagaatgttagtagaagtatggacagt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28389596 292 +  82825804 --CCCAG----------TTTGTTAGAACAGAAGAAATTGACTCAGAGAgaaattgatactagaaaaatgatgctgttgctaataacaaatacctgaaaatgtgaatgtggctttggaacttggtaatgggtagaggctgaaacagctttgaagtgaatggtggaaaaagc-ctgcattgccattaacagagcattaagtgtgattctggtgaggg-------ctcagaaggagag----gagaactgcagaaaaagcctcagtcttagagat-----acataagtgattgtgaacagaatgttagtggaagtatggacagt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4058782 302 -   4237731 --cccagtcctgagtattttgttagaacagaagaaattgactcagaGAgaaattgatactagaaaaatgatgctgttgctaataacaaatacctgaaaatgtgaatgtggctttggaacttggtaatgggtagaggctgaaacagctttgaagtaaatggtggaaaaagc-ctgcattgccattaacagagcattaagtgtgattctggtgaggg-------ctcagaaggagag----gagaactgcagaaaaagcctcagtcttagagat-----acataagtgattgtgaacagaatgttagtagaagtatggacagt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      327957 302 -   1175262 --cccagtcttgagtattttgttagaacagaagaaattgactCGGAGAgaaattgaaactagaaaaatgatgctgttgctaataacaagtacctgaaagtgtgaatgtggctttggaacttggtaatgggtagaggctgaaacagctttgaagtgaatggtggaaaaagc-ctgcattgccattaacagagcattaagtgtgattctggtgaggg-------ctcagaaggagag----gagaactgcagaaaaagcctcagtcttagagat-----acataagtgattgtgaacagaatgttagttgaagtatggacagt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123673884 300 - 204313951 --cccagttttgagtattttattagaacagaagaaattgactaagaGAgaaattgatactagaaaaatgatgctgttttt-ataacaaatacctaaaactgtggatgtggctttggaacttggtaatgggtagaggctgaaacagttttgaagtgaatgctggaaagagg-ctgcattgccatgaacagagtattaaatgtgattc-ggtgaggg-------ctcagaaggaaag----gagaagtgcggaaaaagcctcagtcttagagac-----acctaagtggttgtgaacagaacattggtagaaatatggatagt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55717750 301 -  71252344 --cccagtcttgagtattttcttagaacagaagaaattgactaagaGAgaaattgatacgagaaaaatgatgctgttgtt-ataacaaatacctaaaaatgtggatgtggctttggaacttggtaatgggtagaggctgaaacagttgtgaagcgaatgctggaaagaggcctgcattgccattaacagagcattaaatgtgattg-agtgaggg-------cgcagaaggaaag----gagaattgcagaaaaagcctcagtcttagagat-----acctaagtggttgtgaacagaacatcggtagaaatatggacagt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       20480 300 -   3089952 --cccagtcttgagtattttattagaacagaagaaattgacgaagaAAgaaattgatacaagaaaaatgatgctgttgtt-ataacaaatacctaaaaatgtggatgtggctttggaacatggtaatgggtagaggctgaaacagtttcgaagtaaatgctggaaagagt-ctgcattgccattaacagagcatgaagtgtgattc-gatgaggg-------ctcagaaggaaag----gagaagggcagaaaaagcctcagtcttagagat-----acctaagtggttgtgaacagaacattggtagaaatatggacagt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13218483 300 -  42888418 --cccagtcctgagtattttattagaacagaagaaattgactaagaGAgaaattgatactagaaaaatgatgctgttgtt-ataacaaatacctaaaaatgtggatgtggctttggaacctggtaatgggtagaggctgaaacagttttgaagtgaatactggaaagagc-ctgaattgccattaacagagcattaaatgtgattt-ggtgagag-------ctcagaaggaaag----gagaagtgcagaaaaagcctcagtcttagagat-----acctaagtggttgtaaatagaacgttggtagaaatatggacagt
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55525713 316 +  90702639 TCAATGGTCTAAGAGATTCTGTAACAGCAGACAGGGTGAACTAAAATAgaaactggtgttagggaa--ggtgttttttct-ttagcaaacacctgctactgtggaagtgtcctgggacctgaataat-ggtaagggcaggaagagttctaacaagagtagtggcaaagac-ctgcattgctatgaaccgagcatcgagagaaattctgctaaaggaatgattctctggagggaatatacaagcgctgcagaaaacacctctgtcctgggcatgcatcacctaaatggatgtgagcaaaatgttggcagaaatacaaaaacc
i mm10.chr18               C 0 C 0
e micMur3.chr12             60561493 1842 + 108143057 I
e canFam3.chr11             14926275  34 +  74389097 I
e proCoq1.NW_012155062v1     3594269 1795 +  11683526 I
e otoGar3.GL873679           3080802   0 +   4132165 C
e dasNov3.JH567306           2646338 545 +   3667625 I

a score=-2630.000000
s hg38.chr5_KI270796v1_alt    102187 1 +    172708 -a
s gorGor5.CYUI01015135v1     1734645 1 +   8933513 -t
i gorGor5.CYUI01015135v1   C 0 C 0
s chlSab2.chr23             28389888 1 +  82825804 -a
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      328259 1 -   1175262 -a
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123674184 1 - 204313951 -a
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55718051 1 -  71252344 -a
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       20780 1 -   3089952 -a
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13218783 1 -  42888418 -a
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55526029 1 +  90702639 t-
i mm10.chr18               C 0 C 0
e micMur3.chr12             60561493 1842 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3594269 1795 +  11683526 I
e manLeu1.NW_012103321v1     4059084 0 -   4237731 C
e cerAty1.NW_012002512v1     5289270 0 +  26952557 C
e macNem1.NW_012012355v1    16276291 0 +  18395747 C
e macFas5.chr6             124277954 0 + 181584905 C
e rheMac8.chr6             122854341 0 + 180051392 C
e otoGar3.GL873679           3080802 0 +   4132165 C
e dasNov3.JH567306           2646338 545 +   3667625 I
e nomLeu3.chr2             139865647 1 + 163208435 I
e panPan2.chr5             126542922 0 + 183735486 C
e panTro5.chr5             125206259 0 + 181907262 C

a score=27204.000000
s hg38.chr5_KI270796v1_alt    102188 9 +    172708 aagatcatt
s nomLeu3.chr2             139865648 9 + 163208435 aagatcatt
i nomLeu3.chr2             I 1 C 0
s chlSab2.chr23             28389889 9 +  82825804 aagatcatt
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      328260 9 -   1175262 aaggtcatt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123674185 9 - 204313951 aagatcgtt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55718052 9 -  71252344 aagatcatt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       20781 9 -   3089952 aagatcatt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13218784 9 -  42888418 aagatcatt
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55526030 9 +  90702639 gagatcatt
i mm10.chr18               C 0 I 350
e micMur3.chr12             60561493 1842 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3594269 1795 +  11683526 I
e gorGor5.CYUI01015135v1     1734646 0 +   8933513 C
e manLeu1.NW_012103321v1     4059084 0 -   4237731 C
e cerAty1.NW_012002512v1     5289270 0 +  26952557 C
e macNem1.NW_012012355v1    16276291 0 +  18395747 C
e macFas5.chr6             124277954 0 + 181584905 C
e rheMac8.chr6             122854341 0 + 180051392 C
e otoGar3.GL873679           3080802 0 +   4132165 C
e dasNov3.JH567306           2646338 545 +   3667625 I
e panPan2.chr5             126542922 0 + 183735486 C
e panTro5.chr5             125206259 0 + 181907262 C

a score=7294.000000
s hg38.chr5_KI270796v1_alt    102197 3 +    172708 cac
s nomLeu3.chr2             139865657 3 + 163208435 cgc
i nomLeu3.chr2             C 0 I 4678
s chlSab2.chr23             28389898 3 +  82825804 cac
i chlSab2.chr23            C 0 I 1182
s colAng1.NW_012119644v1      328269 3 -   1175262 cac
i colAng1.NW_012119644v1   C 0 I 1182
s calJac3.chr2             123674194 3 - 204313951 cac
i calJac3.chr2             C 0 I 779
s saiBol1.JH378106          55718061 3 -  71252344 cac
i saiBol1.JH378106         C 0 I 784
s cebCap1.NW_016107590v1       20790 3 -   3089952 cac
i cebCap1.NW_016107590v1   C 0 I 785
s aotNan1.NW_018505940v1    13218793 3 -  42888418 cac
i aotNan1.NW_018505940v1   C 0 I 4253
e micMur3.chr12             60561493 1842 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3594269 1795 +  11683526 I
e gorGor5.CYUI01015135v1     1734646 0 +   8933513 C
e manLeu1.NW_012103321v1     4059084 0 -   4237731 C
e cerAty1.NW_012002512v1     5289270 0 +  26952557 C
e macNem1.NW_012012355v1    16276291 0 +  18395747 C
e macFas5.chr6             124277954 0 + 181584905 C
e rheMac8.chr6             122854341 0 + 180051392 C
e otoGar3.GL873679           3080802 0 +   4132165 C
e dasNov3.JH567306           2646338 545 +   3667625 I
e mm10.chr18                55526039 350 +  90702639 I
e panPan2.chr5             126542922 0 + 183735486 C
e panTro5.chr5             125206259 0 + 181907262 C

a score=0.000000
s hg38.chr5_KI270796v1_alt    102200 309 +    172708 ggccgggcgcggtggctcacgcctgtaatcccagcactttgggaggccgaggcgggcggatcacgaagtcaggagatcgagactcatcctggctaacatggtgaaaccctgtctctactaaaaatactaaaacaaaattagccgggcgtggtggcgggcgcctgtagtcccagctactcgggaggctgaggcgggagaatggcgtgaacctgggaggcggagcttgcagtgagccgagattgcgccactgcactccagcctgggtgacagagtgagactccgtctcaaaaaaaaaaaaaaaaaaaaaaa
e micMur3.chr12             60561493 1842 + 108143057 I
e canFam3.chr11             14926275  34 +  74389097 I
e proCoq1.NW_012155062v1     3594269 1795 +  11683526 I
e gorGor5.CYUI01015135v1     1734646   0 +   8933513 C
e manLeu1.NW_012103321v1     4059084   0 -   4237731 C
e chlSab2.chr23             28389901 1182 +  82825804 I
e cerAty1.NW_012002512v1     5289270   0 +  26952557 C
e macNem1.NW_012012355v1    16276291   0 +  18395747 C
e macFas5.chr6             124277954   0 + 181584905 C
e rheMac8.chr6             122854341   0 + 180051392 C
e otoGar3.GL873679           3080802   0 +   4132165 C
e aotNan1.NW_018505940v1    13218796 4253 -  42888418 I
e cebCap1.NW_016107590v1       20793 785 -   3089952 I
e dasNov3.JH567306           2646338 545 +   3667625 I
e mm10.chr18                55526039 350 +  90702639 I
e saiBol1.JH378106          55718064 784 -  71252344 I
e calJac3.chr2             123674197 779 - 204313951 I
e colAng1.NW_012119644v1      328272 1182 -   1175262 I
e nomLeu3.chr2             139865660 4678 + 163208435 I
e panPan2.chr5             126542922   0 + 183735486 C
e panTro5.chr5             125206259   0 + 181907262 C

a score=2548.000000
s hg38.chr5_KI270796v1_alt    102509 1 +    172708 a
s panTro5.chr5             125206259 1 + 181907262 a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126542922 1 + 183735486 a
i panPan2.chr5             C 0 C 0
s rheMac8.chr6             122854341 1 + 180051392 a
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124277954 1 + 181584905 a
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16276291 1 +  18395747 a
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5289270 1 +  26952557 a
i cerAty1.NW_012002512v1   C 0 C 0
s manLeu1.NW_012103321v1     4059084 1 -   4237731 a
i manLeu1.NW_012103321v1   C 0 C 0
e micMur3.chr12             60561493 1842 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3594269 1795 +  11683526 I
e gorGor5.CYUI01015135v1     1734646 0 +   8933513 C
e chlSab2.chr23             28389901 1182 +  82825804 I
e otoGar3.GL873679           3080802 0 +   4132165 C
e aotNan1.NW_018505940v1    13218796 4253 -  42888418 I
e cebCap1.NW_016107590v1       20793 785 -   3089952 I
e dasNov3.JH567306           2646338 545 +   3667625 I
e mm10.chr18                55526039 350 +  90702639 I
e saiBol1.JH378106          55718064 784 -  71252344 I
e calJac3.chr2             123674197 779 - 204313951 I
e colAng1.NW_012119644v1      328272 1182 -   1175262 I
e nomLeu3.chr2             139865660 4678 + 163208435 I

a score=385690.000000
s hg38.chr5_KI270796v1_alt    102510 117 +    172708 aagatcattcacatggtgttttaaatgaaaatgagggacattttgctggaaactggaggaaagaccatccttgctacaaagtggcaaagaagatggctgaattgtgtccatgtccta
s panTro5.chr5             125206260 117 + 181907262 aagatcattcacatggtgttttaaatgaaaatgagggacattttgctggaaactggaggaaagaccatccttgctacaaagtggcaaagaagatggctgaattgtgtccatgtccta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126542923 117 + 183735486 aagatcattcacatggtgttttaaatgaaaatgagggacattttgctggaaactggaggaaagaccatccttgctacaaagtggcaaagaagatggctgaattgtgtccatgtccta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1734646 117 +   8933513 aagatcattcacatggtgttttaaatgaaaatgagggacattttgctggaaactggaggaaagaccatccttgctacaaagtggcaaagaagatggctgaattgtgtccatgtccta
i gorGor5.CYUI01015135v1   C 0 C 0
s rheMac8.chr6             122854342 117 + 180051392 aagatcattcacatagtgttttaaatgaaaatgagggatattttgctggaaactggaggaaaggccatccttgttacaaagtggcaaagaagatggctgaattgtgcccatgtccta
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124277955 117 + 181584905 aagatcattcacatagtgttttaaatgaaaatgagggatattttgctggaaactggaggaaaggccatccttgttacaaagtggcaaagaagatggctgaattgtgcccatgtccta
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16276292 117 +  18395747 aagatcattcacatagtgttttaaatgaaaatgagggatattttgctggaaactggaggaaaggccatccttgttacaaagtggcaaagaagatggctgaattgtgcccatgtccta
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5289271 117 +  26952557 aagatcattcacatagtgttttaaatgaaaatgagggatattttgctggaaactggaggaaaggccatccttgttacaaagtggcaaagaagatggctgaattgtgcccatgtccta
i cerAty1.NW_012002512v1   C 0 C 0
s manLeu1.NW_012103321v1     4059085 117 -   4237731 aagatcattcacatagtgttttaaatgaaaatgagggatattttgctggaaactggaggaaaggccatccttgttacaaagtggcaaagaagatggctgaattgtgcccatgtccta
i manLeu1.NW_012103321v1   C 0 C 0
e micMur3.chr12             60561493 1842 + 108143057 I
e canFam3.chr11             14926275  34 +  74389097 I
e proCoq1.NW_012155062v1     3594269 1795 +  11683526 I
e chlSab2.chr23             28389901 1182 +  82825804 I
e otoGar3.GL873679           3080802   0 +   4132165 C
e aotNan1.NW_018505940v1    13218796 4253 -  42888418 I
e cebCap1.NW_016107590v1       20793 785 -   3089952 I
e dasNov3.JH567306           2646338 545 +   3667625 I
e mm10.chr18                55526039 350 +  90702639 I
e saiBol1.JH378106          55718064 784 -  71252344 I
e calJac3.chr2             123674197 779 - 204313951 I
e colAng1.NW_012119644v1      328272 1182 -   1175262 I
e nomLeu3.chr2             139865660 4678 + 163208435 I

a score=3616186.000000
s hg38.chr5_KI270796v1_alt    102627 554 +    172708 atgttttgtggaatgccgaatttaagggcaatcaactaggatatttagcaaaaaaaatctctaagcaaagtattcaaggtgctgcatgctttctctcaactgcttattgtaaaatgcaagagagaagtaagttaaagacagaatttgaaacgaaaaggaaagcagaatgtgaagatttggaaaactctcagcctggccatgtaaagcctaaaagaacgtgttaaggaaagtaaaccaaggttgtgtccaa-caatc-cgctgat---aagattagtatggagagagggaagccctggaagaccttttggagatctttgaggctgccagtcttatcacaggcccagagtgctaggacttttagggcagaattgttataaacaatgggctcagggagtttgtagaacctcagagctcaatgcccaggactgtcttaagtctctgctccctgcagtctggtacagggctccttggctg-cccaagttgtggcttaagtgggcccaggggtatagaggccataaattatggtggtgttcacctagtgctgactctgcatgctca
s panTro5.chr5             125206377 554 + 181907262 atgttttgtggaatgccgaatttaagggcaatcaactaggatatttagcagaaaaaatctctaagcaaagtattcaaggtgccgcatggcttctctcaactgcttattgtaaaatgcaagagagaagtaagttaaagacagaatttgaaacgaaaaggaaagcagaatgtaaagatttggaaaactctcagcctggccatgtaaagcctaaaagaacgtgttaaggaaagtaaaccaaggttgtgtccaa-caatc-cgctgat---aagattagtatggagagagggaagccctggaagaccttttggagatctttgaggctgccagtcttatcacaggcccagagtgctaggacttttagggcagaattgttataaacgaggggctcagagagtttgtagaacctcagagctcaatgcccaggactgtcctaagtctctgctccctgcagtccggtacagggctccttggctg-cccaagttgtggcttaagtgggcccaggggtataggggccataaattatggtggtgttcacctagtgctgactctgcatgctca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126543040 554 + 183735486 atgttttgtggaatgccgaatttaagggcaatcaactaggatatttagcagaaaaaatctctaagcaaagtattcaaggtgccgcatggcttctctcaactgcttattgtaaaatgcaagagagaagtaagttaaagacagaatttgaaacgaaaaggaaagcagaatgtaaagatttggaaaactctcagcctggccatgtaaagcctaaaagaacgtgttaaggaaagtaaaccaaggttgtgtccaa-caatc-cgctgat---aagattagtatggagagagggaagccctggaagaccttttggagatctttgaggctgccagtcttatcacaggcccagagtgctaggacttttagggcagaattgttataaacgaggggctcagagagtttgtagaacctcagagctcaatgcccaggactgtcctaagtctctgctccctgcagtccggtacagggctccttggctg-cccaagttgtggcttaagtgggcccaggggtataggggccataaattatggtggtgttcacctagtgctgactctgcatgctca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1734763 553 +   8933513 atgttttgtggaatgccgaatttaagggcaatcaactaggatatttagcagaaaaaatctctaagcaaagtattcaaggtgtcgcatggcttctctcaactgcttattgtaaaatgcaagagagaagtaagttaaagacagaatttgaaacgaaaaggaaagcagaatgtaaagatttggaaaactctcagcctggccatgtaaagcctaaaagaatgtgttaaggaaagtaaaccaaggttgtgtccaa-caatc-cgctgat---aagattagtatggagagaggcaagccctggaagaccttttggagatctttgaggctgccagtcttatcacaggcccagagtgctaga--ctttagggcagaattgttataaacgaggggctcagggagtttgtagaacctcagagctcaatgcccaggactgtcttaagtctctgctccctgcagtccggtacagggctccttggctgccccaagttgtggcttaagtgggcccaggggtatagaggccataaattatggtggtgttcacctagtgctgactctgcatgctca
i gorGor5.CYUI01015135v1   C 0 C 0
s rheMac8.chr6             122854459 553 + 180051392 atgttttgtggaatgccgaattgaagggcaatcagctaggatatttagcagaagaaatctctaagcaaagtattcagggtgctgcatggctcctctcaactgcttattgtaaaatgcaagagagaagtaagttaaagacagaatttgaaacaaaaaggaaagcagaatgtaaagatttggaaaactctcagcctggccatgtaaagcctaaaagaacatgttaaggaaagtaaaccaaggctgtgtccaagcaatc-cactgat---aagattagtatggatagagggaagccctggaagaccttttggagatctttgaggctgccagtctcatcacaggtccagagtgctaggacttttagggcagaattgttataagagaggggctcagggagtttgtagaacctcagagctcaatgcccaggactgtcttaag--tctgcttcctgcagtctggtacagggctccttggctg-cccaagttgtggctcaagtgggcccaggggtatagaggtcataaactatggtggtgttcacctagtgctgactctgtatgctca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124278072 553 + 181584905 atgttttgtggaatgccgaattgaagggcaatcagctaggatatttagcagaagaaatctctaagcaaagtattcagggtgctgcatggctcctctcaactgcttattgtaaaatgcaagagagaagtaagttaaagacagaatttgaaacaaaaaggaaagcagaatgtaaagatttggaaaactctcagcctggccatgtaaagcctaaaagaacatgttaaggaaagtaaaccaaggctgtgtccaagcaatc-cactgat---aagattagtatggatagagggaagccctggaagaccttttggagatctttgaggctgccagtctcatcacaggtccagagtgctaggacttttagggcagaattgttataagagaggggctcagggagtttgtagaacctcagagctcaatgcccaggactgtcttaag--tctgcttcctgcagtctggtacagggctccttggctg-cccaagttgtggctcaagtgggcccaggggtatagaggtcataaactatggtggtgttcacctagtgctgactctgtatgctca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16276409 553 +  18395747 atgttttgtggaatgccgaattgaagggcaatcagctaggatatttagcagaagaaatctctaagcaaagtattcagggtgctgcatggctcctctcaactgcttattgtaaaatgcaagagagaagtaagttaaagacagaatttgaaacaaaaaggaaagcagaatgtaaagatttggaaaactctcagcctggccatgtaaagcctaaaagaacatgttaaggaaagtaaaccaaggctgtgtccaagcaatc-cactgat---aagattagtatggatagagggaagccctggaagaccttttggagatctttgaggctgccagtctcatcacaggtccagagtgctaggacttttagggcagaattgttataagagaggggctcagggagtttgtagaacctcagagctcaatgcccaggactgtcttaag--tctgcttcctgcagtctggtacagggctccttggctg-cccaagttgtggctcaagtgggcccaggggtatagaggtcataaactatggtggtgttcacctagtgctgactctgtatgctca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5289388 555 +  26952557 atgttttatggaatgccaaattgaagggcaatcagctaggatatttagcagaagaaatctctaagcaaagtattcagggtgctgcatggctcctctcaactgcttattgtaaaatgcaagagagaagtaagttaaagacagaatttgaaacaaaaaggaaagcagaatgtaaagatttggaaaactctcagcctggccatgtaaagcctaaaagaacatgttaaagaaagtaaaccaaggctgtgtccaagcaatc-cactgat---aagattagtatggatagagggaagccctggaagaccttttggagatctttgaggctgccagtctcatcacaggtccagagtgctaggacttttagggcagaattgttataagagaggggctcagggagtttgtagaacctcagagctcaatgcccaggactgtcttaagtctctgctccctgcagtttggcacagggctccttggctg-cccaagttgtggctcaagtgggtccaggggtatagaggtcataaactatggtggtgttcacctagtgctgactctgtatgctca
i cerAty1.NW_012002512v1   C 0 C 0
s manLeu1.NW_012103321v1     4059202 555 -   4237731 atgttttatggaatgccaaattgaagggcaatcagctaggatatttagcagaagaaatctctaagcaaagtattcagggtgctgcatggctcctctcaactgcttattgtaaaatgcaagagagaagtaagttaaagacagaatttgaaacaaaaaggaaagcagaatgtaaagatttggaaaactctcagcctggccatgtaaagcctaaaagaacatgttaaggaaagtaaaccaaggctgtgtccaagcaatc-cactgat---aagattagtatggatagagggaagccctggaagaccttttggagatctttgagactgccagtctcatcacaggtccagagtgctaggacttttagggcagaattgttataagagaggggctcagggagtttgtagaacctcagagctcaatgcccaggactgtcttaagtctctgctccctgcagtctggtacagggctccttggctg-cccaagttgtggctcaagtgggcccaggggtatagaggtcataaactatggtggtgttcacctagtgctgactctgtatgctca
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123674976 556 - 204313951 Atgttttgtggaaggccgaatttaagagcaataaactttgatattcaacagaagaaatctctgagcaaaatattcagggtactgcatggcttctctcaactgcttactgtaaagtgcaagagagaagtaagttaaagacagaatttaaaagagaagggaaagtagaatattaacatttggaaaactctcagcctggccatgtaaagcctaaaggaatgtgttaaagaaagtaaaccaaggttgtgtacaaaccact-cacagataagaaggttagtatggatagagggaagccctggaaggccttctagagatttttgggactgccagtctcatcacaggcccagagtgctaggactttgagggctgaattgttaca--agaggggctcagggagtttatagaaccacagagctcaattcccaggactgtcttaagtctctgctccctgcagtctggtacagggctccttggttg-cccaagttgtggctcaagtgggcccaggggtgtagaggccatgaactgtggtagtgttcgcatggtgctgactccgcatgccca
i calJac3.chr2             I 779 C 0
s saiBol1.JH378106          55718848 558 -  71252344 Atgttttgtggaaggctgaatttaagggcaataaactaagatatttagcagaagaaatctctgagcaaaatattcagggtactgcatggcttctctcaactgcttattgtaaaatgcaagagagaagtaagttaaagacagaatttaaaagaaaaaggaaagcagaatatgaagatttggagaactctcagcctggccatgtaaagcctaaaagaacgtgctaaggaaagtaaaccaaggttgtgtccaaacaacc-cacaaatgagaagattagtatggatagagggaagccctggaaggccttctagagatttttgggactgccagtctcatcacaggcccagagcgctaggacttttacggcagaattgttacaagagaggggctcagggagtttatggaacctcagagctcaattcccaggactgtcttaagcctctactccctgcagtctggtacaagactccttggtta-cccaagttgtggcccaagtgggcccaggggtatagaggccatgaactgtggtagtgttctcatggtgctgactctgcatgctca
i saiBol1.JH378106         I 784 C 0
s cebCap1.NW_016107590v1       21578 558 -   3089952 Atgttttgtggaaggccgaatttaagagcaataaactaggatattcagtagaagaaatctctgagcaaagtattcagcgaactacatggcttctctcaactgcttattgtaaaattcaagagagaagtaagttaaagacagaatttaaaagaaaaaggaaagcagaatattaagatttggaaaactctcagcctggccatgtaaagtctaaaagaatgtgttaaggaaagtaaaccaaggttgtatccaaacagcc-cacagataagaagattagtatgaatagagggaagccctggaaggccttctagagatttttgggactgccagtctcatcacaggcccagagtgctgggacttttagggcagaattattataagagaggggctcagggagtttatagaacctcagagatcaattcccaggactgccttaagtctctgctccctgcagtctggtacagggctccttggttg-cccaagttgtagctcaagtgggcccagggatatagagaccatgaactgaggtagtgttcacacggtgctgattctgcatgctca
i cebCap1.NW_016107590v1   I 785 C 0
s aotNan1.NW_018505940v1    13223049 559 -  42888418 Atgttttgtggaaggcctaatttaagagcaataaactagaatatttagcagaagaaatctctgagcaaagtattcagggtactgcatggcttctctcaactgcttattgtaaaatgcaagagagaagtaagttaaagacagaatttaaaagaaaaaggaaagcagaatattaagatttggaaaactctcagcctggccatgtaaagcctaaaagaacatgttaaggaaagtgaaccaaggttatgtccaagcaacctcatagataagaagattgatatggatagaaggaagccctggaaggccttctagagatctttgggactgccagtctcatcacaggcccagagtgctaggacttttaggggggaattgttacaagagaggggctcagggagtttatagaacctcagagctcaattcccaggactgtcttaagtctctgctccctgcagtttggtacagggctccttggttg-cccaagttgtggctcaagtgggcccaggggtatagaggccataatctatggtagtgttcgcatggtgctgactctgcatgctca
i aotNan1.NW_018505940v1   I 4253 C 0
e micMur3.chr12             60561493 1842 + 108143057 I
e canFam3.chr11             14926275  34 +  74389097 I
e proCoq1.NW_012155062v1     3594269 1795 +  11683526 I
e chlSab2.chr23             28389901 1182 +  82825804 I
e otoGar3.GL873679           3080802   0 +   4132165 C
e dasNov3.JH567306           2646338 545 +   3667625 I
e mm10.chr18                55526039 350 +  90702639 I
e colAng1.NW_012119644v1      328272 1182 -   1175262 I
e nomLeu3.chr2             139865660 4678 + 163208435 I

a score=4558160.000000
s hg38.chr5_KI270796v1_alt    103181 601 +    172708 cagagtgcaagagctgggcaggcatggctaccttcacctaggttccaaagatgccacagagagctgttagtagggcaatgcttagtggagctgtgggggaagggcctctcccaagacttcagaactgtagagccaccagtcagcaactccagcctgggagag-ctgaaggtgcaagactccaaccagtatgagctgtggcatgggctgttcctagcaaagtcctggggatgg----------------gaccccctagggatgtgggtatccaacccagaagatgggaca-tggagtt-aaaaaagattattctcaaactttgagatttaatgtttgccctgttgagttttgaactttatagggatctattactgatttctttttccaatttctccttttgggaatggaaatggctatcctatgcctgtccctctattgtattttggaagcacacaacttgcttgatttaacaggctctcagctagatagcaatttgccttgtggtgaatgacacaaagctttgagtctcacccataactgatttagatggtgtgcagatgagactttggactCattaattaattttggattaattcatcc----aattaattaattaaacta----a
s panTro5.chr5             125206931 601 + 181907262 cagagtgcaagagctgtgcaggcatggctaccttcacctagattccaaagatgccacagagagctgttagtagggcaatgcttagtgaagctgttggggaagggcctctcccaagacttcagaactgtagagccaccaatcagcaactccagcctgggggag-ctgaaggtgcaagactccaaccagtatgagctgtggcatgtgctgttcctagcaaagtcctggggatgg----------------gacgccctagggatgtgggtatccaacccagaagatgggaca-tggaatt-aaaaaagattattctcaaactttgagatttaatgtttgccctgttgagttttgaactttatagggatctattactgatttctttttccaatttctccttttgggaatgggaatggctatcctatgcctgtccctcaattgtattttggaagcacacaacttgcttgatttaacaggctctcagctagatagcaatttgccttgtggtgaatgacacaaagctttgagtctcacccataactgatttagatggtgtgcagatgagactttggactCattaattaattttggattaattcatcc----aattaattaattaaacta----a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126543594 601 + 183735486 cagagtgcaagagctgtgcaggcatggctaccttcacctagattccaaagatgccacagagagctgttagtagggcaatgcttagtgaagctgtgggggaagggcctctcccaagacttcagaactgtagagccaccaatcagcaactccagcctgggggag-ctgaaggtgcaagactccaaccagtatgagctgtggcatgtgctgttcctagcaaagtcctggggatgg----------------gacgccctagggatgtgggtatccaacccagaagatgggaca-tggaatt-aaaaaagattattctcaaactttgagatttaatgtttgccctgttgagttttgaactttatagggatctattactgatttctttttccaatttctccttttgggaatgggaatggctatcctatgcctgtccctcaattgtattttggaagcacacaacttgcttgatttaacaggctctcagctagatagcaatttgccttgtggtgaatgacacaaagctttgagtctcacccataactgatttagatggtgtgcagatgagactttggactCattaattaattttggattaattcatcc----aattaattaattaaacta----a
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1735316 600 +   8933513 cagagtgcaagagctgtgcaggcatggctaccttcacctagattccaaagatgccacagagagctgttagtagggcaatgcttagtgaagctgtgggggaagggcc-ctcccaagacttcagaactgtagagccaccaatcagcaactccaacctgggagag-ctgaaggtgcaagactccaaccagtatgagctgtggcatgtgctgttcctagcaaagtcctggggatgg----------------gac-ccctagggatgtgggtatccaacccagaagatgggaca-tggagttaaaaaaagattattctcaaactttgagatttaatgtttgccctgttgagttttgaactttatagggatctattactgatttctttttccaatttctcctttttggaatgggaatggctatcctatgcctgtccctctattgtattttggaagcacaccacttgcttgatttaacaggctctcagctagatagcaatttgccttgtggtgaatgacacaaagctttgagtctcacccataactgatttagatggtgtgcagatgagactttggactCattaattaattttggattaattcatct----aattaattaattaaacta----a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139870338 597 + 163208435 cagagtgcaagagctgtgcaggcatggctaccttcacctagattccaaagatgccacagagagctgttagtagggcaatgcttagtgaagctgtgggggaagggcctctcccaagacttcagaactgtagagtcaccaatcagcaactccagcctgggagag-ctgaaggtgcaagactccaaccagtatcagctgtggcaggtgctgttcccagcaaagtcctggggatgg----------------gaccccctagggatgtgggtatccaacccagaagatcggaca-tggagtt-aaaaaagattattctcaaactttgagatttaatgtttgccgtgttgagttgtgaactttatagggatctattattgatttctttttccaatttctcctttttggaatgggaatggctatcctatgcctgtccctctattgtattttggaagcacacaacttgcttgatttaacaggctctcagctagatagcaatttgccttgtggtgaatgacacaaagctttgagtctcacccataactgatttagatggtgtgcagatgagactttggactcgttaattacttttggattaatTAATCC--------AATTAATTTAACTA----A
i nomLeu3.chr2             I 4678 C 0
s rheMac8.chr6             122855012 601 + 180051392 cagagtgcaaaagctgtgcaggcatggctacctttacctagattccaaagatgccacagagagccgttagtagggcaatgcttagtgaagctgtgggggaagagcctctcccaagacttcagaactgtagagccaccaatcagcaactccagcctgggagag-ctgaaggtgcaagactccaaccagtatgagctgtggcatgtgctgttcccagcaaagtcccggggatgg----------------gaccccctagggatgtgggtgtccaatcccaaagatgggaca-tgaagtt-aaaaaaggttatcctcagactttgagatttaatgtttgtcctgttgagttttgaactttatagggatctattattgctttctttttccaatttctcctttttggaatgggaatggctatcctgtgcctgtccctctattgtattttggaagcacacaacttgcttgatttaacaggccctcagctagatagcaatttgccttatggtaaatgacacaaagctttgagtctcacccataactgacctagatggtgtacagatgagactttggactCattaattaattttggattaattcatcc----aattaattaatttaacta----a
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124278625 601 + 181584905 cagagtgcaaaagctgtgcaggcatggctaccttcacctagattccaaagatgccacagagagccgttagtagggcaatgcttagtgaagctgtgggggaagagcctctcccaagacttcagaactgtagagccaccaatcagcaactccagcctgggagag-ctgaaggtgcaagactccaaccagtatgagctgtggcatgtgctgttcccagcaaagtcccggggatgg----------------gaccccctagggatgtgggtgtccaatcccgaagatgggaca-tgaagtt-aaaaaaggttatcctcagactttgagatttaatgtttgtcctgttgagttttgaactttatagggatctattattgctttctttttccaatttctcctttttggaatgggaatggctatcctgtgcctgtccctctattgtattttggaagcacacaacttgcttgatttaacaggccctcagctagatagcaatttgccttatggtaaatgacacaaagctttgagtctcacccataactgacctagatggtgtacagatgagactttggactCattaattaattttggattaattcatcc----aattaattaatttaacta----a
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16276962 601 +  18395747 cagagtgcaaaagctgtgcaggcatggctaccttcacctagattccaaagatgccacagagagccgttagtagggcaatgcttagtgaagctgtgggggaagaacctctcccaagacttcagaactgtagagccaccaatcagcaactccagcctgggagag-ctgaaggtgcaagactccaaccagtatgagctgtggcatgtgctgttcccagcaaagtcccggggatgg----------------gaccccctagggatgtgggtgtccaatcccgaagatgggaca-tgaagtt-aaaaaaggttatcctcagactttgagatttaatgtttgtcctgttgagttttgaactttatagggatctattattgctttctttttccaatttctcctttttggaatgggaatggctatcctgtgcctgtccctctattgtattttggaagcacacaacttgcttgatttaacaggccctcagctagatagcaatttgccttatggtaaatgacacaaagctttgagtctcacccataactgacctagatggtgtacagatgagactttggactCattaattaattttggattaattcatcc----aattaattaatttaacta----a
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5289943 601 +  26952557 cagagtgcaaaagctgtgcaggcatggctaccttcacctagattccaaagatgccacagagagccgttagtagggcaatgcttagtgaagctgtgggggaagggcctctcccaagacttcagaactgtagagccaccaatcagcaactccagcctgggagag-ctgaaggtgcaagactccaaccagtatgagctgtggcatgtgctgttcccagcaaagtcccggggatgg----------------gaccccctagggatgtgggtgtccaaccccgaagatgggaca-tgaagtt-aaaaaagattatcctcagactttgagatttaatgtttgtcctgttgagttttgaactttatagggagctattattgctttctttttccaatttctcctttttggaatgggaatggctatcctgtgcctgtccctctattgtattttggaagcacacaacttgcttgatttaacaggccctcagctagatagcaatttgccttatggtaaatgacacaaaactttgagtctcacccataactgacttagatggtgtacagatgagactttggactCattaattaattttggattaattcatcc----aattaattaatttaacta----a
i cerAty1.NW_012002512v1   C 0 C 0
s manLeu1.NW_012103321v1     4059757 605 -   4237731 cagagtgcgaaagctgtgcaggcatggctaccttcacctagattccaaagatgccacacagagccgttagtagggcaatgcttagtgaagctgtgggggaagggcctctcccaagacttcagaactgtagaaccaccaatcagcaactccagcctgggagag-ctgaaggtgcaagactccaaccagtatgagctgtggcatgtgctgttcccagcaaagtcccggggatgg----------------gaccccctagggatgtgggtgtccaaccccgaagatgggaca-tgaagtt-aaaaaagattatcctcagactttgagatttaatgtttgccctgttgagttttaaactttatagggatctattattgctttctttttccaatttctcctttttggaatgggaatggctatcctgtgcctgtccctctattgtattttggaagcacacaacttgcttgatttaacaggccctcagctagatagcaatttgccttatggtaaatgacacaaaactttgagtctcacccataactgacttagatggtgtacagatgagactttggactCattaattaattttggattaattcatccaattaattaattaatttaacta----a
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123675532 621 - 204313951 caggatgcacgagctgtgcaggcatggctaccttcacctagattccaaggataccacagagagcccttagtaaggcaatgctttgtgaagccatggaggaagggccactcacaagatttcagaactgtagagccaccagtcagcaactccagcctgggagag-ctgaaggtacaagactccaaccagtatgagctgtggcatgtgctattctcagcaaagccctggggatgggactccctaggtatgtgactccctagggatgtggaagtccaacccagaagatgggacattggagtt-aaaaaagattattctcagaccttgagatttaatgtttgccctgttgagttttgaactttatagggatctattatttctttctttttccaatttcttctttttggaatggaaatggctatcttacgcctgtctctgttttgtattttggaagcacacaacttgtttgatttaacaggctctcagctagatagcaatttgccttat-atgaatgacacaaagctttgagtcttacctgtaactgatttagatgatgtgtagatgagactttgaactcattaattgattttggaTCAATTAATCC----AATTAATTAATTAATTTAGTTGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55719406 601 -  71252344 cagggtgcacgagctgtgcaggcatggctaccttcacttagattccaaagatgccacagagagcccttagtaaggcaatgctttgtgaagccgtgggggaagggcccctcgcaagatttcaaaactgtagagccaccagtcagcaactccagccttggagag-ctgaaggtacaagactccaaccagtatgagctgtggcatgtgctattctcagcaaagccctggggatgg----------------gactccctagggatgtggaggtccaacccagaagatgggacgttggagtt-aaaaaagattgttctaagaccttgagatttaatgtttgccctgttgagttttgaactttatatggatctattatttctttctttttccaatttcttctttttggaatggaaatggctatcctatgcctgtccctctgttgtattttggaagcacacaacttgttggatttagcaggctctcagctagatagcagtctgccttat-atgaatgacacaaagctttgagtctcacccgtaactgatttagatgatgtgtagatgagactttggactcattaattgattttggaTTCATTAATCC----aattaattaattaaatta----a
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       22136 605 -   3089952 cagggtacacgagctgtgcaggcatggctaccttcacctagattccaaagatgccacagagagcccttagtagggcaatgcttcttgaaaccatgagggaagggccactcacaaaatttcaaaactgtagagccaccagccagcaactccagcctgggagagattgaaggcacaagactccaaccagtatgagctgtgtcatgtgctattctcagcaaagccctggggatgg----------------aact-cctagggatgtggaggtccaacccagaagatggggcactggagtt-aaaaaagattattctcagaccttgagatttaatatttgccctgttgagttttgacctttatagggatctattatttccttctttttccaatttcttctttttggaatggaaatggctatcctatgcctgttcctctgttgtattttggaagcacacaacttgtttgatttaacaggctctcagctagatagcaatttgccttat-atgaatgacacaaagctttgagtctcacctgtaactgatttagatgacgtgtagatgagactttggactcattaattgattttggattaattaatgc----aattaattaattaatttaattta
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13223608 600 -  42888418 cagtgtgcatgagctgtgcaggcaagggtacc-tcacctagattccaaagatgccacagaaagcccttagtaaggcaatgcttcgtgaagccatgggggaagggccactcacaagatttcaaaactgtagagccaccagtcagcaactccagcctgggagtg-ctgaagatacaagacttcaaccagtatgagctgtggcatgtgctattctcagcaaagccctggggatgg----------------gactccctagggatgtggaggtccaacccagaagatgggacattggagtt-aaaaaagattattctcagaccttgagatttaatgtttgccctgttgagtttcgaactttatagggatctattatttctttctttttccaatttcttctttttggaatggaaatggctatcctatgcctgtccctctgttgtattttggaagcacacaacttgtttgatttaataggctctcagctagatagcaatttgccttat-atgaatgacacaaagttttgagtctcacccgtaactgatttagatgatgtgtagatgagagtttggattcattaattgattttggattaattaatcc----aattaattaattaaatta----a
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60561493 1842 + 108143057 I
e canFam3.chr11             14926275  34 +  74389097 I
e proCoq1.NW_012155062v1     3594269 1795 +  11683526 I
e chlSab2.chr23             28389901 1182 +  82825804 I
e otoGar3.GL873679           3080802   0 +   4132165 C
e dasNov3.JH567306           2646338 545 +   3667625 I
e mm10.chr18                55526039 350 +  90702639 I
e colAng1.NW_012119644v1      328272 1182 -   1175262 I

a score=1992100.000000
s hg38.chr5_KI270796v1_alt    103782 265 +    172708 ttTGGG--GATCCAGGGGAAGAGtgctatggttagaatgtttttatcccctttaaaattcatgtttgaacttaatccccaatgtaacagttctaagtggtgtggcctttaggaggtgattgggtcatgtaggttttgctctcatgaatgggattagatgctcttctaaatgggcttgatggaaggagtttgccatttctttaa-------atcccttctgctatgtgaggacacct------------------------------------------------------------acttggcaccatctgtaaggaacaagacttcaccagac
s panTro5.chr5             125207532 265 + 181907262 ttTGGG--GATCCAGGGGAAGAGtgctatggttggaatgtttttatcccctttaaaattcatgtttgaacttaatccccaatgtaacagttctaagtggtgtggcctttaggaggtgattgggtcatgtaggttttgctctcatgaatgggattagatgctcttctaaatgggcttgatggaaggagtttgccatttctttaa-------atcccttctgctatgtgaggacacct------------------------------------------------------------acttggcaccatctgtaaggaacaagacttcaccagac
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126544195 264 + 183735486 ttTGGG--GATCC-GGGGAAGAGtgctatggttggaatgtttttatcccctttaaaattcatgtttgaacttaatccccaatgtaacagttctaagtggtgtggcctttaggaggtgattgggtcatgtaggttttgctctcatgaatgggattagatgctcttctaaatgggcttgatggaaggagtttgccatttctttaa-------atcccttctgctatgtgaggacacct------------------------------------------------------------acttggcaccatctgtaaggaacaagacttcaccagac
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1735916 262 +   8933513 ttT-GG--GATCCAGGGGAAGAGtgctatggttggaatgtttttat-ccctttaaaattcatgtttgaacttaatccccaatgtaacagttctaagtggtgtgg-ctttaggaggtgattgggtcatgtaggttttgctctcatgaatgggattagatgctcttctaaatgggcttgatggaaggagtttgccatttctttaa-------atcccttctgctatgtgaggacacct------------------------------------------------------------acttggcaccatctgtaaggaagaagacttcaccagac
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139870935 259 + 163208435 TTTGGG--GATCCAGGGTAAGAGtgctatggttggaatgtttgtatcccctttaaaattcatgtttgaacttaatccccaatgtaacagtactaagaggtgtggcctttaggaggtgattcggtcatgtgggttttgccctcatgaatgggattagatgctcttctaaatgggcttgatggaaggagtttgccatttc-------------tccctcctgctatgtgaggacacat------------------------------------------------------------acttggcaccgtctgtaaggaacaagacttcaccagac
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122855613 265 + 180051392 ttTGGG--GATCCAGGGGAAGAGtgctatggttggaatgtttttatcccctttaaaattcatgtttgagcttaatccccagtggaacagtaccaggaggtgtggcctttaggaggtgattgggtcatgtaggttttgctctcatgaacgggattagatggtcttctaaatgggtttgatggaaggagtttgccatttctttaa-------atcccttctgctatgtgaggacacct------------------------------------------------------------acttggcaccatctgtaaagaacagaacttcaccagac
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124279226 265 + 181584905 ttTGGG--GATCCAGGGGAAGAGtgctatggttggaatgtttttatcccctttaaaattcatgtttgagcttaatccccagtggaacagtaccaggaggtgtggcctttaggaggtgattgggtcatgtaggttttgctctcatgaacgggattagatggtcttctaaatgggtttgatggaaggagtttgccatttctttaa-------atcccttctgctatgtgaggacacct------------------------------------------------------------acttggcaccatctgtaaagaacagaacttcaccagac
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16277563 265 +  18395747 ttTGGG--GATCCAGGGGAAGAGtgctatggttggaatgtttttatcccctttaaaattcatgtttgagcttaatccccagtggaacagtaccaggaggtgtggcctttaggaggtgattgggtcatgtaggttttgctctcatgaacgggattagatggtcttctaaatgggtttgatggaaggagtttgccatttctttaa-------atcccttctgctatgtgaggacacct------------------------------------------------------------acttggcaccatctgtaaagaacagaacttcaccagac
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5290544 265 +  26952557 ttTGGG--GATCCAGGGGAAGAGtgctatggttggaatgtttttatcccctttaaaattcatgtttgagcttaatccccagtgtaacagtaccaggaggtgtggcctttaggaggtgattgggtcatgtaggttttgctctcatgaatgggattagacggtcttctaaatgggtttgatggaaggagtttgccatttctttaa-------atcccttctgctatgtgaggacacct------------------------------------------------------------acttggcaccatctgtaaagaacagaacttcaccagac
i cerAty1.NW_012002512v1   C 0 C 0
s manLeu1.NW_012103321v1     4060362 265 -   4237731 ttTGGG--GATCCAGGGGAAGAGtgctatggttggaatgtttttatctcttttaaaattcatgtttgagcttaatccccagtgtaacagtaccaggaggtgtggcctttaggaggtgattgggtcatgtaggttttgctctcatgaatgggattagacggtcttctaaatgggtttgatggaaggagtttgccatttctttaa-------atcccttctgctatgtgaggacacct------------------------------------------------------------acttggcaccatctgtaaagaacagaacttcaccagac
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123676153 264 - 204313951 TTTGGG--GATCCAGGGGAAGAGtgccatggttagaatgtttttatcccttctaaaattcatgtttgaacttaatctccaatataacagtactaagaagtgtggcttttaggagatgattgggtcatgcatgctttgctctcatgaatgggattagatgcttttctaagtgggcttgatgaaaggggtttg-catttctttaa-------atcccttctgctatgtgacgacagct------------------------------------------------------------acttggcaccatctataaggaaaaggacttcactagtc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55720007 264 -  71252344 tttGGG--GATCCAGGGGAAGAGtaccatggttggaatgtttttatgccttctacaattcatgtttgaacttaatctccaatataacagtactaagaagtgtggcttttaggagatgattgggtcatgcaggctttgctctcatgaatgggattagatgcttttctaagtgggcttgatgaaaggagtttg-catttctttaa-------atcccttctgctatgtgacaacagct------------------------------------------------------------acttggtaccatctataaggaacaggactttaccagtc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       22741 264 -   3089952 attGGG--GATCCAGCGGAAGAGtgccatggttggaatgtttttatcccttctaaaattcatgtttgaacttaatctccaatataacagtactaagaagtgtggcttttaggagatgattgggtcatgcaggctttgctctcatgaatgggattagatgcttttgtaagtgggcttgatgaaaggagtttg-catttctttaa-------atcccttctgctatgtgatgacagct------------------------------------------------------------acttggcaccatctataaggaacaggacttcaccagtc
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13224208 264 -  42888418 ttTGGG--GATCCAGGGGAAGAGtgccatggttggaatgtttttatcccttctaaaattcatgtttgaacttaatctccaatataacagtactaagaagtgtggcttttaggagatgattgggtcatgcaggctttgctctcatgaatgggattagatgcttttctaagtgggcttgatgaaaggagtttg-catttctttaa-------atcccttctgctatgtgacgacagct------------------------------------------------------------acttggcaccatctataaggaacaggacttcaccagac
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55526389 292 +  90702639 tttgggcagaacatggagcagaaAACTGTAGCTCAAGTGATTTTGTTCCCTCATAACATAATAACAAAACTTTATCCTCAGT-------------GAGATATGGCCTTGAGGAGATGACTTGATTCTGCAAGTCTTG---------------------------GCAAAAGAGCTTGATGGGAGCCATTGACCCCCTTTGTACCCATTTTGTCCCTTCCAGAAGATGA-GACATTTCAGCTATCTTAGAAGCTGCCATTCTCATTATACTAGGGCCTTAAGGCTAGAACTGTTAAAACGTggtattatctatgaaaaat-ggccatctctggat
i mm10.chr18               I 350 C 0
e micMur3.chr12             60561493 1842 + 108143057 I
e canFam3.chr11             14926275  34 +  74389097 I
e proCoq1.NW_012155062v1     3594269 1795 +  11683526 I
e chlSab2.chr23             28389901 1182 +  82825804 I
e otoGar3.GL873679           3080802   0 +   4132165 C
e dasNov3.JH567306           2646338 545 +   3667625 I
e colAng1.NW_012119644v1      328272 1182 -   1175262 I

a score=7126623.000000
s hg38.chr5_KI270796v1_alt    104047 742 +    172708 actgaacccgctggcacctttatcttgcacttc----ccaccctccggatctgtgagaaataaacttcta-tttttt-aaaaaatagattacccagtctcaagtctcttgttatagtagcataaacagatgaagacaATAGTTA--AAGATGGGACTGTGATCTTTTTGTATAGGAGTATAAGTTCA-GCAAGGAACTCACCACAAAGGTTTGTACTTTATAGGATCACTAAGTCACTGTTGAATAATTAAAGGCAGTATCTGAGTAGCCAATTTCCTGTGTCATCACGAAGATAAGGCTTAGCTGTCACCATGGCATCTTGCACTTGCCCATATTATGGAGACTATTGGCTACTGAACAAACTGTGC-------------TATTGGTAAAGTCCCTTTATAGCAGGCAAAT-ACTCTTTCATTTGTGAATTTATTCACTCCATATTTACCTCCTCCAACTTTGGCTTCTATT-TGTTCAAAATTGGTAGACAAAagttgatatgacttattctgtcaccttttctggagatattatttacagttcattagtagatttgtagatgacacaagtttgacatactaagatataaattcccagtagtagtattatagacaTTTGATT---GAGTAGTGTTTAGGTTAC--------TTTCCTCAAAATCATTATCTCTGATGTTTTCTC-AAAATCACACTTCAAAGAGG-ATGATTTACTTCTGGGGCAACACTGCAGGTAGTTCTGCCCTATCTcaacaataaatacaaaagagaaacaa
s panTro5.chr5             125207797 741 + 181907262 actgaacccgctggcacctttatcttgcacttc----ccagcctccagatctgtgagaaataaacttcta-tttttt-aaaaaatagattacccagtctcaagtctcctgttatggtagcataaacagatgaagacaATAGTTA--AAGATGGGACCGTTATCTTTTTGTATAGGAGTATAAGTTCATGCAAGGAACTCACCACAAAGGTTTGTACTTTATAGGATCACTAAGTCACTGTTGAATAATTAAAGGCAGTATCTGAGTAGCCAATTTCCTGTGTCATCACAAAGATA-GGCTTAGCTGTCACCATGGCATCTTGCACTTGCCCATATTATGGAGACTATTGGCTACTGAACAAACTGTGC-------------TATTGGTAAAGTCCCTTTATAGCAGGCAAAT-ACTCTTTCATTTGTGAATTTATTCACTCCATATTTACCTCCTCCAACTTTGGCTTCTATT-TGTTCAAAATTGGTAGACAAAagttgatatgacttattctgtcaccttttctggagatattatttatagttcattagtagatttgtagatgacaca-gtttgacatactaagatataaattcccagtagtagtattatagacaTTTGATT---GAGTAGTGTTTAGGTTAC--------TTTCCTCAAAATCATTATCTCTGATGTTTTCTC-AAAATCACACTTCAAAGAGG-ATGATTTACTTCTGGGGCAACACTGCAGGTAGTTCTGCCCTATCTcaacaataaatacaaaaaagaaacaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126544459 742 + 183735486 actgaacccgctggcacctttatcttgcacttc----ccagcctccagatctgtgagaaataaacttcta-tttttt-aaaaaatagattacccagtctcaagtctcttgttatggtagcataaacagatgaagacaATAGTTA--AAGATGGGACTGTGATCTTTTTGTATAGGAGTATAAGTTCATGCAAGGAACTCACCACAAAGGTTTGTACTTTATAGGATCACTAAGTCACTGTTGAATAATTAAAGGCAGTATCTGAGTAGCCAATTTCCTGTGTCATCACAAAGATA-GGCTTAGCTGTCACCATGGCATCTTGCACTTGCCCATATTATGGAGACTATTGGCTACTGAACAAACTGTGC-------------TATTGGTAAAGTCCCTTTATAGCAGGCAAAT-ACTCTTTCATTTGTGAATTTATTCACTCCATATTTACCTCCTCCAACTTTGGCTTCTATT-TGTTCAAAATTGGTAGACAAAagttgatatgacttattctgtcaccttttctggagatattatttatagttcattagtagatttgtagatgacacaagtttgacatactaagatataaattcccagtagtagtattatagacaTTTGATT---GAGTAGTGTTTAGGTTAC--------TTTCCTCAAAATCATTATCTCTGATGTTTTCTC-AAAATCACACTTCAAAGAGG-ATGATTTACTTCTGGGGCAACACTGCAGGTAGTTCTGCCCTATCTcaacaataaatacaaaaaagaaacaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1736178 742 +   8933513 actgaacccgctggcacctttatcttgcacttc----ccagcctccagatctgtgagaaataaacttcta-tttttt-aaaaaatagattacccagtctcaagtctcttgttatagtagcataaacagatgaagacaATAGTTA--AAGATGGGACTGTGATCTTTTTGTATAGGAGTATAAGTTCATGCAAGGAACTCACCACAAAGGTTTGTACTTTATAGGATCACTAAGTCACTGTTGAATAATTAAAGGCATTATCTGAGTAGCCAATTTCCTGTGTCATCACGAAGATA-GGCTTAGCTGTCACCATGGCATCTTGTACTTGCCCATATTATGGAGACTATTGGCTACTGAACAAACTGTGC-------------TATTGGTAAAGTCCCTTTATAGCAGGCAAAT-ACTCTTTCATTTGTGAATTTATTCACTCCACATTTACCTCCTCCAACTTTGGCTTCTATT-TGTTCAAAATTGGTAGACAAAagttgatatgacttattctgtcaccttttctggagatattatttacagttcattagtagatttgtagatgacacaagtttgacatactaagatataaattcccagtagtagtattatagacaTTTGATT---GAGTAGTGTTTAGGTTAC--------TTTCCTCAAAATCATTATCTCTGATGTTTTCTC-AAAATCACACTTCAAAGAGG-ATGATTTACTTCTGGGGCAACACTGCAGGTAGTTCTGCCCTATCTcaacaataaatacaaaaaagaaacaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139871194 750 + 163208435 actgaacccgctggcacctttatcttgcacttc----ccagcctccagatctgtgagaaataaacttcta-tttttt-aaaaaatagattacccagtctcaagtctcttgttacagtagcataaacagacgaagacaATAGTTA--AAGATGGGACTGTGATCTTTTTGTGCAGGAGTATAAGTTCATGCAAGGAACTCACCACAAAAGTTTGTACTTTATAGGATCAGTAAGTCACTGTTGAATAATTAAAGGCAGTATCTGAGTAGCCAATTTCCTGTGTCATCACAAAGATA-GGCTTAGCTGTCACCATGGCATCTTGCACTTGCCCATATTATGGAGACTACAGGCTATTGAACAAACTGTGC-------------TGTTGGTAAAGTCCATTCGTAGCAGGCGAGT-ACTCTTTCATTTGTGAATTTATTCACTCCATATTTACCTCCTCCAACTTTGGCTTCTATT-TGTTCAAAATTGGTAGACAAAagttgatatgacttattctgtcaccttttatggagatattatttacagttcattagtagatttgtagatgacacaagtttgacatactaagatataaattcccagtagtagtattatagacaTTTGGTT---GAGTAGTGTTTAGGTTATCACTCATATTTTCTCAAAATCATTATCTCTGATATTTTCTA-AAAATCACACATCAAAGAGG-ATGATTTACTTCTGGGGCAACACTGCAGGTAGTTCTGCCCAATCTcaacaataaatacaaaaaagaaacaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122855878 708 + 180051392 actgaacccgctgacacctttatcttgcacctc----tctgcctctagatctgtgagaaacaaacttcta-tttttt-aaaaaatagattacccagtctcgagtctcttgttgtagtagcacaaacagatgaagacaATAGTTA--AAGATGGGACTGTAATCTTTTTGTATGGGAGTATAAGTTCATGCAAGGAACTCACCACAAAGGTTTGTACTTTACAGGATCAGTAAGTCACTGTTGAAGAATTTAAGGCAGTATCTGAGTAGCCAATTTCCTGTGTCATCACAAAGATA-GGTTTAGCTGTCACCATGGCATCTTACACTTGCCCATATTATGGAGACTAT-------TGAACAAACTGTGC-------------TATTGGTAAAGTCCATTTATAGCAGGCAAGT-ACTCTTTCATTTGTGAATTTATTCACTCCTTATTTACCTCCTCCAACTTTGGCTTCTATT-TGTTCAAAATTGGTAGACAAAAGTTGATATGACTTACTCCATCACCTTTTCTGGAGATATTATTTATAGTTCATTAGGAGATTTGTAGATGACACAAGTTTGATATACTAAGATATAAATTCTCAGTAGTAGTATTATAGACATTTGGTT---GAGTAGTGTTTAGGTTATCA--------------------------CTGATATTTTCTC-AAAATGACACATCAAAGAGGAATGATTTACTTCTGGGGCAACACTGCAGGTAGTTCTGCCTT-----AACAATAACTACAAAAAAGA-----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124279491 708 + 181584905 actgaacccgctgacacctttatcttgcacctc----tctgcctctagatctgtgagaaacaaacttcta-tttttt-aaaaaatagattacccagtctcgagtctcttgttgtagtagcacaaacagatgaagacaATAGTTA--AAGATGGGACTGTAATCTTTTTGTATGGGAGTATAAGTTCATGCAAGGAACTCACCACAAAGGTTTGTACTTTACAGGATCAGTAAGTCACTGTTGAAGAATTTAAGGCAGTATCTGAGTAGCCAATTTCCTGTGTCATCACAAAGATA-GGTTTAGCTGTCACCATGGCATCTTACACTTGCCCATATTATGGAGACTAT-------TGAACAAACTGTGC-------------TATTGGTAAAGTCCATTTATAGCAGGCAAGT-ACTCTTTCATTTGTGAATTTATTCACTCCTTATTTACCTCCTCCAACTTTGGCTTCTATT-TGTTCAAAATTGGTAGACAAAAGTTGATATGACTTACTCCATCACCTTTTCTGGAGATATTATTTATAGTTCATTAGGAGATTTGTAGATGACACAAGTTTGATATACTAAGATATAAATTCTCAGTAGTAGTATTATAGACATTTGGTT---GAGTAGTGTTTAGGTTATCA--------------------------CTGATATTTTCTC-AAAATGACACATCAAAGAGGAATGATTTACTTCTGGGGCAACACTGCAGGTAGTTCTGCCTT-----AACAATAACTACAAAAAAGA-----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16277828 708 +  18395747 actgaacccgctgacacctttatcttgcacctc----tctgcctctagatctgtgagaaacaaacttcta-tttttt-aaaaaatagattacccagtctcgagtctcttgttgtagtagcacaaacagatgaagacaATAGTTA--AAGATGGGACTGTAATCTTTTTGTATGGGAGTATAAGTTCATGCAAGGAACTCACCACAAAGGTTTGTACTTTACAGGATCAGTAAGTCACTGTTGAAGAATTTAAGGCAGTATCTGAGTAGCCAATTTCCTGTGTCATCACAAAGATA-GGTTTAGCTGTCACCATGGCATCTTACACTTGCCCATATTATGGAGACTAT-------TGAACAAACTGTGC-------------TATTGGTAAAGTCCATTTATAGCAGGCAAGT-ACTCTTTCATTTGTGAATTTATTCACTCCTTATTTACCTCCTCCAACTTTGGCTTCTATT-TGTTCAAAATTGGTAGACAAAAGTTGATATGACTTACTCCATCACCTTTTCTGGAGATATTATTTATAGTTCATTAGGAGATTTGTAGATGACACAAGTTTGATATACTAAGATATAAATTCTCAGTAGTAGTATTATAGACATTTGGTT---GAGTAGTGTTTAGGTTATCA--------------------------CTGATATTTTCTC-AAAATGACACATCAAAGAGGAATGATTTACTTCTGGGGCAACACTGCAGGTAGTTCTGCCTT-----AACAATAACTACAAAAAAGA-----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5290809 719 +  26952557 actgaaccctctgacacctttatcttgcacctc----tctgcctctagatctgtgagaaacaaacttcta-ttttttaaaaaaatagattacccagtctcgagtctcttgttgtagtagcacaaacagatgaagacaATAGTTA--AAGATGGGACTGTGATCTTTTTGTATGGGAGTATAAGTTCATGCAAGGAACTCACCACAAAGGTTTGTACTTTACAGGATCAGTAAGTCACTGTTGAAGAATTTAAGGCAGTATCTGAGTAGCCAATTTCCTGTGTCATCACAAAGATA-GGTTTAGCTGTCACCATGGCATCTTACACTTGCCCATATTATGGAGACTAT-------TGAACAAACTGTGC-------------TATTGGTAATGTCCATTTATAGCAGGCAAGT-ACTCTTTCATTTGTGAATTTATTCACTCCTTATTTACCTCCTCCAACTTTGGCTTCTATT-TGTTCAAAATTGGTAGACAAAAGTTGATATGACTTACTCCATCACCTTTTCTGGAGATACTATTTATAGTTCATTAGGAGATTTGTAGATGACACAAGTTTGACATACTAAGATATAAATTCTCAGTAGTAGTATTAGAGACATTTGGTT---GAGTAGTGTTTAGGCTATCA--------------------------CTGATATTTTCTC-AAAATGACACATCAAAGAGGAATGATTTACTTCTGGGGCAACACTGCAGGTAGTTCTGCCTTATCTcaacaataactacaaaaaagaaacaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28391083 743 +  82825804 actgaacccgctgacacctttatcttgcacttc----tcagcctccagatctgtgagaaataaacttcta-ttttta-aaaaaatagattacccagtctcaagtctcttgttgtagtagcacaaacagatgaagacGATAGTTA--AAGATGGGACTGTGATCTTTTTGTATGGGAGTATAAGTTCATGCAAGGAACTCACCACAAAGGTTTGTACTTTACGGGATCAGTAAGTCACTGCTGAAGAATTTAAGGCAGTATCTGAGTAGCCAATTTCCTGTGTCATCACAAAGATA-GGTTTAGCTGTCACCATGGCATCTTACACTTGCCCATATTATGGAGACTAT-------TGAACAAACTGTGC-------------TATTGGTAAAGTCTGTTTATAGCAGGCAAGT-ACTCTTTGATTAGTGAATGTATTCACTCATTATTTACCTCCTCCAACTTTGGCTTCTATT-TGTTCAAAATTGGTAGACAAAAGTTGATACGACTTACTCCATCACCTTTTCTGGAGATACTATTTACAGTTCATTAGGAGATTTGTAGATGATACAAGTTTGACATACTAAGATATAAATTCTCAGTAGTAGTATTATAGACATTTGGTT---GAGTAGTGTTTAGGTTATCACTGATATTTTCTCAAAATCATTCTCTCTGATATTTTCTC-AAAATCACACATCAAAGAGG-ATGATTTACTTCTGGGGCAACACTGCAAGTAGTTCTGCCTTATCTcaacaataactacaaaaaagaaacaa
i chlSab2.chr23            I 1182 C 0
s manLeu1.NW_012103321v1     4060627 719 -   4237731 actgaacccgctgacacctttatcttgcacctc----tctgcctctagatccgtgagaaacaaacttctatttttta-aaaaaatagattacccagtctcgagtctcttgttgtagtagcacaaacagatgaagacaATAGTTA--AAGATGGGACTGTGATCTTTTTGTATGGGAGTATAAGTTCATGCAAGGAACTCACCACAAAGGTTTGTACTTTACAGGATCAGTAAGTCACTGTTGAAGAATTTAAGGCAGTATCTGAGTAGCCAATTTCCTGTGTCATCACAAAGATA-GGTTTAGCTGTCACCATGGCATCTTACACTTGCCCATATTGTGGAGACTAT-------TGAACAAACTGTGC-------------TATTGGTAATGTCCATTTATAGCAGGCAAGT-ACTCTTTCATTTGTGAATTTATTCACTCCTTATTTACCTCCTCCAACTTTGGCTTCTATT-TGTTCAAAATTGGTAGACAAAAGTTGATATGACTTACTCCATCACCTTTTCTGGAGATACTATTTATAGTTCATTAGGAGATTTGTAGATGACACAAGTTTGACATACTAAGATATAAATTCTCAGTAGTAGTATTAGAGACATTTGGTT---GAGTAGTGTTTAGGTTATCA--------------------------CTGATATTTTCTC-AAAATGACACATCAAAGAGGAATGATTTACTTCTGGGGCAACACTGCAGGTAGTTCTGCCTTATCTcaacaataactacaaaaaagaaacaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      329454 743 -   1175262 actgaacccgctgacacctttatcttgcacttc----tcagcctccagatctgcgagaaataaacttcta-ttttta-aaaaaatacattgcccagtctcaagtctcttgttatagtagcacaaacagatgaagacaATAGTTA--AAGATGGGACTGTGATCTTTTTGTATGGGAGTATAAGTTCATGCAAGGAACTCACCACAAGGGTTTGTACTTTACAGGATCAGTAAGTCACTGTTGAAGAATTTAAGGCAGTATCTGAGTAGCCAATTTCCTGTGTCATCACAAAGATA-GGTTTAGCTGTCACCATGGCATCTTACACTTGCCCATATTATGGAGACTAT-------TGAACAAACTGTGC-------------TGTTGGTAAAGTCCATTTATAGCAGGCAAGT-ACTCTTTGATTTGTGAATGTATTCACTCCATATTTACTTCCTCCAACTTTGTCTTCTATT-TGTTCAAAATTGGTAGACAAAagttgatatgacttactccatcaccttttctggagatattatttgtagttcattaggagatttgtagatgacacaagtttgacatactaagatataaattctcagtagtagtattatagacaTTTGGTT---GAGTAGTGTTTAGGTTGTCACTGATATTTTCTCAAAATCATTCTCTCTGATATTTTCTC-AAAATCACACATCAAAGAGG-ATGATTTACTTCTGGGGCAACACTGCAGGTAGTTCTGCCTTATCTcaacaataactacagaaaataaacaa
i colAng1.NW_012119644v1   I 1182 C 0
s calJac3.chr2             123676417 750 - 204313951 actgaacctgctggcgcctttatcttgcacttc----ccagcctccagatctgtgagaaataaatttcta-ttttta-aaaaaatagactacccactctcaggtttcttgttatagtagcacaaacagatgaagacaGTAGTTACCAAGATGGGACCATGATCTTTTTGTATGGGAGTGTAAGTTCATGCAAAGAACTCACCACAAAGGTTTATACTTTATAGGATCAGTAAATCACTGTTGAATAAATAAAGGCAATATCTGAGTAGCCAATTTCCTGTGTCATCACAAAGATA-GGCTTAGCTGTCACCATGGCTTCTTGTACTTGCAAATGTTATGGAGATTATTATCTATTCAATAAACTGTGC-------------TATTGGTAAAGTCTATGTATAGCAGGGAAGT-ACTCTTTCATTTGTGAATGTATTCACTCCAAATTTACCTCCTCCAAATTTGGCTTCTATT-TGTTC-GAATTGGTAGACAAAAGTTGGTATGACTTATTCTGTAACTTTTCCTGGAGATATTATTTATAGTTCATTAGTAG-TTTGTAGATGACACAAATTTGGCATAGCAAGAAATAAACTCCCAGTACTAGTACTATAGACATTTGGTT---GAAGAACGTTTAGATTATTTCTGATACTTTCTCAAAATCAGTATCTCAGATATTTTCTCAAAAATCATACATCAAAGAGG-ATGATTTACTTCTGGGGCAACACTGCCGGT-GTTCTGCCTTATCTCAACAATAACTACAAAAAGGAAACAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55720271 750 -  71252344 actgaacccgctggcacctttatcttgcacttt----ccagcctccagatctgtgagaaataaatttcta-tttttt-aaaaaagagactacccactctcaggtttcttgttatagtagtacaaacaaatgaagacaGTAGTTA--GAGATGGGACCATGATCTTTTTGTACGGGAGTGTAAGTTCATGCAAGGAACTCACCACAAAGGTTTGTACTTTATAGGATCAGTAAATCACTATTGAATAAATAAAGGCGATATCTGAGTAGCCAATTTCCTGTGTCATCACAAAGTTA-GGCTTAGCTGTCATCATGGCTTCTTGTACCTGCAAATGTTATGGAGATTATTAGCTATTCAATAAGCTGTGC-------------TATTGGTAAAGTCTATGTATAGCAGGGAAGT-ACTCTTTCATTTGTGAATGTATTCACTCCATATTTACCTCCTCCAAATTTGGCTTCTGTTGTGTTC-CAATTGGTAGACAAAAGTTGATATGACTTATTCTGTCACCTTTCCTGGAGATATTATTTATAGTTCATTAGTAG-TTTGTAGATGACACCAATTTGGCATACCAAGAAATAAATTCCCAGTACTAGAACTATAGACATTTGGTT---GAAGAACGTTTAGATTATCTCTAATATTTTCTCAAAATCAGTATCTCAGATATTTTCTCAAAAATCATACATCAAAGAGG-ATGATTTACTTCTGGGGCAACACTGCAGGCAGTTCTACCTTATCTCAACAATAACTACGAAAACGAAACAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       23005 749 -   3089952 actgaacccgctggcacctttatcttgcacttc----ccagcctccagatctgtgagaaataaatttcta-tttttt-aaaagatagactgcccactcttaggtttcttgttatagtagcacaaacagatgaagacaGTAGTTA--AAGGTGGGACCATGATCTTTTTGTATGGGAGTATAAGTTCATGCAAGGAACGCACCACAAAAGTTTGTACTTTATAGGAACAGTAAATCACTGTTGAATAAATAAAGGCAGTATCTGAGTAGCCAATTTCCTGTGTCATCACAAAGATA-GGCTTAGCTGTCACCATGGCTTCTTGTACCTGCAAATGTTATGGAGATTATTAGCTATTCAATAAACTGTGC-------------TATTGGTAAAGTCTGTGTATAGCAAGGAAGT-ACTCTTTCATTTGTGAATGTATTCACTCCATATTTACCTCCTCCAAATTTGGCTTCTGTT-TGTTC-GAATGTGTAGACAAAAGTTGATATGACTTATTCTGTCACCTTTCCTGGAGATATTATTTATAGTTCATTAGTAG-TTGGTAGATGACGCCAATTTGGCATACCAAGAAATAAATTCCCAGTACAAGTACTATAGACATTTGGTT---GAAGAACATTTAGATTATCTCTGATATTTTCTCAAAATCAGTATCTCAGGTATTTTCTCAAAAATCATACATCAAAGAGG-ATGATTTACTTCTGGGGCAACACTGCAGGCAGTTCTGCCTTATCTCCACAATAACTATGAAAAGGAAACAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13224472 749 -  42888418 actgaacccgctggcacctttatcttgcacttc----ccagcctccagatctgtgagaaataaatttcta-tttttt-taaaaatagactgcccactctcaggtttcttgttatagtagcacaaacagatgaagacaATAGTTA--AAGATGGGACCATGATCTTTTTGTATGGGAGTGTAAGTTCATGCAAGGAACTCACCTCAAAGGTTTGTACTTTATAGGATCAGTAAATCACTGTTGAATAAATAAAGGCAATATCTGAGTAGCCAATTTCCTGTGTCATCACAAAGATA-GGCTTAGCTGTCTCCATGGCTTCTTGTACTTGCAAATGTTACGGAGATTATTAGCTATTCAATAAACTGTGC-------------TATTGGTAAAGTCTATGTATAGCAGACAAGT-ACTCTTTCATTTGTGAATGTATTCACTCCATATTTACCTCCTCCAAATTTGGCTTCTATT-TGTTT-GAATTGGTAGACAAAAGTTGATATGACTTATTCTGTCACCTTTCCTGGAGATATTATTTATAGTTCATTAGTAG-TTTGTAGATGACACAAATTTGGCATACCAAGAAATAAATTCCCAGTATTAGTACTACAGACATTTGTTT---GAAGAACGTTTAGATTATCTCTGATATTTTCTCAAAATCAATATCTCAGATATTTTCTCAAAAATCATACATCAAAGAGG-ATGATTTACTTCCGGGGCAACACTGCAGGTAGTTCTGCCTTATCTCAACAATAACTACAAAAAGGAAACAG
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55526681 654 +  90702639 accaagcttatgaac-------ttgtgaacttctagttatatctccagaactgcaaagcataaatttctg-tgcttt------atacattattcagtcccaaatattttgttatagcaccatgaatC--------------CTA--TGAGAAGGCCTGT------------------------------------------CACAAAGGTTTGCTCTTTAAAACATCAGTAAGTTGCTGTTGAATAAAGGCAGACAATGTCTTAGTGTCCTTTCTATTGTATCATCATAAAGATC-------ACTGTTGCCATGGAATCTC-TGCTTGCCACTCTAATGAAGACGGT----TATTGACAAAAGCATGTTGATTGAAAAAAATATAGATAGAATCGGTTTGCAGCAAGTCAATGACTCCTCCAGT-ATG-ACTTGTGTAGTTCACATTCACTTCTTTAAAGTTTA-CTTCCATT-CATTCGGAATTGGTAG-CTAAAACTGATCCAGTGGAGTCTGTTACC------AGAAGCATTATTTAGAGTTTATTAGAAGGTTTAAAGACGAAACAAGTTTAAACTCCTAAGCTATGAA-TCACAAAAATGATATTTTACATGTTCAATTTTGGAAGGTTGTTTTGATTGC---------------------ATTTTCTTTGCAATTTTCTC-AAA--TATATATCAAAGCGC----CATTACTTCTGTGGCTGTACTGT-GGTGCATCTTCCGTTTCAAGAAAACAACAGCGAAGGAGTAACAA
i mm10.chr18               C 0 I 200
e micMur3.chr12             60561493 1842 + 108143057 I
e canFam3.chr11             14926275  34 +  74389097 I
e proCoq1.NW_012155062v1     3594269 1795 +  11683526 I
e otoGar3.GL873679           3080802   0 +   4132165 C
e dasNov3.JH567306           2646338 545 +   3667625 I

a score=2518425.000000
s hg38.chr5_KI270796v1_alt    104789 274 +    172708 caacaacaGACTCCAAAATTACcaatattgcatcatcagtaaaagtcactgtttgtggagttaaactgcctttgttaaattctagcttctacaaaaatggaaaaattatccaggtgtggtgatgtgtgcctgtagt-ctcagctacttgggaggctgaggtgggaggattgcttgagccagagagactgaggctgcagtgaaccatgatcgtgccatacactccagcctgagtgatagag-gaga-cccccatctcaaaaaaaaaaaaaagaaaaaa
s panTro5.chr5             125208538 267 + 181907262 caacaacaGACTCCAAAATTACCAATATTGCATCATCAGTAAAAGTCACTGTTCGTGGAGTTAAACTGCCTTTGTTAAATTCTAGCTTCCACaaaaatggaaaaattatccaggtgtggtgatgtgtgcctgtagt-ctcagctacttgggaggctgaggtgggaggattgcttgagccagagagactgaggctgtggtgaatcatgatcgtgccatacactccagcctgagtgatagag-gaga-cccccatctcaaaaaaaaaaaaaa-------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126545201 266 + 183735486 caacaacaGACTCCAAAATTACCAATATTGCATCATCAGTAAAAGTCACTGTTCGTGGAGTTAAACTGCCTTTGTTAAATTCTAGCTTCCACaaaaatggaaaaattatccaggtgtggtgatgtgtgcctgtagt-ctcagctacttgggaggctgaggtgggaggattgcttgagccagagagaccgaggctgcggtgaatcatgatcgtgccatacactccagcctgagtgatagag-gaga-cccccatctcaaaaaaaaaagaa--------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1736920 263 +   8933513 caacaacaGACTCCAAAATTACcaatattgcatcatcagtaaaagtcactgtttgtggagttaaactgcctttgttaaattctagcttctacaaaaatggaaaaattatccaggtgtggtgatgtgtgcctgtagt-ctcagctacttgggaggctgaggtgggaggattgcttgagccagagagactgaggctgcagtgaaccgtgatcgtgccatacactccagcctgagtgatagag-gaga--ccccatctcaaaaaaagaaa----------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139871944 254 + 163208435 caacaacaGACTCCAAAATTACCAATATTTCATCATCAGTAAAAGTCACTGTTTGTGGAGTTAAACTGCCTTTGTTAAATTCTAGCTtctacaaaaatggaaaaattattcaggtgtggtgatgtgtgcctgta-t-ctaagctacttgggaggctggggtgggaggattgcttgagccagaaagactgaggctgcagtgaaccatgatcgtgccatacactccagcctgagtgata----gaga-cccccatcgcaaaaa----------------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122856586 274 + 180051392 -AACAACAGACTCAAAAATTACTAATATTGCGTCATAAGTAAAAGTCGCTGTTTGTGGAGTTAAACTGCCTTTGTTAAATTCTAGCTtctacaaaaatggaaaaattatccaggtgtggtgatgtgtgcctgtggt-ctcagctacttgggaggctgaggtgtgagaattgcttgagccagggagactgaggctgcagtgaaccacgatcatgccatacactccagcctgagtgatagagtgata-cccccatctcaaaaaaaaaaaaaaaaaaaaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124280199 274 + 181584905 -AACAACAGACTCAAAAATTACTAATATTGCATCATAAGTAAAAGTCGCTGTTTGTGGAGTTAAACTGCCTTTGTTAAATTCTAGCTtctacaaaaatggaaaaattatccaggtgtggtgatgtgtgcctgtggt-ctcagctacttgggaggctgaggtgtgagaattgcttgagccagggagactgaggctgcagtgaaccacgatcatgccatacactccagcctgagtaatagagtgata-cccccatctcaaaaaaaaaaaaaaaaaaaaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16278536 273 +  18395747 -AACAACAGACTCAAAAATTACTAATATTGCGTCATAAGTAAAAGTCGCTGTTTGTGGAGTTAAACTGCCTTTGTTAAATTCTAGCTtctacaaaaatggaaaaattatccaggtgtggtgatgtgtgcctgtggt-ctcagctacttgggaggctgaggtgtgagaattgcttgagccagggagactgaggctgcagtgaaccacgatcatgccatacactccagcctgagtgatagagtgata-cccccatctc-aaaaaaaaaaaaaaaaaaaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5291528 266 +  26952557 caacaacaGACTCAAAAATTACTAATATTGCGTCATAAGTAAAAGTCGCTGTTTGTGGAGTTAAACTGCCTTTGTTAAATTCTAGCTtctacaaaaatggaaaaattatccaggtatggtgatgtgtgcctgtagt-ctcagctacttgggaggctgaggtgtgacaattgcttgagccagggagactgaggctgcagtgaaccacgatcgttccatacactccagcctgagtgatagagtgagaccccccatctc----------aaaaaaaaaaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28391826 275 +  82825804 caacaacaGACTCAAAAATTACTAATATTGCATCATGAGTAAAAGTCACTGTTTGTGGAGTTAAACTGCCTTTGTTAAATTCTAGCTtctacaaaaatggaaaaattatccaggtgtggtgatgtgtgcctgtagt-ctcagctacttgggaggctgaggtgggagaattgcttgagccagggagactgaggctgcagtgaaccacgatcgtgccacacactccagcctgagtgatagagtgaga-cccccatctcaaaaaaaaaaaaaaaaaaaaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4061346 276 -   4237731 caacaacaGACTCAAAAATTACTAATATTGCGTCATAAGTAAAAGTCGCTGTTTGTGGAGTTAAACTGCCTTTGTTAAATTCTAGCTtctacaaaaatggaaaaattatccaggtatggtgatgtgtgcctgtagt-ctcagctacttgggaggctgaggtgtgacaattgcttgagccagggagactgaggctgcagtgaaccacgatcgttccatacactccagcctgagtgatagagtgagaccccccatctcaaaaaaaaaaaaaaaaaaaaa
i manLeu1.NW_012103321v1   C 0 I 337
s colAng1.NW_012119644v1      330197 266 -   1175262 caacaacaGACTGAAAAATTACTaatattgcatcatgagtaatagtcactgtttgtggagttaaactgcctttgttaaattctagcttctacaaaaatggaaaaattatccaggtgtggtgatgtgtgcctgtagt-ctcagctacttgggaggctgaggtggaagaattgcttgagccagggagactgaggctgtagtgaaccatgatcgtgccacacactccagcctgagtgatagagtgaga-cccccatctcaaaaaaaaaaaa---------
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123677167 268 - 204313951 CAACAACAGACTCCAAAATTACCAAGATTGCATCACGAGTAAAAGTCACCATTTATGGAGTTAAACGGCGTTTGTTAAATTCTAGCTtctacaaaaatgcaaaacttattcaggtgtggtaatgtgtgcctgtagt-cccagctacttgggaggctgaggtgggaggactgcttgagccagggagattgaggctgcagtgaaccatgatcgcaccaggcactccagcctgagtgacagagtgaga--ctccatctcaaaaagaaaaaaaTa------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55721021 266 -  71252344 ---CAACAGACTCCAAAATAACCAATATTGCATCATGAGTCAAAGTCACCATTTATGGAGTTAAACGGCTTTTGTTAAATTCTAGCTtctacaaaaatgcaaaaactattcaggtgtggtgatgtgtgcctgtagtccccagctacttgggaggctgaggtgggaggattgcttgagccagggagattgaggctgcagtgaaccatgatcgcaccaggcactccagcctgagtgacagagtgaga--ctccatctcaaaaagaaaaaaaTa------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       23754 268 -   3089952 CAACAACAGACTCCAAAATTACCAATATTGCGTCATGAGTAAAAGTCACCATTTATGGAGTTAAACAGCCTTTGTTAAATTCTAGCTtctacaaaaatgcaaaaattattcaggtgtggtgatgtgtgcctgtagt-cccagtcacttgggaggccgaggtgggaggattgcttgagccagggagattgaggctgcagtgaaccatgatcgcatcaggcactccagcctgaatgacagagtgaga--ctccatctcaaaaagaaaaaaaTa------
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13225221 268 -  42888418 CAGCAACAGACTCCAAAATTACCAAGATTGCATCACCAGTAAAAGTCACCATTTATGGAGTTAAATGGCCTTTGTTAAATTCTAGCTtctacaaaaatacaaaaattattcaggtgtggtgatgtgtgcctgtagt-cccagctccttgggaggctgaggtgggaggattgcttgagccagggagattgaggctgcagtgaaccgtgattgcaccaggcactccagtctgagttacagagtgaga--ctccatttcaaaaagaaaaaGATa------
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60561493 1842 + 108143057 I
e canFam3.chr11             14926275  34 +  74389097 I
e proCoq1.NW_012155062v1     3594269 1795 +  11683526 I
e otoGar3.GL873679           3080802   0 +   4132165 C
e dasNov3.JH567306           2646338 545 +   3667625 I
e mm10.chr18                55527335 200 +  90702639 I

a score=1129274.000000
s hg38.chr5_KI270796v1_alt    105063 149 +    172708 agaaaaaaaAATttctggcctccattaccttcttgcttatg-cctccttcaagttacttaacctcttcatgccacagtttcctcatctataaagtgaaaataatagtaacatcaatttcgtagtgttgggaggatttaactagttaataa
s panTro5.chr5             125208805 147 + 181907262 --aaagaaaaaTttctggcctccattaccttcttgcttatg-cctccttcaagttacttaacttcttcatgccacagtttcctcatctataaagtgaaaataatagtaacatcaatttcatagtgttgggaggatttaacaagttaataa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126545467 147 + 183735486 --aaagaaaaaTttctggcctccattaccttcttgcttatg-cctccttcaagttacttaacttcttcatgccacagtttcctcatctataaagtgaaaataatagtaacatcaatttcatagtgttgggaggatttaacaagttaataa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1737183 147 +   8933513 --aaagaaaaaTttctggcctccattaccttcttgcttatg-cctccttcaagttacttaacttcttcatgccacagtttcctcatctataaagtgaaaataatagtaacatcaatttcatagtgttgggaggatttaacaagttaataa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139872198 147 + 163208435 --aaaagaaaTTttctggcctccactaccttcttgcttatg-cctccttcaagttacttaacttcttcatgccacaggttcctcatctataaagtgaaaataatagtaacatcaatttcatagtgctgggaggatttaacaagttaataa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122856860 146 + 180051392 ---aaaaaaaaattctggcctccactaccttcttgcttatg-cctccttcaagttacttaacttcttcatgccacaggttcctcatctataaagtgaaaataatagtaacatccatttcatagtgttgggaggatttaacaagttaataa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124280473 146 + 181584905 ---aaaaaaaaattctggcctccactaccttcttgcttatg-cctccttcaagttacttaacttcttcatgccacaggttcctcatctataaagtgaaaataatagtaacatccatttcatagtgttgggaggatttaacaagttaataa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16278809 146 +  18395747 ---aaaaaaaaattctggcctccactaccttcttgcttatg-cctccttcaagttacttaacttcttcatgccacaggttcctcatctataaagtgaaaataatagtaacatccatttcatagtgttgggaggatttaacaagttaataa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5291794 146 +  26952557 ---aaaaaaaaattctggcctccactaccttcttgcttatg-cctccttcaagttacttaacttcttcatgccacaggttcgtcatctataaggtgaaaataatagtaacatccatttcatagtgttgagaggatttaacaagttaataa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28392101 144 +  82825804 -----aaaaaaaaTctggcctccactcccttcttgctaatg-cctccttcaagttacttaacttcttcatgccacaggttccttatctataaagtgaaaataatagtaacatccatttcatagtgttgggagaatttaacaagttaataa
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      330463 137 -   1175262 ------------ttctggcctccactaccttcttgcttatg-cctccttcaagttacttaacttcttcatgccacaggttcctcatctataaagtgaaaataatagtaacatctatttcatagtgttgggaggatttaacaagttaataa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123677435 138 - 204313951 ------------ttccggcctccactaccttcttgcttgtgacttccttcaaggtacttaacttcttcaggccacctgttcctcatctataaagtaaaaaagacagtaacatcactttcatagtgttgggaggatttaaaaagtcaataa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55721287 127 -  71252344 ------------ttccggcctctgctaccttcttgcttgtgacttcattcaaggcacttaatttcttcaggc-----------catctataaagtgaaaatgacagtaacatcactttcatagtgttgggaggatttaaacagtcaataa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       24022 138 -   3089952 ------------ttccggcctccgctaccttcttgcttgtgatttccttcaaggtacttaacttcttcaggccacctgttcctcatctataaagtgaaaatgacagtaacatcactttcatagtgttgggaggatttaaacagtcaataa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13225489 138 -  42888418 ------------ttcaggcctccgctaccttcttgcttgtgacttccttcaaggtacttaacttcttcaggacacgtgttcctcatctataaagtgaaaatgacagtaacatcaatttcatagtgttgggaggatttaaacagtcaataa
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60561493 1842 + 108143057 I
e canFam3.chr11             14926275  34 +  74389097 I
e proCoq1.NW_012155062v1     3594269 1795 +  11683526 I
e manLeu1.NW_012103321v1     4061622 337 -   4237731 I
e otoGar3.GL873679           3080802   0 +   4132165 C
e dasNov3.JH567306           2646338 545 +   3667625 I
e mm10.chr18                55527335 200 +  90702639 I

a score=605870.000000
s hg38.chr5_KI270796v1_alt    105212 86 +    172708 agttaatataccaagcatttag---------aagtgtctagcctatatatacaaagtgcacaataaatactggttTTGTTATGGTTCTTTCTCTC
s panTro5.chr5             125208952 86 + 181907262 agttaatataccaagcatttag---------aagtgtctagcctatatatacaaagtgcacaataaatattggttTTGTTATGGTTCTTTCTCTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126545614 86 + 183735486 agttaatataccaagcatttag---------aagtgtctagcctatatatagaaagtgcacaataaatattggttTTGTTATGGTTCTTTCTCTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1737330 85 +   8933513 agttaatataccaagca-ttag---------aagtgtctagcctatatatacaaagtgtacaataaatattggttTTGTTATGGTTCTTTCTCTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139872345 86 + 163208435 agttaatataccaagcatttag---------aagtgtctagcctgtatatacaaagtgcacaataaatactggttTTGTTACAGTTCTTTCTCTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122857006 82 + 180051392 agttaatataccaagcattcag---------aaatgtctaacctatacatacaaagtgcacaataaatattggttTTGTTATAGTTCTT----TC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124280619 82 + 181584905 agttaatataccaagcattcag---------aaatgtctaacctatacatacaaagtgcacaataaatattggttTTGTTATAGTTCTT----TC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16278955 82 +  18395747 agttaatataccaagcattcag---------aaatgtctaacctatacatacaaagtgcacaataaatattggttTTGTTATAGTTCTT----TC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5291940 82 +  26952557 agttaatataccaagcattcag---------aagtgtctaacctatatatacaaagtacacaataaatattggttTTGTTATAGTTCTT----TC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28392245 78 +  82825804 agttaatataccaagccttcag---------aagtgtctaacctatatatacaaagtgcacaataaatattggttttgtCGTAG----T----TT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4061959 82 -   4237731 agttaatataccaagcattcag---------aagtgtctaacctatatatacaaagtacacaataaatattggttTTGTTATAGTTCTT----TC
i manLeu1.NW_012103321v1   I 337 C 0
s colAng1.NW_012119644v1      330600 82 -   1175262 agttaatataccaagcattcag---------aagtgtctaacctaaatatacaaagtgcacaataaatattggttTTGTTATAGTTCTT----TC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123677573 75 - 204313951 agttaatataccaagcatgtagtgttaaggaa------------------atagtgtacataataaatattagttTTGTTATAGTTGTTTCTC--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55721414 66 -  71252344 agtaaatataccaagcatgtag---------a------------------acagtgtacacaataaatattagttTTGTTATAGTTGTGTCTC--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       24160 68 -   3089952 agttaatataccaagcatgtag---------a------------------acagtgtacacaataaatattagttTTGTTATAGTTGTGTCTCTC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13225627 68 -  42888418 agttaatataccaagcatgtag---------a------------------acagtgtacacaataaatattggttTTGTTATAGTTGTTTCTCTC
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60561493 1842 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3594269 1795 +  11683526 I
e otoGar3.GL873679           3080802  0 +   4132165 C
e dasNov3.JH567306           2646338 545 +   3667625 I
e mm10.chr18                55527335 200 +  90702639 I

a score=152911.000000
s hg38.chr5_KI270796v1_alt    105298 14 +    172708 TTTATTTTCATTTA
s panTro5.chr5             125209038 14 + 181907262 TTTATTTTCATTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126545700 14 + 183735486 TTTATTTTCATTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1737415 14 +   8933513 TTTATTTTCATTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139872431 14 + 163208435 TTTATTTTCATTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122857088 14 + 180051392 TTTATTTTCATTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124280701 14 + 181584905 TTTATTTTCATTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16279037 14 +  18395747 TTTATTTTCATTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5292022 14 +  26952557 TTTATTTTCATTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28392323 14 +  82825804 TTTATTTTCATTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4062041 14 -   4237731 TTTATTTTCATTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      330682 14 -   1175262 TTTATTTTCATTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123677648 12 - 204313951 --TATTTTCATTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55721480 12 -  71252344 --TATTTTCATGTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       24228 14 -   3089952 TTTATTTTCATGTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13225695 14 -  42888418 TTTATTTTCATGTA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3596064 14 +  11683526 TTTATTTTGACTTA
i proCoq1.NW_012155062v1   I 1795 C 0
e micMur3.chr12             60561493 1842 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e otoGar3.GL873679           3080802  0 +   4132165 C
e dasNov3.JH567306           2646338 545 +   3667625 I
e mm10.chr18                55527335 200 +  90702639 I

a score=291932.000000
s hg38.chr5_KI270796v1_alt    105312 32 +    172708 GGAATTA---ATAT-----CTTTCTCATAAAAAAGGTTTA
s panTro5.chr5             125209052 32 + 181907262 GGAATTA---ATAT-----CTTTCTCATAAAAAAGGTTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126545714 32 + 183735486 GGAATTA---ATAT-----CTTTCTCATAAAAAAGGTTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1737429 32 +   8933513 GGAATTA---ATAT-----CTTTCTCATAAAAAAGGTTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139872445 32 + 163208435 GGAATTA---ATAT-----CTTTCTCATAAAAAAGGTTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122857102 31 + 180051392 GCAATTA---ATAT-----CTTTCTCATAAAAAA-GTTCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124280715 31 + 181584905 GCAATTA---ATAT-----CTTTCTCATAAAAAA-GTTCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16279051 31 +  18395747 GCAATTA---ATAA-----CTTTCTCATAAAAAA-GTTCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5292036 31 +  26952557 GCAATTA---ATAT-----CTTTCTCATAAAAAA-GTTCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28392337 28 +  82825804 GCAATTA---ATAT-----CTT----ATAAAAAAGGTTCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4062055 31 -   4237731 GCAATTA---ATAT-----CTTTCTCATAAAAAA-GTTCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      330696 32 -   1175262 GCAATTA---ATAT-----CTTTCTCATAAAAAAGGTTCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123677660 32 - 204313951 GAAATTA---ATAT-----CTTTCTCATAAAAAGGGTTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55721492 34 -  71252344 GGAATTA---ATATAA---TATTCTCATAAAAAGGGTTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       24242 37 -   3089952 GGAATTA---ATATAATATCTTTCTCATAAAAAGGGTTTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13225709 37 -  42888418 GGAATTA---ATATAATATCTTTCTCATGAAAAGGGTTTA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3596078 34 +  11683526 GGAATTAATGTTAC-----CTTTCTCATAAAAAAAGTTT-
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3080802 33 +   4132165 gaaatta--tttat-----cATTCTCATGAAAAAGGTTCG
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60561493 1842 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e dasNov3.JH567306           2646338 545 +   3667625 I
e mm10.chr18                55527335 200 +  90702639 I

a score=957222.000000
s hg38.chr5_KI270796v1_alt    105344 73 +    172708 TTTCACTCTGCTCACATATTTAGGACACTTTGAAATTCTTACTTCTCTGAAAATGATTCCAATCTTTGCTTCT
s panTro5.chr5             125209084 73 + 181907262 TTTCACTCTGATCACATATTTAGGATACTTTGAAATTCTTACTTCTCTGAAAATGATTCCAATCTTTGCTTCT
i panTro5.chr5             C 0 I 1
s panPan2.chr5             126545746 73 + 183735486 TTTCACTCTGATCACATATTTAGGACACTTTGAAATTCTTACTTCTCTGAAAATGATTCCAATCTTTGCTTCT
i panPan2.chr5             C 0 I 1
s gorGor5.CYUI01015135v1     1737461 73 +   8933513 TTTCACTCTGCTCACATATTTAGGACACTTTGAAATTCTTACTTCTCTGAAAATGATTCCAATCTTTGCTTCT
i gorGor5.CYUI01015135v1   C 0 I 1
s nomLeu3.chr2             139872477 73 + 163208435 TTTCACTCTGCTCACATATTTAGGACACTTTGAAATTCTTACTTCTCTGAAAATGATTCCAATCTTTGCTTCC
i nomLeu3.chr2             C 0 I 1
s rheMac8.chr6             122857133 73 + 180051392 TTTCACTCTGCTCACATATTTAGGACACTTTGAAATTCTTACTTCTCTGAAAATGACTCCAATCTTTGCTTCT
i rheMac8.chr6             C 0 I 1
s macFas5.chr6             124280746 73 + 181584905 TTTCACTCTGCTCACATATTTAGGACACTTTGAAATTCTTACTTCTCTGAAAATGACTCCAATCTTTGCTTCT
i macFas5.chr6             C 0 I 1
s macNem1.NW_012012355v1    16279082 73 +  18395747 TTTCACTCTGCTCACATATTTAGGACACTTTGAAATTCTTACTTCTCTGAAAATGACTCCAATCTTTGCTTCT
i macNem1.NW_012012355v1   C 0 I 1
s cerAty1.NW_012002512v1     5292067 69 +  26952557 TTTCACTCTGCTCACATATTTAGGACACTTTGAAATT----CTTCTCTGAAAATGATTCCAATCTTTGCTTCT
i cerAty1.NW_012002512v1   C 0 I 1
s chlSab2.chr23             28392365 73 +  82825804 TTTCACTCTGCTCACATATTTAGGACACTTTGAAATTCTTACTTCTCTGAAAATGATTTCAATCTTTGCTTCT
i chlSab2.chr23            C 0 I 1
s manLeu1.NW_012103321v1     4062086 69 -   4237731 TTTCACTCTGCTCACATATTTAGGACACTTTGAAATT----CTTCTCTGAAAATGATTCCAATCTTTGCTTCT
i manLeu1.NW_012103321v1   C 0 I 1
s colAng1.NW_012119644v1      330728 73 -   1175262 TTTCACTCTGCTCACATATTTAGGACACTTTGAAATTCTTACTTCTCTGAAAATGATTCCAATCTTTGCTTCT
i colAng1.NW_012119644v1   C 0 I 1
s calJac3.chr2             123677692 73 - 204313951 TTTTACTGTGCTGACATATTTGGGACACTTTGAAATTCTTACTTCTCTGAAAATGATTCCAGTCTTTGCTTCT
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55721526 73 -  71252344 ATTCACTGTGCTGACATATTTGGGACACTTTGAAATTCTTACTTCTCTGAAAATGATTCCAGTCTTTGCTTCT
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107590v1       24279 73 -   3089952 ATTCACTGTGCTGACATATTTGGGACACTTTGAAATTCTTACTTCTCTGAAAATGATTCCAGTCTTTGCTTCT
i cebCap1.NW_016107590v1   C 0 I 1
s aotNan1.NW_018505940v1    13225746 73 -  42888418 ATTCACTGTGCTGACATATTTGGGACACTTTGAAATTCTTACTTCTCTGAAAATGATTCCAGTCTTTGCTTCT
i aotNan1.NW_018505940v1   C 0 I 1
s micMur3.chr12             60563335 73 + 108143057 TTTCACTCTGCTGACATATTGAGGACACTTTGAAATTCTTATTTCTCTGGAAATTATTCTAATCCTTGCTTCT
i micMur3.chr12            I 1842 I 50
s proCoq1.NW_012155062v1     3596112 72 +  11683526 TTTCATTCTGCTGATATATTTAGGACACTTTGAAATTC-TATTTCTCTGGAAATTATTCTAATCCTTGCTTCT
i proCoq1.NW_012155062v1   C 0 I 139
s otoGar3.GL873679           3080835 69 +   4132165 -TTCAGTCTGCTGAC--AGTTCAGACACCTTAAAATCT-TATTTCTCCGAAAATCATTTTAGTCCTAGCTTCC
i otoGar3.GL873679         C 0 I 1
e canFam3.chr11             14926275 34 +  74389097 I
e dasNov3.JH567306           2646338 545 +   3667625 I
e mm10.chr18                55527335 200 +  90702639 I

a score=489633.000000
s hg38.chr5_KI270796v1_alt    105417 45 +    172708 TGCAGTGACCAGCATTTTGAGTGAGAGTCCATTCTGTATTTAATA
s panTro5.chr5             125209158 45 + 181907262 TGCAGTGACCAGCATTTTGAGTGAGAGTCCATTCTGTATTTAATA
i panTro5.chr5             I 1 C 0
s panPan2.chr5             126545820 45 + 183735486 TGCAGTGACCAGCATTTTGAGTGAGAGTCCATTCTGTATTTAATA
i panPan2.chr5             I 1 C 0
s gorGor5.CYUI01015135v1     1737535 45 +   8933513 TGCAGTGACCAGCATTTTGAGTGAGAGTCCGTTCTGTATTTAATA
i gorGor5.CYUI01015135v1   I 1 C 0
s nomLeu3.chr2             139872551 45 + 163208435 TGCAGGGACCAGCATTTTGAGTGAGAGTCCATTCTGTATTTAATA
i nomLeu3.chr2             I 1 C 0
s rheMac8.chr6             122857207 41 + 180051392 TGCAGTGACCAGCATTTTGAGTGAGAGTCCATTCTGTATTT----
i rheMac8.chr6             I 1 C 0
s macFas5.chr6             124280820 41 + 181584905 TGCAGTGACCAGCATTTTGAGTGAGAGTCCATTCTGTATTT----
i macFas5.chr6             I 1 C 0
s macNem1.NW_012012355v1    16279156 45 +  18395747 TGCAGTGACCAGCATTTTGAGTGAGAGTCCATTCTGTATTTAATA
i macNem1.NW_012012355v1   I 1 C 0
s cerAty1.NW_012002512v1     5292137 45 +  26952557 TGCAGTGACCAGCATTTTGAGTGAGAGTCCATTCTGTATTTAATA
i cerAty1.NW_012002512v1   I 1 C 0
s chlSab2.chr23             28392439 45 +  82825804 TGCAGTGACCAGCATTTTGAGTGACAGTTCATTCTGTATTTAATA
i chlSab2.chr23            I 1 C 0
s manLeu1.NW_012103321v1     4062156 45 -   4237731 TGCAGTGACCAGCATTTTGAGTGAGAGTCCATTCTGTATTTAATA
i manLeu1.NW_012103321v1   I 1 C 0
s colAng1.NW_012119644v1      330802 45 -   1175262 TGCAGTGACCAGCATTTTGAGTGAGAGTCCATTCTGTATTTGATA
i colAng1.NW_012119644v1   I 1 C 0
s calJac3.chr2             123677766 45 - 204313951 TGCAGTGATCAGCATTTTGAGTGAGAGTCCATTCTGTGTTTAATA
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55721600 45 -  71252344 TGCAGTGACCAGCATTTTGAGTGAGAGTCCATTCTGTGTTTAATA
i saiBol1.JH378106         I 1 C 0
s cebCap1.NW_016107590v1       24353 45 -   3089952 TGCAGTGACCAGCATTTTGAGTGAGACTCCATTCTGTGTTTAATA
i cebCap1.NW_016107590v1   I 1 C 0
s aotNan1.NW_018505940v1    13225820 45 -  42888418 TGCAGTGACCAGCATTTTGAGTGAGAGTCCATTCTGTGTTTAATA
i aotNan1.NW_018505940v1   I 1 C 0
s otoGar3.GL873679           3080905 45 +   4132165 TGCAATGACCAAGATTTTAGCTGAGGATTTATACCATCTTTAAAA
i otoGar3.GL873679         I 1 I 4
e micMur3.chr12             60563408 50 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3596184 139 +  11683526 I
e dasNov3.JH567306           2646338 545 +   3667625 I
e mm10.chr18                55527335 200 +  90702639 I

a score=159774.000000
s hg38.chr5_KI270796v1_alt    105462 15 +    172708 AAATAAAGTATTTTT
s panTro5.chr5             125209203 15 + 181907262 AAATAAAGTATTTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126545865 15 + 183735486 AAATAAAGTATTTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1737580 15 +   8933513 AAATAAAGTATTTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139872596 15 + 163208435 AAATAAAGTATTTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122857248 14 + 180051392 -AATAAAGTATTTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124280861 14 + 181584905 -AATAAAGTATTTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16279201 15 +  18395747 AAATAAAGTATTTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5292182 15 +  26952557 AAATAAAGCATTTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28392484 15 +  82825804 AAATAAAGTATTTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4062201 15 -   4237731 AAATAAAGTATTTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      330847 15 -   1175262 AAATAAAATATTTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123677811 12 - 204313951 AA---AAGTGTTTTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55721645 15 -  71252344 AAAAGAAGTATTTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       24398 15 -   3089952 AAAAGAAGTATTTTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13225865 15 -  42888418 AAAAGAAGTATTTTT
i aotNan1.NW_018505940v1   C 0 I 12
s micMur3.chr12             60563458 15 + 108143057 AAATAAAATATTTTT
i micMur3.chr12            I 50 C 0
s otoGar3.GL873679           3080954 15 +   4132165 ACAGAAAATATTTGT
i otoGar3.GL873679         I 4 C 0
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3596184 139 +  11683526 I
e dasNov3.JH567306           2646338 545 +   3667625 I
e mm10.chr18                55527335 200 +  90702639 I

a score=53075.000000
s hg38.chr5_KI270796v1_alt    105477 7 +    172708 ATGAAAT
s panTro5.chr5             125209218 7 + 181907262 ATGAAAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126545880 7 + 183735486 ATGAAAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1737595 7 +   8933513 ATGAAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139872611 7 + 163208435 ATGAAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122857262 7 + 180051392 ATGAAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124280875 7 + 181584905 ATGAAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16279216 7 +  18395747 ATGAAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5292197 7 +  26952557 ATGAAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28392499 7 +  82825804 ATGAAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4062216 7 -   4237731 ATGAAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      330862 7 -   1175262 ACGAAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123677823 7 - 204313951 ACTTAGT
i calJac3.chr2             C 0 I 4
s saiBol1.JH378106          55721660 7 -  71252344 ACTAAGT
i saiBol1.JH378106         C 0 I 4
s cebCap1.NW_016107590v1       24413 7 -   3089952 ACTAAGT
i cebCap1.NW_016107590v1   C 0 I 4
s micMur3.chr12             60563473 7 + 108143057 ATTGAAT
i micMur3.chr12            C 0 I 4
s otoGar3.GL873679           3080969 7 +   4132165 ATTGAAT
i otoGar3.GL873679         C 0 I 4
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3596184 139 +  11683526 I
e aotNan1.NW_018505940v1    13225880 12 -  42888418 I
e dasNov3.JH567306           2646338 545 +   3667625 I
e mm10.chr18                55527335 200 +  90702639 I

a score=734585.000000
s hg38.chr5_KI270796v1_alt    105484 67 +    172708 AG----AAATCAGAATACTTT-GTATATTTATTTCCAGAAATTATTTTTTAGGTCACAAAAGTGTAAAGTCA
s panTro5.chr5             125209225 71 + 181907262 AGTCAGAAATCAGAATACTTT-GTATATTTATTTCCAGAAATTATTTTTTAAGTCACAAAAGTGTAAAGTCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126545887 71 + 183735486 AGTCAGAAATCAGAATACTTT-GTATATTTATTTCCAGAAATTATTTTTTAAGTCACAAAAGTGTAAAGTCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1737602 67 +   8933513 AG----AAATCAGAATACTTT-GTATATTTATTTCCAGAAATTATTTTTTAAGTCACAAAAGTGTAAAGTCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139872618 71 + 163208435 AGTCAGAAATCAGAATACTTT-GTATATTCGTTTCCAGAAATTATTTTTCAAGCCACAAAAGAGTAAAGTCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122857269 70 + 180051392 AGTCAGAAATCAGAATACTTT-GTATATTTATTTCCAGAAATTATTTTTTAAATCAC-AAAGTGTAAAGTCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124280882 70 + 181584905 AGTCAGAAATCAGAATACTTT-GTATATTTATTTCCAGAAATTATTTTTTAAATCAC-AAAGTGTAAAGTCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16279223 70 +  18395747 AGTCAGAAATCAGAATACTTT-GTATATTTATTTCCAGAAATTATTTTTTAAATCAC-AAAGTGTAAAGTCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5292204 70 +  26952557 AGTCAGAAATCAGAATACTTT-GTATATTCATTTCCAGAAATTATTTTTTAAATCAC-AAAGTGTAAAGTCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28392506 70 +  82825804 AGTCAGAAATCAGAATACTTT-GTATATTTATTTCCAGAAATTATTTTTTAAATCGC-AAAGTGTAAAGTCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4062223 70 -   4237731 AGTCAGAAATCAGAATACTTT-GTATATTCATTTCCAGAAATTATTTTTTAAATCAC-AAAGTGTAAAGTCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      330869 71 -   1175262 AGTCAGAAATCAGAATACTTT-GTATATTTATTTCCAGAAATTATTTTTTAAATCACAAAAGTGTAAAGTCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123677834 67 - 204313951 ----CGAAATCAGAATACTTT-GTGTATTTATTTCCATAAATTATTTTCTAAGTCACAAAAGCATAAAGTCA
i calJac3.chr2             I 4 C 0
s saiBol1.JH378106          55721671 67 -  71252344 ----AGAAATCAGAATACTTT-GTGTATTTATTTCCACAAATTATTTTTTAAGTCACAAAAGCATAAAGTCA
i saiBol1.JH378106         I 4 C 0
s cebCap1.NW_016107590v1       24424 67 -   3089952 ----AGAAATCAGAGTACTTT-GTGTATTTATTTCCATAAATTATTTTTTAAGTCACAAAAGCATAAAGTCA
i cebCap1.NW_016107590v1   I 4 C 0
s aotNan1.NW_018505940v1    13225892 67 -  42888418 ----AGAAATCAGAATACTTT-GTGTATTTATTTCCATAAATTATTTTTTAAGTCACAAAAGCATAAAGTCA
i aotNan1.NW_018505940v1   I 12 C 0
s micMur3.chr12             60563484 63 + 108143057 ----AGAAATCAGAATACTTG-GTGCATTCTTTGCCAGAAATTATTTTTGAAGTCACAAAGGTGTATA----
i micMur3.chr12            I 4 C 0
s otoGar3.GL873679           3080980 64 +   4132165 ----ATAAATCAGAATAATGGCTTGCTTTCTTTGCCAGAAATTATTTTTGAAGTCACAAAGGTGTATG----
i otoGar3.GL873679         I 4 C 0
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3596184 139 +  11683526 I
e dasNov3.JH567306           2646338 545 +   3667625 I
e mm10.chr18                55527335 200 +  90702639 I

a score=1586401.000000
s hg38.chr5_KI270796v1_alt    105551 117 +    172708 CAGAGAGAATTCAATACAACTATGGTGTTAGGG--TTAAAAATATGATGTTTGATTT-GAGTTGATCATAATATAAAGATGAAATTCTACTACACATGTAAAAAGAGTGTCTTCTTGGAA
s panTro5.chr5             125209296 117 + 181907262 CAGAGACAATTCAATACAACTATGGTGTTAGGG--TTAAAAATATGATATTTGATTT-GAGTTGATCAAAATATAAAGATGAAATTCTACTACACATGTAAAAAGAGTGTCTTCTTGGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126545958 117 + 183735486 CAGAGACAATTCAATACAACTATGGTGTTAGGG--TTAAAAATATGATATTTGATTT-GAGTTGATCAAAATATAAAGATGAAATTCTACTACACATGTAAAAAGAGTGTCTTCTTGGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1737669 117 +   8933513 CAGAGACAATTCAATACAACTATGGTGTTAGGG--TTAAAAATATGATGTTTGATTT-GAGTTGATCAAAATATAAAGATGAAATTCTACTACACATGTAAAAAGAGTGTCTTCTTGGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139872689 117 + 163208435 CAGAGACAATTCAGTACAACTATGGTGTTAGGG--TTAAAAATATGATGTTTGATTT-GAGTTGATCAAAATATAAAGATGAAATTCTACTACACATGTAAAAAGAGTGTCTTCTTGGAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122857339 118 + 180051392 CAGAGACAATTCAATACAACTATGGTGTTAGGG--TTAACAATATGATGTTTGATTTCGAGTTGATCAAAATATAAAGATGAAATTCTACTACACATGTAAAAAGAGTGCCTTCTTGGAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124280952 118 + 181584905 CAGAGACAATTCAATACAACTATGGTGTTAGGG--TTAACAATATGATGTTTGATTTTGAGTTGATCAAAATATAAAGATGAAATTCTACTACACATGTAAAAAGAGTGCCTTCTTGGAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16279293 118 +  18395747 CAGAGACAATTCAATACAACTATGGTGTTAGGG--TTAACAATATGATGTTTGATTTCGAGTTGATCAAAATATAAAGATGAAATTCTACTACACATGTAAAAAGAGTGCCTTCTTGGAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5292274 118 +  26952557 CAGAGACAATTCAATACAACTATGGTGTTAGGG--TTAACAATATGATGTTTGATTTCGAGTTGATCAAAATATAAAGATGAAATTCTACTACACATGTAAAAAGAGTGCCTTCTTGGAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28392576 118 +  82825804 CAGAGACAATTCAATACAACTATGGTGTTAGGG--TTAACAATATGATGTTTGATTTCAAGTTGATCAAAATATAAAGATGAAATTCTACTACACATGTAAAAAGAGTGCCTTCTTGGAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4062293 118 -   4237731 CAGAGACAATTCAATACAACTATGGTGTTAGGG--TTAACAATATGATGTTTGATTTCGAGTTGATCAAAATATAAAGATGAAATTCTACTACACATGTAAAAAGAGTGCCTTCTTGGAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      330940 118 -   1175262 CAGAGACAATTCAATACAACTATGGTGTTACGG--TTAACAACATGATGTTTGATTTCGAGTTGATCAAAATATAAAGATGAAATTCTACTACACATGTAAAAAGAGTGCCTTCTTGGAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123677901 118 - 204313951 CAGAGACAATTCAATACAACTATGGTGTTAGGG--TTAAAAATAAAATGTTTGATTTGGAGTTGATCAAAATATAAAGACAAAATTCTACTACACATGTAAAACGAGTGTCTTCTTGGAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55721738 118 -  71252344 CAGAGACAATTCAATACAACTATGGTGTTAGGG--TTAAAAATAAAATGTTTGATTTGGAGTTGATCAAAATACAAAGATAAAATTCTACTACACATGTAAAAAGAGTGCCTTCTTGGAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       24491 118 -   3089952 CAGAGACAATTCAATACAACTATGGTGTTTAGG--TTAAAAATAAAATGTTTGATTTGGAGTTGATCAAAATATAAAGATAAAATTCTACTACACATGTAAAAAGAGTGTCTTCTTGGAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13225959 118 -  42888418 CAGAGACAATTCAATACAACTATGGTGTTAGGG--TTAAAAATAAAATGTTTGATTTGGAGTTGATCAAAATATAAAGATAGAATTCTACTACACATGTAAGACGAGTGTCTTCTTGGAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60563547 120 + 108143057 CAGAGAGAATTCAATACAACTAAGGTGTTAGGGCCTTAAAAATAAGATGTATGATTTGGAGGTAATCAAAATATAACGATGAAGTTGTACTATACATTTAAAAAGAATGTCTTCTTGGAT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3596323 120 +  11683526 CAGAGAGAATTCAATACAACTAAGGTGTTAGGGCCTTAAAAATAAGATGTCTGATTTGGAGTTAATCAAAATATAAAGATGAAGTTGTACTATATGTTTAAAAAGAATGTCTTCTTGGAT
i proCoq1.NW_012155062v1   I 139 C 0
s otoGar3.GL873679           3081044 120 +   4132165 CAGAGAGAATTCAACCCAACTAAGGTGTTAGGGTCTTAAAAATATGATGTCTGATTTGGAGTTGATCAAAACATGAAGACACAGTTATCATAGACATTTAAGAAGAACGTCTTCTTGGAT
i otoGar3.GL873679         C 0 C 0
e canFam3.chr11             14926275  34 +  74389097 I
e dasNov3.JH567306           2646338 545 +   3667625 I
e mm10.chr18                55527335 200 +  90702639 I

a score=8670013.000000
s hg38.chr5_KI270796v1_alt    105668 661 +    172708 TAG--TCCACAAATAGTGTATGCAAAATAAGTTTAAGAAATCTAAAA-GAAAATG------------------------------------------------AAACATAATAACTTTTATAGCAATTTATCTTCAAAATTAATTTTAGTAGCTCTATAGGAAAATGGAAGTTGTTTagttatcactaattgcttaccatgtatcaggcaatgtgctaagcacttcacatggattattttatttaatcatcagaatgagcctttgaagtagatgttattaaagccctattatatgtggaaagggggcctcaaagggataaagtct--cagccaagatTCTAAGCAGAGTCATTGACTCCTGCTTCTGG---CTTCTGAAG-------CAGTTTGCTATAGTGTCCTGAC-------------------------------------------------------------------------A---------------tttttttttttttttt---------------------tGCTTattgcaatgtagtcaaatgtatcca-tttttt-cttttata--------cctatattttgtttcttgtttaataagacctt--tttgatccaaagattatacatgtgttcacttttgcttactttaaa----aaattcttattttatatttagatcagaaatccatcaagaattttgtatgtgtgtttgtagtgtgt-tataaggatcta--tttt--tttt--ccttcagtgaagaaccaattgtcccaacaagattttttgaattgttaacccatttgtcaaattcatttaaaatgccattttaatct-----t--------------aaat-g-----------
s panTro5.chr5             125209413 662 + 181907262 TAG--TCCACAAATAGTGTATGCAAAATAAGTTTAAGACATCTAAAA-GAAAATG------------------------------------------------AAACATAATAACATTTATAGCAATTTATCTTCAAAATTAATTTTAGTAGCTCAATAGGAAAATGGAAGTTGTTTagttatcactaattgcttaccatgtatcaggcaatgtgctaagcacttcacatggattattttatttaatcatcagaatgagcctttgaagtagatgttattaaagccctattatatgtggaaagggagcctcaaagggataaagtct--cagccaagatTCTAAGCAGAGTCATTGACTCCTGCTTCTGG---CTTCTAAAG-------CAGTTTGCTATAGTGTCCTGAC-------------------------------------------------------------------------A---------------TTTTTTTTTTTTTTTT----------------------GCTTATTGCAGTGTAGTCAAATGTATCCA-TTTTTTTCTTTTATA--------CTTATATTTTGTTTCTTGTTTAATAAGGCCTT--TTTGATCCAAAGATTATACATGTGTTCACTTTTGCTTACTTTAAA----AAATTCTTATTTTATATTTAGATCAGAAATCCATCAAGAATTTTGTATGTGTGTTTGTAGTGTGT-TATAAGGATCTA--TTTT--TTTT-TCCTTCAGTGAAGAACCAATTGTCCCAACAAGATTTTTTGAATTGTTAACCCATTTGTCAAATTCATTTAAAATGCCATTTTAATCT-----T--------------AAAT-G-----------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126546075 672 + 183735486 TAG--TCCACAAACAGTGTATGCaaaataagtttaagaaatctaaaa-taaaatg------------------------------------------------aaacataataacatTTATAGCAATTTATCTTCAAAATTAATTTTAGTAGCTCAATAGGAAAATGGAAGTTGTTTagttatcactaattgcttaccatgtatcaggcaatgtgctaagcacttcacatggattattttatttaatcatcagaatgagcctttgaagtagatgttattaaagccctattatatgtggaaagggagcctcaaagggataaagtct--cagccaagatTCTAAGCAGAGTCATTGACTCCTGCTTCTGG---CTTCTAAAG-------CAGTTTGCTATAGTGTCCTGACT------------------------------------------------------------------------A---------------tttttttttttttttt--------------ttttttttGCTTattgcagtgtagtcaaatgtatcca-tttttttcttttata--------cttatattttgtttcttgtttaataagacctt--tttgatccaaagattatacatgtgttcacttttgcttactttaaa----aaattcttattttatatttagatcagaaatccatcaagaattttgtatgtgtgtttgtagtgtgt-tataaggatcta--tttt--tttt-tccttcagtgaagaaccaattgtcccaacaagattttttgaattgttaacccatttgtcaaattcatttaaaatgccattttaatct-----t--------------aaatag-----------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1737786 675 +   8933513 TAG--ACCACAAATAGTGTATGCAAAATAAGTTTAAGAAATCTAAAAGGAAAATG------------------------------------------------AAACATAATAACTTTTATAGCAATTTATCTTCAAAATTAATTTTAGTAGCTCAATAGGAAAATGGAAGTTGTTTagttatcactaattgcttaccatgtatcaggcaatgtgctaagcacttcacatggattattttatttaatcatcagaatgagcctttgaagttgatgttattaaagccctattatatgtggaaagggagcctcaaagggataaagtct--cagccaagatTCTAAGCAGAGTCATTGACTCCTGCTTCTGG---CTTCTAAAG-------CAATTTGCTATAGTGTCCTGACA------------------------------------------------------------------------A---------------tttttttttttttttt---------tttttttttttttGCTTATTGCAA-Gtagtcaaatgtatcca-tttttt-cttttata--------cttatattttatttcttgtttaataagacctt--tttgatccaaagattatacatgtgttcacttttgcttactttaaa----aaattcttgttttatatttagatcagaaatccatcaagaattttgtatgtgtgtttgtagtgtgt-tataaggatcta--tttt--tctt-tccttcagtgaagaaccaattgtcccaacaagattttttgaattgttaacccatttgtcaaattcatttaaaatgccattttaatct-----t--------------aaat-g-----------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139872806 712 + 163208435 TAG--TCCACAAATAGTGTATGCAAAATAAGTTTAAGAAATCTAAAA-GAAAATGAAACATAATAACTTTTTttttagtatatgtgctgccgaagcgagcacAAAACATAATAACTTTTATAGCAATTTATCTTCAAAATTAATTTTAGTAGCTCAATAGGAAAATGGAAGTTGTTTagttatcactaattgcttaccatgtatcaggcaatgtgctaagcacttcacatggattattttatttaatcatcagaatgagcctttgaagtagatgctattaaagccctattatatgtggaaagggaccctcaaagggataaagtct--cagccaagatTCTAAGCAGAGTCATTGACTCCTGCTTCTGG---CTTCTAAAG-------CAGTTTGCTATAGTGACCTGACA------------------------------------------------------------------------A---------------CTTTTTTTTTTTTTTT---------------------TGCTTattgcaatgtagtcaaatgtatcca-tttttt-cttttata--------cttatattttattgcttgtttaataagacctt--tttgatccaaagattatacatgtgttcacttttgtttactttaaa----aaattcttattttatatttaggtcagaaatccatcaagaattttgtatgtgtgtttgcagtgtgt-tgtaaggatcta--tttt--ttttttccttcagtgaacaaccaattggcccaacaagattttttgaatcgttaactcatttgtcaaattcatttaaaatgccattttaatct-----t--------------aaat-g-----------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122857457 679 + 180051392 TAG--TCCCCAAATAGTATATGCAAAATAAGTTTAAGAAATCTAAAA-GAAAATG------------------------------------------------AAACATAATAACTTTTATAGCAATTTATCTTCAAAATTAATTTTAGTAGCTCAATAGGAAAATGGAAGTTGTTTagttatcgctaattgcttaccatgtatcaggcaatgtgctaagcacttcacatggattattttatttaatcatcagaatgagcctttgaagtagatgctattaaagccctattatatgtggaaagggagcctcaaagggataaagtct--cagccaagatTCTAAGCAGAGTCACTGACTCCTGCTTCTGG---CTTCTAAAG-------CAGTTTGCTATAGTGTCCTGACA------------------------------------------------------------------------A---------------tttttttttttttttt-------------tttttttttGCTTattgcaatgtagtcaaatgtatcca-tttttt-cttttata--------cttagattttatttcttgtttaataagacctt--tttgatccaaagattatatgtgtattcacttttgcttactttaaa----aaattcttattttatatttaggtcagaaatccatcaagaattttgtatgtgtgtttgcagtgtgt-tgtaaggatctatttttt--ttttttccttcagtgaagaaccaattgtcccaaaaagattttttgaattgttaacccatttgtcaaattcatttaaaatgccattttaatcttaagct--------------aaat-c-----------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124281070 677 + 181584905 TAG--TCCCCAAATAGTATATGCAAAATAAGTTTAAGAAATCTAAAA-GAAAATG------------------------------------------------AAACATAATAACTTTTATAGCAATTTATCTTCAAAATTAATTTTAGTAGCTCAATAGGAAAATGGAAGTTGTTTAGTTATCGCTAATTgcttaccatgtatcaggcaatgtgctaagcacttcacatggattattttatttaatcatcagaatgagcctttgaagtagatgctattaaagccctattatatgtggaaagggagcctcaaagggataaagtct--cagccaagatTCTAAGCAGAGTCACTGACTCCTGCTTCTGG---CTTCTAAAG-------CAGTTTGCTATAGTGTCCTGACA------------------------------------------------------------------------A---------------tttttttttttttttt-------------tttttttttGCTTattgcaatgtagtcaaatgtatcca-tttttt-cttttata--------cttagattttatttcttgtttaataagacctt--tttgatccaaagattatatgtgtattcacttttgcttactttaaa----aaattcttattttatatttaggtcagaaatccatcaagaattttgtatgtgtgtttgcagtgtgt-tgtaaggatcta--tttt--ttttttccttcagtgaagaaccaattgtcccaaaaagattttttgaattgttaacccatttgtcaaattcatttaaaatgccattttaatcttaagct--------------aaat-c-----------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16279411 692 +  18395747 TAG--TCCCCAAATAGTATATGCAAAATAAGTTTAAGAAATCTAAAA-GAAAATG------------------------------------------------AAACATAATAACTTTTATAGCAATTTATCTTCAAAATTAATTTTAGTAGCTCAATAGGAAAATGGAAGTTGTTTagttatcgctaattgcttaccatgtatcaggcaatgtgctaagcacttcacatggattattttatttaatcatcagaatgagcccttgaagtagatgctattaaagccctattatatgtggaaagggagcctcaaagggataaagtct--cagccaagatTCTAAGCAGAGTCACTGACTCCTGCTTCTGG---CTTCTAAAG-------CAGTTTGCTATAGTGTCCTGACA------------------------------------------------------------------------Attttttttttttttttttttttttttttttt-------------tttttttttGCTTattgcaatgtagtcaaatgtatcca-tttttt-cttttata--------cttagattttatttcttgtttaataagacctt--tttgatccaaagattatatgtgtattcacttttgcttactttaaa----aaattcttattttatattgaggtcagaaatccatcaagaattttgtatgtgtgtttgcagtgtgt-tgtaaggatcta--tttt--ttttttccttcagtgaagaaccaattgtcccaaaaagattttttgaattgttaacccatttgtcaaattcatttaaaatgccattttaatcttaagct--------------aaat-c-----------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5292392 674 +  26952557 TAG--TCCCCAAATAGTGTATGCAAAATAAGTTTAAGAAATCTAAAA-GAAAATG------------------------------------------------AAACATAATAACTTTTATAGCAATTTATCTTCAAAATTAATTTTAGTAGCTCAATAGGAAAATGGAAGTTGTTTagttatcactaattgcttaccatgtatcaggcaatgtgctaagcacttcacgtggattattttatttaatcatcagaatgagcctttgaagtagatgctattaaaaccctattatatgtgaaaagggagcctcaaagggataaagtct--cagccaagatTCTAAGCAGAGTCACTGACTCCTGCTTCTGG---CTTTTAAAG-------CAGTTTGCTATAGTGTCCTGACA------------------------------------------------------------------------A---------------tttttttttttttttt-------------tttttttt---ttattgcaatgtagtcaaatgtatcca-tttttt-cttttata--------cttagattttatttcttgtttaataagacctt--tttgatccaaaaattatgcatgtattcacctttgcttactttaaa----aaattcttattttatatttaagtcagaaatccatcaagaattttgtatgtgtgtttgcagtgtgt-tgtaaggatcta--tttc--ttttttccttcagtgaagaaccaattgtcccaacaagattttttgaattgttaacccatttgtcaaattcatttaaaatgccattttaatcttaagct--------------aaat-c-----------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28392694 674 +  82825804 TAG--TCCCCAAATAGTGTATGCAAAATAAGTTTAAGAAATCTAAAA-GAAAATG------------------------------------------------AAACATAATAACTTTTATAGCAATTTATCTTCAAAATTAATTTTAGTAGCTCAATAGGAAAATAGAAGTTGTTTagttatcactaattgcttaccatgtatcaggcaatgtgctaagcacttcacatggattattttatttaatcatcagaatgagcctttgaagtagatgctattaaagccgtattatatgtgaaaagggagcctcaaagggataaagtct--cagccaagatTCTAAGCAGAGTCACTGACTCCTGCTTCTGG---CTTCTAAAG-------CAGTTTGCTATAGTGTCCTGACA------------------------------------------------------------------------A---------------tttttttttttttt---------------tttctttttGCTTattgcaatgtagtcaaatgtatcca-tttttt-cttttata--------cttagattttatttcttgtttaataagacctt--tttgatccaaagattatgcgtgtattcacttttgcttactttgaa----aaattcttattttatatttaagtcagaaatccatcaagaattttgtatgtgtgtttgcagtgtgt-tgtaaggatcta---ttt--ttttttccttcagtgaagaaccaattgtcccaacaagattttttgaattgttaacccatttgtcaaattcatttaaaatgccattttaatcttaagct--------------aaat-c-----------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4062411 670 -   4237731 TAG--TCCCCAAATAGTGTATGCAAAATAAGTTTAAGAAATCTAAAA-GAAAATG------------------------------------------------AAACATAATAACTTTTATAGCAATTTATCTTCAAAATTAATTTTAGTAGCTCAATAGGAAAATGGAAGTTGTTTagttatcactaattgcttaccatgtatcaggcaatgtgctaagcacttcacatggattattttatttaatcatcagaatgagcctttgaagtagatgctattaaaaccctattatatgtgaaaagggagcctcaaagggataaagtct--cagccaagatTCTAAGCAGAGTCACTGACTCCTGCTTCTGG---CTTTTAAAG-------CAGTTTGTTATAGTGTCCTGAAA------------------------------------------------------------------------A---------------tttttttttttttt-------------------tttttGCTTattgcaatgtagttaaatgt-tcca-tttttt-cttttata--------cttagattttatttcttgtttaataagacctt--tttgatccaaaaattatgcgtgtattcacttttgcttactttaaa----aaatttttattttatatttaagtcagaaatccatcaagaattttgtatgtgtgtttgcagtgtgt-tgtaaggatcta--tttt--ttttttccttcagtgaagaaccaattgtcccaacaagattttttgaattgttaacccatttgtcaaattcatttaaaatgccattttaatcttaagct--------------aaat-c-----------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      331058 669 -   1175262 TAG--TCCCCAAATAGTGTATGCAAAATAAGTTTAAGAAATCTAAAA-GAAAATG------------------------------------------------AAACATAATAACTTTTATAGCAATTTATCTTCAAAATTAATTTTAGTAGCTCAATAGGAAAATGGAAGTTGTTTagttatcactaattgcttaccatgtatcaggcaatgtgctaagcacttcacatggattattttatttaatcatcagaatgagcctttgaagtagatgctattaaagccctattatatgtggaaagggagcctcaaagggataaagtct--cagccaagatTCTAAGCAGAGTCACTGACTCCTGCTTCTGG---CTTCTAAAG-------CAGTTTGCTATAGTGTCCTGACA------------------------------------------------------------------------A---------------tttttttttttttt---------------------tttGCTTattgcaatgtagtcaaatgtatcca-tttttt-cttttata--------tgtagattttatttcttgtttaataagtcctt--tttgatccaaacattatacgtgtattcacttttgcttactttaaa----aaattcttattttatatttaggtcagaaatccatcaagaatgttgtatgcgtgtttgcagtgtgt-tgtaaggatctt--tttt--ttttttccttcagtgaagaaccaattgtcccaacaagatcttttgaaTTGTTAACCCATTTGTCAAATTCATTTAAAATGCCGTTTTAATCTTAAGCT--------------AAAT-C-----------
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123678019 661 - 204313951 TAG--TCCTCGAATACTGTATGCAAAATAAGTGTAAGAAATCCCAAA-GAAAATG------------------------------------------------AAACATAATAACTTTTATAGCAATTTATCTTTG-AATTAATTTTAGTAACTCAATAGGAAAATGGAAGTTGTTTagatatcactaattgcttaccatgtatcaggcaatgtgctaagcacctcacatggattattttatttaatcatcagaatgagcctttgaagtagatgctattaaagccctattatatgtggaaagggggcctcagagggataaagtct--cagccaagattctcagcAGAATCATTGACTCCTGCTCCTGG---CTTCTAAAG-------CAGTTTGCTATAGTGTCCTGGCA----------------------------------------------------------------------------------------TTTTTTTTTTTTTTTT---------------------AGCTTattgcagtgtagtcaaatgtatcca-tcattt-------tg--------tttatattttatttcttgtttaataagacctc--tttgatctaaagattatacatgtgttcactttcgcttactttaaa---caaattcttattttatatttaggtcagaaagctatatagaattttgtatgtgtgtttgcagtgtgt-tgtaagaattta--ttta--tttt-tccttcagtgaagaaccaattgtcccaacaagagtctttgaattgttagcctatttgtcaaattcatttaaaatgccattttaatcttaagcc--------------aaat-g-----------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55721856 692 -  71252344 TAG--TCCCTGAATAGTGTATGCAAAATAAGTGTAAGAAATCCCAAA-GAAAATG------------------------------------------------AAACATAATAACTTTTATAGCAATTTATCTTTGAAATTAATTTTAGTAGCTCAATAGGAAAATGGAAGTTGTTTagttatcactaattgcttaccatgtatcaggcaatgtgctaagcacttcacatggattattttatttaatcatcagaatgagcctttgaagtagatgctattaaagccttattatatgtggaaatggggcctcaaagggataaagtct--catccaagattctcagcAGAATCATTGACTCCCGCTCCTGGCTTCTTCTAAAG-------CAGTTTGCTATAGTGTCCTGACA------------------------------------------------------------------------Attttttttttt----tttttttttttttttt---------------------tGCTTATTGCAATGTAGTCAAATATATCCA-TT-TTT-------TG--------TTTATAttttatttcttgtttaataagacctt--tctgatccaaagattatgcatgtattcacttttgcttactttaaa---caaattcttattttatatttaggtcagaaagccatatagaattttgtatgtatgtttgcagtgtgt-tgtaaggattta--tttatttttt-tccttcgttgaagaaccagttgtcccaacaagattctttgaaTTGTTAACCTATTTGTCAAATTCATTTAAAATGCCATTTTAATCTTAAGCCgtgtgtgtgtgtgtgtgt-g-----------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       24609 661 -   3089952 TAG--TCCCTGAATAGTGTATGCAAAATAAGTGTAAGAAATTCCAAA-GAAAATT------------------------------------------------AAACATAATAACTTTTATAGCAATTTATCTTTGAAATTAATTTTAGTAGCTCAATAGGAAAATGGAAGTTGTTTagttatcactaattgcttaccatgtatcaggcaatgtgctaagcacttcacatggattattttatttaatcaccagaatgaacctttgaagtagatgctattaaagccttattatatgtggaaagggggcctcaaagggataaagtct--cagccaagattctcagcagaatcattgactcccgctcctgg---cttctaaag-------cagtttgctacagtgtccTGACA----------------------------------------------------------------------------------------ATTTTTTTTtt----------------------------cttattgcgatgtagtcaaatatataca-tttttt-------tg--------tttatattttatttcttgtttaataagacctt--tctgatccaaagattat-catgtgttcacttttgcttactttaaa---caaattcttattttatatttagatcagaaagtcatatagaattttgtgtatgtgtttgcagtgtgt-tgtaaaaattta--ttta--tttt-tccttcagtgaaaaaccaattgtcccaacaagattctttgaattgttaacctatttgtcaaattcatttaaaatgccattttaatcttaagca-------aatgtgtatat-g-----------
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13226077 660 -  42888418 TAG--TCCCCAAATAGTGTATGCAAAATAAGTGTAAGAAATCCCAAA-GAAAATG------------------------------------------------AAACATAATAACTTTTATAGCAATTTATCTTTGAAATTAATTTTAGTAGCTCAATAGGAAA---GAAGTTGTTTagttatcactaattgcttaccatgtatcaggcaatgtgctaagcacttcacatggattattttatttaatcatcagaatgaacctttgaagtagatgctattaaagccctattatatgtggaaagggggcctcagagggataaagtCT--CAGGCAAGATTCTCAGCAGAATCACTGACTCCTGCTCCTGG---CTTCTAAAG-------CAGTTTGCTATAGTGTCCTGACA------------------------------------------------------------------------AA--------------TATATATATATATATT---------------------TGCTTattgcagtgtagtcaaatgtatcca-attttt-------tg--------tttatattttatttcttgtttaataagacctt--tttgatccaaagattatacatgtgttcacttttgcttac-ttaaa---caaattcttattttatatttaggtcagaaagccatatagaattttgtatgtgtgtttgcagtgtgt-tgtaaagattta--ttta--tttt-tccttcagtgaagaaccaattgtcccaacaagattctttgaattgttagcctatttgtcaaattcatttaaaatgccattttcatcttaagcc--------------aaat-g-----------
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60563667 667 + 108143057 TAC--TCTCCAAATATTGTATGTGGAATAAGTTTAA-ATATCTAAAA-GAAGGTA------------------------------------------------AAACATAATAACTTTTATTGCAGTTTATCTTTGAAATTAGCTGTAGTAACCCAATAGGAAAGTAGAAGTTGTTTAGTTGtcattaattgcttactatgtgtcaggcaatgtgctaagtacttcacatggattattttatttaatcatcagaatgagcctttgaagtagatgctattaaagccctattatatgtggaaaggaagtctcagaggaacaaagtcttccagccaagattctaagcaaagtcgttgactcctgctcctgc---tttcttaaa-------agctacactatggtgcccttGTA-------------------------------------------------------------------CTTACA---------------CAT-----TATTTTTT---------------------TGCTTAGTGtaatgtagtcaaatgtatcca-tttttt-cttctgta-----gcttttatgtcttatttcctgtttaataagagctt--tttgatctcaagattatgcatatatttacttccatttactttaaga--ataattcttactttatatttaggtcagaaatctatcagaaatgttgtatgtgtgtgaatagtgtgtgggcaaggatcta--tttt--t----tccctaagtggtggaccagttgttccaacagaatttattaaattattcatccatttgtcaaatttatttgaaacaccattgtaatct-----t--------------aaat-g-----------
i micMur3.chr12            C 0 I 1803
s proCoq1.NW_012155062v1     3596443 671 +  11683526 TAA--TCTTGAACTATTGTATGTGGAATAAGTTTAA-AAATCTGGAA-GAAGGTA------------------------------------------------AAACATAATAATTTTTATTGCAGTTTATCTTTGAAATTAACTGTAGTAACTCAATAGGAAAGTGGAAGTTGTTTagttatcattaattgcttactatgtgtcaggcaatgtgctaagtacttcatatggattattttatttaatcattagaatgagcctttgaagtagatgctattaaagctctattatatgtggaaaggaagtctcagaggaacaaaatcttttagccaagatTCTAAGCAAAGTCATTGACTCCTTTTCCTGC---TTTCTTAAA-------AACTATACTATAGTGCCCTtata-------------------------------------------------------------------tttata---------------tatatatatatatTTT---------------------TGCTTAGTGtgatgtagtcaaatgtatccg-tttttt-cttctgta-----gcttttatatcttatttcttgtttaataaaatctt--tttgatctcaagattatgcatttattcacttccatttacttcaaaa--ataattcttactttatatttaggtcagaaatctatcagaaattttgtatgtgtgtgtatagtgtgt-gacaaggatcta--attt--t----tccctcagtgatgtaccagttgttccaacaaaatttattaaattattcatccatttgtcaaatttatttgaaacaccattgtaatct-----t--------------aaat-g-----------
i proCoq1.NW_012155062v1   C 0 I 7
s otoGar3.GL873679           3081164 658 +   4132165 TATTGTGTGTGGATATTGTACGTGAAGTACGTTTAA-AAATCTAAAA-GAAGGTA------------------------------------------------AAACATGATCATTTTTATCACAGTTTATCTTTGACATGAACTACGGT-CCTCAATAGGAAAATCAAAGTTGTTTAGTTCtcattaattgcttgctatgtgtcaggcaatgtgctaagtacttcacgtggattattttacttaatcatcagaaggagcctttgaagtagatgctattaaagctctggtttatg-ggaaaggaagtctcgggggaataaaatctttccgtccagagtcTAGGCCAAGTCATTG-CTCCTGCTCTTGC---TTTCTTAAA-------CACTATGCTGTAACATTTATACA-------------------------------------------------------------------CATGCA---------------TGTATTTGTTTCTTTT---------------------TGCTTCATGtgatgtagtgaaatgtatccattttttt-cttagata-----gcttttttgtcttgttacctgtttaacaagatctt--tttgatcccaagatcatgcatgccttcccttccattta---------------tcttattttatacttagatcagaaacccagcaggaattttgtatgtctgtatatctcgt-t-ggcaaggatcta-gtttt--t----ttcctccatgaagtaccaattgttccaacaaaatttattgagttgttcattcatttgtcaagtttacttgaaatgccatgttcatat-----t--------------aaat-a-----------
i otoGar3.GL873679         C 0 I 3
s mm10.chr18                55527535 786 +  90702639 TAC--TCTACAAATCCTG-ATACGGAATAAGCTCTAAAAACCTAAAA-ACTTGTA------------------------------------------------ATGTGTAGTAAGTCTTGCTGACATTCATCACTAATATTAATTTCGGTGAGACAATAGAAAAACAGACATTGTTTagctacaattaactgcttacaatgtattaggcaatgtgctaagtacttcacgtggattattttgtttaatcatcagaatgagcctttgaagtacatgctattaaagacccattgtatgtggaaaaggagcctctgagaAAAAAGGTTTCTCAGCCAATATTTTAAGCAAACTCATTGGCTCCCATTCCTGC---CCTTTGTAAATTATGCTGCTTTGCTCttttttctttccttccttccttccttccttccttccttccttccttcctctctctctctctctctctctctctctctctctctcta---------------tttctttctttttgtcctttctttcctttttctttTAGGCTTATTGTAATATCATCAAATAGATCCA-TTTTTTTCTTCTACTCAGATTCTTTTGTGTCTTGTGTCTTATTTAATAGGACACTTATTTGATCTCAAGTTTATGCATATATTCACATCTGTTCACGCAAAGAACATAATTCTTATTTTGCACTAAGGTAAGAAATGCACTAAGAACTGTGTATATGTGT--GTAGTATGT-GATAATGACCTA--ATTA--TATC-CTAGTCAA--AAGTACGAATTGTCCCAATGAAG-----TGTGCTGTTCATTCTCTTGCCAAGTTCATTTGAAATTCTGTTTTAATCTTAGGCT--------------AAAC-Agtgtgtgtgtg
i mm10.chr18               I 200 C 0
e canFam3.chr11             14926275  34 +  74389097 I
e dasNov3.JH567306           2646338 545 +   3667625 I

a score=4771.000000
s hg38.chr5_KI270796v1_alt    106329 23 +    172708 tgtatatgt------gttcgtgtgtgtgt
s panTro5.chr5             125210075 23 + 181907262 TGTATATGT------GTTCGTGTGTgtgt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126546747 23 + 183735486 tgtatatgt------gttcgtgtgtgtgt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1738461 23 +   8933513 tgtatatgt------gtttgtgtgtgtgt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139873518 15 + 163208435 tgtata--------------tgtgtgtgt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122858136 23 + 180051392 tgtatatct------gtgtgtgtgtgtgt
i rheMac8.chr6             C 0 I 8
s macFas5.chr6             124281747 27 + 181584905 tgtatatctgtgc--gtgtgtgtgtgtgt
i macFas5.chr6             C 0 I 8
s macNem1.NW_012012355v1    16280103 29 +  18395747 tgtatatctgtgcgtgtgtgtgtgtgtgt
i macNem1.NW_012012355v1   C 0 I 8
s cerAty1.NW_012002512v1     5293066  9 +  26952557 tgtatatct--------------------
i cerAty1.NW_012002512v1   C 0 I 4
s chlSab2.chr23             28393368 21 +  82825804 tgtatatct------gtgcgtgtgtgt--
i chlSab2.chr23            C 0 I 4
s manLeu1.NW_012103321v1     4063081 13 -   4237731 tgtatatct------gtgc----------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      331727 23 -   1175262 TGTATATCt------gtgcgtgtgtgtgt
i colAng1.NW_012119644v1   C 0 I 134
s calJac3.chr2             123678680  5 - 204313951 tgtat------------------------
i calJac3.chr2             C 0 I 2
s saiBol1.JH378106          55722548  5 -  71252344 tgtgt------------------------
i saiBol1.JH378106         C 0 I 2
s cebCap1.NW_016107590v1       25270  5 -   3089952 tgtgc------------------------
i cebCap1.NW_016107590v1   C 0 I 2
s aotNan1.NW_018505940v1    13226737  5 -  42888418 tgtgt------------------------
i aotNan1.NW_018505940v1   C 0 I 2
s proCoq1.NW_012155062v1     3597121  5 +  11683526 tgtgt------------------------
i proCoq1.NW_012155062v1   I 7 C 0
s otoGar3.GL873679           3081825  5 +   4132165 tgtac------------------------
i otoGar3.GL873679         I 3 C 0
s mm10.chr18                55528321 23 +  90702639 tgtgtgtgt------gtgtgtgtgtgtgt
i mm10.chr18               C 0 C 0
e micMur3.chr12             60564334 1803 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e dasNov3.JH567306           2646338 545 +   3667625 I

a score=1589945.000000
s hg38.chr5_KI270796v1_alt    106352 142 +    172708 --gtgtgtgtgtgtgtgtgtgt------gtttctggacttctt-----ccatgactctagctgtctgtcaataagcttttat-tgtactattttaacagtagtttttaaatataatttgctatcaagtagaggaaatccttagcattgttcttttC
s panTro5.chr5             125210098 138 + 181907262 --gtgtgtgtgtgtgtttctgt--------ttctggacttctt-----ccatgact--agctgtctgtcaatatgcttttat-tgtactattttaacagtagtttttaaatataatttgctatcaagtagaggaaatccttagcattgttcttttC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126546770 146 + 183735486 --gtgtgtgtgtgtgtgtgtgtgtttctgtttctggacttctt-----ccatgact--agctgtctgtcaatatgcttttat-tgtactattttaacagtagtttttaaatataatttgctatcaagtagaggaaatccttagcattgttcttttC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1738484 140 +   8933513 --gtgtatgtgtgtgtgtgtgt--------ttctggacttatt-----ccatgactctagctgtctgtcaatatgcttttat-tgtactattttaacagtagtttttaagtataatttgctatcaagtagaggaaatccttagcattgttcttttC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139873533 140 + 163208435 --gcgtgtgtgtgtgtgtgtgt--------ttctggacttatt-----ccatgactctagttgtctgtcaatatgcttttgt-tgtactattttaactgtagtttttaaatataatttgctatcaagtagaggaaatccttagcattgttcttttc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122858167 138 + 180051392 --gtgtgtgtgtgtgtgtgtgt--------ttctggacttatt-----ccatgact--agtggtctgtcagtatgcttttat-tgtactattttaactgtagtttttaaatataatttgctatcaagtagcagaaatccttagtgttgttcttttC
i rheMac8.chr6             I 8 C 0
s macFas5.chr6             124281782 138 + 181584905 --gtgtgtgtgtgtgtgtgtgt--------ttctggacttatt-----ccatgact--agtggtctgtcagtatgcttttat-tgtactattttaactgtagtttttaaatataatttgctatcaagtagcagaaatccttagtgttgttcttttc
i macFas5.chr6             I 8 C 0
s macNem1.NW_012012355v1    16280140 138 +  18395747 --gtgtgtgtgtgtgtgtgtgt--------ttctggacttatt-----ccatgact--agtggtctgtcagtatgcttttat-tgtactattttaactgtagtttttaaatataatttgctatcaagtagcagaaatccttagtgttgttcttttC
i macNem1.NW_012012355v1   I 8 C 0
s cerAty1.NW_012002512v1     5293079 138 +  26952557 --atgtgtgtgtgtgtgtgtgt--------ttctggacttatt-----ccatgact--agtggtctgtcagtatgctttgat-tgtactattttaactgtagtttttaaatataatttgctatcaagtagcagaaatccttagcattgttcttttc
i cerAty1.NW_012002512v1   I 4 C 0
s chlSab2.chr23             28393393 138 +  82825804 --gtgtgtgtgtgtgtgtgtgt--------ttctggacttatt-----ccatgact--agtggtctgtcagtatgcttttat-tgtactattttaactgtagtttttaaatataatttgctatcaagtagcagaaatccttagcattgttcttttc
i chlSab2.chr23            I 4 C 0
s manLeu1.NW_012103321v1     4063094 136 -   4237731 ----atgtgtgtgtgtgtgtgt--------ttctggacttatt-----ccatgact--agtggtctgtcagtatgcttttat-tgtactattttaactgtagtttttaaatataatttgctatcaagtagcagaaatccttagcattgttcttttc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      331884 138 -   1175262 --gcgtgtgtgtgtgtgtgtgt--------ttctggacttatt-----ccatgact--agtggtctggcagtatgcttttat-tgtactcttttaactgtagttttaaaatataatttgctatcaagtagcagaaatccttagcattgttcttttC
i colAng1.NW_012119644v1   I 134 C 0
s calJac3.chr2             123678687 140 - 204313951 --gtatgtgtgcgtttgtgtgt--------ttctggacttact-----ccttaactctagttgtctgtcattatgcttttat-tgtactattttaactgtaggttttaaatataatttgctatcaagtagaggaaatccttagcattgttcttttc
i calJac3.chr2             I 2 C 0
s saiBol1.JH378106          55722555 140 -  71252344 --gtgtgtgtgtgtgtgtgtgt--------ttgtgGACTTACT-----CCTTAACtctagttgtctgtcggtatgcttttat-tgtactattttaactgtaggttttaaatataatttgctatcaggtagaggaaatccttagcattgttcttttc
i saiBol1.JH378106         I 2 C 0
s cebCap1.NW_016107590v1       25277 140 -   3089952 --gtgtgtgtgtgtgtgtgtgt--------ttctggacttact-----ccttaactctagttgtctgttggtatgcttttac-tgtactattttaactgtaggttttaaatataatttgctatcaagtagaggaaatccttagcattgttcttttc
i cebCap1.NW_016107590v1   I 2 C 0
s aotNan1.NW_018505940v1    13226744 140 -  42888418 --gtgtgcatgtatatgtgtgt--------ttctggacttact-----ccttaactctagttgtctgtcggtatgcttttat-tgtactattttaactgtaggttttaaatataatttgctatcaagtagaggaaatacttagcattgttcttttc
i aotNan1.NW_018505940v1   I 2 C 0
s proCoq1.NW_012155062v1     3597126 139 +  11683526 --------gtgtatgtgtgtgt--------ttctggatttattttattccattaatttagctgtctgtcagtatgcctttat-cataccattttaactatagctttgtagtataatttgccatcaagtaaaggaaatccccagcaaccttcttttc
i proCoq1.NW_012155062v1   C 0 I 31
s otoGar3.GL873679           3081830 136 +   4132165 --------acacatgtgtgtat--------ttgggggtttattttatcctgttaatata---gtctgtcagtatgcctttgt-cataccaatttaagtatagttttgtaatacaacttgccatcaagtaaaggaaattcctagcattgttcttttt
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55528344 136 +  90702639 gtgtgtgtgtgtgtgtgtgtgt--------TGATGGATTTGTT--------TTACTCTATTAAC---TCAGAATCTTGCTATCCATCCTATTTTAGTTATTATTTTGCAGTATAATGTGCTGCCAGACAGAAGACATTCCCAG-ATTTCTGTTTTC
i mm10.chr18               C 0 C 0
e micMur3.chr12             60564334 1803 + 108143057 I
e canFam3.chr11             14926275  34 +  74389097 I
e dasNov3.JH567306           2646338 545 +   3667625 I

a score=260510.000000
s hg38.chr5_KI270796v1_alt    106494 27 +    172708 ACATTTGTCTGGACTGTTCTCACAC--GT----
s panTro5.chr5             125210236 27 + 181907262 ACATTTGTCTGGACTGTTCTCACAC--GT----
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126546916 27 + 183735486 ACATTTGTCTGGACTGTTCTCACAC--GT----
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1738624 27 +   8933513 ACATTTGTCTGGACTGTTCTCACAC--GT----
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139873673 29 + 163208435 acatttgtctggactgttctCACACATGT----
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122858305 29 + 180051392 ACGTTTGTCTGGACTGTTCCCACACATGT----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124281920 29 + 181584905 acgtttgtctggactgttcCCACACATGT----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16280278 29 +  18395747 ACGTTTGTCTGGACTGTTCCCACACATGT----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5293217 29 +  26952557 acgtttgtctggactgttcCCACACATGT----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28393531 29 +  82825804 acatttgtctggactgttcCCACACATGT----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4063230 29 -   4237731 acgtttgtctggactgttcCCACACATGT----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      332022 29 -   1175262 ACATTTGTCTGGACTGTTTCCACACATGC----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123678827 29 - 204313951 atgtttctctggactgttctCACACATGT----
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55722695 29 -  71252344 atgtttgtctggactattctCACATGTAA----
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       25417 29 -   3089952 atgtttgtctggactattctCACACGTGT----
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13226884 29 -  42888418 atgtttgtctggaccattctCACACATAT----
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3081967 27 +   4132165 AGATTTGTTCAGGTTCTTCCCACACGT------
i otoGar3.GL873679         I 1 I 3
s mm10.chr18                55528480 32 +  90702639 -CTTAAGTTTAGAGTCTTCTTGCACATACTTAT
i mm10.chr18               C 0 C 0
e micMur3.chr12             60564334 1803 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e proCoq1.NW_012155062v1     3597265 31 +  11683526 I
e dasNov3.JH567306           2646338 545 +   3667625 I

a score=339605.000000
s hg38.chr5_KI270796v1_alt    106521 33 +    172708 TACAACCAGATA-TATTTTGAGAATCTACTCCTT
s panTro5.chr5             125210263 33 + 181907262 TACAACCAGATA-TATTTTGAGAATCTActcctt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126546943 33 + 183735486 TACAACCAGATA-TATTTTGAGAATCTActcctt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1738651 33 +   8933513 TACAACCAGATG-TGTTTTGAGAATCTACTCCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139873702 33 + 163208435 TACAACCAGATA-TATTATGAGAATCTACTCCTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122858334 33 + 180051392 TACAACCTGATA-TATTTTGAGAATCTACTCCTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124281949 33 + 181584905 TACAACCTGATA-TATTTTGAGAATCTACTCCTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16280307 33 +  18395747 TACAACCTGATA-TATTTTGAGAATCTACTCCTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5293246 33 +  26952557 TACAACCTGATA-TATTTTGAGAATCTACTCCTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28393560 33 +  82825804 TACAACCTGATA-TATTTTGAGAATCTACTCCTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4063259 33 -   4237731 TACAACCTGATA-TATTTTGAGAATCTActcctt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      332051 33 -   1175262 TACAACCTGATA-TATTTTGAGAATCTACTCCTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123678856 33 - 204313951 TACCACCAGATG-TGTTTTGagattgtactcctt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55722724 27 -  71252344 TAC-----AATG-T-TTTTGAGAATGTACTCCTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       25446 33 -   3089952 TACAACCAGATG-TGTTTTGAGAATGTACTCCTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13226913 33 -  42888418 TACAACCAGATG-TGTTTTGAGAATGTACTCCTT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3597296 21 +  11683526 TACAATC-------------AGAATCAACTTCCT
i proCoq1.NW_012155062v1   I 31 C 0
s otoGar3.GL873679           3081997 34 +   4132165 TACAATCAGATACTATTTTGAGAATCAACTCCTT
i otoGar3.GL873679         I 3 C 0
s mm10.chr18                55528512 33 +  90702639 AATAAGCAGATT-CATTTGGGAGATCAGCTTGTC
i mm10.chr18               C 0 C 0
e micMur3.chr12             60564334 1803 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I
e dasNov3.JH567306           2646338 545 +   3667625 I

a score=663228.000000
s hg38.chr5_KI270796v1_alt    106554 53 +    172708 GAAGGCAAGAGGCCAGTCAGATTCCTCTTTGGATTTACCCAC-AGTGCTTGTTA
s panTro5.chr5             125210296 53 + 181907262 gaaggcaagaggccagtcagattcctctttggatttacccac-agtgcttGTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126546976 53 + 183735486 gaaggcaagaggccagtcagattcctctttggatttacccac-agtgcttGTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1738684 53 +   8933513 GAAGGCAAGAGGCCAGTCAGATTCCTCTTTGGATTTACCCAC-Ggtgcttgtta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139873735 53 + 163208435 GAAGGCAAGAGACCAGTCAGATTCCTCTTTGGATTTACCCAC-AGTGCTTGTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122858367 53 + 180051392 GAAGGCAAGAGACCAGTCAGATTCCTCTTTGGATTTACCCAA-Agtgcttgtta
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124281982 53 + 181584905 GAAGGCAAGAGACCAGTCAGATTCCTCTTTGGATTTACCCAA-Agtgcttgtta
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16280340 53 +  18395747 GAAGGCAAGAGACCAGTCAGATTCCTCTTTGGATTTACCCAA-Agtgcttgtta
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5293279 53 +  26952557 GAAGGCAAGAGACCAGTCAGATTCCTCTTTGGATTTACCCAA-Agtgcttgtta
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28393593 53 +  82825804 GAAGGCAAGAGACCAGTCAGATTCCTCTTTGGATTTACCCAA-AGTGCTTGTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4063292 53 -   4237731 gaaggcaagagaccagtcagattcctctttggatttacccaa-agtgcttGTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      332084 53 -   1175262 GAAGGCAAGAGACCAGTCAGATTCCTCTTTGGATTTACCCAA-AGTGCTTGTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123678889 44 - 204313951 gaaggcaagagaccagtcagattcctctttggatT----------TGCTTGTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55722751 44 -  71252344 GAAGTCAAGAGACCAGTCAGATTCCTCTTTGGATT----------TGCTTGTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       25479 44 -   3089952 GAAGGCAAGAGACCAATCAGATTCCTCTTTGGATT----------TTCTTGTTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13226946 44 -  42888418 GAAGGCAAGAGACCAGTCAGATTCCTCTTTGGATT----------TGCTTGTTA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3597317 54 +  11683526 GAAGGCAAGAGACCTGTCAGATTCCTCTTTGGATTTACCCACTAgtgctagtga
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3082031 54 +   4132165 GAAGGCAAGAGATTTGTCAGACTCCTCTTTCCGTTTACCCACTAGTGCCATTGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55528545 53 +  90702639 GCTAGCAAGAGATGCGCAAGATTTCTATTTGGGTTTCCCAGT-AGGACCAGTTA
i mm10.chr18               C 0 I 46
s dasNov3.JH567306           1020998 53 -   3667625 GAATGCAAGAGACTAGTCAGATTCCCCTTTGGATTTACCTAC-AGTGATAGTCA
i dasNov3.JH567306         n 545 C 0
e micMur3.chr12             60564334 1803 + 108143057 I
e canFam3.chr11             14926275 34 +  74389097 I

a score=1268955.000000
s hg38.chr5_KI270796v1_alt    106607 125 +    172708 CTTATCTGTTGTTT-CTCTGCTTAAGCCCATCCTTTTATATTTTGTGCTGTGAGGTAAAATACATTTTCTAGACTCTATATGAGCTTAGTTTTCTCCCTGTT----TGTGGCCAT--GAGGCACTGGAGGGT
s panTro5.chr5             125210349 125 + 181907262 CTTATCTATTGTTT-CTCTGCTTAAGCCCATCCTTTTATATTTTGTGCTGTGAGGTAAAATACATTTTCTAGACTCTATATGAGCTCAGTTTTCTCCCTGTT----TGTGGCCAT--GAGGCACTGGAGGGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126547029 125 + 183735486 CTTATCTATTGTTT-CTCTGCTTAAGCCCATCCTTTTATATTTTGTGCTGTGAGGTAAAATACATTTTCTAGACTCTATATGAGCTTAGTTTTCTCCCTGTT----TGTGGCCAT--GAGGCACTGGAGGGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1738737 125 +   8933513 tttatctattgttt-ctctgcttaagcccatccttttatattttgtgctgtgaGGTAAAATACATTTTCTAGACTCTATATGAGCTTAGTTTTCTCCCTGTT----TGTGGCCAT--GAGGCACTGGAGGGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139873788 125 + 163208435 TTTATCTATTGTTT-CTCTGCTAAAGCTCATCCTTTTATATTTTGTGCTGTGAGGTAAAATACATTTTCTAGACTCTATATGAGTTTAGTTGGCTCCCTGTT----TGTGGCCAT--GAGGCACTGGAGGGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122858420 125 + 180051392 tttatctattgttt-ctctgctaaagcccatcattttatattttgtcctgtgatgTAAAATACATTTTTTAGACTCTATATGAGTTTAGTCGACTCCCTGTT----TGCGGCCAT--GAGGAATTGGAAGGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124282035 125 + 181584905 tttatctattgttt-ctctgctaaagcccatcattttatattttgtcctgtgatgTAAAATACATTTTTTAGACTCTATATGAGTTTAGTCGGCTCCCTGTT----TGCGGCCAT--GAGGAATTGGAAGGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16280393 125 +  18395747 tttatctattgttt-ctctgctaaagcccatcattttatattttgtcctgtgatgTAAAATACATTTTTTAGACTCTATATGAGTTTAGTCGGCTCCCTGTT----TGCGGCCAT--GAGGAATTGGAAGGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5293332 125 +  26952557 tttatctattgttt-ctctgctaaagcccatcattttatattttgtgctgtgatgGAAAATACATTTTTTAGACCCTATATGAGTTTAGTTGGCTCCCTGTT----TGCGGCCAT--GAGGAATTGGAAGGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28393646 125 +  82825804 TTTATCTATTGTTT-CTCTGCTAAAGCCCATCATTTTATATTTTGTGCCGTGATGTAAAATACATGTTTTAGACTCTATATGAATCTAGTTGGCTCCCTGTT----TGCGGCCAT--GAGAAATTGGAGGGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4063345 125 -   4237731 TTTATCTATTGTTT-CTCTGCTAGAGCCCATCATTTTATATTTTGTCCTGTGATGTAAAATACATTTTTTAGACTCTATATGAGTTTAGTTGGCTCCCTGTT----TGTGGCCAT--GAGGAATTGGAAGGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      332137 125 -   1175262 TTTATCTATTGTTT-CTCTACTAAAGCCCATCATTTTATATTTTGTGCTGTGATGTAAAATACATTTTTTAGACTCTATATGAGTTTAGTTGGCTCCCTGTT----TGCGGCCAT--GAGGAATTGGAGGGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123678933 126 - 204313951 TTTGTCTATAGTTTCCTCTGCTAAAGCCCATCCTTCTGCATTTTGTGCTGTGGTGTAAAATGCATTTGCTAGACTCAATATGAGTTGAATTAGCTCCCTGTT----TGCGGGCAT--GAGGCACTGCAGGGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55722795 126 -  71252344 TTTATCTATTGTTTCCTCTGCTAAAGCCCGTCCTTCTGCATTTTGCGCTGTGGTGTAAAATGCATTTGCTAGACTCAATATGAGCTGAATTGGCTCCCTGTT----TGCGGGCAT--GAGGCACTGCAGGGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       25523 126 -   3089952 TTTATCTATTGTTTTCTCTGCTAAAGCCCATCCTTCTGCATTTTGTGCTGTGGTGTAAAATGCATTTGCTAGACTCAATATGAGTTGAATTGGCTCCCTGTT----TGTGGGCAT--GAGGCACTGCAGGGT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13226990 126 -  42888418 CTTATCTATTGTTTCCTCTGCTAAAGCCCATCCTTCTGCATTTTGTGCTGTGGTGTAAAATGCATTTGCTAGACTCAATATGAGTTGAATTGGCTCCCTGTC----TGCGGGCAT--GAGGCACTACAGGGT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3597371 124 +  11683526 tttatctgttgctt-ctcaactcaagcctgtccttctatattttgccctgtgatgtaaaatacattcgctgccttatat-------tagttgactccctgttagtttgtgcctacaagaggcactgcaaggt
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3082085 109 +   4132165 TTTAT---------------GTCACGCCCACCCTTCTCTAATGTGCTCTGTGATGTAAAATACGCTCACTACCCTCTG--------CAGTTGGCTCCCTGTTAGTCTGAGTCCACAAGAGCCACTGGAAGGT
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           1021051  90 -   3667625 TTTACTTACTGTga-------------------------agcttg----gtaatgcaaaatacatttcctattctccct----tgttagctggctcc---tg----tgccaacga--gaggcatgggagtgt
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60564334 1803 + 108143057 I
e canFam3.chr11             14926275  34 +  74389097 I
e mm10.chr18                55528598  46 +  90702639 I

a score=527785.000000
s hg38.chr5_KI270796v1_alt    106732 41 +    172708 --------------------------------------CATTTTCCACTTGT----------GT--------TTCCAGAGACAAAAGACAGTGAAGG
s panTro5.chr5             125210474 41 + 181907262 --------------------------------------CATTTTCCACTTGT----------GT--------TTCCAGAGACAAAAGACAGTGAAGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126547154 41 + 183735486 --------------------------------------CATTTTCCACTTGT----------GT--------TTCCAGAGACAAAAGACAGTGAAGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1738862 41 +   8933513 --------------------------------------CATTTTCCACTTGC----------GT--------TTCCAGAGATAAAAGACAGTGAAGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139873913 41 + 163208435 --------------------------------------CATTTTCCACTTGG----------GT--------TTCCAGAAGCAAAAGACAGTGAAGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122858545 41 + 180051392 --------------------------------------CATTTTCCACCTGG----------GT--------TTCCAGAAGCAAAAGACAGTGAAGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124282160 41 + 181584905 --------------------------------------CATTTTCCACCTGG----------GT--------TTCCAGAAGCAAAAGACAGTGAAGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16280518 41 +  18395747 --------------------------------------CATTTTCCACCTGG----------GT--------TTCCAGAAGCAAAAGACAGTGAAGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5293457 41 +  26952557 --------------------------------------CATTTTCCACCTGG----------GT--------TTCCAGAAGCAAAAGACAGTGAAGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28393771 41 +  82825804 --------------------------------------CATTTTCCACCTGG----------GT--------TTCCAGAAGCAAAAGACAGTGAAGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4063470 41 -   4237731 --------------------------------------CATTTTCCACCTGG----------GT--------TTCCAGAAGCAAAAGACAGTGAAGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      332262 41 -   1175262 --------------------------------------CATTTTCCACCTGG----------GT--------TTCCAGAAGCAAAAGACAGTGAAGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123679059 39 - 204313951 --------------------------------------CATTTTCCATTTGG----------GT--------TTCCAGAAGCAAAAG--AGTGAAGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55722921 41 -  71252344 --------------------------------------CATTTTCCATTTGG----------GT--------TTCCAGAAGCGAAAGATAGTGAAGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       25649 41 -   3089952 --------------------------------------CATTTTCCATTTGG----------GT--------TTCCAGAAGCAAAAGACAGTGAAGG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13227116 41 -  42888418 --------------------------------------CATTTTCAATTTGG----------GT--------TTCCAGAAGCAAAAGATAGTGAAGG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3597495 41 +  11683526 --------------------------------------cattttccacgtga----------gt--------ttgcaggagcagaagacagtgaagg
i proCoq1.NW_012155062v1   C 0 I 237
s otoGar3.GL873679           3082194 40 +   4132165 --------------------------------------CATTTTCCACTTGT----------GT--------TTCCAATAGTTAAAGAC-GTGGAGG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14926309 49 +  74389097 --------------------------------------CATTTTCTAATTGG----------GTCTGTATGCCTCCAGCAGCAGAAGATAGTAAAGG
i canFam3.chr11            I 34 C 0
s dasNov3.JH567306           1021141 89 -   3667625 tatttgaatgtaagaggaggagaCATTGAACACATCTCTATTTTCCCTCTTGGGGTCTGCATGT--------CTCCAGGAGCAGAAGATAGCTAAGT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60564334 1803 + 108143057 I
e mm10.chr18                55528598 46 +  90702639 I

a score=582121.000000
s hg38.chr5_KI270796v1_alt    106773 49 +    172708 C--TCTCATTTCCTATTTCACCTGGTGCTCCCATCATGATCTGGTCCATGC
s panTro5.chr5             125210515 49 + 181907262 C--TCTCATTTCCTATTTCACCTGGTGCTCCCATCATGATCTGGTCCATGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126547195 49 + 183735486 C--TCTCATTTCCTATTTCACCTGGTGCTCCCATCATGATCTGGTCCATGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1738903 49 +   8933513 C--TCTCATTTCCTATTTCACCTGGTGCTCCCATCATGATCTGGTCCATGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139873954 49 + 163208435 C--TCTCATTTCCTATTTCACCTGGTGCTCCCATCATGCTCTGGTCCATGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122858586 49 + 180051392 C--TCTCATTTCCTATTTCACCTGGTGCTCCCATCATGATCTGGTCCATGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124282201 49 + 181584905 C--TCTCATTTCCTATTTCATCTGGTGCTCCCATCATGATCTGGTCCATGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16280559 49 +  18395747 C--TCTCATTTCCTATTTCACCTGGTGCTCCCATCATGATCTGGTCCATGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5293498 49 +  26952557 C--TCTCATTTCCTATTTCACCTGGTGCTCCCATCATGATCTGGTCCATGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28393812 49 +  82825804 C--TCTCATTTCCTATTTCACCTGGTGCTCCCATCATGATCTGGTCCATGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4063511 49 -   4237731 C--TCTCATTTCCTATTTCACCTGGTGCTCCCATCATGATCTGGTCCATGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      332303 49 -   1175262 C--TCTCATTTCCTCTTTCACCTGGTGCTCCCATGATGATCTGGTCCATGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123679098 51 - 204313951 CTTGCTCATTTCCTGTTTCACCTGGTGTTCTCTTCATGATCTGGTCCATGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55722962 49 -  71252344 C--GCTCATTTCCTATTTCACCTGGTGTTCTCAACATGATCCGGTCCATGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       25690 49 -   3089952 C--TCTCATTTCCTGTTTCACCTGGTGTTCTCATCATGACCTGGTCCATGC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13227157 48 -  42888418 C--TCTCATTTCCTATTTCA-CTAGTGTTCTCATCATGATCTGGTCCATGC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3082234 48 +   4132165 C--GCTTGCTTCA-ATTTCTTTTGGCGCTGCTAGCACTATCTAGCTCATGC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14926358 49 +  74389097 C--TCCCACTTCCAATTTCTCTTAGTGCTTCCAGCACTGTCTGGTCCATGC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           1021230 41 -   3667625 C--TCTAGCTTCCAGTTTC--------TTCCCACACTAACTTGGTCAAAGC
i dasNov3.JH567306         C 0 n 0
e micMur3.chr12             60564334 1803 + 108143057 I
e proCoq1.NW_012155062v1     3597536 237 +  11683526 I
e mm10.chr18                55528598 46 +  90702639 I

a score=1449403.000000
s hg38.chr5_KI270796v1_alt    106822 132 +    172708 CATTCAGTGAGCTGAGCACCAACTATGCCATACCTGCTCAGTGGCTGATGTACCATTTGTGCC----TCCAACCATCCCACTCTCTGCCTTCTGAACACCAGCTGTGTCCTATTATGTT-------G-------CAGACTGAGCATCCAT
s panTro5.chr5             125210564 132 + 181907262 CATTCAGTGAGCTGAGCACCAACTATGCCATACCTGCTCAGTGGCTGATGTACCATTTGTGCC----TCCAACCATCCCACTCTCTGCCTTCTGAACACCAGCTGTGTCCTATTATGTT-------G-------CAGACTGAGCATCCAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126547244 132 + 183735486 CATTCAGTGAGCTGAGCACCAACTATGCCATACCTGCTCAGTGGCTGATGTACCATTTGTGCC----TCCAACCATCCCACTCTCTGCCTTCTGAACACCAGCTGTGTCCTATTATGTT-------G-------CAGACTGAGCATCCAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1738952 132 +   8933513 CGTTCAGTGATCTGAGCACCAACTATGCCATACCTGCTCAGTGGCTGATGTACCATTGGTGCC----TCCAACCATCCCACTCTCTGCCTTCTGAACACCAGCTGTGTCCTATTATGTT-------G-------CAGACTGAGCATCCAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139874003 132 + 163208435 CGTTCAGTGATCTGAGCACCAACTACGCCATACCTGCTCAGTGGCTGATGTACCATTTGTGCC----TCCAACCATCCCACTCTCTGCCTTCTGAACACCAGCTGTGCCCTAATATGTT-------G-------CAGACTGAGCATCCAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122858635 132 + 180051392 CTTTCAGCGATCTGAGCACCAGCTATGCTATGCCTGCTCAGTGGCTGATGTACCATTTGCTCC----TCCAACCATCCCACTCTCTGCCTTCTGAACACCAGCTGTGCCCTAATATGTT-------G-------CAGACTGAGCATCCAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124282250 132 + 181584905 CTTTCAGCGATCTGAGCACCAGCTATGCTATGCCTGCTCAGTGGCTGATGTACCATTTGCTCC----TCCAACCATCCCACTCTCTGCCTTCTGAACACCAGCTGTGCCCTAATATGTT-------G-------CAGACTGAGCATCCAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16280608 132 +  18395747 CTTTCAGCGATCTGAGCACCAGCTATGCTATGCCTGCTCAGTGGCTGATGTACCATTTGCTCC----TCCAACCATCCCACTCTCTGCCTTCTGAACACCAGCTGTGCCCTAATATGTT-------G-------CAGACTGAGCATCCAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5293547 132 +  26952557 CTTTCAGTGATCTGAGCACCAGCTATGCTATGCCTGCTCAGTGGCTGATGTACCATTTGCTCC----TCCAACCATCCCACTCTCTGCCTTCTGAACACCAGCTGTGCCCTAATATGTT-------G-------CAGACCGAGCATCCAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28393861 132 +  82825804 CTTTCAGTGATCTGAGCACCAACTATGCTATGCCTGCGCAGTGGCTGATGTACCATTTGCTCC----TCCAACCATCCCACTCTCTGCCTTCTGAACACCAGCTGTGCCCTAATATGTT-------G-------CAGACTGAGCATCCAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4063560 132 -   4237731 CTTTCAGTGATCTGAGCACCAGCTATGCTATGCCTGCTCAGTGGCTGATGTACCATTTGCTCC----TCCAACCATCCCACTCTCTGCCTTCTGAACACCAGCTGTGCCCTAATATGTT-------G-------CAGACCGAGCATCCAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      332352 130 -   1175262 CTTTCAGTGATCTGAGCACTAACTATGCTATGCCTGCTCAGTGGCTGATGTACCATTTGCTCC----TCCAACCATCCCA--CTCTGCCTTCTGAACAGTAGCTGTGCCCTAATATGTT-------G-------CAGACTGAGCATCCAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123679149 132 - 204313951 CTTTCAGTGATCTGAGCACTGACTATGCCATGACTGCTCAGTGGCTGACACACCAGTTGTGCC----TCCAACCACCCCACTCTCTGCCTTCTGAAAACCACCTGTGCTCTAATATGTT-------G-------CAGAGTGAGCACCCAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55723011 107 -  71252344 CTTTCAGTGATCTGAGCACCAGCTATGCCATGCC-------------------------TGCC----ACCCACCACCTCACTCTCTGCCTTGTGAAAACCAGCTGTGCTCTAATGTGTT-------G-------CAGACTGAGCATCCAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       25739 132 -   3089952 CTTTCAGTGATCTGAGCACCAACTATGCCATGCCTGCTCAGTGGCTGATGCTCCAGTTGTGCC----TCCAACCACCCCACTCTCTGCCTCCTAAAAACCAGCTGTGCTCTAATATGTT-------G-------CAGACTGAGCATCCAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13227205 132 -  42888418 CTTTCAGTGATCTGAGCACCAACTATGCCATGCCTGCTCAGTGGCTGATGCACCAGTTGTGCC----TCCAACCACCCCACTCCCTGCCATCTGAAAACCAGCTGTGCTCTAATATGTT-------G-------CAGACTGAGCATCCAT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3082282 130 +   4132165 CTTCCAGTGGTCTGAACACCAGCT-----------TCTCTGTGAGTGAAATACCAGCTGCACCAACACCCCAGCACCCAACTCCCTGCCTTTCCAATGCCAGCTGTGCCCT--CATGTTGGCACCAG-------CAGACTGAACATCCAT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14926407 133 +  74389097 CTTTCAGTGGTCTGAGCACCATCTGTGTCATGCAT-CTCAGTGATTGAAATACCAGCTGTGCT----TCC-----TCCCACTCTCCACCTTCTAAATACCAGCTGTGCCCTCACATGTT-------GTCTCTACCAGACTGAGCATCCCT
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60564334 1803 + 108143057 I
e proCoq1.NW_012155062v1     3597536 237 +  11683526 I
e dasNov3.JH567306           1021271   0 -   3667625 I
e mm10.chr18                55528598  46 +  90702639 I

a score=401888.000000
s hg38.chr5_KI270796v1_alt    106954 41 +    172708 GT-GGGGGGGTCT---C-TCTTAGACATCACCATCCCCACTGCAGG
s panTro5.chr5             125210696 41 + 181907262 GT-GGGGGGGTCT---C-TCTTAGACATCACCATCCCCACTGCAGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126547376 41 + 183735486 GT-GGGGGGGTCT---C-TCTTAGACATCACCATCCCCACTGCAGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1739084 42 +   8933513 GTGGGGGGGGTCT---C-TCTTAGAGATCACCAACCTCACTGCAGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139874135 39 + 163208435 ---GGGGGGGTAT---C-TCTTAGAGATCCCCATCCCCATTGCAGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122858767 39 + 180051392 ---CGGGAGGTAT---C-TCTTAGAGATCCCCATCCCCGCTGCTGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124282382 39 + 181584905 ---GGGGAGGTAT---C-TCTTAGAGATCCCCATCCCCGCTGCTGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16280740 39 +  18395747 ---GGGGAGGTAT---C-TCTTAGAGATCCCCATCCCCGCTGCTGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5293679 39 +  26952557 ---GGGGAGGTAT---C-TCTTAGAGATCCCCATCCCCGCTGCTGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28393993 39 +  82825804 ---GGGGAGGTAT---C-TCTTAGAGATCCCCATCCCCGCTGCTGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4063692 39 -   4237731 ---GGGGAGGTAT---C-TCTTAGAGATCCCCATCCCCGCTGCTGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      332482 39 -   1175262 ---GGGGAGGTAT---C-TCTTAGAGATCCCCATCCCCATTGCTGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123679281 39 - 204313951 ---GGGGAGGTAT---C-TCTTAGAGATCCCCATCCCCGCTGTGGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55723118 39 -  71252344 ---GGGGAGGTAT---C-TCTTAGAGATCCCCATCCCCGCTGTGGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       25871 39 -   3089952 ---GGGGAGGTAT---C-TCTTAGAGATCCCCATCCCCGCTGTGGG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13227337 39 -  42888418 ---GGGGAGGTAT---C-TCTTAGAGATCCCCATCCCCGCTGTGGG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3082412 36 +   4132165 ---GGTGGGGCATCAGC-TCTCTGAGGTCCTCA------CTACAGG
i otoGar3.GL873679         C 0 I 1
s canFam3.chr11             14926540 40 +  74389097 ---GGCAAGGCTT---CATTTCAGAAGTGCACAGCTGACCTGTGGG
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2646883 40 +   3667625 GT-GAGGCATCAT---C-TCTCAGAGGTC-CTACCGCAACTGTGGG
i dasNov3.JH567306         I 545 I 10
e micMur3.chr12             60564334 1803 + 108143057 I
e proCoq1.NW_012155062v1     3597536 237 +  11683526 I
e mm10.chr18                55528598 46 +  90702639 I

a score=2750511.000000
s hg38.chr5_KI270796v1_alt    106995 230 +    172708 CATTTTCCTCAGAAGT---------AGCCATGAgt-ccactctc--agagtttcaagcaccaatcctataggggcttccccttt--aatcttctgctttctggtaacac-----cttcc-atttcatttccccagcctaaaagttgctgacagcttcctatacattcaatc---tcttgt-cactttt-cttctttgctttttcagaattccaatacccatgtaactaattatccctaatgaacgttctctctca
s panTro5.chr5             125210737 230 + 181907262 CATTTTCCTCAGAAGT---------AGCCATGAgt-ccactctc--agagtttcaagcaccaatcctataggggcttccccttt--aatcttctgctttctggtaacac-----cttcc-attgcatttccccagcctaaaagttgctgacagcttcctatacttttaatc---tcttgt-cactttt-cttctttgctttttcagaattccaatacccatgtaactaattatccctaataaatgttctctatca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126547417 230 + 183735486 CATTTTCCTCAGAAGT---------AGCCATGAgt-ccactctc--agagtttcaagcaccaatcctataggggcttccccttt--aatcttctgctttctggtaacac-----cttcc-attgcatttccccagcctaaaagttgctgacagcttcctatacttttaatc---tcttgt-cactttt-cttctttgctttttcagaattccaatacccatgtaactaattatccctaataaatgttctctatca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1739126 230 +   8933513 CATTTTCCTCGGAAGT---------AGCCATGAgt-ccactctc--agagtttcaagcaccaatcctataggggcttccccttt--aatcttctgctttctggtaacaa-----cttcc-atttcatttccccagcctaaaagttgctgacagcttcctatactttctatc---tcttgt-cactttt-cttctttgttttttcagaattccaatacccatgtaactaattatccctaataaacgttctctatca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139874174 238 + 163208435 CATTTTCCTCAGAAGT---------Agcagtgagt-ccactctc--agagtttcaagcaccaatcctacaggggcttccccttt--aatcttctgctttctgataacattacagcttcc-atttcatttccccagcctaaaagttgctgacagcttcctatactttcaatctgttgttgt-caccttt-cctctttgctttttcagaattccaatacccatgtaactaattatccctaataaacgttctctatga
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122858806 236 + 180051392 CATTTTCCTCAGAAGT---------AGCCATGAGT-CCACTCTC--CGAGTGTCAAGCAccaatcctataggggcttccccttt--aatcttctgctttctgataacattacaacttcc-atttcatttccccagcctaaaagttgctgacagcttcctatacgttcgatc---tcttgt-cacctttccctgtttgctttttcagaattccaatactcatattactaattatccctattaaacatcctctatca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124282421 236 + 181584905 CATTTTCCTCAGAAGT---------AGCCATGAGT-CCACTCTC--CGAGTGTCAAGCAccaatcctataggggcttccccttt--aatcttctgctttctgataacattacaacttcc-atttcatttccccagcctaaaagttgctgacagcttcctatacgttcgatc---tcttgt-cacctttccctgtttgctttttcagaattccaatactcatattactaattatccctattaaacatcctctatca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16280779 236 +  18395747 CATTTTCCTCAGAAGT---------AGCCATGAgt-ccactctc--agagtgtcaagcaccaatcctataggggcttccccttt--aatcttctgctttctgataacattacaacttcc-atttcatttccccagcctaaaagttgctgacagcttcctatacgtttgatc---tcttgt-cacctttccctgtttgctttttcagaattccaatactcatattactaattattcctattaaacatcctctatca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5293718 236 +  26952557 CATTTTCCTCAGAAGT---------AGCCATGAGG-CCACTctc--agagtgtcaagcaccaatcctataggggcttccccttt--aatcttctgctttctgataacattacaacttcc-atttcatttccccagcctaaaagttgctgacagcttcctatacgttcgatc---tcttgt-cacctctccctgtttgctttttcagaattccaatactcatattactaattatccctattaaacatcctctatca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28394032 236 +  82825804 CATTTTCCTCAGAAGT---------AGCCATGAgt-ccactctc--agagtgtcaagcaccaatcctataggggcttccccttt--aatcttctgctttctgataacattacaacttcc-atttcatttccccagcctagaagttgctgacagcttcctatacgttcgatc---tcttgt-cacctctccctgtttgcttttacagaattccaatactcatattactaattatccctattaaacatcctctatca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4063731 236 -   4237731 CATTTTCCTCAGAAGT---------AGCCATGAgt-ccactctc--agagtgtcaagcaccaatcctataggggcttccccttt--aatcttctgctttctgataacattacaacttcc-atttcatttccccagcctaaaagttgctgacagcttcctatacgttcgatc---tcttgt-cacctctccctgtttgctttttcagaattccaatactcatattactaattatccctattaaacatcctctatca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      332521 236 -   1175262 TATTTTCCTCAGAAGT---------AGCCATGAgt-ccactctc--agagtttcaagcaccaatcctataggggcttccccttt--aatcttctgctttctggtaacattacaacttcc-atttcatttccccagcctaaaagttgctgacagcttcctatacgttcgatc---tcttgt-cacctttcccagtttgctttttcagaatttcaatactcatcttactaattattcctattaaacatcctctatca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123679320 238 - 204313951 CA-TTCCCTCAGAAGT---------AGTCTTGAGT-CCAGTCTC--AGAGTTTCAAAGACCAATCCTATAGTGGCTTCTCCTTTTCAATcttctgctttctgataatattaccacttcc-atttcatttcctttgcctaaaagctgctgacatccttctatgcttttgagc--tcgttgt-cacctttccctctttgctttttcagaatttctatactcatgtaactaatcatctctattaagtgtcctctatca
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55723157 241 -  71252344 CATTTCCCTCAGAAGT---------AGCCGTGAGT-CCAGTCTC--AGAGTTTCAAGCACCAATCCTACAGTGTCTTCTCCTTTTCAACcttctgctttctgataatattaccacttcc-atttcagttccccagactaaaagctgctgacgtcttcctatgcttttgagctattgttgt-cacctttccctctttgcttttccagaatttctatacccatgtaactaatcatccctattcagtgccctctatca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       25910 241 -   3089952 CATTTCCCTCAGAAGT---------AGTCGTGAGT-CCAGTCTC--ACAGTTTCAAGCACCAATCCTATAGTGGCTTCTCCTTTTCAATcttctgctttctgataacattaccacttcc-atttcatttccctagcctaaaagctgctgacatcttcctatgcttttgagctcttgttgt-cacctttccttctttgctttttcagaatttccatacccatgtaactaatcatccctattcagtatcctctatca
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13227376 240 -  42888418 CATTTCCCTCAGAAGT---------AGCCATGAGT-CCAGTCTC--AGAGTTTCAAGCACCAATCCTATAGTGGCTTCTCCTTTTCAATcttctgctttctgataacattaccacttcc-atttcatttccctagccgaaaagctgctgacatcttcctatgcttttgaatt-ctgttgt-cacctttccctctttgctttttcagaatttctatacccatataactaatcatccctattcagtgtcctctatca
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3597773 248 +  11683526 cgctttcctcagaggtctgggcagtggccaccagg-ccactctc--agagtttcaagc-acagtcctagagaggcttctctttc--agtctcctactttctgataatattacctcttccaatttaatttcctcagcctgaaagatgctaactgcttcctatgtctttgatctcttgatgt-caactttccctctttgctgtttcagaagttcaacacccatgtaactaattctctctattaaatgtcctctgttt
i proCoq1.NW_012155062v1   I 237 C 0
s otoGar3.GL873679           3082449 247 +   4132165 CACTTTCCTCAGAGGTCTGGGCTGCAGTCACCAGG-CCACGCTC--AGACTTTC-AGC-CCAGTACCCCAGGCTCTTTTCCTTC--AGTCTTCTCCTTTGtgataacatcacctcttcc-atttagtcgcctgagccagaaagatgctaactgcttcctatgcctttcgtcttttgatgtccaacttttcttctttgctccatcagaatttcaacacccatgtaactaattctctctcttaaatgtcctctgttt
i otoGar3.GL873679         I 1 C 0
s canFam3.chr11             14926581 251 +  74389097 CACTTCCCTCAGTGGTCTGAGCAATAGCCATGGATGCCACTCTTTAAGAGTGTCAAGCACCAGTCCCACAAGGGCTTCTTCTTC--AGTCTTCTACTTtctggtatcagcgcttttccc-acttagttcctctagactgaaaagggctgtctgccctctgcaatgctgagctcttcatat-cggctttccctctttgtgctttcagactttcaacacttatgcaacctatgctctctattaaatgccctctgttt
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2646933 231 +   3667625 CAGTGGTCTGAGTGGT---------AGTCATGGTTACTACTCTC--AGAGTTGCAAGCACCTGTCCCACAGGCATCCTTCCTTC--AGCCTCTTACTTtctggtaacaccacctttacc-atttagttcacccaatctgaaag--gctg-cttcttccagttc--ttggtctgtcaatat-cacctttctctctttgctcttccatactgttagcacctata----tagtcctctatattaaatgctcattgttt
i dasNov3.JH567306         I 10 C 0
e micMur3.chr12             60564334 1803 + 108143057 I
e mm10.chr18                55528598  46 +  90702639 I

a score=61528.000000
s hg38.chr5_KI270796v1_alt    107225 4 +    172708 gtaa
s panTro5.chr5             125210967 4 + 181907262 gtaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126547647 4 + 183735486 gtaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1739356 4 +   8933513 gtaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139874412 4 + 163208435 gtaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122859042 4 + 180051392 gtaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124282657 4 + 181584905 gtaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16281015 4 +  18395747 gtaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5293954 4 +  26952557 gtaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28394268 4 +  82825804 gtaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4063967 4 -   4237731 gtaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      332757 4 -   1175262 gtaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123679558 4 - 204313951 gcaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55723398 4 -  71252344 gcaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       26151 4 -   3089952 gcaa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13227616 4 -  42888418 gcta
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60566137 4 + 108143057 gtaa
i micMur3.chr12            I 1803 C 0
s proCoq1.NW_012155062v1     3598021 4 +  11683526 gtaa
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3082696 4 +   4132165 gtaa
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14926832 4 +  74389097 gtaa
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2647164 4 +   3667625 gtat
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55528598 46 +  90702639 I

a score=3079240.000000
s hg38.chr5_KI270796v1_alt    107229 201 +    172708 tacctagtgtggtttttgctttactgccttgtctttgacCTATTTACCTACAGTTCCTATTTCAATGCATATTAGCAGTAAATCTGATATGTTTAAATTGAATCCT----AAATCTAATTATCTAT-TGTAA-TTTTTCCTTGGTTCAGTATTTTGGTTAACATTTTGAATACTCAAACACTTTCATTTCATTATTTTT-AATGTAAT
s panTro5.chr5             125210971 201 + 181907262 tacctagtgtgatttttgctttactgccttgtctttgacCTATTTACCTACAGTTCCTATTTCAATGCATATTAGTAGTAAATCTGATATGTTTAAATTGAATCTT----AAATCTAATTATCTAT-TGTAA-TTTTTCCTTGGTTCAGTATTTTGGGTAACATTTTGAATACTCAAACACTTTTATTTCATTATTTTT-AATGTAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126547651 201 + 183735486 tacctagtgtgatttttgctttactgccttgtctttgacCTATTTACCTACAGTTCCTATTTCAATGCATATTAGTAGTAAATCTGATATGTTTAAATTGAATCTT----AAATCTAATTATCTAT-TGTAA-TTTTTCCTTGGTTCAGTATTTTGGGTAACATTTTGAATACTCAAACACTTTTATTTCATTATTTTT-AATGTAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1739360 201 +   8933513 tacctagtgtggtttttgctttactgccttgtctttgacCTATTTACCTACAGTTCTTATTTCAATGCATATTAGTAGTAAATCTGATATGTTTAAATTGAATCTT----AAATCTAATTATCTAT-TGTAA-TTTTTCCTTGGTTCAGTATTTTGGGTAACATTTTGAATACTCAAACACTTTTATTTCATTATTTTT-AATGTAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139874416 201 + 163208435 tacctagtgtggtttttgcttttctgtcttgtctttgacCTATTTACCTACAATTCCTATTTCAATGCATATTAGTAGTAAATCTGGTATGTTTAAATTGAATCCT----AAATCTAATTATCTAT-TGTAA-TTTTTCCTTGGTTCAGTATTTTGGGTAACATTTTGAATACTCAAACACTTTTATTTCATTATTTTA-AATGTAAT
i nomLeu3.chr2             C 0 I 3
s rheMac8.chr6             122859046 201 + 180051392 tacctagtgtggtttttgcttttctgccttgtctttgacCTATTTAACTACAGTTCCTATTTCAATGCGTATTAGTAGTAAATCTGATATGTTTAAATTGAATCCT----AAATCTAATTATCTAT-TGTAA-TTTTTCCTTGGTTCAGTATTTTGGGTAACATTTTGAATACTCAAACACTTTTATTTCATTTTTTTT-AATGTAAA
i rheMac8.chr6             C 0 I 3
s macFas5.chr6             124282661 201 + 181584905 tacctagtgtggtttttgcttttctgccttgtctttgacCTATTTAACTACAGTTCCTATTTCAATGCGTATTAGTAGTAAATCTGATATGTTTAAATTGAATCCT----AAATCTAATTATCTAT-TGTAA-TTTTTCCTTGGTTCAGTATTTTGGGTAACATTTTGAATACTCAAACACTTTTATTTCATTTTTTTT-AATGTAAA
i macFas5.chr6             C 0 I 3
s macNem1.NW_012012355v1    16281019 201 +  18395747 tacctagtgtggtttttgcttttctgccttgtctttgacCTATTTAACTACAGTTCCTATTTCAATGCGTACTAGTAGTAAATCTGATATGTTTAAATTGAATCCT----AAATCTAATTATCTAT-TGTAA-TTTTTCCTTGGTTCAGTATTTTGGGTAACATTTTGAATACTCAAACACTTTTATTTCATTTTTTTT-AATGTAAA
i macNem1.NW_012012355v1   C 0 I 3
s cerAty1.NW_012002512v1     5293958 201 +  26952557 tacctagtgtggtttttgcttttctgccttgtctttgacCTATTTAACTACAGTTCCTATTTCAATGCGTATTAGTAGTAAATCTGATATGTTTAAATTGAATCCT----AAATCTAATTATCTAT-TGTAA-TTTTTCCTTGGTTCAGTATTTTGGGTAACATTTTGAATACTCAAACACTTTTATTTCATTTTTTTT-AATGTAAA
i cerAty1.NW_012002512v1   C 0 I 3
s chlSab2.chr23             28394272 200 +  82825804 tacttagtgtggtttttgcttttctgccttgtctttgacCTATTTAGCTATAGTTCCTATTTCAATGCATATTAGTAGTAAATCTGATATGTTTAAATTGAATCCT----AAATCTAATTATCTAT-TGTAA-TTTTTCCTTGGTTCAGTATTTTGGGTAACATTTTGAATACTCAAACACTTTTATTTCATTTTTTTT--ATGTAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4063971 201 -   4237731 tacctagtgtggtttttgcttttctgccttgtctttgacCTATTTTACTACAGTTCCTATTTCAATGCGTATTAGTAGTAAATCTGATATGTTTAAATTGAATCCT----AAATCTAATTATCTAT-TGTAA-TTTTTCCTTGGTTCAGTATTTTGGGTAACATTTTGAATACTCAAACACTTTTATTTCATTTTTTTT-AATGTAAA
i manLeu1.NW_012103321v1   C 0 I 3
s colAng1.NW_012119644v1      332761 202 -   1175262 tacctagtgtggtttttgcttttctgccttgcctttgacCTATTTAGCTACAGTTCCTATTTCAATGCATATTAGTAGTAAATCTGATATGTTTAAATTGAATCCT----AAATCTAATTATCTAT-TGCAA-TTTTTCCTTGGTTCAGTATTTTGGGTAACATTTTGAATACTCAAACACTTTTATTTCATTTTTTTTTAATGTAAA
i colAng1.NW_012119644v1   C 0 I 3
s calJac3.chr2             123679562 200 - 204313951 tacctagtgtggtttttgcttttctgccttgtctttgacCTAGTTATCTACAGTTCTTATTTCAATGCATATTAGTGGTAAATCTGATATGTTTAAATTGAATTCT----AAATCTAATTGTCTAT-TGTAA-TTTTTTCTTGGTTCAGTATTTTAGGTAACA-TTTGAATACTCAAATACTTCTATTTCATTATTTTT-AATGCAAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55723402 199 -  71252344 tacctagtgtagtttttgcttttccgccttgtctttgacCTATTTACCTACAGTTCTTATTTCAATGCATATTAGTAGTAAATCTGATAGGTTTAAATCGAATCCT----AAATCTAATTATC-AT-TGTAA-TTTTTTCTTGGTTCAGTA-TTTGGGTAACATTTTGAATACTCAAATACTTCTATTTCATTATTTTT-AATGTAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       26155 199 -   3089952 tacctagtgtggtttttgcttttctgccttgtctttgacCTATTTACCTACAGTTCTTATTTCAATGCATATTAGTAGTAAATCTGAT--GTTTAAATTCAATCTT----AAATCTAATTATCTAT-TGTAA-TTTTTTCTTAGTTCAGTATTTTGGGTAACATTTTGAATACTCAAATACTTCTATTTCATTATTTTT-AATGGAAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13227620 201 -  42888418 tacctagtgtggtttttgcttttctgccttgtctttgacCTATTTACCTACAGTTCTTATTTCAGTGCATATTAGTAGTAAATCTGATATGTTTAAATTGAATCCT----AAATCTAATTATCTAT-TGTAA-TTTTTTCTTGGTTCAGTATTTTGGGTAACATTTTGAATATTCAAATACTTCTATTTCGTTATTTTT-AATGTAAC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60566141 198 + 108143057 tacctcgtgtggtttctgc-tctctgcctagtctctgaTCTATTTACCTGCAGTGCCTATTTCAATAAATA--AGTAGCAAATCCGATATGTTTAAATTGAATTAT----AAATCTACTTTTCTTC-TGTAA-TTTTCCCTTGCTTCAGTATTTTCAGTAATACTTTGAACAAGCGAACACTTCCACTCCATTATTTTT-AATGTAAT
i micMur3.chr12            C 0 I 78
s proCoq1.NW_012155062v1     3598025 202 +  11683526 tacctagtgtggtttctgcttttctgcctactctctgCCCTATTTACCTACAGTGCCTATTTCAATAAATACTAGTAATAAGTCTGATATGTTTAAATTGAATTAT----AAATCTAATTTTCATC-TGTAATTTTTTCCTTGGTTCAGTATTTTGGGTAATACTTTGAACAAGCAAACACTTCTACTCCATTATTTTT-AATGTAAT
i proCoq1.NW_012155062v1   C 0 I 127
s otoGar3.GL873679           3082700 197 +   4132165 cacctagtgtggtttctgcttttctccctggtctttgacCTATTGCCCTACAGTGCCCTTTTCAATAAATGCTAGTAGTAAATCTGATATGTTTAAATTGAATTGC----AAATTTCATTTTCTTC-TGCAA-TTTTTCC----TTTAGTATTTTGAGTTATACTTTGAACAAGCAAATACTTCTACTTCATTAATTTT-AATGTAAT
i otoGar3.GL873679         C 0 I 3
s mm10.chr18                55528644 183 +  90702639 TACCAAAGATGGTTTCCACCCTTC-----------TGACCTGTAAATATGCAAGTGATAATT---TACAAAATATCAAGAAAATTAATGTGTTAAATTC--ACTAT----AAATTAAAAAAAGTTT-TTGGA-CTTTTCATTAGTTTAAAATTTT-GCTAGTATCATGAACAACCACTTAATTCTAATTCATTTTCTTT-AATGTAA-
i mm10.chr18               I 46 C 0
s canFam3.chr11             14926836 205 +  74389097 tacctattgtggtgtctgcctctctgcttggtctctgactCACATAAGTACAGTGCCTGTTTCAATAAATGTTAGGAATAAATCTGATACATTTACATTGAATTATTTACAAATTTAGTTTTCTTT-TGCAC-TTATCCCTTGATTCTGTATTTTGGGTAATATTTTGGAAAATGGAACACTTCTAGTTTATTGTTTTA-AATGTAAT
i canFam3.chr11            C 0 I 4
s dasNov3.JH567306           2647168 202 +   3667625 tacctggggtggtttcttctttttgacttgaattgtgacctatataCCTTGTGTACTTACTTTAATATATATTAGTACTAAATCTGATTCTTTTAAATTAAATTAT----AAATCTAACTTTTTGTGTGTGC-TTTTCCCTTGGTTTCATATTTTGGTTAATATTTTGAATGATAGAAAGTTTCTAGTTTATTATTTTT-AATCTAAT
i dasNov3.JH567306         C 0 I 3

a score=713018.000000
s hg38.chr5_KI270796v1_alt    107430 83 +    172708 AATTCAAATAATTACAAAAGCC-TTT-TTTT-TCTTCCCTCCCTAAATTTTAATGATTCTGGATAG-AC-TTTTTTTTTTTTTT--------------GCAG
s panTro5.chr5             125211172 85 + 181907262 AATTCAAATAATTACAAAAGCC-TTT-TTTT--CTTCCCTCCCTAAATTTTAATGATTCTGGATAG-AC-tttttttttttttt-----------tttGCAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126547852 95 + 183735486 AATTCAAATAATTACAAAAGCC-TTT-TTTT----TCCCTCCCTAAATTTTAATGATTCTGGATAGTAC-ttttttttttttttttttttttttttttGCAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1739561 90 +   8933513 AATTCAAATAATTACAAAAGCC-TTT-TTTT-TCTTCCCTCGCTAAATTTTAATGATTCTGGATAG-AC-tttttttttttttt-------tttttttGCAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139874620 82 + 163208435 AATTCAAATAATTACAAAAACC-GTT-TTTT--CTTCCCTCTCTAAATTTTAATGATTCTGGATAG-AC-TTTTTTTTTTTTTT--------------GCAC
i nomLeu3.chr2             I 3 C 0
s rheMac8.chr6             122859250 82 + 180051392 AATTCAAATAATTACAAAAACC-TTT-TTTT--CTTCCCTCCCTAAATTTTAATGATTCCAGATAG-CC-TTTTATTTTCTTCT--------------GCAC
i rheMac8.chr6             I 3 C 0
s macFas5.chr6             124282865 82 + 181584905 AATTCAAATAATTACAAAAACC-TTT-TTTT--CTTCCCTCCCTAAATTTTAATGATTCCAGATAG-CC-TTTTATTTTCTTCT--------------GCAC
i macFas5.chr6             I 3 C 0
s macNem1.NW_012012355v1    16281223 82 +  18395747 AATTCAAATAATTACAAAAACC-TTT-TTTT--CTTCCCTCCCTAAATTTTAATGATTCCAGATAG-CC-TTTTATTTTCTTCT--------------GCAC
i macNem1.NW_012012355v1   I 3 C 0
s cerAty1.NW_012002512v1     5294162 82 +  26952557 AATTCAAATAATTACAAAAACC-TTT-TTTT--CTTCCCTCCCTAAATTTTAATGATTCCAGATAG-CC-TTTTATTTTCTTCT--------------GCAC
i cerAty1.NW_012002512v1   I 3 C 0
s chlSab2.chr23             28394472 83 +  82825804 AATTCAAATAATTACAAAAACC-TTT-TTTT--CTTCCCTCCCTAAATTTTGATGATTCCAGATAG-CCTTTTTTTTTTCTTCT--------------GCAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4064175 83 -   4237731 AATTCAAATAATTACAAAAACCTTTT-TTTT--CTTCCCTCCCTAAATTTTAATGATTCCAGATAG-CC-TTTTATTTTCTTCT--------------GCAC
i manLeu1.NW_012103321v1   I 3 C 0
s colAng1.NW_012119644v1      332966 82 -   1175262 AATTCAAATAATTACAAAAACC-TTT-TTTT--CTTCCCTCCCTAAATTTTAATGATTCCAGATAG-CC-TTTTTTTTTCTTCT--------------GCAC
i colAng1.NW_012119644v1   I 3 C 0
s calJac3.chr2             123679762 72 - 204313951 AATTCTAATAATTATGAAAACC-TTT-TTTT-------CTCCCTAAATTTTAATGGTTCCAGATAG-C--TTTTTTTTTA------------------GCAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55723601 70 -  71252344 AATTCTAATAATTACAAAAAC---TT-TTTT-------CTCCCTAAATTTTAATGATTCCAGATAA-C--TTTTTTTTTA------------------GCAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       26354 74 -   3089952 AATTCTAATAATTACAAAAACC-TTTACTTT-------CTCCCTAAATTTTAATGATTCCAGATAG-CT-TTTTTTTTTA------------------GCAC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13227821 73 -  42888418 AATTCTAATAATTACAAAAACC-TTT-TTTT-------CTCCCTAAATTTTAATGATTCCAGATAG-CT-TTTTTTTTTA------------------GCAC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3082900 77 +   4132165 AATTCTAAAGATTACAGAAACC-CTT-CTTT-CTTTTTCCCTCTAAATTCTAGGGATTTCAGATAG-CA-TAATTTTA--------------------GCAC
i otoGar3.GL873679         I 3 C 0
s mm10.chr18                55528827 59 +  90702639 ----AAGACAGATGCAGAAATC-CCC-TTTT---------CTCTAAATTTTAGTTATTTGAGAAAG-CA-CTGTAT--------------------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14927045 74 +  74389097 AATTTAAGTCAT---AGAAACC-CTT-TCTTTTCTTTTCTCCCTAAATT-TAGTGATTCCAGATAG-CA-TTATTGTA--------------------GCAT
i canFam3.chr11            I 4 C 0
s dasNov3.JH567306           2647373 67 +   3667625 ATTTAAAAAAATCATATATACC-CCT-TTTC--------CTCCTAAATTTTAGTGGTCCCAGATAG-CA-TTATTTTAC-----------------------
i dasNov3.JH567306         I 3 C 0
e micMur3.chr12             60566339 78 + 108143057 I
e proCoq1.NW_012155062v1     3598227 127 +  11683526 I

a score=566074.000000
s hg38.chr5_KI270796v1_alt    107513 35 +    172708 TATAACCAGGCC-------AAAAGTTAAAATGGAAAATATTT
s panTro5.chr5             125211257 35 + 181907262 TATAACCAGGCC-------AAAAGTTAAAATGGAAAATATTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126547947 35 + 183735486 TATAACCAGGCC-------AAAAGTTAAAATGGAAAATATTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1739651 35 +   8933513 TATAACCAGGCC-------AAAAGTTAAAATGGAAAATATTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139874702 35 + 163208435 TATAACCAGGCC-------AAAAGTTAAAATGGAAAATATTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122859332 35 + 180051392 TATAACCAGGCC-------AAAAGTTAAAATGGAAAATATTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124282947 35 + 181584905 TATAACCAGGCC-------AAAAGTTAAAATGGAAAATATTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16281305 35 +  18395747 TATAACCAGGCC-------AAAAGTTAAAATGGAAAATATTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5294244 35 +  26952557 TATAACCAGGCC-------AAAATTTAAAATGGAAAATATTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28394555 35 +  82825804 TATAACCAGGCC-------AAAAGTTAAAATGGAAAATATTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4064258 35 -   4237731 TATAACCAGGCC-------AAAATTTAAAATGGAAAATATTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      333048 35 -   1175262 TATAACCAGGCT-------AAAAATTAAAATGGAAAATATTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123679834 35 - 204313951 TATAAACAGGCC-------AAAAGTTAAAATGGAAAATATTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55723671 35 -  71252344 TATAAACAGGCC-------AAAAGTTAAAATGGAAAATATTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       26428 35 -   3089952 TATAAACAGGCC-------AAAAGTTAAAATGGAAAATATTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13227894 35 -  42888418 TATAAACAGGCC-------AAAAGTTAAAATGGAAAATATTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60566417 35 + 108143057 TATAATCAGGCC-------AAAAGTTAAAATGAAAAATATTT
i micMur3.chr12            I 78 I 13
s otoGar3.GL873679           3082977 42 +   4132165 CATAATCAGGCCAAAAGTTAAAAGTTAAAATGGAAAATATTT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55528886 33 +  90702639 TGAAATCAGGCC-------AAAAGTTAAAATGGATAATGT--
i mm10.chr18               C 0 C 0
s canFam3.chr11             14927119 35 +  74389097 TATTATCAGGCT-------AAAAATTAAAATGAAAATTTTTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2647440 35 +   3667625 TCTAATTAGGAC-------AAAATTTAAAACTGaaaatattt
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3598227 127 +  11683526 I

a score=329100.000000
s hg38.chr5_KI270796v1_alt    107548 31 +    172708 GTTATTCAAAAGTA-TTTTTTATGAATGTC-----------------------------------AA
s panTro5.chr5             125211292 31 + 181907262 GTTATTCAAAAGTA-TTTTTTATGAATGTC-----------------------------------AA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126547982 32 + 183735486 GTTATTCAAAAGTATTTTTTTATGAATGTC-----------------------------------AA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1739686 66 +   8933513 GTTATTCAAAAGTA-TTTTTTATGAATGTCATATTTTTTATTCATTAAAAAAAGTATATTTTATGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139874737 31 + 163208435 GTTATTCAAAAGTA-TTTTTTATGAATGTC-----------------------------------AA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122859367 31 + 180051392 GTTATTCAAAAGTA-TTTTTTATGAATGTC-----------------------------------TT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124282982 31 + 181584905 GTTATTCAAAAGTA-TTTTTTATGAATGTC-----------------------------------TT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16281340 31 +  18395747 GTTATTCAAAAGTA-TTTTTTATGAATGTC-----------------------------------TT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5294279 31 +  26952557 GTTATTCAAAAGTA-TTTTTTATGAATGTC-----------------------------------TT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28394590 31 +  82825804 GTTATTCAAAAGTA-TTTTTTATGAATGTC-----------------------------------TT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4064293 31 -   4237731 GTTATTCAAAAGTA-TTTTTTATGAATGTC-----------------------------------TT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      333083 31 -   1175262 GTTATTCAAAAGTA-TTTTTTATGAATGTC-----------------------------------TT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123679869 31 - 204313951 GTTATTCAAAAGTA-TTTTCTATAAATATC-----------------------------------AA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55723706 31 -  71252344 GTTATTCAAAAGTA-TTTTCTATAAATATC-----------------------------------AA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       26463 31 -   3089952 GTTATTCAAAAGTA-TTTTCTATAAATATC-----------------------------------AA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13227929 31 -  42888418 GTTATTCAAAAGTA-TTTTCTATAAATATC-----------------------------------AA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3083019 16 +   4132165 ----------------TTTTTCTAAATATC-----------------------------------AA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55528919 31 +  90702639 GTTATTCAAAATAA-GTTTTTTTAACTAGA-----------------------------------TA
i mm10.chr18               C 0 I 3
s canFam3.chr11             14927154 30 +  74389097 GTTATTCAAAAATG-TTTTCC-TAAATATG-----------------------------------AA
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2647475 29 +   3667625 gttattcaaaaata-tttttta--aatatC-----------------------------------AT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60566452 13 + 108143057 I
e proCoq1.NW_012155062v1     3598227 127 +  11683526 I

a score=10285.000000
s hg38.chr5_KI270796v1_alt    107579 1 +    172708 A
s panTro5.chr5             125211323 1 + 181907262 A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126548014 1 + 183735486 A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1739752 1 +   8933513 T
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139874768 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122859398 1 + 180051392 A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124283013 1 + 181584905 A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16281371 1 +  18395747 A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5294310 1 +  26952557 A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28394621 1 +  82825804 A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4064324 1 -   4237731 A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      333114 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123679900 1 - 204313951 A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55723737 1 -  71252344 A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       26494 1 -   3089952 A
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13227960 1 -  42888418 A
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3598354 1 +  11683526 A
i proCoq1.NW_012155062v1   I 127 C 0
s mm10.chr18                55528953 1 +  90702639 A
i mm10.chr18               I 3 C 0
e micMur3.chr12             60566452 13 + 108143057 I
e canFam3.chr11             14927184 1 +  74389097 I
e otoGar3.GL873679           3083035 0 +   4132165 C
e dasNov3.JH567306           2647504 0 +   3667625 C

a score=1830073.000000
s hg38.chr5_KI270796v1_alt    107580 137 +    172708 GTTAATTTTGTA------------TCTCATCTTAGAATAAGACAACATAAA-AAAT-GTTTATTCCTTTT-TTAGATAATGGTTC-AAAAAAATCTTTTTG-G-TAGTACCTACAAACCAGACCAATTAAACTTTGGCTTATGTATATTTATGAG
s panTro5.chr5             125211324 136 + 181907262 GTTAATTTTGTA------------TCTCATCTTAGAATAAGACAACA-AAA-AAAT-GCTTATTCCTTTT-TTAAATAATGGTTC-AAAAAAATCTTTTTG-G-TAGTACCTACAAACCAGACCAATTAAACTTTGGCTTATGTATATTTATGAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126548015 136 + 183735486 GTTAATTTTGTA------------TCTCATCTTAGAATAAGACAACA-AAA-AAAT-GCTTATTCCTTTT-TTAAATAATGGTTC-AAAAAAATCTTTTTG-G-TAGTACCTACAAACCAGACCAATTAAACTTTGGCTTATGTATATTTATGAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1739753 138 +   8933513 GTTAATTTTGTA------------TCTCATCTTAGAATAAGACAACATAAA-AAAT-GCTTATTCCTTTT-TTAGATAATGGTTCAAAAAAAATCTTTTTG-G-TAGTACCTACAAACCAGACCAATTAAACTTTGGCTTATGTATATTTATGAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139874769 137 + 163208435 GTTAATTTTGTA------------TCTCATCTTAGAATAAGACAACATAAA-AAAT-GCTTATTCCTTTT-TTAGATAATGGTTC-AAAAAAATCTTTTTG-G-TAGTACCTACCAACCAGACCAATTAAACTTTGGCTTATGTATATTTATGAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122859399 149 + 180051392 GTTAAATTTTTATGAACGTCCAAGTTAAATCTTAGAATAAGACAACATAAA-AAAT-GCTTGTTCCTTTT-TAAGATAATGGTTC-AAAAAAATCCTTTTG-G-TAGTACCTACCAGCCAGACCAATTAAACTTTGGCTTATGTATATTTATGAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124283014 149 + 181584905 GTTAAATTTTTATGAACGTCTAAGTTAAATCTTAGAATAAGACAACATAAA-AAAT-GCTTGTTCCTTTT-TAAGATAATGGTTC-AAAAAAATCCTTTTG-G-TAGTACCTACCAGCCAGACCAATTAAACTTTGGCTTATGTATATTTATGAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16281372 149 +  18395747 GTTAAATTTTTATGAACGTCTAAGTTAAATCTTAGAATAAGACAACATAAA-AAAT-GCTTGTTCCTTTT-TAAGATAATGGTTC-AAAAAAATCCTTTTG-G-TAGTACCTACCAGCCAGACCAATTAAACTTTGGCTTATGTATATTTATGAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5294311 149 +  26952557 GTTAAATTTTTATGAATGTCTAAGTTAAATCTTAGAATAAGACAACATAAA-AAAT-GCTTGTTCCTTTT-TTAGATAATGGTTC-AAAAAAATCTTTTTG-G-TAGTCCCTGCCAGCCAGACCAATTAAATTTTGGCTTATGTATATTTATGAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28394622 149 +  82825804 GTTAAATTTTTATGAATGTCTAAGTTAAATCTTAGAATAAGACAACATAAA-AAAT-GCTTATTCCTTTT-TTAGATAATGGTTC-AAAAAAATCTTTTTG-G-TAGTACCTACCAGCCAGACCAATTAAACTTTGGCTTATGTATATTTATGAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4064325 147 -   4237731 GTTAAATTTTTATGAATGTCTAAGTTAAATCTTAGAATAAGACAACATAAA-AAAT-GCTTGTTCCTTTT-TTAGATAATGGTTC-AAAAAAATCTTTTTG-G-TA--ACCTACCAGCCAGACCAATTAAACTTTGGCTTATGTATATTTATGAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      333115 137 -   1175262 GTTAAATTTGTA------------TCTCATCTTAGAATAAGACAACATAAA-AAAT-GCTTATTCCTTTT-TTAGATAATGGTTC-AAAAAAATCTTTTTG-G-TAGTACCTACCAGCCAGACCAATTAAACTTTGGCTTATGTATATTTATGAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123679901 137 - 204313951 GTTGATTTTGTA------------TCTCATCTTAGAATAAGACAATGTAAAGAAGT-GCTTATTCCCTGT-TTAGATAATGGTT--TAAAAGTTCCTTGTG-G-TAGTACTTACCAGCCAGACCACTTAAACTTTGGCTTATGTACATTTATGAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55723738 138 -  71252344 GTCGATTTTGTA------------TCTCATCCTCAAATAAGACAATGTAAAGAAGT-GCTTATTCCCTGT-TTAGATAATGGTTC-TAAAAGATCCTTGTG-G-TAGTACCTACCAGCCAGACCAATTAAACTTTGGCTTATGTATATTTATGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       26495 138 -   3089952 GTTGATTTTGTA------------TCTCATCTTAGAATAAGACAATGTAAAGAAGA-GCTTATTCCCTGT-TTAGTTAATGGTTT-AAAAAGATCCTTGTG-G-TAGTACCTACCAGCCAGACCAATTAAACTTTGACTTATGTATATTTATGAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13227961 138 -  42888418 GTTGATTTTGTA------------TCTCGTCTTAGAATAAGACAATGTAAAGAAGT-GCTTATTCCCTGT-TTAGATAATGGTTT-AAAAAGATCCTTTTG-G-TAGTACCTACCAGCCAGACCAATTAAACTTTGGCTTATGTATATTTATAAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60566465 138 + 108143057 GTTAATTTTATA------------CCTCATTTTGGGGTAAGATAATTTAAA-AAGT-GCTTATTCATTTC-TTAGATCATGGTTT-AAAAAGATCTTTTTGCT-TAGCATCTACCAGCCAGACCAATTAAACTTTGGATTATACATATTTATAAG
i micMur3.chr12            I 13 C 0
s proCoq1.NW_012155062v1     3598355 138 +  11683526 GTTAATTTTATA------------CCTCATTTTGGGGTAAGATAATTTAAA-AAGT-GGTTATTCATTTC-TTAGGTCATGGTTT-AAAAAGATCTTTTTGCT-TAGTACCTACCAGCCAGACCAATTAAACTTTAGATTATACATATTTATGAG
i proCoq1.NW_012155062v1   C 0 I 790
s otoGar3.GL873679           3083035 138 +   4132165 GTTAGTTTTATA------------TGTCATTTTTGGGTAAGATAATTTATA-AAGT-GTTTATTCATTTT-GAAGATCCTGGTTG-AAAAAGATCTTTTTGCT-TAGTACCTACCAGCCAGACCAATTAAACTTTGGCTTACACATATTTATGAG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55528954 111 +  90702639 TTTAAGTGTGTG------------CCTTA-CTTGGAGCCCAAGATCTTAAA-AATA-GCCT-TTTCTTTC-TTAAATGATGTCAT-TAAAAGCTCTGTTTA-T-TA---TCAACAAGCCAGA-CAATTCAAC------------------ATG--
i mm10.chr18               C 0 C 0
s canFam3.chr11             14927185 133 +  74389097 -----TTTTGTA------------TCTGTTCTTAGGGCAAGACAACTTAGA-AAGT-ACCTATTCCTTCC-TTAAATCATGGTTT-TAAAAGATCTCTTTG-GTTATCACCTACCAAGTAGACCAATTACACTTTTACTTATACATATGTATGAG
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2647504 132 +   3667625 GTTAATTTTGTC------------TCT-------GGGTCAGATGAGTTAGG-AAATAGATCATTCCTTCCGTTAGATAA-GGTTA-ATAAAACTCACTTTA-GTTAATAGCTACCAGCTAGACCAATTAAACCTTGACTTAAACATATCTATGAG
i dasNov3.JH567306         C 0 C 0

a score=50176.000000
s hg38.chr5_KI270796v1_alt    107717 4 +    172708 GCAG
s panTro5.chr5             125211460 4 + 181907262 GCAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126548151 4 + 183735486 GCAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1739891 4 +   8933513 GCAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139874906 4 + 163208435 GCAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122859548 4 + 180051392 GCAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124283163 4 + 181584905 GCAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16281521 4 +  18395747 GCAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5294460 4 +  26952557 GCAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28394771 4 +  82825804 GCAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4064472 4 -   4237731 GCAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      333252 4 -   1175262 GCAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123680038 4 - 204313951 GCAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55723876 4 -  71252344 GCAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       26633 4 -   3089952 GCAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13228099 4 -  42888418 GCAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60566603 4 + 108143057 GCTA
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3083173 4 +   4132165 GCAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55529065 4 +  90702639 ACAG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14927318 4 +  74389097 GAAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2647636 4 +   3667625 GCAG
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3598493 790 +  11683526 I

a score=120983.000000
s hg38.chr5_KI270796v1_alt    107721 8 +    172708 GCACTTTA
s panTro5.chr5             125211464 8 + 181907262 GCACTTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126548155 7 + 183735486 GCACTTT-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1739895 8 +   8933513 GCACTTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139874910 8 + 163208435 GCACTTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122859552 8 + 180051392 GCACTTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124283167 8 + 181584905 GCACTTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16281525 8 +  18395747 GCACTTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5294464 8 +  26952557 GCACTTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28394775 8 +  82825804 GCACTTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4064476 8 -   4237731 GCACTTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      333256 8 -   1175262 GCACTTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123680042 8 - 204313951 TCACTTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55723880 8 -  71252344 CCACTTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       26637 8 -   3089952 CCACTTTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13228103 8 -  42888418 CCACTTTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60566607 8 + 108143057 GCACTTTA
i micMur3.chr12            C 0 I 74
s proCoq1.NW_012155062v1     3599283 8 +  11683526 gcattttA
i proCoq1.NW_012155062v1   I 790 C 0
s otoGar3.GL873679           3083177 8 +   4132165 GCATTTTG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55529069 8 +  90702639 GCAGTATT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14927322 8 +  74389097 GTGCTTTA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2647640 8 +   3667625 GCACTTTA
i dasNov3.JH567306         C 0 C 0

a score=8714778.000000
s hg38.chr5_KI270796v1_alt    107729 598 +    172708 AAAAAAAGAAAATAAGATACCTGTATGACTTAATGGGATTTAAATACCATTAAGGAAAACTGCTTTTAAGTTTAAAAAAGAACAGATGAGAAAATTCACATGGTA-TTTTGGATATAATTCCAGCACAAAGCAGAAATGT--AAAAACAGAAAACAGGCCAAAAATTGGACTGAA----ATGTT-A--AAAAACAATTATGTGTACTGCACAAATTCCAGTAGTTTTACAAAAGTAAATAGTGTGGTATTAAAGGGTGCatactatcatataatacatatttgtatgttttatctatatcttaa---aaagatatatatttgcatatata-----------cata-------------------------GCCAATCACCCACTCGACAGATGTGTTAGCAGGTTTTGATGACTTGTGCAAAACA-TTAAGAAGTAATTAGGAAAGCATCCAAAGCTAGTCAGCACATTAATAGGTACAGAAAGTTCATATTGGATTTCCTTA-TATTTGCTAGGTACTCTCATTTTCTGAGAATGGGTCAATTCTTTC-AACAGTTACAAATCAGCTTAATGTGTAAAATAATCACACAGTGTCACGGATTCATGC-AAAAAA----GCCCTTCCTTCACTCTTTTGCTTCTTATTTGTAGACT
s panTro5.chr5             125211472 598 + 181907262 AAAAAAAGAAAATAAGATACCTGTATGACTTAATGGGATTTAAATACCATTAAGGAAAACTACTTTTAAGTTTAAAAAAGAACAGATGGGAAAATTCACATGGTA-TTTTGGACATAATTCCAGCACAAAGCAGAAATGT--AAAAACAGAAAACAGGCCAAAAATTGGACTGAA----ATGTT-A--AAAAACAATTATGTGTACTGCACAAATTCCAGTAGTTTTACAAAAGTAAATAGTGTGGTATTAAAGGGTGCatactatcatataatacatatttgtatgttttatctatatcttaa---aaagatatatatttgcatatata-----------cata-------------------------GCCAATCACCCACTCGACAGATGTGTTAGCAGGTTTTGATGACTTGTGCAAAACA-TTAAGAAGTAATTAGGAAAGCATCCAAAGCTAGTCAGCACATTATTAGGTACAGAAAGTTCATATTGGATTTCCTTA-TATTTGCTAGGTACTCTCATTTTCTGAGAATGGGTCAATTCTTTC-AACAGTTACAAATCAGCTTAATGTGTAAAATAATCACACAGTGTCACAGATTCATGC-AAAAAA----GCCCTTCCTTCACTCTTTTGCTTCTTATTTGTAGACT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126548162 598 + 183735486 AAAAAAAGAAAATAAGATACCTGTATGACTTAATGGGATTTAAATACCATTAAGGAAAACTACTTTTAAGTTTAAAAAAGAACAGATGGGAAAATTCACATGGTA-TTTTGGACATAATTCCAGCACAAAGCAGAAATGT--AAAAACAGAAAACAGGCCAAAAATTGGACTGAA----ATGTT-A--AAAAACAATTATGTGTACTGCACAAATTCCAGTAGTTTTACAAAAGTAAATAGTGTGGTATTAAAGGGTGCatactatcatataatacatatttgtatgttttatctatatcttaa---aaagatatatatttgcatatata-----------cata-------------------------GCCAATCACCCACTCGACAGATGTGTTAGCAGGTTTTGATGACTTGTGCAAAACA-TTAAGAAGTAATTAGGAAAGCATCCAAAGCTAGTCAGCACATTATTAGGTACAGAAAGTTCATATTGGATTTCCTTA-TATTTGCTAGGTACTCTCATTTTCTGAGAATGGGTCAATTCTTTC-AACAGTTACAAATCAGCTTAATGTGTAAAATAATCACACAGTGTCACAGATTCATGC-AAAAAA----GCCCTTCCTTCACTCTTTTGCTTCTTATTTGTAGACT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1739903 598 +   8933513 AAAAAAAGAAAATAAGATACCTGTATGACTTAATGGGATTTAAATACCATTAAGGAAAACTGCTTTTAAGTTTAAAAAAGAACAGATGGGAAAATTCACATGGTA-TTTTGGACATAATTCCAGCACAAAGCAGAAATGT--AAAAACAGAAAACAGGCCAAAAATTGGACTGAA----ATGTT-A--AAAAACAATTATGTGTACTGCACAAATTCCAGTAGTTTTACAAAAGTAAATAGTGTGGTATTAAAGGGTGCatactatcatataatacatatttgtatgttttatctatatcttaa---aaagatatatatttgcatatata-----------cata-------------------------GCCAATCACCCACTCGACAGATGTGTTAGCAGGTTTTGATGACTTGTGCAAAACA-TTAAGAAGTAATTAGGAAAGCATCCAAAGCTAGTCAGCACATTAATAGGTACAGAAAGTTCATATTGGATTTCCTTA-TATTTGCTAGGTACCCTCATTTTCTGAGAATGGGTCAATTCTTTC-AACAGTTACAAATCAGCTTAATGTGTAAAATAATCACACAGTGTCACGGATTCATGC-AAAAAA----GCCCTTCCTTCACTCTTTTGCTTCTTATTTGTAGACT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139874918 597 + 163208435 AAAATAAGAAAATAAGATACCTGTATGACTTAATGGGGTTTAAATACCATTAAGGAAAACTGCTTTTAAGTTTAAAAAAGAACAGATGGGAAAATTCACATGGTA-TTTTGGACATAATTCCAGCACAAAGCAGAAATGT--AAAAACAGAAAACAGGCCAAAAATTGGACTGAA----ATGTT----AAAAACAATTATGTGTACTGCACAAATTCCAGTAGTTTTACAAAAGTAAATAGTGTGGTATTAAATGGTGCatactatcatataatacatacttgtatgttttatctatatcttaa---aaagatatatatttgcatataca-----------cata-------------------------GCCAACCACCCACTCGACAGATGTGTTAGCAGGTTTTGATGACTTGTGCAAAACA-TTAAGAACTAATTAGGAAAGCGTCCAAAGCTAGTCAGCACGTTAACAGGTACAGAAAGTTCATATTGGATTTCCTTA-TATTTGCTAGGTACTCTCATTTTCTGAGAATGGGTCAATTCTTTC-AACAGTTACAAATCAGCTTAATATGTAAAATAATCACACAGTGTCACGGATTCATGC-AAAAAA----GCCCTTCCTTCACTCTTTTGCTTCTTATTTGTAGACT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122859560 596 + 180051392 AAAATAAGAAAATAAGATACCTGTATGACTTAATGGAGTCTAAATACCATTAAGGAAAACTGCTTTTAAATTTAAAAGAGAACAGATGGGAAAATTCACATGGCA-TTTTGGACATAATTCCAGCACAAAGCAGAAATGT--AAAAACAGAAAACAGCCCAAAAGTTGGACTGAA----ATGTT-A--AAAAACAATTCTGTATACTGCACAAATTCCAGTAGTTTTACAAAAGTAAATAGTGTGGTATTAAAGGTTGCATACTATCATAGAATCTATATTTGTGTGTTTTATCTATATCTTCA---AAAG--ATATATTTGCATATATA-----------CATA-------------------------GCCAATCACCCACTCGACAGATGTATTAGCAGGTTTTGATGACTTGTGCAAAACA-TTAAGAAGTAATTAGGAAAACATCCAAAGCTAGTCAGCACATTAATAGGTCCAGAAAGTTCATATTGGATTTCCTTG-TATTTGCTAGGTACTCTCATTTTCTGAGAATGGGTCAATTGTTTC-AACAGTTACAAATCAGTTTAATGTGTAAAATAATCACACCTTGTCACGGATTCATGC-AAAAAA----GCTCTTCCTTCACTCTTTTGCTTCTTATTTGTAGACC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124283175 596 + 181584905 AAAATAAGAAAATAAGATACCTGTATGACTTAATGGAGTCTAAATACCATTAAGGAAAACTGCTTTTAAATTTAAAAGAGAACAGATGGGAAAATTCACATGGCA-TTTTGGACATAATTCCAGCACAAAGCAGAAATGT--AAAAACAGAAAACAGCCCAAAAGTTGGACTGAA----ATGTT-A--AAAAACAATTCTGTATACTGCACAAATTCCAGTAGTTTTACAAAAGTAAATAGTGTGGTATTAAAGGTTGCATACTATCATAGAATCTATATTTGTGTGTTTTATCTATATCTTCA---AAAG--ATATATTTGCATATATA-----------CATA-------------------------GCCAATCACCCACTCGACAGATGTATTAGCAGGTTTTGATGACTTGTGCAAAACA-TTAAGAAGTAATTAGGAAAACATCCAAAGCTAGTCAGCACATTAATAGGTCCAGAAAGTTCATATTGGATTTTCTTG-TATTTGCTAGGTACTCTCATTTTCTGAGAATGGGTCAATTGTTTC-AACAGTTACAAATCAGTTTAATGTGTAAAATAATCACACCTTGTCACGGATTCATGC-AAAAAA----GCTCTTCCTTCACTCTTTTGCTTCTTATTTGTAGACC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16281533 596 +  18395747 AAAATAAGAAAATAAGATACCTGTATGACTTAATGGAGTCTAAATACCATTAAGGAAAACTGCTTTTAAATTTAAAAGAGAACAGATGGGAAAATTCACATGGCA-TTTTGGACATAATTCCAGCACAAAGCAGAAATGT--AAAAACAGAAAACAGCCCAAAAGTTGGACTGAA----ATGTT-A--AAAAACAATTCTGTATACTGCACAAATTCCAGTAGTTTTACAAAAGTAAATAGTGTGGTATTAAAGGTTGCATACTATCATAGGATCTATATTTGTGTGTTTTATCTATATCTTCA---AAAG--ATATATTTGCATATATA-----------CATA-------------------------GCCAGTCACCCACTCGACAGATGTATTAGCAGGTTTTGATGACTTGTGCAAAACA-TTAAGAAGTAATTAGGAAAACATCCAAAGCTAGTCAGCACATTAATAGGTCCAGAAAGTTCATATTGGATTTCCTTG-TATTTGCTGGGTACTCTCATTTTCTGAGAATGGGTCAATTGTTTC-AACAGTTACAAATCAGTTTAATGTGTAAAATAATCACACCTTGTCACGGATTCATGC-AAAAAA----GCTCTTCCTTCACTCTTTTGCTTCTTATTTGTAGACC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5294472 596 +  26952557 AAAATAAGAAAATAAGATACCTGTATGACTTAATGGGATCTAAATACCATTAAGGAAAACTGCTTTTAAATTTAAAAGAGAACAGATGGGAAAATTCACATGGTA-TTTTGGACATAATTCCAGCACAAAGCAGAAATGT--AAAAACAGAAAACAGCCCAAAAGTTGGACTGAA----ATGTT-A--AAAAACAATTCTGTGTACTGCACAAATTCCAGTAGTTTTACAAAAGTAAATAGTGTGGTATTAAAGGTTGCATACTATCATAGAATCCATATTTGTGTGTTTTATCTATATCTTCA---AAAG--ATATATTTGCATATATA-----------CATA-------------------------GCCAATCACCCACTCGACAGATGTATTAGCAGGTTTTGATGACTTGTGCAAAACA-TTAAGAAGTAATTAGGAAAACATCCAAAGCTAGTCAGCACATTAATAGGTCCAGAAAGTTCATATTGGATTTCCTTG-TATTTGCTAGGTACTCTCATTTTCTGAGAATGGGTCAATTGTTTC-AACAGTTACAAATCAGTTTAATGTGTAAAATAATCACACCTTGTCACAGATTCATGC-AAAAAA----GCTCTTCCTTCACTCTTTTGCTTCTTATTTGTAGACC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28394783 596 +  82825804 AAAATAAGAAAATAAGATACCTGTATGACTTAATGGGGTCTAAATACCATTAGGGAAAACTGCTTTTAAATTTAAAAGAGAACAGATGGGAAAATTCACATGGTA-TTTTGGACATAATTCCAGCACAAAGCAGAAATGT--AAAAACAGAAAACAGCCCAAAAATTGGACTGAA----ATGTT-A--AAAAACAATTCTGTGTACTGCACAAATTCCAGTAGTTTTACAAAAGTAAATAGTGTGGTATTAAAGGTTGTATACTATCATAGAATCCATATTTGTATGTTTTATCTATATCTTCA---AAAG--ATATATTTGCATATATA-----------CATA-------------------------GCCAATCACCCACTCGACAGATGTATTAGCAGGTTTTGATGACTTGTGCAAAACA-TTTAGAAGTAATTAGGAAAACATCCAAAGCTAGTCAGCACATTAATAGGTCCAGAAAGTTCATATTGGATTTCCTTG-TATTTGCTAGGTACTCTCATTTTCTGAGAATGGGTCAATTGTTTC-AACAGTTACAAATCAGTTTAACGTGTAAAATAATTACACCTTGTCACGGATTCATGC-AAAAAA----GCTCTTCCTTCACTCTTTTGCTTCTTATTTGTAGACC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4064484 596 -   4237731 AAAATAAGAAAATAAGATACCTGTATGACTTAATGGGGTCTAAATACCATTAAGGAAAACTGCTTTTAAATTTAAAAGAGAACAGATGGGAAAATTCACATGGTA-TTTTGGACATAATTCCAGCACAAAGCAGAAATGT--AAAAACAGAAAACAGCCCAAAAGTTGGACTGAA----ATGTT-A--AAAAACAATTCTGTGTACTGCACAAATTCTAGTAGTTTTACAAAAGTAAATAGTGTGGTATTAAAGGTTGCATACTATCATAGAATCCATATTTGTGTGTTTTATCTATATCTTCA---AAAG--ATATATTTGCATATATA-----------CATA-------------------------GCCAATCACCCACTCGACAGATGTATTAGCAGGTTTTGATGACTTGTGCAAAACA-TTAAGAAGTAATTAGGAAAACATCCAAAGCTAGTCAGCACATTAATAGGTCCAGAAAGTTCATATTGGATTTCCTTG-TATTTGCTAGGTACTCTCATTTTCTGAGAATGGGTCAATTGTTTC-AACAGTTACAAATCAGTTTAATGTGTAAAATAATCACACCTTGTCACGGATTCATGC-AAAAAA----GCTCTTCCTTCACTCTTTTGCTTCTTATTTGTAGACC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      333264 595 -   1175262 AAAA-AAGAAAATAAGATACCTGTATGACTTAATGGGGTCTAAATACCATTAAGGAAAACTGCTTTTAAATTTAAAAGAGAACAGATGGGAAAATTCACATGGTA-TTTTGGACATAATTCCAGCACAAAGCAGAAATGT--AAAAACAGAAAACAA-CCAAAAGTTGGACTGAA----ATGTT-A--AAAAACAATTCTGTGTACTGCACAAATTCCAGTAGTTTTACAAAAGTAAATAGTGTGGTATTAAAGGTTACATACTATCACAGAATCCATATTTGTGTGTTTTATCTATATCTTCA---AAAG--ATATATTTGCATATACA-----------CATA-------------------------GCCAATCACCCACTCGACAGATGTAGTAGCAGGTTTTGATGACTTGTGCAAAACA-TTAAGAAGTAATTAGGAAAACATCCAAAGCTAGTCAGCACATTAATAGGTCCAGAAAGTTCATATTGGGTTTCCTTA-TATTTGCTAGGTACTCTCATTTTCTGAGAATAGGTCAATTGTTTC-AACAGTTACAAATCAGTTTAATGTGTAAAATAATCACACCTTGTCATGCATTCATGCAAAAAAA----GCCCTTCCTTCACTCTTTTGCTTCTTATTTGTAGACT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123680050 599 - 204313951 AAAATAAGAAAATAAGATACCTGTATAACTTAATGGGGTCTAAATACCATTAAGAAAAACTACTTTTAAGTTTAAAAGAGAACAGATG-GAAGATTCACATGGTA-TTTTGGACATAATTCCAGCACAAAGCAGAAATGT--AAAAACAGAAAATAGGCCAAAAATTGGACTGAA----ATGTTAA--AAAAACAATTATGTGTACTGCACAAATTCCAGTCGTTTTATAAAAGTACATAACATGATATTAAAGGGTGCATACTATCTTATAATCCATGTTTGTGTGTTTTATCTATATCTTAA---ACAGATACATATTTGTATATATA-----------CATA-------------------------GCCAATCACCTACTCGACAGATGTATTAGCAGGTTTTGATGACTTGTGCAAAACA-TTAAGAAGTAATTAGGAGAGCATCCAAAGCTAGTCAGCACATTAATAGGTCCAGAAAGTTCATATTGGATTTCCTTA-TATTTGCTAGGTTCTCTCATTTTCTGAGAATGGGTCAATTCTTTT-AACAGTTACAAATCAGCTTAATGTGTAAAATAATCACACAGTGTCATGGATTCATGCAAAAAAA----GCCCTTCCGTCACTCTTTTGCTTCTTATTTGTAGACT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55723888 596 -  71252344 AAAGTAAGAAAATAAGATA-CTGTATGATTTGATGGGGTCTAAATACCATTAAGAAAAACTACTTTTAAGTTTAAAAGAGAACAGATG-GAAGATTCACATGATA-CTTTGGACATAATTCCAGCACAAAGCAGAAATGT--AAAAACAGAAAATAGGCCAAAAATCGGACTGAA----ATGTT-A--AAAAACAATTATGTGTACTGCACAAATTCCAGTAGTTTTATAAAAGTACATAACATGGTATTAAAGGGTGCATACTATCATATAATCCATATTTGTGTGTTTTGTCTATATCTTAA---ACAGATATGTATTTGTATACATA-----------CGTA-------------------------GCCGGTCACCTACTTGACAGATGTATTAGCAGGTTTTGATGACTTGTGCAAAACA-TTAAGAAGTAATTAGGAGAGCATCCAAAGCTAGTCAGCACATTAATAGGTCCAGAAAGTTCATATTGGATTTCCTTA-TATTTGCTAGGTACTCTCATTTTCTGAGAATGGATCAATTCTTTT-AACAGTTACAAATCAGCTTAACGTGTAAAATAATCACACAGTGTCATGGATTCATGC-AGAGAA----GCCCTTCCTTCACTCTTTTGCTTCTTATTTGTAAACT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       26645 597 -   3089952 AAAATAAGAAAATAAGATACCTGTATGACTTAATGGGGTCTAAATACCATTAAGAAAAACTACTTTTAAGTTTAAAAGAGAACAGATG-GAAGATTCACATGGTA-TTTTGGACATAATTCCAGCACAAATCAGAAATGT--AAAAACAGAAAATAGGCCAAAAATTGGACCGAA----ATGTT-A--AAAAACAATTATGTGTACTGCACAAATTCCAGTAGTTTTATAAAAGTACATAACATGGTATTAAAGGGTGCatactatcatataatccatatttgtgtgttttacctatatcttaa---acagatatatatttgtatatata-----------cata-------------------------GCCAATCGCCTTCTTGACAGATGTATTAGCAGGTTTTGATGACTTGTGCAAAACA-TTAAGAAGTAATTAGGAGAGCATCCAAAGCTAGTCAGCACATTAATAGGTCCAGAAAGTTTATATTGGATTTCCTTA-TATTTGCTAGGTACTCTTATTTTCTGAAAATGGGTCAATTCTTTT-AACAGTTACAAATCAGCTTAATGTGTAAAATAATCACACAGTGTCATGGATTCATGT-AAAAAA----GCCCTTCCTTCACTCTTTTGCTTCTTATTTGTAGACT
i cebCap1.NW_016107590v1   C 0 I 9
s aotNan1.NW_018505940v1    13228111 598 -  42888418 AAAATAAGAAAATAAGATACCTGTATGACTTAATGGGGTCTAAATATCATTAAGAAAAACTACTTTTAAGTTTAAAAGAGAACAGATG-GAAGATTCACGTGGTA-TTTTGGACATAATTCCAGCACAAAGCAGAAATGT--AAAAACAGAAAATAGGCCAAAAATTGGACTGAA----ATGTT-A--AAAAACAATTATGTGTACTGCACAAATTTCAGTAGTTTTATAAAAGTACATAACATGGTATTAAAGGGTGCatactatcatataatccatatttgtgtgttttatctatatcttaa---acagatatatatttgtatatata-----------cata-------------------------GCCAATCACCTACTAGACAGATGTATTAGCAGGTTTTGATGACTTGTGCAAAACA-TTAAGAAGTAATTAGGAGAGCATCCAAAGCTAGTCAGCACATTAGTAGGTCCAGAAAGCTCATATTGGATTTCCTTATTATTTGCTAGGTACTCTCATTTTCTGAGAATGGGTCAATTCTTTT-AACAGTTACAAATCAGCTTAATGTGTAAAATAATCACACGGTGTCATGGATTCATGC-AACAAA----GCCCTTCCTTCACTCTTTTGCTTCTTATTTGTAGACT
i aotNan1.NW_018505940v1   C 0 I 9
s proCoq1.NW_012155062v1     3599291 619 +  11683526 AAAGTAAGAAAATAAGATATCTGTCAGACTTGATGGGGTCTAAATACCATTAAGGAAAACTGCTTTTAAGTTTAAAAGAGAACAGATG-GAAGATTCACATGGTA-TTTTGAATAGAATTCCAGCATAAAGCAGAAATGT--AAAAACAGAAAATAGGCCAAAAATTGGACAAAA----ATATT----TTTAAAAATCACATGTACTTAGCAAATTCCAGTAGTTTTACAGAGATAAATAGGTTGGTA-TAAAGAATGCATACTATCATGTAATCTATATTTATGTATTCTCTCTGTATCTTAA---AATTTtatatacatttatatata-----------tatatatatatatatatatatatataGTAGCCAATCATGCACTTGACAGATGTATTAGCAGGTTTTGATGACTTTGGTAAAACA-TTAAGAAGTAATTAGGAAAGCATTCAAAGCTAGTCAGTGTATTAATAGGTCCAGAAAGTTCATATTGGATTTTCTTA-TATTTGCTAGGTACTCTCATTTTCTGGGAATGGGTCAGCTCTTTC-AACAGTTACAAATCAGCTTAATGTGTAACATAATCACATAATGTCATGAATACATGC-AAAAAA----GCCCTTGTTTCA-CCTTTTGCTTCTTATTTGTAGACA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3083185 597 +   4132165 AAACTAAGAAGGTAAGAAATCTGTTGGACTTAATGGGCTCTAAATACCATCAAGGAAAACTGCTTTTAAGTTTAAAAGAGAACAGATG-AAAGATTCACATGGTA-TTTTGGACATAATTCCAGCATAAAGCAGAAATGT--AAAAATGAAAAACAGGCC-AAAATTGGACTGAA----ATGTTAA--AAAAAAAATCACGTGTACTTAGCAAAGTCCAGCAGTTTTACAGCGATCAATAGGTTAGTA-TAAAGAA--AATACTATCTTATAATCTGTATTTATACATTTTCTCTGTATCTTAA---AATTTTATATATATACATATACA-----------TGTA---------------------------CAATCACATGCTTGACAGATGTATTGGCAGGTTTTGATGACTTGGGAAAAACA-TTAAGACGTGATTAGGAAGGCATTCAAAGCTAGTCAGCGTGTTAATATGTCTAGAAAGTTTATATTGGATATCCTTA-TATTTGCTAGGAACTCTCATTTTCTGGGAATGGGTTAGCTTTTTCAAACTGTTACAAATCAGCTTAACGTGTAACATAATCACATAATATGGTGAATACAGGC-AAAAAAAAAGAATCCCATTTCATTCCTTTGCTTCTTATTTTTATATT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55529077 581 +  90702639 ATAAAAGAAAAATAAGGTATATGTGTTTTTTACTAAGGTCTAAATATTATGCACAATAATTGCCGTTCACTTTTAAGAGAGATGGATG-----------ATG-----TTTAGACATAATTCTGGTCCAGTGGAGAAATGTCAACAAACAAACAAACAAATAAAAACCAAATTGAATTCTATTTT-T--TTAAA-------GTGAGCTTTACAAATTGTAATAGGTTTATGGAAATGGATAATTCTGTA-TGGACAAAGCATACTATTTTATAGTCCACATTTATGCAGTCCCTCTGTAGCTTAA---AGCT-------TTCACATATATAACGTCCTTATTTATA-------------------------GCTAATCACACACTCATCAAATGTATCAGCAGGCTTTGAGGACCTGCACAAAACATTTAAAAAGTAATTAGGAAGTCATCCAAGACCAGTCAGCTCATTAACAAATCCAGAACGTTTCTA-TGGGTCTCATTG-TAATTGTTAGATACCTCTGTTTCCTGGGAACGAGTCAGCTCTTTC-TACAGGTATGAATCAACTTAATTTATAAAATA---CCACAGGAACATGAATACAAAC-AAATGG----AGCTTTCCCTAACTACTTC-CTTCATATCTTTACATT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14927330 551 +  74389097 AAAGTAAGAAAACAAGGTATCTATATGAC----------CTAAATACTATTAAGGAAAATTGCT-TTAAGTTTAAATGAGAGCAGATG-GAAGATTCATGTGGCATTTTTGGACATAATTCTGGCACAAATCGGA---GT--AACA--GGAAAATAGGCCAAAAGTTGGACCAAA----ATGTT-AACACAAAAAATCATGTGTACATAAAAAATTCTAGTAGTTCTACAGAGGCAAATGACTTGGAATTAGAAGATACATACTATCATATAATCTATTTTTATGTATTGTCGCTGTATCTTAACATATAG--ATATATTTCC-----TA-----------CATA-------------------------G----------GCTCAACAGATGTAGTGGTATTTTTTGATGACTTGTATGAAACA-TTAAGAAGTAATTAGGAAGGCATCCAAAGCTCATCAGCACATTAATAGGCCCAGAAAATTCATA-----------------TTGCTAGGTACTCTCATTTTGTGGGAATGGATTAGCTTTTAT-GGTAGTTTCAAATCAGCTTAATTTATAAAATAATCATGCAGTGTCATGAATATATGC-AAAAAA----GTACTGGTTTCACTCTTTC---TCTTATTTTTACACT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2647648 572 +   3667625 CAAATAAGAA-ATAAGATATCTCTCTGACTTAAGGGGATCTAAATGGCATTACTGAAAACTGGATTTAAGTTTAAAAGAGAACAGATG-GAAGATTCCCATGGTA-TTTTGGACATAATTCTGGCACAAAGTAGAATTAT--AAAAACAAAAAAGCG------AACCAAATTGAA----ATGTT-A--AAAAAGAGTCATGCTTACTTTGTAAATTCTAATAGTTCTATAGAGTAAAATAGCTTTATATTAAAGGATGCATATTATCATATAATCTGTTTTTATGCGTTACTTCCATACTCTAA---AATT--------------ATATA-----------TATA-------------------------GCTAATCATGTGCTTGGCAGATGTATTAGCAGGTTTTGATGAGCTGTGCAAAACA-TTAAGAAGTAATTAGGAAAGCATCCAAAACTAGTCAGCACTTTAATAGGTCCAGAAAGTTCATATTGGATTTCCTTG-TATTTGCCGGATACTCTCATTTTCTGGGAATGGGTTAGCTCTTTC-AACAGTTAAAAATCAGCTTAATGTGTACAATAATCATATAGTATCATGAATATATAC-AAAAAA----GCACTTGCCTTTCTCTTCTTC----TATTTTTAGACT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60566615  74 + 108143057 I

a score=81086.000000
s hg38.chr5_KI270796v1_alt    108327 7 +    172708 ATTTTGG
s panTro5.chr5             125212070 7 + 181907262 ATTTTGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126548760 7 + 183735486 ATTTTGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1740501 7 +   8933513 ATTTTGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139875515 7 + 163208435 ATTTTGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122860156 7 + 180051392 GTTTTGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124283771 7 + 181584905 GTTTTGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16282129 7 +  18395747 GTTTTGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5295068 7 +  26952557 GTTTTGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28395379 7 +  82825804 GTTTTGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4065080 7 -   4237731 GTTTTGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      333859 7 -   1175262 GTTTTGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123680649 7 - 204313951 GTTCTGG
i calJac3.chr2             C 0 I 2
s saiBol1.JH378106          55724484 7 -  71252344 GTTCTGG
i saiBol1.JH378106         C 0 I 2
s proCoq1.NW_012155062v1     3599910 7 +  11683526 GTTCTAG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3083782 7 +   4132165 GTTCTGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55529658 7 +  90702639 TTTCTGG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14927881 7 +  74389097 ATTCTAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2648220 7 +   3667625 GTTCTGG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60566615 74 + 108143057 I
e aotNan1.NW_018505940v1    13228709 9 -  42888418 I
e cebCap1.NW_016107590v1       27242 9 -   3089952 I

a score=2669879.000000
s hg38.chr5_KI270796v1_alt    108334 359 +    172708 GTGTGGTGATTGCATGCCATTTAGTATTTTTCATAAATTTGCACATTCAAAAAAGCAGGTGATTAACCTCCTTTTAA-----------CTGTTTGAGTCCCAGAGTGTCCAAAATGATGTAT-----ACCCAA-ATCTTTTCCCTGACACTAAATGTAATAAAATCTTGTGGCTTAAGCCAAGTGAGTTGAC------A---TA-TTTT-------TTTGAATGAAAAACATTA-TTTTACCTATGAAAATGTAGTTATTAATAGAATAATAGTAGATTCTTC---------------------------------------------------------ATTACATA-------------------------------------------------------------------------ATCATTTGCACTTGCTCACAGCACAAAACATGGTCTTA--TGATA-CAGGATATTATGAAGAAACAGAACGAACAAGAGACACAGGGTGACTTCTTGAATATGGTT
s panTro5.chr5             125212077 359 + 181907262 GTGTGGTGATTGCATGCCATTTAGTATTTTTCGTAAATTTGCACATTCAAAAAAGCAGGTGATTAACCTCCTTTTAA-----------CTGTTTGAGTCCCAAAGTGTCCAAAATGATGTAT-----ACCCAA-ATCTTTTCCCTGACACTAAATGTAATAAAGTCTTGTGGCTTAAGCCAAGTGAGTTGAC------A---TA-TTTT-------TTTGAATGAAAAACATTA-TTTTACCTATGAAAATGTAGTTATTAATAGAATAATAGTAGATTCTTC---------------------------------------------------------ATTGCATA-------------------------------------------------------------------------ATCATTTGCACTTGCTCACAGCACAAAACATGGTCTTA--TGATA-CAGGATATTATGAAGCAACAGAACGAACAAGAGACACAGAGTGACTTCTTGAATATGGTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126548767 359 + 183735486 GTGTGGTGATTGCATGCCATTTAGTATTTTTCGTAAATTTGCACATTCAAAAAAGCAGGTGATTAACCTCCTTTTAA-----------CTGTTTGAGTCCCAAAGTGTCCAAAATGATGTAT-----ACCCAA-ATCTTTTCCCTGACACTAAATGTAATAAAGTCTTGTGGCTTAAGCCAAGTGAGTTGAC------A---TA-TTTT-------TTTGAATGAAAAACATTA-TTTTACCTATGAAAATGTAGTTATTAATAGAATAATAGTAGATTCTTC---------------------------------------------------------ATTGCATA-------------------------------------------------------------------------ATCATTTGCACTTGCTCACAGCACAAAACATGGTCTTA--TGATA-CAGGATATTATGAAGAAACAGAACAAACAAGAGACACAGAGTGACTTCTTGAATATGGTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1740508 359 +   8933513 GTGTGGTGATTCCATGCCATTTAGTATTTTTCGTAAATTTGCACATTCAAAAAAGCAGGCGATTAACCTCCTTTTAA-----------CTGTTTGAGTCCCAAAGTGTCCAAAATGATGTAT-----ACCCAA-ATCTTTTCCCTGACACTAAATGTAATAAAATCTTGTGGCTTAAGCCAAGTGAGTTGAC------A---TA-TTTT-------TTTGAATGAAAAACATTA-TTTTACCTATGAAAATGTAGTTATTAATAGAATAATAGTAGATTCTTC---------------------------------------------------------ATTACATA-------------------------------------------------------------------------ATCATTTGCACTTGCTCACAGCACAAAACATGGTCTTA--TGATA-CAGGATATTATGAAGAAACAGAACGAACAAGAGACACAGAGTGACTTCTTGAATATGGTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139875522 359 + 163208435 GTGTGGTGATTCCATGCCATTTAGTATTTTTCGTAAATTTGCACATTCAAAACAGCAGGTGATTAACCTCCTTTTAA-----------CTGTTTGAGTGCCAAAGTGTCCAAAATGATGTAT-----ACCCAA-ATCTTTTCCCTGACACTAAATGTAACAGAAGTTTGTGGCTTAAGTCAAGGGAGTTGAC------ATTTTT-TTTT-------TTTGAGTGAAAAAC---A-TTTTACCTATGAAAATGTAGTTATTAATAGAATAATAGTAGATTCTTC---------------------------------------------------------ATTACATA-------------------------------------------------------------------------ATCATTTGCACTTGCTCACAGCACAGAACATGATCTTA--TGATA-CAGGATATTATGAAGAAACAGAAGGAACAAGAGACACAGAGAGACTTCTTGAATATGGTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122860163 362 + 180051392 GTGTGGTGATTCCATGCCATTTAGTATTTTTCATAAATTTGCACATTCAAAAAAGCAGGTGATTAACCTCCTTTTAACTGATTTT---CTGTTTGAGTCCCAAAGTGTCCAAAATGATGCAT--------TAA------TACCCTGACACTAAATGTAATAACAGCTTGCGGCATAAGCCAAGTGA-TTGAC----------TT-TTTTT----GGTTTGAATGAAAAACATTATTTTTACCTATGAAAATGTAGTTATTAATAGAATAATAGTAGATTCTTC---------------------------------------------------------ATTACATA-------------------------------------------------------------------------ATCATTTGTACTTGCTCACAGCACAAAACATGATCTTA--TGATACCAGGATATTGTGAAGAAACAGAAGAAACAAGAGACACAGCGAGACTTCTTGCAGATGGTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124283778 363 + 181584905 GTGTGGTGATTCCATGCCATTTAGTATTTTTCATAAATTTGCACATTCAAAAAAGCAGGTGATTAACCTCCTTTTAACTGATTTT---CTGTTTGAGTCCCAAAGTGTCCAAAATGATGCAT--------TAA------TACCCTGACACTAAATGTAATAACAGCTTGCGGCATAAGCCAAGTGA-TTGAC------T---TT-TTTTT----GGTTTGAATGAAAAACATTATTTTTACCTATGAAAATGTAGTTATTAATAGAATAATAGTAGATTCTTC---------------------------------------------------------ATTACATA-------------------------------------------------------------------------ATCATTTGTACTTGCTCACAGCACAAAACATGATCTTA--TGATACCAGGATATTGTGAAGAAACAGAAGAAACAAGAGACACAGCGAGACTTCTTGCAGATGGTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16282136 363 +  18395747 GTGTGGTGATTCCATGCCATTTAGTATTTTTCATAAATTTGCACATTCAAAAAAGCAGGTGATTAACCTCCTTTTAACTGATTTT---CTGTTTGAGTCCCAAAGTGGCCAAAATGATGCAT--------TAA------TACCCTGACACTAAATGTAGTAACAGCTTGCAGCATAAGCCAAGTGA-TTGAC------T---TT-TTTTT----GGTTTGAATGAAAAACATTATTTTTACCTATGAAAATGTAGTTATTAATAGAATAATAGTAGATTCTTC---------------------------------------------------------ATTACACA-------------------------------------------------------------------------ATCATTTGTACTTGCTCACAGCACAAAACATGATCTTA--TGATACCAGGATATTGTGAAGAAACAGAAGAAACAAGAGACACAGCGAGACTTCTTGCAGATGGTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5295075 363 +  26952557 GTGTGGTGATTCCATGCCATTTAGTATTTTTCATAAATTTGCACATTCAAAAAAGCAGGTGGTTAACCTCCTTTTAACTGATTTT---CTGTTTGAGTCCCAAAGTGTCCAAAATGATGCAT--------TAA------TACCCTGACACTAAATGTAATAACAGCTTGCGGCATAAGCCAAGTGA-TTGAC------T---TT-TTTTT----GGTTTGAATGAAAAACATTATTTTTACCTATGAAAATGTAGTTATTAATAGAATAATAGTAGATTCTTC---------------------------------------------------------ATTACATA-------------------------------------------------------------------------ATCATTTGTACTTGCTCACAGCACAAAACATGATCTTA--TGATAGCAGGATATTGTGAAGAAACAGAAGAAACAAGAGACACAGAGAGACTTCTTGAATATGGTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28395386 363 +  82825804 GTGTGATGATTCCATGCCATTTAGTATTTTTCATAAATTTGCACATTCAAAAAAGCAGGTGATTAACCTCCTTTTAACTGATTTT---CTGTTTGAGTCCCAAAGTGTCCCAAATGATGCAT--------TAA------TACCCTGACACTAAATGTAATAACAGCTTGCAGCATAAGCCAAGCGA-TTGAC------A---TT-TTTTT----GGTTTGAATGAAAAACATTATTTTTACCTATGAAAATGTAGTTATTAATAGGATAATAGTAGATTCTTC---------------------------------------------------------ATTACATA-------------------------------------------------------------------------ATCATTTGTACTTGCTCACAGCACAAAACATGATCTTA--TGATACCAGGATATTGTGAAGAAACAGAAGAAACAAGAGACACAGGGAGACTTCTTGAATATGGTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4065087 363 -   4237731 GTGTGGTGATTCCATGCCATTTAGTATTTTTCATAAATTTGCACATTCAAAAAAGCAGGTGATTAACCTCCTTTTAACTGATTTT---CTGTTTGAGTCCCAAAGTGTCCAAAATGATGCAT--------TAA------TACCCTGACACTAAATGTAATAACAGCTTGCGGCATAAGCCAAGTGA-TTGAC------T---TT-TTTTT----GGTTTGAATGAAAAACATTATTTTTACCTATGAAAATGTAGTTATTAATAGAATAATAGTAGATTCTTC---------------------------------------------------------ATTACATA-------------------------------------------------------------------------ATCATTTGTACTTGCTCACAGCACAAAACATGATCTTA--TGATACCAGGATATTGTGAAGAAACAGAAGAAACAAGAGACACAGAGAGACTTCTTGAATATGGTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      333866 362 -   1175262 GTGTGCTGATTCCATGCCATTTAGTATTTTTTATAAATTTGCACATTCAAAAAAGCAGGTGATTAACCTCCTTTTAACTGATTTT---CTGTTTGAGTCCCAAAGTGTCCAAAATGATGCAT--------TAA------TACCCTGACACTAAATGTAATAACAGCTTGTGGCATAAGCCAAGTGA-TTGAC----------TT-TTTTT----GGTTTGAATGAAAAACGTTATTTTTACCTATGAAAATGTAGTTATTAATAGAATAATAGTAGATTCTTC---------------------------------------------------------ATTACATA-------------------------------------------------------------------------ATCATTTGTACTTGCTCACAGCACAAAACATGATCTTA--TGATACCAGGCTATTGTGAAGAAACAGAAGAAACAAGAGACACAGAGAGACTTCTTGACTATGGTT
i colAng1.NW_012119644v1   C 0 C 0
s proCoq1.NW_012155062v1     3599917 368 +  11683526 GTATGATCATTCCATGTCATTTAGTATTTTTCATAAATTGGCACATTCATAAA--TAGGTGATTTACTTTCTTTTAACTGA-------TTTTTTGAGCCTCAAAGAGTCTAAATTGGTGGATTAAT-GCCCAA-ATCTTTTCTCTGATACTGAATGTAATAAAAACTTGTGGCTTAAGCCAAGTGAATTGAC------A---TATTTTTT-TCAGTTTTGAATAAAAAAA--TTATTTTCCTTAGGAAAGGGTAGTTATTAATAGAATAACAGTAGATTCTTT---------------------------------------------------------GTTATAT--------------------------------------------------------------------------ATCATTTTTACTTGCTCACAG-ACAAAACATGACCTTA-CTGATG-CAGGATATTATCATGAAACAGAAGGAACA--AGGCACTAAGAGACTTTTTGAACATGGTC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3083789 368 +   4132165 GTATGATCATTCCACACCATTTAGTATTTTTTATAAATTGGCACGTTCATAAA--TAGGTGA-TAACCTTCTTTTAATAGA-------TCTTTTGAGCCCCTAAGAATCCAAAATGTTACATTAAT-GCCTAATTTTTTTTCTCTGATACCAAATGTAATAAAAACTTGTGGCTTAAGCCAAGTGAGTTGGC------A---TA-CTCTT-TCATTTTTTATTGAAAAAAATTTTCTTTCCTTAGGAAAAGGTAGCTATTAATAGAATAACAGTCGATTCTTC---------------------------------------------------------CTTACCC--------------------------------------------------------------------------ACCATTTGTACTTGCTCACGGCACAAAACATGACCTTA-GTGATG-CAGGAGATTATCAAGAAACAGAAGGAACA--AGGCCTGAGGAGACTATTTCA--ATGTTC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55529665 340 +  90702639 GTGTTGTCATTTTGTGATTTGTCGCA---TTCATAAAT--AGATAATCAAGCAGCCCCATGATTA--CTCATTTTAA------------AATCTGAACCCCAAAGTATC-GAAATGATGGATTAAT-ATCCAA-ATCTCTTCCATGGCATTGATTGCAATAGTAGTTGCTGGCTTAAACAAAATGAATTGCTGCAATGA---TT-TTTTT------TTTGTATGAAACA-ATTA-TTTTCCTTAGGAAAAGATAGTCATTAATAGAATAGCAATAACTTCCTC---------------------------------------------------------GTCACATG-------------------------------------------------------------------------CCATTTTGTA-----TCCCAGCACCAAACATGACCTCAAATGAGT-CACAATACAATAGAGGTGTATAAAATACA-----------------TCTATAACATGTGT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14927888 369 +  74389097 ATATAGTCATTCCATGT-------TATTTTTAACTTACTGATACTTTCATAAA--TAGATGATTAA--TCCCCTTAGCTGATTTTTAAAAATTTGGGTCACAAAGGGTCCAAAATGATGCATTAAT-GCCCAA-ATCTTTTCTTTAGCAATGAATGTAATAAAGGCTTATGGCTTAAACCAACTTAGTTAAC------A---TT-TTTTTTTCTACTTTGAATGAAAAACATTA-TTTTCCCTAGGAAAATGTAGCTATTAATAGAATAACAGTAGACTCTTC---------------------------------------------------------ATTACAC--------------------------------------------------------------------------ATAATTTGCACTTGCTCACAGTACAAAACCTGACCTCAGATGATT-CATGATATCATCATGAAACAGAAGATACA--AGACTTGGGAGAACTTCTTGAAAATAATC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2648227 500 +   3667625 GTATATTCATTCTGTGCCATTCAGTGTTCTTCATAAATTGGCATATTCAGAAA--TGGGTGATCAGCAATTCTTTATCAGTTTT----TCATTTGAGTCCCAACAAGTCCCAAATGCTGCATTAATGCCCCAA-ACC--TTCTGTGACACTGAATGGAATAAACAAGTGTGGCTTAAACCAAGTCAGTTAAT------AAATTG-TTTCT----GCTTTGA---AGAAAAGTTG-CTCTCCTTGGGAAAAGATAGTTATTCATAGAATAACATTAACTCTTTTTTTTCTCTATTCTGGTTGACCTtttttaaaaaaaaaatatttctaaagaagttttagattacacaaaagttatataaaaaatgtaggggtttccgatagaacccccctcacattttcctctgttaataaaatcttTATATGATTTTTATTTGCTTATAGCACAAAACACGACTTCAAATGATC-CAGCATATTATCATGAAAAAGTAGGAAAA--AGACGTGGAGAGACTTCTCTAGCATGACC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60566615  74 + 108143057 I
e aotNan1.NW_018505940v1    13228709   9 -  42888418 I
e cebCap1.NW_016107590v1       27242   9 -   3089952 I
e saiBol1.JH378106          55724491   2 -  71252344 I
e calJac3.chr2             123680656   2 - 204313951 I

a score=173532.000000
s hg38.chr5_KI270796v1_alt    108693 19 +    172708 AGTATTTCAAAACCCTTAT
s panTro5.chr5             125212436 19 + 181907262 AGTATTTCAAAACCCTTAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126549126 19 + 183735486 AGTATTTCAAAACCCTTAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1740867 19 +   8933513 AGTATTTCAAAACCCTTAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139875881 19 + 163208435 AGTATTTCAAAACCCTTAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122860525 19 + 180051392 ACTATTTCAAAACCCTTAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124284141 19 + 181584905 ACTATTTCAAAACCCTTAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16282499 19 +  18395747 ACTATTTCAAAACCCTTAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5295438 19 +  26952557 ACTATTTCAAAACCCTTAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28395749 19 +  82825804 ACTATTTCAAAACCCTTAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4065450 19 -   4237731 ACTATTTCAAAACCCTTAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      334228 19 -   1175262 ACTATTTCAAAACCCTTAA
i colAng1.NW_012119644v1   C 0 C 0
s micMur3.chr12             60566689 19 + 108143057 AGTATTTCAAAATCCTTGA
i micMur3.chr12            I 74 C 0
s proCoq1.NW_012155062v1     3600285 19 +  11683526 AGTATTTCGAAATCCTTGA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3084157 19 +   4132165 AGTATTTCAAAATCCTTGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55530005 19 +  90702639 GGTTCTGTGATACCCTTGA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14928257 19 +  74389097 AGTGCTTTAAGACTCTTGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2648727 18 +   3667625 AGTACTTCAAAACAGGGA-
i dasNov3.JH567306         C 0 C 0
e aotNan1.NW_018505940v1    13228709  9 -  42888418 I
e cebCap1.NW_016107590v1       27242  9 -   3089952 I
e saiBol1.JH378106          55724491  2 -  71252344 I
e calJac3.chr2             123680656  2 - 204313951 I

a score=1686416.000000
s hg38.chr5_KI270796v1_alt    108712 118 +    172708 GAATGGAATGGAGCAATTTCTGGTTACTGTTATAGCTGTAAAATCAGGTCAACATTTT-AAATTGATTTGCCGTTCATTTCTTTAAATTTCTACTA--AAATTTT-AAACAAGGTAAAGTTT
s panTro5.chr5             125212455 118 + 181907262 GAATGGAATGGAGCAATTTCTGGTTACTCTTATAGCTGTAAAATCAGGTCAACATTTT-AAATTGATTTGCTGTTCATTTCTTTAAATTTCCACTA--AAATTTT-AAACAAGGTAAAGTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126549145 118 + 183735486 GAATGGAATGGAGCAATTTCTGGTTACTGTTATAGCTGTAAAATCAGGTCAACATTTT-AAATTGATTTGCTGTTCATTTCTTTAAATTTCCACTA--AAATTTT-AAACAAGGTAAAGTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1740886 118 +   8933513 GAATGGAATGGAGCAATTTCTGGTTACTGTTGTAGCTGTAGAATCAGGTCAACATTTT-AAATTGATTTGCCATTCATTTCTTTAAATTTCTACTA--AAATTTT-AAACAAGGTAAAGTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139875900 118 + 163208435 GAATGGAGTGGAGCAATTTCTGGTTACTGTTATAGCTGTAAAATCAGGTCAACATTTT-AAATTGATTTGCCATTCATTTCTTTAAATTTCTACTA--AAATCTT-AAACAAGGTAAAGTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122860544 114 + 180051392 GAATGGAATGGAGCAATTTCTGGTTACTGTTATAGCTGTAAAATCAGGTCAACATTTT-ACATTGATTTACCATTTATTTCTTTAAATTTCTACTA--AAATTTT-----AAGGTAAAGTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124284160 114 + 181584905 GAATGGAATGGAGCAATTTCTGGTTACTGTTATAGCTGTAAAATCAGGTCAACATTTT-ACATTGATTTACCATTTATTTCTTTAAATTTCTACTA--AAATTTT-----AAGGTAAAGTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16282518 114 +  18395747 GAATGGAATGGAGCAATTTCTGGTTACTGTTATAGCTGTAAAATCAGGTCAACATTTT-ACATTGATTTACCATTTATTTCTTTAAATTTCTACTA--AAATTTT-----AAGGTAAAGTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5295457 114 +  26952557 GAATGGAATGGAGCAATTTCTGGTTACTGTTATACCTGTAAAATCAGGTCAACATTTT-ACATTGATTTACCATTTATTTCTTTAAATTTCTACTG--AAATTTT-----AAGGTAAAGTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28395768 114 +  82825804 GAATGGAATGGAGCAATTTCTGGTTACTGTTATAGCTGTAAAATCAGGTCAACATTTT-ACATTGATTTACCATTTATTTCTTTAAATTTCTACTA--AAATTTT-----AAGGTAAAGTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4065469 114 -   4237731 GAATGGAATGGAGCAATTTCTGGTTACTGTTATAGCTGTAAAATCAGGTCAACATTTT-ACATTGATTTACCATTTATTTCTTTAAATTTCTACTG--AAATTTT-----AAGGTAAAGTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      334247 114 -   1175262 GAATGGAATGGAGCAATTTCTGGTTACTGTTATAGCTGTAATATCAGGTCAACATTTT-ACATTGATTTGCCATTTATTTCTTTAAATTTCTACTA--AAATCTT-----AAGGTAACGTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123680658 117 - 204313951 GAATGGAATGGAGCAATTTCTGGTTACTGCTATAGCTGTAAAATCAGTTCAAAATGTT-AAATTGATCTGCCATTCATTTCTTTACATTTCTACTA--AAATCTT-AAACAAGGT-AAGTTT
i calJac3.chr2             I 2 C 0
s saiBol1.JH378106          55724493 118 -  71252344 GAATGGAATGGAGCAATTTCTGGTTACTGCTATAGCTGTAAAATCAGTTCAACATTTT-AAATTGATCTGCCATTCATTTCTTTACATTTCTACTA--AAATCTT-AAACAAGGTAAAGTTT
i saiBol1.JH378106         I 2 C 0
s cebCap1.NW_016107590v1       27251 118 -   3089952 GAATGGAATGGATCAATTTCTGGTTATTGCTATAGCTGTAAAATCAGTTCAACATTTT-AAATTGATCTGCTGTTCATTTCTTTACATTTCTACTA--AAATCTT-AAACAAGGTAAAGTTT
i cebCap1.NW_016107590v1   I 9 C 0
s aotNan1.NW_018505940v1    13228718 118 -  42888418 GAATGGAATGGAGCAATTTCTGGTTACTGCTATAGCTGTAAAATCAGTTCAACATTTT-AAGTTGATCTGCCATTCATTTCTTTACATTTCTACTA--AAATCTT-AAACAAGGTAAAGTTT
i aotNan1.NW_018505940v1   I 9 C 0
s micMur3.chr12             60566708 120 + 108143057 GATTGGAATGGAGTAATTTCTTTTGACTTCTATAGCAGTAAAATCAGGTCAACATTTTAAAACTGATTTGCTATTCAGTTCTTTGAATTCCTATTT--AAATCCCTGAACACAGTGAAGTTT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3600304 120 +  11683526 AATTGGAATGGAGTAATTTCTTGTTACAACTATAGCTGTAAAATCAGGTCAACATTTTAAAACTGATTTGCCATTCAGTTCTTTGAATTCCTGTTT--AAATCCCTGAACACAGTGAAGTTT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3084176 117 +   4132165 GAATGGAATAGCATAGTCTTTAGTTACTGTTAAATCTGTAAAATCAGGTCAACGTTTTAAAACTGGTTTGTCATTCTGTTTTTTGAATTCTTATTTTAAAATTCCTGAACAT-----GGTTT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55530024 116 +  90702639 CAACGGAATGCAGTATTTTCTGGCTACTGCTGTTGCTATAATGTTAGGTCAGCACTTAAAAATCAGTGTCCCATTCAGTTCTTTGAACTCCTG-----AACTCAC-AAGCAAAGTCAAGTTT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14928276 119 +  74389097 GAGTGAAATGGAGTAATTCTCTGTTACCACTATCGCTATAAAGTCAGGACAACATTTTAAAATTGATTTAACATTCAGTTCTTTGAATTCCTGCTT--AAAACCT-GAACAAGGTGAAGTTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2648745 114 +   3667625 GAGTAGAACGGAGTAATTCCTGTTTGGAGCCAGAGCTGCAAA-----GTCAACATTTAAAAATTGATATGGCATTTGGTCGTTTGAATTCATGCTT--AAAACCA-GAACATGGTGAAGTCT
i dasNov3.JH567306         C 0 I 256

a score=527531.000000
s hg38.chr5_KI270796v1_alt    108830 41 +    172708 AAAAATGGGTAAAAGAGATGTTTCCAAAAATTAACATGTAA
s panTro5.chr5             125212573 41 + 181907262 AAAAATGGGTAAAAGAGATGTTTCCAAAAATTAACATGTAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126549263 41 + 183735486 AAAAATGGGTAAAAGAGATGTTTCCAAAAATTAACATGTAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1741004 41 +   8933513 AAAAATGGGTAACAGAGATGTTTCCAAAAATTAACATGTAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139876018 41 + 163208435 AAAAATGGGTAAAAGAGATGTTTCCAAAAATTAACATGTAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122860658 41 + 180051392 TAAAATGGATAAAAGAGATGTTTCCAAAAATTAACATGTAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124284274 41 + 181584905 TAAAATGGATAAAAGAGATGTTTCCAAAAATTAACATGTAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16282632 41 +  18395747 TAAAATGGATAAAAGAGATGTTTCTAAAAATTAACATGTAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5295571 41 +  26952557 TAAAATGGGTAAAAGAGATGTTTCCAAAAATTAACATGTAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28395882 41 +  82825804 TAAAATGGGTAAAAGAGATGTTTCCAAAAATTAACATGTAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4065583 41 -   4237731 TAAAATGGGTAAAAGAGATGTTTCCAAAAATTAACATGTAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      334361 41 -   1175262 AAAAATGGGTAAAAGAGATGTTTCCAAAAATTAACATGTAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123680775 40 - 204313951 AAAAACAGGTGAAAGAGATGTTTC-AAAAATTATCCTGTAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55724611 40 -  71252344 AAAAACAAGTGAAACAGATGTTTC-AAAAGTTATCCTGTAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       27369 40 -   3089952 AAAAACAAGTGAAAGAGATGTTTC-AAAAATTATCCAGTAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13228836 40 -  42888418 AAAAACAAGTGAAAGAGATGTTTC-AAAAATTATCCTGTAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60566828 41 + 108143057 AAAAACAGGTGAAATAGATGTTATCAACAATCCTCACGTAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3600424 41 +  11683526 AAAAACAGGTGAAATAGATGCTATCCACAATCCTCATGTAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3084293 41 +   4132165 AAAAACAGGTGAAATAAATTCTATGAAAAAGTTAAGTATAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55530140 41 +  90702639 AGAATCAGATAAAACTGATGTTATCTAAAATTCTCATGCAA
i mm10.chr18               C 0 I 171
s canFam3.chr11             14928395 41 +  74389097 CAAAACAGGTGAGATAGATGCTGTCAAAAATTTCCATGCCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2649115 41 +   3667625 aaaaaGAGGTAAAATAGGTGCTGTCAAAAATTCTTGTACTA
i dasNov3.JH567306         I 256 C 0

a score=9807684.000000
s hg38.chr5_KI270796v1_alt    108871 616 +    172708 ATCTCTGC---------------------------------------------ATTTGG---AA--------ATGCT-AAAG------------TC-----------AAAATTGTATA-----TGATTATAAACGTGATCTAAAA-------CATTCATATTACTT----GGCA-TATTCTTATAGTCAA-AGTCAAATTGTTTAT-----TAA-----TTAGCTATAATTCAGTTATAGCACACA-TTTTTTTGA----------AATTGCTTTACTTCTCCACTGATCACTAGTGGTAGAGAAAGGGTCACAATTTGAGAAAACCTGTCATGTCTACCAATGGCTCATAAC----------------ACC-ACAGAGCACAAGTAGCA------------------ATGAGATGGGGTGATTGTCTGGCTAATTG-TATCAATGTAGTCTGCAGACAGTAATTCAGAAGAGG-AAAAAACCTTTAGGATTTAACATATTGAGTTTGTCTCTCTATTGATCAAATTTATTGGATGATTTCCAAATCTCCACTTTACTGAGTATTTTATTGACA-----------------CAA-----CCTTTGACCGAGAAGCATAGAGATTTCAAAATGCCTGTTCTTATAGACAGAAAATCAATTTAGTTATTTTAATAAATATAATTGTTTGAGCAAAATAGTTGGCTGAACAATTAAAGGATAGCTGCTATCATTACTTGGTATGTATAGGACAGGAAACTGGAATTGAACATG---------GAG-----------GAAACAGATTTTCAAGACTGA
s panTro5.chr5             125212614 616 + 181907262 ATCTCTGC---------------------------------------------ATTTGG---AA--------ATGCT-AAAG------------TC-----------AAAATTGTATA-----TTATTATAAACGTGATCTAAAA-------CATTCATATTACTT----GGCA-TATTCTTATAGTCAA-AGTCAAATTGTTTAT-----TAA-----TTAGCTATAATTCAGTTATAGCACACA-TTTTTTTGA----------AATTGCTTTGCTTCTCCACTGATCACTAGTGGTAGAGAAAGGGTCACAATTTGAGAAAACCTGTTATGTCTACCAATGGCTCATAAC----------------ACC-ACAGAGCACTAGTAGCA------------------ATgagattgggtgattgtctggctaattg-tatcaatgtagtctgcagacagtaattcagaagagg-aaaaaacctttaggatttaacatattgagtttgtctctctattgatcaaattaattggatgatttccaaatctccactttactgagtattttattgaca-----------------caa-----ccTTTGACCGAGAAGCATATAGATTTCAAAGTGCCTGTTCTTATAGACAGAAAATCAATTTAGTTATTTTAATAAATATAATTGTTTGAGCAAAATAGTTGGCTGAACAATTAAAGGATAGCTGCTATCATTACTTGGTATGTATAGGACAGGAAACTGGAATTGAACATG---------GAG-----------GAAACAGATTTTCAAGACTGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126549304 616 + 183735486 ATCTCTGC---------------------------------------------ATTTGG---AA--------ATGCT-AAAG------------TC-----------AAAATTGTATA-----TTATTATAAACGTGATCTAAAA-------CATTCATATTACTT----GGCA-TATTCTTATAGTCAA-AGTCAAATTGTTTAT-----TAA-----TTAGCTATAATTCAGTTATAGCACACA-TTTTTTTGA----------AATTGCTTTACTTCTCCACTGATCACTAGTGGTAGAGAAAGGGTCACAATTTGAGAAAACCTGTTATGTCTACCAATGGCTCATAAC----------------ACC-ACAGAGCACAAGTAGCA------------------ATgagattgggtgattgtctggctaattg-tatcaatgtagtctgcagacagtaattcagaagagg-aaaaaacctttaggatttaacatattgagtttgtctctctattgatcaaattaattggatgatttccaaatctccactttactgagtattttattgaca-----------------caa-----ccTTTGACCGAGAAGCATATAGATTTCAAAGTGCCTGTTCTTATAGACAGAAAATCAATTTAGTTATTTTAATAAATATAATTGTTTGAGCAAAATAGTTGGCTGAACAATTAAAGGATAGCTGCTATCATTACTTGGTATGTATAGGACAGGAAACTGGAATTGAACATG---------GAG-----------GAAACAGATTTTCAAGACTGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1741045 616 +   8933513 ATCTCTGC---------------------------------------------ATTTGG---AA--------ATGCT-AAAG------------TC-----------AAAATTGTATA-----TGATTATAAACGTGATCTAAAA-------CATTCATATTACTT----GGCA-TATTCTTATAGTCAA-AGTCAAATTGTTTAT-----TAA-----TTAGCTATAATTCAGTTATAGCACACA-TTTTTTTGA----------AATTGCTTTACTTCTCCACTGATCACTAGTGGTAGAGAAAGGGTCACAATTTGAGAAAACCTGTCATGTCTACCAATGGCTCATAAC----------------ACC-ACAGAGCACAAGTAGCA------------------ATGACATGGggtgattgtctggctaattg-tatcaatgtagtctgcagacagtaattcagaagagg-aaaaaacctttaggatttaacatattgagtttgtctctctattgatcaaattaattggatgatttccaaatctccactttactgagtattttattgaca-----------------caa-----ccTTTGACCGAGAAGCATATAGATTTCAAAATGCCTGTTCTTATAGACAGAAAATCAATTTAGCTATTTTAATAAATATAATTGTTTGAGCAAAATAGTTGACTGAACAATTAAAGGATAGCTGCTATCATTACTTGGTACGTATAGGACAGGAAACTAGAATTAAACATG---------GAG-----------GAAACAGATTTTCAAGACTGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139876059 614 + 163208435 ATCTCTGT---------------------------------------------ATTTGG---AA--------ATGCT-AAAG------------TC-----------AAAATTGTATA-----TGATTAGAAACGTGATCTACAA-------CATTCATATTACTT----GGCA-TATTCTTATAGTCAA-AGTCAAATTGTTTAT-----TAA-----TTAGCTATAATTCAGTTAAAGCACACA-TTTTTTTGA----------AATTGCTTTACTTCTCCACTGATCACTAGTGGTAGAGAAAGGGTCACAATTTGAGAAAACCTGTCATGTCTACCAATGGCTCATAAC----------------ACC-ACGGAGCACAAGTAGCA------------------ATGAGATGGGGTGATTGTCTGGCTAATTG-TATCAATGTAGTC-GCAGACAGTAATTCAGAAGAGG-AAAAAACCTTTAGGATTTAACATATTGAGTTTGTCTCTCTATT-ATCAAATTAATTGGATGATTTCCAAATCTCCGCTTTACTGAGTATTTTATTGACA-----------------CAA-----CCTTTGACCGAGAAGCATATAGATTTCAAAATGCCTGTTCTTATAGACAGAAAATCAATTTAGTTATTTTAATAAATATAATTGTTTGAGCAAAATAGTTGGCTGAACAATCAAAGGATAGCTGCTATCATTACTTTGTATGTATAGGACAGGAAACTGGAATTGAACATG---------GAG-----------GAAACAGATTTTCAACACTGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122860699 624 + 180051392 ATCTCTGC---------------------------------------------ATTTGG---AA--------ATGCT-AAAG------------TC-----------AAAATTGTATG-----TGATAATAAACATGACCTAAAA-------CATTCATATTACTT----GGCA-TATTCTTATAGTCAA-AGTAAAATTGTTTAT-----TAA-----TTAGCTACAATTCAGTTAAAGCACACA-TTTTTTTGA----------AATTGCTTTACTTCTCCACTGATCACTAGTGGTAGAGAAAGGGTCACAATTTGAGAAAACCTGTCATGTCTACCAATGGCTCATCACACTGAGGAGT----AAACC-ATGGAGCACAAGTAGCA------------------ATgagatgtggtgattgtctggctaattg-tatcaatgtagtctgcagacagtaattcagaagagg-aaaaatcctttaggatttaacatactgagtttgcctctctattgatcaaattaattggatgatttccaaatctccactttactgagtattttattgaca-----------------caa-----ccTTTGACCGAGAAGCATATAGATTTCAAAATGCCTGTTCTTATAGACAGGAAATCAATTTGGTTATTTTAATAAATATAA----TTGAGCAAAATAGTTGGCTGAACAATTAAAGGATAGCTGCTATCATTACTTGGTTTGCATAGGACAGGAAAGTGGAATTGAACATG---------GAG-----------GAAACAGATTTTCAACACTGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124284315 624 + 181584905 ATCTCTGC---------------------------------------------ATTTGG---AA--------ATGCT-AAAG------------TC-----------AAAATTGTATG-----TGATAATAAACATGACCTAAAA-------CATTCATATTACTT----GGCA-TATTCTTATAGTCAA-AGTAAAATTGTTTAT-----TAA-----TTAGCTACAATTCAGTTAAAGCACACA-TTTTTTTGA----------AATTGCTTTACTTCTCCACTGATCACTAGTGGTAGAGAAAGGGTCACAATTTGAGAAAACCTGTCATGTCTACCAATGGCTCATCACACTGAGGAGT----AAACC-ATGGAGCACAAGTAGCA------------------ATGAGATGTGGTGATTGTCTGGCTAATTG-TATCAATGTAGTCTGCAGACAGTAATTCAGAAGAGG-AAAAATCCTTTAGGATTTAACATATTGAGTTTGCCTCTCTATTGATCAAATTAATTGGATGATTTCCAAATCTCCACTTTACTGAGTATTTTATTGACA-----------------CAA-----CCTTTGACCGAGAAGCATATAGATTTCAAAATGCCTGTTCTTATAGACAGGAAATCAATTTGGTTATTTTAATAAATATAA----TTGAGCAAAATAGTTGGCTGAACAATTAAAGGATAGCTGCTATCATTACTTGGTTTGTATAGCACAGGAAAGTGGAATTGAACATG---------GAG-----------GAAACAGATTTTCAACACTGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16282673 624 +  18395747 ATCTCTGC---------------------------------------------ATTTGG---AA--------ATGCT-AAAG------------TC-----------AAAATTGTATG-----TGATAATAAACATGACCTAAAA-------CATTCATATTACTT----GGCA-TATTCTTATAGTCAA-AGTAAAATTGTTTAT-----TAA-----TTAGCTACAATTCAGTTAAAGCACACA-TTTTTTTGA----------AATTGCTTTACTTCTCCACTGATCACTAGTGGTAGAGAAAGGGTCACAATTTGAGAAAACCTGTCATGTCTACCAATGGCTCATCACACTGAGGAGT----AAACC-ATGGAGCACAAGTAGCA------------------ATgagatgtggtgattgtctggctaattg-tatcaatgtagtctgcagacagtaattcagaagagg-aaaaatcctttaggatttaacatattgagtttgcctctctattgatcaaattaattggatgatttccaaatctccactttactgagtattttattgaca-----------------caa-----ccTTTGACCAAGAAGCATATAGATTTCAAAATGCCTGTTCTTATAGACAGGAAATCAATTTGGTTATTTTAATAAATATAA----TTGAGCAAAATAGTTGGCTGAACAATTAAAGGATAGCTGCTATCATTACTTGGTTTGTATAGGACAGGAAAGTGGAATTGAACATG---------GAG-----------GAAACAGATTTTCAACACTGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5295612 624 +  26952557 ATCTCTGC---------------------------------------------ATTTGG---AA--------ATACT-AAAG------------TC-----------AAAATTGTATG-----TGATTATAAACATGACCTAAAA-------CATTCATATTACTT----GGCA-TATTCTTATAGTCAA-AGAAAAATTGTTTAT-----TAA-----TTAGCTACAATTCAGTTAAAGCACACA-TTTTTTTGA----------AATTGCTTTACTTCTCCACTGATCACTAGTGGTAGAGAAAGGGTCACAATTTGAGAAAACCTGTCATGTCTACCAATGGCTCATCACACTGAGGAGT----AAACC-ATGGAGCACAAGTAGCA------------------ATgagatgtggtgattgtctggctaattg-tatcaatgtagtctgcagacagtaattcagaagagg-aaaaatcctttaggatttaacatattgagtttgcctctctattgatcaaattaattggatggtttccaaatctccactttactgagtattttattgaca-----------------caa-----ccTTTGACCGAGAAGCATATAGATTTCAAAATGCCTGTTCTTATAGACAGAAAATCAATTTGGTTATTTTAATAAATATAA----TTGAGCAAAATAGTTGGCTGAACAATTAAAGGATAGCTGCTATCATTACTTGGTTTGTATAGGACAGGAAAGTGGAATTGAACATG---------GAG-----------GAAACAGATTTTCAACACTGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28395923 625 +  82825804 ATCTCTGC---------------------------------------------ATTTGG---AA--------ATGCT-AAAG------------TC-----------AAAATTGTATG-----TGATTATAAACATGACCTAAAA-------CATTCATATTACTT----GGCA-TATTCTTATAGTCAA-AGTAAAATTGTTTAT-----TAA-----TTGGCTATAATTCAGTTAAAGCGCACATTTTTTTTGA----------AATTGCTTTACTTCTCCACTGATCACTAGTGGTAGAGAAAGGGTCACAATTTGAGAAAACCTGTCATGTCTACCAATGGCTCATCACACTGAGGAGT----AAACC-ATGGAGCACAAGTAGCA------------------ATGAGATGTGGTGATTGTCTGGCTAATTG-TATCAATGTAGTCTGCAGACAGTAATTCAGAAGAGG-AAAAAACGTTTAGGATTTAACATATTGAGTTTGCCTCTCTATTGATCAAATTAATTGGATGATTTCCAAATCTCCACTTTACTGAGTATTTTATTGACA-----------------TAA-----CCTTTGACCGAGAAGCATATAGATTTCAAAATGCCTGTTCTTATAGACAGAAAATCAATTTGGTTATTTTAATAAATATAA----TTGAGCAAAATAGTTGGCTGAACAATTAAAGGATAGCTGCTATCATTACTTGGTTTGTATAGGACAGGAAAGTGGAATTGAACATG---------GAG-----------GAAACAGATTTTCAACACTGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4065624 623 -   4237731 ATCTCTGC---------------------------------------------ATTTGG---AA--------ATACT-AAAG------------TC-----------AAAATTGTATG-----TGATTATAAACATGACCTAAAA-------CATTCATATTACTT----GGCA-TATTCTTATAGTCAA-AGTAAAATTGTTTAT-----TAA-----TTAG-TACAATTCAGTTAAAGCACACA-TTTTTTTGA----------AATTGCTTTACTTCTCCACTGATCACTAGTGGTAGAGAAAGGGTCACAATTTGAGAAAACCTGTCATGTCTACCAATGGCTCATCACACTGAGGAGT----AAACC-ATGGAGCACAAGTAGCA------------------ATgagatgtggtgattgtctggctaattg-tatcaatgtagtctgcagacagtaattcagaagagg-aaaaatcctttaggatttaacatattgagtttgcctctctattgatcaaattaattggatgatttccaaatctccactttactgagtattttattgaca-----------------caa-----ccTTTGACCGAGAAGCATATAGATTTCAAAATGCCTGTTCTTATAGACAGAAAATCAATTTGGTTATTTTAATAAATATAA----TTGAGCAAAATAGTTGGCTGAACAATTAAAGGATAGCTGCTATCATTACTTGGTTTGTATAGGACAGGAAAGTGGAATTGAACATG---------GAG-----------GAAACAGATTTTCAACACTGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      334402 624 -   1175262 ATCTCTGC---------------------------------------------ATTTGG---AA--------ATGCT-AAAG------------TC-----------AAAATTGTATG-----TGATTATAAACATGACCTAAAA-------CATTCATATTACTT----GGCA-TATTCTTATAGTCAA-AGTAAAATTGTTTAT-----TAA-----TTAGCTATAATTCAGTTAAAGCACACA-TTTTTTTGA----------AATTGCTTTACTTCTCCACTGATCACTAGTGGTAGAGAAAGGGTCACAATTTGAGTAAACCTGTCATGTCTACCAATGGCTCATCACACTGAGGAGT----AAACC-ATGGAGCACAAGTAGCA------------------ATgagatgtggtgattgtctggctaattg-tatcaatgcagtctgcagacagtaattcagaacagg-aaaaaacctttaggatttaacatattgagtttgcctctctattgatcaaattaattggatgatttccaaatctccactttactgaatattttattgaca-----------------caa-----ccTTTGACCAAGAAGCATATAGATTTCAAAATGCCTGTTCTTATAGACAGAAAATCAATTTGGTTATTTTAATAAATATAA----TTGAGCAAAATAGTTGGCTGAACAATTAAAGGATAGCTGCTATCATTACTTGGTTTGTATAGGACAGGAAAGTGGAATTGAACATG---------GAG-----------GAAACAGATTTTCAACACTGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123680815 620 - 204313951 ATCTCTGC---------------------------------------------ATTTGG---AA--------ATGTT-AAAG------------TC-----------AAAATTACATA-----TGATTATTCTTGTGATCTAGAA-------CATTCTTATTACTT----GGCA-TATTCTTATACTCAA-GGTCGAGTTGTTTAT-----TAA-----TTAGCTATGATTCAGTGAAAGCACACA-TTTCCTTGA----------AATTGCTTTGCTTCTCCACTGATCACTAGCAGTGGAGAAAGGGTCACAATTTGAGAAAAACTGCCATGTCTACCAATGGCTCATAACACTGAGGAGT-------------GAACACAAGTAGAA------------------ATGAGATGCGGTGATTATCTGGCTAATTG-TATCAATGTAGTCTGCAGACAGTAATTCAGAAGAGG-GAAAAACCTTTAGGATTTAACATATTGAGTTTGTCTCTCTACTGATCAAATTAATTGGATGATTTCCAAATCTCCACTTTACTGAGTATTTTATTGACA-----------------CAA-----CCTTTGACCGAGAAGAATATGGATTTCAAAATGCCTGTTTTTATAGACAGAAAATCAATTTTGTTATTTTAATAAATATAATCGTTTGAGCAAAATAGTTGGCTGAACAATGAAAGGATAGCTGCTATGATTACTTGGTATGTATAGGACAGGAAGGTGGAACTGAACATG---------GAG-----------GAAACAAATTTTCAACACTGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55724651 626 -  71252344 ATCTCTGC---------------------------------------------ATTTGG---AA--------ATGTTAAAAG------------TC-----------AAAATTATATG-----TGATTATTAATGTGATCTAGAA-------CATTCATATTACTT----GGCA-TATTCTTATGCTCAA-AGTCAAGTTCTTTAT-----TAA-----TTAGCTATAATTCAGTTAAAGCACACA-TTTCCTTGA----------AATTCCTTTACTT---CACTGATCACTAGCAGTAGAGAAAGAGTCACAATTTGAGAAAACCCACCATGTCTACCAATGACTCATAACACTGAGGAGT----GAACC-ATGGAACACAAGTAGAA------------------ATGAGATGTGGTGATTATCTGGCTAATTG-TATCAATGTAGTCTGCAGACAGTAATTCAGAAGAGG-AAAAAACCTTTAGGATTTAACATATTGAGTTTGTCTCTTTATTGACAAAATTAATTGGATGATTTCCAAATCTCCACTTTACTGCGTATTTTATTGACA-----------------CAT-----CCTTTGACTGAGAAGAATATAGATTTCAAAATGCCTGTTTTTATAGACAGAAAATCAATTTTGTTATTTTAATAAATATAATTGTTTGAGCAAAATAGTTGACTGAACAATGAAAGGATAGCTGCTGTGATTACTCACTATGTATAGGACAGGAAAGTGGAACTGAACATG---------GAG-----------GAAACAAATTTTCAACACTGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       27409 620 -   3089952 ATCTCTGC---------------------------------------------ATTTGG---AA--------ATGTT-AAAG------------TC-----------AAAATTGTATA-----TGATTATTAATGTGATCTAAAA-------CATTCATATTACTT----GGCA-TATTCTTATACTCAA------AGTTGTTTAT-----TAA-----TTAGCTATAATTCAGTTAAAGCACACA-TTTCCTTAA----------AATTGCTTTACTTCTCCACTGACCACTAGCAGTAGAGAAAGGGTCACAATTTGAGAAAACCTGCCATGTCTACCAATGGCTCATAACACTGAGGAGT----GAACC-ATGGAACGCaagtagaa------------------atgagatgtggtgattatctggctaattgttatcaatgtagtctgcagacagtaattcagaagagg-aaaaaacctttacgatttaacatattgagtttgtc----tattgatcaaattaattggatgatttccaaatctccactttactgagtattttattgaca-----------------caa-----ccTTTGACCGAGAAGAATATAGATTTCAAAATGCCTGTTTTTATAGACAGGAAATCAATTTTGTTATTTTAATAAATATAATTGTTTGAGCAAAAGAGTTGGCTGAACAATGAAAGGATAGCTGCTATGATTGCTCGGTATGTATAGGACAGGAAAGTGGAACTGAACATG---------GAG-----------GAAACAAATTTTCAACACTGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13228876 625 -  42888418 ATCTCTGC---------------------------------------------ATTTGG---AA--------ATGTT-AAAG------------TC-----------AAAATTGTATA-----TGATTATTAATGTGATCTAGAA-------CATTCATATTACTT----GGCA-TATTCTTATACTCAA-AGTCAAGTTGTTTAT-----TAA-----TTAGCTATAATTCAGTTAAAGCACACA-TTTCCTTGA----------AATTGCTTTACTTCTCCACTGATCACTAGCAGTAGAGAAAGGGTCACAATTTGAGACAACCTGCCATGTCTACCAATGGCTCATAACACTGAAGAGT----GAACC-ATGGAACACaagtagaa------------------atgagatgtggtgattatctagctaattg-tatcaatgtagtctgcagacagaaattcagaagagg--aaaaacctttaggatttaacatattgagtttgtctctctattgatcaaattaattggatgatttccaaatctccactttactgagtatttcattgaca-----------------caa-----ccTTTGACTGAGAAGAATATAGATTTCAAAATGCCTGTTTTTATAGACAGAAAATCAA--TTGTTATTTTAATAAATATAACTGTTTGAGCAAAATAGTTGGCTGAACAATGAAAGGATAGCTGCTATGATTACTCGGTATGTATAGGACAGGAAAGTGGAACTGAACATG---------GAG-----------GCAACAAATTTTCAACACTGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60566869 629 + 108143057 ATCTCTGC---------------------------------------------ATTTGGTGAAA--------ATGTT-AAAG------------TC------------AGATTATATA-----CCATTATAAATGAGATCTAGAA-------CATCCATATTAATT----GGTG-TATTCTTATAATCAA-AGTCAAGTACCTTACCAGAATAA-----TTAGTTATAATTTAGTTAAAACACACA-TTTCCTTGA----------AATCGCTTTACTTCTCAATTGTTCACTCCTTGTAGAGAAAGGGTTACAATTTGAGGAAA-CTGTCATGTTTACCAATTACTCATAACACTGAAGATT----GAACCAATGGCATACAAGTAGCA------------------GTgagatgtggtgattatctgactaattg-tatcaatgtagtctgcagacagtaattcagaagagg-aaaaaacctttaggatttaacatattgagtttg----tctattgatcaaattaattggatgatttccaaatctccactttactgagtattttattgaca-----------------taa-----ccTTTGACCGAGAAGCATATAGATTTCAAAATGTCTTTT-TTATAGACAGAAAATCAATTTGGTTATTTTAATAAATATAATTGTTTGAGCAAAACAGTTGGCCGGGCAATTAAAGGATATCTGCTGTCATTGCTGGGTGGGTA-GGGGCAGGGAAGAGGAGTGGAACATG---------GAC-----------GAAATGTACTTTCAACACTGC
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3600465 630 +  11683526 ATCTTTGA---------------------------------------------ATTTGATGAAA--------ATGTT-AGAG------------TC------------AAATTGTATA-----TCATTACTGATGTGATCTAGAA-------CATCCATATTAATT----GGTG-TATTCTTATAATCAA-AGTGAAGTACCTTACTAGAGTAA-----TTAGTTATAAGTCAGTTAAAACACACA-TTTCCTTGA----------AATCACTTTACTTC-----TGTTCACTCCCTGTAGAGAAAGGATCACAATTTGAGGAAACCTGCTATGTTTTCCAATTGCTTCTAACACTGAAGATT----GAACTGATGGCATACAAGTAGCA------------------GTgagatgtggtgattatctggctaattg-tatcaatgtagtctgcagacagtaattcagaagagg-aaaaatcctttaggatttaacgtattgagtttgtctctctattgatcaaattaattggatgatttccaaatctccactttactgagtattttattgaca-----------------taa-----ccTTTGACCGAGAAGCATATAGATTTCAAAATGTCTGTT-TTATAGGCAGAAAATCAATTTGGTTATATTAATAAATATAATTGTTTGGGCAAAATAGTTGGCTGGGCAATTAAAGGATATCTACTGTCATTACTGGGTGAGTATGGAGCAGGGAAGTGGAGTTGAACATG---------GAG-----------GAAACATATTTCCAACACTGG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3084334 612 +   4132165 ATCTCTGC---------------------------------------------ATTTGACGAAA--------ATGTT-AAAGTTCATCATTTCATC------------AAATGATGAAAATGTTAAGTTCTAATGTGATCTAGAA-------CATCAGTAGTAATT----GGTATTATTCTTATGATCAA-GGCCAAATACCCTACTGAAGTAA----TTTAGGTATAATT---------CACATA-TTACCTCGA----------CAATGCTTTACTTCTCAACTATTCACTACTTGTAGAAAAAGGGTCACAA-CGGAGGAAATCTGCCACATCTGCCAATGACTCATAACA----------------------------------CA------------------GTGAGATGTGGTGATGATCTGACTAATTG-TATCACCATAGCCTGCAGAT-GTAATTCAAAAGAGG--AAAATCCTTTAGGATTTAACATATTGAGTTTGTCTGTCTATTGATCAAATTAATTGGATGATTTCCAAATCTCCACTTTATAGAGTATTTTATTGACA-----------------TAA-----CCTTTGACCAAGAAACATATAGATTTTAAAATGTCTTTT-TTATAGACAGAAAATCAATTTAGTTATTTTAATAGATATAATTGTTTGAGCAAAATAGTTGCCTGGACAATTAAGGGGTATCTACTGTCATTACTTTGTGGGTATGAGGCGGGATAGTGGAGTTGAATGTG---------GAG-----------AGAACATACTTTCAACACTGG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55530352 714 +  90702639 atccttgcagacaaaaccacccatacacataaaaAGAATTTAAAGATTAAAATATTTGG---AAGAGTCCTCATGTA-AAAA------------ACACTATTTGGGGAAAATGCTAAG-----TGAGTA---GTGAAATTTAAAATTAGGTTCATTTCGACCATTTACAGGGCA-TGATTTTGTATTTAAAAACCATGTAGTTCAT-----TAGAGTGTTTAGTTAGAATTTAATTAAAACACACA-TTTCTTTTG----------AACTGATTTACATCCATGACATTCATCGGCTCTAGAGAAGCGGTCACCATCTGGGGAAA----TCACTACCTCAGTTTGCTTCTAACACTTAGGCT-------GCC-CTAGGATGCCTGCTGCATTGTGGGGTGGCTGCATTGTGGGGTGGGGAGGTTGGCAGG--------TATCAGGGTAGTGTTCACTCAGGA--TCAGAGGGGG-AAAAAACCCTTTAGGATAAATGTA-TGAATTTGCTTCTCTATTGATCAAATTAATTGGATGATTTCCAAATCTTCACCTTACTGAGTGTTTTATTGACATCTATATGTTTCTTGGCCAAAGGTTACTTTGGCCAAGAAACATATAGATTTCTAAATGACTTTTCCTATAGACAGAAAATCAATTTGGTTATGTTACTAAGTCTAA----CTGAGCAAAATAGTTGGCTGAGTAAGTG---------TATTGTCATTCAT--GTAGGTGTGAGGCAGGGAAGTAGGCATCAGCGTA---------GAA-----------GAAGTAGAGTTTTGATGCTGT
i mm10.chr18               I 171 C 0
s canFam3.chr11             14928436 649 +  74389097 AACTCTGA---------------------------------------------ACTTGTTGAGA--------ATGTT-AAAG------------TC-----------AAAATTGTCTA-----TCAATATTAAAGTCATCTAGAA-------CACTCATTCTAATT----GGCA-TATTCTTATAATTAA-AGTCAGATAGTTCTT-AGAATAA------TAGTTGTAATTCAGTTAAAA---ATA-TTTTCTTGAAGTTTCTTACAATTGCTTTATTTCTCAACTGTTCA---ACTGTAGAGAA-GGGTTACAATTTGA-ATGATCTGCGGTGCCTATCAATTGTTTACAACCCTGAAGAGTGAGCGAACC-GTGGAACACAAGCACCG------------------GTGAGACATAGTGATTGTCTGGCTGATGG-TATCAGTGTAGTCTGCACACAGTGATTCAGAAGAGGAAAAAAACCTTTAGGATTTAATACA-TGAGTTTGTCTCTCTATTGATCACATTAATTGGATGATTTCCAAATCTCCACTTTACTGAGTATTTTATTGACA-----------------TAA-----CCTTTGACCAAGAAGCATATAGATTTCAAAATGTCTTTTCTTATAGACAGAAAATCAATTTGGTCATTTTAATAAATATAATTGTTTGAGCAAAATAGTTGGCTGAGCAATTAAAGGATATCTACTGTCATTACTTGGCAGTTGTGGGGAAGGGAAGTGGCATTGAATATGGAGAAAAAAGAG-----------GAAACAGATTTTCAGCACTGA
i canFam3.chr11            C 0 I 504
s dasNov3.JH567306           2649156 654 +   3667625 ATCTCTGC---------------------------------------------ATTTGGTGGAA--------ATA-T-AAAG------------TC-----------AAAATTGTATA-----ACAATATTAAAGTGATCTAAAA-------TATTCATATTAATT----GGCA-TATTGCTATAAACAA-AGTTAGGTAGTTCATTAGAATTA-----TTAGTTCTAATTTAGTTAAAATACACA-TTTTCTTGAAGTTTCTTGTAATTGCTTTACTTCCCAACTGTTTACTAACA-TAGAGAAAGGGTCATAATTTGAGGAAAACTGTGGTGTCTACCAATTGTTTACAATACTGAGGAGT----GAACT-GTGGAGCACAAGTAGCA------------------GTGAGATGTGATAATTATCTGGCTAATTG-TACCAGTGTAATCTGCAGACAATAATTTAGAAGAGA-GAAAAACCTTTAGGATTTAGCATATTGAGTTTGTCTCTCTATTGATTCCATTAATTGGATGATTTCCAAATCTCCACTTTACTGAGTATTTTATTGACA-----------------TAA-----CCTTTGACCAAGAAGCATATAGATTTCAAAGTATCTTTT-TTATAGGCAGAAAATAAATTTGGTTATTTTAATAAATAAAATTGTTTGAATAAAATAGTTGGTTGGGCAATTAAAGGATATCTACTATATTATGTTGGTGAATATGGGGCAAGGAAGTGGAGCTGAATATG---------GAGAAAAAAGGGAAGAAACAGATTTTCACCACAAT
i dasNov3.JH567306         C 0 C 0

a score=150963.000000
s hg38.chr5_KI270796v1_alt    109487 10 +    172708 CGGTGCCATG
s panTro5.chr5             125213230 10 + 181907262 TGGTGCCATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126549920 10 + 183735486 TGGTGCCATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1741661 10 +   8933513 TGGTGCCATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139876673 10 + 163208435 TGGTGCCATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122861323 10 + 180051392 TGGTGCCATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124284939 10 + 181584905 TGGTGCCATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16283297 10 +  18395747 TGGTGCCATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5296236 10 +  26952557 TGGTGCCATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28396548 10 +  82825804 TGGTGCCATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4066247 10 -   4237731 TGGTGCCATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      335026 10 -   1175262 TGGTGCCATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123681435 10 - 204313951 TGGTGCTATG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55725277 10 -  71252344 TGGTGCTATG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       28029 10 -   3089952 TGGTGCTATG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13229501 10 -  42888418 TGGTGCTATG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60567498 10 + 108143057 TGGTGCTGTG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3601095 10 +  11683526 TGGTGCTGTG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3084946 10 +   4132165 TGGTGCTGTA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55531066  9 +  90702639 TAGC-CTTTG
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2649810 10 +   3667625 TAGTGCTCTG
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14929085 504 +  74389097 I

a score=1067518.000000
s hg38.chr5_KI270796v1_alt    109497 70 +    172708 AGGGAATAGTATTAAAGCAAAAGAACCAATATAATAATTTTGCATTTATTCAGGAATATTACATTAGAAA
s panTro5.chr5             125213240 70 + 181907262 AGGGAATGGTATTAAAGCAAAAGAACCAATATAATAATTTTGCGTTTATTCAGGAATATTACATTATAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126549930 70 + 183735486 AGGGAATGGTATTAAAGCAAAAGAACCAATATAATAATTTTGCGTTTATTCAGGAATATTACATTATAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1741671 70 +   8933513 AGGGAATGGTATTAAAGCAAAAGAACCAATATAATAATTTTGCATTTATTCAGGAATATTACATTATAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139876683 70 + 163208435 AGGGAATGGTATTAAAGCAAAAGAACCAATATAATAATTTTGCATTTATTCAGGAATATTACATTATAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122861333 70 + 180051392 AGAGAATGGTATTAAAGCAAAAGAACCAATATAATAATTTTGCATTTATGCAGGAATATTACTTTATAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124284949 70 + 181584905 AGAGAATGGTATTAAAGCAAAAGAACCAATATAATAATTTTGCATTTATGCAGGAATATTACTTTATAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16283307 70 +  18395747 AGAGAATGGTATTAAAGCAAAAGAACCAATATAATAATTTTGCATTTATGCAGGAATATTACTTTATAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5296246 70 +  26952557 AGAGAATGGTATTAAAGCAAAAGAACCAATATAATAATTTTGCATTTATGCAGGAATATTACTTTATAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28396558 70 +  82825804 AGAGAATGGTATTAAAGCAAAAGAACCAATATAATAATTTTGCATTTATGCAGGAATATTACTTTATAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4066257 70 -   4237731 AGAGAATGGTATTAAAGCAAAAGAACCAATATAATAATTTTGCATTTATGCAGGAATATTACTTTATAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      335036 70 -   1175262 AGGGAATGGTATTAAAGCAAAAGAACCAATATAATAATTTTGCATTTATGCAGGAATATTACTTTATAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123681445 70 - 204313951 AGGGAATGGGATTAAAATAAAAGAACCAATAGAATGATTTTGCATTTATGCAGAAATATTACATTATAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55725287 70 -  71252344 AGGGAATGGGATTAAAACAAAAGAACCAATAGAATAATTTTGCATTTATGCAGAAATATTATGTTTGAAA
i saiBol1.JH378106         C 0 I 1941
s cebCap1.NW_016107590v1       28039 70 -   3089952 AGGAAATGGGCTTAAAACAAAAGAACCAATAGAATAATTTTGCATTTATGCAGAAATATTACATTATAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13229511 70 -  42888418 AGGGAATGGGATTAAAACAAAAGAACCAATAGAATAATTTTGCATTTATGCAGAAATATTACATTATAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60567508 70 + 108143057 CGGAATTGGTGTTAAAGCAGCAGAACCAATATGATAATTTTGAGTTTATGCAGGAACGTTACATTATAAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3601105 65 +  11683526 GGGAATTGATGTTAAAGCAACAGAACCAATATAATAATTTTGAGTTTATGCAGGAATG-----TTATAAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3084956 61 +   4132165 AGGAAATGGTGTTAAAA----AGAACTAGTATAATAATTTTGAGTCTATGTAGGAATG-----TTACAGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55531075 70 +  90702639 ACGGAAAAGCTTGAAAGCCCAAGAATCAACTTGGAAAATTTGAGTTCATGCAGGAATGTTGTATGATAAA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14929589 70 +  74389097 aaGAAATGGTATTAAAGCAAAAGAACCAGCATGATAATTTTGACTTTATGTGGGAGTGCTGCATTATAAA
i canFam3.chr11            I 504 C 0
s dasNov3.JH567306           2649820 67 +   3667625 AGGAAATGATATTACAGCAGAAGAATGATTAGGATAATTTTGAATTTATGCAGGAATGTC---TTATTCA
i dasNov3.JH567306         C 0 C 0

a score=-11837.000000
s hg38.chr5_KI270796v1_alt    109567 3 +    172708 -AAC
s panTro5.chr5             125213310 3 + 181907262 -AAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126550000 3 + 183735486 -AAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1741741 3 +   8933513 -AAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139876753 3 + 163208435 -AAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122861403 3 + 180051392 -AAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124285019 3 + 181584905 -AAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16283377 3 +  18395747 -AAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5296316 3 +  26952557 -AAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28396628 3 +  82825804 -AAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4066327 3 -   4237731 -AAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      335106 3 -   1175262 -AAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123681515 3 - 204313951 -AAC
i calJac3.chr2             C 0 I 1536
s cebCap1.NW_016107590v1       28109 3 -   3089952 -AAC
i cebCap1.NW_016107590v1   C 0 I 2405
s aotNan1.NW_018505940v1    13229581 3 -  42888418 -AAC
i aotNan1.NW_018505940v1   C 0 I 1542
s micMur3.chr12             60567578 1 + 108143057 --A-
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3601170 1 +  11683526 --A-
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3085017 1 +   4132165 --A-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55531145 3 +  90702639 -AAT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14929659 3 +  74389097 -AAC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2649887 3 +   3667625 TGG-
i dasNov3.JH567306         C 0 C 0
e saiBol1.JH378106          55725357 1941 -  71252344 I

a score=36290.000000
s hg38.chr5_KI270796v1_alt    109570 2 +    172708 AG
s panTro5.chr5             125213313 2 + 181907262 AG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126550003 2 + 183735486 AG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1741744 2 +   8933513 AG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139876756 2 + 163208435 AG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122861406 2 + 180051392 AG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124285022 2 + 181584905 AG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16283380 2 +  18395747 AG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5296319 2 +  26952557 AG
i cerAty1.NW_012002512v1   C 0 C 0
s manLeu1.NW_012103321v1     4066330 2 -   4237731 AG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      335109 2 -   1175262 AG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123683054 2 - 204313951 AG
i calJac3.chr2             I 1536 C 0
s cebCap1.NW_016107590v1       30517 2 -   3089952 AG
i cebCap1.NW_016107590v1   I 2405 C 0
s aotNan1.NW_018505940v1    13231126 2 -  42888418 AG
i aotNan1.NW_018505940v1   I 1542 C 0
s micMur3.chr12             60567579 2 + 108143057 AG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3601171 2 +  11683526 AG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3085018 2 +   4132165 AG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55531148 2 +  90702639 AG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14929662 2 +  74389097 AG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2649890 2 +   3667625 AG
i dasNov3.JH567306         C 0 C 0
e chlSab2.chr23             28396631 0 +  82825804 C
e saiBol1.JH378106          55725357 1941 -  71252344 I

a score=276891.000000
s hg38.chr5_KI270796v1_alt    109572 20 +    172708 AGTAGACTTCAG----------ATGTTTAT
s panTro5.chr5             125213315 20 + 181907262 AGTAGACTTCAG----------ATGTTTAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126550005 20 + 183735486 AGTAGACTTCAG----------ATGTTTAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1741746 20 +   8933513 AGTAGACTTTAG----------ATGTTTAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139876758 20 + 163208435 AGTAGGCTTCAG----------ATGTTTAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122861408 20 + 180051392 AGTAGACTTCAG----------ATGTTTAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124285024 20 + 181584905 AGTAGACTTCAG----------ATGTTTAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16283382 20 +  18395747 AGTAGACTTCAG----------ATGTTTAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5296321 20 +  26952557 AGTAGACTTCAG----------ATGTTTAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28396631 20 +  82825804 AGTAGACTTCAG----------ATGTTTAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4066332 20 -   4237731 AGTAGACTTCAG----------ATGTTTAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      335111 20 -   1175262 AGTAGACTTCAG----------ATGTTTAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123683056 20 - 204313951 AGTAGACTTTAG----------ATGTTTAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55727298 20 -  71252344 AGTAGACTTTAG----------ATGTTTAT
i saiBol1.JH378106         I 1941 C 0
s cebCap1.NW_016107590v1       30519 20 -   3089952 AGTAGACTTTAG----------ATGTTTAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13231128 20 -  42888418 AGTAGACTTTAG----------ATGTTTAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60567581 20 + 108143057 AGTAGACTTTAG----------ATGTTTAT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3601173 20 +  11683526 AGTAGACTTTAG----------ATGTTTAT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3085020 19 +   4132165 AGTAGACTTTAG----------AGATTTA-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55531150 30 +  90702639 GATCCCCTTGAGGCCATTGGTCATTTTTAT
i mm10.chr18               C 0 I 150
s canFam3.chr11             14929664 19 +  74389097 AGTAGA-TTTGG----------ACATTACT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2649892  7 +   3667625 AATAGAT-----------------------
i dasNov3.JH567306         C 0 C 0

a score=611270.000000
s hg38.chr5_KI270796v1_alt    109592  64 +    172708 TGTACATTTT-TATGTA------------ATTC-------------------------------AGTAACAGATA-------------------------AGACAAAATATGAATTTTATAC---------------TCTTACTTCAA
s panTro5.chr5             125213335  60 + 181907262 TGTACATTTT-TATGTA------------ATTC-------------------------------AGTAACAGATA-------------------------AGACAAAATATGAATTTTATAC---------------TCTT----CAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126550025  60 + 183735486 TGTACATTTT-TATGTA------------ATTC-------------------------------AGTAACAGATA-------------------------AGACAAAATATGAATTTTATAC---------------TCTT----CAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1741766  64 +   8933513 TGTACATTTT-TATGTA------------ATTC-------------------------------AGTAACAGATA-------------------------AGACAAAATATGAATTTTATAC---------------TCTTACTTCAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139876778  62 + 163208435 TATACATTTT-TATGTA------------ATTC-------------------------------AGTAAC--ATA-------------------------AGACAAAATATGAATTTTATAC---------------TCTTACTTCAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122861428  60 + 180051392 TATACATTTT-TATGTA------------ATTC-------------------------------AGTAACAGATA-------------------------AGACAAAATATGAATTTTGTAT---------------TATT----CAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124285044  60 + 181584905 TATACATTTT-TATGTA------------ATTC-------------------------------AGTAACAGATA-------------------------AGACAAAATATGAATTTTGTAT---------------TATT----CAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16283402  60 +  18395747 TATACATTTT-TATGTA------------ATTC-------------------------------AGTAACAGATA-------------------------AGACAAAATATGAATTTTCTAT---------------TATT----CAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5296341  60 +  26952557 TATACATTTT-TATGTA------------ATTC-------------------------------AGTAACAGATA-------------------------AGACAAAATATGAATTTTGTAT---------------TATT----CGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28396651  58 +  82825804 TATACATTTT-TATGTA------------ATTC-------------------------------AGTAACAGATA-------------------------AG--AAAATATGAATTTTATAT---------------TATT----CAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4066352  60 -   4237731 TATACATTTT-TATGTA------------ATTC-------------------------------AGTAACAGATA-------------------------AGACAAAATATGAATTTTGTAT---------------TATT----CAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      335131  60 -   1175262 TATACATTTT-TATGTA------------ATTC-------------------------------AGTAACAGATA-------------------------AGACAAAATATGAATTTTATGT---------------TATT----CAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123683076  61 - 204313951 TATACA-TTT-CATGTA------------ATTC-------------------------------AGTAAT--ATA-------------------------AGACAAAATATGAATTTTATAC---------------TTTCACTTCAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55727318  64 -  71252344 TATACATTTT-CATGTA------------ATTC-------------------------------AGTAACAAATA-------------------------TGACAAAATATGAATTTCATAC---------------TTTCACCTCAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       30539  64 -   3089952 TATACATTTT-CATGTA------------ATTC-------------------------------AGTAACAGATA-------------------------AGACAAAATATGAATTTTATAC---------------TTTCACTTCAA
i cebCap1.NW_016107590v1   C 0 I 321
s aotNan1.NW_018505940v1    13231148  64 -  42888418 TATACATTTT-CATGTA------------ATTC-------------------------------AGTAACAGATA-------------------------AGACACAATGTGAATTTTATAC---------------ATTCACTTCAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60567601  59 + 108143057 TGTACATTTTAAACGCA------------ATTC-------------------------------AACAGC------------------------------AGACAAAATATGAATTT-ATAC---------------TCCTAACTCAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3601193  59 +  11683526 TGTACATTTTAAATGGA------------ATTC-------------------------------AACAGC------------------------------AGACAAAATATGAATTT-ACAC---------------TCCTAACTCAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3085039  57 +   4132165 TATACATTTTAAATGCA------------ATCG-------------------------------AGTAGC------------------------------ATGCAGAATATGAATTT-GGAC---------------TC--AGTTCAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55531330 143 +  90702639 tgtatgtgtg-tatgtatgtgaacctcctatttgaagatctcagaagagtgtgttagaaactagagttacagacagttagaaacttccgtgtagtgctgggaaccaaatttgaatcttctgcaagagcaagaaactgtctt----taa
i mm10.chr18               I 150 I 5
s canFam3.chr11             14929683  65 +  74389097 TATAAATTTTTTATACA------------AATC-------------------------------AATAGCAGATA-------------------------AGACAAAATATGAATTTTAGCA---------------CCTTAATTAGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2649899  39 +   3667625 ------TTTC-TATACA------------AGTC-------------------------------CATAGTAAATA-------------------------A-------------------AT---------------TCCTAATTCAA
i dasNov3.JH567306         C 0 C 0

a score=6462812.000000
s hg38.chr5_KI270796v1_alt    109656 454 +    172708 AGAAACATTT--------------------TCTTGAGAAGACA----------------------------------------------------------------------------------------ATGATTAAGTTGTCATTAGAAGACT--ATCAAGGCTATG--------CTGACTTTTTCAAGATGGCATGGGTTAGTCATAGAgagccagacttcttacgctggaac--ctcagctttacctcttactgctcatttagcttctctgtgtctcagttt-cctcttttgcaaaattag-aaaaataatggcacttgtcttataaagtggccgtgatgat--gtagta-agttaacagatagagaagtaagttaacgcat-tgaaatgaa-cac-ttagaggagaaagcactcaataaattttagtgatttttAT-GTTCTCATCTTGAAAGAACAAATATATACTGTATTCATTTCCTAGTGAATTATCATAATGTCCT-AAAAGCAACTTTCTAGGACATAATTTTAAGTTAAAAATGTTCA----TTTGATAGTTTTGATCATTTTAGCTTTCATTTC
s panTro5.chr5             125213395 456 + 181907262 AGAAACATTT--------------------TCTTGAGAAGACA----------------------------------------------------------------------------------------ATGATTAAGTTGTCATTAGAAGACTGTATCAAGGCTATG--------CTGACTTTTTCAAGATGGCATGGGTTAGTCATAGAgagccagacttcttacgctggaac--ctcagctttacctcttactgctcatttagcttctctgtgtctcagttt-ccacttttgcaaaattag-aaaaataatggcacttctcttataaagtggctgtgatgat--gtagta-agttaacagatagagaagtaagttaacacac-tgaaatgaa-cac-ttagagaagaaagcactcaataaattttagtgatttttAT-GTTCTCATCTTGAAAGAACAAATATATACTGTAGTCATTTCCTAGTGAATTATCATAATGTCCT-AAAAGCAACTTTCTAGGACATAATTTTAAGTTAAAAATGTTCA----TTTGATAGTTTTGATCATTTTAGCTTTCATTTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126550085 456 + 183735486 AGAAACATTT--------------------TCTTGAGAAGACA----------------------------------------------------------------------------------------ATGATTAAGTTGTCATTAGAAGACTGTATCAAGGCTATG--------CTGACTTTTTCAAGATGGCATGGGTTAGTCATAGAgagccagacttcttacgctggaac--ctcagctttacctcttactgctcatttagcttctctgtgtctcagttt-ccacttttgcaaaattag-aaaaataatggcacttctcttataaagtggctgtgatgat--gtagta-agttaacagatagagaagtaagttaacacac-tgaaatgaa-cac-ttagagaagaaagcactcaataaattttagtgatttttAT-GTTCTCATCTTGAAAGAACAAATATATACTGTAGTCATTTCCTAGTGAATTATCATAATGTCCT-AAAAGCAACTTTCTAGGACATAATTTTAAGTTAAAAATGTTCA----TTTGATAGTTTTGATCATTTTAGCTTTCATTTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1741830 456 +   8933513 AGAAACATTT--------------------TCTTGAGAAGACA----------------------------------------------------------------------------------------ATGATTAAGTTGTCATTAGAAGACTGTATCAAGGCTATG--------CTGACTTTTTCAAGATGGCATGGGTTAGTCATAGAgagccagacttcttacgctggaac--ctcagctttacctcttactgctcatttagcttctctgtgtctcagttt-cctcttttgcaaaattag-aaaaataatggcacttctcttataaagtggctgtgatgat--gtagta-agttaacagatagagaagtaagttaacacat-tgaaatgaa-cac-ttagagaagaaagcactcaataaattttagtgatttttAT-GTTCTCATCTTGAAAGAACAAATATATACTGTATTCATTTCCTAGTGAATTATCATAATGTCCT-AAAAGCAACTTTCTAGGACATAATTTTAAGTTAAAAATGTTCA----TTTGATAGTTTTGATCATTTTAGCTTTCATTTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139876840 456 + 163208435 AGAAACATTT--------------------TCTTGAGAAGACA----------------------------------------------------------------------------------------ATGATTACGTTGTCATTAGAAGACTGTATCAAGGCTATG--------CTGACTTTTTCaagattgcatgggttaatcattgagagccagacttcttacgctggaac--ctcagctttacctcttactagtcatttagcttctctgtgtctcagttt-cctcttttgcaaaattag-aaaaataatggcacttctcttataaagtggctgtgatgat--atagta-agttaacagatagagaagtaagttaacacat-taaaatgaa-cac-ttagagaagaaagcactcaataaattttagtgattattat-GTTCTTATCTTGAAAGAACAAATATATGCTGTATTCATTTCCTAGTGAATTATCATAATGTCCT-AAAAGCAATTTTCTAGGACATAATTTTAAGTTAAAAATATTCA----TTTGATAGTTTTGATCATTTTAGCATTCATTTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122861488 449 + 180051392 AGAAATATTT--------------------TCTTGAGAAGACA----------------------------------------------------------------------------------------ATGATTAAGTTGTCATTAGAAGACTGTACCAAGGCTATG--------CTGACTTTTTCAAGATGGCATGGGTTAGTCATTGAgagccagacttcttatgctggaac--ctcaactttacctcttactagtcatttagcttctctgtgtctcagttt-tctcttttgcaaacttag-aaaaataatggcacttctcttataaagtgactgtgatgat-----gta-agttaac----aaagaagtaagttaactcat-tgaaatgaa-tac-ttagagaggaaaatgcccaataaattttagtgattattAT-GTTCTCATCTTGAAAGAACAAATATATACAGTATTCATTTCCTAGTGAATTATCATAATGTCCT-AAAACCAACTTTCTAGGATATAATTTTAAGTTAAAAATGTTCA----TTTGAGAGTTTTGATCATTTTAGCATTCATTTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124285104 449 + 181584905 AGAAATATTT--------------------TCTTGAGAAGACA----------------------------------------------------------------------------------------ATGATTAAGTTGTCATTAGAAGACTGTACCAAGGCTATG--------CTGACTTTTTCAAGATGGCATGGGTTAGTCATTGAgagccagacttcttatgctggaac--ctcaactttacctcttactagtcatttagcttctctgtgtctcagttt-tctcttttgcaaacttag-aaaaataatggcacttctcttataaagtgactgtgatgat-----gta-agttaac----aaagaagtaagttaactcat-tgaaatgaa-tac-ttagagaggaaaatgcccaataaattttagtgattattAT-GTTCTCATCTTGAAAGAACAAATATATACAGTATTCATTTCCTAGTGAATTATCATAATGTCCT-AAAACCAACTTTCTAGGATATAATTTTAAGTTAAAAATGTTCA----TTTGAGAGTTTTGATCATTTTAGCATTCATTTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16283462 449 +  18395747 AGAAATATTT--------------------TCTTGAGAAGACA----------------------------------------------------------------------------------------ATGATTAAGTTGTCATTAGAAGACTGTACCAAGGCTATG--------CTGACTTTTTCAAGATGGCATGGGTTAGTCATTGAgagccagacttcttatgctggaac--ctcaactttacctcttactagtcatttagcttctctgtgtctcagttt-tctcttttgcaaacttag-aaaaataatggcacttctcttataaagtgactgtgatgat-----gta-agttaac----aaagaagtaagttaactcat-tgaaatgaa-tac-ttagagaggaaaatgcccaataaattttagtgattattAT-GTTCTCATCTTGAAAGAACAAATATATACAGTATTCATTTCCTAGTGAATTATCATAATGTCCT-AAAACCAACTTTCTAGGATATAATTTTAAGTTAAAAATGTTCA----TTTGAGAGTTTTGATCATTTTAGCATTCATTTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5296401 449 +  26952557 AGAAATATTT--------------------TCTTGAGAAGACA----------------------------------------------------------------------------------------ATGATTAAGTTGTCATTAAAAGACTGTACCAAGGCTATG--------CTGACTTTTTCAAGATGGCATGGGTTAGTCATTGAgagccagacttcttatgctggaac--ctcaactttacctcttactagtcttttagcttctctgtgtctcagttt-tctcttttgcaaacttag-aaaaataatggcacttctcttataaagtgactgtgatgat-----gta-agttaac----aaagaagtaagttaactcat-tgaaatgaa-tac-ttagagaagaaaatgcccaataaattttagtgattattAT-GTTCTCATCTTGAAAGAACAAATATATACAGTATTCATTTCCTAGTGAATTATCGTAATGTCCT-AAAACCAACTTTCTAGGATATAATTTTAAGTTAAAAATGTTCA----TTTGAGAGTTTTGATCATTTTAGCATTCATTTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28396709 449 +  82825804 AGAAATATTT--------------------TCTTGAGAAGACA----------------------------------------------------------------------------------------ATGATTAAGTTATCATTAGAAGACTGTACCAAGGCTATG--------CTGACTTTTTCAAGATGGCATGGGTTAGTCATTGAgagccagacttcctatgctggaac--ctcaactttacctcttactagtcatttagcttctctgtgtctcagttt-tctcttttgcaaacttag-aaaaataatggcacttctcttataaagtgactgtgatgat-----gta-agttaac----aaagaagtaagttaactcat-tgaaatgaa-tac-ttagagaagaaaatgcccaataaattttagtgattattAT-GTTCTCATCTTGAAAGAACAAATATATACAGTATTCATTTCCTAGTGAATTATCATAATGTCCT-AAAACCAACTTTCTAGGATATAATTTTAAGTTAAAAATGTTCA----TTTGAGAGTTCTGATCATTTTAGCATTCATTTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4066412 449 -   4237731 AGAAATATTT--------------------TCTTGAGAAGACA----------------------------------------------------------------------------------------ATGATTAAGTTGTCATTAAAAGACTGTACCAAGGCTATG--------CTGACTTTTTCaagatggcatgggttagtcattgagagccagacttcttatgctggaac--ttcaactttacctcttactagtcatttagcttctctgtgtctcagttt-tctcttttgcaaacttag-aaaaataatggcacttctcttataaagtgactgtgatgat-----gta-agttaac----aaagaagtaagttaactcat-tgaaatgaa-tac-ttagagaagaaaatgcccaataaattttagtgatgattAT-GTTCTCATCTTGAAAGAACAAATATATACAGTATTCATTTCCTAGTGAATTATCGTAATGTCCT-AAAACCAACTTTCTAGGATATAATTTTAAGTTAAAAATGTTCA----TTTGAGAGTTTTGATCATTTTAGCATTCATTTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      335191 449 -   1175262 AGAAATATTT--------------------TTTTGAGAAAACA----------------------------------------------------------------------------------------ATGATTAAGTTGTCATTAGAAGACTGTACCAAGGCTATG--------CTGACTTTTTCAAGATGGCATGGGTTAGTCATTGAgaaccagacctcttatgctggaac--ctcaactttacctcttactagtcttttagtttctctgtgtctcagttt-tctgttttgaaaacttag-aaaaataatgacacttctcttataaagtgactgtgatgat-----gta-agttaac----aaagaagtaagttaactcat-tgaaatgaa-tac-ttagagaagaaaatgcccaataaattttagtgatgattAT-GTTCTCATCTTGAAAGAACAAATATATACAGTATTCATTTCCTAGTGAATTATCATAATGTCCT-AAAACCAACTTTCTAGGATATAATTTTAAGTTAAAAATGTTCA----TTTGAGAGTTTTGGTCATTTTAGCATTCATTTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123683137 435 - 204313951 AGAAACACTT--------------------TCTTGCTAAGACA----------------------------------------------------------------------------------------GTGACCAAGTTGTCATTAGGAGACTATATCAAGTCTATG--------CTGACTTTTTCAAGATGGCATGGGTTAATCACTGAGAG-CAAAATTCTTACACTGGAACCTCTCGGCTTTACCTCTTACTGA--atttagcttctccgtgtctcagttt-cctcttttgcaaaattag-aaaaataatttttctaattt----------------tggt--atagta-agttaac----agatagagaagttaacacac-tgaaatgaa-cac-ttagagaagaaaatgcccaataaattttagtgattattGT-GTTCTCACCTTGAAAGAATGAATACGTACTCCATTCATTTCCTAGTGAATTATCATAGTGTCTT-AAAAGCAACTTTCTAGGACATAATTTTAAATTAAAAATGTTCA----TTTGATAGTTTTGATCATTTTAGCATTTGTTTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55727382 450 -  71252344 AGAAACACTT--------------------TCTTGAGAAGACA----------------------------------------------------------------------------------------GTGACCAAGTTGTCATTAGGATACTATATCAAGTCGATG--------CTGAATTTTTCAAGATGGCATGGGTTCATCActgagag-cagacttcttatgctggaacctctcagctttacctcttactg---atttagcttctctgtgtctcagttt-cctcttttgcaaaaatag-aaaaacaatgacacttcttttatcaagtggttgtgatgat--gtagta-aattaat----agatagaaaagttaacacac-tgaaatgaa-cac-ttagagaagaaaatgcccaataaatttttgtggttatcat-GTTCTCACCTTGAAAGAACAAATACATACTCTATTCATTTCCTAGTGAATTATCATAATGTCTT-AAAAGCAACTTTCTAGGACTTAATTTTAAATTAAAAATGTTCA----TTTGATAGTTTTGATCATTCTAGCATTCATTTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       30924 450 -   3089952 AGAAACACTT--------------------TCTTAAGAAGACA----------------------------------------------------------------------------------------GTGACCAAGTTGTCAGTAGGAGACTATATCAAGTCTATG--------CTGACTTTTTCAAGAGGGCATGGGTTAATCACTGAGAG-CAGGCTTCTTAATCTGGAAACTCTCAGCTTTACCTCTTACTG---atttagcttctctgtgtctcagttt-cctcttttgtaaaattag-aaaaataatggcacttctcttatcaagtggttgtgatggt--atagta-agttaac----agatagagaagttaacacac-tgaaatgaa-tac-ttagagaagaaaatgcccaataaattttagtgattattAT-GTTCTCACCTTGAAAGAACAAATACATACTCTATTCATTTCCTAGTGAATTATCATTATGTCTT-AAAAACAACTTTCTAGGATGTAATTTTAAATTTAAAATGTTCA----TTTAATACTTTTGATCATTTTAGCATTCATTTC
i cebCap1.NW_016107590v1   I 321 C 0
s aotNan1.NW_018505940v1    13231212 446 -  42888418 AGAAACACTT--------------------TCTTGAGAAGACA----------------------------------------------------------------------------------------GTGACCAAGTTGTCATTAGGAGACTATATCAAGTCTATG--------CTGACTTTTTCAAGATGGCATGGGTTAATCGCTGACAG-cagacttcttacgttggaacctctcagctttacctcttactg---atttagcttctctgtgtctcagttt-cctcttttgcaaaattag-aaaaataatggcacttctcttatcaagtggttgtgatggt--atagta-agttaac--------agagaagttaacacac-tgaaatgaa-ccc-ttagagaagaaaatgcccaataaattttagtgattatCAT-GTTCTCACCTTGAAAGAAGAAATACATACTCTATTCATTTCCTAGTGAATTATCATAATGTCTT-AAAAGCAACTTTCTAGGATGCAATTTTAAATTAAAAATGTTCA----TTTGATAGTTTTGATCATTTTAGCATTCATTTC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60567660 455 + 108143057 AGAAGCATTT--------------------TCTTAAAAAGACA----------------------------------------------------------------------------------------ATGAGGAAGTTTTCAATAAAAGATCACATAGAGTTTATG--------ATAACTTCTTCAAGATggcattggttagtcattaaaag-cagacttcttgggttagaat--ctcagctttccctcctgctagtcatttatcctctccgtgcctcagttt-cctcttttgtaaagttag-aaaaataataatacttccattataaggttgttgtgagcat--gtaata-ggttaacatataaagaagcaaattaacacac-agaaatgaa-cac-ttagcaaaacaaatg-ctaataaattttagtgattattTT-GTTTTTATCTTGAAATAACAAATATATACTCTATGCATTTCCCAGTGAATTTTCATAATATCCTAAAAAGCAACTTTCTAGGAAATAATTTTAAATTGAAAATGCTCA----TTTGGTAGTTTTGATCATTTTAACATTCATTTC
i micMur3.chr12            C 0 I 60
s proCoq1.NW_012155062v1     3601252 454 +  11683526 AGAAGCATTT--------------------TCTTAACAAGACA----------------------------------------------------------------------------------------ATGAGGAAGTCGTCATTAAAAGATCATATCGAGTCTATG--------ATAACTTCTTCAAGATGGCATTGGTTAGTCATTAAAAG-TGgacttcttgggttggaat--ctcagctttacctcctgctagtcatttagcctctctgtgcctcagttt-cctcttttgtaaagttag-aaaaatcatagtactttccttataaggttgttgtgagcat--gtaata-ggttaacatataaagaaacaaatta--acac-agaaatgaa-cac-ttaacgaagcaaatgcccaataaattttagtgattattTT-GTTTTTATCTGGAAATAACAAATATATACTCTATGCATTTCCTAGTGAATTTTCATAATATCCTAAAAAGCAACTTTCTAGGAAATAATTTTAAATTGAAAATGCTCA----TTTAATAGTTTTGATCATTTTAACATTCGTTTC
i proCoq1.NW_012155062v1   C 0 I 62
s otoGar3.GL873679           3085096 439 +   4132165 AGAAGCATTT--------------------TCTTAAAAAGACA----------------------------------------------------------------------------------------ATGAGTAAGCTATCTTTAGACGATTATAATAAGTCTATG--------CTAATTTTTTCAAGATggcattggttagtcattaaaag-cagacttgttgggttgaaat--ataagctttacctcctattaatcatttagcctctctagacctcagttt-cctcttttgtaaagttagaaaaaaaaataatact----ttgtaagattgttgtgagcat--gtaatagggttaatacagagagaatcaaattaacaaat-aaaaatgaatcac-----------------tcaataaattttagtgattattTT-GTTTTTATGTTGAAATACCAAATACATTCTCTATTCATTTCCTAGTGAATTTGTATGATGTCCTAAAAAGCAACTTTCTAGGAAATAGTTTTAAATTGAAAAAGTTCA----TTTGATAGGTTTGATCATTTTAGCATGCAtttc
i otoGar3.GL873679         C 0 I 4
s mm10.chr18                55531478 548 +  90702639 tgaaccatttctctaccctcATTTCTCCACCCTTGAAAAAATGGAAGCAGAGAAATCTGAAGGACAAGGACATCCTTGACTATGTGGTGGGTTTAAGAATACCTTGTTAGATGTAAGGCCCTATTTTTTTTAAGACTAAGTTGTCATTAGAAGACTATATCAAATCTATGAATCTGTCCTGACACCTTGAAGATGTCTCTGGGTGGTTATTACAagccaggactcctgggctggaat--ctcagctttacctctggactctttactatcctccccacacctcagttt-cctattctttaatattag-gaaaataaaggtgtttcctt----aaatggatgtcatgagaaggaata-agttaacacatagagacgt-agttagcaca---gaaatgag-cac-ttggagaaggaagtggtcaat-aGTTTCAATGATCATC---GTTTTCATGGTGAAATATCAGTCCTAGCTTTCATTTACCTAATGATAAATTATCATAACATCCC-ACAAACTACCTTCTAGGAGACAATTTCAA-TTGAAAACATTCA----TCATATG---TGAGCCATTCT------------
i mm10.chr18               I 5 C 0
s canFam3.chr11             14929748 458 +  74389097 AGATATTTTG--------------------TCTTGAAAATACA----------------------------------------------------------------------------------------ACGGATAAATTGTCACTAAAGGATAGTTTTGAATTGGTG--------CCAACTTCTTGAAGATGAGATAAGTCAGTCCTTAAgagccagacttccagggctggaat--ctcagcttcacctcttattagtcactgagcctctc-atgccttagttt-ccctttttatgaaatttg-gaaaataatcatacttccct-atgaggttattgtaaggat--gtaata-agttaac--aaagaggagcaaattaatatac-agaaacaaa-cattttggacaaacaaatgctcaataaattttagtgatttttTTGGTCTTTATCTTTAAATAACAAATATATATTCCATTCATTTCCTAATAAAATATCATAATATTCT-GAAATTAACTTTCTAGGAAATAATTTTAACTAAAAAATGTTAAAATGTTTCATGGTTTTGATCACTGTAGTGTTAATGTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2649938 424 +   3667625 AGAAATATTT--------------------TCTTGAAAAAACG----------------------------------------------------------------------------------------TTGAATAAGGAGTCACTCAAAAATT-CATTGCGTCTATG--------CTGACCTCTTGAAGATGGCAATGGTTAGTAATCAATagccatacttcctggattggaaa--ctcagctctacctcttactggtcatttagcttttgtgtgcctcagtttccctctttcataaaattag-gaacattatagtatttccctta----gtggttgttgtgat-------g-agataat------------aatttagcacatgtgcaaaaaa-cag-t---------atacactcaatgaattttagtcattattAA-ATTTTCATCTTGAGACAA-AAATATATATTCCATTCATTTCCTAATGCATTATCATAATATCCT-AAAAGCAACTTTTTAGGAAATAATTTTAA-CTGAAAATTTTCA----TTTGATGGTTTTGATCATT-TAGAGTTCATTTC
i dasNov3.JH567306         C 0 C 0

a score=392379.000000
s hg38.chr5_KI270796v1_alt    110110 47 +    172708 -TTTTACTTGATTAGA-AAAATATTATTAC---------------------TA-TACTTCCATTAATG----------------------GCA
s panTro5.chr5             125213851 47 + 181907262 -TTTTACTTGATTAGA-AAAATATTATTAC---------------------AA-TACTTCCATTAATG----------------------GCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126550541 47 + 183735486 -TTTTACTTGATTAGA-AAAATATTATTAC---------------------AA-TACTTCCATTAATG----------------------GCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1742286 47 +   8933513 -TTTTACTTGATTAGA-AAAATATTATTAC---------------------AA-TACTTCCATTAATG----------------------GCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139877296 47 + 163208435 -TTTTACTTGATTAGA-AAAATATTATTAC---------------------AA-TATTTCCATTAATG----------------------GCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122861937 43 + 180051392 -TTTTAATTGATTAGA-AAAATATTATTAC---------------------AA-TACCTC----ATTG----------------------GCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124285553 43 + 181584905 -TTTTAATTGATTAGA-AAAATATTATTAC---------------------AA-TACCTC----ATTG----------------------GCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16283911 43 +  18395747 -TTTTAATTGATTAGA-AAAATATTATTAC---------------------AA-TACCTC----ATTG----------------------GCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5296850 43 +  26952557 -TTTTAATTGATTAGA-AAAATATTATTAC---------------------AA-TACCTC----AATG----------------------GCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28397158 47 +  82825804 -TTTTAATTGATTAGA-AAAATATTATTAA---------------------AA-TACCCCCATTAATG----------------------GAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4066861 43 -   4237731 -TTTTAATTGATTAGA-AAAATATTATTAC---------------------AA-TACCTC----AATG----------------------GCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      335640 47 -   1175262 -TTTTAATTGATTAGA-AAAATATTATTAC---------------------AA-TACCTCCATTAATG----------------------GCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123683572 68 - 204313951 -TTTTACTTGattaaa-ataatattattacaatataaaagaatattattataa-taCCTCCATTAATG----------------------GAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55727832 47 -  71252344 -TTTTACTTGATTAAA-ATAATATTATTAC---------------------AA-TACCTCCATTAATG----------------------GAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       31374 47 -   3089952 -TTTTACTTGATTAAA-AGAATATTATTAC---------------------AA-TACCTCCATTAATG----------------------GAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13231658 47 -  42888418 -TTTTACTTGATTAAA-AGAATATTTTTAC---------------------AA-TACCTCTATTAATG----------------------GAA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3085539 70 +   4132165 -tttttttttttgagacagagtcttacttt---------------------gt-cactctcagtaatgtgctgttctgtcacagctcacagca
i otoGar3.GL873679         I 4 I 195
s mm10.chr18                55532026 41 +  90702639 -TTTCACAATGTTAGA----ACACTGTTAG---------------------AA-TGATTGAACCGATT-------------------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14930206 48 +  74389097 -TTTTAATTGATTGGA-AGACTATAATAAT---------------------GACTGCCCCAATTAATG----------------------GTG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2650362 41 +   3667625 TTTTTA------TAGA-AGACTATTATAAT---------------------GC-TACCCTAATTATTG----------------------TT-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60568115 60 + 108143057 I
e proCoq1.NW_012155062v1     3601706 62 +  11683526 I

a score=211651.000000
s hg38.chr5_KI270796v1_alt    110157 19 +    172708 TGATTA-----GAAG---------------------TGAGAAAAA
s panTro5.chr5             125213898 19 + 181907262 TGATTA-----GAAG---------------------TGAGAAAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126550588 19 + 183735486 TGATTA-----GAAG---------------------TGAGAAAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1742333 19 +   8933513 TGATTA-----GAAG---------------------TGAGAAAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139877343 19 + 163208435 TGATTA-----GAAG---------------------TGAGAAAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122861980 19 + 180051392 TGATTT-----GAAG---------------------TGAGAAAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124285596 19 + 181584905 TGATTT-----GAAG---------------------TGAGAAAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16283954 19 +  18395747 TGATTT-----GAAG---------------------TGAGAAAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5296893 19 +  26952557 TGATTT-----GAAG---------------------TGAGAAAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28397205 19 +  82825804 TGATTT-----GAAG---------------------TGAGAAAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4066904 19 -   4237731 TGATTT-----GAAG---------------------TGAGAAAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      335687 19 -   1175262 TGATTT-----GAAG---------------------TGAGAAAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123683640 19 - 204313951 TGATTA-----GAAG---------------------TGAGAAAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55727879 19 -  71252344 TGATTA-----GAAG---------------------TGAGAAAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       31421 19 -   3089952 TGATTA-----GAAG---------------------TGAGAAAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13231705 19 -  42888418 TGATTA-----GAAG---------------------TGAGAAAAA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3085804 40 +   4132165 TGATTA-----GGAGTCTTTCATTGTAATTCCCTCATTGGAAAAA
i otoGar3.GL873679         I 195 C 0
s mm10.chr18                55532067 19 +  90702639 TGATCATGCATGAAG---------------------TGCC-----
i mm10.chr18               C 0 C 0
s canFam3.chr11             14930254 19 +  74389097 TGATCA-----CATG---------------------TGAGAAAAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2650403 18 +   3667625 TGATTA-----TGTA---------------------TGAAAAAC-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60568115 60 + 108143057 I
e proCoq1.NW_012155062v1     3601706 62 +  11683526 I

a score=592111.000000
s hg38.chr5_KI270796v1_alt    110176 40 +    172708 TATACATAAACATCTCTACATTAGGACAAAGGAGT-AATGC---------
s panTro5.chr5             125213917 40 + 181907262 TATACATAAACATCTCTACATTAGGACAAAGGAGT-AATGC---------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126550607 40 + 183735486 TATACATAAACATCTCTACATTAGGACAAAGGAGT-AATGC---------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1742352 40 +   8933513 TATACATAAACATCTCTACATTAGGACAAAGTAGT-AATGC---------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139877362 41 + 163208435 TATACATAAACATCTCTACATTAGGACAAAGGAGTAAATGC---------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122861999 41 + 180051392 TGTACATAAACATCTCCACATTAGGACAAAGGAGTAAATGC---------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124285615 41 + 181584905 TGTACATAAACATCTCCACATTAGGACAAAGGAGTAAATGC---------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16283973 41 +  18395747 TGTACATAAACATCTCCACATTAGGACAAAGGAGTAAATGC---------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5296912 41 +  26952557 TGTACATAAACATCTCCACATTAGGACAAAGGAGTAAATGC---------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28397224 41 +  82825804 TATACATAAACATCTCCACATTAGGACAAAGGAGTAAATGC---------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4066923 41 -   4237731 TGTACATAAACATTTCCACATTAGGACAAAGGAGTAAATGC---------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      335706 41 -   1175262 TATACATAAACATATCTACATTAGGACAAAGGAGTAAATGC---------
i colAng1.NW_012119644v1   C 0 I 1
s calJac3.chr2             123683659 41 - 204313951 TATACATAAACAGCTCTACATTATGGCAGAGGAGTAAATGC---------
i calJac3.chr2             C 0 I 312
s saiBol1.JH378106          55727898 41 -  71252344 TATACCTAAACAGCTCTACCTTATGGCAGAGGAGTAAATGC---------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       31440 41 -   3089952 TATACATAAACAGCTCTACATTATGGCAGAGGAGTAAATGC---------
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13231724 41 -  42888418 TATACATAAACAGCTCTACATTATGGCAGAGGAGTAAATGC---------
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60568175 41 + 108143057 TATGCATAAACATCTCTATATTAGGCCAAAGGAGTAAACGC---------
i micMur3.chr12            I 60 I 3
s proCoq1.NW_012155062v1     3601768 41 +  11683526 TATGCATAAAAATTTCTATATTAGGGCAAAGGAGTAAATGC---------
i proCoq1.NW_012155062v1   I 62 I 3
s otoGar3.GL873679           3085844 41 +   4132165 TATACACAAACATCTCTATATTAAAGCAAAGGAATAAATGC---------
i otoGar3.GL873679         C 0 I 3
s mm10.chr18                55532086 39 +  90702639 CATGTGTAAACATCTCCATGTGAGGACGGAGGGA--AACGC---------
i mm10.chr18               C 0 I 8
s canFam3.chr11             14930273 41 +  74389097 GATGTACAAACATCTCCACAGAAGGGCAGAGAAGTAACAGC---------
i canFam3.chr11            C 0 I 4
s dasNov3.JH567306           2650421 50 +   3667625 TATGCATAATCTTTTCTATGCTAGATCAGAAGAGCAAACAGAATAAAAGG
i dasNov3.JH567306         C 0 C 0

a score=1704080.000000
s hg38.chr5_KI270796v1_alt    110216 117 +    172708 AAAAAAA-G-------------TA-----------A----------GTTTAACTTATGCTATTAT---AATCCCTGAAACTACACTGTACACAGATGACAACCATTAAGTATGAGCTTATCCAAAGATCTAACTTT-----AAATCTTTTAAAAGCACTC
s panTro5.chr5             125213957 117 + 181907262 AAAAAAA-G-------------TA-----------A----------GTTTAACTTATGCTATTAT---AATTGCTGAAACTACACTGTACACAGATGACAGCCATTAAGTATGAGCTTATCCAAAGATCTAACTTT-----AAATCTTTTAAAAGCACTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126550647 117 + 183735486 AAAAAAA-G-------------TA-----------A----------GTTTAACTTATGCTATTAT---AATCGCTGAAACTACACTGTACACAGATGACAGCCATTAAGTATGAGCTTATCCAAAGATCTAACTTT-----AAATCTTTTAAAAGCACTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1742392 117 +   8933513 AAAAAAA-G-------------TA-----------A----------GTTTAACTTATGCTATTAT---AATCCCTGAAACTGCACTGTACACAGATGACAACCATTAAGTATGAGCTTATCCAAAGATCTAACTTT-----AAATCTTTTAAAAGCACTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139877403 113 + 163208435 AAAAAAATG-------------TA-----------A----------GTTTAACT-----TATTAT---AATCCCTGAAACTACACTGTACACAGATGACAACCATTAAGTGTCAGCTTATCCAAAGATCTAACTTT-----AAATCTTTTAAAAGCACTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122862040 122 + 180051392 AAAAAAA-G-------------TA-----------A----------GTTTAACTTACATTAGTAT---AATCCCTGAAACTACGCTGTACATAGATGACAACCATTAAGTATGAACTTATCCAAAGATCTAACTTTAATTTAAATCTTTTAAAAGCACTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124285656 122 + 181584905 AAAAAAA-G-------------TA-----------A----------GTTTAACTTACATTAGTAT---AATCCCTGAAACTACGCTGTACATAGATGACAACCATTAAGTATGAACTTATCCAAAGATCTAACTTTAATTTAAATCTTTTAAAAGCACTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16284014 122 +  18395747 AAAAAAA-G-------------TA-----------A----------GTTTAACTTACATTAGTAT---AATCCCTGAAACTACGCTGTACATAGATGACAACCATTAAGTATGAACTTATCCAAAGATCTAACTTTAATTTAAATCTTTTAAAAGCACTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5296953 122 +  26952557 AAAAAAA-G-------------TA-----------A----------GTTTAACTTACATTAGTAT---AATCCCTGAAACTACGCTGTACATAGATGACAACCATTAAGTATGAACTTATCCAAAGATCTAACTTTAATTAAAATCTTTTAAAAGCACTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28397265 122 +  82825804 AAAAAAA-G-------------TA-----------A----------GTTTAACTTACATTATTAT---AATCCATGAAACTACACTGTACATAGATGACAACCATTAAGTATGAACTTATCCAAAGATCTAACTTTAATTTAAATATTTTAAAAGCACTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4066964 122 -   4237731 AAAAAAA-G-------------TA-----------A----------GTTTAACTTACATTAGTAT---AATCCCTGAAACTACGCTGTACATAGATGACAACCATTAAGTATGAACTTATCCAAAGATCTAACTTTAATTAAAATCTTTTAAAAGCACTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      335748 122 -   1175262 AAAAAAA-G-------------TA-----------A----------GTTTAACTTACATTATTAT---AATCCCTGAAACTACGCTGTACATAGATGACAACCATTAAGCATGAACTTATCCAAAGATCTAACTTTAATTTAAATCTTTTAAAAGCACTC
i colAng1.NW_012119644v1   I 1 C 0
s calJac3.chr2             123684012 121 - 204313951 aaaaaaa-a-------------aa-----------a----------aaTTAAATTATGTTATTAT---AATCCTTGAAACTACACTGTACACAGATGACAACCATTAAGTCTGAACTTATCCAAAGATCTAACTTTAATTTAAATC-TTTAAAAGCACTC
i calJac3.chr2             I 312 C 0
s saiBol1.JH378106          55727939 121 -  71252344 AAAAACT-T-------------TA-----------A----------ATTTAAATTATGTTATTAT---AATCCTTGAAACTACACTGTACACAGATGAAAACCATTAAGTCTGAACTTATCCAAAGATCTAACTTTAATTTAAATC-TTTAAAAGCACTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       31481 121 -   3089952 GAAAACT-T-------------TA-----------A----------ATTTAAATTATGTTATTAT---AAGCCTTGAAACTACACTGTACACAGATGACAACCATTAAGTTTGAACTTATCCAAAGATCTAACTTTAATTTAAATC-TTTAAAAGCACTC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13231765 121 -  42888418 AAAAACT-T-------------TA-----------A----------ATTTAAATTATGTTATTAT---AATTCTTGAAACTACACTGTACACAGATGACAACCATTAAGTCGGAACTTATCCAAAGATCTAACTTTAATTTAAATC-TTTAAAAGCACTC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60568219 122 + 108143057 AAAAAAT-T-------------TA-----------A----------ATTTAACTTACATTATCATC--AGTCTTTGAAATTATACTGTACATAGATGACAACCATTAAATATATACTTATCCAAAGATCTAACTTTAATTCAAATC-TTTAAAAACACTC
i micMur3.chr12            I 3 C 0
s proCoq1.NW_012155062v1     3601812 122 +  11683526 AAAAAAT-C-------------TA-----------A----------ATTTAACTCACATTATCATC--AGTCTTTGAAATTACACTATACATAGATGACAACCATTAAATATAAACTTATCCAAAGATCTAACTTTAGTTCAAATC-TTTAAAAGCACTC
i proCoq1.NW_012155062v1   I 3 C 0
s otoGar3.GL873679           3085888 119 +   4132165 AAAAAAT----------------------------------------TTTAATTTACATTACCATCAGAGTCCTTGAAACTACACTGAACATAGATAACAGCCATTAAATATAAAGTTATCCAAAGTTTTAATCTTAATTCAAATC-TTTAAAAGCATTC
i otoGar3.GL873679         I 3 I 1249
s mm10.chr18                55532133 131 +  90702639 AAATGAA-C-------------CAACAGACTTTGCA----------ATTAAACTTAGATTATTCC---TG-CCTTGGAATTATAGTGTGCACAGATGATATCCATTAAGTAAGAACTGAACCAAAGGTTTAATGGTAATTCAAATC-TTTAAAGCCTTGC
i mm10.chr18               I 8 C 0
s canFam3.chr11             14930318 128 +  74389097 AAAAAAC-T-------------TA-----------AAACCACTTAGATTTAATTTACATTATCAC---GGCCCTTGAGATTATACTGTGCATAGAT---AATCACAAACTATGAACTTATCCAAAAGCCCAACTTTAATACACATC-TTTAAAGACTGTC
i canFam3.chr11            I 4 C 0
s dasNov3.JH567306           2650471 133 +   3667625 AAGAAAG-GAAGAAAGACCCTTTA-----------A----------ATTTAACTTGCATCATC-T---AGTCCTTGAAATTGCATTGTACACAGATGACAACCATTAAGTCTGAATATATCAAAAGGTCTAACTTTAATTCAAATC-TTTAAAGGCTGTC
i dasNov3.JH567306         C 0 C 0

a score=15957526.000000
s hg38.chr5_KI270796v1_alt    110333  942 +    172708 TGAAAAGATTAAATGAATTTTCTGACTACTT---CTCTTATGGTAGATCTGATTCAACTACATTCAAGTGCAAT--AAAAAAAGCATATTTCAAAAGTAACCTTTTGAGCAATATCTGGAAATACTTGCTTTT---------------------------------------------------------------------------------------------GA-------------GTGTAATCTG----AGCATTCCTGAAATCCACAATCTGAACAGTCA-TATAAATGTGAACATTTA-TTTGAAAGCTTGGTTAATTAAGAACAATAACATTAGAACTAAGCCAATGCTTTTAAATTCCATGTCTCCTCAAA---AATAAGCATA--TATGTTCCAATGATATTTGTTCTGGGCACTGGTAATTCAGATCATCATGTAATCTTTT-T-T--AATGCCCATATGC-AGATATAATATAAACTATTTGCTATTTAGTAATGCTATTTTACATAATTAAGTCATCATGGCTTTATTTTTTCAACAGAAGAATGAAAGCATATCTACACGCTATAAC--ATGACCAAACTGTATCAAATTTTGTCTCCAAATGGGGACAGAAGCATTGGTATGTGTGCATTTTTATTAGAGCAGAAGTCAATCCAAAATATAATCTCTTGAGTTCAATTATAAAAGCCATATGCTTGAGTGAATGCATGGT-AAAAATGTGCAACTTCATTACACATTAGAGGCACTACAAATTTCGGCTTTGATTC-AAAAA-CACTC-AGACTGCTAATGTGGC--ATATACTACTAAAAGGCTAATATCATTGCTGTGTGGAGTGATGTAAATGGGGAAGTGGAAACATCTGTATTTTCTCTGCTTTAAGGACATGTTCTTTTCATCCAAGGGCATATCTGTGTAGAGGATAAAGCCTATAATAACAA---------AGAATGCTTATATTTTGATTCCTAGTGAAGAATGATAACGAAG-AAAAAATACAC------AGGGCCATTGGAATTAGAAAAGTTATAGCTTAACCACTAGTGCCAATATAAACTTATTCTTATGGTC
s panTro5.chr5             125214074  942 + 181907262 TGAAAAGATTAAATGAATTTTCTGACTACTT---CTCTTATGGTAGATCTGATTCAACTACATTCAAGTGCAAT--AAAAAAAGCATATTTCAAAAGTAACCTTTTGAGCAATATCTGGAAATACTTGCTTTT---------------------------------------------------------------------------------------------GA-------------GTGTAATCTG----AGCATTCCTGAAATCCACAATCTAAACAGTCA-TATAAATGTGAACATTTA-TTTGAAAGCTTGGTTGATTAAGAACAATGACATTAGAACTAAGCCAATGCTTTTAAATTCCATGTCTCCTCAAA---AATAAGCATA--TACGTTCCAGTGATATTTGTTCTGGGCACTGGTAATTCATATCATCATGTAATCTTTT-T-T--AATGCCCATATGC-AGATATAATATAAACTATTTGCTAATTAGTAATGCTATTTTACATAATTAAGTCATCATGGCTTTATTTTTTCAACAGAAGAATGAAAGCATATCTACACGCTATAAC--ATGACCAAACTGTATCAAATTTTGTTTCCAAATGGGGACAGAAGCATTGGTATGTGTACATTTTTATTAGAGTGGAAGTGAATCCAAAATATAGTCTCTTGAGTTCAATTATAAAATCCATATGCTTGAGTGAATGCATGGT-AAAAATGTGCAACTTCATTACACATTAGAGGCACTACAAATTTTGGCTTTGATTC-AAAAA-CACTC-AGACTGCTAATGTGGC--ATATACTACTAAAAGGCTAATATCATTGCTGTGTGGAGTGATGTAAATGGGCAAGTGGAAACATCTGTATTTTCTCTGCTTTAAGAACATGGTCTTTTCATCCAAGGGCATATCTGTGTAGAGGATAAAGCCTATAATAACAA---------AGAATGCTTATATTTTGATTCCTAGTGAAGAATGATAAGGAAG-AAAAAATACAC------CGGGCCATTGGAATTAGAAAAGTTATAGCTTAACCACTAGTGCCAATATAAACTTACTCTTATGGTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126550764  942 + 183735486 TGAAAAGATTAAATGAATTTTCTGACTACTT---CTCTTATGGTAGATCTGATTCAACTACATTCAAGTGCAAT--AAAAAAAGCATATTTCAAAAGTAACCTTTTGAGCAATATCTGGAAATACTTGCTTTT---------------------------------------------------------------------------------------------GA-------------GTGTAATCTG----AGCATTCCTGAAATCCACAATCTAAACAGTCA-TATAAATGTGAACATTTA-TTTGAAAGCTTGGTTGATTAAGAACAATGACATTAGAACTAAGCCAATGCTTTTAAATTCCATGTCTCCTCAAA---AATAAGCATA--TACGTTCCAATGATATTTGTTCTGGGCACTGGTAATTCATATCATCATGTAATCTTTT-T-T--AATGCCCATATGC-AGATATAATATAAACTATTTGCTATTTAGTAATGCTATTTTACATAATTAAGTCATCATGGCTTTATTTTTTCAACAGAAGAATGAAAGCATATCTACACGCTATAAC--ATGACCAAACTGTATCAAATTTTGTTTCCAAATGGGGACAGAAGCATTGGTATGTGTACATTTTTATTAGAGCGGAAGTGAATCCAAAATATAGTCTCTTGAGTTCAATTATAAAATCCATATGCTTGAGTGAATGCATGGT-AAAAATGTGCAACTTCATTACACATTAGAGGCACTACAAATTTTGGCTTTGATTC-AAAAA-CACTC-AGACTGCTAATGTGGC--ATATACTACTAAAAGGCTAATATCATTGCTGTGTGGAGTGATGTAAATGGGCAAGTGGAAACATCTGTATTTTCTCTGCTTTAAGAACATGGTCTTTTCATCCAAGGGCATATCTGTGTAGAGGATAAAGCCTATAATAACAA---------AGAATGCTTATATTTTGATTCCTAGTGAAGAATGATAAGGAAG-AAAAAATACAC------CGGGCCATTGGAATTAGAAAAGTTATAGCTTAACCACTAGTGCCAATATAAACTTACTCTTATGGTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1742509  942 +   8933513 TGAAAAGATTAAATGAATTTTCTGACTACTT---CTCTTATGGTAGATCTGATTCAACTACATTCAAGTGCAAT--AAAAAAAGCATATTTCAAAAGTAACCTTTTGAGCAATATCTGGAAATACTTGCTTTT---------------------------------------------------------------------------------------------GA-------------GTGTAATCTG----AGCATTCCTGAAATCCACAATCTAAACAGTCA-TATAAATGTGAACATTTA-TTTGAAAGCTTGGTTGATTAAGAACAATAACATTAGAACTAAGTCAATGCTTTTAAATTCCATGTCTCCTCAAA---AATAAGCATA--TACGTACCAATGATATTTGTTCTGGGCACTGGTAATTCATATCATCATGTAATCTTTT-T-T--AATGCCCATATGC-AGATATAATACAAACTATTTGCTATTTAGTAATGCTATTTTACATAATTAAGTCATCATGGCTTTATTTTTTCAACAGAAGAATGAAAGCATATCTACACGCTATAAC--ATGACCAAACTGTATCAAATTTTGTCTCGAAATGGGGACAGAAGCATTGGTATGTGTACATTTTTATTAGAGCAGAAGTGAATCCAAAATATAATCTCTTGAGTTCAATTATAAAATCCATATGCTTGAGTGAATGCATGGT-AAAAATGTGCAACTTTATTACACATTAGAGGCACTACAAATTTCGCCTTTGATTC-AAAAA-CACTC-AGACTGCTAATGTGGC--ATATACTACTAAAAGGCTAATATCATTGCTGTGTGGAGTGATGTAAATGGGCAAGTGGAAACATCTGTATTTTCTCTGCTTTAAGGATATGGTCTTTTCATCCAGGGGCATATCTGTGTAGAGGATAAAGCCTATAATAACAA---------AGAATGCTTATATTTTGATTCTTAGTGAAGAATGATAACGAAG-AAAAAATACAC------AGGGCCATTGGAATTAGAAAAGTTATAGCTTAGCCACTAGTGCCAATATAAACTTACTCTTATGGTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139877516  942 + 163208435 TAAAAAGATTAAATGAATTTTCTGACTACTT---CTCTTATGGTAGATGTGATTCAACTACATTCAAGTGCAAT--AAAAAAAGCATATTTCAAAAGTAACCTTTTGAGCAATATCTGGAAATACTTGCTTTT---------------------------------------------------------------------------------------------GA-------------ATGTAATCTG----AGCATTCCTAAAATCCACAATCTAAACAGTCA-TATAAATGTGAACATTTA-TTTGAAAGCTTGGTTGATTAAGAACGATAACATTAGAACTAAGCCAATGCTTTTAAATTCCATGTCTCCTCAAA---AATAAGCATA--TTCGTTCCAGTGATATTTGTTCTGGGCACTGGTAATTCATATCATCATATAATCTTTT-T-T--AATGCCCATATGC-AGGTATAATGTAAACTATTTGCTATTTAGTAATGCTGTTTTACATAATTAAGTCCTCATGGCTTTATTTTTTCAACAGAAGAATGAAAGCATATCTACACTCTATAACAGATGACCAAAC--TATCAAATTTTGTCTCCAAATGGGGACAGAAGCATTAGCATGTGTACATTTTTATTAGAGCAGAAGTGAATCCAAAATACAATCTCTTGAGTTCAATTATAAAACCCATATGCCTGAGTGAATGCATGGT-AAAAATGTGCAACTTCATTACACATTAGAGGCACTACAAATTTCGGCTTTGATTC-AAAAA-CACTC-AGACTGCTAATGTGGC--ATATACTACTAAAAGGCTAATATCATTGCTGTGTGGAGTGATGTAAATGGGCAAGTGGAAACATCTGTATTTTCTCTGCGTTAAGAACGTGGTCTTTTAATCCAAGGGCATATCTGTATAGAGGATAAAGCCTATAATAACAA---------AGAATGCTTATATTTTGATTCCTAGTGAAGAATGATAACGAAG-AAAAAATACAC------AGGGCCATTGGAATTAGAAAAGTTATGGCTTAACCACTAGTGCCAATATAAACTTACTCTTACGGTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122862162  946 + 180051392 TAAAATGATTAAATGAATTTTCTGACTACTA---CTTTTGTGGTAGATGTGATTTAACTACATTCAAGTGCAAT--TAAAAAAACATATTTCAAAAGTAACCTTTTGAGCAATATCTGGAAATACTTGCTTTT---------------------------------------------------------------------------------------------GA-------------GTATAATCTG----AGCATTCCTAAAATCCACAATCTAAACCGTCA-TAGAAATGTGAACATTTA-TTTGAAAGCTTGGTTGATTAAGAACAATAACATTAGAAGTAAGCCAATGCTTTTAAATTCCATGTCTCCTCAAA---AACAAGCATA--TTCATTCCAATGATATTTGTTCTGGGCACTGGTAATTCATATCATCATGTAATTTCTT-T-TGGAATGCCCATATGC-AGATATAATATAAACTGTTTGCTATTTAGTAATGCTATTTTACATAATTAAGTCATCATGGCTTCATATTTTCAACAGAAGAATGAAAGCCTATCTATACTCTATAACAGATGACCAAACTGTATCAAATTGTGTCTCCAAATGGGGACAGAAGCATTGGTATGTGTACATTTTTATTAGAGCAGAAGTGAATCCAAAATACAATCTCTTGAGTTCAATTATAAAACCCATATGCTTGAGTGAATGCATGGT-AAAAATGTGCAACTTCATTACACATTAGAGGCACTACAAATTTCGGCTTTGATTC-AAAAA-CACTC-AGACTGCTAATGTGGC--ATATACTACT-AAAGGCTAATATCATTGCTGTGTGGAGTGATGTAAATGGGCAAGTGGAAACATCTGTATTTTCTCTGCTTTAAGAACATGGTCTTTTAATCCAAGGGCATATCTGTGTAGAGGATAAAGCCTATAATAACAA---------AGAATGCTTATATTTTGATTCCTAGTGAAGAATAATAGCGAAGAAAAAAATACAC------AGGGCCATTGGAATTAGCAAAGTTATAGCTTAACCACTAGTGCCAATATAAACTTACTCTTATGGTC
i rheMac8.chr6             C 0 I 1
s macFas5.chr6             124285778  946 + 181584905 TAAAATGATTAAATGAATTTTCTGACTACTA---CTTTTGTGGTAGATGTGATTTAACTACATTCAAGTGCAAT--TAAAAAAACATATTTCAAAAGTAACCTTTTGAGCAATATCTGGAAATACTTGCTTTT---------------------------------------------------------------------------------------------GA-------------GTATAATCTG----AGCATTCCTAAAATCCACAATCTAAACCGTCA-TAGAAATGTGAACATTTA-TTTGAAAGCTTGGTTGATTAAGAACAATAACATTAGAAGTAAGCCAATGCTTTTAAATTCCATGTCTCCTCAAA---AACAAGCATA--TTCATTCCAATGATATTTGTTCTGGGCACTGGTAATTCATATCATCATGTAATTTCTT-T-TGGAATGCCCATATGC-AGATATAATATAAACTGTTTGCTATTTAGTAATGCTATTTTACATAATTAAGTCATCATGGCTTCATATTTTCAACAGAAGAATGAAAGCCTATCTATACTCTATAACAGATGACCAAACTGTATCAAATTGTGTCTCCAAATGGGGACAGAAGCATTGGTATGTGTACATTTTTATTAGAGCAGAAGTGAATCCAAAATACAATCTCTTGAGTTCAATTATAAAACCCATATGCTTGAGTGAATGCATGGT-AAAAATGTGCAACTTCATTACACATTAGAGGCACTACAAATTTCGGCTTTGATTC-AAAAA-CACTC-AGACTGCTAATGTGGC--ATATACTACT-AAAGGCTAATATCATTGCTGTGTGGAGTGATGTAAATGGGCAAGTGGAAACATCTGTATTTTCTCTGCTTTAAGAACATGGTCTTTTAATCCAAGGGCATATCTGTGTAGAGGATAAAGCCTATAATAACAA---------AGAATGCTTATATTTTGATTCCTAGTGAAGAATAATAGCGAAGAAAAAAATACAC------AGGGCCATTGGAATTAGCAAAGTTATAGCTTAACCACTAGTGCCAATATAAACTTACTCTTATGGTC
i macFas5.chr6             C 0 I 1
s macNem1.NW_012012355v1    16284136  946 +  18395747 TAAAATGATTAAATGAATTTTCTGACTACTA---CTTTTGTGGTAGATGTGATTTAACTACATTCAAGTGCAAT--TAAAAAAACATATTTCAAAAGTAACCTTTTGAGCAATATCTGGAAATACTTGCTTTT---------------------------------------------------------------------------------------------GA-------------GTATAATCTG----AGCATTCCTAAAATCCACAATCTAAACCGTCA-TAGAAATGTGAACATTTA-TTTGAAAGCTTGGTTGATTAAGAACAATAACATTAGAAGTAAGCCAATGCTTTTAAATTCCATGTCTCCTCAAA---AACAAGCATA--TTCATTCCAATGATATTTGTTCTGGGCACTGGTAATTCATATCATCATGTAATTTCTT-T-TGGAATGCCCATATGC-AGATATAATATAAACTGTTTGCTATTTAGTAATGCTATTTTACATAATTAAGTCATCATGGCTTCATATTTTCAACAGAAGAATGAAAGCCTATCTATACTCTATAACAGATGACCAAACTGTATCAAATTGTGTCTCCAAATGGGGACAGAAGCATTGGTATGTGTACATTTTTATTAGAGCAGAAGTGAATCCAAAATACAATCTCTTGAGTTCAATTATAAAACCCATATGCTTGAGTGAATGCATGGT-AAAAATGTGCAACTTCATTACACATTAGAGGCACTACAAATTTCGGCTTTGATTC-AAAAA-CACTC-AGACTGCTAATGTGGC--ATATACTACT-AAAGGCTAATATCATTGCTGTGTGGAGTGATGTAAATGGGCAAGTGGAAACATCTGTATTTTCTCTGCTTTAAGAATATGGTCTTTTAATCCAAGGGCATATCTGTGTAGAGGATAAAGCCTATAATAACAA---------AGAATGCTTATATTTTGATTCCTAGTGAAGAATAATAGCGAAGAAAAAAATACAC------AGGGCCATTGGAATTAGCAAAGTTATAGCTTAACCACTAGTGCCAATATAAACTTACTCTTATGGTC
i macNem1.NW_012012355v1   C 0 I 1
s cerAty1.NW_012002512v1     5297075  945 +  26952557 TAAAACGATTAAATGAATTTTCTGACTACTT---CTTTTGTGGTAGATGTGATTTAACTACATTCAAGTGTAAT--TAAAAAAACATATTTCAAAAGTAACCTTTTGATCAATATCTGGAAATACTTGCTTTT---------------------------------------------------------------------------------------------GA-------------GTATAATCTG----AGCATTCCTAAAATCCACAATCTAAACTGTCA-TAGAAATGTGAACATTTA-TTTGAAAGCTTGGTTGATTAAGAACAATAACATTAGAAGTAAGCCAATGCTTTTAAATTCCATGTCTCCTCAAA---AACAAGCATA--TTCATTCCAATGATATTTGTTCTGGGCACTGGTAATTTATATCATCATGTAATTTCTT-T-TGGAATGCCCATATGC-AGATATAATATAAACTGTTTGCTATTTAGTAATGCTATTTTACATAATTAAGTCATCATGGCTTCATTTTTTCAACAGAAGAATGAAAGCCTATCTATACTCTATAACAGATGACCAAACTGTATCAAATTGTGTCTCCAAATGGGGACAGAAGCATTGGTATGTGTACATTTTTATTAGAGCAGAAGTGAATCCAAAATACAATCTCTTGAGTTCAATTATAAAACCCATATGCTTGAGTGAATGCATGGT-AAAAATGTGCAACTTCATTACACATTAGAGGCACTACAAATTTCGGCTTTGATTC-AAAAA-CACTC-AGACTGCTAATATGGC--ATATACTACT-AAAGGCTAATATCATTGCTGTGTGGAGTGATGTAAATGGGCAAGTGGAAACATCTGTATTTTCTCTGCTTTAAGAACATGGTCTTTTAATCCAAGGGCATATCTGTGTAGAGGATAAAGCCTATAATAACAA---------AGAATGCTTATATTTTGATTCCTAGTGAAGAATAATAGCGAAG-AAAAAATACAC------AGGGCTATTGGAATTAGCAAAGTTATAGCTTAACCACTAGTGCCAATATAAACTTACTCTTATGGTC
i cerAty1.NW_012002512v1   C 0 I 1
s chlSab2.chr23             28397387  945 +  82825804 TAAAAAGATTAAATGAATTTTCTGACTACTT---CTTTTGTGGTAGATGTGTTTTAACTATATTCAAGTGCAA---TAAAAAAACATATTTCAAAAGTAACCTTTTGAGCAATATCTGGAAATACTTGCTTTT---------------------------------------------------------------------------------------------GA-------------GTGTAATCTG----AGCATTCCTAAAATCCACAATCTAAACCGTCA-TAGAAATGTGAACATTTA-TTTGAAAGCTTGGTTGATGAAGAACAATAACATTAGAAGTAAGCCAATGCTTTTAAATTCCATGTCTCCTCAAA---AACAAGCATA--TTCATTCCAATGATATTTGTTCTGGGCACTGGTAATTCATATCATCATGTAATTTCTT-T-TAGAATGCCCATATGC-AGATATAATATAAACTATTTGCTATTTAGTAATGCTATTTTACATAATTAAGTCATCATGGCTTCTTTTTTTCAACAGAAGAATGAAAGCCTATCTATACTCTATAACAGATGACCAAACTGTATCAAATTGTGTCTCCAAATGGGGACAGAAGCATTGGTATGTGTACATTTTTATTAGAGCAGAAGTGAATCCAAAATACAATCTCTTGAGTTCAATTATAAAACCCATATGCTTGAGTGAATGCATGGT-AAAAATGTGCAACTTCATTACACATTAGAGGCACTACAAATTTCGGCTTTGATTC-AAAAA-CACTC-AGACTGCTAATGTGGC--ATATACTACTAAAAGACTAATATCATTGCTGTGTGGAGTGATATAAATGGGCAAGTGGAAACATCTGTATTTTCTCTGCTTTAAGAACATGGTCTTTTAATCCAAGGGCGTATCTGTGTAGAGGATAAAGCCTATAATAACAA---------AGAATGCTTATATTTTGATTCCTAGTGAAGAATAATAGCGAAG-AAAAAATACAC------AGGGCCATTGGAATTAGCAAAGTTATAGCTTAACCACTAGTGCCAATATCAACTTACTCTTATGGTC
i chlSab2.chr23            C 0 I 1
s manLeu1.NW_012103321v1     4067086  945 -   4237731 TAAAACGATTAAATGAATTTTCTGACTACTT---CTTTTGTGGTAGGTGTGATTTAACTACATTCAAGTGTAAT--TAAAAAAACATATTTCAAAAGTAACCTTTTGATCAATATCTGGAAATACTTGCTTTT---------------------------------------------------------------------------------------------GA-------------GTATAATCTG----AGCATTCCTAAAATCCACAATCTAAACCGTCA-TAGAAATGTGAACATTTA-TTTGAAAGCTTGGTTGATTAAGAACAATAACATTAGAAGTAAGCCAATGCTTTTAAATTCCATGTCTCCTCAAA---AACAAGCATA--TTCATTCCAATGATATTTGTTCTGGGCACTGGTAATTCATATCATCATGTAATTTCTT-T-TGGAATGCCCATATGC-AGATATAATATAAACTGTTTGCTATTTAGTAATGCTATTTTACATAATTAAGTCATCATGGCTTCATTTTTTCAACAGAAGAATGAAAGCCTATCTATACTCTATAACAGATGACCAAACTGTATCAAATTGTGTCTCCAAATGGGGACAGAAGCATTGGTATGTGTACATTTTTATTAGAGCAGAAGTGAATCCAAAATACAATCTCTTGAGTTCAATTATAAAACCCATATGCTTGAGTGAATGCATGGT-AAAAATGTGCAACTTCATTACACATTAGAGGCACTACAAATTTCGGCTTTGATTC-AAAAA-CACTC-AGACTGCTAATATGGC--ATATACTACT-AAAGGCTAATATCATTGCTGTGTGGAGTGATGTAAATGGGCAAGTGGAAACATCTGTATTTTCTCTGCTTTAAGAACATGGTCTTTTAATCCAAGGGCATATCTGTGTAGAGGATAAAGCCTATAATAACAA---------AGAATGCTTATATTTTGATTCCTAGTGAAGAATAATAGCAAAG-AAAAAATACAC------AGGGCCATTGGAATTAGCAAAGTTATAGCTTAATCACTAGTGCCAATATAAACTTACTCTTATGGTC
i manLeu1.NW_012103321v1   C 0 I 1
s colAng1.NW_012119644v1      335870  956 -   1175262 TAAAAAGATTAAATGAATTTTCTGACTACTT---CTTTTGTGGTAGATGTGATTTAACTACATTCAAGTGCAAT--TAAAAAAACATATTTCAAAAGTAACCTTTTGAGCAATATCTGGAAATACTTGCTTTT---------------------------------------------------------------------------------------------GA-------------GTGTAATCTG----AGCATTCCTAAAATCCACAATCTAAACCATCA-TAGAAATGTGAACATTTA-TTTGAAAGCTTGGTTGATTAAGAACAATAACATTAGAAGTAAGCCAATGCTTTTAAATTCCATGTCTCCTCAAA---AACAAGCATA--TTCATTCCAATGATATTTGTTCTGGGCACTGGTAATTCATATCATCATGTAATTTTTA-A-AAAAATGTCCATATGC-AGATATAATATAAACTATTTGCTATTTAGTAATGCTATTTTACATAATTAAGTCATCATGGCTTCATTTTTTCAACAGAGGAATGAAAGCCTATCTATACTCTATAACAGATGACCAAACTGTATCAAATTGTGTCTCCAAATGGGGACAGAAGCATTGGTATGTGTACATTTTTATTAGAGCAGAAGTGAATCCAAAATACAATCTCTTGAGTTCAATTATAAAACCCATATGCTTGAGTGAATGCATGGT-AAAAATGTGCAACTTCATTACACATTAGAGGCACTACAAATTTCGGCTTTGATTC-AAAAA-CACTC-AGACTGTTAATGTGGC--ATATACTACTAAAAGGCTAATATCATTGCTGTGTGGAGTGATGTAAATGGGCAAGTGGAAACATCTGTATTTTCTCTGCTTTAAGAACATGGTCTTTTAATCCAAGGGCGTATCTGTGTAGAGGAAAAGGCCTATAATAACAAAGAATGCTTAGAATGCTTATATTTTGATTCCTAGTGAAGAATAATAGCAAAGAAAAGAATACAC------AGGGCCATTGGAATTAGCAAAGTTATAGCTTAACCACTAGTGCCAATATAAACTTAGTCTTATGGTC
i colAng1.NW_012119644v1   C 0 I 1
s calJac3.chr2             123684133  944 - 204313951 T-AAAAAATTTAATGAATTTTCTGACTACTT---CTCTTGTGGTAGATGTGATTCAACTACATTCACGTACAATAAAAAAAAAGCATATTTCAAAAGTAAGATTTTGAGCAATATCTGGAAATACTTGCTTTT---------------------------------------------------------------------------------------------GA-------------GTGTAATTTG----AGCATTCTTAAAATCCACAATCTAAACAGTCA-ATTAAATGTG-ACATTTA-TTTAAAAGCTTGGTTGATTAAGAGCAATAACATTAGGACTAAGCCAATGCTTTTAAATTCCATGTCTCCTCAAA---AATAAGCATA--GTCATTCCAGTGATATTTGTTCTGGGCCCTGGTAATTCATATCATCATGTAATTTTTT---A--AATGTCCATATGC-AGATATAATATAAACTATTTGCTATTTAGTAACGCTATTTTACATAATTAAGTCATCATGGTTTTATTTTTTCAACAGACGAATGAAAGCATATCTATACTCTATAACAGATGACCAAACTGTATCAAATTGTGTTTCCAAATGGGAACAGAAGCATTGGTATGTGTACATTTTTATTAGAGCAGAAGTGAATCCAAAATACAATCTCTTGAGTTCAATTATAAAACCCATATGCTTGAGTGAATGCATGGT-AAAAATGTGCAACTTCATTACACATTAGAGGCACTACGAATTTCAGCTTTGATTC-AAAAA-CACTC-AGATTGCTAATGTGGC--ATATACTACTAAAAGGCTAATATCATTGCTGTGTGGAGTGACGTAAATGGGCAAGTGGAAACATCTGTATTTTCTCTGCTTTACAAACATGGTCTTTTAATGCAAGGGTATATTTGTGTAGAGGATAAAGCCTATAATAACAA---------AGAATGCTTATATTTTGGTTCCTAGTGAAGAATGATAGCAAAGAAAAAAATACAC------AGGGCCATTGGAATTAGACAAGTTATAGCTTAGCCACTAGTGCCAATATAAATGTACTCTTAAGGTC
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55728060  946 -  71252344 TAAAAAAATTTAATGAATTTTCTGACTACTT---CTCTTGTGGTAGATGTGATTCAACTACATTCAAGTACAAT-TAAAAAAAGCATATTTCAAAAGTAAGATCTTGAGCAATGTCTGGAAATACTTGCTTTT---------------------------------------------------------------------------------------------GA-------------GTATAATTTG----AGCATTCTTAAAATCCACAATCTAAACAGTCA-TATAAATGTGAACATTTA-TTTAAAAGCTTGGTTGATTAAGAGCAATAACATTAGAACCAAGCCAATGCTTTTAAATTTCATGTCTCCTCAAA---AATAAGCATA--TTTGTTCCAATGATATTTGTTCTGGGCCCTGGTAATTCATATCATCATGTAATTTTTTAA-A--AATGCTCATATGC-AGATATAATATAAACTATTTGCTATTTAGTAATGCTATTTTACATAATTAAGTCATCATGGTTTTATTTTTTCAACAGAAGAATGAAAGCATATCTACACTCTATAACAGATGACCAAACTGTATCAAATTGTGTTTCCAAATGGGAACAGAAGCATTGGTTTGTGTACATTTTTATTAGAGCAGAAGTGAATCCAAAATACAATCTCTTGAGTTCAATTATAAAACCCATATGCTTGAGTGAATGCATGGT-AAAAATGTGCAACTTCATTACACATTGGAGGCACTACAGATTTCAGCTTTGATTC-AGAAA-CACTC-AGATTGCTAATGTGGC--ATATACTACTAAAAGGCTAATATCATTGCTGTGGGGAGTGATGTAAATGGCCAAGTGGAAACATCTGTATTTTCTCTGCTTTAGGAACATGGTCTTTTAATCCAAGGGCATATTTGTGTAGAGGATAAAGCCTATAATAACAA---------AGAATGCTTATATTTTGGTTCCTAGTGAAGAATGATAACAAAG-AAAAAATACAC------AGGGCCATTGGAATTAGACAAGTTACAGCTTAGCCACTAGTGCAAATATAAATGTACTCTTAAGGTC
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107590v1       31602  945 -   3089952 TAAAAAATTGTAATGAATTTTCTGACTACTT---CTCTTGTGGTAGATGTGATTCAACTACATTCAAGTACAAT-AAAAAAAAGCATATTTCAAAAGTAAGGTCTTGAGCAATATCTGGAAATACTTGCTTTT---------------------------------------------------------------------------------------------GA-------------ACGTAATTTG----AGCATTCTTAAAATCCACAATCTAAACAGTCA-TATAAATGTGAACATTTA-TTTAAAAGCTTGGTTGATTAAGAGCAATAACATTAGAACTAAGCCAATGCTTTTAAATTCCATGTCTCCTCAAA---AGTAAGCATA--TTTGTTCCAATGATATTTGTTCTGGGCCCTGGTAATTCATATCATCATGTAATTTTTT-T-A--AATGCCCATATGC-AAATATAATATAAACTATTTGCTATTTAGTAATGCTATTTTACATAATTAAGTCATCATGGTTTTATTTTTTCAACAGAAGAATGAAAGCATATCTATACTTTATAACAGATGACCAAACTGTATCAAATTGTGTTTCCAAATGGGAACAGAAGCATTGGTATGTGTACATTTTTATTAGAGCAGAAGTGAATCCAAAATACAATCTCTTGAGTTCAATTATAAAACCCATATGCTTGAGTGAATGCATGGT-AAAAATGTGCAACTTCATTACACATTAGAGGCACTACAAATTTCAGCTTTGATTC-AAAAA-CGCTC-AGATTGCTAATGTGGC--ATATACTACTAAAAGGCTAGTATCATTGCTGTGTGGAGTGATGTAAACGGGCAAGTGAAAACATCTGTATTTTCTCTGCTCTAGGAACATGGTCTTTTAATCCAAGGGCATATTTGTGTAGAGGATAAAGCCTATAATAACAA---------GGAATGCTTATATTTTGGTTCCTAGTGAAGAATGAGAGCAAAG-AAAAAATACAC------GGGGCCATTGGAATTAGACAAGTTATAGCTTAGCCACTAGTGCCAATATAAACATACTCTTAAGGTC
i cebCap1.NW_016107590v1   C 0 I 1
s aotNan1.NW_018505940v1    13231886  945 -  42888418 TAAAAAAATTTAATGAATTTTCTGACTACTT---CTCTTGTGGTGGATGTGATTCAACTACATTCAAGTACAAT-TAAAAAAAGCATATTTCAAAAGTAAGATTTTGAGCAATATCTGGAAATACTTTCTTTT---------------------------------------------------------------------------------------------GA-------------GTGTAATTTG----AGCATTCTTAAAATCCACGATCTAAACAGTCA-TATAAATGTGAACATTTA-TTTAAAAGCTTGGTTGATTGAGAGCAATAACATTAGAACTAAGCCAATGCTTTTAAATTCCATATCTCCTCAAA---AATAAGCATA--TTTGTTCCAATGATATTTGTTCTGGGCCCTGGTAATTCATATCATCATGTAATTTTTT-T-A--AATGCCCATATGC-AGATATAATATAAACTATTTGCCATTTAGTAATGCTATTTTACATAATTAAGTAATCATGGTTTTATTTTTTCAACAGAAGAATGAAAGCATATCTACACTCTATAACAGATGACCAAACTGTATCAAATTGTGTTTCCAAATGGGAACAGAAGCATTGGTATGTGTACATTTTTATTAGAGCAGAAGTGAATCCAAAATACAATCTCTTGAGTTCAATTATAAAACCCATATGCTTGAGTGAATGCATGGT-AAAAATGTGCAACTTCATTACACATTAGAGGCACTACAAATTTCAGCTTTGATTC-AAAAA-CACTC-AGATTGCTAATGTGGC--ATATACTACTAAAAGGCTAATATCATTGCTGTGTGGAGTGATGTAAATGGGCAAGTGGAAACATCTGTATTTTCTCTGCTTTAGGAACATGGTCTTTTAATCCAAGGGCATATTTGTGTAGAGGATAAAGCCTATAATAACAA---------AGAATGCTTATATTTTGGTTCCTAGTGAAGAATGATAGCAAAG-AAAAAATACAC------GGGGCCATTGGAATTAGACAAGTTACAGCTTAGCTACTAGTGCCAATATAAACGTACTCTTAAGGTC
i aotNan1.NW_018505940v1   C 0 I 1
s micMur3.chr12             60568341  948 + 108143057 TAAAAAGATTTAATGAACTTTTGGACTACTTTCACTCTGGTGGTCAATGTGACTCAACTATATTTAATTGCAAT--ATAAAGAGAATACCTTAGAAGTAATATTTTGAGCAAAATCTAGAGATACTTGTTTGT---------------------------------------------------------------------------------------------GA-------------GTATAATTGA----AGCATTCCTAAAATCCACAATCTAAATACTCATTATCAATACGAACATTTATTTTGAAAGCTTGGTTGATTAAGAGCAATAACACTAAAACTAAGCGAATGC------ATTCCATGTCTCCTTAAA-ATATTAAGCATA--TTCATTCTAATGATATTTGTTCTGGGTACTGGTAATTCATATCACCATGTAATTCTTT-TAA--AATGCCCATATGT-GGCTATAATATAAACTGTTTGCTATTTAGTAATGTTATTTTACATAATTAAATTTTCATTACTTTATTCTTTCAACAGAAGAATGAGAGTATATCTAGACTCTATAACAGATGACCAAACTCCATCAAATTATATCTCCAAATGGGGACAGAAGCATTGGTATGTGTACATTTTTATTAGAGCAGAAGTGAATCCAAAATACAGTCTCTTGAGTTCAATTATAAAGCCCATACGCTTGAGTGAATGCATGGT-AAAAACGTGCAACTTTATTACACATTAGAGGTACTACAAATTTCAGCTTTGATTCAAAAAA-CACTCAAGATTGTTAATGTGGCGTATATACTGCTAAAAGGCTAATATCATCGCTGTGTGGAGCGATGTAAATGGGCAAGTAGAAACACTTGTA-TTTATCTGCCTTAGGAACATGGACTTTTAATCCAAGGGCATGTCCATATGGAGGATAAAACCGACCGTAACAA---------GGAATGCTTATATTACGGTAACTAGTGAAGAGTGGCGGCAAAG--GAAAACCCAT------AGGGCCATTGGAACTAAACACATTATAGCTTAACCACTAGTGCCAATGTAAACTTACTCTGAAGGTC
i micMur3.chr12            C 0 I 4
s proCoq1.NW_012155062v1     3601934  947 +  11683526 TAAAAAGATTTAATGAATTTTTGGACTACTTTTACTCTGGTGGTTGATGTGACTCAACTATATTTAATTGCAAT--AAAAAGAGAATACCTTACAAGTAATATTTTGAGCAAAATCTAGAGATACTTGTTTTT---------------------------------------------------------------------------------------------GA-------------GTGTAATCGA----AGCATTCCTAAAATCCACAATCTAAATACTCATTATCAGTGTGAACATTTATTTTGAAAGCTTGGTCGATTAAGAGCAATAACACTAGAACTAAGCCAATGC------ATTCCATGTCTCCTTAAA-ATATTAAGCATA--TTCATTCCAGTGATATTTGTTCTGGGCACTGGTAATTCATATCACCATGTAATTCTTT-TAA--AATGCCCATATGT-GGATATGATATAAATTGTTTGTTATTTAGTAATGTTATTTTACATAATT--GTTATCATGACTTTATTCTTTCAACGGAAGAATGAGAGCATATCTAGACTCTATAACAGATGACCAAACTATATCAAATTATATCTCCAAATGGGGACAGAAGCATTGGTATATGTACATTTTTATTAGAGCAGAAGTAAATCCAAAATATAATCTCTTGAGTTCAATTATAAAACCCATATGCTTGAGTGAATGCATAGT-AAAAATGTGCAACTTCATTACACATTAGAGGCACTACAAATTTCAGCTTTGATTCAAAAAA-CACTTAAGATTGCTAATGTGGCGTATATACTGCTAAAAGGCTAGTATCATTGCTGTGTGGAGTGATGTAAATGGGCAAGTAGAAACATCTGTA-TTTATCTGCTTTAGGAGCATGGACTTTTAATCCAAGGCCATGTCTGTTTGGAGGATAAAACCGACCATAACAA---------GGAATGTTTATATTATGGTACCTAGTGAAGAGTGATGGCAAAG-AAAAAACACAC------AGGGCCATTGGAATTAAACGAGTTATAGCTTAACCACTAGTGCCAATGTAAACTTACTCTTAAGGTC
i proCoq1.NW_012155062v1   C 0 I 142
s otoGar3.GL873679           3087256 1026 +   4132165 TAAAAAGATATAATGAATGTTCTGACCACTTTTACTTTTGCGGTAGATGTGATTCAATTATATTTAATTGCAAT--AAAAA-AGAATACTT------TAATATTTTGAATAAAATCTGAAGATACTTGTTTTTTTTGTTGTTGttttggctggggctgggtttgaacttgccacctctggcatatgggtctggtgccctactcctttgagccacaggtgccaccAAGATACTTGTTTTTTCGTGTAATCTG----AACATTCCTAAAATCTATAATCTAAAAATTCATTATCATTGGGCACATTTATTTTGAAAGCTTGGTTGAGTAAAAGCAATAGCACTAGAACAAAACCAATGC------ATTCTGTGTCTCCTCAAA-TTATTAAGCATA--TTCATTCCAGCAATATTTGTTCTGGGCACTGGTAATTCCTATTACCATGTAATTTTTT-T-A--AATGCACATATGT-GGATATAATATGAACTATTTACTATTTAGTAATGCTATTTTACATAATTAAATTATCATGGCTTTATTCTTTCGATAGGAGAATGACAGCATATCTAGACTCTGTAACAGATGACCAAACTATATCAAATTGTATCTCCAAATGGGGACAGAAGCATTGGTATGTGTACATTTTTATTAGCGCAGAAGTGAATCCAAAATACAATCTCTTGAGTTCAATTATAAAACCCATATGGTTGAGTGAATGCATGGT-AAAAATGTGCAACTTCATTACACATTAGAGGCACTACAAATTTCAGCTTTGATTCAAAAAA-CACTC-AGATTGCTAATGTGGCGTGTACA--GCTAAAAGGCTAAT---ATTGCTATGTAGAGTGATATAAATGGGCAAGTAGAAACATTTGTATTTTTTCTGCTTTGGGAACATAAACTTTTAATCCAAGGGCATATCTATATGGAGGATAAAACTGACCACAACAG---------GGAATGCTTACGTTATGGTACCCAGTAAAGAGTGATGGCAAAG-AAAAAACACAC------AGGGCCATAGGAA----------------TTAATTACTGGTGCCAGGATAAAAATACTCTTGAGGCC
i otoGar3.GL873679         I 1249 I 1
s mm10.chr18                55532264  934 +  90702639 TAGAATGATTTAATGAAGTAT---ACGCATT---CCCT--TGGAGAATGTGATACAGCTACACGTAATTCAAAT--AAAAAGTGTATATTACACAAGCAGCAATTTGCATCTAGTTTGTGAAGATTTGCTTCT---------------------------------------------------------------------------------------------GA-------------GGGTGATTTGTATATACATACCTGAAGTCCATTATCTACACAGTTA-GGTCAGTGTGACTATTTA-TTTGAAAGCTTGACTGATTAACAGCTGTAACACTACAGCCAAATTGGTGCTTTTCACCTTC-TGTCTCCTAGAA-ATATTAAGC-----------------ATCTTTGTTAGGAGACCTGGTAGTTCAGATTATTATGCAATTATTT-T-TA-AATGACC-TATGCAAAATATAATATAGACTGTTTTCTACCTTGTGGTGTTATTTTATGTAATTAAGTTATCATGCCTTC-CGTTCTCAACAGAGAAATGAAAGCATATCCACAC--TGTAACAGATAGCCAAACTGTCTCAAATTGTGCCTGCAAGTGGGGACAGACACATTAATATGTGTACATTTTTATTAGAGCAGAAGTGAATCCAAAATACAATCTCTTGAGTTCAATTATGAAGCCCATATGCTTGAGTGAGTGCATGGC-AAAAATGTGCAACTTCATTCCACGTTAGAGACACTACAGATTTCTGCTGTGATTC-AGAAACCACTC-AGATTGCTAATGTGGC--GTACACAGCTAAAAGGCTAATATCATTGCTGTGTGGAGTAATATAAATGGGTGAACAGAAACATCTATACTTTTAATGCTTTAAAAACGCGGCCTTTAAATCCAAGGGTATATGCATGCAGAGGATAAAGCTTTCAATAACAA---------GGAATGCTTATATCAGAGTGCCTTCTGGATAATGATAGTGAAG-AAAAAAGAAACATTTAAAGCAACTTTGGAATTTAAAAAGCTACAACTTAACTGTGAGGCTCTTTGTAAACTCACCTGTGCAGTC
i mm10.chr18               C 0 I 4
s canFam3.chr11             14930446  938 +  74389097 TAAAAAGATTTAATGAATTTTCTGATTATTTCTACTCTTTTGTCATGTGTAATTCAACTACATTCAAGTGCAAT----AAAAAGAATACTTTAAGAGTAATATTTTGAGCAA-ATCCGGAAATACTTCCTTCT---------------------------------------------------------------------------------------------GA-------------GTATAATCTG----AACATGCCTAAAATCCACAATTTAAACATTGA-CATAAATATGAACATTTA-TTTGAAAGCTTGGTTGATTAAAAGCAATAACACTAGAACTAAGCTGATGCTTTTAAAATCTATGTTTTCTCAAAAATATTAGGCATA--TTCGTTCCAATGAAATTTGTTCTGGACACTGCTAGTTCATATCATCATGTAATTCTTT-G-AA-AATGACCATATGG-GGAGAGAATATAAATTGTTTGCTATTTAATAATGATAATTTGCATAATTAAGTTTTTCTGACTTTAGTCTTTCAACAGAGTAGTAAAAGCATACCTACAC--TATAACAGATGACCAAACTGTATCAAATTGTGTCTCCAAATAGGGACAGAAGCATTGGTATGTGTACATTTCTACTGGAGCAGACGTGAATCCAAAATACAATCTCTGGAGTTCAATTATAAAACCCATATGCTTGAGTGAATGCATGGT-AAAAATATGCAATTTCATTACACATTAGAGGCACTACAAATCTCAGCTTTGATTCAAAAAA-CACTC-AGACTGCTAATGTGGT--GTATACTGCTAAAAGGCTAATATCACTGCTGTGTGCAGT------AATGGGCAAATGGAAACATCTGTATTTTCTCTGCTTTAAGAACATAGCCTTTTAATCCAAAGGCTTATCTGTGTTGAGGATAAAGGCTGTACTAACAA---------GGAATGCTTATGTTATGGTACCTAGTTAAGAGTAAC--CACAG-AAGAAGTATAC------AGGGCCATTGAAATTAAACAAGTTATA-CTTTATCACTACTGCCAATGTAAACTTACTCTTAAAATC
i canFam3.chr11            C 0 I 4
s dasNov3.JH567306           2650604  945 +   3667625 TAAAAATATTTAATGAATTTTCTGATTACTTCTACTCTTGTGGTAGATGTAATTCAACTGTATTCAACTGAAA---GAAAAAAGAATATGTTAAGAGTAGTATTTTCAGCAAAATCTGGAAATACATGATTTT---------------------------------------------------------------------------------------------AA-------------GTATAATCTG----AGCATTCCTGAAATCCATGGTCTAAATATTTA-TACAAATGTGAACTTTTA-CTTGAAAACTTGGTT----AAGAGCAATAACACTAGAACTAAGTCAATGCTTTTAAATTCCATGTCTTTTCGAAAATATTAAGCAGATTTTTTTTTCTATGGTATTTGTTCTGGGTACAGATAGTTCATATTATCATGTAATTCTTT-A-AAAAACTACCATAAGC-AGATATAATAT-AACTATTTGCTATTTGATAATGTTATTTTACATAATTAAGTTATCATGACTTTAATCTTTCAACAGAGGAATGAGAACATGTCTACACTCCATAACAGATGACCGAACTATATTAAATTGTGTCTCCAAATGGGGACAAAAGCATTGGTATGTGGACTATTTTATTAGAGCAGAAGTGAATCCAAAATACAATCACTTGAGTTCAATTATGAAACCCTTATGCTTGAGTGAATGCATGGTAAAAAATGTGCAACTTCATTACACACTAGAGGCACTGCAAATTTCAGCTTTGATTCAAAAAA-CACTC-AGATTGCTAATGTGGC--TTGTACTGCTAAAAGGCTAATGTCATTGCTGT-TGGAGCAATGTAAACGGGGAAGTAGAAACATCTGCATTTTCTCTGTTTTAAGAATGTGGCCTTTTAATCCATGAGCATATCTGTGCTAAGGATAACGCTTATGATAACAA---------GGAATGCTTATATTATGGTACCTAGTGAAGAATAATAGTGAAG-AAAAA----AC------AGGACCATTAGAATTACACAACTTGGAGTTTAACCACTAGTGCCAATGTAAACTTAGTCTTAAGATC
i dasNov3.JH567306         C 0 I 4

a score=232500.000000
s hg38.chr5_KI270796v1_alt    111275 15 +    172708 TGAAGTGTTCTTACT
s panTro5.chr5             125215016 15 + 181907262 TGAAGTGTTCTTACT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126551706 15 + 183735486 TGAAGTGTTCTTACT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1743451 15 +   8933513 TGAAGTGTTCTTACT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139878458 15 + 163208435 TGAAGTGTTCTTGCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122863109 15 + 180051392 TGAAGTATTCTTGCT
i rheMac8.chr6             I 1 C 0
s macFas5.chr6             124286725 15 + 181584905 TGAAGTATTCTTGCT
i macFas5.chr6             I 1 C 0
s macNem1.NW_012012355v1    16285083 15 +  18395747 TGAAGTATTCTTGCT
i macNem1.NW_012012355v1   I 1 C 0
s cerAty1.NW_012002512v1     5298021 15 +  26952557 TGAAGTATTCTTGCT
i cerAty1.NW_012002512v1   I 1 C 0
s chlSab2.chr23             28398333 15 +  82825804 TGAAGTATTCTTGCT
i chlSab2.chr23            I 1 C 0
s manLeu1.NW_012103321v1     4068032 15 -   4237731 TGAAGTATTCTTGCT
i manLeu1.NW_012103321v1   I 1 C 0
s colAng1.NW_012119644v1      336827 15 -   1175262 TGAAGTATTCTTGCT
i colAng1.NW_012119644v1   I 1 C 0
s calJac3.chr2             123685078 15 - 204313951 TGAAGTATTCTTGCT
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55729007 15 -  71252344 TGAAGTATTCTTGCT
i saiBol1.JH378106         I 1 C 0
s cebCap1.NW_016107590v1       32548 15 -   3089952 TGAAGTATTCTTGCT
i cebCap1.NW_016107590v1   I 1 C 0
s aotNan1.NW_018505940v1    13232832 15 -  42888418 TGAAGTATTCTTGCT
i aotNan1.NW_018505940v1   I 1 C 0
s micMur3.chr12             60569293 15 + 108143057 AGAAGTATTCTTACT
i micMur3.chr12            I 4 C 0
s otoGar3.GL873679           3088283 15 +   4132165 TGAAGTATTCTTGCT
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55533202 13 +  90702639 GGAAGAGTTCCTG--
i mm10.chr18               I 4 C 0
s canFam3.chr11             14931388 15 +  74389097 AGAAATATTCTTGCT
i canFam3.chr11            I 4 I 194
s dasNov3.JH567306           2651553 15 +   3667625 AGAAGTACTTTTGCT
i dasNov3.JH567306         I 4 C 0
e proCoq1.NW_012155062v1     3602881 142 +  11683526 I

a score=26534.000000
s hg38.chr5_KI270796v1_alt    111290 3 +    172708 GCT
s panTro5.chr5             125215031 3 + 181907262 GCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126551721 3 + 183735486 GCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1743466 3 +   8933513 GCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139878473 3 + 163208435 GCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122863124 3 + 180051392 CCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124286740 3 + 181584905 CCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16285098 3 +  18395747 CCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5298036 3 +  26952557 CCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28398348 3 +  82825804 CCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4068047 3 -   4237731 CCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      336842 3 -   1175262 CCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123685093 3 - 204313951 CCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55729022 3 -  71252344 CCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       32563 3 -   3089952 CCT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13232847 3 -  42888418 CCT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60569308 3 + 108143057 CCC
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3088298 3 +   4132165 TCC
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2651568 3 +   3667625 CCC
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14931403 194 +  74389097 I
e proCoq1.NW_012155062v1     3602881 142 +  11683526 I
e mm10.chr18                55533215 0 +  90702639 C

a score=1489176.000000
s hg38.chr5_KI270796v1_alt    111293 117 +    172708 -TTTCTCA-GATGAACTAAAGATGAA------CATCTTTA-----GGCGGGTCTTTAG-------------------------------------AAAACTGAGATGAGTACTAAGTGAGGAGAGCAGCCTCAAGTACCTGTAAAAGAAAAATGGAAAAAAT-TCTAC
s panTro5.chr5             125215034 117 + 181907262 -TTTCTCA-GATGAACTAAAGATGAA------CATCTTTA-----GGCGGGTCTTTAG-------------------------------------AAAACTGAGATGAGTACTAAGTGAGAAGAGCAGCCTCAAGTACCTGTAAAAGAAAAATGGCACAAAT-TCTAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126551724 117 + 183735486 -TTTCTCA-GATGAACTAAAGATGAA------CATCTTTA-----GGCGGGTCTTTAG-------------------------------------AAAACTGAGATGAGTACTAAGTGAGAAGAGCAGCCTCAAGTACCTGTAAAAGAAAAATGGCACAAAT-TCTAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1743469 117 +   8933513 -TTTCTCA-GATGAATTAAAGATGAA------CATCTTTA-----GGCGGGTCTTTAG-------------------------------------AAAACTGAGATGAGCACTAAGTGAGAAGAGCAGCCTCAAGTACCTGTAAAAGAAAAATGGAACAGAT-TCTAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139878476 117 + 163208435 -TTTCTCA-GATGAATTAAAGATGAA------CATCTTTA-----GACTGGTCTTTAG-------------------------------------AAAACTGAGATGAGTACCAAGTGAGAAGAGCAGCCTCAAGTACCTGTAAAAGAAAAATGTAACAAAT-TCTAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122863127 117 + 180051392 -TTTCTCA-GATGAATTAAAGATGAA------CATCTTTA-----GATGGGTCTTTAG-------------------------------------AAAACTGAGATGAGTACTAAGTGAGAATAGCAGCCTCAAGTACCTGTAAAAGAAAAATGGAACAAAT-TCCAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124286743 117 + 181584905 -TTTCTCA-GATGAATTAAAGATGAA------CATCTTTA-----GATGGGTCTTTAG-------------------------------------AAAACTGAGATGAGTACTAAGTGAGAATAGCAGCCTCAAGTACCTGTAAAAGAAAAATGGAACAAAT-TCCAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16285101 117 +  18395747 -TTTCTCA-GATGAATTAAAGATGAA------CATCTTTA-----GATGGGTCTTTAG-------------------------------------AAAACTGAGATGAGTACTAAGTGAGAATAGCAGCCTCAAGTACCTGTAAAAGAAAAATGGAACAAAT-TCCAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5298039 117 +  26952557 -TTTCTCA-GATGAATTAAAGATGAA------CATCTTTA-----GATGGGTCTTTAG-------------------------------------AAAACTGAGATGAGTACTAAGTGAGAATAGCAGCCTCAAGTACCTGTAAAAGAAAAATGGAACAAAT-TCCAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28398351 117 +  82825804 -TTTCTCA-GATGAATTAAAGATGAA------CATCTTTA-----GATGGGTCTTTAG-------------------------------------AAAACTGAGATGAGTACTAAGTGAGAATAGCAGCCTCAAGTACCTGTAAAAGAAAAATGGAACAAAT-TCCAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4068050 117 -   4237731 -TTTCTCA-GATGAATTAAAGATGAA------CATCTTTA-----GATGGGTCTTTAG-------------------------------------AAAACTGAGATGAGTACTAAGTGAGAATAGCAGCCTCAAGTACCTGTAAAAGAAAAATGGAACAAAT-TCCAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      336845 117 -   1175262 -TTTCTCA-GATGAATTAAAGATGAA------CATCTTTA-----GATGGGTCTTTAG-------------------------------------AAAACTGAGATGAGTACTAAGTGAGAATAGCAGCCTCAAGTACCTGTAAAAGGAAAATGGAACAAAT-TCCAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123685096 117 - 204313951 -TTTTTCA-GATAAATTAAAGATGAA------TATCTTTA-----GTTGGGTCCTTAG-------------------------------------AAAACTCAGATGTGTACTAAGTGAGAAGAGCAACCTCAAATACCTGTAAAAGAAAAATGGCACAAAT-TTCAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55729025 117 -  71252344 -TTTTTCG-GATAAATTAAAGATGAA------TATCTTTA-----GATGGGTTGTTAG-------------------------------------AAAACTCAGATGTGTACTAAGTGAGAAGAGCAACCATAAGTACCTGTAAAAGAAAAATGGTACAAAT-TTCAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       32566 117 -   3089952 -TTTCTCG-GATAAATTAAAGATGAA------TATCTTTA-----GATGGGTCTTTAG-------------------------------------AAAACTCAGATGTGTACTAAGTGAGAAGAGCAACCTCAAGTACCTGTAAAAGAAAAATGGCACAAAT-TTCAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13232850 154 -  42888418 -TTTTTCG-GATAAATTAAAGATGAA------TATCTTTA-----GATGGATCGTTAGAAAACTCAGATGTGTACTAAGTGAGAAGAGCAACCTCAAAACTCAGATGTGTACTAAGTGAGAAGAGCAACCTCAAGTACCTGTAAAAGAAAAATGGCACAAAT-TTCAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60569311 119 + 108143057 -TTTTCCACAATAAATTAAGAAATAA------CATCTTTA-----GATGTGTCTTTAG-------------------------------------AAAACTGAGACGACTACAAAATGATAAGGACAATCTGAAGCACCTGCAAAAGAGAAATGTAACAAAAGTCCAC
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3088301 119 +   4132165 -TTTTTCAGGATAAATTAAAGATGAA------CATCTCTA-----GAGGGGTCTTTAT-------------------------------------AAAACTGAGATGAACATGAAGTAGTAAGGATAATCTGAAATGCTTGCCAAAGAGAAATGCAACAGGTGCCCAC
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55533215  83 +  90702639 ---------G----------GAGGAA------CATCTCTAGTTGGGTTGGGTCTTTAG-------------------------------------AAA-------------------TAGGAGACCAGCCTCAAGTATCTACAAA---GAGATGGAGCAAAG-TCCAC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14931597 122 +  74389097 -TTTTTTG-CATAAATTAAAGATAGAGTTAATGATCTCTG-----TATGAGTTTTTAG-------------------------------------AAAAA-AAAATGTGTACTAAGTGATAGAGATATCTTTGAGTGCCTGTGAAAGAAAAATGAAGCAAAG-TTCAT
i canFam3.chr11            I 194 C 0
s dasNov3.JH567306           2651571 115 +   3667625 TTTTATAG-GTAAAATTAAAAATAGA------AATGAACA-----TTTGAGTCTTTAG-------------------------------------AAA---CAGATGAGTACTGAGTGATGAGGATAGACTTCAGTACTTACAAAAAAGAAATCATCCGAAG-TCCAC
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3602881 142 +  11683526 I

a score=244751.000000
s hg38.chr5_KI270796v1_alt    111410 15 +    172708 AAAATCTTTGG-GTTG
s panTro5.chr5             125215151 15 + 181907262 AAAATCTTTGG-GTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126551841 15 + 183735486 AAAATCTTTGG-GTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1743586 15 +   8933513 AAAATCTTTGG-GTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139878593 15 + 163208435 AAAATCTTTGG-GTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122863244 15 + 180051392 ATAATCTTTGG-GTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124286860 15 + 181584905 ATAATCTTTGG-GTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16285218 15 +  18395747 ATAATCTTTGG-GTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5298156 15 +  26952557 ATAATCTTTGG-GTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28398468 15 +  82825804 ATAATCTTTGG-GTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4068167 15 -   4237731 ATAATCTTTGG-GTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      336962 15 -   1175262 ATAATCTTTGG-GTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123685213 15 - 204313951 AAAATCTTTGG-GTTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55729142 15 -  71252344 AAAATCTTTGG-GTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       32683 15 -   3089952 AAAATCTTTGG-GTTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13233004 15 -  42888418 AAAATCTTTGG-GTTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60569430 15 + 108143057 AAAATCTTTGG-ACTA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3603023 15 +  11683526 AAAATCTTTGG-ATTA
i proCoq1.NW_012155062v1   I 142 C 0
s otoGar3.GL873679           3088421 15 +   4132165 AAGATCTTTGG-GTTC
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55533298 16 +  90702639 ACCATCTTTGGAGTTG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14931719 15 +  74389097 AAAACCTTTGA-GTTg
i canFam3.chr11            C 0 I 200
s dasNov3.JH567306           2651686 15 +   3667625 AAAATCTCTGG-GCTT
i dasNov3.JH567306         C 0 C 0

a score=2613487.000000
s hg38.chr5_KI270796v1_alt    111425 178 +    172708 ATAAATCTGAAGACTCAGTGAGACATCAAGA-AATGTCAAGATG----------AAAATGTATTTTAATGGTATACAAATGGTAACTAGAGGACTAGTTAATTCTCAATAATTAGCTTATGCTTAAAAGATGTGTATTCAGTAGTTCCTGTAC-TTAAAAACTA-TCTCCAAGAACA-AAAGTTTCAACTTT
s panTro5.chr5             125215166 178 + 181907262 ATAAATCTGAAGACTCAGTGAGACATCAAGA-AATGTCAAGATG----------AAAATGTATTTTAATGGCATACAAATGGTAACTAGAGGACTAGTTAATTCTCAATAATTAGCTTATGCTTAAAAGATATGTATTCAGTAGTTCCTGTAC-TTAAAAACTA-TCTCCAAGAACA-AAAGTTTCAACTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126551856 178 + 183735486 ATAAATCTGAAGACTCAGTGAGACATCAAGA-AATGTCAAGATG----------AAAATGTATTTTAATGGCATACAAATGGTAACTAGAGGACTAGTTAATTCTCAATAATTAGCTTATGCTTAAAAGATATGTATTCAGTAGTTCCTGTAC-TTAAAAACTA-TCTCCAAGAACA-AAAGTTTCAACTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1743601 178 +   8933513 ATAAATCTGAAGACTCAGTGAGACATCAAGA-AATGTCAAGATG----------AAAATGTATTTTAATGGTATACAAATGGTAACTAGAGGACTAGTTAATTCTCAATAATTAGCTTATGCTTAAAAGATATGTATTCAGTAGTTCCTGTAC-TTAAAAACTA-TCTCCAAGAACA-AAAGTTTCAACTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139878608 178 + 163208435 ATAAATCTGAAGACTCAGTGAGACATCAAGA-AATGTCAAGATG----------AAAATGTATTTTAATGGCATACAAATGGTAACTAGAGGACTAGTTAATTCTCAATAATTAGCTTATGTTTAAAACATATGTATTCAGTAGTTCTTGTAC-TTAAAAACTA-TCTCCAAGAACA-AAAGTTTCAACTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122863259 178 + 180051392 ATAAATCTGAAGACTCAGTGAGACATCAAGA-AATGTCAAGATG----------AAAATGTATTTTAATGGTATACAAGTGGTAACTAGAGGACTAGTTAATTCTCAATAATTAGCTTATGCTTAAAAGATATGTATTCAGTAGTTCCTGTAC-TTAAAAACTA-TCTCCAGGAACA-AAAGTTTCAACTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124286875 178 + 181584905 ATAAATCTGAAGACTCAGTGAGACATCAAGA-AATGTCAAGATG----------AAAATGTATTTTAATGGTATACAAGTGGTAACTAGAGGACTAGTTAATTCTCAATAATTAGCTTATGCTTAAAAGATATGTATTCAGTAGTTCCTGTAC-TTAAAAACTA-TCTCCAGGAACA-AAAGTTTCAACTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16285233 178 +  18395747 ATAAATCTGAAGACTCAGTGAGACATCAAGA-AATGTCAAGATG----------AAAATGTATTTTAATGGTATACAAGTGGTAACTAGAGGACTAGTTAATTCTTAATAATTAGCTTATGCTTAAAAGATATGTATTCAGTAGTTCCTGTAC-TTAAAAACTA-TCTCCAGGAACA-AAAGTTTCAACTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5298171 177 +  26952557 ATAAATCTGAAGACTCAGTGAGACATCAAGA-AATGTCAAGATG----------AAAATGTATTTTAATGGTATACAAGTGGTAACTAGAGGACTAGTTAATTCTCAATAATTAGCTTATGCTT-AAAGATATGTATTCAGTAGTTCCTGTAC-TTAAAAACTA-TCTCCAGGAACA-AAAGTTTCAACTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28398483 178 +  82825804 ATAAATCTGAAGACTCAGTGAGACATCAAGA-AATGTCAAGATG----------AAAATGTATTTTGATGGTATACAAGTGGTAACTAGAGGACTAATTAATTCTCAATAATTAGCTTATGCTTAAAAGATATGTATTCAGTAGTTCCTGTAC-TTAAAAACTA-TCTCCAGGAACA-AAAGTTTCAACTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4068182 177 -   4237731 ATAAATCTGAAGACTCAGTGAGACATGAAGA-AATGTCAAGATG----------AAAATGTATTTTAATGGTATACAAGTGGTAACTAGAGGACTAGTTAATTCTCAATAATTAGCTTATGCTT-AAAGATATGTATTCAGTAGTTCCTGTAC-TTAAAAACTA-TCTCCAGGAACA-AAAGTTTCAACTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      336977 178 -   1175262 ATAAATCTGAAGACTCAGTGAGACATCAAGA-AATGTCAAGATG----------AAAATATATTTTAATGGTATACAAGTGGTAACTAGAGGACTAGTTAATTCTCAATAATTAGCTTATGCTTCAAAGATATGTATTCAGTAGTTCCTGTAC-TTAAAAACTA-TCTCCAGGAACA-AAAGTTTCAACTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123685228 157 - 204313951 ATAAATCTGAAGACTTGATGAGATATCAAGA-GATGTGAAGATG----------AAAAGGTATTTTAATTGTATACAAATGGTAACTAGGGAAGTTATTAATTCTAAACAATTAGCTTGTGCTTGAAAGATAGGTAT----TAATTCCTGTAT-TTAA------------------A-AAAGTTTTAACTTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55729157 174 -  71252344 ATAAATCTGAGGACTTGATGGGATATCAAGA-AATGTCAAGATG-----------AAATGTATTTTAATTGTCTACAAATAGTAACTAGGGAGCTAATTTATTCTAAATAATTAGCTTATGCTTAAAAGATATGTATTGAGTAATTCTTGTAC-TTAAAAACTA-CCTCAAAGAACA-AAAGTTAAAAC---
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       32698 178 -   3089952 ATAAATCTGAAGACTTGATGAGATATCAAGA-AATGTCAAGATG----------AAAATGTATTTTAATTGTATACAAATGGTAACTAGGGAGCTAATTAATTCTAAATAATTAGGTTATGCTTAAAAGATATGTATTGAGTAATTCCTGTAC-TTAACAACTA-CCTCAAAGAACA-AAAGTTTTAACTTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13233019 178 -  42888418 ATAAATCTGAAGACTTGATGAGATATCAAGA-AATGTCAAGATG----------AAAATGTATTTTAATTGTATACAAATGGTAACTAGGGAGCTAATTAATTCTAAATGATTAGCTTATGCTTAAAAGATACGTATTGAGTAATTCCTGTAC-TTAAAAACAA-CCTCAAAGAACA-AAAGTTTTAACTTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60569445 173 + 108143057 ATAAATCTAAAGATTTGATGATTTATCAGGA-TATGTCAAG---------------AATGTGTTTTAATTGTACACAAATGGTAACTAGGGGCCTAATTAATTCTCAGTAATTAGTTTATGCTTGAAAGATGTATTTTCAGTGGTTCTAGTAC-CTAAAAGCTA-CCTCAAAGAACA-AAAGTTTCAACTTT
i micMur3.chr12            C 0 I 88
s proCoq1.NW_012155062v1     3603038 177 +  11683526 ATAAATTGGGAGATTTGGTGATTTATCAAGA-TATGTCAAGATT-----------AAATATATTTTAATTGTACACAAATGGTAACTAGCGGCCTAATTAATTCTCAGTAATTAGTTTATGCTTGAAAGATGTATTTTCAGTGGTTCTAGTAC-TTAAAAGCTA-CCTCAAAGAACA-AAAGTTTCAACTTT
i proCoq1.NW_012155062v1   C 0 I 60
s otoGar3.GL873679           3088436 177 +   4132165 ATAAATCTGAAGATTTGGTGATTTATCAAGA-TCTGTCAAGATT-----------AAATGTATTTTAATTATACACAAATGGTAACTAGGGGCCTAATTAATTCTCACTCATTGGTTGATACACAAAAGATGTATATACAGTGGTTCTAATAC-CTAAAAGCTT-CTTGAAAGAATG-AAAGTTTCAACTTT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55533314 169 +  90702639 GGAACTTGGAAGATTTGGTGATGAATCAAGA-TATATCAAGATG----------AAAATGCATTTTGATTGTAAACCAGTGGCAGGTGCAGAAC----TCATTCCAAGTGAATAATTCATGCTT-AAAGATGTGAAACCAGCAGCGCTGCTAT-GTATAGGCTC-CTTCAAAGAACACAAAACTTCA-----
i mm10.chr18               C 0 C 0
s canFam3.chr11             14931934 179 +  74389097 ATAAATGTGAAGACCGGGTGACATATCAAGATTATGTACAGATG----------AAAATGTATTTTAATAA-ATGCAAATGGAAACTATGGGCTTAATTAATTCCCAATAATTCATTTTTGCTTTAAAGATGTGTACTAAGTGATTCTGGTAC-TTAAAAGGTATTCTCAAAGAACA-AAAGTTTTAACTTT
i canFam3.chr11            I 200 C 0
s dasNov3.JH567306           2651701 176 +   3667625 ATAAATCAGAAGACTTGGTGCTATAGCaaaa-taaaataaaataaaatTTAAAAAAAATGTATGTTAACT-CATGTAAATGGTAACTAGGTGCTTAATTAATT-----------GTTTTTGCTTAAAAGATATGTATTCAGTGGTTCTGGTACTTTAAAAGTTA-ACTCAAAGACCA-ACA-TTCCAACTTT
i dasNov3.JH567306         C 0 C 0

a score=-6364.000000
s hg38.chr5_KI270796v1_alt    111603 4 +    172708 --CGTT
s panTro5.chr5             125215344 4 + 181907262 --CGTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126552034 4 + 183735486 --CGTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1743779 4 +   8933513 --CGTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139878786 4 + 163208435 --TGTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122863437 4 + 180051392 --TGTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124287053 4 + 181584905 --TGTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16285411 4 +  18395747 --TGTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5298348 4 +  26952557 --TGTT
i cerAty1.NW_012002512v1   C 0 I 13
s chlSab2.chr23             28398661 4 +  82825804 --TGTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4068359 4 -   4237731 --TGTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      337155 4 -   1175262 --TGTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123685385 4 - 204313951 --TGTT
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107590v1       32876 4 -   3089952 --TGAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13233197 4 -  42888418 --TGTT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3088613 1 +   4132165 ---A--
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14932113 1 +  74389097 ---A--
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2651877 2 +   3667625 AA----
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569618 88 + 108143057 I
e proCoq1.NW_012155062v1     3603215 60 +  11683526 I
e mm10.chr18                55533483 0 +  90702639 C
e saiBol1.JH378106          55729331 0 -  71252344 C

a score=431825.000000
s hg38.chr5_KI270796v1_alt    111607 53 +    172708 CTTTTGTATTTCTAGAGGAAGCTAATA---TGAAGCAATAAACT---------AGAAGATGAAGT
s panTro5.chr5             125215348 53 + 181907262 CTTTTGTATTTCTAGAGGAAGCTAATA---TGAAGCAATAAACT---------AGAAGATGAAGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126552038 53 + 183735486 CTTTTGTATTTCTAGAGGAAGCTAATA---TGAAGCAATAAACT---------AGAAGATGAAGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1743783 53 +   8933513 CTTTTGTATTTCTAGAGGAAGCTAATA---TGAAGCAATAAACT---------AGAAGATGAAGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139878790 53 + 163208435 CTTTTGTATTTCTAGAGGAAGCTAATA---TGAAGCAATAAACT---------AGAAGATGAAGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122863441 53 + 180051392 CTTTTGTATTTCTAGAGGAACCTAATA---TGAAGCAATAAACT---------GGAAGAATAAGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124287057 53 + 181584905 CTTTTGTATTTCTAGAGGAACCTAATA---TGAAGCAATAAACT---------GGAAGAATAAGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16285415 53 +  18395747 CTTTTGTATTTCTAGAGGAACCTAATA---TGAAGCAATAAACT---------GGAAGAATAAGT
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28398665 53 +  82825804 CTTTTGTATTTCTAGAGGAACCTAATA---TGAAGCAATAAACT---------GGAAGATGAAGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4068363 53 -   4237731 CTTTTGTATTTCTAGAGGAACCTAATA---TGAAGCAATAAACT---------GGAAGATGAAGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      337159 53 -   1175262 CTTTTGTATTTCTAGAGGAACCTAATA---TGAAGCAATAAACT---------GGAAGATGAAGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123685389 64 - 204313951 CTTTTGTATTTCTAGAGGAAGCTAATATTGTGACGATAT-TACTAGATAAACTAGAAGATGAAGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55729331 51 -  71252344 --------TTTCTAGAGGAAGCTAATATCGTGAAGCAATAAACTAGA------AGAAGATGAAGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       32880 58 -   3089952 CTTTTGTATTTCTAGAGGAAGCT-ATTTCATAAAGCAATAAACTAGA------AGAAGATGAAGT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13233201 59 -  42888418 CTTTTGTATTTCTAGAGGAAGCTAATATTGTGAAGCAATAAACTAGA------AGAAGATGAAGT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3088614 53 +   4132165 ---TACTATGTGTAGATGAAGTTAATATCATGGAAAGATCAACT---------AAAGATTGAAAC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55533483 53 +  90702639 ---TAGTGCTGTTGAAGGAAGCTAATATCACAGAACAACCAAGT---------AGCACTCGAAGC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14932114 50 +  74389097 ---TAGTATTTCTGGGAAGTTATATTA---CTGAGGGATCAAGT---------TAATGTTGAAAC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2651879 52 +   3667625 ----AATATGTTTAGGGCAAATTACTTTCACAGAGGGATTAACT---------AAATATTGAACC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569618 88 + 108143057 I
e proCoq1.NW_012155062v1     3603215 60 +  11683526 I
e cerAty1.NW_012002512v1     5298352 13 +  26952557 I

a score=209751.000000
s hg38.chr5_KI270796v1_alt    111660 18 +    172708 TTGAGAAAT---------------------------------------------------CCAAGTTCC
s panTro5.chr5             125215401 18 + 181907262 TTGAGAAAT---------------------------------------------------CCAAGTTCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126552091 18 + 183735486 TTGAGAAAT---------------------------------------------------CCAAGTTCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1743836 18 +   8933513 TTGAGAAAT---------------------------------------------------CCAAGTTCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139878843 18 + 163208435 TTGAGAAAT---------------------------------------------------CCAAGTTCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122863494 18 + 180051392 TTGAGAAAT---------------------------------------------------CCAAGTTCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124287110 18 + 181584905 TTGAGAAAT---------------------------------------------------CCAAGTTCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16285468 18 +  18395747 TTGAGAAAT---------------------------------------------------CCAAGTTCT
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28398718 18 +  82825804 TTGAGAAAT---------------------------------------------------CCAAGTTCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4068416 18 -   4237731 TTGAGAAAT---------------------------------------------------CCAAGTTCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      337212 18 -   1175262 TTGAGAAAT---------------------------------------------------CCAAGTTCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123685453 18 - 204313951 TTGACAAAT---------------------------------------------------CCAAGTTTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55729382 18 -  71252344 TTGACAAGT---------------------------------------------------CCAAGTTCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       32938 18 -   3089952 TTGACAAAC---------------------------------------------------CCAAGTTCT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13233260 18 -  42888418 TTGACAAAT---------------------------------------------------CCAAGTTCT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3603275 18 +  11683526 TTGAGAAGT---------------------------------------------------CCAAGTTTT
i proCoq1.NW_012155062v1   I 60 C 0
s otoGar3.GL873679           3088667 18 +   4132165 TTGAGAAGT---------------------------------------------------CCAAGTTCT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55533536 18 +  90702639 TTGCCCAGT---------------------------------------------------TCAAATTCC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14932164 69 +  74389097 TTGAggggtacctgggtggctcagtgggttgagcatctgcctttggcacaggtaatgatctcaaggtcc
i canFam3.chr11            C 0 I 126
s dasNov3.JH567306           2651931 18 +   3667625 TTGAAAAGT---------------------------------------------------CCAAAGTCT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569618 88 + 108143057 I
e cerAty1.NW_012002512v1     5298352 13 +  26952557 I

a score=138987.000000
s hg38.chr5_KI270796v1_alt    111678 10 +    172708 AGCTCAACTA
s panTro5.chr5             125215419 10 + 181907262 AGCTCAATTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126552109 10 + 183735486 AGCTCAATTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1743854 10 +   8933513 AGCTCAATTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139878861 10 + 163208435 AGCTCGATTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122863512 10 + 180051392 AGCTCAATTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124287128 10 + 181584905 AGCTCAATTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16285486 10 +  18395747 AGCTCAATTA
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28398736 10 +  82825804 AGCTCAATTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4068434 10 -   4237731 AGCTCAATTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      337230 10 -   1175262 AGCTCAATTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123685471 10 - 204313951 AACTCAATTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55729400 10 -  71252344 AGCTCAATTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       32956 10 -   3089952 AGCTCAATTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13233278 10 -  42888418 AGCTCAATTA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3603293 10 +  11683526 AAATCAATTT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3088685 10 +   4132165 AGCTCCATTT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55533554 10 +  90702639 TAATCAATTA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14932359 10 +  74389097 AGTTCAATTA
i canFam3.chr11            I 126 C 0
s dasNov3.JH567306           2651949 10 +   3667625 GGCTCAATTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569618 88 + 108143057 I
e cerAty1.NW_012002512v1     5298352 13 +  26952557 I

a score=840098.000000
s hg38.chr5_KI270796v1_alt    111688 54 +    172708 GCTGGCTTGGGAATCTGAAAAAGTTGAAATTCTCATTTG---CCTATGTAGAAAGCA
s panTro5.chr5             125215429 54 + 181907262 GCTGGCTTGGGAATCTGAAAAAGTTGAGATTCTCATTTG---CCTATGTAGAAAGCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126552119 54 + 183735486 GCTGGCTTGGGAATCTGAAAAAGTTGAGATTCTCATTTG---CCTATGTAGAAAGCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1743864 54 +   8933513 GCTGGCTTGGGAATCTGAAAAAGTTGAAATTCTCATTTG---CCTATGTAGAAAGCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139878871 54 + 163208435 GCTGGCTTGGGAATCTGAAAAAGTTGAAATTCTCATTTG---CCTATGTAGAAAGCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122863522 54 + 180051392 GCTGGCTTGGGAATCTGAAAAAGTTGATATTCTCATTTG---CCTGTGTAGAAAGCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124287138 54 + 181584905 GCTGGCTTGGGAATCTGAAAAAGTTGATATTCTCATTTG---CCTGTGTAGAAAGCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16285496 54 +  18395747 GCTGGCTTGGGAATCTGAAAAAGTTGATATTCTCATTTG---CCTGTGTAGAAAGCA
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28398746 54 +  82825804 GCTGGCTTGGGAATCTGAAAAAGTTGAAATTCTCATTTG---CCCATGTAGAAAGCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4068444 54 -   4237731 GCTGGCTTGGGAATCTGAAAAAGTTGAAATTCTCATTTG---CCTGTGTAGAAAGCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      337240 54 -   1175262 GCTGGCTTGGGAATCTGAAAAAGTTGAAATTCTCATTTG---CCTGTGTAGCAAGCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123685481 54 - 204313951 GCTGGCTTGGGAATCTGAAAAAGTTGAAATTCTCATTTG---CCTATGTAGAAAGCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55729410 54 -  71252344 GCTGGCTTGGGAATCTGAGAAAGTTGAAATTCTCATTTG---TCAATGTAGAAAGCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       32966 54 -   3089952 GCTGGCTTGGGAATCTGAAAAAGTTGAAATTCTCATTTG---CCAATGTAGAAAGTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13233288 54 -  42888418 GCTGGCTTGGGAATCTGAAAAAGTTGAAATTCTCATTTG---CCAATGTAGAAAGCA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60569706 54 + 108143057 GCTGGCTTTGGAATCTGAAAGAGTGAGAATTCTCAATTG---CCTGTGTAGAAAGCA
i micMur3.chr12            I 88 I 3116
s proCoq1.NW_012155062v1     3603303 54 +  11683526 GCTGGCTTTGGAATCTGAAAGAGTTAAAATTCTCATTTG---CCTATGTAGAAAGCA
i proCoq1.NW_012155062v1   C 0 I 3936
s otoGar3.GL873679           3088695 54 +   4132165 GCTGGCTTTAGAATCAGAACAAGTTAAAATTCTCATTTG---CCTGTGTAGAAAGCA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55533564 57 +  90702639 ACATGACTTTGAACCTGAACCAGTTAAAATTCTCATTTGCTCCTCCTGCCAAAAGTA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14932369 54 +  74389097 TCTGGCTCTGAAATCTGGAAAAGTTAAAATTCTCATTTG---CTTATGTGGAAAGCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2651959 50 +   3667625 GCTGACTTTGGCACCTAAAAA---TAAAATTCTCTTTTG---CCTA-GTGGAAAGCA
i dasNov3.JH567306         C 0 C 0
e cerAty1.NW_012002512v1     5298352 13 +  26952557 I

a score=415690.000000
s hg38.chr5_KI270796v1_alt    111742 42 +    172708 GACATACACTACCTCATA-----GAACCATTGAAACTTATTGATATG
s panTro5.chr5             125215483 42 + 181907262 GACATACACTACCTCATA-----GAACCATTGAAACTTATTGATATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126552173 42 + 183735486 GACATACACTACCTCATA-----GAACCATTGAAACTTATTGATATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1743918 42 +   8933513 GACATACACTACCTCATA-----GAACCATTGAAACTTATTGATATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139878925 42 + 163208435 GACATATACTACCTCATA-----GAACCATTGAAACTTACTGATATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122863576 42 + 180051392 GACATACACTACCTCATG-----GAACCACTGAAACTTACTGATACA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124287192 42 + 181584905 GACATACACTACCTCATG-----GAACCACTGAAACTTACTGATACA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16285550 42 +  18395747 GACATACACTACCTCATG-----GAACCACTGAAACTTACTGATACA
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28398800 42 +  82825804 GATGTACACTACCTCATG-----GAACCATTGAAACTTACTGATACA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4068498 42 -   4237731 GACATACACTACCTCATG-----GAACCATTGAAACTTACTGATACA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      337294 42 -   1175262 GACATACACTACCTCATG-----GAACCATTGAAACTTACTGATACA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123685535 42 - 204313951 GACATACCTTACCTCATA-----GAGTCATTGAAACTTACTGATATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55729464 43 -  71252344 GACATACAGTACCTCACATATATTAGTCATTGAA----ACTAATATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       33020 42 -   3089952 GACATACATTACCTCATA-----GAGTCATTGAAACTTACTGATAGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13233342 42 -  42888418 GACATACATTACCTCGTA-----GAGTCATTGAAACTTACTGATATA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3088749 42 +   4132165 GATACACATTATCTTACA-----GAACCATGGAGACTCAGAGGTATA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55533621 40 +  90702639 --GACTCATCACTCAGCA-----GAAACTTCGAGCCTCGGTGATATA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14932423 38 +  74389097 AACACATACTACCTCATA-----GAGTTATTGAGATTTAGTGA----
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2652009 36 +   3667625 GACACATATTACCTCATG-----GAAACATTGAGATGTACA------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e cerAty1.NW_012002512v1     5298352 13 +  26952557 I

a score=426624.000000
s hg38.chr5_KI270796v1_alt    111784 35 +    172708 TGCAAATCATTTTGAACTCATTAAAATGATTTTTT-
s panTro5.chr5             125215525 35 + 181907262 TGCAAATCATTTTGAACTCATTAAAATGATTTTTT-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126552215 35 + 183735486 TGCAAATCATTTTGAACTCATTAAAATGATTTTTT-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1743960 35 +   8933513 TGCAAATCATTTTGAACTCATTAAAATGATTTTTT-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139878967 35 + 163208435 TGCAAATCATTTTGAGCTCATTAAAATGATTTTTT-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122863618 35 + 180051392 TGCGAATCATTTTGAACTCATTAAAATGATGTTTT-
i rheMac8.chr6             C 0 I 1
s macFas5.chr6             124287234 35 + 181584905 TGCGAATCATTTTGAACTCATTAAAATGATTTTTT-
i macFas5.chr6             C 0 I 1
s macNem1.NW_012012355v1    16285592 35 +  18395747 TGCGAATCATTTTGAACTCATTAAAATGATTTTTT-
i macNem1.NW_012012355v1   C 0 I 1
s cerAty1.NW_012002512v1     5298365 34 +  26952557 TGCAAATCATTTGGAACTCATTAAAATGAT-TTTT-
i cerAty1.NW_012002512v1   I 13 I 1
s chlSab2.chr23             28398842 35 +  82825804 TGTGAATCATCTTGAACTCATTGAAATGATTTTTT-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4068540 35 -   4237731 TGCAAATCATTTGGAACTCATTAAAATGAtttttt-
i manLeu1.NW_012103321v1   C 0 I 314
s colAng1.NW_012119644v1      337336 35 -   1175262 TGCAAATCATTTTGAACTCATTAAAATGATTTTTT-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123685577 34 - 204313951 TGCAAATTATTTTGAACTCATTGAAAAGTTTTTT--
i calJac3.chr2             C 0 I 2
s saiBol1.JH378106          55729507 34 -  71252344 TGCAAATTATTTTGAACTCATTAAAATGTTTCTT--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       33062 34 -   3089952 TGCAAATTATTTGGAACTCATTAAAATGTTTGTT--
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13233384 34 -  42888418 TGCAAATTATTTTGAACTCATTAAAATGTTTGTT--
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3088791 35 +   4132165 TGCAAATTATTTTTAACTCATTAAAATAATGTTTT-
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55533661 35 +  90702639 TGCAAATTATTGTAAACTAATTAACATGTTTTTTT-
i mm10.chr18               C 0 I 4
s canFam3.chr11             14932461 34 +  74389097 TGCAAATTATTTTGAATTCATTAAACTTTTATTC--
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2652045 36 +   3667625 TGCAAACTATTTTCAGCTCATTAAAATAATGTGTTC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I

a score=741721.000000
s hg38.chr5_KI270796v1_alt    111819 67 +    172708 AATATGTCATGTATCGCTTTATATTTTTTC-TATATTTATTCTTTAAGA--GACtgtggtggacagactt
s panTro5.chr5             125215560 67 + 181907262 AATATGTCATGTATCACTTTATATTTTTTC-TATATTTATTCTTTAAGA--GACAgtggtggacagactt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126552250 67 + 183735486 AATATGTCATGTATCACTTTATATTTTTTC-TATATTTATTCTTTAAGA--GACtgtggtggacagactt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1743995 67 +   8933513 AATATGTCATGTATCGCTTTATATTTTTTC-TATATTTATTCTTTAAGA--GACtgtggtggacagactt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139879002 66 + 163208435 AA-ATGACATGTATCGCTTTAAACTTTTTC-TATATTTATTCTTTAAGA--GACtgtggtggacagactt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122863654 67 + 180051392 AATATGACATGTATCGCTTTATATTTTTTC-TATATTTATTCTTTAAGA--GACGgtggtggacagactt
i rheMac8.chr6             I 1 C 0
s macFas5.chr6             124287270 67 + 181584905 AATATGACATGTATTGCTTTATATTTTTTC-TATATTTATTCTTTAAGA--GACGgtggtggacagactt
i macFas5.chr6             I 1 C 0
s macNem1.NW_012012355v1    16285628 67 +  18395747 AATATGACATGTATCGCTTTATATTTTTTC-TATATTTATTCTTTAAGA--GACGgtggtggacagactt
i macNem1.NW_012012355v1   I 1 C 0
s cerAty1.NW_012002512v1     5298400 66 +  26952557 AAT-TGACATGTATCGCTTTATATTTTTTC-TATATTTATTCTTTAAGA--GACGgtggtggacagactt
i cerAty1.NW_012002512v1   I 1 C 0
s chlSab2.chr23             28398877 67 +  82825804 AATATGACATGTATCACTTTATATTTTTTC-TATATTTATTCTTTAAGA--GACGgtggtgggcagactt
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      337371 67 -   1175262 AATATGACATGTATCGCTTTATATTTTTTC-TATATTTATTCTTTAAGA--GACGgtggtggacagactt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123685613 67 - 204313951 AATATGGCATGTATCACTTTATATGTTTTC-TATATTTATTCCTTAAGA--CACtgtggtggacagcctt
i calJac3.chr2             I 2 C 0
s saiBol1.JH378106          55729541 67 -  71252344 AATATGGCATGTGTCACTTTATATTTTTTC-TATATTTATTCTTTAAGA--GACtgtggtggacagtctt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       33096 67 -   3089952 AATATGGCATGTATCACTTTATATTTTTTC-TGTATTTATTCTTTAAGA--GACtgtgggggacagcctt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13233418 67 -  42888418 AATATGACATATATCACTTTATATTTTTTC-TCTATTTATTCTTTAAGA--GACtgtggtggacagcctt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3088827 67 +   4132165 TATAGAGCATATATTACATTATATTTTTTC-TTTATTTATTCTTTGAAA--GACtgtgactgacagactt
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55533700 62 +  90702639 AACATGGCAAGTATTTTTATATATGCTTCC-TGTGTCTATTC-----AA--GATGTGGGTGGGTAGCATT
i mm10.chr18               I 4 C 0
s canFam3.chr11             14932495 65 +  74389097 TATATGATAAGTATTATTTTATATTTTTTC-----TTTATTCTTTAAGACTGACtgtggtaagcagactt
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2652081 70 +   3667625 TACATGTCatatattatttaatattttttaatataGCTGTTGTTCAGAACAGACAGCAGCAGGTAGACCT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e manLeu1.NW_012103321v1     4068575 314 -   4237731 I

a score=1689430.000000
s hg38.chr5_KI270796v1_alt    111886 138 +    172708 gaaagcagccccatgatcatcacctcccagtgttcatgcatttgtataattccctccccttc-a-tatgggcaggacatgtgacttgcttctaaccaatggattac-aaaaaagggcaatggaataaaagtgattacgtgt
s panTro5.chr5             125215627 138 + 181907262 gaaagcagccccatgatcatcacatcccggtgttcatgcatttgtataattccctccccttc-a-tatgggcaggacatgtgacttgcttctaaccaatggattgt-aaaaaagggcaatggaataaaagtgattacgtgt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126552317 138 + 183735486 gaaagcagccccatgatcatcacatcccggtgttcatgcatttgtataattccctccccttc-a-tatgggcaggacatgtgacttgcttctaaccaatggattgt-aaaaaagggcaatggaataaaagtgattacgtgt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1744062 138 +   8933513 gaaagcagccccatgatcatcacctcccggtgttcatgcatttgtataattccctccccttc-a-tatgggcaggacatgtgacttgcttctaaccaatggattac-aaaaaagggcaatggaataaaagtgattacgtgt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139879068 138 + 163208435 gaaagcagccccatgatcaccacctctcggtgttcatgcatttgtataattccctccccttc-a-tatgggcaggacatgtgacttgcttctaaccaatggattgc-aaaaaagggcgatggaataaaagtgattatgtgt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122863721 138 + 180051392 gaaagtagccccatgatcattacctcctggtgttcatgcctttgtgtaattccctccccttc-a-tatgggcaggacatgtgacttgcttctaaccaatggattgc-aaaaaagtgcaatgaaatgaaagtgattccatgt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124287337 138 + 181584905 gaaagtagccccatgatcattacctcctggtgttcatgcctttgtgtaattccctccccttc-a-tatgggcaggacatgtgacttgcttctaaccaatggattgc-aaaaaagtgcaatgaaatgAAAGTGATTCCATGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16285695 138 +  18395747 gaaagtagccccatgatcattacctcctggtgttcatgcctttgtgtaattccctccccttc-a-tatgggcaggacatgtgacttgcttctaaccaatggattgc-aaaaaagtgcaatgaaatgaaaatgattccatgt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5298466 138 +  26952557 gaaagcagccccatgatcattacctcctggtgttcatgcctttgtgtaattccctccccttc-a-taagggcaggacatgtgacttgcttctaaccaatggattgc-aaaaaagtgcaatgaaatgAAAGTGATTACGTGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28398944 131 +  82825804 gaaagcagccccatgatcattacctcctggtgttcatgcctttgtgtaattccctccccttc-a-tatgggcag-------gacttgcttctaaccaatgaattgc-aaaaaagtgcaatgaaatgAAAGTGATTACGTGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4068889 138 -   4237731 GAAAGCAgccccatgatcattacctcctggtgttcatgcctttgtgtaattccctccccttc-a-tatgggcaggacatgtgacttgcttctaaccaatggattgc-aaaaaagtgcaatgaaatgAAAGTGATTACGTGT
i manLeu1.NW_012103321v1   I 314 C 0
s colAng1.NW_012119644v1      337438 138 -   1175262 gaaagcagccccatgatcattacctcctggtgttcatgcctttgtgtaattccctccccttc-a-tatgggcaagacatgtgacttgcttctaaccaatggattgc-aaaaaagtgcaatgaaatgAAAGTGATTACATGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123685680 139 - 204313951 gaaagcagccccatgatcattacctcctggtgttcatgcctttaaataattccctccccttc-a-tatgggcagaacatgtgacttgcttctgaccaatggattgcaaaaaaagggaGATGGACTAAAAATGATTACATGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55729608 138 -  71252344 gaaagcagcgtcatgatcatcacctcctggtgtttatgcctttatatgattcccttcccttc-a-tatgggcagaacatatgacttgcttctgaccaatggattgc-aaaaaagggagatggaatAAAAGTGATTACATGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       33163 138 -   3089952 gaaagcagccccatgatcgtcacctcctggtgttcatgcctttttataattcccttcccatc-a-tatgggcagaacatgtgacttgcttctgaccaatggattgc-aaaaaagggagatggaatgAAAATGATTACATGT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13233485 138 -  42888418 gaaagcagcctcataatcgtcacctcctggtgatcatgcctttatataattcccttcccttc-a-tatgggcagaacatgtgacttgcttctgaccaatggattgc-aaaaaagggagatggaataaaaatgattacatgt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3088894 137 +   4132165 taagatggtgccatgatccctacttcccgccgttcatgcctttgtgtaattcccttcccttt-a-tatgggcagaacatgtgacttgctcctaaACGATGGACTGC-AAAGAAG-ATAATGAAATAAAAATAATTACGTGT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55533762 138 +  90702639 -TCAGGGGCATCATGGTCCCCACATTCTATTGTTCAGCACTCTGTTTAAACTTTTAGGTTTCTA-TATGTGTAGAACAGGTGGTTTTCTTTTAATCAACTCGATGC-AAAAATAGTCATGGGGTTAAAAATAAGTATGTAT
i mm10.chr18               C 0 I 1918
s canFam3.chr11             14932560 135 +  74389097 taagatggctccatgattctcacttcctgctaatcatacct-tgtgtaatcccctcatcttc-attatgggcagggcatgtgacttgcttctaaccagtggaatgc-tacaaag-gtgatctaatg--agtcattatatgt
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2652151 126 +   3667625 TATGGCAGCCTc------------tcctgttacttatgccttggtttcatcctctcccctta-agtctggatgggacctgtgactcccttttaaccaatgaaatgt-ggcaaaa-gaggtacaatgtacatgactacaagt
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I

a score=6092027.000000
s hg38.chr5_KI270796v1_alt    112024 546 +    172708 atgtgattcca-caagagtgtaacatttgtc-tgctaga--gactctacat----gactgtctttgaag----aggcagactgccatgaatcctacagctgcaaggaaataaattctgcccacaatctgagggt---tcttgaaagtaggctttt-cccctggtgagcctctgatgagaccacagtcttggataacattttgagtggagcc-ttt-tgagaccctaagcagaggaggacccagctaagttgtgcccaggttcccgacccatggaaaccttgagattat-aattgta-tgtcattttaacctgcta-agtttgtggtcat-ttgtt-acacagcaata-aaaaccta---------ataTGCAGATATTGCATGCATATGTTTATTGGAATATAGCACATTT-GTGTATTAATTTATAC------------------------Atttagttggataagtttatgta-----g-ctcacaacccctttcctgtgtaattgagttattgct-gccatcccagcataggaatggcctccaggaatgt-cct-ggcgcctgctgtaccaactcactca-gcagctggactacggtgggaagaattg----------------------------tag
s panTro5.chr5             125215765 546 + 181907262 atgtgattcca-caagagtgtaacatttgtc-tgctaga--gactctacat----gactgtctttgaag----aggcaggctgccatgaatcctacagctgcaaggaaataaattctgcccacaatctgagggt---tcttgaaagtaggctttt-ccccaggtgagcctctgatgagaccacagtcttggataacattttgagtgcagcc-ttt-tgagaccctaagcagaggaggacccagctaagttgtgcccaggttcctgacccgtggaaaccttgagattat-aattgta-tgtcattttaacctgcta-agtttgtggtcat-ttgtt-acacagcaata-aaaaccta---------ataTGCAGATATTGCATGCATATGTTTATTGGAATATAGCACATTT-GTGTATTAATTTATAC------------------------Atttagttggataagtttatgta-----g-ctcacaacccctttcctgtgtaattgagttattgct-gccatctcagcataggaatggcctccaggaatgt-cct-ggtgcctgctgtaccaactcactca-gcagctggactacagtgggaagaattg----------------------------tag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126552455 546 + 183735486 atgtgattcca-caagagtgtaacatttgtc-tgctaga--gactctacat----gactgtctttgaag----aggcaggctgccatgaatcctacagctgcaaggaaataaattctgcccacaatctgagggt---tcttgaaagtaggctttt-ccccaggtgagcctctgatgagaccacagtcttggaaaacattttgagtgcagcc-ttt-tgagaccctaagcagaggaggacccagctaagttgtgcccaggttcctgacccatggaaaccttgagattat-aattgta-tgtcattttaacctgcta-agtttgtggtcat-ttgtt-acacagcaata-aaaaccta---------ataTGCAGATATTGCATGCATATGTTTATTGGAATATAGCACATTT-GTGTATTAATTTATAC------------------------Atttagttggataagtttatgta-----g-ctcacaacccctttcctgtgtaattgagttattgct-gccatctcagcataggaatggcctccaggaatgt-cct-ggtgcctgctgtaccaactcactca-gcAGCTGGACTACAGTGGGAAGAATTg----------------------------tag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1744200 546 +   8933513 atgtgattcca-caagagtgtaacatttgtc-tgctaga--gactctacat----gactgtctttgaag----aggcaggctgccatgaatcctacagctgcaaggaaataaattctgcccacaatctgagggt---tcttgaaagtaggctttt-ccccaggtgagcctctgatgagaccacagtcttggataacattttgagtgcagcc-ttt-tgagaccctaagcagaggaggacccagctaagttgtgcccaggttcctgacccatggaaaccttgagattat-aatagta-tgtcattttaacctgcta-agtttgtggtcat-ttgtt-acatagcaata-aaaaccta---------ataTGCAGATATTGCATGCATATGTTTATTGGAATATAGCACATTT-GTATATTAATTTATAC------------------------Atttagttgaataagtttatgta-----g-ctcacaacccctttcctgtgtaattgagttattgct-gccatcccagcataggagtggcctccaggaatgt-cct-ggtgcctgctgtaccaactcactca-gcagctggactacagtgggaagaattg----------------------------tag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139879206 547 + 163208435 atgtgattcca-caagagtgtaacatttgtcttgctaga--gactccacat----gacagtctttgaag----aggcaggctgccatgaattctacagctgcaaggaaataaattctgcccacaatctgagggt---tcttgaaagtaggctttt-ccccaggtgagcctctgatgagaccacagtcctggataacattttgagtgcagct-ttt-tgagaccctaagctgaggaggaaccagctaagttgtgcccaggttcctgacccatggaaaccttgagattat-aattgta-tgtcattttaacctgcta-agtttgtggtcat-ttgtt-acacagcaata-aaaaccta---------ataTGCAGATATTGCATGCATGTGTTTATTGGAATATAACACATTT-GTGTATTAATTTATAC------------------------Atttagttggataagtttatgta-----g-ctcaaaacccctttcctgtataattgagttattgct-gccatcccagcataggaacagcctccaggaatgt-cct-ggtgcctgctgtaccaactcactca-gcagctgaactacagtgggaagaattg----------------------------tag
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122863859 549 + 180051392 atgtgattcct-caagaatgtaacatttatcttgctaga--gcccttacat----gactgtctttgaagaggcaggcaggctgccatgaatctta---ctgcaaggaaataaattctgcccacaatctgagggt---tcttggaagtaggcttttcccccaggtgagcctctgatgagaaccccatcctggatgacattttgagtgcagcc-ttt-tgagatcctaagcagaggaggacccagctaagttgtgcccagtttcctgacccatggaaaccttgagattat-aattgta-tgccaatttaacctgcta-agtttgtggtcat-ttgtt-agacagcaata-aaaacctt---------ataTGCAGATATTGTATGCATGTGTTTATTGGAATATAGCACATTT-GTGTATTAATTTATAC------------------------Atttagttggataagtttatgta-----g-ctcacaccccttttcctatataattgagttattgct-gccatcccagcataggaatggcctccaggaatgt-cct-ggtgcctgctgtaccaactcactca-gcAGCTGGACTACAGTGggaagaattg----------------------------gag
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124287475 549 + 181584905 ATGTGATTCCT-CAAGAATGTAACATTTATCTTGCTAGA--GCCCTTACAT----GACTGTCTTTGAAGAGGCAGGCAGGCTGCCATGAATCTTa---ctgcaaggaaataaattctgcccacaatctgagggt---tcttggaagtaggcttttcccccaggtgagcctctgatgagaaccccatcctggatgacattttgagtgcagcc-ttt-tgagatcctaagcagaggaggacccagccaagttgtgcccaatttcctgacccatggaaaccttgagattat-aattgta-tgccaatttaacctgcta-agtttgtggtcat-ttgtt-agacagcaata-aaaacctt---------ataTGCAGATATTGTATGCATGTGTTTATTGGAATATAGCACATTT-GTGTATTAATTTATAC------------------------Atttagttggataagtttatgta-----g-ctcacaccccctttcctatataattgagttattgct-gccatcccagcataggaatggcctccaggaatgt-cct-ggtgcctgctgtaccaactcactca-gcAGCTGGACTACAGTGggaagaattg----------------------------gag
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16285833 549 +  18395747 atgtgattcct-caagaatgtaacatttatcttgctaga--gcccttacat----gactgtctttgaagaggcaggcaggctgccatgaatctta---ctgcaaggaaataaattctgcccacaatctgagggt---tcttggaagtaggcttttcccccaggtgagcctctgatgagaaccccatcctggatgacattttgagtgcagcc-ttt-tgagatcctaagcagaggaggacccagctaagttgtgcccagtttcctgacccatggaagccttgagattat-aattgta-tgccaatttaacctgcta-agtttgtggtcat-ttgtt-agacagcaata-aaaacctt---------ataTGCAGATATTGTATGCATGTGTTTATTGGAATATAGCACATTT-GTGTATTAATTTATAC------------------------Atttagttggataagtttatgta-----g-ctcacaccccctttcctatataattgagttattgct-gccatcccagcataggaatggcctccaggaatgt-cct-ggtgcctgctgtaccaactcactca-gcAGCTGGACTACAGTGggaagaattg----------------------------gag
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5298604 549 +  26952557 ATGTGATTCCT-CAAGAATGTAACATTTGTCTTGCTAGA--GCCCTTACAT----GACTATCTTTGAAGAGGCAGGCAGGCTGCCATGAATCTTa---ctgcaaggaaataaattctgcccacaatctgagggt---tcttggaagtaggcttttcccccaggtgagcctctgatgagaaccccatcctggatgacattttgagtgcagcc-ttt-tgagaccctaagcagaggaggacccagctaagttgtgcccagtttcctgacccatggaaaccttgagattat-aattgta-tgccaatttaacctgata-agtttgtggtcat-ttgtt-acacagcaata-aaaacctt---------ataTGCAGATATTGCATGCATGTGTTTATTGGAATATAGCACATTT-GTGTATTAATTTATAC------------------------Atttagttggataagtttatgta-----g-ctcacaacccctttcctgtataattgagttattgct-gccatcccagcataggaatggcctccaggaatgt-cct-ggtgcctgctgtaccaactcactca-gcagctggactacagtgggaagaattg----------------------------gag
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28399075 545 +  82825804 ATGTGATTCCT-CAAGAATGTAATATTTGTCTTGCTAGA--GCCCTTACAT----GACTGTCTTTGAAGAGGCAGGCAGGCTGCCATGAATCTTa---ctgcaaggaaataaattctgcccacaatctgagggt---tcttggaagtaggcttttcccccaggtgagcctctgatgagaaccccatcctggatgacattttgagtgcagcc-ttt-tgagaccctaagcagaggaggacccagctaagttgtgcccagtttcctgacctatgggaaccttgagattat-aattgta-tgccaatttaacctgcta-aatttgtggtcat-ttgtt-acacagcaata-aaaacctt---------ataTGCAGATATTGCATGCATGTGTTTATTGGAATATAGCACATTT-GTGT----ATTTATAC------------------------Atttagttgtataagtttatgta-----g-ctcacaacccctttccagtataattgagttattgct-gccatcccagcataggaatggcctccaggaatgt-cct-ggtgcctgctctaccaactcactca-gcAGCTGGACTACAGTGGGAAGAGTTG----------------------------Gag
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4069027 549 -   4237731 ATGTGATTCCT-CAAGAATGTAACATTTGTCTTGCTAGA--GCCGTTACAT----GACTATCTTTGAAGAGGCAGGCAGGCTGCCATGAATCTTa---ctgcaaggaaataaattctgcccacaatctgagggt---tcttggaagtaggcttttcccccaggtgagcctctgatgagaaccccatcctggatgacattttgagtgcagcc-ttt-tgagaccctaagcagaggaggacccagctaagttgtgcccagtttcctgacccatggaaaccttgagattat-aattata-tgccaatttaacctgata-agtttgtggtcat-ttgtt-acacagcaata-aaaacctt---------ataTGCAGATATTGCATGCATGTGCTTATTGGAATATAGCACATTT-GTGTATTAATTTATAC------------------------Atttagttggataagtttatgta-----g-ctcacaacccctttcctgtataattgagttattgct-gccatcccagcataggaatggcctccaggaatgt-cct-ggtgcctgctgtaccaactcactca-gcAGCTGGACTACAGTGggaagaattg----------------------------gag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      337576 558 -   1175262 ATGTGATTCCT-CAAGAATGTAACATTTGTCTTGCTAGA--GCCCTTACAT----GACTGTCTTTGAAGAGGCAGGCAGGCTGCCATGAATCTTa---ctgcaaggaaataaattctgcccacaatctgagggt---tcttggaagtaggcttttcccccaggtgagcctctgatgagaaccccatcctggatgacattttgagtgcagcc-ttt-tgagaccctaagcagaggaggacccagctaagttgtgcccagtttcctgacccatggaaaccttgagattat-aattgta-tgccaatttaacctgcta-agtttgtggtcat-ttgtt-acacagcaata-aaaacctTGCAAAAAAAATATGCAGATATTGCATGCATGTGTTTATTGGAATATAGCACATTT-GTGTATTAATTTATAC------------------------Atttagttggataagtttatgta-----g-ctcacaacccctttcctgtataattgagttattgct-gccatcccagcatagaaatggcctccaggaatgt-cct-ggtgcctgctgtatcacctcactca-gcagctggactacagtgggaagaattg----------------------------gag
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123685819 560 - 204313951 ATGTGATTCCATTAAGAGTATAACATTTATCTTGCTAGA--GCCTCTACAT----GACTGTCTTGGAAG----AGGCAGGCTGCCATAagtcccacagctgc-----aataaattctgcccataatctgaaagt---tcttggaagtagacgttt-ccccaggtgagcctctgatgagaatgcagtcctggatgacattttgagtgcagct-ttt-tcagactctaagcagagaaggacccaactaagttgtgcccagattcctgacccatggaaatcttgagattat-aattgta-tgtcattttagcctgcta-ag----------t-ttgtt-acatagcaata-aaaaccta---------ataTGCACATATTACATGTGTGTGTTTATTGGAA-ATAGCATATTT-GTATATTAATTTATAC------------------------Atttagttggataggtttatgta-----g-ctcacaacccttttcctgtatagttgagttattgct-accatctcagcataggaatggcctccaggaatgc-cct-ggtgcctgctgtgtcaacacactca-gcagctggatgacagttggaaggattggaggactggccatgatgctcagtcccatgag
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55729746 564 -  71252344 ATGTGATTCCG-TAAGAGTATAACATTTGTCTTGCTAGA--GCCTCTACAT----GACTGTCTTGGAAG----AGGCAGGCTGCCGTAagtcccacagctgcaaggaaataaattctgcccataatctgaaagt---tcttggaagtagactttg-ccccaggtgagcctttgatgagagcgcagtcttggatgacattttgagtgcagcc-ttt-tgagactctaagcagagaaggacccagctaagttgtgcccagatacctgacctatggaaaccttgagattat-aattgta-tgtcattttaacccgcta-ag----------t-ttgtt-acacagcaata-aaaaccta---------atataCAGATATAACATGCACGTGTTTATTGGAA-ATAGCACATTT-GTGTATTAATTTATAC------------------------Atttagttggataagtttatgta-----a-ctcacaacccttttcctgtatacttgagttattgct-accatctcagcataggaatggcctccaggaatgc-cct-ggtgcctgctgtgcaaacttactca-gcagctggatgacagtgggaaggattggagaactggccatgatgctcagtcccatgag
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       33301 563 -   3089952 ATGTGATTCCG-TAAGAGTATAACATTTGTCTTGCTAGA--GCCTCTACAT----GACTGTCTTGGGAG----AGGCAGGCTGCCGTAagtcccacagctgcaaggaaataaattctgcccataatctgaaagt---tcttggaagtagactttt-ccccaggtgagcctctgatgagaacgcggtcctggatgacattttgagtgcagcc-ttc-tgagactctaagcagagaaggacccagctaagttgtgcccagattcctgacccatggaaaccttgagattat-aattgta-tgtcattttaacctgcta-aa----------t-ttgtt-acacaacaata-ataagcta---------atataCAGATATTACATGCATGTGTTTATTGGAA-ATGGCACATTT-GTGTATTAATTTATAC------------------------Atttagttggataagtttatgta-----g-ctcacaacccttttcctgtatagttgagttattgct-accatctcagcataggaatggcctccaggaatgc-cct-ggtgcctgctgtgcaaattcactca-gcAGCT-GATGACAGTGGGAAGGATTGGAGGACTGACCATGATGCTCAGTCCCATGag
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13233623 564 -  42888418 atgtgattcca-taagagtataacatttgtcttgctaga--gcctctacct----gactgtcttggaag----aggcaggctgccataagtcccacagctgcgaggaaataaattctgcccataatctgaaagt---tcttggaagtagactttt-ccccaggtgagcctctgatgagaatgcagtcctggatgacattttgagtgcagcc-ttt-tgagtctctaagcagagaaggacccagctaagttgtgcccagattcctgacccatggaaaccttgagattat-aattgta-tgtcattttaacctgcta-ag----------t-ttgtt-acacagcaata-aaaaccta---------ataTGCAGATATTACATACATGGGTTTATTGGAA-ATAGCACATTT-GTGTATTAATTTATAC------------------------Atttggttggataagtttatcta-----g-ctcacaacccttttcctgtatagttgagttattgct-accatgtcagcataggaatggcctccaggaatgc-cct-ggtgcctgctgtgcaaactcactca-gcagctgaataacagtgggaaggattggaggactggctatgatgctcagtcccatgag
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3089031 553 +   4132165 AAATGATTACA-TAAGAGTATAGTACTTGTCTT----TA--GTCTCTCCAC----TGCTG-ATTTGAAG----AAGCAGACTGCCATGAATActacagctgcaaggaaatgaattctgcccacaatctgagcgtatgtatgtgaagtgatgttct----------gacctgagatcagaacccagtactgatggacacatcgagcgcagcctttt-tgagactgtgggcaaaggaagacccagctaagttgtgcccagattcttgacctacacgaacagtgatattatcaataacagtgctgttttaggttgctataatttgtgatcatattgt-----------ta-AAAGACTA---------ATATGCAAACATTATATGCAT-TCTTTATATAAAGATAGTACATAT-ACATACTCATTTATACATTCTTTTATGTTatctattttagatttagtgggataaatgcactaaagtggg-ttcacagccccttttccatacag----attattgca-gctgtcatagtgcaggaatggcccccaggagagc-cc--agtgtccactgtgccaactcgctca-gcggtgtgattg-ggagggaagaaccg----------------------------gag
i otoGar3.GL873679         C 0 I 22
s canFam3.chr11             14932695 579 +  74389097 ataagaccaca-tttcagtgtagcacctgtcttgcttgattatccctctgt----tgctggctttgagg----aagctagctaccatgaatcctatagctgcaaggaaattaattctgcatgcaactttaggat---tcttagaagtggatcttt-tcttagttgagtgtctgataagaacctagtcctgggtg--atgctgagtttagct-tgg-tgagaccctaaacagata---gtcctgctaggttgtgcctagaatctcaatccccagaaactatgagataat-aaatgtg-tatcgttttatgctgtga-aagttctgctcat-ttgttaacgcagcaacagaaaaAAAA---------ATCTATTGACATTGTATGTATTAGTATACTGGCATATAATACATTTAATATATTAatttattt---------------------tgaatttagtgggataaatttaggta-----gtttctaaactcttttcttacattgttcagtt-ttgctggccatacca-tgtaggaatggcctctgggaatgtgcca-gatgcctactatgttcactcactcacacagtatgactgaagt-ggaagagtcagagggcttattatggcgcctagaaccaaaag
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2652277 544 +   3667625 atgtgatgaca-gaaga---tggtatttgtcttgcgaga--gtctctttctctgctgctggctttgaag----aagctggttgccatgattcctacagccttgaggaaagaa--tatgccaacaacctgaggga---gctcggaagtgggccttc-cc---gtcaagcctctg--------------------------ttgattgcagcc-tttaaaagaccctaagaaggtaa------aactgagttgtccctggactcctaacttgtagaaattgtgagataat-aaatgca-tgctgttttaagcctcta-agattgtggtaaa-ttttt-acatagcaata-gaaaatga---------ataTGCAGATTTTATATATATTTTCATATTGAAATATAGCACATTT-ATATATTcatttattt---------------------ttgatttagtgggataaatgtgtgta-----a-ttcaca-ccccttttctgtccaggtgaattatttttagttgtcccagtgtaggaatggcctccaggaatga-ctgaaatacccgttgtgctatctcacctg-gctatgtgaccgcatgggagggggtcagaggacttgacccgaggcttgacacctggag
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=154524.000000
s hg38.chr5_KI270796v1_alt    112570 12 +    172708 tggaggagaaat
s panTro5.chr5             125216311 12 + 181907262 tggaggagaaac
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126553001 12 + 183735486 tggaggagaaac
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1744746 12 +   8933513 tggaggagaaat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139879753 12 + 163208435 tggaggagaaat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122864408 12 + 180051392 tggaggagaaat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124288024 12 + 181584905 tggaggagaaat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16286382 12 +  18395747 tggaggagaaat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5299153 12 +  26952557 tggaggagaaat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28399620 12 +  82825804 tggaggagaaat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4069576 12 -   4237731 tggaggagaaat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      338134 12 -   1175262 tggaggagaaat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123686379 12 - 204313951 tggaggagaaat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55730310 12 -  71252344 tggagaagaaac
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       33864 12 -   3089952 tggaggagaaat
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13234187 12 -  42888418 tggaggagaaat
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14933274 12 +  74389097 tagaagagaaat
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2652821 12 +   3667625 tggaagagaaga
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e otoGar3.GL873679           3089584 22 +   4132165 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=2482576.000000
s hg38.chr5_KI270796v1_alt    112582 213 +    172708 aaagtgtgaaatgtatggagccaatgttagtctgtgg-aaattcatcaaaaccttatatctcatatatgaaataaacctgaaaaaaatttccccaaatt--tgacaatt---ctaac-------a----------a----------gttgtgaagctgagagtatatttcctgaggtaaa---aataaaaaggattttttggtcaaccatttcaggggagaagttgga-tatc-tttctattctcgttata
s panTro5.chr5             125216323 213 + 181907262 aaagtgtgaaatgtatggagccaatgttagtctgtgg-aaattcatcaaaaccttatatctcatatatgaaataaacctgaaaaaaatttccccaaatt--tgacaatt---ctaac-------a----------a----------gttgtgaagctgagagtaaatttcctgaggtaaa---aataaaaaggattttttggtcaaccatttcaggggagaagttgga-tatc-tttctattctcgttata
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126553013 213 + 183735486 aaagtgtgaaatgtatggagccaatgttagtctgtgg-aaattcatcaaaaccttatatctcatatatgaaataaacctgaaaaaaatttccccaaatt--tgacaatt---ctaac-------a----------a----------gttgtgaagctgagagtaaatttcctgaggtaaa---aataaaaaggattttttggtcaaccatttcaggggagaagttgga-tatc-tttctattctcgttata
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1744758 213 +   8933513 aaagtgtgaaatgtatggagccaatgttagtctgtgg-aaattcatcaaaaccttatatctcatatatgaaataaacctgaaaaaaatttccccaaatt--tgacaatt---ctaac-------a----------a----------gttgtgaagctgagagtaaatttcctgaggtaaa---aataaaaaggattttttggtcaaccatttcaggggagaagttgga-tatc-tttctattctcattata
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139879765 214 + 163208435 aaagtgtgaaatgtatggagccaatgttagtctgtggaaaattcatcaaaaccttatatctcatatatgaaataaacctgaaaaaaatttccccaaatt--tgacaatt---ctaac-------a----------a----------gttgtgaagctgagagtaaatttcctaaggtaaa---aataaaaaggattttttggtcaaccatttcaggggagaagttaga-tatc-tttctattctcgttata
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122864420 211 + 180051392 aaagtgtgaaatatatggagccagtgttagtcagtggaaaattcatcaaaaccttttatctcatatatgaaataaatctg-aaaaaatgtccccaaatt--tgacaatt---ctaac-------a----------a----------gttgtgaagctgagagtaaatttcctaatgtaaa---aataaaaagga--ttttggtcaaccatttcaggggagaagttgga-tatc-tttctactgtcattata
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124288036 212 + 181584905 aaagtgtgaaatatatggagccaatgttagtcagtggaaaattcatcaaaaccttttatctcatatatgaaataaacctg-aaaaaatgtccccaaatt--tgacaatt---ctaac-------a----------a----------gttgtgaagctgagagtaaatttcctaatgtaaa---aataaaaagga-tttttggtcaaccatttcaggggagaagttgga-tatc-tttctactgtcattata
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16286394 212 +  18395747 aaagtgtgaaatatatggagccaatgttagtcagtggaaaattcatcaaaaccttttatctcatatatgaaataaacctg-aaaaaatgtccccaaatt--tgacaatt---ctaac-------a----------a----------gttgtgaagctgagagtaaatttcctaatgtaaa---aataaaaagga-tttttggtcaaccatttcaggggagaagttgga-tatc-tttctactgtcattata
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5299165 212 +  26952557 aaagtgtgaaatatatggagccaatgttggtcggtggaaaattcatcaaaaccttgtatctcatatatgaaataaacctg-aaaaaatgtccccaaatt--tgacaatt---ctaac-------a----------a----------gttgtgaagctgagagtaaatttcctaatgtaaa---aataaaaagga-tttttggtcaaccattttaggggagaagttgga-tatc-tttctactgtcgttata
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28399632 212 +  82825804 aaagtgtgaaatatatggagccaatgttagttggtggaaaattcatcaaaaccttgtatctcatatatgaaataagcctg-aaaaaatgtccccaaatt--tgacaatt---ctaac-------a----------a----------gttgtgaaactgagagtaaatttcctaaggtaaa---aataaacagga-tttttggtcaaccatttcaggggagaagttgga-tatc-tttctactctcattata
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4069588 212 -   4237731 aaagtgtgaaatatatggagccaatgttggtcggtggaaaattcatcaaaaccttgtatctcatatatgaaataaacctg-aaaaaatgtccccaaatt--tgacaatt---ctaac-------a----------a----------gttgtgaagctgagagtaaatttcctaatgtaaa---aataaaaagga-tttttggtcaaccattttaggggagaagttgga-tatc-tttctactgttgttata
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      338146 212 -   1175262 aaagtgagaaatatatggagccaatgttagtcggtgaaaaattcatcaaaaccttgtatatcatatatgaaataaacctg-aaaaaatgtccccaaatt--tgacaatt---ctaac-------a----------a----------gttgtgaagctgagagtaaatttcctaaggtaaa---aataaaaagga-tttttggtcaaccatttcaggggagaagttgga-tatc-tttctactctcattata
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123686391 213 - 204313951 aaattgtgaaatgtatgaagccaaagttagtttatggaaaatccatcaaaaccttgtatctcatatttgaaataaacctg-aaaaaaattccccaaatt--tgataaat---ccaac-------a----------a----------gttttgaagctgaaagaacatttcctaagctaaa---aataaaaaggattttttggtcaaccatttcaagagagaagttgaa-tatc-tttctattctcattaca
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55730322 214 -  71252344 aaattgtgaaatatatagagccagagttagtctacggaaaatccatcaaaACCTTGTAtctcatatttgaaataaacctgaaaaaaaattccacaaatt--caacaaat---ctaac-------a----------a----------gttgtgaagctgagagtacaattcctaagctaaa---aataaaaaggattttttggtcaaccatttcaagagagaagttgaa-tatc-tttctattctcatttca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       33876 214 -   3089952 aacttgtgaaatgtataaagccagagttagtctacagaaaatccatcaaaaccttgtatctcatatttgaaataaacctgaaaaaagagtccccaaatt--tgacaaat---ctaac-------a----------a----------gttgtgaagctgagagtacatttcctaagctaga---aataaaagggattttttgatcaaccatttcaagggagaagttgaa-tatc-tttctattctcattaca
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13234199 214 -  42888418 aaattgtgaaatgtatggagccaaagttagtctacgggaaatccatcaaaaccttgtatctcatatttgaaataaacctgaaaaaaaattccccaaatt--tgacaaat---ctaag-------a----------a----------gttgtgaagctgagagtacatttcctaagctaaa---aataaaaaggattttttggtcaactatttcaagggagaagttgaa-tatc-tttctattctcattaca
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3089606 230 +   4132165 CAGGAGTGAAACACACGGGACTGAAGATAGTATGTGGACAATCCATCgaaattctatatcgcatatttaaaataaacctagaagaaattttcccaaatt--tgacaactatcctaat-------aatcacaggtga----------gttgtgaagctgagaataaatttcctaaattataaataataaaaaggatgtctcaatcaaccctttcaaaagagaagcaaaa-tagc-ttccaattctcattata
i otoGar3.GL873679         I 22 C 0
s canFam3.chr11             14933286 224 +  74389097 aaggtttgaaatgtatggagtcaaagttaatctgtggaaagttcatcaaaATCTTGTATCTACTATTTGGAATAAGACCA-ACAAAAAATTCCTAAACT--TGACAATT---CTAATCATTGAGg----------a----------gttgtaaagctgaaagcaaattctttatactaaacataagaaaaaagatttcttgattaacaactccagaagaaaagctaaattatc-ttttttttttaataata
i canFam3.chr11            C 0 I 906
s dasNov3.JH567306           2652833 225 +   3667625 aaggtttgaaatatacggagtcaaagttagtctgtagactattcatcaaaACCTGCGATCTCCTTTTTCaaataaacctggtagaaatttccccaaattgacaagaatt---ctaac-------a----------atcattaacgtgttatgaagctgaaaaaaattttcctaaaactaa---a--aaataagattttttgatcaaccattccagaagagaagctaat-tatcttttttactttcgttata
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=1816291.000000
s hg38.chr5_KI270796v1_alt    112795 174 +    172708 gaaaacaatatatcaagatcattgttatgttaagaggcaat-aaaaaa-ttatgtagtcaaaactgtaagagaacaaaattatggaggagttgtattgttttctg-tcc-------tttgttgatattggcggtatttttg--------------------------------------------------agct-ttcaatattggtaa-----tattttataatttattttgcatcct
s panTro5.chr5             125216536 175 + 181907262 gaaaacaatatatcaagatcattgttatgttaagaggcaat-aaaaaaattatgtagtcaaaactgtaagagaacaaaattatggaggagtTGTATTGttttctg-tcc-------tttgttgatattggtggtatttttg--------------------------------------------------agct-ttcaatattagtaa-----tattttataatttattttgcatcct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126553226 174 + 183735486 gaaaacaatatatcaagatcattgttatgttaagaggcaat-aaaaaa-ttatgtagtcaaaactgtaagagaacaaaattatggaggagttgtattgttttctg-tcc-------tttgttgatattggtggtatttttg--------------------------------------------------agct-ttcaatattggtaa-----tattttataatttattttgcatcct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1744971 174 +   8933513 gaaaacaatatatcaagatcattgttatgttaagaggcaat-aaaaaa-ttatgtagtcaaaactgtaagagaacaaaattatggaggagttgtattgttttctg-tcc-------tttgttgatattggtggtatttttg--------------------------------------------------agct-ttcaatattggtaa-----tattttataatttattttgcatcct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139879979 174 + 163208435 gaaaacaatatatcaagatcattgttatattaagaggcaat-aaaaaa-ttatgtagtcaaaactgtgagagaacaaaattatggaggagctgtattattttctg-tcc-------ttttttgatattggtggtatttttg--------------------------------------------------agct-ttcaatattggtaa-----tattttataatttattttgcatcct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122864631 168 + 180051392 gaaaacagtatatcaagatcattgttatattaagaggcaat-aaaaa--ttatgtagtcaaaactgtaagagaacaaaattctgtaggagttgta-----ttctg-tcc-------ttttttgatattggtggtatttttg--------------------------------------------------agct-ttcaatattggcag-----tattttataatttatttttcatcct
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124288248 168 + 181584905 gaaaacagtatatcaagatcattgttatattaagaggcaat-aaaaa--ttatgtagtcaaaactgtaagagaacaaaattctgtaggagttgta-----ttctg-tcc-------ttttttgatattggtggtatttttg--------------------------------------------------agct-ttcaatattggcag-----tattttataatttatttttcatcct
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16286606 168 +  18395747 gaaaacagtatatcaagatcattgttatattaagaggcaat-aaaaa--ttatgtagtcaaaactgtaagagaacaaaattctgtaggagttgta-----ttctg-tcc-------ttttttgatattggtggtatttttg--------------------------------------------------agct-ttcaatattggcaa-----tattttataatttatttttcatcct
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5299377 168 +  26952557 gaaaacagtatatcaagatcattgttatattaagaggcaat-aaaaa--ttatgtagtcaaaactgtaagagaacaaaattctgtaggagttgta-----ttctg-tcc-------ttttttgatattggtggtatttttg--------------------------------------------------agct-ttcaatattggcaa-----tattttataacttatttttcatcct
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28399844 173 +  82825804 gaaaacagtatatcaagatcattgttatattaagaggcaat-aaaaa--ttatgtagtcaagactgtaagagaacaaaattctgtaggagttgtgttattttctg-tcc-------ttttttgatattggtggtatttttg--------------------------------------------------agct-ttcaatattggcaa-----tattttataatttgtttttcatcct
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4069800 168 -   4237731 gaaaacagtatatcaagatcattgttatattaagaggcaat-aaaaa--ttatgtagtcaaaactgtaagagaacaaaattctgtaggagttgta-----ttctg-tcc-------ttttttgatattggtggtatttttg--------------------------------------------------agct-ttcaatattggcaa-----tattttataatttatttttcatcct
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      338358 173 -   1175262 gaaaacagtatatcaagatcattgttatattaagaggcaat-aaaaa--ttatgtagtcaaaactgtaagagaacaaaattctgtaggagttgtattattttctg-tcc-------ttttttgatattggtggtatttttg--------------------------------------------------agct-ttcaatattggcaa-----tattttataatttatttttcatcct
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123686604 171 - 204313951 gaaaacaatatatcaagatcattattgtattaagaagcaat-aaaaaa-tgatgtagccaaaactgtaagagaacaaaattatggaggagttgtattattttctg-tcc-------tctcttgatactggtggtatttttg--------------------------------------------------agct-tttaatattgataa-----ta---tatgatttatttttcattct
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55730536 175 -  71252344 gaaaacaatatatcaagatcagtattatattaagaagcaataaaaaaa-tgatgtagccaaaacgataagagaacaaaattgtggaggagttgtattattttctg-tcc-------tctcttgatattggtggtatttttg--------------------------------------------------agct-tttaatattggtga-----tattttatgatttatttttcatcct
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       34090 170 -   3089952 gaaaacaatatatcaagatcagtattatatcaagaagcagt-aagaaa-tgatgtagcc-aaactgtaagagaacaaaattat---ggagttgcattaTTTTCTG-TCC-------TCTCTTTatattggtggtattttcg--------------------------------------------------agct-tttaatattggtaa-----tattttatgatttatttttcatcct
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13234413 169 -  42888418 gaaaacaatatatcaagatcagtattatattaagaagcaat-aacaaa-tgatgtagccaaaactgtaaaagaac-----tatggagCAGTTGTATTGTTTTCTG-TCC-------TCTCTtgatattggtggtatttttg--------------------------------------------------agct-tttaatattggtaa-----tattttatgatttatttttcatcct
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3089836 229 +   4132165 gaaaacagtatgtcaagatcataattatatgaagaggaaat-aaaagc-atacacagccaaaactgtaag-gaaaaaaactatgaacaagttaaattattttttg-ttctttttttttttttgatgtgggtgatatttttattatttaataacaattatttaatttaatactatttaatatgtttaataatagtt-ttcaatgtttacag------gttttgtgatttatttttcatcat
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2653058 180 +   3667625 taaaagagtacttcaatatctttattatcttaagaggcaat-aaagga-atatgcagcccaaactacaa-agaataaaattatagaggagtggtgttattttctgattt-------tttcctaaagtttgtggtatctttc--------------------------------------------------aattatttaatatttgcaagttttttttttgtgatttatatttcatttt
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14933510 906 +  74389097 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=24319.000000
s hg38.chr5_KI270796v1_alt    112969 4 +    172708 aaat
s panTro5.chr5             125216711 4 + 181907262 aagt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126553400 4 + 183735486 aagt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1745145 4 +   8933513 aaat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139880153 4 + 163208435 aaat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122864799 4 + 180051392 aaat
i rheMac8.chr6             C 0 I 1
s macFas5.chr6             124288416 4 + 181584905 aaat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16286774 4 +  18395747 aaat
i macNem1.NW_012012355v1   C 0 I 1
s cerAty1.NW_012002512v1     5299545 4 +  26952557 aaat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28400017 4 +  82825804 aaat
i chlSab2.chr23            C 0 I 1
s manLeu1.NW_012103321v1     4069968 4 -   4237731 aaat
i manLeu1.NW_012103321v1   C 0 I 1
s colAng1.NW_012119644v1      338531 4 -   1175262 aaat
i colAng1.NW_012119644v1   C 0 I 1
s saiBol1.JH378106          55730711 2 -  71252344 -aa-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       34260 4 -   3089952 aaat
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13234582 4 -  42888418 aaat
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3090065 1 +   4132165 -a--
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2653238 4 +   3667625 aaat
i dasNov3.JH567306         C 0 I 1
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14933510 906 +  74389097 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e mm10.chr18                55533900 1918 +  90702639 I
e calJac3.chr2             123686775 0 - 204313951 C

a score=9555.000000
s hg38.chr5_KI270796v1_alt    112973 1 +    172708 a
s panTro5.chr5             125216715 1 + 181907262 a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126553404 1 + 183735486 a
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1745149 1 +   8933513 a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139880157 1 + 163208435 a
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122864804 1 + 180051392 a
i rheMac8.chr6             I 1 C 0
s macNem1.NW_012012355v1    16286779 1 +  18395747 a
i macNem1.NW_012012355v1   I 1 C 0
s cerAty1.NW_012002512v1     5299549 1 +  26952557 a
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28400022 1 +  82825804 a
i chlSab2.chr23            I 1 C 0
s manLeu1.NW_012103321v1     4069973 1 -   4237731 a
i manLeu1.NW_012103321v1   I 1 C 0
s colAng1.NW_012119644v1      338536 1 -   1175262 a
i colAng1.NW_012119644v1   I 1 C 0
s cebCap1.NW_016107590v1       34264 1 -   3089952 a
i cebCap1.NW_016107590v1   C 0 I 23
s aotNan1.NW_018505940v1    13234586 1 -  42888418 a
i aotNan1.NW_018505940v1   C 0 I 23
s otoGar3.GL873679           3090066 1 +   4132165 a
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2653243 1 +   3667625 a
i dasNov3.JH567306         I 1 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14933510 906 +  74389097 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e macFas5.chr6             124288420 0 + 181584905 C
e mm10.chr18                55533900 1918 +  90702639 I
e saiBol1.JH378106          55730713 0 -  71252344 C
e calJac3.chr2             123686775 0 - 204313951 C

a score=8281.000000
s hg38.chr5_KI270796v1_alt    112974 1 +    172708 a
s panTro5.chr5             125216716 1 + 181907262 a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126553405 1 + 183735486 a
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1745150 1 +   8933513 a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139880158 1 + 163208435 a
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122864805 1 + 180051392 a
i rheMac8.chr6             C 0 C 0
s macNem1.NW_012012355v1    16286780 1 +  18395747 a
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5299550 1 +  26952557 a
i cerAty1.NW_012002512v1   C 0 I 9
s chlSab2.chr23             28400023 1 +  82825804 a
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4069974 1 -   4237731 a
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      338537 1 -   1175262 a
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55730713 1 -  71252344 a
i saiBol1.JH378106         C 0 C 0
s otoGar3.GL873679           3090067 1 +   4132165 a
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2653244 1 +   3667625 a
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14933510 906 +  74389097 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e macFas5.chr6             124288420 0 + 181584905 C
e aotNan1.NW_018505940v1    13234587 23 -  42888418 I
e cebCap1.NW_016107590v1       34265 23 -   3089952 I
e mm10.chr18                55533900 1918 +  90702639 I
e calJac3.chr2             123686775 0 - 204313951 C

a score=54558.000000
s hg38.chr5_KI270796v1_alt    112975 8 +    172708 tatttact
s panTro5.chr5             125216717 8 + 181907262 tatttact
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126553406 8 + 183735486 tatttact
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1745151 8 +   8933513 tatttact
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139880159 8 + 163208435 tatttact
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122864806 8 + 180051392 tatttact
i rheMac8.chr6             C 0 C 0
s macNem1.NW_012012355v1    16286781 8 +  18395747 tatttact
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28400024 8 +  82825804 tatttact
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4069975 8 -   4237731 tatttact
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      338538 8 -   1175262 tatttact
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55730714 8 -  71252344 tatttact
i saiBol1.JH378106         C 0 C 0
s otoGar3.GL873679           3090068 8 +   4132165 tacttact
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2653245 8 +   3667625 tattcact
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14933510 906 +  74389097 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e cerAty1.NW_012002512v1     5299551 9 +  26952557 I
e macFas5.chr6             124288420 0 + 181584905 C
e aotNan1.NW_018505940v1    13234587 23 -  42888418 I
e cebCap1.NW_016107590v1       34265 23 -   3089952 I
e mm10.chr18                55533900 1918 +  90702639 I
e calJac3.chr2             123686775 0 - 204313951 C

a score=7129.000000
s hg38.chr5_KI270796v1_alt    112983 14 +    172708 ttctttttt-tattt-
s panTro5.chr5             125216725 14 + 181907262 ttcttattt-tattt-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126553414 14 + 183735486 ttcttattt-tattt-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1745159 15 +   8933513 ttcttttttatattt-
i gorGor5.CYUI01015135v1   C 0 C 0
s saiBol1.JH378106          55730722 14 -  71252344 ttcacatcc-aatat-
i saiBol1.JH378106         C 0 I 3
s otoGar3.GL873679           3090076 14 +   4132165 tttatatct-catat-
i otoGar3.GL873679         C 0 I 4
s dasNov3.JH567306           2653253 14 +   3667625 -tcatacct-catatt
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14933510 906 +  74389097 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e manLeu1.NW_012103321v1     4069983  0 -   4237731 C
e chlSab2.chr23             28400032  0 +  82825804 C
e cerAty1.NW_012002512v1     5299551  9 +  26952557 I
e macNem1.NW_012012355v1    16286789  0 +  18395747 C
e macFas5.chr6             124288420  0 + 181584905 C
e rheMac8.chr6             122864814  0 + 180051392 C
e aotNan1.NW_018505940v1    13234587 23 -  42888418 I
e cebCap1.NW_016107590v1       34265 23 -   3089952 I
e mm10.chr18                55533900 1918 +  90702639 I
e calJac3.chr2             123686775  0 - 204313951 C
e colAng1.NW_012119644v1      338546  0 -   1175262 C
e nomLeu3.chr2             139880167  0 + 163208435 C

a score=8300.000000
s hg38.chr5_KI270796v1_alt    112997 10 +    172708 tattattatt
s panTro5.chr5             125216739 10 + 181907262 tattattatt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126553428 10 + 183735486 tattattatt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1745174 10 +   8933513 tattattatt
i gorGor5.CYUI01015135v1   C 0 C 0
s otoGar3.GL873679           3090094 10 +   4132165 taatataata
i otoGar3.GL873679         I 4 C 0
s dasNov3.JH567306           2653267 10 +   3667625 tataattttt
i dasNov3.JH567306         C 0 I 1009
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14933510 906 +  74389097 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e manLeu1.NW_012103321v1     4069983  0 -   4237731 C
e chlSab2.chr23             28400032  0 +  82825804 C
e cerAty1.NW_012002512v1     5299551  9 +  26952557 I
e macNem1.NW_012012355v1    16286789  0 +  18395747 C
e macFas5.chr6             124288420  0 + 181584905 C
e rheMac8.chr6             122864814  0 + 180051392 C
e aotNan1.NW_018505940v1    13234587 23 -  42888418 I
e cebCap1.NW_016107590v1       34265 23 -   3089952 I
e mm10.chr18                55533900 1918 +  90702639 I
e saiBol1.JH378106          55730736  3 -  71252344 I
e calJac3.chr2             123686775  0 - 204313951 C
e colAng1.NW_012119644v1      338546  0 -   1175262 C
e nomLeu3.chr2             139880167  0 + 163208435 C

a score=5448.000000
s hg38.chr5_KI270796v1_alt    113007 7 +    172708 atacttt
s panTro5.chr5             125216749 7 + 181907262 atacttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126553438 7 + 183735486 atacttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1745184 7 +   8933513 atacttt
i gorGor5.CYUI01015135v1   C 0 C 0
s otoGar3.GL873679           3090104 7 +   4132165 gtatttt
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14933510 906 +  74389097 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e manLeu1.NW_012103321v1     4069983 0 -   4237731 C
e chlSab2.chr23             28400032 0 +  82825804 C
e cerAty1.NW_012002512v1     5299551 9 +  26952557 I
e macNem1.NW_012012355v1    16286789 0 +  18395747 C
e macFas5.chr6             124288420 0 + 181584905 C
e rheMac8.chr6             122864814 0 + 180051392 C
e aotNan1.NW_018505940v1    13234587 23 -  42888418 I
e cebCap1.NW_016107590v1       34265 23 -   3089952 I
e dasNov3.JH567306           2653277 1009 +   3667625 I
e mm10.chr18                55533900 1918 +  90702639 I
e saiBol1.JH378106          55730736 3 -  71252344 I
e calJac3.chr2             123686775 0 - 204313951 C
e colAng1.NW_012119644v1      338546 0 -   1175262 C
e nomLeu3.chr2             139880167 0 + 163208435 C

a score=333032.000000
s hg38.chr5_KI270796v1_alt    113014 603 +    172708 aagttttagggtacatgtgcacaatgtgcaggtttgttatgtatgtatacatgtgccatgttggtgtgctgcacccattaactcgtcatttagcattaggtatattccctaatgctatccctcccccctccccccaccccacaacagtccctggtgtgtgatgttccccttcctgtgtccatgtgttctcattgttcaattcccacctatgagtgagaacatgcggtgtttggttttttgtacttgcgatagttcgctgagaatgatggtttccagtttcatccatgtccctacaaagcacatgaactcttcattttttatggctgcatagtattccatggtgtatatgtgccacattttcttaatccagtctatcgttgttggacatttgggttggttccaagtctttgctattatgaatagtgccgcaataaacagacgtgtgcatgtgtctttatagcagcatgatttataatcctgtgggtatataccccgtaatgggatggctgggtcaaatagtatttctagttctagatccctgaggaatcgccacactgacttccacaatggttgaactagtttacagtcccaccaacagtgtaa
s panTro5.chr5             125216756 603 + 181907262 aagttttagggtacatgtgcacaatgtgcaggtttgttatatatgtatacatgtgccatgttggtgtgctgcacccattaactagtcatttagcattaggtatattccctaatgctatccctcccccctccccccaccccacaacagtccctggtgtgtgatgttccccttcctgtgtccatgtgttctcattgttcaattcccacctatgagtgagaacatgcggtgtttggttttttgtccttgcgatagttcgctgagaatgatggtttccagtttcatccatgtccctataaaggacatgaactcttcattttttatggctgcatagtattccatggtgtatatgtgccacattttcttaatccagtctatcgttgttggacatttgggttggttccaagtctttgatattgtgaatagtgccgcagaaaacatacgtgtgcatgtgtctttatagcagcatgatttataatcctgtgggtatatacccagtaatgggatggctgggtcaaatggtatttctagttctagatccctgaggaatcgccacactgacttccacaatggctgaactagtttacagtcccaccaacagtgtaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126553445 603 + 183735486 aagttttagggtacatgtgcacaatgtgcaggtttgttatatatgtatacatgtgccatgttggtgtgctgcacccattaactcgtcatttagcattaggtatattccctaatgctatccctcccccctccccccaccccacaacagtccctggtgtgtgatgttccccttcctgtgtccatgtgttctcattgttcaattcccacctatgagtgagaacatgcggtgtttggttttttgtccttgcgatagttcgctgagaatgatggtttccagtttcatccatgtccctataaaggacatgaactcttcattttttatggctgcatagtattccatggtgtatatgtgccacattttcttaatccagtctatcgttgttggacatttgggttggttccaagtctttgatattgtgaatagtgccacagaaaacatacgtgtgcatgtgtctttatagcagcatgatttataatcctgtgggtatatacccagtaatgggatggctgggtcaaatggtatttctagttctagatccctgaggaatcgccacactgacttccacaatggctgaactagtttacagtcccaccaacagtgtaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1745191 603 +   8933513 aagttttagggtacatgtgcacaatgtgcaggtttgttatatatgtatacatgtgccatgttggtgtgctgcacccattaactcgtcatttagcattaggtatattccctaatgctatccctcccccctccccccaccccacaacagtccctggtgtgtgatgttccccttcctgtgtccatgtgttctcattgttcaattcccacctgtgagtgagaacatgcggtgtttggttttttgtccttgcgatagttcgctgagaatgatggtttccagtttcatccatgttcctacaaaggacatgacctcttcattttttatggctgcatagtattccatggtgtatatgtgccacattttcttaatccagtctatcattgttggacatttgggttggttccaagtctttgctattatgaatagtgccgcaataaacatacgtgtgcatgtgtctttatagcagcatgatttataatcctgtgggtatatacccagtaatgggatggctgggtcaaatggtatttctagttctagatccctgaggaatcgccacactgacttccacaatggttgaactagtttacagtcccaccaacaatgtaa
i gorGor5.CYUI01015135v1   C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14933510 906 +  74389097 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e manLeu1.NW_012103321v1     4069983   0 -   4237731 C
e chlSab2.chr23             28400032   0 +  82825804 C
e cerAty1.NW_012002512v1     5299551   9 +  26952557 I
e macNem1.NW_012012355v1    16286789   0 +  18395747 C
e macFas5.chr6             124288420   0 + 181584905 C
e rheMac8.chr6             122864814   0 + 180051392 C
e otoGar3.GL873679           3090111   0 +   4132165 C
e aotNan1.NW_018505940v1    13234587  23 -  42888418 I
e cebCap1.NW_016107590v1       34265  23 -   3089952 I
e dasNov3.JH567306           2653277 1009 +   3667625 I
e mm10.chr18                55533900 1918 +  90702639 I
e saiBol1.JH378106          55730736   3 -  71252344 I
e calJac3.chr2             123686775   0 - 204313951 C
e colAng1.NW_012119644v1      338546   0 -   1175262 C
e nomLeu3.chr2             139880167   0 + 163208435 C

a score=5236.000000
s hg38.chr5_KI270796v1_alt    113617 11 +    172708 aagt---gttccta
s panTro5.chr5             125217359 11 + 181907262 aagt---gttccta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126554048 11 + 183735486 aagt---gttccta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1745794 14 +   8933513 aaatatgattccta
i gorGor5.CYUI01015135v1   C 0 C 0
s macFas5.chr6             124288420 11 + 181584905 aaat---atttact
i macFas5.chr6             C 0 C 0
s calJac3.chr2             123686775 11 - 204313951 aaat---atttact
i calJac3.chr2             C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14933510 906 +  74389097 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e manLeu1.NW_012103321v1     4069983  0 -   4237731 C
e chlSab2.chr23             28400032  0 +  82825804 C
e cerAty1.NW_012002512v1     5299551  9 +  26952557 I
e macNem1.NW_012012355v1    16286789  0 +  18395747 C
e rheMac8.chr6             122864814  0 + 180051392 C
e otoGar3.GL873679           3090111  0 +   4132165 C
e aotNan1.NW_018505940v1    13234587 23 -  42888418 I
e cebCap1.NW_016107590v1       34265 23 -   3089952 I
e dasNov3.JH567306           2653277 1009 +   3667625 I
e mm10.chr18                55533900 1918 +  90702639 I
e saiBol1.JH378106          55730736  3 -  71252344 I
e colAng1.NW_012119644v1      338546  0 -   1175262 C
e nomLeu3.chr2             139880167  0 + 163208435 C

a score=52266.000000
s hg38.chr5_KI270796v1_alt    113628 9 +    172708 ttcatatct
s panTro5.chr5             125217370 9 + 181907262 ttcatatct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126554059 9 + 183735486 ttcatatct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1745808 9 +   8933513 ttaatatct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139880167 9 + 163208435 ttcatatct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122864814 9 + 180051392 ttcatttct
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124288431 9 + 181584905 ttcatttct
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16286789 9 +  18395747 ttcatttct
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5299560 9 +  26952557 ttcatttct
i cerAty1.NW_012002512v1   I 9 C 0
s chlSab2.chr23             28400032 9 +  82825804 ttcatttct
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4069983 9 -   4237731 ttcatttct
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      338546 9 -   1175262 ttcatttct
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123686786 9 - 204313951 ttcatatcc
i calJac3.chr2             C 0 I 8
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14933510 906 +  74389097 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e otoGar3.GL873679           3090111 0 +   4132165 C
e aotNan1.NW_018505940v1    13234587 23 -  42888418 I
e cebCap1.NW_016107590v1       34265 23 -   3089952 I
e dasNov3.JH567306           2653277 1009 +   3667625 I
e mm10.chr18                55533900 1918 +  90702639 I
e saiBol1.JH378106          55730736 3 -  71252344 I

a score=66879.000000
s hg38.chr5_KI270796v1_alt    113637 8 +    172708 aattataa
s panTro5.chr5             125217379 7 + 181907262 aattata-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126554068 7 + 183735486 aattata-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1745817 8 +   8933513 aattataa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139880176 8 + 163208435 aattataa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122864823 8 + 180051392 aattataa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124288440 8 + 181584905 aattataa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16286798 8 +  18395747 aattataa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5299569 8 +  26952557 aattataa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28400041 8 +  82825804 aattataa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4069992 8 -   4237731 aattataa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      338555 8 -   1175262 aattataa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123686803 8 - 204313951 aattatga
i calJac3.chr2             I 8 C 0
s saiBol1.JH378106          55730739 8 -  71252344 aattatga
i saiBol1.JH378106         I 3 C 0
s cebCap1.NW_016107590v1       34288 8 -   3089952 aattatga
i cebCap1.NW_016107590v1   I 23 C 0
s aotNan1.NW_018505940v1    13234610 8 -  42888418 aattatga
i aotNan1.NW_018505940v1   I 23 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14933510 906 +  74389097 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e otoGar3.GL873679           3090111 0 +   4132165 C
e dasNov3.JH567306           2653277 1009 +   3667625 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=781763.000000
s hg38.chr5_KI270796v1_alt    113645 79 +    172708 ttatactcctttttcaatgggg-atccaaaattgtataagcttcaagttccataaaacctaaattcatctcCACATGCAA
s panTro5.chr5             125217386 74 + 181907262 -----ctcctttttcaatgggg-atccaaaattgtataagcttcaagttccataaaacctaaattcatctcCACATGCAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126554075 74 + 183735486 -----ctcctttttcaatgggg-atccaaaattgtataagcttcaagttccataaaacctaaatTAATCTCCACATGCAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1745825 79 +   8933513 ttatactcctttttcaatgggg-atccaaaattgtataagcttcaagttccataaaacctaaattcatctcCACATGCAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139880184 79 + 163208435 ttatactcctttttcaataggg-atccaaaattgtataagcttcaagttccataaaacctaaattcatctctgCATGCaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122864831 79 + 180051392 ttagactcctttttaaatgagg-attcaaaactgtgtaagcttcaagttccataaaacctaaattcctctctgTATACAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124288448 79 + 181584905 ttagactcctttttaaatgagg-attcaaaactgtgtaagcttcaagttccataaaacctaaattcctctctgTATACAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16286806 79 +  18395747 ttagactcctttttaaatgagg-attcaaaactgtgtaagcttcaagttccataaaacctaaattcctctctgTATACAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5299577 77 +  26952557 ttagactc--ttttaaatgagg-atccaaaactgtgtaagcttcaagttccataaaacctaaattcctctctgCATGCAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28400049 79 +  82825804 ttagactcctttttaaatgagg-atccaaaactgtgtaagcttcaagttccataaaacctaaattcctctctgCATGCAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4070000 79 -   4237731 ttagactcctttttaaatgagg-atccaaaactgtgtaagcttcaagttccataaaacctaaattcctctctgCATGCAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      338563 79 -   1175262 ttagactcctttttaaatgagg-atccaaaattgtgtaagcttcaagttccataaaacctaaattcctctctgCATGCaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123686811 79 - 204313951 ttatattcctttttaaatgagg-atccaaaaatgtataagcttcgagttccataaaacctaacttcatctctACATGCAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55730747 79 -  71252344 ttatattcctttttaaataagg-atccaaaaatgcataagctttgagttccataaaacttaaattcatctctACATGCAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       34296 79 -   3089952 ttatattccttttaaaatgagg-atccaaaaatgcataaccttagagttccataaaacctaaattcatctctACATGCAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13234618 79 -  42888418 ttatattcctttttaaatgagg-atccaaaaatgcataagctttgtgttccataaaacctaaattcatctctACATGCaa
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3090111 77 +   4132165 ttattctttctattaaatggggtatccaaaattgt---agcttcaaattccataaaaactaaattcacccttgCATGCAA
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14933510 906 +  74389097 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e dasNov3.JH567306           2653277 1009 +   3667625 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=3188649.000000
s hg38.chr5_KI270796v1_alt    113724 273 +    172708 AGAAAGAG-----------------AATATTTtt-aaatgatactagcagctacagtaagatgaaggcagataatggtccactagaataggcaacataaaatcactatttg-ttagacaagaatgattttagaggggtggtatggccagaaaacagaggaagagaatggaaaatg-atgagaagtg--c-tgtagcatggtgacagtgggtatccacaagttctgtgaacagtttggcactgagatttggcaaatagagtaggtggcagatggaagtgaatgtgaggccattggag--------------------
s panTro5.chr5             125217460 273 + 181907262 AGAAAGAG-----------------AATATTTtt-aaatgatactagcagctacagtaagatgaaggcagataatggttcactagaataggcaacataaaatcactattgg-ttagacaagaatgattttagaggggtggtatggccagaaaacagaggaagagaatggaaaatg-atgagaagtg--c-tgtagcatggtgacagtgggtatccacaagttctgtgaacagtttggcactgagatttggcaaatagagtaggtggcggatggaagtgaatgtgaggccattggag--------------------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126554149 273 + 183735486 AGAAAGAG-----------------AATATTTtt-aaatgatactagcagctacagtaagatgaaggcagataatggttcactagaataggcaacataaaatcactattgg-ttagacaagaatgattttagaggggtggtatggccagaaaacagaggaagagaatggaaaatg-atgagaagtg--c-tgtagcatggtgacagtgggtatccacaagttctgtgaacagtttggcactgagatttggcaaatagagtaggtggcggatggaagtgaatgtgaggccattggag--------------------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1745904 273 +   8933513 AGAAAGAG-----------------AATATTTtt-aaatgatactagcagctacagtaagatgaaggcagataatggtccactagaataggcaacataaaatcactattgg-ttagacaagaatgattttagaggggtagtatggccagaaaacagaggaagagaatggaaaatg-atgagaagtg--c-tgtagcatggtgacagtgggtatccacaagttctgtgaacagtttggtactgagatttggcaaatagagtaggtggcagatggaagtgaatgtgaggccattggag--------------------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139880263 278 + 163208435 aaaaagag-----------------agtattttt-aaatgatactagcagctacagtaagatgaaggcagataatggtccactagaataggcaacataaaatcactactga-ttagacaagaatgattttagaggggtggtatggccagaaaacagaggaagagaatggaaaatg-atgagaagtg--c-tatagcatggtgacaatgggtatccacaagttctgtgaacagtttggcactgagatttggcaaataaagtaggtagaagatggaattgaatgtgaggccactggag---------------ttttc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122864910 277 + 180051392 AAAAAGAG-----------------AATATTTTT-Gagtgatactagcagctatagtaagatgaaggcagataatggtctactagaataggcaacataaaatcactactga--tagacaagaatgattttagaggggtgttatggccagaaaacagaggaagagaatggaaaatg-atgataagtg--c-tatagcatggtgatggtgggtattcacaagttctgtgaacagtttagcactgagatttggcaaatagagtaggtggcagatggaggtgaatgtgaggccattggag---------------ttttc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124288527 277 + 181584905 AAAAAGAG-----------------AATATTTTT-Gagtgatactagcagctatagtaagatgaaggcagataatggtctactagaataggcaacataaaatcactactga--tagacaagaatgattttagaggggtgttatggccagaaaacagaggaagagaatggaaaatg-atgataagtg--c-tatagcatggtgatggtgggtattcacaagttctgtgaacagtttggcactgagatttggcaaatagagtaggtggcagatggaggtgaatgtgaggccattggag---------------ttttc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16286885 274 +  18395747 AAA---AG-----------------AATATTTTT-Gagtgatactagcagctatagtaagatgaaggcagataatggtctactagaataggcaacataaaatcactactga--tagacaagaatgattttagaggggtgttatggccagaaaacagaggaagagaatggaaaatg-ataataagtg--c-tatagcatggtgatggtgggtattcacaagttctgtgaacagtttggcactgagatttggcaaatagagtaggtggcagatggaggtgaatgtgaggccattggag---------------ttttc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5299654 277 +  26952557 AAAAAGAG-----------------AATATTTTT-Gagtgatactagcagctacagtaagatgaaggcagataatggtctactagaataggcaacataaaatcactactga--tagacaagaatgattttagaggggtgttatggccagaaaacagaggaagagaatggaaaatg-atgataagtg--c-tatagcatggtgacggtgggtgttcacaagttctgtgaacagtttggcactgagatttgccaaatagagtaggtggcagatggaggtgaatgtgaggccattggag---------------ttttc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28400128 277 +  82825804 AAAAAGAG-----------------AATATTTTT-Gagtgatactagcagctacagtaagatgaaggcagataatggtctactagagtaggcaacataaaatcactactga--tagacaagaatgattttagaggggtgttatggccagaaaacagaggaagagaatggaaaatg-atgataagtg--c-tatagcatggtgacggtgggtattcacaagttctgtgaagagtttggcaatgagatttggcaaatagagtaggtggcagatggaggtgaatgtgaggccattggag---------------ttttc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4070079 275 -   4237731 AAAAAGAG-----------------AATATTTTT-Gagtgatactggcagctacagtaagatgaaggcagataatggtctactagaataggcaacataaaatcactactga--tagacaagaatgattttagagggttgttatggccagaaaac--aggaagagaatggaaaatg-atgataagtg--c-tatagcatggtgatggtgggtgttcacaagttctgtgaacagtttggcactgagatttgccaaatagagtaggtggcagatggaggtgaatgtgaggccattggag---------------ttttc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      338642 277 -   1175262 aaaaagag-----------------agtattttt-aagtgatactagcagctacagtaagatgaaggcagataatagtccactagaataggcaacataaaatcactactga--tagacaagaatgattttagaggggtgttatggccagaaaacagaggaagagaatggaaaatg-atgataagtg--c-tgtagcatggtggcggtgggtagtcacaagttctgtgaacagtttggcactgagatttggcaaacagagtaggtggcagatggaggtgaatgtgaggccattggaa---------------ttttc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123686890 279 - 204313951 AAAGAGAG-----------------AATATTTTAAaaatgatgctagcagctacagtaaaatgaaggcagataatggtccactggaataggcaacataaaatcactactga-ttagacaagaatgattttagaggggtggtatggccagaaaacagagaaagagagtggaaaatg-atgagaagtg--c-tatagcatggtgacagtgtgtatccacaagttctgtgaacagtttggcagtgagatttggcaaacagagtaggtggcagatggaggtgaatgtgaggccactggag---------------ttttc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55730826 281 -  71252344 AAAGAGAG-----------------ACTATTTTTAaaatgatgctagcagctacagtaaaatgaaggcagataatggtccactggaataggcaacataaaatcactactga-ttagacaggaatgattttagaagggtggtatggccagaaaacagaggaagagcgtggaaaatg-atgagaagtggta-tatagcatggtgacggtgggtatccacaagttctgtgaacagtttggcagtgagatttggcaaacagagtaggtggcagatggaggtgaatgtgaggccacgggag---------------ttttc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       34375 279 -   3089952 AAAAAGAG-----------------AATATTTTTAaaatgatgctagcagctacagtaaaatgaaggcagataatggtccattagaataggcaacataaaatcactactga-ttagacaagaataattttagaggggtggtatgaccagaaaacagaggaagagagtggaaaatg-atgagaagtg--c-tatagcatggtgacggtgggtatccacaagttctgtgaacagtttggcagtgagatttggcaaacagagtaggtggcagatggaggtgaatgtgaggccactggag---------------ttttc
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13234697 274 -  42888418 aaagagag-----------------aatatttttaaaatgatgctagcagctacagtaaaatgaaggcagataatggtccactggaataggcaacataaaatcactgctga-ttagacaagaatgattttagaggggtggtatggccagaaaacagaggaagagagtggaaaatg-atgagaagtg--c-tatagcatgttgacggtgggtatccacaagttctgtgaacagtttggcagtgagatttggcaaacagaataggtggcagatggaggtgaatgtgaggccactggag--------------------
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3090188 297 +   4132165 AATAAGAGCGgaacaagaggcgaacaatatttta-aaatgatgctggcagctacagtaagatgaaggcagattatgggcctatagaataggcaacataaaatcaccgctgattttgataagagctgttttagaggggtgctgtggccaggaagtagatgaggagaaggagcaatgaacaaggagcg--c-tatagcgcagtggtcgtgggtagcaacaagttctgtgaacaatttggcagtgagatttggcaaatagattaggtggcagatggaggggaatatgaggccactgaag---------------ttttc
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14934416 286 +  74389097 --AGGAAT-----------------AGTATTTTttaaatgctgctagcagttatggtaagatgaaggtagatcagggtccatttgaatttgtaatggagaattattactgattttgacaagaattatattaggggagtggtgtggccagaacacagacgaagagattagagaatg----agaagtg--cttgtagtaaagtgacaatagttactaac---tcctgtga--aatgtggaagtgaggtttagcaaatggactagctggcagatggaggtacatgtgaggacatgggagttttgctttgttttgttttg
i canFam3.chr11            I 906 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e dasNov3.JH567306           2653277 1009 +   3667625 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=3156287.000000
s hg38.chr5_KI270796v1_alt    113997 298 +    172708 ttttctgttagaagtctaactttgtatgctgctaggaatgctccaatagaaagggagaaatttataatttaggttacacagaggtagctgcatatggtagccatcctccaagatgactcactcccaaggatccaatctcttggcattcacaaccttgtgtggacctcttccagttc-----catcagggttggtttgtgtgactaagac---tatacaacagaaatgatggggtagtagcttccaaaattgggttatactagaatacagctcccacttgg--------------------------tctctctctctctct------------------ctctatttt---tc
s panTro5.chr5             125217733 294 + 181907262 ttttctgttagaagtctaactttgtatgctgctaggaatgctccaatagaaagggagaaatttataatttaggttacacagaggtagctgcatatggtagccatcctccaagatgactcactcccaaggatccaatctcttggcattcacaaccttgtgtggacctcttccagttc-----catcagggttggtttgtgtgactaagac---tatacaacagaagtgatggggtagtagcttccaaaattgggttatactagaatacagctcccacttgg--------------------------tctctctctctctct----------------------atttt---tt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126554422 295 + 183735486 ttttctgttagaagtctaactttgtatgctgctaggaatgctccaatagaaagggagaaatttataatttaggttacacagaggtagctgcatatggtagccatcctccaagatgactcactcccaaggatccaatctcttggcattcacaaccttgtgtggacctcttccagttc-----catcagggttggtttgtgtgactaagac---tatacaacagaagtgatggggtagtagcttccaaaattgggttatactagaatacagctcccacttgg--------------------------tctctctctctctct---------------------tatttt---tt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1746177 294 +   8933513 ttttctgttagaagtctaactttgtatgctgctaggaatgctccaatagaaagggagaaatttataatttaggttacacagaggtagctgcatatggtagccatcctccaagatgactcactcccaaggatccaatctcttggcattcacaaccttgtgtggacctcttccagttc-----catcagggttggtttgtgtgactaagac---tatacaacagaagtgatgcggtagtagcttccaaaattgggttatactagaatacagctcccacttgg--------------------------tctctctctctctct----------------------atttt---tc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139880541 295 + 163208435 ttttctgttagaagtctaactttgtatgctgctaggaatgctccaaaagaaagggagaagtttataatttcggttacacagaggtagctgcatgtggtagccatcctcgaagatgactcagtcccaaggatccaatctcttggcattcacaaccttgtgtggacctcttccagttc-----catcagggttggtttgtgtgactaagac---tatacaacagaagtgatggggtagtagc--ccaaaattgggttataatagaatacagctcccacttgg--------------------------tctctctctatgtat----------------------attttttctc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122865187 276 + 180051392 ttttctgttaggagtctaactttgtacgctgctaggaatgctccaatagaaagggagaaatttataatttaggttacacagaggtagctgcatgtggtagccatcctccaagatgactcactcccaaggatcccatctcttggcattcacaaccttgtgtggacctcttccagttc-----catcagggttagtttgtgtgactaagac---tatacaacagaagtgatggggtaagatcttccaaaattgggttataatagaatacagctcccacttgg------------------------------------------------------------------tc---tc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124288804 276 + 181584905 ttttctgttaggagtctaactttgtacgctgctaggaatgctccaatagaaagggagaaatttataatttaggttacacagaggtagctgcatgtggtagccatcctccaagaagactcactcccgaggatcccatctcttggcattcacaaccttgtgtggacctcttccagttc-----catcagggttagtttgtgtgactaagac---tatacaacagaagtgatggggtaagatcttccaaaattgggttataatagaatacagctcccacttgg------------------------------------------------------------------tc---tc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16287159 276 +  18395747 ttttctgttaggagtctaactttgtacgctgctaggaatgctccaatagaaagggagaaatttataatttaggttacacagaggtagctgcatgtggtagccatcctccaagatgactcactcccaaggatcccatctcttggcattcacaaccttgtgtggacctcttccagttc-----catcagggttagtttgtgtgactaaaac---tatacaacagaagtgatggggtaagatcttccaaaattgggttataatagaatacagctcccacttgg------------------------------------------------------------------tc---tc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5299931 278 +  26952557 ttttctgttaggagtctaactttgtacgctgctagcaatgctccaatagaaagggagaaatttataatttaggttacacagaggtagctgcatgtggtagccatcctccaagatgactcactcccaaggatcccatctcttggcattcacaaccttgtgtggacctcttccagatc-----catcagggttagtttgtgtgactaagac---tatacaacagaagtgatggggtaggagtttccaaaattgggttataatagaacacagctcccacttgg--------------------------tc--------------------------------------tc---tc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28400405 276 +  82825804 ttttctgttaggagtctaactttgtacgctgctaggaatgctccaatagaaagggagaaatttataatttaggttacacagaggtagctgcttgtggtagccatcctccaagatgactcactcccaaggatcccatctcttggcattcataaccttgtgtggacctcttccagttc-----catcagggttagtttgtgtgactaagac---tatacaacagaagtgatggggtaggatcttccaaaattgggttataatagaatacagctcccacttgg------------------------------------------------------------------tc---tc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4070354 278 -   4237731 ttttctgttaggagtctaactttgtacgctgctagcaatgctccaatagaaagggagaaatttataatttaggttacacagaggtagctgcatgtggtagccatcctccaagatgactcactcccaaggatcccatctcttggcattcacaaccttgtgtggacctcttccagttc-----catcagggttagtttgtgtgactaagac---tatacaacagaagtgatggggtaggagtttccaaaattgggttataatagaatacagctcccacttgg--------------------------tc--------------------------------------tc---tc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      338919 273 -   1175262 ttttctgttaggagtctaactttgtacgctgctaggaatgctccaatagaaagggagaaatttataatttaggttacacagaggtagctgcatgtggtag-catcctccaagatgactaactcccaaggatctcatctcttggcattcacaaccttgtgtggacctcttccagttc-----catcagggttagtttgtgtgactaagac---tatacaacagaagtgatggggtaggagcttccaaaattgggttataatagaatacagctcccacttgg-----------------------------------------------------------------------tc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123687169 327 - 204313951 ttttctgttagaagtctaactttgtaggctgataggaatgctccaatagaaagggagaactttataatttaggttacacacaggtagctgcatgtggtagccatccttcaagatgac-cactcccaaggatctcatctcttggcatttacaaccttgtgtggacctcttccagctc-----catcagaattggtttgtgtgattaggac---tatacaacaggagtgatggggtagtaacttccaaaattaggttataataggatacagctcctacttggtctctctct--------------ctctctctctctctctctctctctctctctctctctctctctctc---tc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55731107 315 -  71252344 ttttctgttagaagtctaactttgtatgctgataggaatgcgccaatagaaagagagaactttataatttagttgacacaaaggtagctgcgtgtggtagccatccttcaagatgac-caatcccaaggatcccatctcttggcattcacaaccttgtgtggacctcttccagctc-----catcagggttggtttgtgtgattaggac---tatacaacagaagtgatcgggtagtaacttccaaaattaggttataataggatacagctcctacttgg--------------------------tctttctctttctctccctccttttgtctctctctctctctc---tc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       34654 340 -   3089952 ttttctgttagaagtctaactttgtatgttgataggaatgctccaatagaaagggagaactttataatttagTTTACACAGA-GTAGCTGCAtgtggtagctatccttcaagatgac-cactcccaaggatcccatctcttggcattcacaaccttgtgtgggcctcttccagctc-----catcagggttggtttgtgtgattagggc---tatacaacagaagtggtggggtagtaacttccaaaattaggttataataggatacagctcctacttggtctttctctttctctcctctctcctctctctctctctctctctctctctctctccctctctctctctc---cc
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13234971 320 -  42888418 ttttctgttaggagtctaactctgtatgctgataggaatgctccaatagacagggagaactttataatttaggttacacagaggtagctgcatgtggtagccatccttcaagatgac-cactcccaaggatcctatctcttggcattcacaaccttgtgtggacctcttccagctc-----catcagggttggtttgtgtgattaggac---tatacaacagaagtgatggggtggtaacttccaaaattaggttataataggatacagctcctacttggtctttc--------------------tctttctctctct-tctctctctttctctctctctctctctc---tc
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3090485 278 +   4132165 tcttgtggtggtag--taactttgagtgctaagaggaatgctccaacagtaaaggaggtattttcaatttaggctgtcaaggggtaactatgcgtggtagacatcct-cagcgtgac----ccccagtgatcccacctcttgctatttgtaaccttatatagacccacccgggtgcacatatatcagagttggtctctgtgaccaaggc-----tacaacagaagtgatgaggtggtcacttctgaaattaagttgcaataga-------taccatttgg--------------------------gcttgctctctctcg-------------------------tc-----
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14934702 288 +  74389097 ttttttgatggaag--caacttcatgtgctgacag-aatggaccaacaggataagagagatttacaattcaggctgtaaaagagtaaccacatgtgatattcatcctccaaaatgac----tcccaaggatactacctcttggcattcacacacttgtgtaggctcatcccatttg-----tattacagttggtttatgtgaccaagagaaaaacaaaacagaagggagggggtggttctttccaaaattattttataatagattacagcttctacttgg--------------------------tctgtctctctgtac----------------------ctgtc-----
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2654286 261 +   3667625 TTTTTTGATAGAGG--CAACCTTGTCAGCAAATGGAAAT-CTCATATAGGGAGGGAGATTTTTACAATCCAAGCTGTACAGGGGTAACTGTAAGTG-----------------------AATcccaatgatcctgcctctttgtattca-----tctggtagtttcttcccaaatg-----tatcagaggtggtctgtgtgaccaagac---catataacagaagtgatgggattgcctcttctgaaattaggtcataatatactatagcttccacttgg--------------------------cttctctcctcccctaaacc---------------------------
i dasNov3.JH567306         I 1009 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e proCoq1.NW_012155062v1     3603357 3936 +  11683526 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=9516451.000000
s hg38.chr5_KI270796v1_alt    114295 750 +    172708 tctctctctcattatttgttctggggaaagtaagcttctatcttgtgagcaaccctgtggagaggcttaaggggtggagaattgagaactgagacc----tc-caatgagaaactgaccaatggtcatgtgcatgagcttggaagtggat-cct-cagtcccagcccatcagtgctacgatggaagtcctagctgataacttggctgcaaacttgtgagagatctc-acccagattcattcc-aattaagccactcttggattcttgacccttagatactg---gagatagcaaatgtttgttattttga-----------gctgtggtatt--------------gcagaataatcatttatgcagcaatagataactaatgcaccacaagagtgaagtccttgagaagacaaactaggaagtgatatatagtataactggatacattggatgttaatagagacagggatctgtctttctgtttaacaggagagaagatagagcatatgggtatggatatac-ctaagttggtagatgtgtctgctacattactagaaaattttatttttatcaatttcatttt-----ctcaa----gtatgaggcaagattttaaattgtgagtaccttgaaggg---gaggcagaagggattatatgct-------taagaactgtagagg-aaaaaaaa-agaaatagtcaccttggagaatgagaaagaatactaagcagaaaaatataataggg-tgaggttagtgttgaattctgttctgaggtttgtgtgttgtatttaaa--acaatttcag
s panTro5.chr5             125218027 749 + 181907262 tctctctctcattatttgttctggggaaagtaagctgctatcttgtgagcaaccctgtggagaggcttaaggggtggagaattgagaactgaaacc----tc-caatgagaaactgaccaatggtcacgtgcatgagcttggaagtggat-cct-cagtcccagcccatcagtgctacgatggaagtcctagctgataacttggctgcaaacttgtgagagatctc-acccagattcattcc-aattaagccactcttggattcttggcccttagatactg---gagatagtaaatgtttgttattttga-----------gctgtggtatt--------------gcaggataatcatttatgcagcaatagataactaatgcaccacaagagtgaagtccttgagaagacaaactaggaagtgatatacagcataactggatacattgggtgttaatagagacagggatctgtctttctgtttaacaggagagaagatagagcatatgggtatggatatac-ctaagttggtagatatgtctgctacattactagaaaattttagttttatcaatttcatttt-----ctcaa----gtatgaggcaagattttaaactgtgagtaacttgaaggg---gaggcagaagggattatatgct-------taagaactgtagagg-aaaaaaaa--gaaatagtcactttggagaatgagaaagaatactaagcagaaaaatataatacgg-cgaggttagtgttgaattctgttttgaggtttgtgtgttgtatttaaa--acaatttcag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126554717 748 + 183735486 tctctctctcattatttgttctggggaaagtaagctgctatcttgtgagcaaccctgtggagaggcttaaggggtggagaattgagaactgaaacc----tc-caatgagaaactgaccaatggtcacgtgcatgagcttggaagtggat-cct-cagtcccagcccatcagtgctacgatggaagtcctagctgataacttggctgcaaacttgtgagagatctc-acccagattcattcc-aattaagccactcttggattcttgacccttagatactg---gagatagtaaatgtttgttattttga-----------gctgtggtatt--------------gcaggataatcatttatgcagcaatagataactaatgcaccacaagagtgaagtccttgagaagacaaactaggaagtgatatacagcataactggatacattgggtgttaatagagacagggatctgtctttctgtttaacaggagagaagatagagcatatgggtatggatatac-ctaagttggtagatatgtctgctacattactagaaaattttatttttatcaatttcatttt-----ctcaa----gtatgaggcaagattttaaactgtgagtaacttgaaggg---gaggcagaagggattatatgct-------taagaactgtagagg-aaaaaaa---gaaatagtcactttggagaatgagaaagaatactaagcagaaaaatataatacgg-cgaggttagtgttgaattctgttttgaggtttgtgtgttgtatttaaa--acaatttcag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1746471 751 +   8933513 tctctctctcattatttgttctggggaaagtaagctgctatcttgtgagcagccctgtggagaggcttaaggggcggagaattgagaactgagacc----tc-caatgagaaactgaccaatggtcacgtgcatgagcttggaagtggat-cct-cagtcccagcccatcagtgctacgatggaagtcctagctgataacttggctgcaaacttgtgagagatctc-acccagattcattcc-aattaagccactcttggattcttgacccttagatactg---gagatagtaaatgtttgttattttga-----------gctgtggtatt--------------gcagaataatcatttatgcagcaatagataactaatgcaccacaagagtgaagtccttgagaagacaaactaggaagtgatatacagcataactggatacattgggtgttaatagagacagggatctgtctttctgtttaacaggaaagaagatagagcatatgggtatggatatac-ctaagttggtagatatgtctgctacactactagaaaattttatttttatcaatttcatttt-----ctcaa----gtatgaggcaagattttaaattgtgagtaacttgaaggg---gaggcagaagggattatatgct-------taagaactgtagagg-aaaaaaaaaagaaatagtcaccttggagaatgagaaagaatactaagcagaaaaatataataggg-cgaggttagtgttgaattctgttttgaggtttgtgtgttgtatttaaa--acaatttcag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139880836 746 + 163208435 tctctctctcattatttgttctggggaaagtaagctgctgtcttgtgagcaaccctatcgagaggcttaagtggtggagaattgagaactgagacc----tc-caatgagaaactgaccaatggtcacgtgcatgagcttggaagtggat-cct-cagtcccagcccatcagtgctatgatggaagtcctagctgataacttggctgcaaacttgtgagagatctc-acccagattcattcc-aattaagccactcttggattcttgacccttagatactg---gagatagtaaatgtttgttattttga-----------gctgtggtatt--------------gcagaataatcatttattcagcaatagataactaatgcaccacaagagtaaagtccttgagaagacacactaggaagtgatatacagcataactggatacattgggtgttaatagagacagcgatctgtctttctgtttaacaggagagaagatagagcatatgggtatggatatac-ctaagatggtagatacgtctgctacattactagaaaattttatttttgtcaatttcctttt-----ctcaa----gtatgaggcaagattttacatt----gtaatttgaaggg---gagatagaagggattatatgct-------taagaactgtaaagg-aaaaaaaa-agaaatagtcaccatggagaatgagaaagaatactaagtagaaaaatataataggg-caaggttagtgttgaattctgttttgaggtttctgtgttgtatttaaa--acaatttcag
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122865463 750 + 180051392 tctctctctcattatttgttctggggaaagcaagctgctatcttgtgagcaaccctatggagaggcttaagtggtggagaattgagaacggagacc----tc-cagtgagaaactgaccaatggtcacgtgcatgagcttggaagtggat-cct-cagtcccagcccatcagtgctacgatggaagtcctagctgatagcttggctgcaaacttgtgagagatctc-acccagattcattcc-aattaagccactcttggattctttacccttagatactg---gagatagtaaatgtttgttgttttga-----------gctgtggtatt--------------gcagaataatctgttatgcagcaatagataactaatggatcacaagagtaaagtccttgagaagacaaactaggaagtgatatacagcataattggatacattgggtgttaacagagacagggatctgtctatctgtttaacaggagagaagatagagcatatggttatggatacac-ctaagttggtagatatgtctgctacattattagaaaattttatttttatccatttcctttt-----ctcaa----gtatgaggcaagattgtaaattgtaagtaatttgaaggg---gaggtggaagggattatatgct-------taagaactgtagagg-aaaaaaca-agaaatagtcaccatggagaatgagaaagaatactaagtataaaaatataatagga-caaggttagtgttgaattctgttttgaggtttgtgtgttgtatttaaa--gcaatttcag
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124289080 750 + 181584905 tctctctctcattatttgttctggggaaagcaagctgctatcttgtgagcaaccctatggagaggcttaagtggtggagaattgagaacggagacc----tc-cagtgagaaactgaccaatggtcacgtgcatgagcttggaagtggat-cct-cagtcccagcccatcagtgctacgatggaagtcctagctgatagcttggctgcaaacttgtgagagatctc-acccagattcattcc-aattaagccactcttggattctttacccttagatactg---gagatagtaaatgtttgttgttttga-----------gctgtggtatt--------------gcagaataatctgttatgcagcaatagataactaatggatcacaagagtaaagtccttgagaagacaaactaggaagtgatatacagcataattggatacattgggtgttaacagagacagggatctgtctatctgtttaacaggagagaagatagagcatatggttatggatacac-ctaagttggtagatatgtctgctacattattagaaaattttatttttatccatttcctttt-----ctcaa----gtatgaggcaagattgtaaattgtgagtaatttgaaggg---gaggtggaagggattatatgct-------taagaactgtagagg-aaaaaaca-agaaatagtcaccatggagaatgagaaagaatactaagtatcaaaatataatagga-caaggttagtgttgaattctgttttgaggtttgtgtgttgtatttaaa--gcaatttcag
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16287435 750 +  18395747 tctctctctcattatttgttctggggaaagcaagctgctatcttgtgagcaaccctatggagaggcttaagtggtggagaattgagaatggagacc----tc-cagtgagaaactgaccaatggtcacgtgcatgagcttggaagtggat-cct-cagtcccagcccatcagtgctacgatggaagtcctagctgatagcttggctgcaaacttgtgagagatctc-acccagattcattcc-aattaagccactcttggattctttacccttagatactg---cagatagtaaatgtttgttgttttga-----------gctgtggtatt--------------gcagaataatctgttatgcagcaatagataactaatggatcacaagagtaaagtccttgagaagacaaactaggaagtgatatacagcataattggatacattgggtgttaacagagacagggatctgtctatctgtttaacaggagagaagatagagcatatggttatggatacac-ctaagttggtagatatgtctgctacattattagaaaattttatttttatccatttcctttt-----ctcaa----gtatgaggcaagattgtaaattgtgagtaatttgaaggg---gaggtggaagggattatatgct-------taagaactgtagagg-aaaaaaca-agaaatagtcaccatggagaatgagaaagaatactaagtataaaaatataatagga-caaggttagtgttgaattctgttttgaggtttgtgtgttgtatttaaa--gcaatttcag
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5300209 745 +  26952557 tctctctctcattgtttgttctggggaaaacaagctgctatcttgtgagcaaccctatggggaggcttaagtggtggagtattgagaatggagacc----tc-cagtgagaaactgaccaatggtcacgtgcatgagcttggaagtggat-cct-ccgtcccagcccatcagtgctatgatggaagtcctagctgatagcttggctgcaaacttgtgagagatctc-aaccagattcattcc-aattaagccactcttagattcttgacccttagatactg---gagatagtaaatgtttgttgttttga-----------gcggtggtata--------------gcagaataatctgttatgcagcaacagataactaatggatcacaagagtaaagtccttgagaagacaaactaggaagtgatatagagcataattggatacattgggtgttaatagagacagggatctgtctatctgtttaacaggagagaagatagagcatatgggtatggatatac-ctaaattggtagatatgtctgctacattattagaaaattttatttgtatccatttcctttt--------------gtatgaggcaagattataaatttcgagtaatttgaaggg---gaggtggaagggattatatgct-------taagaactgtagagg-gaaaaaca-agaaacagtcaccatagagaatgagaaagaatactaagtataaaaatataatagga-caaggttagtgttgaattctgttttgaggtttgtgtgttgtatttaaa--gcaatttcag
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28400681 750 +  82825804 tctttctctcattatttgttctggggaaagcaagctgctatcttgtgagcaaccctatggagaggcttaagtggtggagaattgagaacggagacc----tc-cagtgagaaactgaccaatggtcacgtgcatgagcttggaagtggat-cct-cagtcccagcccatcagtgctacaatggaagtcctagctgatagcttggctgcaaacttgtgagagatctc-acccagattcattcc-aattaagccactcttggattctttacccttagatactg---gagatagtaaatgtttgttgttttga-----------gctgtggtatt--------------gcagaataatctgttatgcagcaatagataactaatggatcacaagagtaaagtccttgagaagacaaactaggaagtgatatacagcataattggatacattgggtgttaacagagacagggatctgtctatctgtttaacaggagagaagatagagcatatggttatggatacac-ctaagttggtagatatgtctgctacattattagaaaattttatttttatccatttcctttt-----ctcaa----gtatgaggcaagattgtaaattttgagtaatttgaaggg---gaggtggaagggattatatgct-------taagaactgtagggg-aaaaaaca-agaaatagtcaccatggagaatgagaaagaatactaagtataaaaatataatagga-caaggttagtgttgaattctgttttgaggtttgtgtgttgtatttaaa--gcaatttcag
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4070632 745 -   4237731 tctctctctcattgtttgttctggggaaaacaagctgctatcttgtgagcaaccctatggggaggcttaagtggtggagtattgagaatggagacc----tc-cagtgagaaactgaccaatggtcacgtgcatgagcttggaagtggat-cct-ccgtcccagcccatcagtgctatgatggaagtcctagctgatagcttggctgcaaacttgtgagagatctc-aaccagattcattcc-aattaagccactcttagattcttgacccttagatactg---gagatagtaaatgtttgttgttttga-----------gcggtggtact--------------gcagaataatctgttatgcagcaacagataactaatggatcacaagagtaaagtccttgagaagacaaactaggaagtgatatacagcataattggatacattgggtgttaatagagacagggatctgtctatctgtttaacaggagagaagatagagcatatgggtatggatatac-ctaaattggtagatatgtctgctacattattagaaaattttatttttgtccatttcctttt--------------gtatgaggcaagattataaatttcgagtaatttgaaggg---gaggtggaagggattatatgct-------taagaactgtagagg-aaaaaaca-agaaatagtcaccatagagaatgagaaagaatactaagtataaaaatataatagga-caaggttagtgttgaattctgttttgaggtttgtgtgttgtatttaaa--gcaattttag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      339192 750 -   1175262 tctgtctctcattatttgttctggggaaagcaagctgctatcttgtgagcaaccctatggggaggcttaagtggtggagaattgagaacggagacc----tc-cagtgagaaactgaccaatggtcacgtgcatgagcttggaagtggat-cct-cagtcccagcccaccagtgctacgatggaagtcctagctgatagcttggctgcaaacttgtgagagatctc-acccagattcattcc-aattaagccactcttggattctttacccttagatactg---gagatagtaaatgtttgttgttttga-----------gctgtggtatt--------------gcagaataatctgttatgcagcaatagataactaatggatcacaagagtaaagtccttgagaagacaaactaggaagtgatatacagcataattggatacattggatgttaatagagacagggatctgtctatctgtttaacaggagagaagatagagcatatgggtatggatacac-ctaagttggtagatatgtctgctaccttatcagaaaattttatttttatccatttcctttt-----ctgaa----gtaagaggcaagattgtaaatttcaagtaatttgaaggg---gaggtggaagggattatatgct-------taagaactgtagagg-aaaaaaca-agaaatagtcaccatggagaatgagaaagaatgctaagtataaaaatataatagga-caaggttagtgttgaattctgttttgaggtttgtgtgttgtatttaaa--gcaatttcag
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123687496 739 - 204313951 tctctctctcattatttgttctggggaaagcaagctgccatcttatgaacaaccctatggggaggctt-agtggtggagaattgagaactgagacc----tc-caatgagaaagggaccaatggtcatgtgcatgagcttggaagtggat-cct-cagtcccagcccatcagtgcaatgatggaagtcctagctgataacctggctataaaactatgagagatctc-actcagattcattcc-gattaagccactcttgtattcttcccccttagatacta---gagatagtaattgtttgttgttttga-----------gctgcagtatt--------------acagaataacctgttatgtagcaatagataactaatgcaccacaagagtacagtccttgagaagacacactaggaagtgatatacagcacagttggatacactgggtgttaatagagacagggatctg----cctgtttaacaggagagaagatagagcatatgggtgtggatgcag-gtaagttcatagctatgtatgttacattattagaaaattttatttttatcaatttcctttt-----ctcaa----gtatgaagcaagattt-------tgaataatgtgaaggg---gtggtagaagggattatatact-------taagaactgtagagttaaaaaaca-agaaatagtcaccgtgcagaatgagaaagaaaactaagtagaaaaatctaatagga-cgaggttagttttgaattctgttttgaggtttgtgtgttgtatttgaa--gcaatttcag
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55731422 747 -  71252344 tgtctctctcattatttgttctggggaaagcaagctgccaccttatgaacaaccctgtggggaggcttaagtggtggagaattgagaactgagacc----tt-cagtaagaaactgaccaatggtcacatgcatgagcttggaagtagat-ccc-cagtcccagcccatcagtgttatgatggaagtcctagctgataacttggctataaaactatgagagatctc-attcagattcattcc-gattaagccattcttggattcttcacccttagatactg---gagatagtaaatgtttgttgttttga-----------gctacagtatt--------------acagaataatctgttatgtagcaatagataactaatgcaccacaagagtacagtccttgagaagacacactaggaagtgatatacagcacagttggatacactgggtgttaatggagacagggatctg----cctgtttaacaggagagaagatagagcatatgggtgtggatgcag-gtaagttcatagctatgtctgttacattattagaaaattttatttttgtcaatttcctttt-----ctcaa----gtatgaagcaagattttaaattgtgaataatgtgaaggg---gtggtagaagggattatacgct-------taagaactgtagaggtaaaaagca-agaaatagtcaccgtgcagaatgagaaggaaaactaagtagaaaaatataatagga-caaggttagtcttgatttctgttttcaggtttgtgtgttgtacttcaa--gcaatttcag
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       34994 747 -   3089952 tctctctctcattatttgttctggggaaagcaagctgccatcttatgaacaaccctatggggaggcttaagtggtggagaattgagaactgagacc----tc-caatgagaaactgaccaatggtcacatgcatgagcttggaagtggat-cct-cagtcccagcccatccgtgctatgatggaagtcctagctgataagttggctacaaaactatgagagatctc-acttagattcattcc-gattaagccactcttggattcttcacccctagatactg---gagatagtaaatgtttgttgttttga-----------gctgcagtatt--------------acagaataatctgttatgtagcaatagataactaatgcaCCACAAGAGTACAgtccttgagaacacacactaggaagtgatatacagcacagttggatacactgggtgttaatagagacagggatctg----cttgtttaacaggagagaagatagagcatatgggtgtggatgcag-gtaagttcatagctatgtctattacattattagaaaattttatttttatcagtttcctttt-----ctcaa----gtatgaagcaagattttaaattgtgaataatgtgaaggg---gcagtagaagggattatacgct-------taagaactgcagaggtaaaaaaca-agaaatagtcaccgtgcagaatgagaaagaaaactaagtagaaaaatataatagaa-caaggttagtcttgaattctgttttcaggtttgtgtgttgtatttaaa--gcaatttcag
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13235291 747 -  42888418 tctctctctcattatttgttctggggaaagcaagctgccatcttatgaacaaccctatggggaggcttaagtggtggagaattgagaactgagacc----tc-caatgagaaactgaccaatggtcatgtgcatgagcttggaagtggat-cct-cagtcccagcccatcagtgctgtgatggaagtcctagctgataacttggctacaaaactatgagagatctc-actcagattcattct-gattaagccactcttggattcttcacccttagatactg---gagatagtaaatgtttgttgttttga-----------gctgcagtatt--------------acagaataatctgttatgtagcaatagataactaatgtaccacaagagtacagtccttgagaagacacactaggaagtgatatacagcacagttggatacactgagtgttaatagagacagggatctg----cctgtttaacaggagagaatatagagcatatgggtgtggatgcag-gtaagttcatagctatgtctgttacattattagaaaattttatttttatcaatttcctttt-----cttaa----gtatgaagcaagattttaaattgtgaataatgtgaaggg---gcggtagaagggattatacact-------taagaactgtagaggtaaaaaaca-agaaatagtcaccgtgcagaatgggaaagaaaactaagtagaaaaatataatagga-tgaggttagtcttgaattccgttttcaggtttgtgtgttgtatttaaa--gcaatttcag
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3607293 748 +  11683526 tctctctctcattacttgttct-ggggaagcaagctgccatattatgggcagccctgtggggaagcccaagtggtggggacctgagaacagaggcc----ac-cactgaggaac--accaagaaccatgcgaatgagcttggaagtgggtcctc-cagccccagcctgccagtgctatgaccacagtcccagctgatggcttgattgcaaacttgtgagagatctt--cccagatttatccc--actaagctcctcttgtgttcttgaccctcagaaactg--tgagataataaatgattgttgtttt-a-----------gctgctgtgtt--------------tcagaataattcgttacgcgacaatagataactaatacGCCACAggagcaaagtcgttgagaagacaagataggaagtgatatacagcacaactgagtacattggctgttaatagagacaggaatctgtctatctttttaacaggagggaagatagagcatatgggtacaggtgcat-gtgagtttgtagatatgttcgctggatcattagtaaatttaaattttattggttttctttt-----ctcaattaggtatggggcaagattttaagttgtgagtaatgtgaaggg---gaggtggaagggataatacact-------taagaattatag-ag-aaaaaata-tgaaatagtcactttg-gaaatgagaataaaaacttactggaaaaatatagtagggtcaaagttagtgttgaatgctgtt-tgaagtttatgtgttatatataaa--gtgactgtag
i proCoq1.NW_012155062v1   I 3936 C 0
s otoGar3.GL873679           3090763 729 +   4132165 ---------------ttgttctgggggaagcaaactgtcctatcacttgcaaacctgtggggaagccccagtgg-agggaaatgagaaatgaggcc----ccacagtgagaaactgaccaatgatcatgtgaatgagcttggaagctggt-ctt-cagcccctgcctgccagtgctatgacgacagtccccagtaacagcttg-------acttgtgagagacctt-actcagtttcatccc--tctaagcaacttttggattcttgaccctcagaaactg--taagataataaa----tgttgtttt-a-----------gctgttgtgtt--------------tcagagtaattcgttatgcaacccaagatcacccatacaccacaggaacgaagtccttgagaagacaagataggaagtggtacacagcacgattgaatacactgtccattagcagagacagtgatctgtctatctttttcacgggagagaagatagagcttgtgagtacagatgcat-gtgagtttatagacatattggctggatcattaggaaatttaaattttattggttttcttct------ttaattgggtacgaggcaagatttc-atttgtgagtaatgtgaaggg---gaggtggaaggcataacataacagtctgataagactaac---cg-aaaaaatg-tgaaacagtcactttgaaaaatgagaatgaaaacttagtagaaaaatagagtcagatcaaggttagtgttgaatgctatt-tggggtgtgtatgttatacttcaa--gtgactgcca
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14934990 713 +  74389097 tctcttttatatcacttgctcttgagggagcaagcggccatgttgtgaacagctagatggagaggctgtagtggtggg-------gaactgaagcc----cc-tactaa-----ttaccagcttccacgagaatgaacttggaagtggat-cctgcagccctaattgggcagtgtgatgacttaggcccca---aagagctagacagcaaacttgtgaga---ttt-acccagctgagt---------agcaactcttggattcttgaccctcaaaaacta--tgaggtaataaatatttcttgttttta-----------gttgctacgtt--------------tcag---aatttgttatatgacaatagataactaatacaccccagtagcaaagtccttgagaagacaaaataggaagtgatattcagcacaagtagaaaccttggctattaaaagaaagagggatatgtctatccttttagcaggagaaaagatcaatcatatgggtacagatgtgcactgaatttgtagata-gtttgctggaccgttaggaaattttaattgattggctttcctttt-----ctcaattaagtatgaggcaagattc-----------taatgcaaaggg---gaggaagaagggatgagaagct-------taagaaccactgag--aaaaatta-tgaaatagtccccttggagagtgagaaagaacac--agtaggaaaatgtgacagaagcagggttactgttgaattctgac-tgaagtttgtgtgttgtatttaaa--gtgacttgag
i canFam3.chr11            C 0 I 219
s dasNov3.JH567306           2654547 750 +   3667625 ccgctcccctatcacttgctcagggcataactaggttcca-----ggaatagccctacggagaggtccaagtggtagggaactgaagcctatagctgatagc-tagtgagaaatggaccaataaccaattgaacgagcttggaaatggct-cctccagccccaggcaagctacgagatgacct-agtcccaattgaaaacttgactgcaaattcatgagagaccttaacccagaagccttcccaggtaagccgctcttggattcccaaccctaagaaacagagtgagataataaagttttgttgttttTACATAATACACTTTTGTGATTTTTAGCTGATAAGTTTTTAGAATAAATTGTTGCACAATAA-----------------ATAggggcaaagtgcttaagaagacaggataggaagtagtctagagcacatgtggatagattggccattactagaagaaaggatgtttctttctttct-ataggaaagatgttagagcatatggat-----------acagatttgtagttaggttttctggat-attagggagtttttattttattgatttttcttttttcacttaa----gtatgaggcatgattttaagttgtgagtaatgagaagagaatgaagaagaaaagatgaaatagc-------taagacgagcaga---agaaaata-tgaaatagtcacctcggaaagtgagaaagaaaatttaatagtaaaatataat--------ggctagttttgagttctgtt-cgaggtatgtatgtggtatttaaagtgtggtattag
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=146233.000000
s hg38.chr5_KI270796v1_alt    115045 18 +    172708 -tcaaccaattttgtga---tt
s panTro5.chr5             125218776 18 + 181907262 -tcaaccaattttgtga---tt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126555465 18 + 183735486 -tcaaccaattttgtga---tt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1747222 18 +   8933513 -tcaaccaattttgtga---tt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139881582 19 + 163208435 -tcaaccaattttgtgat--tt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122866213 19 + 180051392 -tcaaccaattctgtga--ttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124289830 20 + 181584905 -tcaaccaattctgtgat-ttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16288185 20 +  18395747 -tcaaccaattctgtgat-ttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5300954 20 +  26952557 -tcaaccaattctgtgat-ttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28401431 19 +  82825804 -tcaaccaattctgtgat--tt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4071377 20 -   4237731 -tcaaccaattctgtgat-att
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      339942 20 -   1175262 -tcaactaattctgtgat-ttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123688235 21 - 204313951 -ccaacaaattctgtaattttc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55732169 21 -  71252344 -ccaaccaattctgtaattttt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       35741 21 -   3089952 -ccaaccaattctgtaattttt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13236038 21 -  42888418 -ccaacaaattctgtaattttt
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3608041 17 +  11683526 -ccaaccagttctgtgat----
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3091492 17 +   4132165 -taaacaaattctctgat----
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2655297 19 +   3667625 ttcagcccattgtgtgat--t-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14935703 219 +  74389097 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=522788.000000
s hg38.chr5_KI270796v1_alt    115063 41 +    172708 ttttcccccagcaatatgtagttgcttggagaaag-ca-taga
s panTro5.chr5             125218794 39 + 181907262 ttttcccccagcaat--ttagttgcttggagaaag-ca-taga
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126555483 39 + 183735486 ttttcccccagcaat--ttagttgcttggagaaag-ca-taga
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1747240 41 +   8933513 ttttcccccagcaatatttagttgcttggagaaag-ca-taga
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139881601 41 + 163208435 ttttcccccagcaatatttagttgcttggagaaag-ca-taga
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122866232 41 + 180051392 tttccccccagcaatatttagttgcttggagaaag-ca-taga
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124289850 41 + 181584905 tttccccccagcaatatttagttggttggagaaag-ca-taga
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16288205 41 +  18395747 tttccccccagcaatatttagttgcttggagaaag-ca-taga
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5300974 41 +  26952557 tttccccccagcaatatttagttgcttggagaaag-ca-taga
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28401450 41 +  82825804 tttccccccagcgatatttagttgcttggagaaag-ca-taga
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4071397 41 -   4237731 tttccccccagcaatatttagttgcttggagaaag-ca-taga
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      339962 41 -   1175262 tttccccccagcaatatttagttgcttggagaaag-ca-tagt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123688256 41 - 204313951 tttatccccagcaatatttagttgcttggagaaag-ca-taga
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55732190 41 -  71252344 tttatccccagcaatatttagttgcttggagaaag-ca-taga
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       35762 41 -   3089952 ttttaccccagcaatatttacttgcttggagaaag-ca-taga
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13236059 41 -  42888418 tttatccccagcaatatttagttgcttggagaaag-ca-taga
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3608058 41 +  11683526 -ttttctccagcaatatttagttgcttggattcagtca-taga
i proCoq1.NW_012155062v1   C 0 I 12
s otoGar3.GL873679           3091509 41 +   4132165 -ttttctccagtgacagtcagctgcttgggttcagttg-cagg
i otoGar3.GL873679         C 0 I 6
s canFam3.chr11             14935922 42 +  74389097 tttctctctagccatatgtagttgcttgggttcagcca-gaga
i canFam3.chr11            I 219 I 7
s dasNov3.JH567306           2655316 40 +   3667625 --tttctctagcaacatttagttgcttgggttcag-cagtaga
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=31599.000000
s hg38.chr5_KI270796v1_alt    115104 6 +    172708 gtaca-t
s panTro5.chr5             125218833 6 + 181907262 gaaca-t
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126555522 6 + 183735486 gaaca-t
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1747281 6 +   8933513 gaaca-t
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139881642 6 + 163208435 gaaca-t
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122866273 6 + 180051392 gaatg-c
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124289891 6 + 181584905 gaatg-c
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16288246 6 +  18395747 gaatg-c
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5301015 6 +  26952557 gaatg-g
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28401491 6 +  82825804 gaatg-c
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4071438 6 -   4237731 gaatg-g
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      340003 6 -   1175262 gaatg-t
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123688297 7 - 204313951 gaaagct
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55732231 6 -  71252344 gaaag-t
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       35803 6 -   3089952 gaaag-t
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13236100 6 -  42888418 gaaag-t
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3091556 6 +   4132165 agatg-t
i otoGar3.GL873679         I 6 C 0
s canFam3.chr11             14935971 5 +  74389097 -gatg-t
i canFam3.chr11            I 7 C 0
s dasNov3.JH567306           2655356 6 +   3667625 gaaaa-c
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e proCoq1.NW_012155062v1     3608099 12 +  11683526 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=9626003.000000
s hg38.chr5_KI270796v1_alt    115110 745 +    172708 ctgggtttaactgaagtcactgtttgctaaatgaatgcaatgaaagaagagaggacagggaattgagggtattttgcaaagaaagaacttcaatgttggctcttggaatctcacccaggaaagagaaggaagaacaagaggatgagcaacagtg-aaagagtggtggtgtagattatgaattggagctcttg-ctaagtgtggttgaacaaggtagtacctgag----------aggaggaaataaaatgagctaagctaatgaaggggtgactaatttgaagac-aagaattcaggatgt-ggtaatggaatgtgtggctaaggtggagtagggcagggtGgggaaatgtattgaggttttgattaggagagactgattagtggaattaaattaataagt------tcaagaga-aaaaaa-----aagcaa---cggtgaattcttgagcagagaatacttgcagaa-atgtgggatgatagacattagttaaccacaagagtgagagggccaaggctattgtagtggtctgaggaaatggaattcagagtctcagtggatgccaaaccatctagaaaatggttcttgttaccttggcaatggaagtcaaaccttaa-ctaatgatcttttactg-agaaaactcacaagcaaatgaagtgaagagtaattgga-gt----cag-gctatacattgcttccttagttt-caccttgcatgacagcttggaaagcagtttggACA------------------TAAAAAAT------------------GATTATCTCAAGCCTCCATGCTTGAGAGTT
s panTro5.chr5             125218839 745 + 181907262 ctgggtttaactgaagtcactgtttgctaaatgaatgcaatgaaagaagagaggacagggaattgagggtattttgcaaagaaagaacttcaatgttggctcttggaatctcacccaggaaagataaggaagaacaagaggatgagcaacagtg-aaagagtggtggtgcggatgatgaattggagctcttg-ctaagtgtggttgaataaggtagtacctgag----------aggaggaaataaaatgagctaagctaatgaaggggtgactaatttgaagac-aagaattccggatgt-ggtaatggaatgtgtggctaaggtggagtagggcagggtGGGGAAATGTATTGAGGTTTTGATTAGGAGAGACTGATTAGTGGAATTAAATTAATAAGT------TCAAGAGA-AAAAAA-----AAGCAA---CGGTGAATTCTTGAGCAGAGAATACTTGCggaa-atgtgggatgatagacattagttaaccccaagagtgagagggccaaggctattgtagtggtctgaggaaatggaattcagagtctcagtggatgccaaaccatctagaaaatggttcttgttaccttggcaatggaagtcaaagcttaa-ctaatgatcttttactg-agaaaactcacaagcaaatgaagtgaagagtaattgga-gt----cag-accatacattgcttccttagttt-caccttgcatgacagcttggaaagcagtttggACA------------------TAAAAAAT------------------GGTTATCTCAAGCCTCCATGCTTGAGAGTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126555528 745 + 183735486 ctgggtttaactgaagtcactgtttgctaaatgaatgcaatgaaagaagagaggacagggaattgagggtattttgcaaagaaataacttcaatgttggctcttggaatctcacccaggaaagagaaggaagaacaagaggatgagcaacagtg-aaagagtggtggtgcggatgatgaattggagctcttg-ctaagtgtggttgaacaaggtagtacctgag----------aggaggaaataaaatgagctaaactaatgaaggggtgactaatttgaagac-aagaattccggatgt-ggtaatggaatgtgtggctaaggtggagtagggcagggtGgggaaatgtattgaggttttgattaggagagactgattagtggaattaaattaataagt------tcaagaga-aaaaaa-----aagcaa---cggtgaattcttgagcagagaatacttgcagaa-atgtgggatgatagacattagttaaccccaagagtgagagggccaaggctattgtagtggtctgaggaaatggaattcagagtctcagtggatgccaaaccatctagaaaatggttcttgttaccttggcaatggaagtcaaaccttaa-ctaatgatcttttactg-agaaaactcacaagcaaatgaagtgaagagtaattgga-gt----cag-accatacattgcttccttagttt-caccttgcatgacagcttggaaagcagtttggACA------------------TAAAAAAT------------------GGTTATCTCAAGCCTCCATGCTTGAGAGTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1747287 741 +   8933513 ctgggtttaactgaagtcactgtttgctaaatgaatgcaatgaaagaagagaggacagggaattgagggtattttgcaaagaaagaacttcaatgttggctcttggaatctcacccaggaaagagaaggaagaacaagaggatgagcaacagtg-aaagagtggtggtgtagatgatgaattggagctcttg-ctaagtgtggttgaacaaggtagtacctgag----------aggaggaaataaaatgagctaagctaatgaa-gggtgactaatttgaagac-aagaattcaggatgt-ggtaatggaatgtgtggctaaggtggagtagggcagggtGgggaaatgtattgaggttttgattaggagagac---ttagtggaattaaattaataagt------tcaagaga-aaaaaa-----aagcaa---cggtgaattcttgagcagagaatacttgcagaa-atgtgggatgatagacattagttaaccacaagagtgagagggccaaggctattgtagtggtctgaggaaatggaattcagagtctcagtggatgccaaaccatctagaaaatggttcttgttaccttggcaatggaagtcaaaccttaa-ctagtgatcttttactg-agaaaactcacaagcaaatgaagtgaagagtaattgga-gt----cag-gccatacattgcttccttagttt-caccttgcatgacagcttggaaagcagtttggACA------------------TAAAAAAT------------------GATTATCTCAAGCCTCCATGCTTGAGAGTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139881648 744 + 163208435 ctgggtttaactgaagtcactgtttgctaaatgaatgcaatggaagaagagaggacagggaattgagggtattttgcaaagaaagaatttcaatgttggctcttggaatcttacccaggaaagagaaggaagaacaagaggatgagcaacagtg-aaagagtggtggtgtagatggtgaattggagctcttg-ctaagtgtggttgaacaaggtagtacctgag----------aggagaaggtaaaatgagctaaaataacgaaggggtgactaatttgaagac-aagaattcaggatgt-ggtaatggaatgtgtggctaaggtggagtagggcagggtGgggaaatgtattgaggttttgattaggagagactgattagtggaattaaattaataagt------tcaagag--aaaaaa-----aggcaa---cagtgaattcttgagcagagaatacttgcagaa-atgtgggatgatagacattagttaaccacaagagtgagagggccaaggctattgtagtggtctgaggaaatggaattcagagtctcagtggatgccagaccatctagaaaatagttcttgttaccttggcaatggaaatcaaaccttaa-ctaatgatcttttactg-agaaaactcacaagcaaatgaagtgaagagtaattgga-gt----cag-gccatacattgcttccttagttt-caccttgcatgacagcttggaaagcagtttggACA------------------TAAAAAAT------------------GGTTATCTCAAGCCTCCGTGCTTGAGAGTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122866279 744 + 180051392 ctgggtttaacttaagtcactgcttgctaaatgaatgcaatgaaagacgagaggacaggggattaagggtattttgcaaagaaagaatttcaatgttgaatcttagaatctcacccaggaaagagaaggaagaacaatagcacgagcaacagtg-aaagagtggtggtgtagatgatgaattggagctcttg-ctaagtgtggttgaacaaggtagtacctgag----------agaaggaggcaaaatgagctaagctaatgaaggggtgactcatttgaagac-aagaattcaggatgt-ggtaatggaatgtgtggctaaggtggagtagggcagggtGgggaaatgtattgaggttttg-ctaggagagactgattagtggagttaaattaataagt------tcaagagg-aaaaaa-----aagcaa---cagtgaattcttgagcagagaatacctgcagaa-atgtgggatgatagacattagttaaccacaagagcaagagggtcaaggctagtgtagtggtctgaggaaatggaattcagagtctcagtggatgccaaaccatctagaaaatggttcctgttaccttggcaatggaaatcaaaccttaa-ctaaagatcttttacgg-acaaaactcacaagcaaatgaagtaaagagtaattaaa-gt----cag-gccatacattgcttctttagttt-caccttgcgtgacagcttggaaagcagtttggATA------------------TAAAAAAT------------------GGTTATCTCAAGCCTCCATGCTTGAGAGTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124289897 744 + 181584905 ctgggtttaactgaagtcactgcttgctaaatgaatgcaatgaaagacgagaggacaggggattaagggtattttgcaaagaaagaatttcaatgttgaatcttagaatctcacccaggaaagagaaggaagaacaatagcacgagcaacagtg-aaagagtggtggtgcagatgatgaattggagctcttg-ctaagtgtggttgaacaaGGTAGTACCTGAG----------AGAAGGAGGCAAAATGAGCTAAGCTAATGAAGGGGTGACTCATTTGAAGAC-AAGAATTCAGGATGT-GGTAATGGAATGTGTGGCTAAGGTGGAGTAGGGCAGGGTGgggaaatgtattgaggttttg-ctaggagagactgattagtggagttaaattaataagt------tcaagagg-aaaaaa-----aagcaa---cagtgaattcttgagcagagaatacctgcagaa-atgtgggatgatagacattagttaaccacaagagcaagagggtcaaggctagtgtagtggtctgaggaaatggaattcagagtctcagtggatgccaaaccatctagaaaatggttcctgttaccttggcaatggaaatcaaaccttaa-ctaaagatcttttactg-acaaaactcacaagcaaatgaagtaaagagtaattaaa-gt----cag-gccatacattgcttctttagttt-caccttgcgtgacagcttggaaagcagtttggATA------------------TAAAAAAT------------------GGTTATCTCAAGCCTCCATGCTTGAGAGTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16288252 743 +  18395747 ctgggtttaactgaagtcactgcttgctaaatgaatgcaatgaaagacgagaggacaggggattaagggtattttgcaaagaaagaatttcaatgttgaatcttagaatctcacccaggaaagagaaggaagaacaatagcacgagcaacagtg-aaagagtggtggtgtagatgatgaattggagctcttg-ctaagtgtggttgaacaaggtagtacctgag----------agaaggaggcaaaatgagctaagctaatgaaggggtgactcatttgaagac-aagaattcaggatgt-ggtaatggaatgtgtggctaaggtggagtagggca-ggTGgggaaatgtattgaggttttg-ctaggagagactgattagtggagttaaattaataagt------tcaagagg-aaaaaa-----aagcaa---cagtgaattcttgagcagagaatacctgcagaa-atgtgggatgatagacattagttaaccacaagagcaagagggtcaaggctagtgtagtggtctgaggaaatggaattcagagtctcagtggatgccaaaccatctagaaaatggttcctgttaccttggcaatggaaatcaaaccttaa-ctaaagatcttttactg-acaaaactcacaagcaaatgaagtaaagagtaattaaa-gt----cag-gccatacattgcttctttagttt-caccttgcgtgacagcttggaaagtagtttggATA------------------TAAAAAAT------------------GGTTATCTCAAGCCTCCATGCTTGAGAGTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5301021 744 +  26952557 ctgggtttaactgaagtcactgcttgctaaatgaatgcaatgaaaggcgagcggacaggggattaagggtattttgcaaagaaagaatttcaatgttgaatcttagaatctcacccaggaaagagaaggaagaacaatagcatgagcaacagtg-aaagagtggtggtgtagatgatgaattggagctcttg-ctaaatgtggttgaacaaggtagtacctgag----------agaaggaggtaaaatgagctaagctaatgaaggggtgactcatttgaagac-aagaattcaggatgt-ggtaatggaatgtgtggctaaggtggagtagggcagggtGgggaaatgtattgaggttttg-ctaggagagactgattagtggagttaaattaataagt------tcaagagg-aaaaaa-----aggcaa---cagtgaatttttgagcagagaatatttgcagaa-atgtgggatgatagacactagttaaccacaagagcaagagggtcaaggctagcgtagtggtctgaggaaatggaattcagagtctcagtggatgccaaaccatctggaaaatggttcctgttaccttggcaatggaaatcaaaccttaa-ctaaagatcttttactg-acaaaactcacaagcaaatgaagtaaagagtaattaaa-gt----cag-gccatacattgcttctttagttt-caccttgcgtgacagcttggaaagcagtttggATA------------------TAAAAAAT------------------GGTTATCTCAATCCTCCATGCTTGAAAGTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28401497 739 +  82825804 ctgggtttaactgaagtcactgcttgctaaatgaatgcaatgaaagacgagaggacaggggattaagggtattttgcaaagaaagaatttcaatgttgaatcttagaatctcacccaggaaagagaaggaagaacaatagcatgagcaacagtg-aaagagtggtggtgtagatgatgaattggagctcttg-ctaagtgtggttgaacaaggtagtacctgag----------agaaggaggcaaaatgagttaagctaatgaaggggtgactcatttgaagac-aagaattcaggatgt-ggtaatggaatgtgtggctaaggtggagtagggcagggtGGGGAAATGTATTGAGGTTTTG-CTAGGAGAGACTGATTAGTGGAG-----TTAATAAGT------TCAAGAGG-AAAAAA-----AAGCAA---CAGTGAATTCTTGAGCAGAGAATACCTGCAGAA-ATGTGGGATGATAGACATTAGTTAaccacaagagcaagagggtcaaggctagtgtagtggtctgaggaaatggaattcagagtctcagtggatgccaaaccatctagaaaatggttcctgttaccttggcaatggaaatcaaaccttaa-ctaaagatcttttactg-acaaaactcacaagcaaatgaagaaaagagtaattaaa-at----cag-gccacacattgcttctttagttt-caccttgcatgacagcttggaaagcagtttggATA------------------TAAAAAAT------------------GGTTATCTCAATCCTCCATGCTTGAGAGTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4071444 726 -   4237731 ctgggtttaactgaagtcactgcttgctaaatgaatgcaatgaaaggcgagcggacaggggattaagggtattttgcaaagaaagaatttcaatgttgaatcttagaatctcacccaggaaagagaaggaagaacaatagcatgagcaacagtg-aaagagtggtggtgtagatgatgaattggagctcttg-ctaagtgtggttgaacaaggtagtacctgag----------agaaggaggtaaaatgagctaagctaatgaaggggtgactcatttgaagac-aagaattcaggatgt-ggtaatggaatgtgtggctaaggtggagtagggcagggtGGGGAAATGTATTGAGGTTTTT-CTAGGAGAGACTGATTAGTGGAGTTAAATTAATAAGT------TCAAGAGG-GAAAAA-----AGGCAA---CAGTGAATTCTTGAGCAGAGAATATTTGCAGAA-ATGTGGGATGATAGACATTAGTTAACCAcaagagcaagag------------------ggtctgaggaaatggaattcagagtctcagtggatgccaaaccatctagaaaatggttcctgttaccttggcaatggaaatcaaaccttaa-ctaaagatcttttactg-acaaaactcacaagcaaatgaagtaaagagtaattaaa-gt----cag-gccatacattgcttctttagttt-caccttgcgtgacagcttggaaagcagtttggATA------------------TAAAAAAT------------------GGTTATCTCAATCCTCCATGCTTGAGAGTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      340009 741 -   1175262 ctgggtttaactgaagtcactgcttgctaaatgaatgcaatgaaagatgagaggacaggggattaagggtattttgcaaagaaagaatttcaatgttgaatcttagaatctcacccaggaaagagaaggaagaacaatagcacgagcaacagtg-aaagagaggtggtgtagatgatgaattggaggtcttg-ctaagtgtggttgaacaaggtagtacctgag----------agaaggaggtaaaatgagttaagctaatgaaggagtggctcatcggaagac-aagaattcaggatgt-ggtaatggaatgtgtggctaaggtggagtagggcagggtGgggaaatgtattgaggttttg-ctaggagagactgattagtggagttaaattaataagt------tcaagaggaaaaaaa-----aagcaa---cagtgaattcttgagcagagaatacctgcagaa-atgtgggatgatagatactagttaaccacaagagcaagagggtcaaggctagtgtagtggtctgaggaaatggaattcagagtctctgtggatgccaaaccatctagaaaatggttcttgttacgttggcaatggaaatcaaaccttaa-ctaaagaccttttactg-acaaaactcacaagcaaatgaagtaaagag----taaa-gt----cag-gccatacattgcttctttagttt-caccttgcgtgacagcttggaaagcagtttggATA------------------TAAAAAAT------------------GGTTATCTCAAGCCTCCATGCTGGAGAGTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123688304 740 - 204313951 ctggatttaactgatgtcactgtttgctaaatgaatgcaatagagggaaagaggacagggaattgaaggta-tttgcaaagaaagaatttccatgttggctcctggaatctcaccaatgaaagagaaggaagaacaggaggatgagcaacagtg-aaagagtggtggtatagatgatgaactggagctcttg-ctaattgttgttgaacaaggtagtacctgag----------agaagaaggtaaaaagagctaagctaatgaaggggtgactcatttgaagac-aagaattcaggacat-ggtagtggaatgtgtggctaaggtgaaggagggcagggtGGGGAAATGTACTGAGGTTTTG-CTAGGAGATACTGATTAGTGGAGTTAAATTAATAAGT------TCAAGACA-AAAAAG-----CAACAA---CCGTGAAGTCTTGAGCAGATAATACTTGCAGAA-ATGTGGAATGATAGACATTAGTTAACCACAAGAGTGAGAGGGCCAAGGCCAA-GTAGTGCTCTGAGGAAATGGAGTTCAGAGTCTCAGTGGATGACAAACCATCTAGAAAATGGTTCTTGTTACCCTGCCAATGGAAATCAAACCTTAATCTAATGATCTTTTACTG-AGAAAACTCACAAGCAAATGAAGTAAAGGGTAATTGGA-GT----CAG-ACCACACATTGCTTCCTCAGTTT-CACCTTGCATGACAGCTTGGAAAGCAGATTGGACA------------------TAAAAAAC------------------GGTTATCTCAAGTCTCCATGCTTGAGA---
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55732237 745 -  71252344 ctggatttaaccgatgtcactgtttgctaaatgaatgcaatggagggagagaggacaggggattgaaggta-tttgcaaagaaagaatttcaatgttggctcctggaatctcaccaatgaaagagaaggaagaacaggaggatgagcaacagtg-aaagagtggtggtgtagatgatgaactggagctcttg-ctaagtgtggttgaacaagatagtacctgag----------agaagaaggtaaaaagagctaagctaatgaaggggtgactcatttgaagactaagaattcaggtcat-ggtaatggaatgtgtggctaaggtggagtagggCAgagtggggaaatgtactgaggttttg-ctaggagagactgattagtggagttaaattaataagt------tcaagaga-aaaaaa-----caaca------gtgaattcttgagcagacagtacttgcagaa-atgtgggatgatagacattagttaaccacaagagtgagagggccaaggccaa-gtagtgctctgaggaaatggagttcagagtctcagtggatgccaaaccgtctagaaaacggttcttgttaccctgtcaatggaaattaaaccttaatctaatgatcttttactg-agaaaactcacaagcaaatgaaataaagtgtcattgga-gtcagacag-accacacattgcttccttagttt-caccttgcatgacagcttggaaagcagattggACA------------------TAAAAAAT------------------TGTTATCTCAAGTCTCCATGCCTGAGAGTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       35809 736 -   3089952 ctggatttaactgatgtcactgtttgctaaatgaatgcaatggagggagagaggacagggaattgaaggta-tttgcaaagaaagaatttcaatgttggcacctggaatctcaccaaggaaagagaaggaagaacaggaggatgagcaacagtg-aaagagtggtggtatagttgatgaactggagctcttg-ctaagtgtggttgaacaaggtagtacctgag----------agaagaaggtaaaaagagctaagctaatgaaggggtgactcatttgaagac-aataattcaggacat-ggtaatggaatgtgtggctaaggtgaagtagggcagggtGGGGAAATGTACTGAGGTTTTG-CTAGGAGAGACTGATTAG-------AGACTAATAAGT------TCAAGAGA-AAACAA-----CAACAA---CAGTGAATTCTTGAGCAGATAATACTTGCAgaa-atgtgggatgattgacattagttaactacaagagtgagagggccaacaccaa-gtagtgctctgaggaaatggagttcagagtctcagtggatgccaaaccgtctagaaaatggttcttgttaccctgtcactggaaatcaaaccttaatctaacgatcttttactg-agaaaactcacaagcaaatgaagtaaagggtaattgga-gt----cag-accacacatttcttcctcagttt-caccttgcatgacagcttggaaagcagattggACA------------------TAAAAAAT------------------GGTTATCTCAAGTCTCCATGCTTGAGAGTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13236106 743 -  42888418 ctggatttaactgatgtcactgtttgctaaattaatgcaatggagggagagaggacagggaattgaaggta-tttgcaaagaaagaatttcaatgttggctcctggaatctcaccaatgaaagagaaggaagaacaggaggatgagcaacagtg-aaagagtggtggtatagatgatgaactggagctcttg-ctaagtgtggttgaacaatgtagtacctgag----------agaagaaggtaaaaagagctaagctaatgaaggggtgactcatttgaagac-aagaattcaggacat-ggtaatggaatgtgtggctaaggtgaagtagggcagggtGgggaaatgtactgaggttttg-ctaggagagactgattagtggagttaaattaataagt------tcaagaga-aaaaaa-----caacaa---cagtgaattcttgagcagataatacttgcagaa-atgtgggatgatagacattagttaaccacaagagtgagagggccaaggccaa-gcagtgctctgaggaaatggagttcagagtctcagtggatgccaaaccatctagaaaatggttcttgttaccctgtcaatggaaatcaaaccttaatctaatgatcatttactg-agaaaactcacaagcaaatgaagtaaagggtaattgga-gt----cag-accacacattgcttccttagttt-caccttgcatgacagcgtggaaagcagattggACA------------------TAAAAAAT------------------GATTATCTCAAGTCTCCATGCTTGAGAGTT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3608111 730 +  11683526 ctgagtttgactagagttgctgtttgctaagtgagtgcgatggagagagagagggcagaggattgagggta-tttgcaaataaagaatttcagtgatggctcctggagtcccatccagggaagagaaag-agaagagaaggatggacaacagtg-aaaaagaggtggtgtaggtaatgaattggagctcctgcccacatgtggttggacaaggcagtgcctgag----------tgaaggaggtaaaatcagctaagctaatgaagggatgactcatttgaaggc-aaaaacagaggatgt-ggtaatagaatgtgtggctgaagtagggtggggCAGggta-ggaaatgtattg-gggtttg-cttggagatgtcaattagtggagttaagttaataagg------tccagaga-aaaaaa---------gt---cagtgagttcttcagtagagaatacttatagaa-atatgggatgatagacattatttgaccacaagagtgaggggactaagggcattgtagcactcttaggaaatggaattcaaagtctcagtggaggccaaactatgtataaaatggttcttgttatctaggcaatggaaacccaaccttactttaatggcctttcactg-agaaaactcacaaac---------aaagagtgattgga-ga----ctgagttacacattgcttccttaattt-tactttgagtgacagtttgggaagcagtttggACA------------------CAAAAAAT------------------GGTTATCTCGAGATGGTATGCTTGAGAGCT
i proCoq1.NW_012155062v1   I 12 C 0
s otoGar3.GL873679           3091562 693 +   4132165 caaggtttaaccaga-----catctgcaaagtaagtgcaa-agagggacagagggcaggagattgggggta-tttgccaacaaagaatttcagtaatggtgcctggagtcccattgaggaagaaaaggg-agaaaggtaggctgg-caacagtg-aaagagaaggggtgcaag-aatgaattggagcccctgcccacatgtggttgaacaaggcagtacctgag----------taaaggagataaaatgagctaagctaatgaagggatgACGCATCTGAAGGC-AAGAACTCAGGGTGT-TGTAGTGGAATGTGTGACTGAGGTGGGGTGGGGCAGGGTA---------------GGTTTG-CTTGGAGAGATTGATTAGTGGAGTTAA------------------CAGACA-AATA------------T---CAGTGAGTTCTTCAGCAGAGAATACTTGTAGAA-ATGTAGGATGACAGgcattatttggccgtaagaatgagagagccaa-gatattgtagcactctgagaaaatggaattcaaagtttcagtgggagccatgccatgtagaaaatggttcttcttatcttggcaatggagaccaaaccttgtctgaatggccttttactg-agaaaactcacaaacaaat-----aaagaataattgga-ga----ctgagtcccacagtatttctctagtttccaccttgagtgacagtttggaaaacagtttggACA------------------CAAAC-----------------------TTATCTCAAGACAGTATGTTTGAGAACT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14935976 726 +  74389097 ctgggtttaaccagagtcagtgtttgctaagtgggtgcaat------agagaggccagggaactgagggta-tttgcgaaagaagtatttcaatgaaggcatctggaatcccatccagggaagacaagggagaacaaaagg-ttatcagcagag-aaaaagtgatgatgtagttagtaggctgaagatcttgcctaagaatgcttgcgcaag--agtacctgag----------taaaagaggt-gCATGAGGTAAGCTGAT----AGGCGGTTTCTGTGAAGAC-AGAAAATTAGGGTG--GGTAATGAAATGTGTAGTTGAGGTGA------GTAGGGTGGGGAAACATATTAAGG-TTGG-CTAGGAAAGGTTGACTGGTAGAGTTAAGTAAATAAGTATAGGGTTAAAAAA-AAAAAA-----AAACAA-TCCTGGAAATTCTTGAACTGAGAATACTCGTAGAACAtgtgggatgatggacattattcaaccccaagagtgagggagccaaggatatattagtaatctgaggaaatggagttcaaggtctctggggaggccaagccatgtataaaatggttcttgttatcttggcactggaaaccaaaccttattttaatgaccttttactg-aggaaactcacaaacaaattaagcagaaagtcaccaaaggc----cgg-gccacacactgctttcctagctt-cactttgggtggcagcaaagaatgatatcaggaag------------------ggaaaga-------------------------ctctgaattatatatttaagggtt
i canFam3.chr11            C 0 I 57
s dasNov3.JH567306           2655362 774 +   3667625 ----aaatatgtgccttctgtgtttgtcaag-gagggcaatgcagggaaagaggcaaggagattgagagta-tttgcaaaagaagtattataatgatggaccctggaatcccatccagataagggacttgaaaacaggagggtgatgaactgtgaaaaaagtagtgctgtagttagagacttggagctcttgcccaagaatagtagcttaggatattacttgagtaaaaaaaaaaaaaaaaagtaaaattaactaaggtaatggagggaaagttcatttgaagcc-aaaaatttaggatgtgggcaatgaaatgtgtgactgaggtagaat------ggGTGGGGAAATATATTGAGGTTAT--CTAGGAAAGATTGGCTAGTGGAGTT---------AGT------ACTGGGGG-AAAAAAGCAACAAACAAATCCAGTGAATTCTTAAGCAGAGAATACATGCAGAA-ATGTGGGAGGAAGGGCACTGTTTAAC---AAGAGGAAGGGGGCCAGATATGTCAT-TTGTTCTGAGAAAATGGAGTTCAAAGTCTCAGTGAAGGTCAAACTATGCCTAAAAGGATTC---TCATCTCAGCAATGGAAACCAAACCTTATTGCAATGACCTTTTACCGAAAAAAACTCACATGTAATCGAAATGAAGAGTAGCAAGA-GG----CTGGGCCACATGTTGCTTTCCTAGCTT-TAC-TTGGGTGACAGCTTTGAAAGCAGTTTGGGCAAAATTGATATCAGAATGGGAAAGAATCTGAATGACATATTCAAGGGTTATCTCCAGCCTGCATTCCTGAAAGTC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=225903.000000
s hg38.chr5_KI270796v1_alt    115855 18 +    172708 -CTGG-----GGGCTGCTGACCAG
s panTro5.chr5             125219584 18 + 181907262 -CTGG-----GGGCTGCTGACCAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126556273 18 + 183735486 -CTGG-----GGGCTGCTGACCAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1748028 18 +   8933513 -CTGG-----GGGCTGCTGACCAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139882392 18 + 163208435 -CTGG-----GGGTTGCTGACTAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122867023 18 + 180051392 -CTGG-----GGGCTGCTGACCAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124290641 18 + 181584905 -CTGG-----GGGCTGCTGACCAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16288995 18 +  18395747 -CTGG-----GGGCTGCTGACCAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5301765 23 +  26952557 -CTGGGGGCTGGGCTGCTGACCAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28402236 18 +  82825804 -CTGG-----GGGCTGCTGACCAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4072170 23 -   4237731 -CTGGGGGCTGGGCTGCTGACCAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      340750 18 -   1175262 -CTGG-----GGGCTGCTGACCAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123689044 16 - 204313951 ---TG-----GAGCTGCTGACCAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55732982 18 -  71252344 -CTGG-----GGGCTGCTGACCAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       36545 18 -   3089952 -CTGG-----GGGCTGCTGACCAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13236849 18 -  42888418 -CTGG-----GGGCTGCTGGCCAG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3608841 18 +  11683526 -CTGG-----GGGCTGCTGACCAG
i proCoq1.NW_012155062v1   C 0 I 193
s otoGar3.GL873679           3092255 18 +   4132165 -CTGG-----ACACTGTTAACCAG
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2656136 19 +   3667625 CTAGG-----GAGCTGGTGCCCAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14936702 57 +  74389097 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=208996.000000
s hg38.chr5_KI270796v1_alt    115873 32 +    172708 AGGTTTTCCt---------------------tattattatt--attttggatttt
s panTro5.chr5             125219602 32 + 181907262 AGGTTTTCCt---------------------tattattatt--attttggatttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126556291 32 + 183735486 AGGTTTTCCt---------------------tattattatt--attttggatttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1748046 32 +   8933513 AGGTTTTCCt---------------------tattattatt--attttggatttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139882410 32 + 163208435 AGGTTTTCCt---------------------tattattatt--attttggacttt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122867041 31 + 180051392 AGGTTTTCTt---------------------tattattatt--attttgga-ttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124290659 31 + 181584905 AGGTTTTCTt---------------------tattattatt--attttgga-ttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16289013 32 +  18395747 AGGTTTTCTt---------------------tattattatt--attttggatttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5301788 32 +  26952557 AGGTTTTCTt---------------------tattattatt--attttggatttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28402254 32 +  82825804 AGGTTTTCTt---------------------tattattatt--attttggatttt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4072193 32 -   4237731 AGGTTTTCTT---------------------TATTATTATT--ATTTTGGATTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      340768 32 -   1175262 AGGTTTTCTt---------------------tattattatt--attttggatttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123689060 25 - 204313951 AGGTTTTCCt---------------------tattattatt--attat-------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55733000 34 -  71252344 AGGTTTTCCt------------tactattactattattatt--attat-------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       36563 25 -   3089952 AGGTTTTCCt---------------------tattattatt--attat-------
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13236867 46 -  42888418 AGGTTTTCCttattattattattattattattattattatt--attat-------
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3092273 34 +   4132165 AGctttctct---------------------ctttcttcttccatttcctccctc
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2656155 13 +   3667625 ------------------------------------------AGCTTTGAATTTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14936702 57 +  74389097 I
e proCoq1.NW_012155062v1     3608859 193 +  11683526 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=-41384.000000
s hg38.chr5_KI270796v1_alt    115905 13 +    172708 ttttttttttt-------------------------------tt
s panTro5.chr5             125219634 11 + 181907262 ttttttttttt---------------------------------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126556323 22 + 183735486 ttttttttttttt-----------------ttt-----tttttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1748078  8 +   8933513 tttttttt------------------------------------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139882442  8 + 163208435 tttttttt------------------------------------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122867072 35 + 180051392 ttttcttgtttattttttatttatta----tta-----tttttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124290690 35 + 181584905 ttttcttgtttattttttatttatta----tta-----tttttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16289045 35 +  18395747 ttttcttgtttattttttatttatta----tta-----tttttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5301820 40 +  26952557 ttttcttgtttatttattatttatta----ttattatttttttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28402286 35 +  82825804 ttttcttgtttattttttatttatta----tta-----tttttt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4072225 39 -   4237731 TTTTCTTGTTTAttttttatttattattttttt-----tttttt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      340800 35 -   1175262 ttttcttgtttattt-ttatttatta---cttt-----tttttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123689085  6 - 204313951 --------------------------------------tatttt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55733034  6 -  71252344 --------------------------------------tatttt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       36588  6 -   3089952 --------------------------------------tatttt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13236913  6 -  42888418 --------------------------------------tatttt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3092307 13 +   4132165 cctcctttccttt-------------------------------
i otoGar3.GL873679         C 0 I 101
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14936702 57 +  74389097 I
e proCoq1.NW_012155062v1     3608859 193 +  11683526 I
e dasNov3.JH567306           2656168  0 +   3667625 C
e mm10.chr18                55533900 1918 +  90702639 I

a score=2581023.000000
s hg38.chr5_KI270796v1_alt    115918 287 +    172708 gagacgg-aat----ctctgttgcctgggctggagtgcagttgtgcgacctcagctcactgcaacctctgcctcctgggtgcaagcagttctcctgtctcagcctccagagtaactgggactaaaagtgcatgccaccatgcccagctaa-tttttgtatttttaatagaggt-ggggtttcaccatattggtcagactggtcttgaactcctgacctcaggtgatccacctgcctcagcatcccaaagtgctgggattacaggcgtgagacaccgtgcctggccattattatt
s panTro5.chr5             125219645 246 + 181907262 gagacgg-agt----ctctgttgcctgggctggagtgcagttgtgcgacctcagctcactgcaacttctgcctcctgggtgcaagcagttctcctgtctcagcctccagagtaactgggactaaaagtgcatgccaccatgcccagctaa-tttttgtatttttaatagaggt-ggggtttcaccatattggtcagactggtcttga-------------------------gccacag----------------gctcacaggcgtgagccaccgtgcctggccattattatc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126556345 246 + 183735486 gagacgg-agt----ctctgttgcctgggctggagtgcagttgtgcgacctcagctcactgcaacttctgcctcctgggtgcaagcagttctcctgtctcagcctccagagtaactgggactaaaagtgcatgccaccatgcccagctaa-tttttgtatttttaatagaggt-ggggtttcaccatattggtcagactggtcttga-------------------------gccacag----------------gctcacaggcgtgagccaccgtgcctggccattattatt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1748086 287 +   8933513 gagacgg-agt----ctctgttgcctgggctggagtgcagttgtgcgacctcagctcactgcaacctctgcctcctgggtgcaagcagttctcctgtctcagcctccagagtaactgggactaaaagtgcatgccaccatgcccagctaa-tttttgtatttttaatagaggt-ggggtttcaccatattggtcagactggtcttgaactcctgacctcaggtgatccacctgcctcagcatctcaaagtgctgggattacaggcgtgagccaccgtgcctggccattattatt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139882450 292 + 163208435 gaggtgg-agtctcactctgttgcccaggctggagtgcagttgtgtgacctcggctcactgcaacctctgcctcctgggtgcaagcggttctcctgtttcagcctccagagtaactgggactgcaagtgcatgccaccatgcccagctaa-tttttgtatttttagtagaggtaggggtttcaccatattggtcaaactggtcttgaactcctgacctcaggtgatccgcctgcctcagcatcccaaagtgctgggattacaggcatgagccaccgtgcctggccattattatt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122867107 285 + 180051392 gagatgt-actctcactctgttgcccaggttggagtgtagttgtgtgacctcagctcactgcaacctctgcctcctgggttcaagcagttctcctgtctcagcctccagagtaactgggactacaggtgcatgccaccatgcccagctaa-tttttgtatttttagtagaggt-ggggtttcaccatattggtcagactggtctcgaactcctgacctcaggtgattcacccgcctcaacctcccaaagtgctgggattacaggcatgagccaccgtgtccggc------TATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124290725 285 + 181584905 gagatgt-actctcactctattgcccaggttggagtgtagttgtgtgacctcggctcactgcaacctctgcctcctgggttcaagcagttctcctgtctcagcctccagagtaactgggactacaggtgcatgccaccatgcccagctaa-tttttgtatttttagtagacat-ggggtttcaccatattggtcagactggtctcgaactcctgacctcaggtgattcacccgcctcagcctcccaaagtgctgggattacaggcatgagccaccgtgtccggc------TATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16289080 285 +  18395747 gagatgt-actctcactctgttgcccaggttggagtgtagttgtgtgacctcagctcactgcaacctctgcctcctgggttcaagcagttctcctgtctcagcctccagagtaactgggactacaggtgcatgccaccatgcccagctaa-tttttgtatttttagtagaggt-ggggtttcaccatattggtcagactggtctcgaactcctgacctcaggtgattcacccgcctcagcctcccaaagtgctgggattacaggcatgagccactgtgtccggc------TATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5301860 285 +  26952557 gagacgg-actctcactttgttgcccaggttggagtgcagttatgcgacctcggctcactgcaacctctgcctcctgggttcaagcagttctcctgtctcagcctccagagtaactgggactacaggtgcatgccaccatgcccagctaa-tttttgtatttttagtagaggt-ggggtttcaccatattggtcagactggtctcgaactcctgacctcaggtgattcacccacctcagcctcccaaagtgctgggattacaggcatgagccaccgtgtccggc------TATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28402321 285 +  82825804 gagatgg-actctcactctgttgcccaggttggagtgcagttgtgcgacctcggctcactgcaacctctgcctcctgggttcaagcagttctcctgtctcagcctccagagtaactgggactacaggtgcatgccaccatgcccagctaa-tttttgtatttttagtagaggt-agggtttcaccatattggtcagactggtctcgaactcctgacctcaggtgattcacccgcctcagcctcccaaagtgctgggattagaggcatgagccaccatgtccggc------TATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4072264 285 -   4237731 gagacgg-actctcactctgttgcccaggttggagtgtagttgtgcgacctcggctcactgcaacctctgcctcctgggttcaagcagttctcctgtctcagcctccagagttactgggactacaggtgcatgccaccatgcccagctaa-tttttgtatttttagtagaggt-ggggtttcaccatattggtcagactggtctcaaactcctgacctcaggtgattcacccgcctcagcctcccaaagtgctgggattacaggcatgagccaccgtgtccggc------TATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      340835 285 -   1175262 gagacgg-actctcactctgttgcccaggttggagtgcagttgtgcgacctcggctcactgcaacctctgcctcctgggttcaagcaattctcctgtctcagcctgcagagtaactgggactgcaggtgcatgccaccatgcccagctaa-tttttgtatttttagtagaggt-gggatgtcaccatattggtcagactggtctcgaactcctgacctcaggtgattcacccgcctcagcctcccaaagtgctgggattacaggtgtgagccaccgtgtccggc------TATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123689091 292 - 204313951 gagacggaagtctcgctctgtcgcccaggatggagtgcagtggcgtgaacttggctcactgcaaccccagcctcccgggttcaagcagttctcctgtctcagcctccagagtagctgggtctataggtgcatgccaccatgcctggctag-tttttgtatttttagtagagac-agggtttcaccatattggtcaggctgatctcgaactcctgacctcaggcaatccacccaccttggcctcccaaagtgcttggattacaggcgtgagccactgtgactggccATTATTATT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55733040 292 -  71252344 gagatggaagtctcactctgtcactcaggctggagtgcagtggcgtgaccttggctcactgcaacctctaccttctgggttcaagtagttctcccatctcagcctccagagtagctgggcctatgggtacatgcaaccatgcctggctag-tttttgtatttttagtagagat-agggtttcaccatattggtcaggctgatctcgaactcctgacctcaggaaatccacctgccttggcctcccaaagtgcttggattacaggcgtgagtcaccgtgcctggccATTATTATT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       36594 293 -   3089952 gagactgaagtctcactctgtcgcccaggctggagtgcagtggtgtgaccttggctcactgcaacccctgcctcccgggttcaagcagttctcctgtctcagcctccagagtagctgggtctatagctgcatgctaccatgcccggctagttttttgtattttcagtagagat-agggtttcaccatattggtcaggctgatcttgaactcctgacctcaggagatccacctacctcggcctcccaaagtgcttggattacaggcgtgagccactgtgactggccattattatt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13236919 292 -  42888418 gagatggaagtctcgctctgtcgctcaggctggagtgcagtggtgtgaccttggctcactgcaacctctacctcccaggttcaagcagttctcctgtctcagcctccagagtagctaggtctataggtgcatgccactatgcccggctag-tttttgtatttttagtagagat-agggtttcaccatattggtcaggctgatctcgaactcctgacctcaggaaatccacctgccttggccttccaaagtgcttggattacaggcgtgagccaccgtgcctggccATTATTATT
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e canFam3.chr11             14936702  57 +  74389097 I
e proCoq1.NW_012155062v1     3608859 193 +  11683526 I
e otoGar3.GL873679           3092320 101 +   4132165 I
e dasNov3.JH567306           2656168   0 +   3667625 C
e mm10.chr18                55533900 1918 +  90702639 I

a score=317516.000000
s hg38.chr5_KI270796v1_alt    116205 27 +    172708 attTTGAGTAAGCCAGTGCCATTGCAT
s panTro5.chr5             125219891 27 + 181907262 attTTGAGTAAGCCAGTGCCATTGCAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126556591 27 + 183735486 attTTGAGTAAGCCAGTGCCATTGCAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1748373 27 +   8933513 attTCGAGTAAGCCAGTGCCATTGCAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139882742 27 + 163208435 aCTTTGAGTAAGCCAGTGCCATTGCAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122867392 27 + 180051392 ATTTTGAGTAAGCCAGTGTCATTGCAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124291010 27 + 181584905 ATTTTGAGTAAGCCAGTGTCATTGCAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16289365 27 +  18395747 ATTTTGAGTAAGCCAGTGTCATTGCAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5302145 27 +  26952557 ATTTTGAGTAAGCCAGTGTCATTGCAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28402606 27 +  82825804 ATTTTGAGTAAGCCAGTGTCATTGCAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4072549 27 -   4237731 ATTTTGAGTAAACCAGTGTCATTGCAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      341120 27 -   1175262 ATTTTGAGTAAGCCAGTGTCATTGCAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123689383 26 - 204313951 ATTTTGAGTAAGCCAGTGCCACTGCA-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55733332 27 -  71252344 ATTTTGAGTAAGCTGGTGCCATTGCAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       36887 27 -   3089952 attTTGAGTAAGCCAGTGCCATTGCAC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13237211 27 -  42888418 ATTTTGAGTAAGCCGGTGCCATTGCAC
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14936759 27 +  74389097 atttggagtaagtcagtgCTGCTTCTA
i canFam3.chr11            I 57 C 0
s dasNov3.JH567306           2656168 27 +   3667625 ATTTTGAGTAAGTCAGGGTCATTCTAC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60569760 3116 + 108143057 I
e proCoq1.NW_012155062v1     3608859 193 +  11683526 I
e otoGar3.GL873679           3092320 101 +   4132165 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=84240.000000
s hg38.chr5_KI270796v1_alt    116232 6 +    172708 TCAGCA
s panTro5.chr5             125219918 6 + 181907262 TCAGCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126556618 6 + 183735486 TCAGCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1748400 6 +   8933513 TCAGCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139882769 6 + 163208435 TCAGCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122867419 6 + 180051392 TCAGTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124291037 6 + 181584905 TCAGTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16289392 6 +  18395747 TCAGTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5302172 6 +  26952557 TCAGTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28402633 6 +  82825804 TCAGTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4072576 6 -   4237731 TCAGTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      341147 6 -   1175262 TCAGTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123689409 6 - 204313951 TCAGCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55733359 6 -  71252344 TCAGCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       36914 6 -   3089952 TAAGCA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13237238 6 -  42888418 TCAGCA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60572876 6 + 108143057 TCAGCA
i micMur3.chr12            I 3116 C 0
s proCoq1.NW_012155062v1     3609052 6 +  11683526 tCAGCA
i proCoq1.NW_012155062v1   I 193 C 0
s canFam3.chr11             14936786 6 +  74389097 TCAGCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2656195 6 +   3667625 CAAACA
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3092320 101 +   4132165 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=177892.000000
s hg38.chr5_KI270796v1_alt    116238 11 +    172708 GCAGCCCTGAG
s panTro5.chr5             125219924 11 + 181907262 GCAGCCCTGAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126556624 11 + 183735486 GCAGCCCTGAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1748406 11 +   8933513 GCAGCCCTGAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139882775 11 + 163208435 GCAGCCCTGAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122867425 11 + 180051392 GCAGCCCTGAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124291043 11 + 181584905 GGAGCCCTGAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16289398 11 +  18395747 GCAGCCCTGAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5302178 11 +  26952557 GCAGCCCTGAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28402639 11 +  82825804 GTAGCCCTGAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4072582 11 -   4237731 GCAGCCCTGAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      341153 11 -   1175262 GCAGCCCTGAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123689415 11 - 204313951 GCAGCCCTGAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55733365 11 -  71252344 GCAGCCCTGAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       36920 11 -   3089952 GCAGCCCTGAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13237244 11 -  42888418 GCAGCCCTGAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60572882 11 + 108143057 GCAGGCCTGAG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3609058 11 +  11683526 GCAGGCCTGAG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3092421 11 +   4132165 tctgccctTCA
i otoGar3.GL873679         I 101 C 0
s canFam3.chr11             14936792 11 +  74389097 GCAGCCTTAAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2656201 11 +   3667625 GCAGCTTTAAG
i dasNov3.JH567306         C 0 I 11
e mm10.chr18                55533900 1918 +  90702639 I

a score=142084.000000
s hg38.chr5_KI270796v1_alt    116249 12 +    172708 CAGAGCATAAAT
s panTro5.chr5             125219935 12 + 181907262 CAGAGCATAAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126556635 12 + 183735486 CAGAGCATAAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1748417 12 +   8933513 CAGAGCATAAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139882786 12 + 163208435 CATAGCATAAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122867436 12 + 180051392 CATAGCATAAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124291054 12 + 181584905 CATAGCATAAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16289409 12 +  18395747 CATAGCATAAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5302189 12 +  26952557 CATAGCATAAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28402650 12 +  82825804 CATAGCATAAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4072593 12 -   4237731 CATAGCATAAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      341164 12 -   1175262 CATAGCATAAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123689426 12 - 204313951 CATAGCCTAAAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55733376 12 -  71252344 CATAGTGTAAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       36931 12 -   3089952 CATAGCCTAAAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13237255 12 -  42888418 CATAGTGTAAAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60572893 12 + 108143057 CAGAGGGTAAAC
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3609069 12 +  11683526 CAGAGGgtaaat
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3092432 12 +   4132165 CAGAGGATGAAT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14936803 12 +  74389097 CCCAGGCTAAAT
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2656212 11 +   3667625 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=6559691.000000
s hg38.chr5_KI270796v1_alt    116261 504 +    172708 TTGTTGAGGTTTGTAA-AATCTAGCCAGAAGCTAATTAAAATGCTGCCTCTCCTAGCCTTTACTATTTCCCAACAAGTTTGGGCTCTCCTAGA-----------GGTGGGAGTGAACACAGTGGTCAACAATATAATTcagcacttgttta-agcccatagtagg-----------cacttaaaatgttgttggataattaagtCAAT-AGTAAGTGTGGATTGA-CAAAGCA--GATTTT-CCTTCT----------CA----CTGGGGACATATCAGAAGAGTCTAGGGATAAGAATAC---------------------------ATACAATTTGAAAAA-ACACTTTGAATCT--CATAATATAATTTTACATTT-AGAAAAT-AGAAATGTGTCCATTT---TTATTATAAAATA---ATGTGATGC---ACAAAGTACCAAaataatataacaaataaccatgtatat--attgcccacttaagaattaaggaaaacagacataattgaaacactctg-agcttgaatccaatcacttctttccaagaagtagtagttttctcagtcttacttattatcctccaa
s panTro5.chr5             125219947 504 + 181907262 TTGTTGAGGTTTGTAA-AATCTAGCCAGAAGCTAATTAAAATGCTGCCTCTCCTAGCCTTTACTATTTCCCAACAAGTTTGGGCCCTCCTAGA-----------GGTGGGAGTGAACACAGTGGTCAACAACATAATTcagcacttgttta-agcccatagtagg-----------cacttaaaatgttgttggataattaagtCAAT-AGTAAGTGTGGATTGA-CAAAGCA--GATTTT-CCTTCT----------CA----CTGGGGACATATCAGAAGAGTGTAGGGATAAAAATAC---------------------------ATATAATTTGAAAAA-ACACTTTGAATCT--CATAATATAATTTTACATTT-AGAAAAT-AGAAATGTGTCTATTT---TTATTATAAAATA---ATGTGATGC---ACAAAGTACCAAAATAATATAACAAATAACCATGTATAT--ATTGCCCGCTTAAGAATTAAGGAAAacagacataattgaaacactctg-agcttgaatccattcacttctttccaagaagtagtagttttctcagtcttacttattatcctccaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126556647 504 + 183735486 TTGTTGAGGTTTGTAA-AATCTAGCCAGAAGCTAATTAAAATGCTGCCTCTCCTAGCCTTTACTATTTCCCAACAAGTTTGGGCCCTCCTAGA-----------GGTGGGAGTGAACACAGTGGTCAACAACATAATTcagcacttgttta-agcccatagtagg-----------cacttaaaatgttgttggataattaagtCAAT-AGTAAGTGTGGATTGA-CAAAGCA--GATTTT-CCTTCT----------CA----CTGGGGACATATCAGAAGAGTGTAGGGATAAAAATAC---------------------------ATATAATTTGAAAAA-ACACTTTGAATCT--CATAATATAATTTTACATTT-AGAAAAT-AGAAATGTGTCTATTT---TTATTATAAAATA---ATGTGATGC---ACAAAGTACCAAaataatataacaaataaccatgtatat--attgcccgcttaagaattaaggaaaacagacataattgaaacactctg-agcttgaatccaatcacttctttccaagaagtagtagttttctcagtcttacttattatcctccaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1748429 504 +   8933513 TTGTTGAGGTTTGTAA-AATCTAGCCAGAAGCTAATTAAAATGCTGCCTCTCCTAGCCTTTACTATTTCCCAACAAGTTTGGGCTCTCCTAGA-----------GGTGGGAGTGAACACAGTGGTCAACAACATAATTCAGCACTTGTTTA-AGCCCATAGTAGG-----------CACTTAAACTGCTGTTGGATAATTAAGTCAAT-AGTAAGTGTGGATTGA-CAAAGCA--GATTTT-CCTTCT----------CA----CTGGGGACGTATCAGAAGAGTCTAGGGATAAAAATAC---------------------------ATATAATTTGAAAAA-ACACTTTGAATCT--CATAATATAATTTTACATTT-AGAAAAT-AGAAATTTGTCTATTT---TTATTATAAAATA---ATGTGATGC---AAAAAGTACCAAaataatataacaaataaccatgtatat--attgcccacttaagaattaaggaaaacagacataattgaaacactctg-agcttgaatccaatcacttctttccaagaagtagtagttttctcagtcttatttattatcctccaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139882798 501 + 163208435 TTGTTGAGGTTTGTAA-AATCTAGCCAGAAGCTAATTAAAATGCTGCCTCTCCTAGCCTTTACTATTTCCCAACAAGTTTGGGCTCTCCTAGA-----------GGTGGGAGTGAACACAGTGGTCAACAACATAATTCAGCACTTGTTTA-AGCCCATAGTAGG-----------CACTTAAAATGCTGTTGGATAATTAAGTCAAT-AGTAAGTGTGGATTGA-CAAAGCA--GATTTT-CATTCT----------CA----CTGGGGACATATCAGAAGAGTCTAGGGATAAAAATAC---------------------------ATATAATTTGAAAAA-ACACTTTGAATCT--CATAATATAATTTTACATTT-AGAAAAT-AGAAATGTGTCTATTT---TTATTATAAAATA---AAGTGATGC---AAAAAGTACCAAAATAATGTAACAAATAACCATGTATAT--ATTGCCCACTTAAGAATTAAGGAAAACAGACATAATTGAAACACTCTG-AGCTTGAATCCAATCACTTCTTTCCAAGAAGTAGTAGTAGT---AGTCTtatttattatcctccaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122867448 494 + 180051392 TTGTTGAGGTTTGTAA-AATCTAGCCAGAAGCTAATTAAAATGCTGCCTCTCCTAGCCTTCACTATTTCTCAACAAGTTTGGGCTCTCCTAGA-----------GGTGGGAGTGAACACAGTGGTCAACAACATAATTCAGCACTTGTTTA-AGCCCATAGTTGG-----------CACTTAAAATGCTGTTGGATAATTAAGTCAAT-AGTAAGTGTGGATTGA-CAAAGCG--GATTTT-CATTCT----------CA----CTGGGGACATATCATTAGAGTCTAGGGATAAAAATAT---------------------------GTATAATTTGAAAAA-ACA--TTGAATCT--C-----ATAATTTTACATTT-AAAAAAT-AGAAGTATATCTATTT---TTATTATAAAATA---AACTGATGC---AAAAAGTACAAAaataatataacaaataaccatgtatat--attgcccacttaagaattaaggaaaacagacataattgaaaccctctg-tgcatgaatccaatcacttctttcaaaga---ggtagttttctcagtcttatttattatcctccaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124291066 494 + 181584905 TTGTTGAGGTTTGTAA-AATCTAGCCAGAAGCTAATTAAAATGCTGCCTCTCCTAGCCTTCACTATTTCTCAACAAGTTTGGGCTCTCCTAGA-----------GGTGGGAGTGAACACAGTGGTCAACAACATAATTCAGCACTTGTTTA-AGCCCATAGTTGG-----------CACTTAAAATGCTGTTGGATAATTAAGTCAAT-AGTAAGTGTGGATTGA-CAAAGCG--GATTTT-CATTCT----------CA----CTGGGGACATATCATTAGAGTCTAGGGATAAAAATAT---------------------------GTATAATTTGAAAAA-ACA--TTGAATCT--C-----ATAATTTTACATTT-AAAAAAT-AGAAGTATATCTATTT---TTATTATAAAATA---AACTGATGC---AAAAAGTACAAAAATAATATAACAAATAACCATGTATAT--ATTGCCCACTTAAGAATTAAGGAAAacagacataattgaaaccctctg-tgcatgaatccaatcacttctttcaaaga---ggtagttttctcagtcttatttattatcctccaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16289421 494 +  18395747 TTGTTGAGGTTTGTAA-AATCTAGCCAGAAGCTAATTAAAATGCTGCCTCTCCTAGCCTTTACTATTTCTCAACAAGTTTGGGCTCTCCTAGA-----------GGTGGGAGTGAACACAGTGGTCAACAACATAATTCAGCACTTGTTTA-AGCCCATAGTTGG-----------CACTTAAAATGCTGTTGGATAATTAAGTCAAT-AGTAAGTGTGGATTGA-CAAAGCG--GATTTT-CATTCT----------CA----CTGGGGACATATCATTAGAGTCTAGGGATAAAAATAT---------------------------GTATAATTTGAAAAA-ACA--TTGAATCT--C-----ATAATTTTACATTT-AAAAAAT-AGAAGTATATCTATTT---TTATTATAAAATA---AACTGATGC---AAAAAGTACAAAAATAATATAACAAATAACCATGTATAT--ATTGCCCACTTAAGAATTAAGGAAAACAGACATAATTGAAACCCTCTG-TGCATGAATCCAAtcacttctttcaaaga---ggtagttttctcagtcttatttattatcctccaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5302201 490 +  26952557 TTGTTGAGGTTTGTAA-AATCTAGCCAGAAGCTAAT----ATGCTGCCTCTCCTAGCCTTTGCTATTTCTCAACAAGTTTGGGCTCTCCTAGA-----------GGTGGAAGTGAACACAGTGGTCAACAACATAATTCAGCACTTGTTTA-AGCCCATAGTTGC-----------CACTTAAAATGCTGTTGGATAATTAAGTCAAT-AGTAAGTGTGGATTGA-CAAAGCG--GATTTT-CATTCT----------CA----GTGGGGACATATCATTAGAGTCTAGGGATAAAAATAT---------------------------GTATAATTTGAAAAA-AAA--TTGAATCT--C-----ATAATTTTACATTT-AAAAAAC-AGAAATATATCTATTT---TTATTATAAAATA---AACTGATGC---AAAAAGTACAAAaataatataacaaataaccatgtatat--attgcccacttaagaattaaggaaaacagacataattgaaaccctctg-tgcatgaatccaatcacttctttcaaaga---ggtagttttctcagtcttatttattatcctccaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28402662 495 +  82825804 TTGTTGAGGTTTGTAA-AATCTAGCCAGAAGCTAATTAAAATGCTGCCTCTCCTAGCCTTTACTATTTCTCAACAAGTTTGGGCTCTCCTAGA-----------GGTGGGAGTGAACACAGTGGTCAACAACATAATTCAGCACTTGTTTA-AGCCCATAGTTGG-----------CACTTAAAATGCTGTTGGATAATTAAGTCAAT-AGTAAGTGTGGATTGA-CAAAGCG--GATTTT-CATTCT----------CA----CTGGGGACATATCATTAGAGTCTAGGGATAAAAATAT---------------------------GTATAATTTGAAAAA-ACA--TTGAATCT--CATAATATAATTTTACATTT-AAAAAAC-AGAAATATATCTATTT---TTATGATAAAATA---AACTGATGC---AAAAAGTACAAAAATAATATAAC----AATCATGTATAT--ATTGCCCACTTAAGAATTAAGGAAAacaggcataattgaaaccctctg-tgcatgaatccaatcacttctttcaaaga---ggtagttttctcagtcttatttattatcctccaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4072605 495 -   4237731 TTGTTGAGGTTTGTAA-AATCTAGCCAGAAGCTAATTAAAATGCTGCCTCTCCTAGCCTTTACTATTTCTCAACAAGTTTGGGCTCTCCTAGA-----------GGTGAGAGTGAACACAGTGGTCAACAACATAATTCAGCACTTGTTTA-AGCCCATAGTTGG-----------CACTTAAAATGCTGTTGGATAATTAAGTCAAT-AGTAAGTGTGGATTGA-CAAAGCG--GATTTT-CATTCT----------CA----GTGGTGACATATCATTAGAGTCTAGGGATAAAAATAT---------------------------GTATAATTTGAAAAA-ACA--TTGAATCT--C-----ATAATTTTACATTTAAAAAAAC-AGAAATATATCTATTT---TTATTATAAAATA---AACTGATGC---AAAAAGTACAAAaataatataacaaataaccatgtatat--attgcccacttaagaattaaggaaaacagacataattgaaaccctctg-tgcatgaatccaatcacttctttcaaaga---ggtagttttctcagtcttatttattatcctccaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      341176 499 -   1175262 TTGTTGAGGTTTGTAA-AATCTAGCCAGAAGCTAATTAAAATGCTGCCTCTCCTAGCCTGTACTATTTCCCAACAAGTTTGGGCTCTCCTAGA-----------GGTGGGAGTGAACACAGTGGTCAACAACATAATTCAGCACTTGTTTA-AGTCCATAGTAGG-----------CACTTAAAATGCTGTTGGATAATTAAGTCAAT-AGTAAGTGTGGAATGA-CAAAGCG--GATTTT-CATTCA----------CA----CTAGGGACATATCATTAGAGTCTAGGGATAAAAATAT---------------------------GTATAATTTGAAAAA-ACA--TTGAATCT--CATAATAGAATTTTACATTT-AGAAAAC-AGAAATATGTCTATTT---TTATTATGAAATA---AAGTGATGC---AAAAAGTACAAAaataatataacaaataaccatgtatat--attgcccacttaagaattaaggaaaacagacataattgaaaccctctg-tgcctgaatccagtcacttctttcaaaga---ggtagttttctcagtcttatttattatcctccaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123689438 502 - 204313951 TTGTTGATGTTTGTAACAATCTAGCCAGAAGCTAATTAAAATGCTGCCTCTCCTAGCCTTTATTATTTCCCAGCAAGTTTGGGCTCTTCTACA-----------GGTGAGAGTGAACACGGTGGTCAACAACGTAATTCAGCACTTGTTTG-AGTCCATAGTAGG-----------TGCTTAAAATGCTGTTGGATAATGAAGTCAAT-ATTAAGTGTGGATTGA-CAAAGCG--GATTCT-CATTCT----------CA----TTGGGGACATATCACAAGAGCCTAGGGATAAAAATAT---------------------------GTATAATTTCAAAAA-ATACATTGAATGTTAT-----ATAATTTTACATTT-AGAGAAT-AGAAACATATC--ttt---ttattataaaata---aaattGTGCAA-AAAAAGCACAAGAATAATATAACAAGTTACCATGTATAT--ATTACCCACTTAAGAATTAGGAAGAacagacataattgaaaccctctg-cacgtgaacccattcacttctttccaacaagtagtagttttctctgtcttacttattatcctccaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55733388 497 -  71252344 TTGTTGATGTTTGTAACAATCTAGCCAGAAGCTAATTAAAATGCTGCCTCTCCTAGCCTTTACTATTTCTCAGCAAGTTTGGGCTCTTCTACA-----------GGTGGGAGTGAACACAGTGGTCAACAACATAATTCAGTATTTGTTTA-AGTCCACAGTAGG-----------TGCTTAAAATGCTGTTGGATAATGAAGTCAAT-ATTAAGTGTGGATTGC-GAAAGCG--GATTCT-CATTCT----------CA----TTGGGGACATAGCAGAAGAGTCTAGGGATGAAAAAAT---------------------------GTGTAATTTCAAAAA-ACACATTGAATCt--t-----ataattttatattt-agagaat-agaaacata----ttt---ttattataaaata---aaGTTATGC-A-AAAAAGTACAAGAATAATATAACAAATAACCATGTATAT--ATTACCTACTTAAGAATTAGGAAGAacagacataattgaaaccctctg-cacatgaacccaatcacttcttttcaagaagtagtagttttctcagtcttatttattatcctccaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       36943 499 -   3089952 TTGTTGATGTTGGTAACAATTTAGCCAGAATCTAATTAAAATGCTGCCTCTCCTAGACTTTACCATTTCCCAGCAAATGTGGGCTCTTCTACA-----------GGTGGGAATGAGCACAATGGTCAACAACATAATccagcacttgctta-agtccatagtagg-----------tgcttaaaatgctgttggataatgaaGTCAAT-GTTAAGTGTGGATTGA-GAAAGCG--GATTTT-CATTCT----------CA----TTGGGGACATATCAGAAGAGTCTAGGGATGAAAATAT---------------------------GTATAATTTCAAAAA-ACACATTGAATCT--T-----ATAATTTTACATTT-AGAGAAT-AGAAACATATC--TTT---TTATTATAAAATA---AAGTTATAC-A-AAAAAGTGCaagaataatataacaaataaccatgtatat--attacccacttaagaattaggaagaatagacgtaattgaaaccctctg-cacgtgaatccaatcacttcttttcaagaagtagtagttttctcagtcttatttattatcctccaa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13237267 499 -  42888418 TTGTTGATGTTTGTAACAATCTAGCCAGAAGCTAATTAAAATGCTGACTCTCCTAGCCTTTACTATTTCCAAGCAAGTTTGGGCTCTTCTACA-----------GGTGGGAGTGAACACAGTGGTCAACAACATAGTTCAGCACTTGTTTA-AGTCCATAGTAGG-----------TGCTTAAAATGCTGTTGGATAATGAAGTCAAT-ATTAAGTGTGGATTGA-GATATCG--GATTCT-CATTCT----------CA----TTAAGGACCTATCAGAAGAATCTAGGGATAAAAATAT---------------------------GTATAATTTCAAAAA-ACACATTGAATCT--T-----ATAATTTTACATTT-AGAGAAT-AGAAACATATC--TTT---TTATTATAAAATA---AAGTTATGC-A-AAAAAGTACAATAATAATATAACAAATAACCATGTATAT--ATAACCCACTTAAGAATTAGGAAGAacagacataattgaaaccctctg-cacatgaacccaatcacttcttctcaagaagtagtagttttctcagtcttatttattatcctccaa
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60572905 498 + 108143057 TTGTTGAGGTTTGGCACAATCTAGCAAGCAACTGATTAAAATGGTCTCTCTTCTGGCCTTTACTATTTCCCAGCAAGTTTGGGCTCTCCTAGG-----------GGTGGGAGTGGACATAGTGGTCACCACCATAATTCATCAATTGTTTA-AGCTCATAGTTGG-----------CACTT-AAATGCTGTTGGATAATTAAGGTAAT-----AGTGTGGATTGG-TAAAGCAATAATTCTGTCTTAT----------TA----TTGAGGACATATCAGATAAGTCTAGGGAGAAAAATAT---------------------------GTGTAATTTGAAAAATACA--TTGAATCT--T-----ATAATTTTATATTT-AGAAAAT---AAATATATATATTTCCGTTATTATAAAATA---AAGTCATGC-A-AAAAAGTACAAAAATAATGTAACAAATAACCATGTATAC--ATTACCCACTTAAGAATTAGGGAAAATAGACATAATTAAAACTCTCTG-CTTATGAATCAAATTACTTTTTTCTCAGAATTGGCAGTTTTCTCAATCTTG-TTATTATCCTCCAA
i micMur3.chr12            C 0 I 1043
s proCoq1.NW_012155062v1     3609081 499 +  11683526 ttgttgaggtttggcacaatctagcaagcagctaattaaaatgctctccctcccggcctttactatttcccagcaagtctgggctctcctaga-----------ggtgggagtggaCATGGTGGTCACCACCATAATTCAGCAATTGTTTA-AGCTCA-AGTTGG-----------CACTTAAAATGCTGCTGGATAATTAAGTTAAT-----AGTGTGGATTGG-TAAAGCAATAATTCT-CATTCT----------TA----TTGAGTACATATCAAATAAGTCTAGGCAGAAAACTAT---------------------------GTGTAATTTGAAAAATACA--TTGAATCT--C-----ATAATTTTGTATTT-AGAAAAT-AAAAATATATATATTTCCATTATTATAAAATA---AAGTCATGC-A-AAAAAGTACAAAAATAATGTAACAAATAACCATGTATAC--ATTACTCACTTAAGAATTAGGGAAAGTAGACATAATTAAACCTCTCTG-CTTATGAATCAAGTCACTTTTTTCTCAGAAGTGGCAGTTTTCTCAATCTTA-TTATTATCCTCTAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3092444 489 +   4132165 TTGTTGAGGTTTAAAGCAATTTAGCAAGCAGCTA-------------------------TTACTATTTCTCAGCAAGTTTGGGTTGTCCTA------------------GAGTGGACACAATGGTTACCACCATAATTCAGCAATTATTTA-AGTCCATAGTTGG-----------CACTTTAAATGCTGTTGGATAATTACATTAATAAGTAAGTGTGGATTGG-TAAAGCAATAATTCT-CATTCT----------TATAATTCTCAGACATATCACATGAGTCCAAGGAGAAGAatacatatatattcttatgtatattctcataatatattcttgaatatata--ttagatct--c---atataattttatattt-agaaaat---acacatatatat----ataattataAAATA---AAGTCATGC-A-AAATG----------ACTGTAACAAATAACTATGTATAC--ATTGCCCACTTGAAAATTA-GAAAAACAGATATAATCAAAACTATCTG-CTTAGGAATCCAAtcacttcttttccagaagtagtagttttttcaatcttg-ttattatcctccaa
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14936815 471 +  74389097 ttgatg----ttggaccaatccagcaaccagctagttagatcg----ctctcctggcttccatgatttcccagaaagtttgggctcccctaaagtttggggcagggggtgggtggaaatggtggtcaataCCATAAAATAGTGCTTGATTATAGGTCATGGTTGGATTTAAGCTCATACTTTAAATCATGCTGGATGATCAAATTAAT--GTCAGTGTGGATTGT-CAGAACGATGATTCT-CATTCT----------CA----CTGGGGACATATCAACC---TCTAGGGAGAAAAATAT---------------------------GTGTAATCTGAAATA-ACATACTGAATCT--CATACTAGAATTTTATACTT-AGAAAAT-AAAA-----TATATTA---CTCTCATAAATTATTTAAGTCACAC-ACAAAAAGGATAAACATAA--TAACAAGTAACCATGTATATACATTACCCATTTGAGAATTAGGAGCAACAGATCAAATTGAAACTCTCTGTCCCATGAATGC---CACTTGT---------------------------------------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2656223 494 +   3667625 ttgcttgagttggaac-aatctagcaaccagctatttggattg----ctttcctgg-ctttcccattttccagaaagattgggttatctagag-----------aggggaattggaaatggaggtcaaAGCCATTATGCAGCACTTGATTA-AACCCATGGTGAA-----------CATTTAAAATGCT--TGG----------TGGC-AGTAAATGTGGATTGGTTAGATCAGTGGTTCC-CATTAGGACAGGTCAATA----TTGGGAACATATTG---GAGTCTAGGGTAGAAAATGT---------------------------ATGT--------ACA-ATA--TTGAATAT--Cataatataattttatatct-aaaacatgaaaaatatacctattttcattattataaaatatttaGTGTATGCAA-AAAAAATACAAGAATAAGATAACAAACGA-CATGTATAC--ATTGTCCACTTAAGAATTAGTGATCATAGGTATAACTGAAAATCTCTGCCTCATGACACAAATCTCTTATTTCTCAAAAGTAGCAATTTTCCTAAACTtgtttatta--ccccaa
i dasNov3.JH567306         I 11 C 0
e mm10.chr18                55533900 1918 +  90702639 I

a score=1881840.000000
s hg38.chr5_KI270796v1_alt    116765 149 +    172708 tctctttttataagtttttaaattatatatctaaaaacaaaatattctctggctttacatgtttctaaactatgcaaatggcttc-atacagtatgcaccattctgcaacttgttttcattgccctcatta-ttatgtttttagatttatt
s panTro5.chr5             125220451 149 + 181907262 gctctttttataagtttttaaattatatatctaaaaacaaaatattctctggctttacatgtttctaaactatgcaaatggcttc-atacagtatgcaccattctgcaacttgttttcattgccctcatta-ttatgtttttagatttatt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126557151 149 + 183735486 gctctttttataagtttttaaattatatatctaaaaacaaaatattctctggctttacatgtttctaaactatgcaaatggcttc-atacagtatgcaccattctgcaacttgttttcattgccctcatta-ttatgtttttagatttatt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1748933 149 +   8933513 gctctttttataagtttttaaattatatatctaaaaacaaaatattctctggctttacatgtttctaaactatgcaaatggcttc-atacagtatgcaccattctgcaacttgttttcattgccctcatta-ttatgtttttagatttatt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139883299 146 + 163208435 gccctttttataagtttttaaattatatatctaaaaacaaaatattatctggctttacgtgtttctaaactatgcaaatggcttc-atacagtatgcaccattctgcaac---ttttcattgccctcatta-ttatgcttttagatttatt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122867942 145 + 180051392 gccctttttataaatttttaaattatatatctaaaaacaaaatattctcaggctttatgtgtttctaaactatgcaaatggcttc-atacagtatgcaccaccctgcagcttgttttcattgccctc---a-ttatg-ttttagatttatt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124291560 148 + 181584905 gccctttttataagtttttaaattatatatctaaaaacaaaatattctcaggctttatgtgtttctaaactatgcaaatggcttc-atacagtatgcaccaccctgcagcttgttttcattgccctcatta-ttatg-ttttagatttatt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16289915 148 +  18395747 gcccttttgataagtttttaaattatatatctaaaaacaaaatattctcaggctttatgtgtttctaaactatgcaaatggcttc-atacagtatgcaccaccctgcagcttgttttcattgccctcatta-ttatg-ttttagatttatt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5302691 148 +  26952557 gccctttttataagtttttaaattatatatctaaaaacaaaatattctcaggctttatgtgtttctaaactatgcaaatggcttc-atagagtatgcaccaccctgcagcttgttttcattgccctcatta-ttatg-ttttagatttatt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28403157 149 +  82825804 gccctttttataagtttttaaattatatatctaaaaacaaaatattctcaggctttatgtgtttctaaactaggcaaatggtttc-atacagtatgcaccaccctgcagcttgttttcattgccctcattatttatg-ttttagatttatt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4073100 148 -   4237731 gccctttttataagtttttaaattatatatctaaaaacaaaatattctcaggctttatgtgtttctaaactatgcaaatggcttc-atacagtatgcaccaccctgcagcttgttttcattgccctcatta-ttatg-ttttagatttatt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      341675 148 -   1175262 gccctttttataagtttttaaattatatatctataaacaaaatattctcaggctttacgtgtttctaaactatgcaaatggcttc-atacagtatgcaccactctggaacttgttttcattgccctcatta-ttatg-ttttagatttatt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123689940 149 - 204313951 gctctttttataagttttaaagttatatatctaaaaacaaaatattctctggctttacatgtttctaaactatgcaaatgacttc-atacagtatgtaccattctgcaacttattttcattgccttcatta-ttaggtttttagatttatt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55733885 149 -  71252344 actctttttataagttttaaaattatgtatctaaaaccaagatattatccggctttacatgtttttaaactatgcaaattacttc-atacagtatgtaccattctgtaacttgttttcattgccctcatta-ttacgtttttagagttatc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       37442 149 -   3089952 gctctttttataagttttaaaattatgtatctaaaaacaaaatattctctggctttacatgtttctaaactgtgcaaatgacttc-atacagtatgtcccattctgcaacttattttcgttgccctcatta-ttacgtttttagatttatc
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13237766 149 -  42888418 gctctttttataagtttgaaaattatgtatctaaaaacaaaatattctctggctttacatgtttctaaactatgcaaatgacttc-atacagtatgtaccattctgcaacttattttcattgccctcatta-ttacgtttttagatttatc
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3609580 149 +  11683526 GAACTTTGTATAAGTTTTTGAATtatatatccataaacaaaatatgctctgatttcgcatatctttaaactgtgcaaatgacttc-caacagtatgtagcattctgcaacgtacctttgttgccctcatta-ttatctttttagatttgct
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3092933 149 +   4132165 gcactttttataagtttttgaattttatctccaaaaacaaaacatcctctgatttcacacgtctttaaactgtgcaaatggctct-gaacagtacgtagcactctctaacttgtttttattcctgtcatta-ttttgtttttagatttatc
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14937286 119 +  74389097 ------------AAATTTTGAATtatatatccataaacaaaatatttt--gttttttcacgtttttaaaccagttaaatggtttc-atagtgtatgtagcattctgcaaAAtttttt-----------tta-ata---tttt--atttatt
i canFam3.chr11            C 0 I 262
s dasNov3.JH567306           2656717 139 +   3667625 gcatattttata--tttttgaattctatctattaa---gaaatattctgttgtatcacg---ttttaaactatgtaaatggcatcaaaacagtatgtagcattctgcaatttgcttttattccactc---a-ttatgtttttagatttatt
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60573403 1043 + 108143057 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=550548.000000
s hg38.chr5_KI270796v1_alt    116914 43 +    172708 catgctgttgcatatagctctggctcattcatattgattgatg
s panTro5.chr5             125220600 43 + 181907262 catgctgttgcatatagctctggctcattcatattgattgatg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126557300 43 + 183735486 catgctgttgcatatagctctggctcattcatattgattgatg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1749082 43 +   8933513 catgctgttgcatatagctctggctcattcatattgattgatg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139883445 43 + 163208435 catgctgttgcatatagctctggctcattcatattgattgatg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122868087 43 + 180051392 catgctgctgcatatagctctggctcattcatattgattgatg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124291708 43 + 181584905 catgctgctgcatatagctctggctcattcatattgattgatg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16290063 43 +  18395747 catgctgctgcatatagctctggctcattcatattgattgatg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5302839 43 +  26952557 catgctgctgcatatagctctggctcattcatattgattgatg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28403306 43 +  82825804 catgctgctgcatatagctctggctcattcatattgattgatg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4073248 43 -   4237731 catgctgctgcatatagctctggctcattcatattgattgatg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      341823 43 -   1175262 catgctgctgcatgtagctctggctcattcatattgattgatg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123690089 43 - 204313951 catggtgttgcacataactctggatcattcctattgttggatg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55734034 43 -  71252344 catggtgttgcatatagctgtggatctttcatattgatggatg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       37591 43 -   3089952 catggtgttgcatatagctctggatcattcatattgatggatg
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13237915 43 -  42888418 catggtgtcgcatatagctctggatcattcatattgatggatg
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3609729 43 +  11683526 catgttgttacacatagctctggttcattcagattgactaatg
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3093082 42 +   4132165 cat-ttgtcacacatggctctgtttcattcagattgattaatg
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2656856 43 +   3667625 catatttttacatctagctctggttcaatcactttgatcgatg
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60573403 1043 + 108143057 I
e canFam3.chr11             14937405 262 +  74389097 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=2683409.000000
s hg38.chr5_KI270796v1_alt    116957 224 +    172708 aatagctgctatggtttgaatatgt-cccccaaaattcatgtgttgaaaacttgatccccattgtggaggtgtt---aggtgaggtctttaagaggtgtttaggtcaagaggtctctaccctcacaaatagattaatgctgctgtc----aaggaaatgtgtttgttgtaaaaagatgagttcggcctctgctttc----tcttttgccctctttt-----------tgcccttctgacttccacca
s panTro5.chr5             125220643 224 + 181907262 aatagctgctatggtttgaatatgt-cccccaaaattcatgtgttgaaaacttgatccccattgtggaggtgtt---aggtgaggtctttaagaggtgtttaggtcaagaggtctctaccctcacaaatagattaatgctgctgtc----aaggaaatgtgtttgttgtaaaaagatgagttcggcctctgctttc----tcttttgccctctttt-----------tgcccgtctgacttccacca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126557343 224 + 183735486 aatagctgctatggtttgaatatgt-cccccaaaattcatgtgttgaaaacttgatccccattgtggaggtgtt---aggtgaggtctttaagaggtgtttaggtcaagaggtctctaccctcacaaatagattaatgctgctgtc----aaggaaatgtgtttgttgtaaaaagatgagttcggcctctgctttc----tcttttgccctctttt-----------tgcccttctgacttccacca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1749125 225 +   8933513 aagagctgctatggtttgaatgtgtccccccaaaattcatgtgttgaaaacttgatccccattgtggaggtgtt---aggtgaggcctttaagaggtgtttaggtcaagaggtctctaccctcacaaatagattaatgctgctgtc----aaggaaatgtgtttgttgtaaaaagatgagttcggcctctgctttc----tcttttgccctctttt-----------tgcccttctgacttccacca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139883488 224 + 163208435 aatagctgctatggtttgaatgtgt-cctccaaaattcatgtgttgaaaacttgatccccattgtggaggtgtt---aggtgaggcctttaagaggtgtttaggtcaagaggtctctaccctcacaaatagattaatgctgctgtc----aaggaaatgtgtttgttgtaaaaagatgagttcggcctctgctttc----tcttttgccctctttt-----------tgcccttctgacttccacca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122868130 224 + 180051392 aatagctgctatgatttgaatgtgt-cccccaaaattcatgtgttgaaaacttgatccccaatgtggaggtgtt---aggtgaggcctttaagaggtgtttaagtcaagaggtctctaccctcacaaatggattaatgctgttgtc----aaggaaatgtgtttgttgtaaaaagatgaattcagcctctgctttc----tcttttgccctctttt-----------tgcccttctgacttccacca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124291751 224 + 181584905 aatagctgctatgatttgaatgtgt-cccccaaaattcatgtgttgaaaacttgatccccaatgtggaggtgtt---aggtgaggcctttaagaggtgtttaagtcaagaggtctctaccctcacaaatggattaatgctgttgtc----aaggaaatgtgtttgttgtaaaaagatgaattcagcctctgctttc----tcttttgccctctttt-----------tgcccttctgacttccacca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16290106 224 +  18395747 aatagccgctatgatttgaatgtgt-cccccaaaattcatgtgttgaaaacttgatccccaatgtggaggtgtt---aggtgaggcctttaagaggtgtttaagtcaagaggtctctaccctcacaaatggattaatgctgttgtc----aaggaaatgtgtttgttgtaaaaagatgaattcagcctctgctttc----tcctttgccctctttt-----------tgcccttctgacttccacca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5302882 224 +  26952557 aatagctgctatgatttgaatgtgt-cccccaaaattcatgtgttgaaaacttgatccccagtgtggaggtgtt---aggtgaggcctttaagaggtgtttaggtcaagaggtctctaccctcacaaatggattaatgctgttgtc----aaggaaatgtgtttgttgtaaaaagatgaattcagcctctgctttt----tcttttgctctctttt-----------tgcccttctgacttccacca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28403349 224 +  82825804 aacagctgctatgatttgaatgtgt-cccccaaaattcatgtgttgaaaacttgatccccaatgtggaggtgtt---aggtgaggcctttaagaggtgtttgggtcaagaggtctctaccctcacaaatggattaatgctgttgtc----aaggaaatgtgtttgttgtaaaaagatgaattcagcctctgctttc----tcttttgccttctttt-----------tgcccttctgacttccacca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4073291 224 -   4237731 aatagctgctatgatttgaatgtgt-cccccaaaattcatgtgttgaaaacttgatccccaatgtggaggtgtt---aggtgaggcctttaagaggtgtttaggtcaagaggtctctaccctcacaaatggattaatgctgttgtc----aaggaaatgtgtttgttgtaaaaagatgaattcagcctctgctttc----tcttttgccctctttt-----------tgcccttctgacttccacca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      341866 224 -   1175262 aatagctgctgtggtttgaatgtgt-cccccaaaattcatgtgttgaaaacttgatccccaatgtggaggtttt---aggtgaggcctttaagaggtgtttaggtcaagaggtctgtaccctcacaaatggattaatgctgttgtc----aaggaaatgtgtttgttgttaaaagatgagttcagcctctgctttc----tcttttgccctctttt-----------tgcccttctgacttccacca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123690132 227 - 204313951 aatagctgctgtggtttgaatgtga-tccccaaaagtcatgtgttggaaacttgatcctcaatgtggagctgttaggaggtgagacctttaagaggtgtttaggtcaagaggcctctaccctcacaaatggattaatgctgttgtg----aaagaagtgtgtttgttgtaaaaagatgagtttggcctctgctttc----tcttttgccctctttt-----------tacttttctgtcttccacca
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55734077 227 -  71252344 aacagctgctctggtttgaatgtga-tccccaaaattcatgtgttggaaacttaattctcaatgtggagctgttagaaggtgagacctttaagaggtgtttaggtcaagaggtctataccctcacaaatggattaatgctgttgtc----aaagaaatgtgtttgttgtaaaaagatgagtttggcctctgctttc----tcttttgccctctttt-----------tacttttctgccttccacca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       37634 226 -   3089952 aatagctgctctggtttgaatgtga-tccccaaaaatcatgtgttggaaacttgatcctcaatgtggagctgttagaaggtgagacctttaagaggtgtttaggtcaagaggtctctacctgcacaaatggattaatgctgttgtc----aaagaaatgtgtttgtcataaaaagatgag-ttggcctctgctttc----tcttttgccctctttt-----------tacttttctgccttccacca
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13237958 227 -  42888418 aatagctgctctggtttgaatgtga-tccccaaaaatcatgtgttggaaacttgatcgtcaatgtggagctgttagaaggtgagacctttaagaggtgtttaggtcaagaggtctctaccctcgcaaatggtttaatgctgttgtc----aaagaaatgtgtttgttgtaaaaagacgagtttggcctctgctttc----tcttttgccctctttt-----------tacttttctgccttccacca
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3609772 234 +  11683526 aatagctactttggtttgaatgtgt-cccccaaagttcatgtgttggaaatttgatccccagtgtggaggtgttgggaggtaggacctttaaaaggtgttgaggtcatgaggtccctgcccttaccaatggatcaatgttgttatc-agggagggaatgagtttgttacagaaggatgagttgggccccctcttgctgtatctcttgccctctctt-----------tgcccttctgccttctgcca
i proCoq1.NW_012155062v1   C 0 I 42
s otoGar3.GL873679           3093124 245 +   4132165 aatagctgctat-gtctcaatgtgt-ctcccaaagttcatgtgttggaaatttgatccccaatgtggaggggttgagaggaaagaccttcgagaggtgttcaggtcatgagggctctgcccttatgaatggattaatgctgttatcaaaggagggaacatatttgctttaaaatgataaatttgacccccactttccacatctcttgtcttctttttgcacattttctgcccctctattttctgcac
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60573403 1043 + 108143057 I
e canFam3.chr11             14937405 262 +  74389097 I
e dasNov3.JH567306           2656899   0 +   3667625 C
e mm10.chr18                55533900 1918 +  90702639 I

a score=401985.000000
s hg38.chr5_KI270796v1_alt    117181 40 +    172708 gtgatgatgcaacaggagggctctcacaagatgcaactgt-
s panTro5.chr5             125220867 40 + 181907262 gggatgatgcaacaggagggctctcacaagatgcaactgt-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126557567 40 + 183735486 gtgatgatgcaacaggagggctctcacaagatgcaactgt-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1749350 40 +   8933513 gtgatgaggcaacaggagggctctcacaagatgcaactgt-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139883712 40 + 163208435 gtgatgatgcaacaagagggctctcacaagatgcaactgt-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122868354 39 + 180051392 gtgatgatgcaacaggagggctctcacaa-atgcaactgt-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124291975 39 + 181584905 gtgatgatgcaacaggagggctctcacaa-atgcaactat-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16290330 39 +  18395747 gtgatgatgcaacaggagggttctcacaa-atgcaactgt-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5303106 39 +  26952557 gtgatgatgcaacaggaggactctcacaa-atgcaactgt-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28403573 39 +  82825804 gtgatgatgcaacaggagggctctcacaa-atgcaactgt-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4073515 39 -   4237731 gtgatgatgcaacaggagggctctcacaa-atgcaactgt-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      342090 40 -   1175262 gtgatgatgcaacaggagggctctcacaagacgcaactgt-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123690359 40 - 204313951 gggatgatgcagcaggagggctctcacaaggtgcaactgt-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55734304 40 -  71252344 gggatgatgcaacaggagggctctcacaaggtgcaactgt-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       37860 40 -   3089952 gggatgatgcaacaggagggttctcacaaggtgcaactgt-
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13238185 40 -  42888418 gggatgatgcaacaggagggctctcacaaggtgcaactgt-
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3093369 41 +   4132165 gtgaggacacagtgagaaaacccttacaaggtgtcagtctt
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60573403 1043 + 108143057 I
e canFam3.chr11             14937405 262 +  74389097 I
e proCoq1.NW_012155062v1     3610006 42 +  11683526 I
e dasNov3.JH567306           2656899  0 +   3667625 C
e mm10.chr18                55533900 1918 +  90702639 I

a score=1161999.000000
s hg38.chr5_KI270796v1_alt    117221 100 +    172708 ttgttcttggacttcccagcctccagaactgtgaaaataaatttctgttcacta-------tcccatctgtgatattctgatatggcagcatgaaatggact-aaaat
s panTro5.chr5             125220907 100 + 181907262 ttgttcttggacttcccagcctccagaactgtgaaaataaatttctgttcacta-------tccaatctgtgatattctgatatggcagcatgaaatggact-aaaat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126557607 100 + 183735486 ttgttcttggacttcccagcctccagaactgtgaaaataaatttctgttcacta-------tccaatctgtgatattctgatatggcagcatgaaatggact-aaaat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1749390 100 +   8933513 ttgttcttggacttcccagcctccagaactgtgaaaataaatttctgttcacta-------tccaatctgtgatattctgatatggcagcatgaaatggact-aaaat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139883752 100 + 163208435 ttgctcttggacttcccagcctccagaactgtgaaaataaatttctgttcatta-------tccaatctgtgatattctcatatggcagcatgaaatggact-aaaat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122868393 107 + 180051392 ttgctcttggacttcccagcctccagaactgtgaaaataaatttctgttcattataaattctccagtctgtgatattctgatatggcagcacgaaatggact-aaaat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124292014 107 + 181584905 ttgctcttggacttcccagcctccagaactgtgaaaataaatttctgttcattataaattctccagtctgtgatattctgatatggcagcacgaaatggact-aaaat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16290369 107 +  18395747 ttgctcttggacttcccagtctccagaactgtgaaaataaatttctgttcattataaattctccagtctgtgatattctgatatggcagcatgaaatggact-aaaat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5303145 107 +  26952557 ttgctcttgaacttcccagcctccagaactgtgaaaataaatttctattcattataaattctgcagtgtgtgatattctgatatggcagcatgaaatggact-aaaat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28403612 107 +  82825804 ttgctcttggacttcccagcctccagaactgtgaaaataaatttctgttcattataaattctccagtctgtaatattccgatatggcagcacaaaatggact-aaaat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4073554 107 -   4237731 ttgctcttggacttcccagcctccagaactgtgaaaataaatttctattcattataaattctccagtgtgtgatattctgatatggcagcacgaaatggact-aaaat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      342130 107 -   1175262 ttgctcttggacttcccagcctccagaactgtgaaaataaatttctgttcattataaattctccagtctgtgatattctgatatggcagcacgaaagggact-aaaat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123690399 107 - 204313951 ttgctcttggacttgccagcctccagaactgtgaaaataaatttctattcattgtaaaatatccagtctgtgatattctgatacggcagcatgaaatggact-aaaat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55734344 107 -  71252344 ttgctcttggacttgacagcctccagaactgtgaaaatcaatttctattcattgtaaattatccaggctgtgatattctgatatggcagcatgaaatggact-gaaat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       37900 107 -   3089952 ttgctcttggacttgccagcctccagaattgtgaaaataaatttctattcattgtaaattatccagtctgtgatattctgatatggcagcataaaatggact-gaaat
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13238225 107 -  42888418 ttgctcttggacttgccagcctccagaactgtgaaaataaatttctattcattgtaaattgtccagtctgtgatattctgatatggcagcatgaaatggact-aaaat
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3610048 101 +  11683526 ttgatgttggacttcccagact------gtgagaa-atacatttttgctcattatcaattatttcgtctgtgatattctgttatagcagcacaaaatgaactaaaaat
i proCoq1.NW_012155062v1   I 42 C 0
s otoGar3.GL873679           3093410  92 +   4132165 ttggttttggatttcccacactctataactgagag---------------gttataaattatttagtctgtggtgttctgtaatagcagcacaaaatgaact-aaaac
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60573403 1043 + 108143057 I
e canFam3.chr11             14937405 262 +  74389097 I
e dasNov3.JH567306           2656899   0 +   3667625 C
e mm10.chr18                55533900 1918 +  90702639 I

a score=858158.000000
s hg38.chr5_KI270796v1_alt    117321 65 +    172708 aataaaattccaccctctgcatctatcataatgaatatatctgctctcctgttgatgaatat-----tta-----
s panTro5.chr5             125221007 65 + 181907262 aataaaattccaccctctgcatctatcgtaatgaatatatctgctctcctgttgatgaatat-----tta-----
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126557707 65 + 183735486 aataaaattccaccctctgcatctatcgtaatgaatatatctgctctcctgttgatgaatat-----tta-----
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1749490 65 +   8933513 aatagaattccaccctctgcatctatcataatgaatatatctgctctcctgttgatgaatat-----tta-----
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139883852 65 + 163208435 aatagaatgccacccactgcatctatcataatgaacatatctgctctcctgttgatgaatat-----tta-----
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122868500 65 + 180051392 aatagaattctaccctctgcatctatcataatgtatatatctgctctcctgttgatgaatat-----tta-----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124292121 65 + 181584905 aatagaattctaccctctgcatctatcataatgtatatatctgctctcctgttgatgaatat-----tta-----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16290476 65 +  18395747 aatagaattctaccctctgcatctatcataatgtatatatctgctctcctgttgatgaatat-----tta-----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5303252 65 +  26952557 aatagaattccaccctctgcatctatcataatacatatatctgctctcctgttgatgaacat-----tta-----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28403719 65 +  82825804 aatagaattccaccctctgcatctatcataatgcatatatctgctctcctgttgatgaatat-----tta-----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4073661 65 -   4237731 aatagaattccaccctctgcatctatcataatacatatatctgctctcctgttgatgaacat-----tta-----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      342237 65 -   1175262 aatagaattccaccctctgcatctatcataatgcatatatctgctctcctgttgatgaatat-----tta-----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123690506 65 - 204313951 aatagcattccactgtctgcatctatcataatgcatatctcagttcttctgttgatgaatat-----tta-----
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55734451 70 -  71252344 aatagcattccactgtctgcatctatcgtaatgcatatctcagctctcctgttgatgaatatttaagtta-----
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       38007 65 -   3089952 aatagcattccactgtctgcatctatcgtaatgcatatctcagctctcctgttgatgaatat-----tta-----
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13238332 70 -  42888418 aatagcgttccactgtctgcatctatcgtaatgcatatctcagctctcctgttgatgaatatttaagtta-----
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3610149 65 +  11683526 aatagcattccactgtctgtatctatgataattcatatatctgctctcctgatgatggatat-----tta-----
i proCoq1.NW_012155062v1   C 0 I 91
s otoGar3.GL873679           3093502 65 +   4132165 aatagtgttccactgtctgtatctattacaattcatatagctactctcctgataataaatat-----tta-----
i otoGar3.GL873679         C 0 I 5
s canFam3.chr11             14937667 64 +  74389097 aatagtattccactatttgc-cccatcacagttcgtgtatctgctcttctgctgatgaacat-----tta-----
i canFam3.chr11            I 262 I 3
s dasNov3.JH567306           2656899 70 +   3667625 aatagcctttcagtgtctgaacctatcacaattcaggtatctgctttcctgctgatggacgt-----gtatgtta
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60573403 1043 + 108143057 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=767738.000000
s hg38.chr5_KI270796v1_alt    117386 75 +    172708 tttatagtttttc-aat-------------actgatggagaggctgcaatgagcacttttagaatttatctgaatgaacatgactgatc
s panTro5.chr5             125221072 75 + 181907262 tttatggtttttc-aat-------------actgatggggaggctgcaatgagcacttttagaatttatctgaatgaacatgactgata
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126557772 75 + 183735486 tttatggtttttc-aat-------------actgatggggaggctgcaatgagcacttttagaatttatctgaatgaacatgactgata
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1749555 75 +   8933513 tttatagattttt-aat-------------actaatggggaggctgcaatgcgcacttttagaatttatctgaatgaacatgactgata
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139883917 75 + 163208435 tttataatgtttc-agt-------------actaatggggaggctgcaatgagcacttttagaatttatctggatgaacatgactgata
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122868565 74 + 180051392 cttatagtttttc-agt-------------actaatgg-gatgctgcaatgagcacttttagaatgtatctgaatgcacatgactgatg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124292186 74 + 181584905 cttatagtttttc-agt-------------actaatgg-gatgctgcaatgagcacttttagaatgtatctgaatgcacatgactgatg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16290541 74 +  18395747 cttatagtttttc-agt-------------actaatgg-gatgctgcaatgagcacttttagaatgtatctgaatgcacatgactgatg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5303317 74 +  26952557 cttatagtttttt-agt-------------actaatgg-gatgctgcaatgagcacttttagaatgtatctgaatgcacatgactgatg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28403784 74 +  82825804 tttatagtttttc-aat-------------actaatgg-gatgctgcaatgagcacttttagaatgtatctggatgcacatgactgatg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4073726 74 -   4237731 cttatagtttttt-agt-------------actaatgg-gatgctgcaatgagcacttttagaatgtatctgaatgcacatgactgatg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      342302 75 -   1175262 tttatagtttttcaaat-------------actaatgg-gatgctgcagtgagcacttttagaatgtatctggatgcacatgactgata
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123690571 87 - 204313951 tttatagtttttc-tataattaactatgcaaatgacagggatgctgcaatgagcacttttagtatttatctggatgcacatgactg-ta
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55734521 74 -  71252344 tttatagtttttc-tgt-------------actaacagggatgctgcaaagagcactttaagaatttatctggctgcacataactg-ta
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       38072 74 -   3089952 tttatagtttttc-tat-------------agtaacagggatgctgcaatgagcacttttagaatttatctggatgcacatgactg-ta
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13238402 74 -  42888418 tttatagtttttc-tgt-------------actaacagggatgctgcaatgagcacttttagcatttatctggatgcacatgacca-ta
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3093572 75 +   4132165 cttacagtttttc-tgt-------------attaccagggatgctagaatgagcatttttagactttatctgggtgcatatgtatgata
i otoGar3.GL873679         I 5 C 0
s canFam3.chr11             14937734 75 +  74389097 tatttggtttttc-cat-------------tttattagtgatggtacagtgaactcttttagaatgtatcagggtgcatacagatgata
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2656969 74 +   3667625 ttttcagttttgc-act-------------gttactagtgatatggcaatgaaca-ttttagaatttacctgggtgcataggtatgata
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60573403 1043 + 108143057 I
e proCoq1.NW_012155062v1     3610214 91 +  11683526 I
e mm10.chr18                55533900 1918 +  90702639 I

a score=225362.000000
s hg38.chr5_KI270796v1_alt    117461 16 +    172708 gtgaa-attgctgggtc
s panTro5.chr5             125221147 16 + 181907262 gtgaa-attgctgggtc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126557847 16 + 183735486 gtgaa-attgctgggtc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1749630 16 +   8933513 gtgaa-attgctgggtc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139883992 16 + 163208435 gtgaa-attgctgggtc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122868639 16 + 180051392 gtgaa-attgctgagtc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124292260 16 + 181584905 gtgaa-attgctgagtc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16290615 16 +  18395747 gtgaa-attgctgagtc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5303391 16 +  26952557 gtgaa-attgctgggtc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28403858 16 +  82825804 gtgaa-attgctgggtc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4073800 16 -   4237731 gtgaa-attgctgggtc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      342377 16 -   1175262 gtgaa-attgctgggtc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123690658 16 - 204313951 gtgaa-attgctggctc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55734595 16 -  71252344 gtgaa-attcctggctc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       38146 16 -   3089952 gtgaa-attgctggtgc
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13238476 16 -  42888418 gtgaa-attgctggctc
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3093647 16 +   4132165 gtgaa-actgctggctc
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55535818 17 +  90702639 GTGAATACTGTTGAATC
i mm10.chr18               I 1918 C 0
s canFam3.chr11             14937809 16 +  74389097 gtgaa-attgctaggtc
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2657043 16 +   3667625 gtgaa-ctttctcggtc
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60573403 1043 + 108143057 I
e proCoq1.NW_012155062v1     3610214 91 +  11683526 I

a score=652958.000000
s hg38.chr5_KI270796v1_alt    117477 50 +    172708 ctagttcatgcatatcttaaactttctgata-tttggtaaactgttcacta
s panTro5.chr5             125221163 50 + 181907262 ctagttcatgcatatcttaaactttctgata-tttggtaaactgttcacta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126557863 50 + 183735486 ctagttcatgcatatcttaaactttctgata-tttggtaaactgttcacta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1749646 50 +   8933513 ctagttcatgcatatcttaaactttctgata-tttggtaaactgttcacta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139884008 50 + 163208435 ctaggccatgcatatcttaaactttttgata-tttggtaaactgttcacta
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122868655 51 + 180051392 ctaggtcatgcatatcttaaactttttgatattttggtaaactgttcacta
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124292276 51 + 181584905 ctaggtcatgcatatcttaaactttttgatattttggtaaactgttcacta
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16290631 51 +  18395747 ctaggtcatgcatatcttaaactttttgatattttggtaaactgttcacta
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5303407 51 +  26952557 ctaggtcatgcacatcttaaactttttgatattttggtaaactgttcacta
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28403874 51 +  82825804 ctaggtcatgcatatcttaaactttttgatattttggtaaactgttcacta
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4073816 51 -   4237731 ctaggtcatgcacatcttaaactttttgatattttggtaaactgttcacta
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      342393 51 -   1175262 ctaggtcatgcatctcttcaggtttttgatattttggtaaactgttcactg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123690674 51 - 204313951 ctaggccatgtatatcttatactttttgatgttttggtaaattgttcacta
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55734611 51 -  71252344 ctaggccatgtatatcttatactttttgatgttttggtaaattgttcacta
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       38162 51 -   3089952 ctaggccatgtatatcttatactttttgatgttttggtaaattgttcacta
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13238492 51 -  42888418 ctaggccatgtatatcttatactttttgatgttttggtaaagtgttcaccg
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3610305 51 +  11683526 ttaggccatgcatagcctaaagtttctggtattttgatcgattgctctctt
i proCoq1.NW_012155062v1   I 91 C 0
s otoGar3.GL873679           3093663 51 +   4132165 ctgggccatggataactcagactttctggtactttgatcaattgctctcta
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55535835 33 +  90702639 CTGGGT-ATGAATG--TTCAACTTCCTGACA---------------CACTC
i mm10.chr18               C 0 I 2
s canFam3.chr11             14937825 51 +  74389097 ctaggacatgcatgtcttcaattttctgatattttgataaattgctttcta
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2657059 51 +   3667625 ttggggcatgcatatcttcagctttatgatattttgataaattgttcttta
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60573403 1043 + 108143057 I

a score=2478246.000000
s hg38.chr5_KI270796v1_alt    117527 183 +    172708 aagtggttgtatcactttacactcccctcc------------ataacagtctttgtttctagatatcctct----ccagtattttacaaattttagtctgatggttctgagatggaa----------------------cttcattattttaatttaaagttccctg-aCAACATGTAATTTTAAT---AA--AAACAAA---CTCTAGAGTGCCAAGTTCAACAAACAt
s panTro5.chr5             125221213 183 + 181907262 aagtggttgtatcactttacactcccctcc------------ataacagtctttgtttctagatatcctct----ccagtattttacaaattttagtctgatggttctgagatggaa----------------------cttcattattttaatttaaagttccctg-aCAACATGTAATTTTAAT---AA--AAACAAA---CTCTGGAGTGCCAAGTTCAACAAACAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126557913 183 + 183735486 aagtggttgtatcactttacactcccctcc------------ataacagtctttgtttctagatatcctct----ccagtattttacaaattttagtctgatggttctgagatggaa----------------------cttcattattttaatttaaagttccctg-aCAACATGTAATTTTAAT---AA--AAACAAA---CTCTGGAGTGCCAAGTTCAACAAACAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1749696 182 +   8933513 aagtggttgtattgctttacactccgctcc------------ataacagtctttgtttctagatatcctct----ccagtattttacaaattttagtctgatggttctgagatggaa----------------------cttcattattttaatttaaagttccctg-aCAACATGTAATTTTAAT---AA--AAACAAA---CTCTGGAGTGCCAAGTTCAACAAAC-t
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139884058 182 + 163208435 aagcagttgtatcactttacactcccctcc------------ataataatctttgtttctagatatcctct----ccagtattttacaaattttagtctgatggttctgacatggaa----------------------cttcattattttaatttaaagttccctg-aCAACATGTAATTTTAAT---AA--AAACAAA---CTCTGGAGTGCCAAGTTCAACAAAC-T
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122868706 182 + 180051392 aagtggttgtatcactttacactcccctcc------------ttaacagtctttgtttctagatatcctct----ccagtattttacaaattttagtctgatggttctgagatggaa----------------------cttcataattttaatttAAAGTG-CCTG-ACAACATGTAATTTTAGT---AA--AAACAAA---TTCTGGAGTACCAAGCTCAACAGatat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124292327 182 + 181584905 aagtggttgtatcactttacactcccctcc------------ttaacagtctttgtttctagatatcctct----ccagtattttacaaattttagtctgatggttctgagatggaa----------------------cttcataattttaatttAAAGTG-CCTA-ACAACATGTAATTTTAGT---AA--AAACAAA---TTCTGGAGTACCAAGCTCAACAGatat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16290682 182 +  18395747 aagtggttgtatcactttacactcccctcc------------ttaacagtctttgtttctagatatcctct----ccagtattttacaaattttagtctgatggttctgagatggaa----------------------cttcataattttaatttAAAGTG-CCTG-ACAACATGTAATTTTAGT---AA--AAACAAA---TTCTGGAGTACCAAGCTCAACAGATAt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5303458 182 +  26952557 aagtggttgtatcactttacactcccctcc------------ttaacagtctttgtttctagatatcctct----ccagtattttacaaattttagtctgatggttctgagatggaa----------------------cttcataattttaagttAAAGTG-CCTG-ACAACATGTAATTTTAGT---AA--AAACAAA---TTCTGGAGTACCAAGCTCAACAGATAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28403925 180 +  82825804 aagtggttgtatcactttacactgccctcc------------ttaacagtctttgtttctagatatcctct----ccagtattttataaattttagtctgatggttctgagatgaaa----------------------cttcatcattttaatttAAAGTG-CCTG-ACAACATGTAATTTTAGT---AA--AAACAAA---TTCTGGAGTACCAAGCTCAACAGAT--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4073867 182 -   4237731 aagtggttgtatcactttacactcccctcc------------ttaacagtctttgtttctagatatcctct----ccagtattttacaaattttagtctgatggttctgagatggaa----------------------cttcataattttaagttAAAGTG-CCTG-ACAACATGTAATTTTAGT---AA--AAACAAA---TTCTGGAGTACCAAGCTCAACAGAtat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      342444 181 -   1175262 aagtggttgtg-aacttgacactcccctcc------------ttaacactctttgtttctagatatcctct----ccagtattttacaaattttagtctgatggttctgagatagaa----------------------cttcatcattttaatttAAAGTG-CCTG-ACAACATGTAATTTTAGT---AA--AAACAAA---TTCTGGAGTACCAAGCTCAACAGATAt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123690725 183 - 204313951 aagtggttgtatcactttacattcccctcc------------ataacagtctttgttgctagatatcctct----ccagtattttatcaattttagtctggtggttttgagatggaa----------------------cttcagtattttaatttgaagttccctg-aCAACATCTAACTTTAAT---AA--AAACAAA---CTCTGGAGAGCCAAGGTCCACAGTTTT
i calJac3.chr2             C 0 I 17
s saiBol1.JH378106          55734662 183 -  71252344 aagtggttgtatcactttacattcccctcc------------ataacagtctttgttgctggatatcctct----ccagtattttataaattttagtccgatggttttgagatggaa----------------------cttcattattttaatttgaagttccctg-aCAACATCTAACTTTAAT---AA--AAACAAA---CTCTGGAGAGCCGAGGTCAACAGTTTT
i saiBol1.JH378106         C 0 I 19
s cebCap1.NW_016107590v1       38213 183 -   3089952 aagtggttatatcactttacattcccctcc------------ataacagtctttgttgctagatatcctct----ccagtattttataaattttagtccgatggttttgagatggaa----------------------cttcattattttaatttgaagttccctg-aCAGCATCTAACTTTAAC---AA--AAACAAA---CTCTAGAGAGCCGAGGTCAATAGtttt
i cebCap1.NW_016107590v1   C 0 I 16
s aotNan1.NW_018505940v1    13238543 183 -  42888418 aagtggttgtatcactttacattcccctcc------------ataacagtcttggttgctagatatcctct----ccagtattttataaattttagtccgatggttttgagattgaa----------------------cttcattattttaatttgaagttccctg-aCAACATCTAACCTTAAT---AA--AAACAAA---CTCTGGAGAGCCAAGGTCAACAGTTTT
i aotNan1.NW_018505940v1   C 0 I 21
s micMur3.chr12             60574446 181 + 108143057 aagtggttgtaccaggttacactcacctct------------gtaacagtgtttggtgccagatatcctat----ctagtactttaaaagttttattctggtggttctgaagtggaa----------------------tttcattattttaatttgaagttccatg-aCAATATGTAATTTTATT---AA--AAACGAA---CTCCCGGGAGTTGAGCTCAGCAAAT--
i micMur3.chr12            I 1043 C 0
s proCoq1.NW_012155062v1     3610356 181 +  11683526 atgtggttgtaccaggttacactcacctct------------gtaacagtctttggtgccagatatcctct----ctagtactttaaaaattttagtctggtggttctgaggtggga----------------------tttcattattttaatttgaagttccatg-acaacATGTAATTTTGTT---TA--AAACAAA---CTCCAGTGAGTTAAGCCCAGCAAAC--
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3093714 178 +   4132165 aggtggttgtcccaggttccactcccctcc------------ataatagtatttgctgccagatattctct----gtagtacttcaaaatttttagtctgatgtctctgaggtagg----------------------------ttattttaatttgaattttcATT-AAAATCTGTAATTCTAATGGAAA--AAGAAAA---TACCAGGAAGTGAAGTGCAGCAAAC--
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55535870 184 +  90702639 ATGTAGTTGTC--------CATCACCGTTG------------GTAAAAGTCTCTTCTGCTGCACATCCCCTCATGCTAGTACATCTCCTGTTGAAATATGGTGTTTCTTCCACTGGA----------------------TTTATTTATTTTAATCAGGACATCCATG-ACAATATGCAGTTTATAT---AAATAAACAAAACCCTCTGGAAAACGGAGCTCAACAGACCC
i mm10.chr18               I 2 C 0
s canFam3.chr11             14937876 215 +  74389097 aagtggttgtacaagtttaccttcccctccaccaagcaatttatgacagcctctgttgcctgaaatcctct----ccagtacttttaaaatttgagactgatggctgtgaaatggaatctctctctctctctctctctctctctcttttttaatttgaagttccctg-aCAGCATGTGCTTTTAAT---AA--AAACAAA---CTCCAGGAAGTAAAGCTCAACAAAC--
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2657110 194 +   3667625 atatagttttaccagttttcacgcccttttcccaagcaattgatgcaagattctgttgtcccacatcctca----ctggcacataaacaagttttttatgatggttatgagacgata----------------------gcttattttttaaatttaaagttctctgaAAAAAATGTAATTTAAAT---AAA-AAACGAA---CTCCAGAGAGTAAAGCTCAACAAA---
i dasNov3.JH567306         C 0 C 0

a score=-38274.000000
s hg38.chr5_KI270796v1_alt    117710 15 +    172708 ttttttatt----tttat--------------t
s panTro5.chr5             125221396 15 + 181907262 TTTTGTATT----TTTAT--------------T
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126558096 15 + 183735486 TTTTGTATT----TTTAT--------------T
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1749878 15 +   8933513 ttttttatt----tttat--------------t
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139884240 10 + 163208435 TTTTTTAT---------T--------------T
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122868888 16 + 180051392 ttttttaat----tttaa-------------tt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124292509 16 + 181584905 ttttttaat----tttaa-------------tt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16290864 21 +  18395747 ttttttaat----tttaa--------ttttttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5303640 19 +  26952557 TTTTTTAATTTAATTTAA--------------T
i cerAty1.NW_012002512v1   C 0 C 0
s manLeu1.NW_012103321v1     4074049 20 -   4237731 tttttaaattta-tttat------------tta
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      342625 29 -   1175262 ttttttaat----tttaattttttttttttttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123690925  6 - 204313951 TTTGTT---------------------------
i calJac3.chr2             I 17 C 0
s saiBol1.JH378106          55734864  6 -  71252344 tttgtt---------------------------
i saiBol1.JH378106         I 19 C 0
s cebCap1.NW_016107590v1       38412  6 -   3089952 tttgtt---------------------------
i cebCap1.NW_016107590v1   I 16 C 0
s mm10.chr18                55536054  5 +  90702639 -TTCTT---------------------------
i mm10.chr18               C 0 C 0
e micMur3.chr12             60574627  0 + 108143057 C
e canFam3.chr11             14938091  0 +  74389097 C
e proCoq1.NW_012155062v1     3610537  0 +  11683526 C
e chlSab2.chr23             28404105  0 +  82825804 C
e otoGar3.GL873679           3093892  0 +   4132165 C
e aotNan1.NW_018505940v1    13238726 21 -  42888418 I
e dasNov3.JH567306           2657304  0 +   3667625 C

a score=1743780.000000
s hg38.chr5_KI270796v1_alt    117725 126 +    172708 ttattttt-------------------------------------tAGCTGGTAGGGTAACTCAATAGGCTGT--CTCTGAGGTTCTTCCTGTATGAGTGAAGTTGAC-ATGCTCC--------------------------CCTAGGGAGATGTATGGAATCTCCTAAGGTGAAACA-TGAGGTGCTTTGAT
s panTro5.chr5             125221411 126 + 181907262 TTATTTTT-------------------------------------TAGCTGGTAGGGTAACTCAATAGGCTGT--CTCTGAGGTTCTTACTGTATGAGTGAAGTTGAC-ATGCTCC--------------------------CCTAGGGAGATGTATGGAATCTCCTAAGGTGAAACA-TGAGGTGCTTTGAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126558111 126 + 183735486 TTATTTTT-------------------------------------TAGCTGGTAGGGTAACTCAATAGGCTGT--CTCTGAGGTTCTTACTGTATGAGTGAAGTTGAC-ATGCTCC--------------------------CCTAGGGAGATGTATGGAATCTCCTAAGGTGAAACA-TGAGGTGCTTTGAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1749893 126 +   8933513 ttattttt-------------------------------------tAGCTGGTAGGGTAACTCAATAGGCTAT--CTCTGAGGTTCTTACTGTATGAGTGAAGTTGAC-ATGCTCC--------------------------CCTAGGGAGACGTATGGAATCTCCTAAGGTGAGACA-TGAGGTGCTTTGAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139884250 126 + 163208435 TTATTTTT-------------------------------------TAGCTGGTAGGGTAACTCAGTAGGCTGT--CTCTGAGGTTCTTACTGTATGAGTGAAGTTGAT-ATGCTCC--------------------------CCTAGGGAGATGTATGGAATCTCCCAAGGTGAAACA-TGAGGTGTTTTGAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122868904 126 + 180051392 tttttttt-------------------------------------taGCTGGTAAGGTAACTCAATAGGCTGT--CTCTGAGGTTCTTACTGTATGAGTGAAGTTGAC-CTGCTCC--------------------------CCTTGGGAGATGTATGGAATCTCCTAAGGTGAAACA-TGAGGTGTTTTGAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124292525 126 + 181584905 tttttttt-------------------------------------taGCTGGTAAGGTAACTCAATAGGCTGT--CTCTGAGGTTCTTACTGTATGAGTGAAGTTGAC-CTGCTCC--------------------------CCTTGGGAGATGTATGGAATCTCCTAAGGTGAAACA-TGAGGTGTTTTGAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16290885 126 +  18395747 tttttttt-------------------------------------tAGCTGGTAAGGTAACTCAATAGGCTGT--CTCTGAGGTTCTTACTGTATGAGTGAAGTTGAC-CTGCTCC--------------------------CCTTGGGAGATGTATGGAATCTCCTAAGGTGAAACA-TGAGGTGTTTTGAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5303659 126 +  26952557 TTTTTTTT-------------------------------------TAGCTGGTAAGGGAACTCAATAGGCTGT--CTCTGAGGTTCTTACTGTATGAGTGAAGTTGAC-CTGCTCC--------------------------CCTCGGGAGATGTATGGAATCTCCTAAGGTGAAACA-TGAGGTATTTTGAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28404105 126 +  82825804 TTTTTTTT-------------------------------------AAGCTGGTAAGGTAACTCAATAGGCTGT--CTCTGAGGTTCTTACTGTACGAGTGAAGTTGAC-CTGCTCC--------------------------CCTCGGGAGATATATGGAATCTCCTAAGGTGAAACA-TGAGGTGTTTTGGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4074069 126 -   4237731 tttatttT-------------------------------------TAGCTGGTAAGGGAACTCAATAGGCTGT--CTCTGAGGTTCTTACTGTATGAGTGAAGTTGAC-CTGCTCC--------------------------CCTCGGGAGATGTATGGAATCTCCTAAGGTGAAACA-TGAGGTATTTTGAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      342654 126 -   1175262 tttttttt-------------------------------------tAGCTGGTAAAGTAACTCAGTAGGCTGT--CTCTGAGGTTCTTACTGTACGAGTGAAGTTGAC-CTGCTGC--------------------------CCTCGGGAGATGTATGGAATCTCCTAAGGTGAAACA-TGAGGTGTTTTGAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123690931 119 - 204313951 T--------------------------------------------TAGCTAGTAGGGTAACTCAGTAGGCTGT--CTTTGAGGTTCTCACTGTACCAGTGAAGGTGAC-ATGCTCC--------------------------CCTAGGGAGATGTATGGAATCTCCTAAGGTGAAACA-TAAGGTGCTTTGAT
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55734870 163 -  71252344 tttttttttttttttttgcgtgtgtgtgtgtttgtttTTGTTTTATAGCTACTAGGATAACTCAGTAGGCTGT--CTCTGAGGTTCTCACTGTACCAGTGAAGGTGAC-ATGCTCC--------------------------CCTAGGGAGTTGTGTGGAATCTCCAAAGGTGAAACA-TAAGGTGTTTTGAT
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107590v1       38418 126 -   3089952 ttattttt-------------------------------------tAGCTAGTAGGGTAACTCAGTAGGCTGT--CTCTGAGGTTCTCACTGTACCAGTGAAGGTAAC-ATGCTCC--------------------------CCTAGGCAGATGTATGAAATCTCCAAAGGTGAAACA-TAAGGTGTTTTGAT
i cebCap1.NW_016107590v1   C 0 I 1
s aotNan1.NW_018505940v1    13238747 126 -  42888418 TTCTTTTG-------------------------------------TAGCTAGTAGGGTAACTCAGTAGGCTGT--CTCTGAGGTTCTCACTGTACCAGTGAAGGTGAC-ATGCTCC--------------------------CCTAGGGAGATGTATGGAATCTCCTAAGGTGAAACA-TAAAGTGTTTTGAT
i aotNan1.NW_018505940v1   I 21 I 1
s micMur3.chr12             60574627 124 + 108143057 --ACTTTC-------------------------------------TGGCTGGTAGGGTAACTCAGTAGGTTGT--CTCTGAGGTTCTCACTGGATGGAGGAAGGCGAT-GTGCCCC--------------------------TCTAGGAGGACGTGTGGAATCTCCTAAGGTGAGGCA-TGAGGTGTTTGGAT
i micMur3.chr12            C 0 I 119
s proCoq1.NW_012155062v1     3610537 124 +  11683526 --ACTTTT-------------------------------------TGGCTGGTAGGGTAACTCAGTAGGTTGT--CTCTGAGGTTCTCATCGGATGGGAGAAGGTGAC-GTGCCTC--------------------------CCTAGGAGGATGTATGGAATCTCCTAAGGTGAGGCA-TGAGGTGTTTTGAT
i proCoq1.NW_012155062v1   C 0 I 1
s otoGar3.GL873679           3093892 123 +   4132165 --ACTTTC-------------------------------------TGGCCAG-AAGGTAACTCTGTAGGTTGT--CTCTGAGGTGCTCACTGGATGGGTGAAGGAGAC-ATGCTCT--------------------------GCTAGGAGGATGCATGGAATCTCCTAACATGAGACA-TGAAGTGTTTTGGT
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55536059 108 +  90702639 ----------------------------------------------AGCTAGTTGGAT--CTCAGTAGGAGGCTACATTGAGATTCTCGGTGAATGGCTATATGGATC-CTATC-----------------------------------AGGTACATATTGTCTTCTAAGGTGAGGAA-GGGGATGTCTGGAG
i mm10.chr18               C 0 I 1
s canFam3.chr11             14938091 150 +  74389097 ---TTTCT-------------------------------------TGGCTGGTAGGAAAACTCAGTAAGCCAT--CTCTGTGATTCCTGCAGGATGGGAGAGGAAGTC-ATGCCCATCCATCCCCCAGACTCCCCACCCCCGCCCTGGGAGATGTATGGAATCTTCTGCCATGGGACAGCAAGGTGTTTTTGC
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2657304 124 +   3667625 -TGCTTTT-------------------------------------CGGCTGGTAGGGTACCTCAATA-GCTGC--TTCTGAGATTATCACTGAATGTGTGAGGAGGGTGAAGGTCG--------------------------CCTAGGGAGAGGAGTCGAATGCCCTCAGGTGGGACA--GGTGTGCTTGCTT
i dasNov3.JH567306         C 0 C 0

a score=1501040.000000
s hg38.chr5_KI270796v1_alt    117851 117 +    172708 AGCTAAAGA---TATCTTGGTTTTAAAAGGTAGAGAAATGCTGGGTAGGAAAAGC-------AAGGCCAAATGGAATCATATTACTTCTATCAGT--------ACAGGATAAAACAAAGGCAAGATTGGGGCAAT
s panTro5.chr5             125221537 117 + 181907262 AGCTAAAGA---TATCTTGGTTTTAAAAGGTAGAGAAATGCTGGGTAGGAAAAGC-------AAGGCCAAATGGAATCATATTACTTCTATCAGT--------ACAGGATAAAACAAAGGCAAGATTGGGGCAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126558237 117 + 183735486 AGCTAAAGA---TATCTTGGTTTTAAAAGGTAGAGAAATGCTGGGTAGGAAAAGC-------AAGGCCAAATGGAATCATATTACTTCTATCAGT--------ACAGGATAAAACAAAGGCAAGATTGGGGCAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1750019 117 +   8933513 AGCTAAAGA---TATCTTGGTTTTAAAAGGTAGAGAAATGCTGGGTAGGAAAAGC-------AAGGCCAAATGGAATCATATTACTTCTATCAGT--------ACAGGATAAAACAAAGGCAAGATTGGGGCAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139884376 117 + 163208435 AGCTAAAGA---TATCTTGGTTTTAAAAGGTGGAGAAATGCTGGGTAGGAAAAGC-------AAGGCCAAATGGAATCATATTACTTCTATTAGT--------ACAGGATAAAACAAAGGCAAGATTGGGGCAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122869030 118 + 180051392 AGCTAAAGA--TTATCTTGGTTTTAAAAGGTAGAGAAATGCTGGGTAGGAAAAGC-------AAGGCCAAATGGAATCACATTACTTCTATTAGT--------ACAGGATAAAATAAAAGCAAAATTGGGGCAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124292651 118 + 181584905 AGCTAAAGA--TTATCTTGGTTTTAAAAGGTAGAGAAATGCTGGGTAGGAAAAGC-------AAGGCCAAATGGAATCACATTACTTCTATTAGT--------ACAGGATAAAATAAAGGCAAAATTGGGGCAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16291011 118 +  18395747 AGCTAAAGA--TTATCTTGGTTTTAAAAGGTAGAGAAATGCTGGGTAGGAAAAGC-------AAGGCCAAATGGAATCACATTACTTCTATTAGT--------ACAGGATAAAATAAAGGCAAAATTGGGGCAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5303785 118 +  26952557 AGCTAAAGA--TTATCTTGGTTTTAAAAGGTGGAGAAATGCTGGGTAGGAAAAGC-------AAGGCCAAATGGAATCATATTACTTCTGTTAGT--------ACAGGATAAAATAAAGGCAAGATTGGGGCAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28404231 118 +  82825804 AGCTAAAGA--TTATTTTGGTTTTAAAAGGTAGAGAAATGCTGGGTAGGAAAAGC-------AAGGCCAAATGGAATCATATTACTTCTATTAGT--------ACAGGATAAAATAAAGGCAAGATTGGGGCAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4074195 118 -   4237731 AGCTAAAGA--TTATCTTGGTTTTAAAAGGTAGAGAAATGCTGGGTAGGAAAAGC-------AAGGCCAAATGGAATCATATTACTTCTGTTAGT--------ACAGGATAAAATAAAGGCAAGATTGGGGCAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      342780 118 -   1175262 AGCGAAAGA--TTATCTTGGTTTTAAAAGGTAGAGAAATGCTGGGTAGGAAAAGC-------AAGGCCAAATGGAATCATATTACTTCTATCAGT--------ACAGGATAAAATAAAGGCAAGATTGGGGCAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123691051 117 - 204313951 ATCTAAAGA---TATCTTGGTTTTAAAAGATAGAAAAATTCTAGGTAGGGAAAGC-------GAGGCCAAATGAAATCATATTAGTTCTACTACT--------GCAGGATAAAACAAAGGCAAGATTGTGGCAAT
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55735034 117 -  71252344 ATCTAACGA---TATCTTGGTTTTAAAAGGTGGAAAAATTCTAGGTAGGGAAAGC-------AAGACCAAATGAAATCATATTAGTTCTATTACT--------ACAGGATAAAACAAAAGCAAGATTGTGACAAT
i saiBol1.JH378106         I 1 C 0
s cebCap1.NW_016107590v1       38545 117 -   3089952 ATCTAAAGA---TATCTTGGTTTTAAAAGGTAGAAAAATTCTAGGTAGGGAAAGC-------AAGGCCAAATGAAATCATATTAGTTCTATTACT--------ACAGGATAAAACAAGAGCAAGATTGTGGCAAT
i cebCap1.NW_016107590v1   I 1 C 0
s aotNan1.NW_018505940v1    13238874 117 -  42888418 ATCTAAAGA---TATCTTGGTTTTAAAAGGTAGAAAAATTCTAGGTAGGGAAAGC-------AAGGCCAAATGAAATCATATTCGTTCTATTACT--------ACAGGATAAAACAAAAGCAAGATTGTGGCAAT
i aotNan1.NW_018505940v1   I 1 C 0
s proCoq1.NW_012155062v1     3610662 117 +  11683526 ATTGAAAGG---CAGTTTGGTTTTAGAAGGTGGGAAAACGTGGGGAAGAGGAAGC-------AAGGCCAAATGGAATCATATTGGTTCTATTACT--------ATGGGATGAGAGAAAGACAAAGTTGGTGCATT
i proCoq1.NW_012155062v1   I 1 C 0
s otoGar3.GL873679           3094016 115 +   4132165 ATGTAAAGG---CAGCTTGGTTTGAAAAGGTAAGGAAATACTGGGCAGAGGAAGG-------AAGGCCAAATGGAAGCACA-TGGTTCTATTACT--------ATGGGATGAGAGAAGGGC-AAGTTGGTGCATT
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55536168 112 +  90702639 ATGTAAGGCAGCTAGTTTGGTTTTA-ATGGTGGGGAAGTGCTGGGGAGAGACAGC-------AAAGTCCAGTGGGAATGTAATAGTTCTATGACC--------ACAG-----ACAAAAGGC--TACTCGGCTTAT
i mm10.chr18               I 1 I 4
s canFam3.chr11             14938243 114 +  74389097 ATCTAGAAC-TTCATCATGTTTT--AAACGTGATAAAAAGCTGGGTAGCAAAAGA-------AAGGCCAAATGATATTGTATTGGTTCTATCACT--------A--AGATGAAAAATAGGCAAGGTTAGTACAT-
i canFam3.chr11            I 2 C 0
s dasNov3.JH567306           2657428 131 +   3667625 ATCTGAAGA---AGGCTTGGTGTTAAAAGGTGGAGAA-TGCTGGTTAGAGGAGGTAAGAATGAAGACTAATTGGAATTATATTGGTTCTTTCTGTGAAAAAAAACAAAACAAAAAACAGACAAGGTTGGTGCAAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60574751 119 + 108143057 I

a score=5015273.000000
s hg38.chr5_KI270796v1_alt    117968 353 +    172708 TAAAAAGTAAGAAGTGATTTAAGATGAAGG-GGAGAGAATGAGAATAAAACG---AGCTTCTTGAAATTATGAGTGTTACCTTGGTTTCTTTTGAGTCTGCCTATTTACATCTTATTC--TTAGTTTACCCTTTAAAGTCACTGGATTATGCAATTATATCTTACTTAGGGCAAGTGGC-TGCTGAT-AATaatcacagaatcatagaattgtagaatgggtagaaatcttaggcgttgtttcattttataagtgag-aaactgaagtacaaagaACAGTTGCACAGTCATAAGAAACAGGTTTTAAAGAAAATTATTGGAGGAAGAGACAACTAGGGCTCTCTACTTATTGGTCCATGTTT
s panTro5.chr5             125221654 353 + 181907262 TAAAAAGTAAGAAGTGATTTAAGATGAAGG-GGAGAGAATGAGAATAAAATG---AGCTTCTTGAAATTATGGGTGTTACCTTGGTTTCTTTTGAGTCTGCCTATTTACATCTTATTC--TTAGTTTACCCTTTAAAGTCACTGGATTATGCAATTGTATCTTACTTAGGGCAAGTGGC-TGCTGAT-AATaatcacagaatcatagaattgtagaatgggtagaaatgttaggcattgtttcattttataaatgag-aaactgaagtacaaagaACAGTTGCACAGTCATAATAAACAGGTTTTAAAGAAAATTATTGGAGGAAGAGACAACTAGGGCTCTCTACTTATTGGTCCATGTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126558354 353 + 183735486 TAAAAAGTAAGAAGTGATTTAAGATGAAGG-GGAGAGAATGAGAATAAAATG---AGCTTCTTGAAATTATGGGTGTTACCTTGGTTTCTTTTGAGTCTGCCTATTTACATCTTATTC--TTAGTTTACCCTTTAAAGTCACTGGATTATGCAATTATATCTTACTTAGGGCAAGTGGC-TGCTGAT-AATaatcacagaatcatagaattgtagaatgggtagaaatgttaggcattgtttcattttataaatgag-aaactgaagtacaaagaACAGTTGCACAGTCATAATAAACAGGTTTTAAAGAAAATTATTGGAGGAAGAGACAACTAGGGCTCTCTACTTATTGGTCCATGTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1750136 353 +   8933513 TAAAAAGTAAGAAGTGATTTAAGATGAAGG-GGAGAGAATGAGAATAAAACG---AGGTTCTTGAAATTATGGGTGTTACCTTGGTTTCTTTTGGGTCTGCCTATTTACATCTTATTC--TTAGTTTACCCTTTAAAGTCACTGGATTATGCAATTATATCTTACTTAGGGCAAGTGGC-TTTTGAT-AATaatcacagaatcatagaattgtagaatgggtagaaatcttaggcattgtttcattttataaatgag-aaactgaagtacaaagaACAGTTGCGCAGTCATAATAAACAGGTTTTAAAGAAAATTATTGGAGGAAGAGACAACTAGGGCTCTCTACTTATTGGTCCATGTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139884493 353 + 163208435 TAAAAAGTAAGAAATGATTTAAGATGAAGG-GGAGGGAATGAGAATACAATG---AGCTTCTTGAAATTATGGGTGTTACCTTGGTTTCTTTTGAGTCTGCCTATTTACATCTTATTC--TTAGTTTACTCTTTAAAGTCACTGGATTATGCAATTATATCTTATTTAGGGTGAATGGC-TGCTGAT-AATaatcacagaatcatagaattgtagaatgggtagaaatcttaggcattgtttcattttataaatgag-aaactgaagtacaaagaACAGTTGCACAGTCATAATAAACAGGTTTTAAATAAAATTATTGGAGGAAGAGACAACTAGGGCTCTCTACTTATTGGTCCATGTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122869148 353 + 180051392 TAAAAAGTAAGAAGTGATTTAAGGTGAAAG-GGAGAGAATGAGAATAAAACG---AGCTTCTTGAAATTATGGGTGTTACCTTGGTTTCTTTTGAGTCTGCCTATTTACATCTTATTC--TTAGTTTGCCCTTTGAAGTCACTGGGTTATGCAATTATATCTTACTTAGGACAAATTGC-TGCTGAT-AATaatcacagaatcatagaattgtagaatgggtagaaatcttaggcattgtttctttttacaaatgag-aaactgaagtacaaagaACAGTTGCACAGTCATAATAAACAGGTTTTAAATAAAACTATTGGAGGAAGAGACAACTAGGCCTCTCTATTTATTGGTCCATGTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124292769 353 + 181584905 TAAAAAGTAAGAAGTGATTTAAGGTGAAAG-GGAGAGAATGAGAATAAAACG---AGCTTATTGAAATTATGGGTGTTACCTTGGTTTCTTTTGAGTCTGCCTATTTACATCTTATTC--TTAGTTTGCCCTTTGAAGTCACTGGGTTATGCAATTATATCTTACTTAGGACAAATTGC-TGCTGAT-AATaatcacagaatcatagaattgtagaatgggtagaaatcttaggcattgtttctttttacaaatgag-aaactgaagtacaaagaACAGTTGCACAGTCATAATAAACAGGTTTTAAATAAAACTATTGGAGGAAGAGACAACTAGGGCTCTCTATTTATTGGTCCATGTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16291129 353 +  18395747 TAAAAAGTAAGAAGTGATTTAAGGTGAAAG-GTAGAGAATGAGAATAAAACG---AGCTTCTTGAAATTATGGGTGTTACCTTGGTTTCTTTTGAGTCTGCCTATTTACATCTTATTC--TTAGTTTGCCCTTTGAAGTCACTGGGTTATGCAATTATATCTTACTTAGGACAAATTGC-TGCTGAT-AATaatcacagaatcatagaattgtagaatgggtagaaatcttaggcattgtttctttttacaaatgag-aaactgaagtacaaagaACAGTTGCACAGTCATAATAAACAGGTTTTAAATAAAACTATTGGAGGAAGAGACAACTAGGGCTCTCTATTTATTGGTCCATGTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5303903 353 +  26952557 TAAAAAGTAAGAAGTGATTTAAGGTGAAAG-GGAGAGAATGAGAATAAAACG---AGCTTATTGAAATTATGGGTGTTACCTTGGTTTCTTTTGAATCTGCCTATTTACATCTTATTC--TTAGTTTGCCCTTTAAAGTCACTGGGTTATTCAATTATATCTTACTTAGGAAAAATTGC-TGCTGAT-AATaatcacagaatcatagaattgtagaatgggtagaaatcttaggcattgtttctttttacaaatgag-aaactgaagtacaaagaACAGTTGCACAGTCATAATAAACAGGTTTTAAATAAAACTATTGGAGGAAGAGACAACTAGGGCTCTCTATTTATTGGTCCATGTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28404349 353 +  82825804 TAAAAAGTAAGAAGTGATTTAAGGTGAAAG-GGAGAGAATGAGAATAAAACG---AGCTTATTGAAATTATGGGTGTTACCTTGGTTTCTTTTGAGTCTGCCTATTTACATCTTATTC--TTAGTTTGCCCTTTAAAGTCACTGGGTTATGCAATTATATCTTACTTAGGGCAAATTGC-TGCTGAT-AATaatcacagaatcatagaattgtagaatgggtagaaatcttaggcattgtttctttttacaaatgag-aaactgaagtacaaagaCCAGTTGCACAGTCATAATAAACAGGTTTTAAATAAAACTATTGGAGTAAGAGACAACTAGGGCTCTCTATTAATTGGTCCATGTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4074313 353 -   4237731 TAAAAAGTAAGAAGTGATTTAAGGTGAAAG-GGAGAGAATGAGAATAAAACG---AGCTTATTGAAATTATGGGTGTTACCTTGGTTTCTTTTGAATCTGCCTATTTACATCTTATTC--TTAGTTTGCCCTTTAAAGTCACTGGGTTATGCAATTATATCTTACTTAGGACAAATTGC-TGCTGAT-AATaatcacagaatcatagaattgtagaatgggtagaaatcttaggcattgtttctttttacaaatgag-aaactgaagtacaaagaACAGTTGCACAGTCATAATAAACAGGTTTTAAATAAAACTATTGGAGGAAGAGACAACTAGGGCTCTCTATTTATTGGTCCATGTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      342898 353 -   1175262 TAAAAAGTAAGAAGTGATTTAAGGTGAAAG-GGAGAGAATGAGAATAAAATG---AGCTTATTGAAATTGTGGGTGTTACCTTGGTTTCTTTTGAGTCTGCCTATTTACATCTTATTC--TTAGTTTGCCCTTTAACGTCACTGGGTTATGCAATTATATCTTACTTAGGGCAAATTGC-TGCTGAT-AATaatcacagaatcatagaattatagaatgggtagaaatcttaggcattgtttctttttacaaatgag-aaactgaagtacaaagaACAGGTGCACAGTCATAATAAACAGGTTTTAAATAAAACTATTGGAGGAAGAGACAACTAGGGCTCTCTATTTACTGGTCCATGTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123691168 351 - 204313951 TAAAAAGTAAGAAGTGATTTAAGATGAAAG-GGAGAGAATGAGAATGAAA-----AGTTTCCTGAGATTCTGGGTATTACCTGGGTTTCTTTTGAGTCTGCCTATTTACATCTGATTC--TTAGTTTGCCCTTTACAGTCACTGGGTTATCCAATAATATCTCACTTAGGACAAATGGC-TGCTAAT-AATaatcacagaatcatagaattgtagaatgggtagaaatcttaggaactgttttgttctatacatgag-aaactgaagtacaaagGACAGTTACACAGTCATAATACACAGGTTTTAAATGAAATTATCAGAGGAAGAGATAACTAGGGCTCTCTACTTATTGATCCATGTTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55735151 353 -  71252344 TAAAAAGTAAGAAGTGATTTAAGATGAAAG-GGAGCGAATGAGAATGAAAAG---AGTTTCCTGAAATTATGGGTATTACCTTGGTTTCTTTTGAGTCTGCCTATTTACATCTTATTC--TTAGTTTGCCCTTTGCAGTCACTGGGTTATCCAATGATATCTTACTTAGGACAAATGGC-TGCTAAT-AATaatcacagaatcatagaattgtagaatgggtagaaatcttaggaactgtttcattttatacatgag-aaactgaagtacaaagaACAGTTACACAGTCATAATAAACAGGTTTTAAATGAAATGATCAGAGGAAGCGATTACTAGGGCTCTCTACTTATTGATCCATGTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       38662 353 -   3089952 TAAAAAGTAAGAAGTGATTTAAGATGAAAG-GGAGAGAATGAAAATGAAAAG---AGTTTCTTGAAATTATGGGTATTACCGTGGTTTCTTTTGAGTCTGCCTATTTACATCTTATAC--TCAGCTTGCCTTTTACAGTCACGGGGTTATCCAATGATATCTTACTTAGGACAAATGGC-TGCTAAC-AATaatcacagaatcatagaattgtagaatgcgtagaaatcttaggaactgtttcattttatacatgag-aaactgaagtacaaagaACAGTTATGCAGTCATATTAAACAGGTTTTAAATGAAATTATCAGAGGAAGAGATAACTAGGGCTCTCTACTTACTGATCCATGTTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13238991 351 -  42888418 TAAAATGTAAGAAGTGATTTAAGATGAAAG-GGAGAGAATGAGAATGAAG-----AGTTTCTTGAAATTATGGGTATTACCTTGGTTTCTTTTGAGCCTGCCTATTTACATCTTATTC--TTAGTTTGCCCTTTACAGTCACTAGGTTATCCAATGATATCTTACTTAGGACAAATGGC-TGCTAAT-AATaatcacagactcatagaattgtagaatgggtagaaatcttaggaactgtttcattttatacatgag-aaactgaagtacaaagaACAGTTGCACAGTCATAATAAACAGGTTTTAAATGAAATTATCAGAGGAAGAGATAACTAGGACTCTCTACTTACTGATCCATGTTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60574870 336 + 108143057 AAAAAAATAAGGAGTGATTTGAGAT-----------GAATAAGAATAAAAAG---AGCTGCATGAAATTACAAATATTACCTTGGCTTCCTTTGAATTTGCCTGTTTAAATCTT---C------TTTGTCCTTTAAAGTCACCAGGGCATCCAGTGACATCCTGCTTAAAGCAAATGGCTTACTGAT-ATTGATCAAAGAATCACAGAATTATAGAATGGGTCAGAATCTTAGGCATTGTTTCATTTGATACATGAGAAAAT--AAGTACAAAGCGTAGTTCCACAGTCATAATGAACAGGGTTTTAATGAAACTACTGAAGGAAGAGACAAGTGGGGCTCTCTTCTTACAGGTCCATATTT
i micMur3.chr12            I 119 C 0
s proCoq1.NW_012155062v1     3610779 343 +  11683526 AAAAAAGTAAGGAGTGATTTGGGAT-----------GAATAAGAATAAAAAG---AGCTGCTTGAAATTACAAGTATTACCTTGGTTTCTTTTGAATCTGCCTGTTTAAATCTT---C--TTTGTTTGTCCTTTAAAGTCACCGGGATATCCAATTACATCCTACTTAATGCAAATGGCTTACTGATAATTGatcaaagaatcacagaattatggaatgggtaggaaccttaggcattgtttcatttggtacatgagaaaactaaagtacaaagTGCAGTTCCACAGTCATAATGAACAGGTTTTTAATGAAACTATTGAAGGAAGAGACAAGTGGGGCTCTCTACCTACAGGTCCATATTT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3094131 339 +   4132165 AAAAATGTAAGAAGTGATCTGGGAT-----------GAATGAGAATAAAAAG---AGCTATTTGAAATTACAAATAATACTTTGGTTTCCTTTGAATCTGCCTGTTTAAATATT---C--TTAGTTTGCACTTTAAAGTCACCAGGATATCCAATTATAGCCTACTTAGAGCAAATGGTTTGCTGAC-ATTGatcaaagaatcacagaattatagaatgggtaggaatcttaggcattgtttcattttgtacatgagaaaactaaagtacaaagagCAGTTCCATAGCCACAATGAACAGGTTTTTAATGAAATTAGTGAAGAAAGAGACAA-TGGGG-TCTCTACTTACAGATCTATATT-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55536284 300 +  90702639 TACAAAATGTATGGTGACTTGAGATG-AGG-ACAGAGAATTAAAATAGAAAGAGAAGTTGCTTGAAGTTTTGAGTGCTTCCTC--TATATTTCAAATATGTC---------------C--TTTGCCTGCCACTTTAAGATACAGGGGTGTCTTACTGCATTGTCTTTGGGGCCAATGGCTTGCTCAT-AATGATTCTAGTAC---------------TGAGGATGAATCTTCACCACTGTTTCA----GCACATGGG-AAAT--------------CAGTTCCAGAAACA------ATGCATTTTTACTGAAATGCTTCAAGAAAGAGGCAATTGTACGTCTCTACTTACTCATCCAGGCCT
i mm10.chr18               I 4 I 2005
s canFam3.chr11             14938357 335 +  74389097 TAAAAA------AGTGATTCAGAATGAAAACGGAGACAGTGGGAAATTTAAA---ACCTGCATGAAATTAAGGATATGACCTCTGTTTCCTTAGATTCTGCCTGTTTGAATTATATTCTTTTAGTTTACCCTCTCACA-CACCAGGGTCGCTAAATACGTTTTACTGACAGCAAATGCCTTGTTGAC-AGTAATCACAGAAACAGAGAATTACA-----------AATCCTAGACATCACTTCATTTTATATATGAG-TAAATGAAGTACAAAA---AGTTACACATGCACAATGAACAGGTTTT-AATGAAATGATTGAAGAAGGATACAATTAGGATCCTATATTTACTACTCTGTGTTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2657559 336 +   3667625 -AAAGAGGGAAGGGTGATTTGGAATGACAA-GGAGAGCGTTAGAAAGAAAAG---A-CTGCTTGAAATTAAGGATGTTACGTCTATTTTCTTAGAATTTACCTGTTCAAATCATTGTC--CTAGATTTTCCTTTTATGTCACCAGGGTCTCCAATTATATTCTACTTAGG-CAAATGGCTTGCTGAT-CAAAAACACATAATC--AGAATAATAGAGAGGGTAG-AATCTCAGACATCATTT-ATTTTACATAAAGGAAAACTGAAG-------AGAAGTTGCATACTCATAAGGAAAAGGTTTT-AATGAAATTACTGAAATAAAGAACAATTGAGGCTCTGTAC----AGGTCCATGTTG
i dasNov3.JH567306         C 0 C 0

a score=523309.000000
s hg38.chr5_KI270796v1_alt    118321 41 +    172708 ATTGTGGAATTAGCCTGATTACCAATATTGATGAAAGAAAC
s panTro5.chr5             125222007 41 + 181907262 ATTGTGCAATTAGCCTGATTACCAATATTGATGAAAGAAAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126558707 41 + 183735486 ATTGTGGAATTAGCCTGATTACCAATATTGATGAAAGAAAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1750489 41 +   8933513 ATTGTGGAATTAGCCTGATTACCAATATTGATGAAAGAAAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139884846 41 + 163208435 ATTGTGGAATTAGCCTGATTGCCAATATTGATGAAAGAAAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122869501 41 + 180051392 ATTGTGGAATTAGCCTGATTACCAATACTGATGAAATAAAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124293122 41 + 181584905 ATTGTGGAATTAGCCTGATTACCAATACTGATGAAATAAAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16291482 41 +  18395747 ATTGTGGAATTAGCCTGATTACCAATACTGATGAAATAAAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5304256 41 +  26952557 ATTGTGGAATTAGCCTGATTACCAATACTGATGAAATAAAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28404702 41 +  82825804 ATTGTGGAATTAGCCTGATTACCAATATTGATGAAATAAAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4074666 41 -   4237731 ATTGTGGAATTAGCCTGATTACCAATTCTGATGAAATAAAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      343251 41 -   1175262 ATTGTGGAATTAGCCTGATTACCAATATTGATGAAATAAAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123691519 41 - 204313951 ACTGTGGGGTTAGCCTGACTAGCAATCATGATGAAAGAAAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55735504 41 -  71252344 ACTGTGGGGTTAGCCTGGTTACCAATCATGATGAAAGAAAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       39015 41 -   3089952 ACTGTGGGGTTAGACTGATTACCAATCATGATGAAATAAAC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13239342 41 -  42888418 ACTGTGGGGTTAGCCTGATTACCAATCATGATGAAAGAAAC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60575206 41 + 108143057 ACTGGGAGATTCACCTGTTTACAAATACAGAGGAAAGATAC
i micMur3.chr12            C 0 I 17
s proCoq1.NW_012155062v1     3611122 41 +  11683526 ATTGGGGGATTAACCTGTTTACAAATGCAGATGAAAGATAC
i proCoq1.NW_012155062v1   C 0 I 2
s otoGar3.GL873679           3094470 37 +   4132165 ----GGGGATTAACGTACTTACAAATACAGATGAATGATAC
i otoGar3.GL873679         C 0 I 2
s canFam3.chr11             14938692 41 +  74389097 ACTGGACTATTAACTTGATCACCCATATAAACAAAACCTAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2657895 41 +   3667625 ACTGGGGTATTAACCTGATAACTTATATGAATGAAACACAC
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55536584 2005 +  90702639 I

a score=184757.000000
s hg38.chr5_KI270796v1_alt    118362 16 +    172708 CCCTTCTA-----CAACtata
s panTro5.chr5             125222048 16 + 181907262 CCCTTCTA-----CGACtata
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126558748 16 + 183735486 CCCTTCTA-----CGACtata
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1750530 16 +   8933513 CCCTTCTA-----CAACtata
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139884887 16 + 163208435 CCCTTCTA-----CAACtata
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122869542 16 + 180051392 CCCTTCTA-----CAACtata
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124293163 16 + 181584905 CCCTTCTA-----CAACtata
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16291523 16 +  18395747 CCCTTCTA-----CAACtata
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5304297 16 +  26952557 CCCTTCTA-----CAACtata
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28404743 16 +  82825804 CCCTTCTA-----CAATtata
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4074707 16 -   4237731 CCCTTCTA-----CAACtata
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      343292 16 -   1175262 CCCTTCTA-----CAACGATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123691560 16 - 204313951 CCCTTCTA-----TAACtata
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55735545 16 -  71252344 CCCTTCTA-----TAACtata
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       39056 16 -   3089952 TCCTTCTA-----TAACtata
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13239383 16 -  42888418 CCCTTCTA-----TAACtata
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3611165 15 +  11683526 CTATGCTA-----TAACTGT-
i proCoq1.NW_012155062v1   I 2 C 0
s otoGar3.GL873679           3094509 16 +   4132165 GTATGCTC-----TAACTTTA
i otoGar3.GL873679         I 2 C 0
s canFam3.chr11             14938733 20 +  74389097 CTCTTCTGTGCT-CAACTAGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2657936 21 +   3667625 CCCTTCTATGCTGCAATtgta
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60575247 17 + 108143057 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=2635056.000000
s hg38.chr5_KI270796v1_alt    118378 186 +    172708 aaatgatggttgagagcacaggcttaagatcacagatgcctgagcttg-actcccagctcagcaaata-caaaatg-tataatcttgatcaagtaacttgacttccccagcctcagtca---tctcatttgaaaaacagggaaaattttcattcctactttttctggtatcatgaagagcaga-tgagataat
s panTro5.chr5             125222064 186 + 181907262 aaatgatggttgagagcacaggcttaagatcacagatgcctgagcttg-actcccagctcagcaaata-caaaatg-tataatcttgatcaagtaacttgacttccccagcctcagtct---tctcatttgtaaaacagggaaatttttcattcctactttttctggtatcatgaagagtaga-tgagataat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126558764 186 + 183735486 aaatgatggttgagagcacaggcttaagatcacagatgcctgagcttg-actcccagctcagcaaata-caaaatg-tataatcttgatcaagtaacttgacttccccagcctcagtct---tctcatttgtaaaacagggaaatttttcattcctactttttctggtatcatgaagagtaga-tgagataat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1750546 186 +   8933513 aaacgatggttgagagcataggcttaagatcacagatgcctgagcttg-actcccagctcagcaaata-caaaatg-tataatcttgatcaagcaacttgacttccccagcctcagtct---tctcatttgtaaaacagggaaaattttcattcctactttttctggtatcatgaagagtaga-tgagataat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139884903 186 + 163208435 aaacgatggttgagagcacaggcttaagatcacagatgcctgagcttg-actcccagctcagcaaata-aaaaatg-tataatcttgatcaagtaacttaacttccccagcctcagtct---tctcatttgtaaaacagggaaaattttcattcctactttttctggtattacgaagagtaga-tgagataat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122869558 185 + 180051392 agatgatggttgaaagcacaggcttaag-ccacagatgcctgagcttg-actcccagctcagcaaata-tgaaatg-tataatcttgatcaagtaacttgacttccccagcctcagtct---tctcatttgtaaaacagggaaagttttcattcctactttttctggtgtcgtgaagagtaga-tgagataat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124293179 185 + 181584905 agatgatggttgaaagcacaggcttaag-ccacagatgcctgagcttg-actcccagctcagcaaata-tgaaatg-tataatcttgatcaagtaacttgacttccccagcctcagtct---tctcatttgtaaaacagggaaagttttcattcctactttttctggtgtcgtgaagagtaga-tgagataat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16291539 185 +  18395747 agatgatggttgaaagcacaggcttaag-ccacagatgcctgagcttg-actcccagctcagcaaata-tgaaatg-tataatcttgatcaagtaacttgacttccccagcctcagtct---tctcatttgtaaaacagggaaagttttcattcctactttttctggtgtcgtgaagagtaga-tgagataat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5304313 185 +  26952557 agatgatggttgaaagcacaggcttaag-ccacagatacctgagcttg-actcccagctcagcaaata-tgaaatg-tataatcttgatcaagtaacttgacttccccagcctcagtct---tctcatttgtaaaacagggaaagttttcattcctactttttctggtgtcatgaagagtaga-tgagataat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28404759 185 +  82825804 agatgatggttgaaagcacaggcttaag-ccacagatggctgagcttg-actcccagctcagcaaata-tgaaatg-tataatcttgatcaagtaacttgacttccccagcctcagtct---tctcatttgtaaaacagggaaagttttcattcctactttttctggtgtcgcgaagagtaga-tgagataat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4074723 185 -   4237731 agatgatggttgaaagcacaggcttaag-ccacagatgcctgagcttg-actcccagctcagcaaata-tgaaatg-tataatcttgatcaagtaacttgacttccccagcctcagtct---tctcatttgtaaaacagggaaagttttcattcctactttttctggtgtcatgaagagtaga-tgagataat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      343308 185 -   1175262 AGatgatggttgaaagcacaggcttaag-ccacagatgcctgagcttg-actcccagctcagcaaata-tgaaatg-tataatcttgatcaagtaacttgacttccccagcctcagtct---tctcatttgtaaaacagggaaagttttcattcctgctttttctggtgtcgtgaagagtaga-tgagataat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123691576 186 - 204313951 aaatgatggttgagagcacaggcttaagatcacagatgcctgagcttg-actcccagctcagcaaata-tgaaatg-cataatcttgatcaagtaacttgacttccccagcctcaaggt---tcttatgtgtaaaacgtggaaagttttcatttctagtttttctagtgtcatgaagagtaga-tgccataat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55735561 186 -  71252344 aaatgatggttgagagcacaggcttaagatcacaaatacctgagcttg-actcccagctcagcaaata-tgaaatg-cataatcttgatcaagtaacttgacttccccagcctcggtgt---tcttacatgtaaaacgtggaaagtttttatttctagtttttctagtgtcgtgaagagtaga-tgccataat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       39072 186 -   3089952 aaatgttggttgagagcagaggcttaagatcacagatgcctgagcttg-actcccagctcagcaaata-tgaaatg-cataatcttgatcaagtaatttgacttccccagccttggcgt---tcttatgtgtaaaacgcagaaagttttcatttctagtttttctagtgtcgtgaagagtaga-tgccgtaat
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13239399 186 -  42888418 aaatgatggttgagagcaccggcttaagatcacagatgcctgagcttg-actcccagctcagcgaata-tgaaatg-cataatcttgatcaagtaacttgacttccccagcctcagtgt---tcttatgtgtaaaatggggaaagttttcatttctagtttttctagtgtcgtgaagagtaga-tgccataat
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60575264 186 + 108143057 AAATGGTGGCTaagagcacgggcttagggtcagagaggcttgagcttg-gcccttagctcagcaaatg-tgaaagg-tacgaccttgatcaaggaacttgactttgctagcctcagttt---tcttatttgtaaaatagggaaagttttcatttctactttttcaggtcttatgaagaataga-tgagataat
i micMur3.chr12            I 17 C 0
s proCoq1.NW_012155062v1     3611180 185 +  11683526 AAATGGTGGCTCagagcataggcttagggt-agagaggcctaagcttg-gcttttagttcagcaaatg-tgaaatg-tacaaccttgatcagggaacttgactttgctagtctcagttt---ttttatttgtaaaatagggaaagttttcatttctactttttcaggtcttgtgaagagtagc-tgagataat
i proCoq1.NW_012155062v1   C 0 I 140
s otoGar3.GL873679           3094525 188 +   4132165 AAGCGGTGATTGagagcacagggttagcgtgagaaaggcctgaacttg-acctttagctcagcaaata-tgaaatg-tatgatcttgatcaaggaaattcactttgttagtgtcagttgttatcatatttgtaaaat-tagaaagttttcatttctaattttttaggtcttgtgaagaatgga-tgagagaat
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14938753 180 +  74389097 ATATGGTAGTTGGgagtagaagcttgagatcacaggtg--tgagcatg-ac-ctcagctcagcaaatg-ttatatgttgtcatcttgatcaagtgatttgacttctctaaggt--gtgc---tcttatttataaaataagg--agttttaattcctacttgttcttaccttgt-aagagtgcagtgagatagt
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2657957 181 +   3667625 atatagtggttgacagttcag--tttgg-tatcagaggtctgcggtggaaccccaagctttacaaatgttaaaatg-tgtgattgtgatcaagtaatttgacctctttagccccagctt-------atttgtaatagagggaaaattttaattactacttctccttgttttgtgggaattaga-tgagatagt
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55536584 2005 +  90702639 I

a score=60182.000000
s hg38.chr5_KI270796v1_alt    118564 4 +    172708 atct
s panTro5.chr5             125222250 4 + 181907262 atct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126558950 4 + 183735486 atct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1750732 4 +   8933513 atct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139885089 4 + 163208435 atct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122869743 4 + 180051392 atct
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124293364 4 + 181584905 atct
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16291724 4 +  18395747 atct
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5304498 4 +  26952557 atct
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28404944 4 +  82825804 atct
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4074908 4 -   4237731 atct
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      343493 4 -   1175262 atct
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123691762 4 - 204313951 atct
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55735747 4 -  71252344 atct
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       39258 4 -   3089952 aTCT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13239585 4 -  42888418 atct
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60575450 4 + 108143057 atgt
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3094713 4 +   4132165 atct
i otoGar3.GL873679         C 0 I 71
s canFam3.chr11             14938933 4 +  74389097 attt
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2658138 4 +   3667625 ttct
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3611365 140 +  11683526 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=185843.000000
s hg38.chr5_KI270796v1_alt    118568 15 +    172708 -----caccttctggtacat
s panTro5.chr5             125222254 15 + 181907262 -----cgccttctggtacat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126558954 15 + 183735486 -----cgccttctggtacat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1750736 15 +   8933513 -----cgccttctggtacat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139885093 15 + 163208435 -----cgccttctggtacat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122869747 15 + 180051392 -----caccttctggtacat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124293368 15 + 181584905 -----caccttctggtacat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16291728 15 +  18395747 -----caccttctggtacat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5304502 15 +  26952557 -----caccttctggtacat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28404948 15 +  82825804 -----caccttctgttacat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4074912 15 -   4237731 -----caccttctggtacgt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      343497 15 -   1175262 -----caccttctgatacat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123691766 15 - 204313951 -----cactttctggtacat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55735751 15 -  71252344 -----cactttctggtacat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       39262 15 -   3089952 -----CACTTTCTGGTACAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13239589 15 -  42888418 -----cactttctggtacat
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60575454 15 + 108143057 -----caccctctggaacat
i micMur3.chr12            C 0 I 87
s canFam3.chr11             14938937 15 +  74389097 -----tactctctggctcat
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2658142 20 +   3667625 tatctcaggccctggaacat
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3611365 140 +  11683526 I
e otoGar3.GL873679           3094717 71 +   4132165 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=264681.000000
s hg38.chr5_KI270796v1_alt    118583 22 +    172708 -agtaaacaatgaacaaagggta
s panTro5.chr5             125222269 22 + 181907262 -agtaaacaatgaacaaagggta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126558969 22 + 183735486 -agtaaacaatgaacaaagggta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1750751 22 +   8933513 -agtaaacaatgaacaaagggta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139885108 22 + 163208435 -agtaagcaatgaacaaagggta
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122869762 22 + 180051392 -agtaagcaatgaacaaagggta
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124293383 22 + 181584905 -agtaagcaatgaacaaagggta
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16291743 22 +  18395747 -agtaagcaatgaacaaagggta
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5304517 22 +  26952557 -agtaagcaatgaacaaagggta
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28404963 22 +  82825804 -agtaagcaatgaacaaagggta
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4074927 22 -   4237731 -agtaagcaatgaacaaagggta
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      343512 22 -   1175262 -agtaagcaatgaacaaagggta
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123691781 22 - 204313951 -ggtaaacaattaacaaagggta
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55735766 22 -  71252344 -ggtaaacaattaacaaagggta
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       39277 22 -   3089952 -GGTAAACAATTAACAAAGGGTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13239604 22 -  42888418 -ggtaaacaattaacaaagggta
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14938952 22 +  74389097 -atcaaacaattaataaatggta
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2658162 23 +   3667625 aaataagcaattaataaatggta
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60575469 87 + 108143057 I
e proCoq1.NW_012155062v1     3611365 140 +  11683526 I
e otoGar3.GL873679           3094717 71 +   4132165 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=357492.000000
s hg38.chr5_KI270796v1_alt    118605 33 +    172708 gatattatA-TTTTTATTTTAACACCTGAGTGTT
s panTro5.chr5             125222291 33 + 181907262 gatattatA-TTTTTATTTTAACACCTGAGTGTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126558991 33 + 183735486 gatattatA-TTTTTATTTTAACACCTGAGTGTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1750773 33 +   8933513 gatattatA-TTTTTATTTTAACACCTGAGTGTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139885130 34 + 163208435 gatattaCATTTTTTATTTTAACACCTGAGTGTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122869784 33 + 180051392 aatattatG-TTTTTATTTTAACACCTGAGTGTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124293405 33 + 181584905 aatattatG-TTTTTATTTTAACACCTGAGTGTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16291765 33 +  18395747 aatattatG-TTTTTATTTTAACACCTGAGTGTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5304539 33 +  26952557 aatattatA-TTTTTATTTTAACACTTGAGTGTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28404985 33 +  82825804 aatattatA-TTTTTATTTTAACACCTGAGTGTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4074949 33 -   4237731 aatattatA-TTTTTATTTTAACACCTGAGTGTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      343534 33 -   1175262 aatattatA-TTTTTATTTTAACACCTGAGTGTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123691803 33 - 204313951 gatattatA-TTTTTCCTTTAACCTCTGAGTGTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55735788 33 -  71252344 gatattatA-TTATTCTTTTAACCTCTGAGTGTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       39299 33 -   3089952 GATATTATA-TTTTTCTTTTAACCACTAAGTGTC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13239626 33 -  42888418 gatattgtA-TTTTTCTTTTAACCTCTGAGTGTC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3094788 31 +   4132165 gatgagata--tcttatctctccacctg-gcacc
i otoGar3.GL873679         I 71 C 0
s canFam3.chr11             14938974 30 +  74389097 ---gatatg-ttTCTATTTTAACATCTCAGTGTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2658185 33 +   3667625 gattttata-ttTTTATTTCAGCACCTCACTGTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60575469 87 + 108143057 I
e proCoq1.NW_012155062v1     3611365 140 +  11683526 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=223853.000000
s hg38.chr5_KI270796v1_alt    118638 17 +    172708 TGAGACGTAAT------------TTAGTC
s panTro5.chr5             125222324 17 + 181907262 TGAGACGTAAT------------TTAGTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126559024 17 + 183735486 TGAGACGTAAT------------TTAGTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1750806 17 +   8933513 TGAGACATAAT------------TTAGTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139885164 17 + 163208435 TCAGACATAAT------------TTAGTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122869817 17 + 180051392 TGAGTCATAAT------------TTAGTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124293438 17 + 181584905 TGAGACATAAT------------TTAGTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16291798 17 +  18395747 TGAGACATAAT------------TTAGTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5304572 17 +  26952557 TGAGACATAAT------------TTAGTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28405018 17 +  82825804 TGAGACATAAT------------TTAGTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4074982 17 -   4237731 TGAGACATAAT------------TTAGTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      343567 17 -   1175262 TGAGACATAAT------------TTAGTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123691836 17 - 204313951 TGAGACATAAT------------TTAGTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55735821 17 -  71252344 TGAGACATAAT------------TTAGTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       39332 17 -   3089952 TGAGACATAAT------------TTAGTC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13239659 17 -  42888418 TGAGACATAAT------------TTAGTC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60575556 17 + 108143057 tgagGCGTAAC------------ATAGTC
i micMur3.chr12            I 87 C 0
s otoGar3.GL873679           3094819 29 +   4132165 tggtaagcaattctaaatggtagATAGTA
i otoGar3.GL873679         C 0 I 6
s canFam3.chr11             14939004 17 +  74389097 TGAGACACAAT------------TTAGTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2658218 17 +   3667625 TGTAACTTGAT------------TTAGTC
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3611365 140 +  11683526 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=931411.000000
s hg38.chr5_KI270796v1_alt    118655 62 +    172708 ATTTAATGTCCTGACATGAACTGCCAAGGGCACAAGGGGGAAGGTTTCACTAGAGCTAAACA
s panTro5.chr5             125222341 62 + 181907262 ATTTAATGTCCTGACATGAACTGCCAAGGGCACAAGGGGGAAGGTTTCACTAGAGCTAAACA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126559041 62 + 183735486 ATTTAATGTCCTGACATGAACTGCCAAGGGCACAAGGGGGAAGGTTTCACTAGAGCTAAACA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1750823 62 +   8933513 ATTTAATGTCCTGACATGAACTGCCAAGGGCACAAGGGGGAAGGTTTCACTGGAGCTAAACA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139885181 62 + 163208435 ATTTAATGTCCTGACATGAACTGCCAAGGGCACAAGGGGGAAGGTTTCACTAGAGCTAAACA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122869834 62 + 180051392 ATTTAATGTCCTGACATGAACTTCCAAGGGCAGAAGCGGGAAGGTTTCACTAGAGTTAAACA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124293455 62 + 181584905 ATTTAATGTCCTGACATGAACTTCCAAGGGCAGAAGCGGGAAGGTTTCACTAGAGTTAAACA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16291815 62 +  18395747 ATTTAATGTCCTGACATGAACTTCCAAGGGCAGAAGCGGGAAGGTTTCACTAGAGTTAAACA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5304589 62 +  26952557 ATTTAATGTCCTGACATGAACTTCCAAGGGCAGAAGGGGGAAGGTTTCACTAGAGTTAAACA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28405035 62 +  82825804 ATTTAATGTCCTGACATGAACTTCCAAGGGCAGAAGGGGGAAGGTTTCACAAGAGCTAAACA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4074999 62 -   4237731 ATTTAATGTCCTGACATGAACTTCCAAGGGCAGAAGGGGGAAGGTTTCACTAGAGTTAAACA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      343584 62 -   1175262 ATTTAATGTCCTGACATGAACTTCCAAGGGCAGAAGGGGGAAGGTTTCACTAGAGCTAAACA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123691853 62 - 204313951 ACTTAATGTCCTAACATGAACTGCCAAAGGTACAAGGGGGTAAGTTTTGCCAGAGCTAAACA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55735838 62 -  71252344 ATTTAATGTCCTAACATGAGCTGCCAAGGGCACAAGGGGGTAAGTTTTGCTAGAGCTAAACA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       39349 62 -   3089952 ATTTAATGTCCTAACATGAATTGCCAAGGGCACAAGGGGGTAAGTTTTGCTAGAGCTAAACA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13239676 62 -  42888418 ATTTAATGTCCTAACATGAACTGCCAAGGGCACAAGGGGGTAAGTTTTGCTAGAGCTAAACA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60575573 62 + 108143057 ATTTAGTGTCCTGACAGGAACTGTCAATGGCACATTGGGGGAGGTTTTGCTAGAGCCAAACA
i micMur3.chr12            C 0 I 50
s proCoq1.NW_012155062v1     3611505 62 +  11683526 ATTTAGTGTCCTGACATGAACTGTCAATGGCCCAATGAGGGAGGCTTTGCTAGAGCCAAACA
i proCoq1.NW_012155062v1   I 140 C 0
s otoGar3.GL873679           3094854 62 +   4132165 ATTTAGTGTCTTGACTTTAACTATTAATGGCAGAATGAGGGAGGTTTTGCTGGAGCTAAATA
i otoGar3.GL873679         I 6 C 0
s canFam3.chr11             14939021 62 +  74389097 ATTTAGAGTTCTGCCTTGAAGTGCCAATGGAACAGTGGGGAAGGCTTTGCTAGAGCCAAATA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2658235 62 +   3667625 ATTCAGTATTCTGACATGAACAACCAATGGAATAATGATGAAGGTTTTGCTAGAGCTAAACA
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55536584 2005 +  90702639 I

a score=364841.000000
s hg38.chr5_KI270796v1_alt    118717 34 +    172708 GGTCAGCAA---TGGC------TAG-TCTCCGTCATACAATAGC
s panTro5.chr5             125222403 34 + 181907262 GGTCAGCAA---TGGC------TAG-TCTCCATCATACAATAGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126559103 34 + 183735486 GGTCAGCAA---TGGC------TAG-TCTCCATCATACAATAGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1750885 34 +   8933513 GGTCAGCAA---TGGC------TAA-TCTCCATCATACAATAAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139885243 34 + 163208435 GGTCAGCAA---TGGC------TAG-TCTCCATCATACAATAGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122869896 34 + 180051392 GGTTAGGAA---TGTC------TGG-TCTCCATCATAAAATAGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124293517 34 + 181584905 GGTTAGGAA---TGTC------TGG-TCTCCATCATAAAATAGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16291877 34 +  18395747 GGTTAGGAA---TGTC------TGG-TCTCCATCATAAAATAGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5304651 34 +  26952557 GATTAGGAA---TGTC------TGG-TCTCCATCATAAAATAGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28405097 34 +  82825804 GGTCAGGAA---TGTC------TGG-TCTCCATCATAAAATAGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4075061 34 -   4237731 GATTAGGAA---TGTC------TGG-TCTCCATCATAAAATAGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      343646 34 -   1175262 GGTCAGCAA---TGTC------TGG-TCTCCATCATAAAATAGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123691915 34 - 204313951 GGTCAGCAA---TGGC------TGG-TCTCCATCATAAAATGGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55735900 34 -  71252344 GGTCAGCAA---TGGC------TGG-TCTCCATCATAAAATGGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       39411 34 -   3089952 GGTGAGCAA---TGGC------TGG-TCTCCATCATAAAATGGC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13239738 34 -  42888418 GGTCAGCAA---TGGC------TGA-TCTCCATCATAAAATGGC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3611567 32 +  11683526 GGTCAACAA---TGGCTGGTCTTGG-TCTCTATCAC--------
i proCoq1.NW_012155062v1   C 0 I 7
s otoGar3.GL873679           3094916 32 +   4132165 GGTCAAGGA---TGGCTGGCCTTGG-TCTCCATCGC--------
i otoGar3.GL873679         C 0 I 3
s canFam3.chr11             14939083 38 +  74389097 GACCAGCAAGTTTGGC------TAGATCTCTAGCACAGCATGAC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2658297 40 +   3667625 GGTCAGCAA---TGGCAGGCCTAGG-TCTCTAACATAGCACAGC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60575635 50 + 108143057 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=542075.000000
s hg38.chr5_KI270796v1_alt    118751 37 +    172708 ATGG---GATGTCTTTAACTATATTTTTAACCCGAATTTA
s panTro5.chr5             125222437 37 + 181907262 ATGG---GATGTCTTTAACTATATTTTTAACCCGAATTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126559137 37 + 183735486 ATGG---GATGTCTTCAACTATATTTTTAACCCGAATTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1750919 37 +   8933513 ATGG---GATGTCTTTAACTATATTTTTAACCCGAATTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139885277 37 + 163208435 ATGG---GATGTCTTTAACTATATTTTTAACCTGAATTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122869930 37 + 180051392 CTGG---GATGTCTTTAACTGTATTTTTAACCTGAATTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124293551 37 + 181584905 CTGG---GATGTCTTTAACTGTATTTTTAACCTGAATTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16291911 37 +  18395747 CTGG---GATGTCTTTAACTGTATTTTTAACCTGAATTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5304685 37 +  26952557 CTGG---GATGTCTTTAACTGTATGTTTAACCTGAATTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28405131 37 +  82825804 CTGG---GATGTCTTTAACTATATTTTTAACCTGAATTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4075095 37 -   4237731 CTGG---GATGTCTTTAACTGTATGTTTAACCTGAATTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      343680 37 -   1175262 CTGG---GATGTCTTTAACTATATTTTTAACCTGAATTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123691949 37 - 204313951 ACTG---GATGTCTTTAACTGTATTTTAAACCTGAATTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55735934 37 -  71252344 GCTG---GATGTCTTTAACTATATTTTAAGCCTGAATTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       39445 37 -   3089952 ACTG---GATGTCTTTAAGTATATTTTAAACCTGAATTTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13239772 37 -  42888418 ACTG---GATGTCTTTAACTATATTTTAAACCTGAATTTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60575685 37 + 108143057 ATGG---GGTGCCTTTAACTATATTTTTAACCTGAATTTA
i micMur3.chr12            I 50 I 83
s proCoq1.NW_012155062v1     3611606 37 +  11683526 ATGG---GATGCCTTTAACTATATTTGTAACCTGAATTTA
i proCoq1.NW_012155062v1   I 7 C 0
s otoGar3.GL873679           3094951 37 +   4132165 TTGG---GATGCATTTAACCATATTTTTAACCTGAATTTA
i otoGar3.GL873679         I 3 C 0
s canFam3.chr11             14939121 36 +  74389097 AGGG---GATGGCTTTGACTATGTTTTCA-CCtaaattta
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2658337 39 +   3667625 ATGGACAAAGGCATTTGACTATAATTTTA-CCTGAATTTA
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55536584 2005 +  90702639 I

a score=892788.000000
s hg38.chr5_KI270796v1_alt    118788 83 +    172708 GTAAGT--TTTTA---AA----TGTAATCCTCTGAAAGGTTCTCTATTTGCTTAGCTATGTGTTCCTTTTCTAGTGAAGCTATC---TATTATAC
s panTro5.chr5             125222474 83 + 181907262 GTAAGT--TTTTA---AA----TGTAATCCTCTGAAAGGTTCTCTATTTGGTTAGCTATGTGTTCCTTTTCTAGTGAAGCTATC---TATTATAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126559174 82 + 183735486 GTAAG---TTTTA---AA----TGTAATCCTCTGAAAGGTTCTCTATTTGCTTAGCTATGTGTTCCTTTTCTAGTGAAGCTATC---TATTATAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1750956 83 +   8933513 GTAAGT--TTTTA---AA----TGTAATCCTCTGAAAGGTTCTCTATTTGCTTAGCTATGTGTTCCTTTTCTAGTGAAGCTATC---TATTATAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139885314 83 + 163208435 GTAAGT--TTTTA---AA----TGTAATCCTCTGAAAGGTTCTCTATTTGCTTAGCTATGTGTTTCTCTTCTAGTGAAACTATC---TATTATAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122869967 83 + 180051392 GTAAGT--TTTTA---AA----TGCAATCCTCTGAAATGTTCTCTATTTGCTTAGTTATATGTTTCTCTTCTAATGAAACTATG---TCTTATAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124293588 83 + 181584905 GTAAGT--TTTTA---AA----TGCAATCCTCTGAAATGTTCTCTATTTGCTTAGTTATGTGTTTCTCTTCTAATGAAACTATG---TCTTATAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16291948 83 +  18395747 GTAAGT--TTTTA---AA----TGCAATCCTCTGAAATGTTCTCTATTTGCTTAGTTATGTGTTTCTCTTCTAATGAAACTATG---TCTTATAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5304722 83 +  26952557 GTAAGT--TTTTA---AA----TGCAATCCTCTGAAACGTTCTCTATTTGCTTAGTTATGTGTTTCTCTTCTAATGAAACTATG---TCTTATAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28405168 83 +  82825804 CTAAGT--TTTTA---AA----TGCAATCCTCTGAAACGTTCTCTATTTGCTTAGTTATGTGTTTCTCTTCTAATGAAACTATG---TCTTATAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4075132 83 -   4237731 GTAAGT--TTTTA---AA----TGCAATCCTCTGAAACGTTCTCTATTTGCTTAGTTATGTGTTTCTCTTCTAATGAAACTATG---TCTTATAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      343717 83 -   1175262 GTAAGT--TTTTA---AA----TGCAATCCTCTGAAACGTTCTCTATTTGCTTAGTTATGTGTTTCTCTTCTAATGAAACTATG---TCTTATAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123691986 82 - 204313951 GTAAGT--TTTTA---AA----TGCAATGCTCTGAAAGGTCCCCTATTTGCTTAGTTAGGTGTTTCTCTTCGAATGAA-TTATC---TATTGTAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55735971 82 -  71252344 GTAAGT--TTTTA---AA----TGCAGTGCTCTGAAAGGTCCCCTATTTGCTTAGTTAGGTGTTTCTCTTCTAATGAA-TTATC---TATTATAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       39482 82 -   3089952 GTAAGT--TTTTA---AA----TGCAATGCTCTCAAAGGTCCCCTATTTGCTTAGTTAGGTGTTTCCCTTCTAATGAA-TTATC---TATTTTAC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13239809 82 -  42888418 GTAAGT--TTTTA---AA----TGCAATGCTCTGAAAGGTCCCCTATTTGCTTAGTTAGGTGTTTCTCTTCTAATGAA-TTATC---TATTATAC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3611643 83 +  11683526 ACAATTG-TTTAA---AA----CTCAGTGCTTTGAAAGATTCCCTATT---TTAGTTATGTGATTCTCTTCTAATAAAACTATTATATATTAAT-
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3094988 82 +   4132165 ACAATTTCTTTAA---AA----TGCGATGCTTTGAAACATTCCCTATT---TTGGTTAGATGATTCTCTTCTAACGAAACTATC---TACTACAC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14939157 76 +  74389097 atattt--ttttaaataa----tGCAATGCTTTAAAAG----TTTATTTGCTCAGTTA---GTTTCTCTTCTAAGGAATCAATC---TATAT---
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2658376 82 +   3667625 ATAATT--TAAGA---AAAGAGTGTCATGCTATGCAGTGTTTCCTGTTTGGTTGTTTATGAG--CCTTTTCTTAAAAAACTATC---TACAT---
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60575722 83 + 108143057 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=2283974.000000
s hg38.chr5_KI270796v1_alt    118871 160 +    172708 AATACTTTGGAGTCTTTGGAGGAAATGGAAGCA-GAGTAGTTTGTCTCCCTATGTCTCTAGTGTATTTCTTTATGGCTGGATTTAGATGATTGAATTTATCTGTTTCCTTTCTACTCAAACCTTTTATTTCTAAACTCTAAAATA-CACCTACCTCAAATTG
s panTro5.chr5             125222557 160 + 181907262 AATACTTTGGAGTCTTTGGAGGAAATGGAAGCA-GAGTAGTTTGTCTCCCTATGTCTCTAGTGTATTTCTTTATCGCTGGATTTAGATGATTGAATTTATCTATTTCCTTTCTACTCAAACCTTTTATTTCTAAACTCTAAAATA-CACCTACCTCAAATTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126559256 160 + 183735486 AATACTTTGGAGTCTTTGGAGGAAATGGAAGCA-GAGTAGTTTGTCTCCCTATGTCTCTAGTGTATTTCTTTATGGCTGGATTTAGATGATTGAATTTATCTATTTCCTTTCTACTCAAACCTTTTATTTCTAAACTCTAAAATA-CACCTACCTCAAATTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1751039 160 +   8933513 AATACTTTGGAGTCTTTGGAGGAAATGGAAGCA-GAGTAGTTTGTCTCCCTATGTCTCTAGTGTATTTCTTTATGGCTGGATTTAGATGATTGAATTTATCTATTTCCTTTCTACTCAAACCTTTTATTTCTAAACTCTAAAATA-CAACTACCTCAAATTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139885397 156 + 163208435 AATACTTTGGAGTCTTCGGAGGAAATGGAAGCA-GAGTAGTTTGTCTCCCTATGTCTCTAGTGTATTTCTTTATGGCTGGATTTAGATGATTGAATTTATCTATTTCCTTTCTACTCAAACCTTTTATTTCTGAACTCTAAAATA-----TGCCTCAAATTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122870050 159 + 180051392 AATACTTGGGAGTCTTTGGAGGAAATGGAAGCA-GAGTAGTTTTTCTCCCTGTGTCTCTAGTGTATTTATTTATGGCTGGATTTAGATGGTCAAATTTATCTATTTCCTTTTTACTC-AACCTTTTATTTCTAAACTCTAAAATA-TGCCTACCTTAAATTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124293671 159 + 181584905 AATACTTGGGAGTCTTTGGAGGAAATGGAAGCA-GAGTAGTTTTTCTCCCTGTGTCTCTAGTGTATTTCTTTATGGCTGGATTTAGATGGTCAAATTTATCTATTTCCTTTTTACTC-AACCTTTTATTTCTAAACTCTAAAATA-TGCCTACCTTAAATTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16292031 159 +  18395747 AATACTTGGGAGTCTTTGGAGGAAATGGAAGCA-GAGTAGTTTTTCTCCCTGTGTCTCTAGTGTATTTCTTTATGGCTGGATTTAGATGGTCAAATTTATCTATTTCCTTTTTACTC-AACCTTTTATTTCTAAACTCTAAAATA-TGCCTACCTTAAATTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5304805 159 +  26952557 AATACTTGGGAGTCTTTGGAGGAAATGGAAGCA-GAGTAGTTTTTCTCCCTGTGTCTCTAGTGTATTTCTTTATGGCTGGATTTAGATGGTCAAATTTATCTATTTCCTTTTTACTC-AACCTTTTATTTCTAAACTCTAAAATA-TGCCTACCTTAAATTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28405251 159 +  82825804 AATACTTTGGAGTCTTTGGAGGAAATGGAAGCA-GAGTAGTTTTTCTCCCTGTGTCTCTAGTGTATTTCTTTATGGCTGGATTTAGATGGTCAAATTTATCTATTTCCTTTCTACTC-AACCTTTTATTTCTAAACTCTAAAATA-TGCCTACCTTAAATTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4075215 159 -   4237731 AATACTTGGGAGTCTTTGGAGGAAATGGAAGCA-GAGTAGTTTTTCTCCCTGTGTCTCTAGTGTATTTCTTTATGGCTGGATTTAGATGGTCAAATTTATCTATTTCCTTTTTACTC-AACCTTTTATTTCTAAACTCTAAAATA-TGCCTACCTTAAATTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      343800 159 -   1175262 AATACTTTGGAGTCTTTGGAGGAAATGGAAGCA-GAGTAGTTTTTCTCCCTGTGTCTCTAGTGTATTTCTTTATGGCTGGATTAAGATGGTCAAATTTATCTATTTCCTTTCTACTC-AACCTTTTATTTCTAAACTCTAAAATA-TGCCTACCTTAAATTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123692068 160 - 204313951 AATACTTTGGAGTCTTCAGAGGAAATGGAAGCA-GAGTAGTTTGTCTGCCTATGTCTCTAATGTATTTCTTTATGGCTAGATTGAGATGATCGAATTTATCTATTTCCTTTCTACTCTAATCTTTCATTTCTAAAGTCTAAAATA-GGCCTACCTCAATCTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55736053 160 -  71252344 AATACTTTGGAGTCTTCAGAGGAAACGGAAGCA-GAGTAGTTTGTCTGCCTATGTCTCTAATGTATTTCTTTATGGCTAGATTGAGATGATCGAATTTATCTGTTTCCTTTCTACTCTAACCTTTTATTTCTAAACTCTAAAATA-TGCCTACCTCAAACTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       39564 160 -   3089952 AATACTTTGGAGTCTTCAGAGGAAGTGGAAGCA-GAGTAGTTTTTCTGCCTATGTCTCTAATGTATTTCTTTATGGCTAGATTGAGATGATCGAATTTATCTATTTCCTTTCTACTCTAACCTTTTATTTCTAAACTCTAAAATA-TGCCTACCTCAATCTG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13239891 160 -  42888418 AATACTTTGGAGTCTTCAGAGGAAATGGAAGCA-GAGTAGTTTGTCTGCCTGTGTCTCTAATGTATTTCTTTATGGCTAGATTGAGATGATCGAATTTATCTATTTCCTTTCTACTCTAACCTTTTATTTCTAAACTCTAAAATA-TGCCTACCTCAATCTG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60575805 160 + 108143057 AATACTTTGGAATCTTTGGAAGAAGCAGAAGCA-GAGTAGTTTGTCTCCCAAAATTTCTTGGGTATTTTTTCATATCTAGATTGAGAAGACTCAATTTAACTATTTATTTTCTACTCAAAAATTTTATGTCCAAATTCTAAAATA-TGACCACCTCAAATTC
i micMur3.chr12            I 83 C 0
s proCoq1.NW_012155062v1     3611726 160 +  11683526 AATACTTTGGAGTCTTTGGAGGAAGCAGAAACA-CAGTAGTTTGTCTCCCTAAATTTCTTGAGTATTTTTTCATATCTAGATTGAGAAGACCCAATTTATCTATTTATTTTCTACTCAAAATTTTTATTTCCAAATTCTAAAATA-TGATCACCTCAAATTC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3095070 159 +   4132165 AATACTTTGGAGTCTTGGGAGGAA--AGAAGCAGGAGCAGTTTGTCTCTGGACATTTCTTGAGTATTTTTTCATATCTAAATTGAGAAGACCCAATTTAACTATTTCTCTTCTACTCAAACTTTTTATTTCCAAATTCCAAAATA-TAACCACCTTAAGTTC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14939233 149 +  74389097 AATACTTTAGAGTCCTCATAGGAAATGGAAATG-----AATTTACTTCTCTACTTTTCTAGATTATTTATTTATGGTTTGATTGAAAAGACC-------TCTGTTTTCCTATTATGAAAACTTTTTATTTCCAAATTATAAAATA-TGCTCACCTCAAATTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2658458 160 +   3667625 AATGCTTTGGGGTCTTCACAA-ACATGGAAGCA-GAGTAATTTGTCTCCCTAGTTTTCTAGATTATTTCTTTATGGCTGGATTGAGCAGACCCAACTTTTCTACTTCCTTTCCACTCAAATCTTTTATTTCCAAATTTAAAAAAAAAACCTGCCCTGgtttg
i dasNov3.JH567306         C 0 I 594
e mm10.chr18                55536584 2005 +  90702639 I

a score=477398.000000
s hg38.chr5_KI270796v1_alt    119031 36 +    172708 TTCCATTATTTTTGAAAATAGAATGG----TAGCCACTT-A
s panTro5.chr5             125222717 36 + 181907262 TTCCATTATTTTTGAAAATAGAATGG----TAGCCACTT-A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126559416 36 + 183735486 TTCCATTATTTTTGAAAATAGAATGG----TAGCCACTT-A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1751199 36 +   8933513 TTCCATTATTTTTGAAAATAGAATGG----TAGCCACTT-A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139885553 37 + 163208435 TTCCATTATTTTTGAAAATGGAATGG----TAGCCACTTAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122870209 37 + 180051392 TTCCATTATGTTTGAAAATGGAATTA----TAGCCACTTAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124293830 37 + 181584905 TTCCATTATGTTTGAAAATGGAATTA----TAGCCACTTAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16292190 37 +  18395747 TTCCATTATGTTTGAAAATGGAATTA----TAGCCACTTAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5304964 37 +  26952557 TTCCATTATGTTTGAAAATGGAATTA----TAGCCACTTAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28405410 37 +  82825804 TTCCATTATTTTTGAAAATGGAATTA----TAGCCACTTAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4075374 37 -   4237731 TTCCATTATGTTTGAAAATGGAATTA----TAGCCACTTAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      343959 37 -   1175262 TTCCATCATTTTTGAAAATGGAATTA----TAGCCACTTAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123692228 36 - 204313951 TTCCATTATTTTTGAAAATGGAATGG----TAGCCACTT-A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55736213 36 -  71252344 TTCCATTATTTTTTAAAATGGAATGG----TAGCCACTT-A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       39724 36 -   3089952 TTCCATTATTTTTGAAAATGGAATGG----TAGCCACTT-A
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13240051 36 -  42888418 TTCCATTATTTTTGAAAATGGAATGG----TAGCCACTT-A
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60575965 32 + 108143057 TTCCATTATTTTTGAAA----AATGG----TGGCCACTT-A
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3611886 32 +  11683526 TTCCATTATTTTTGAAA----AATGG----TGGCCACTT-A
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3095229 32 +   4132165 TTACATTATTTTTGAAA----AATGG----TGGCCACTT-A
i otoGar3.GL873679         C 0 I 6077
s canFam3.chr11             14939382 36 +  74389097 TTCTAGTATTTTTGAAGGAAAAACAG----TGACCATTT-A
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2659212 41 +   3667625 TCCCATTATTTTTGGAAAAAAAAAAAAAATTGGCCATTTTA
i dasNov3.JH567306         I 594 C 0
e mm10.chr18                55536584 2005 +  90702639 I

a score=69160.000000
s hg38.chr5_KI270796v1_alt    119067 4 +    172708 AAAA
s panTro5.chr5             125222753 4 + 181907262 AAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126559452 4 + 183735486 AAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1751235 4 +   8933513 AAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139885590 4 + 163208435 AAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122870246 4 + 180051392 AAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124293867 4 + 181584905 AAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16292227 4 +  18395747 AAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5305001 4 +  26952557 AAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28405447 4 +  82825804 AAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4075411 4 -   4237731 AAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      343996 4 -   1175262 AAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123692264 4 - 204313951 AAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55736249 4 -  71252344 AAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       39760 4 -   3089952 AAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13240087 4 -  42888418 AAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60575997 4 + 108143057 AAAA
i micMur3.chr12            C 0 I 5205
s proCoq1.NW_012155062v1     3611918 4 +  11683526 AAAA
i proCoq1.NW_012155062v1   C 0 I 4732
s canFam3.chr11             14939418 4 +  74389097 AAAA
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2659253 4 +   3667625 AAAA
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3095261 6077 +   4132165 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=3881069.000000
s hg38.chr5_KI270796v1_alt    119071 398 +    172708 TAATGCTGAATATT-TT---TAC----GTATGCCATCTCTTTTATGT------------ACCCC------CAAATGCCTTAAATTTTAATAATTCATCTTACCATTA-TTTTGTCTTGCTTTTATGTCTATTGCTggcttctgtttcaagatagctgactaagcacatgtatacacataagttaacctttt-ctctctctcaaaatcctact------------------gaaac---------------aaaa-----acatgaa-------aaataataagaagtctataatcggtgca-gaaaaaaatgaaa-tatttcatc-agtggacAACTACACTGAGAAAG-CTGTAAAAGCTCTAAAGCTGACAGATGAGATTTTTCC-------------------------CTTGTCCCAACAAAGCTAAAGAACCACTCGTATGGTACAAATATAATGTAGTACTGCTAAAATGGTAGGTTTTCTCAGGAGGACATT----------------G
s panTro5.chr5             125222757 398 + 181907262 TAATGCTGAATATT-TT---TAC----GTATGCCATCTCTTTTATGT------------ACCCC------AAAATGCCTTAAATTTTAATAATTCATCTTACCATTA-TTTTATCTTGCTTTTATGTCTATTGCTggcttctgtttcaagatagctgactaagcacatgtatacacataagttaacctttt-ctctctctcaaaatcctact------------------gaaac---------------aaaa-----acatgaa-------aaataataagaagtctataatcggtgca-gaaaaaaatgaaa-tatttcatc-agtggacAACTATACTGAGAAAG-TTGTAAAAGCTCTAAAACTGACAGAGGAGATTTTTCC-------------------------CTTGTCCCAACAAAGCGAAAGAACCACTCGTATGGTACAAATATAATGCAGTACTGCTAAAATGGTAGGTTTTCTCAGGAGGACAGT----------------G
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126559456 398 + 183735486 TAATGCTGAATATT-TT---TAC----GTATGCCATCTCTTTTATGT------------ACCCC------AAAATGCCTTAAATTTTAATAATTCATCTTACCATTA-TTTTATCTTGCTTTTATGTCTATTGCTggcttctgtttcaagatagctgactaagcacatgtatacacataagttaacctttt-ctctctctcaaaatcctact------------------gaaac---------------aaaa-----acatgaa-------aaataataagaagtctataatcggtgca-gaaaaaaatgaaa-tatttcatc-agtggacAACTATACTGAGAAAG-TTGTAAAAGCTCTAAAACTGACAGAGGAGATTTTTCC-------------------------CTTGTCCCAACAAAGCTAAAGAACCACTCGTATGGTACAAATATAATGTAGTACTGCTAAAATGGTAGGTTTTCTCAGGAGGACAGT----------------G
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1751239 398 +   8933513 TAATGCTGAATATT-TT---TAC----GTATGCCATCTCTTTTATGT------------ACTCC------AAAATGCCTTACATTTTAATAATTAATCTTACCATTA-TTTTGTCTTGCTTTTATGTCTATTGCTGCcttctgtttcaagatagctgactaagcacatgtatacacgtaagttaacctttt-ctctctctcaaaatcctact------------------gaaac---------------aaaa-----acatgaa-------aaataataagaagtctataatcggtgca-gaaaaaaatgaaa-tatttcatc-agtggacaactatactgagaaag-ctgtaaaagctctaaagctgacagatgagatTTTTCA-------------------------CTTGACCCAACAAAGCTAAAGAACCACTTGTATGGTACAAATATAATGTAGTACTGCTAAAATGGTAGGTTTTCTCAGGAGGACAGT----------------G
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139885594 395 + 163208435 TAATGCTGAATATT-TT---TAT----GTATGCCACCTCTTTTATGT------------ACCCC------ATAATGTCTTAAATTTTAATAATTAATCTTACCATTA-TTTTATCTTGCTTTTATGTCTATTGTTggcttctgtttcaagatagctgactaagcacatgtatacacataagttaacctttt-ctctctctcaaaatcctact------------------gaaac---------------aaaa-----acatgaa-------aaataataagaagtctataatc---gca-gaaaaaaatgaaa-tatttcatc-agtggacaactatactgagaaag-ttgtaaaagctctaaagctgacagatgagatTTTTCC-------------------------CTTGACCCAACAAAGCTAAAGAACCACTCGTATGGTACAAATATAATGTAGTACTGCTAAAATGGTAGGTTTTCTCAGGAGGACAGT----------------G
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122870250 414 + 180051392 TAATGCTGAATCTT-TT---TAC----ATATGCCATATCTTTTATGT------------ACCCC------AATATGCCTTACATTTTAATAATTAATCTTACCATTA-TTTTATCTTGCTTTTATGTCTATTCCCggcttctgtctcaggatagctgactgagcacatgtatacgcggaagttaacttttt-ttctctctcaaaatcctact------------------gaaac---------------aaaa-----acgtgaa-------aaataataataagtctataatcagtgca-gagaaaaatgaaa-tatttcatc-agtggacaactagactgagaaag-ttgtaaaagctctaaagctgacagatgagatTTTTCC-------------------------CTTGACCCAACAAAGCTAAAGAACTACGCATATGGTACAAACATAATGTAGTACTGCTCAAATGGTAGGTTTTCTCAGGAGGAGAAATGGTAGGTTTTCTCAGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124293871 414 + 181584905 TAATGCTGAATCTT-TT---TAC----ATATGCCATATCTTTTATGT------------ACCCC------AATATGCCTTACATTTTAATAATTAATCTTACCATTA-TTTTATCTTGCTTTTATGTCTATTCCCggcttctgtttcaagatagctgactgagcacatgtatacgcggaagttaacttttt-ttctctctcaaaatcctact------------------gaaac---------------aaaa-----acgtgaa-------aaataataataagtctataatcagtgca-gagaaaaatgaaa-tatttcatc-agtggacaactagactgagaaag-ttgtaaaagctctaaagctgacagatgagatTTTTCC-------------------------CTTGACCCAACAAAGCTAAAGAACTATGCATATGGTACAAACATAATGTAGTACTGCTCAAATGGTAGGTTTTCTCAGGAGGAGAAATGGTAGGTTTTCTCAGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16292231 414 +  18395747 TAATGCTGAATCTT-TT---TAC----ATATGCCATATCTTTTATGT------------ACCCC------AATATGCCTTACATTTTGATAATTAATCTTACCATTA-TTTTATCTTGCTTTTATGTCTATTCCCggcttctgtttcaagatagctgactgagcacatgtatacgcggaagttaacttttt-ttctctctcaaaatcctact------------------gaaac---------------aaaa-----acgtgaa-------aaataataagaagtctataatcagtgca-gagaaaaatgaaa-tatttcatc-agtggacaactagactgagaaag-ttgtaaaagctctaaagctgacagatgagatTTTTCC-------------------------CTTGACCCAACAAAGCTAAAGAACTACGCATATGGTACAAACATAATGTAGTACTGCTCAAATGGTAGGTTTTCTCAGGAGGAGAAATGGTAGGTTTTCTCAGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5305005 389 +  26952557 TAATGCTGAATCTT-TT---TAC----ATATGCCATATCTTTTATGT------------ACCCC------AATATGCCTTACATTTTAATAATTAATCTTACCATTA-TTTTATCTTGCTTTTATGTCTATTCCCggcttctgtttcaagatagctgactgagcacatgtatacgcggaagttaacttttt-ttctctctcaaaatcctact------------------gaaac---------------aaaa-----acgtgaa-------aaataatattaagtctataatcagtgca-gagaaaaatgaaa-tatttcatc-agtggacAACTAGACTGAGAAAG-TTGTAAAAGCTCTGAAGCTGATAGATGAGATTTTTCC-------------------------CTTGACCCAACAAAGCTAAAGAACTACTCATATGGTACAAATATAATATAGTACTGCTC-------------------------AAATGGTAGGTTTTCTCAGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28405451 411 +  82825804 TAATGCTGAATCTT-TT---TAC----ATATGCCATATCTTTTATGT------------ACCCC------AATATGCTTTACATTTTAATAATTAATCTTACCATTA-TTTTATCTTGCTTTTATGTCTATTCCCggcttctgtttcaagatagcttactgagcacatgtatatgcagaagttaacctttt-ttctctctcaaaatcctact------------------gaaac---------------aaaa-----acatgaa-------a---aataataagtctataatcagtgca-gagaaaaatgaaa-tatttcatc-agtggacAACTAGACTGAGAAAG-CTGTAAAAGCTCTAAAGCTGACAGATGAGATTTTTCC-------------------------CTTGACCCAACAAAGCTAAAGAACTACTCATATGGTACAAATATAATGTAGTACTGCTCAAATGGTAGGTTTTCTCAGGAGGAGAAATAGTAGATTTTCTCAGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4075415 389 -   4237731 TAATGCTGAATCTT-TT---TAC----ATATGCCATATGTTTTATGT------------ACCCC------AATATGCCTTACATTTTAATAATTAATCTTACCATTA-TTTTGTCTTGCTTTTATGTCTATTCCCggcttctgtttcaagatagctgactgagcacatgtatacgcggaagttaacttttt-ttctctctcaaaatcctact------------------gaaac---------------aaaa-----acgtgaa-------aaataataataagtctataatcagtgca-gagaaaaatgaaa-tatttcatc-agtggacAACTAGACTGAGAAAG-TTGTAAAAGCTCTGAAGCTGACAGATGAGATTTTTCC-------------------------CTTGACCCAACAAAGCTAAAGAACTACTCATATGGTACAAATATAATATAGTACTGCTCAAATGGTAGG-------------------------TTTTCTCAGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      344000 389 -   1175262 TAATGCTGAATCTT-TT---TAC----ATATGCCATATCTTTTATGT------------ACCCC------AATATGCCTTACATTTTAATAATTAATCTTACCATTA-TTTTATCTTGCTTTTATGTCTATTCCCggcttctgtttcaagatagctgactgagcacatgtatacgcagaagttaacctttt-ttctctctcaaaatcctact------------------gaaac---------------aaaa-----acatgaa-------aaataataataagtctataatcagtgca-gagaaaaatgaaa-tatttcgtc-agtgaaccactagactgagaaag-ttgtaaaagctctaaagctgacagatgagatTTTTCC-------------------------CTTGACCCTACAAAGCTAAAGAACTACTCATATGGTACAAATATAATGTAGTACTGCTCAAATGGTAGG-------------------------TTTTCTCAGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123692268 396 - 204313951 TACTGCTGAATCTT-TT---TGCTTAGGTGTGCCATCTCTTTTATGT------------ACCCC------AATATGCCTTAACTCTTAATAACTAATCTTATTATTA-TTTTAACTTGCTTTTATGTCTATTGCCAACTTCTGTTTCAAGATAGCTGACTGAGCACATGTATACACATTAGTTAACCTTTCTTTTTCTACCAAAATCCTATT------------------GAAAA---------------AAAA-----CCATGAA-------AGATAAT---AAGTCTATAATC--TGTA-GAAAAAAATGAAA--ATTTCATT-AATGGACAACTATACTGAGAAAG-TTGTAAAAGCTCT-AAGCTGACAGATGAGATTTCCCC-------------------------CTTGATCCAACAAAGCTAAAAAACTATTCATATGGTACAAATACAATGTAGTACTGCTAAAATGGTAGGTTTTTTCAGGAGGACCAT----------------A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55736253 400 -  71252344 TAATGCTGAATCTT-TT---TGCTTAGGTGTGCCATCACTTTTACTT------------ACCCC------AATATGCCTTAACTTTTAATAACTATTCTTATCATTA-TTTTATCATGCTTTTACGTTTATTGCCAgcttctgtttcaagatagctgactgagcacatgtatacacattagttaacctttc-ttttctaccaaaattctatt------------------gaaaa---------------aaaaaaaaCCCATGGA-------AGATAGT---AAGTCTATAATC--TGTA-GAAAAAAATGAAA--ATTTCATC-AATAGACAACTATACTGAGAAAG-TTGTAAAAGCTCT-AAGCTGACAGATGAGATTTTCCC-------------------------CTTGATCCAACAAAGCTAAGGAACTACTCAGATGGTACAAATACAATGTAGTACTGCTGAAATGGTAGGTTTTTTCAGGAGGACCGT----------------G
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       39764 380 -   3089952 TAA-----------------TGCTTAGATGTGCCATCACTTTTACGT------------ACCCC------AATATGCcttaacttttaataactaatcttatcatta-ttttatcttGCTTTTATGTCTATTGCCAGCT--TGTTTCAAGATAGCTGACTCAGCACATGTATACACATTAGTTAACCTTTC-TTTTCTACCAAAATTCTATT------------------GAAAA---------------AAAAAA---ACATGAA-------AGATAAT-----GTCTATAGTC--TGTA-GAAAAAAATGAAA--ATTTCATC-AGTGGGCAACTATACTGAGAAAG-TTGTAAAAGCTCT-AAGCTGACAGGTGAGATTTTCCC-------------------------CTTGATCCAACAAAGCTAAAGAACTACTCATATGGTACAAATATAATGTAGTACTGCTAAAATGATAGGTTTTTTCAGGAGGACCAT----------------G
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13240091 392 -  42888418 TAATGCTGAATCTT-TT---TGCTTAGGTGTGCCATCTCTTTTACAT------------ACCCC------AATATGCCTTAACTTTTAATAACTA-----ATCATTA-TTTTATCTTGCTTTTATGTCTATTGCCAgcttctgtttcaagatagctgaccgagcacctgtatacacattagttaacctttc-ttttctaccaaaatcctatt------------------gaaaa---------------aaaaa----acatgaa-------agataat---aagtctataatc--tgtaggaaaaaaatgaaa--atttcatc-aatggacAACTATACTGAGAAAG-TTGTAAAAGCTCT-AAGCTGACAGATGAGATTTTCCC-------------------------CTTGCTCCAACAAAGCTAAGGAACTACTCATATGGTACAAATATAATGTAGTACTGCTAAAATGGTAGGTTTTTTCAGGAGGACCAT----------------G
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14939423 449 +  74389097 TAATTATGTCTCTTACT---TGG----GTATCTTAACTCTCTTTCGTATCTTTCCCTCCACCAC------CACATGCCttaaatttaaataatttattttaCCATTACTTTTCTCTTGTTTATATGTCTGTTGCCAACTCCTGTTTCAAGATATCTG----AGTACATGTATACACATAAGCTTACATTTC-CTCTCTTCTAAAATCTTACTTGGGGAACGGGGGCGGGGGAACC---------------CAAA-----ACA-AAA-------AAATAATACTAAATCTATAG-CAAAACA-GAAAGATACTAA---GTTCCATCAAGTGGTCAAAAATATTGGGAAATCTTGTGAAATCTCTAAAGCTGATAGAGGGAAtttttttttttttttttttttttttttttttACTTAAACCTGCAAAGCCAAAGAAATACTCACACTATACAGATATAATATAGAAGTGCTGAAATGATAGGTTTCCCTAGAAGGGAAAT----------------A
i canFam3.chr11            I 1 I 3
s dasNov3.JH567306           2659257 430 +   3667625 TAGCAGTGAGTCCT-TTATCTGA----GTATCCCATTTCATTTGTACATTTTTC-----ACCCCTCAATTCATGTGATTTACTTTTAAGTAATTTTTTTTACTATTA-GGTTCTCTTGCTTTTATGTCTGTTGCCAgcttccatttcaagatggcttacttagcacatacattcacatgagtttacctttc-ctttctcctaaagtact-ct------------------ggaatttttaaaaaacagcaaaaa-----acataagcaaaaacaaataccaataaatctataata---gcg-aagaaaagcaaaatttttccatc-agtggataagaTTAATCAAGAAG-TTATAACAATTCTAAAGCTAATAGATGAGATTTGTAA-------------------------TTTAACGATATAAAGACAAAGAACTGCTAACA---TAAAAGTATAATATAAAATCACTGAAATGGTAGGCTTTTCCGGAAAGGCCTT----------------G
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60576001 5205 + 108143057 I
e proCoq1.NW_012155062v1     3611922 4732 +  11683526 I
e otoGar3.GL873679           3095261 6077 +   4132165 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=15561.000000
s hg38.chr5_KI270796v1_alt    119469 1 +    172708 A
s panTro5.chr5             125223155 1 + 181907262 A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126559854 1 + 183735486 A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1751637 1 +   8933513 A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139885989 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122870664 1 + 180051392 A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124294285 1 + 181584905 A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16292645 1 +  18395747 A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5305394 1 +  26952557 A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28405862 1 +  82825804 A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4075804 1 -   4237731 A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      344389 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123692664 1 - 204313951 A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55736653 1 -  71252344 A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       40144 1 -   3089952 A
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13240483 1 -  42888418 A
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3101338 1 +   4132165 A
i otoGar3.GL873679         I 6077 C 0
s canFam3.chr11             14939875 1 +  74389097 A
i canFam3.chr11            I 3 I 14
s dasNov3.JH567306           2659687 1 +   3667625 A
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60576001 5205 + 108143057 I
e proCoq1.NW_012155062v1     3611922 4732 +  11683526 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=576580.000000
s hg38.chr5_KI270796v1_alt    119470 59 +    172708 GCCAGAGCC---AGGACTGGGGTGAGCTGAATGAAGTG--------AA-------------CTGAATATAAAATTTGAGAGGG
s panTro5.chr5             125223156 59 + 181907262 GCCAGAGCC---AGGACTGGGGTGAGCTGAATGAAGTG--------AA-------------CTGAATATAAAATTTGAGAGGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126559855 59 + 183735486 GCCAGAGCC---AGGACTGGGGTGAGCTGAATGAAGTG--------AA-------------CTGAATATAAAATTTGAGAGGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1751638 59 +   8933513 GCCAGAGCC---AGGACTGGGGTGAGCTGAATGAAGTG--------AA-------------CTGAATATAAAATTTGAGAGGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139885990 59 + 163208435 GCcagagcc---aggactagggtgagctgaatgaactg--------aa-------------ctgaatacaaaatttgagaggg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122870665 52 + 180051392 GCCAGAGCC---AGGACTGGGGTGAGCTGAAT---------------G-------------TTGAATATAAAATTTGAGAGCG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124294286 52 + 181584905 GCCAGAGCC---AGGACTGGGGTGAGCTGAAT---------------G-------------TTGAATATAAAATTTGAGAGCG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16292646 52 +  18395747 GCCAGAGCC---AGGACTGGGGTGAGCTGAAT---------------G-------------TTGAATATAAAATTTGAGAGCG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5305395 52 +  26952557 GCCAGAGCC---AGGACTGGGGTGAGCTGAAT---------------G-------------TTGAATATAAAATTTGAGAGCG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28405863 59 +  82825804 GCCAGAGCC---AGGACTGGGGTGAGCTGAATGAAGTG--------AG-------------CTGAATATAAAATTTGAGAGCG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4075805 52 -   4237731 GCCAGAGCC---AGGACTGGGGTGAGCTGAAT---------------G-------------TTGAATATAAAATTTGAGAGCG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      344390 59 -   1175262 GCCAGAGCC---AGGACTGGGGTGAGTTGAATGAAGTG--------AG-------------TTGAATATAAAATTTGAGAGGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123692665 59 - 204313951 GTcaaagcc---aggactggggttagctgaatgaggtg--------ag-------------ttgaatgtaaaatttgagaggg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55736654 59 -  71252344 GTcagagcc---aggactgcggtgagctgaatgaggtg--------ag-------------ttgaatgtaaaatttgagaggg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       40145 59 -   3089952 GTcagagcc---aggactggggtgagctgaatgaggtg--------ag-------------tttaatgtaaaatttgagaggg
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13240484 59 -  42888418 GTcagagcc---aggactggggtgagctgaatgagatg--------ag-------------ttgaatgtaaaatttgagaaga
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3101339 67 +   4132165 GTCAGAGCC---AGGACAAAGGTGAGCTGAGTGAAGTGATTAAAGCAT-------------TTGAATGCAAAATTGGAGAAGG
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2659688 75 +   3667625 GTCAGAGCCATAAATACTAGCATGAGGTCgatgaggta--------agtgaggtgtttgctttagatgcaaaatttcagaggg
i dasNov3.JH567306         C 0 I 9359
e micMur3.chr12             60576001 5205 + 108143057 I
e canFam3.chr11             14939876 14 +  74389097 I
e proCoq1.NW_012155062v1     3611922 4732 +  11683526 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=360627.000000
s hg38.chr5_KI270796v1_alt    119529 47 +    172708 TGTCCCCC-AAAAACTTG--------------aaaat-----attttgaaaaatcaaaagtaagacc-
s panTro5.chr5             125223215 47 + 181907262 TGTCCCCC-AAAAACTTG--------------aaaat-----attttgaaaaatcaaaagtaagacc-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126559914 47 + 183735486 TGTCCCCC-AAAAACTTG--------------aaaat-----attttgaaaaatcaaaagtaagacc-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1751697 47 +   8933513 TGTCCCCC-AAAAACTTG--------------aaaat-----attttgaaaaatcaaaagtaagacc-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139886049 47 + 163208435 tgtccccc-aaaaactTG--------------aaaat-----attttgaaaaatcaaaagtaagacc-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122870717 46 + 180051392 TACCCCCA-AAAAACTTG--------------AAAAT-----ATTTTGAAAAATCAAAAGTAAGAA--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124294338 46 + 181584905 TACCCCCA-AAAAACTTG--------------AAAAT-----ATTTTGAAAAATCAAAAGTAAGAA--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16292698 46 +  18395747 TACCCCCA-AAAAACTTG--------------AAAAT-----ATTTTGAAAAATCAAAAGTAAGAA--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5305447 46 +  26952557 TACCCCCA-AAAAACTTG--------------ACAAT-----ATTTTGAAAAATCAAAAGTAAGAC--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28405922 46 +  82825804 TACCCCCA-AAAAACTTG--------------AAAAT-----ATTTTGAAAAATCAAAAGTAAGAC--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4075857 46 -   4237731 TACCCCCA-AAAAACTTG--------------ACAAT-----ATTTTGAAAAATCAAAAGTAAGAC--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      344449 46 -   1175262 TACCCCCA-AAAAACTTG--------------AAAAT-----ATTTTGAAAAATCAAAAGTAAGAC--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123692724 62 - 204313951 ttttcccc-caaaacttgatgattaaggttaaataat-----attttgaaaaatcaaaagtaacacca
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55736713 63 -  71252344 tgtcccccaccaaacttgatgatttaggttaaataat-----attttgaaaaattaaaagtaacacca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       40204 62 -   3089952 tgtcccct-caaaacttgatgattaagtttaaataat-----attttgaaaaatcaaaagtaacacta
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13240543 62 -  42888418 tgtcctct-caaaacttgatgattaaggttaaataat-----attttgaaaaatcaaaagtaacacca
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3101406 53 +   4132165 TACCCCCC-CCCAAAAAA--------------AAAATTAGTGATTAAGATTAAATAAAAGTAATACCA
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60576001 5205 + 108143057 I
e canFam3.chr11             14939876 14 +  74389097 I
e proCoq1.NW_012155062v1     3611922 4732 +  11683526 I
e dasNov3.JH567306           2659763 9359 +   3667625 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=5943652.000000
s hg38.chr5_KI270796v1_alt    119576 568 +    172708 aaaaaatctgtactactgattttttgttttgcctcatgctctgctgtggcttggcacagtaccatcagtgatttttgtctttatataaggttttgatattttgtctattatggaattttgcattacttttggatcttttaaagaattgcaccagaatattatttatgttgattactgtgtgtttt-----------agcttaagttttgtgcctgag--gcaagaacctcactcgcctcaTGAATCTCTC------------------CTTGGTCTGGGCT---ATATCAGGAGTCCCCTTAAGATCAGAGGCAGCAGAAGTGGGCTCTGAGGCCATCTTTGGATATTTATTTAAAGGTTTGTAAGTCTCTTTATCAGAGCCCACTCTTAATGTGACTGACTCTGATGTTTGACTTCAGGATAAAGCTTGGAGATAAGTTATTTAAATAA--CGTGACAACTTGTCCATGGG-GAACTTACAGAATGGGC-TTCGAGCTTAGGAAGAGAAACAGAGGAGGGGTCTAAATACCTTTTGTAATATATGAGAATCACCTGTATGCCAAAGAAAATA------------------------TC--CCAAGTCCCTTAAGAGAAAATCAACTG-AAAA
s panTro5.chr5             125223262 568 + 181907262 gaaaaatcagtactactgattttttgttttgcctcatgctctgctgtggcttggcacagtactatcagtgatttttgtctttatataaggttttgatattttgtctattatggaattttgcattacttttggatcttttaaagaattgcaccagaatattatttatggtgattactgtgtgtttt-----------agcttaagttttgtgcctgag--gcaaaaacctcactcgcctcaTGAATCTCTC------------------CTTGGTCTAGGCT---ATATCAGGAGTCCCCTTAAGATCAGAGGCAGCAGAAGTGGGCTCTGAGGCCATCTTTGGATATTTATTTAAAGGTTTGTAAGTCTCTTTATCAGAGCCCACTCTTAATGTGACTGACTCTGATGTTTGACTTCAGGATAAAGCTTGGAGATAAGTTATTTAAATAA--CGTGACAACTTGTCCATGGG-GAACTTACAGAATGGGC-TTCGAGCTTAGGAAGAGAAACAGAGGAGGGGGGTAAATACCTTTTGTAATATATGAGAATCACCTGTATGCCAAAGAAAATA------------------------TC--CCAAGTACCTTAAGAGAAAATCAACTG-AAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126559961 567 + 183735486 gaaaaatcagtactactgattttttgttttgcctcatgctctgctgtggcttggcacagtactatcagtgatttttgtctttatataaggttttgatattttgtctattatggaattttgcattactttt-gatcttttaaagaattgcaccagaatattatttatggtgattactgtgtgtttt-----------agcttaagttttgtgcctgag--gcaaaaacctcactcgcctcaTGAATCTCTC------------------CTTGGTCTAGGCT---ATATCAGGAGTCCCCTTAAGATCAGAGGCAGCAGAAGTGGGCTCTGAGGCCATCTTTGGATATTTATTTAAAGGTTTGTAAGTCTCTTTATCAGAGCCCACTCTTAATGTGACTGACTCTGATGTTTGACTTCAGGATAAAGCTTGGAGATAAGTTATTTAAATAA--CGTGACAACTTGTCCATGGG-GAACTTACAGAATGGGC-TTCGAGCTTAGGAAGAGAAACAGAGGAGGGGGGTAAATACCTTTTGTAATATATGAGAATCACCTGTATGCCAAAGAAAATA------------------------TC--CCAAGTACCTTAAGAGAAAATCAACTG-AAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1751744 568 +   8933513 aaaaaatcagtactactgattttttgttttgcctcatgctctgctgtggcttggcacagtactatcagtgatttttgtctttatataaggttttgatattttgtctattatggaattttccatgacttttggatcttttaaagaattgcaccagaatattatttatggtgattactgtgtgtttt-----------agcttaagttttgtgcctgag--gcaagaacctcactcgcctcaTGAATCTCTC------------------CTTGGTCTGGGCT---ATATCAGGAGTCCCCTTAAGATCAGAGGCAGCAGAAGTGGGCTCTGAGGCCATCTTTGGATATTTATTTAAAGGTTTGTAAGTCTCTTTATCAGAGCCCACTCTTAATGTGACTGACTCTGATGTTTGACTTCAGGATAAAGCTTGGAGATAAGTTATTTAAATAA--CGTGACAACTTGTCCATGGG-GAACTTACAGAATGGGC-TTCGAGCTTAGGAAGAGAAACAGAGGAGGGGTCTAAATACCTTTTGTAATATATGAGAATCACCTGTATGCCAAAGAAAATA------------------------TC--CCAAGTACCTTAAGAGAAAATCAACTG-AAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139886096 566 + 163208435 aaaaaatcagtactactgattttttgttttgcctcatgctgtgctgtggcttggcacagtactatcagtgatttttgtctttatataaggttttgatattttgtctattatagaattttgcattatgtttggatcttttaaagaattgcaccagaatattatttatggtgattactgtgtgtttc-----------agcttaagttttgtgcctgag--gcaagaacctcactcacctcaTGAATCTCTC------------------CTTGGTCTGGGCT---ATATCAGGAGTCCCCTTAAGATCAGAGGCAGCAGAAGTGGGCTCTGAGGCCATCTTTGGATATTTATTTAAAGGTTTGTAAGTCTCTTTATCAGAGCCCACTCTTAATGTGACTGACTCTGATGTTTGACTTCAGGATAAAGCTTGGAGATAAGTTATTTAAATAA--CGTGACAACTTGTCCATGGG-GAACTTACAGAATGGGC-TTCGAGCTTAGGAAGAGAAAC--AGGAGGGGTCTAAATACCTTTTGTAATATATGAGAATCACCTGTATGTCAAAGAAAATA------------------------TC--CCAAGTACCTTAAGAGAAAATCAACTG-AAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122870763 546 + 180051392 ----------------------TTTGttttgtttcatgctctgctgtggcttggcacagtactattagcaa-ttttatctttatttaaggttttgacattttgtctattacagaattttgcattacttttggatcttttaaagaattgcagcagaatattatttatggtgattattgtgtgtttt-----------agcttaagttttgtgcctgag--gcaagaacctcactcacctcaTGAATCTCCC------------------CTTGCTCTGGGCT---ATATCAGGAGTCCCCTTAAGATCAGAGGCAGCAGAAGTGTGCTCTGAGGCCATCTTTGGATATTTATTTAAAGGTTTGTAAGTCTCTTTGCCAGGGCCCACTCTTAATGTGACTGGCTCTGATGTTTGACTTCAGGATAAAGCTTGGAGATAAGTTATTTAAATAA--CGTGACAACTTGTCCATGGG-GAACTTACAGAATGGGCTTTCGAGTTTAGGGAGAGAAACAGAGGAGGGGCCTAAACACCTTTTGTAATATATGAGAATCACTTGTATGCCAAAGACAATA------------------------TC--CCAAGTACCTTAAAAGAAAATCAACTG-AAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124294384 546 + 181584905 ----------------------TTTGttttgcttcatgctctgctgtggcttggcacagtactattagcaa-ttttatctttatttaaggttttgacattttgtctattacagaattttgcattacttttggatcttttaaagaattgcagcagaatattatttatggtgattactgtgtgtttt-----------agcttaagttttgtgcctgag--gcaagaacctcactcacctcaTGAATCTCCC------------------CTTGCTCTGGGCT---ATATCAGGAGTCCCCTTAAGATCAGAGGCAGCAGAAGTGTGCTCTGAGGCCATCTTTGGATATTTATTTAAAGGTTTGTAAGTCTCTTTGCCAGGGCCCACTCTTAATGTGACTGGCTCTGATGTTTGACTTCAGGATAAAGCTTGGAGATAAGTTATTTAAATAA--CGTGACAACTTGTCCATGGG-GAACTTACAGAATGGGCTTTCGAGTTTAGGGAGAGAAACAGAGGAGGGGCCTAAACACCTTTTGTAATATATGAGAATCACTTGTATGCCAAAGACAATA------------------------TC--CCAAGTACCTTAAAAGAAAATCAACTG-AAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16292744 546 +  18395747 ----------------------TTTGttttgcttcatgctctgctgtggcttggcacagtactattagcaa-ttttatctttatttaaggttttgacattttgtctattacagaattttgcattacttttggatcttttaaagaattgcagcagaatattatttatggtgattactgtgtgtttt-----------agcttaagttttgtgcctgag--gcaagaacctcactcacctcaTGAATCTCCC------------------CTTGCTCTGGGCT---ATATCAGGAGTCCCCTTAAGATCAGAGGCAGCAGAAGTGTGCTCTGAGGCCATCTTTGGATATTTATTTAAAGGTTTGTAAGTCTCTTTGCCAGGGCCCACTCTTAATGTGACTGGCTCTGATGTTTGACTTCAGGATAAAGCTTGGAGATAAGTTATTTAAATAA--CGGGACAACTTGTCCATGGG-GAACTTACAGAATGGGCTTTCGAGTTTAGGGAGAGAAACAGAGGAGGGGCCTAAACACCTTTTGTAATATATGAGAATCACTTGTATGCCAAAGACAATA------------------------TC--CCAAGTACCTTAAAAGAAAATCAACTG-AAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5305493 546 +  26952557 ----------------------TTTGttttgcttcatgctctgctgtggcttggcacagtactattagcaa-ttttatctttatttaaagttttgacattttgtctattacagaattttgcattacttttggatcttttaaagaattgcagcagaatattatttatggtgattactgtgtgtttt-----------agcttaagttttgtgcctgag--gcaagaacctcactcacctcaTGAATCTCCC------------------CTTGCTCTGGGCT---ATATCAGGAGTCCCCTTAAGATCAGAGGCAGCAGAAGTGTGCTCTGAGGCCATCTTTGGATATTTATTTAAAGGTTTGTAAGTCTCTTTGCCAGAGCCCACTCTTAATGTGACTGGCTCTGATGTTTGACTTCAGGATAAAGCTTGGAGATAAGTTATTTAAATAA--CGTGACAACTTGTCCATGGG-GAACTTACAGAATGGGCTTTCGAGTTTAGGGAGAGAAACAGAGGAGGGGCCTAAACACCTTTTGTAATATATGAGAATCACTTGTATGCCAAAGACAATA------------------------TC--CCAAGTACCTTAAAAGAAAATCAACTG-AAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28405968 546 +  82825804 ----------------------TTTGttttgcctcatgctctgctgtggcttggcacagtactatcagcaa-ttttatacttatttaaggttttgatattttgtctattacagaattttgtattacttttggatcttttaaagaattgcagcagaatattatttatggtgattactgtgtgtttt-----------agcttaagttttgtgcctgag--gcaagaacctcactcacctcaTGAATCTCCC------------------CTTGCTCTGGGCT---ATATCAGGAGTCCCCTTAAGATCAGAGGCAGCAGAAGTGTGCTCTGAGGCCATCTTTGGATATTTATTTAAAGGTTTGTAAGTCTCTTTGCCAGAGCCCACTGTTAATGTGACTGGCTCTGATGTTTGACCTCAGGATAAAGCTTGGAGATAAGTTATTTAAATAA--CGTGACAACTTGTCCATGGG-GAACTTACAGAATGGTCTTTCGAGTTTAGGGAGAGAAACAGAGGAGGGGCCTAAACACCTTTTGTAATATATGAGAATCACTTGTATGCCAAAGACAATA------------------------TC--CCAAGTACCTTAAAAGAAAATCAACTG-AAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4075903 546 -   4237731 ----------------------TTTGttttgcttcatgctgtgctgtggcttggcacagtactattagcaa-ttttatctttatttaaagttttgacattttgtctattacagaattttgcattacttttggatcttttaaagaattgcagcagaatattatttatggtgattactgtgtgtttt-----------agcttaagttttgtgcctgag--gcaagaacctcactcacctcaTGAATCTCCC------------------CTTGCTCTGGGCT---ATATCAGGAGTCCCCTTAAGATCTGAGGCAGCAGAAGTGTGCTCTGAGGCCATCTTTGGATATTTATTTAAAGGTTTGTAAGTCTCTTTGCCAGAGCCCACTCTTAATGTGACTGGCTCTGATGTTTGACTTCAGGATAAAGCTTGGAGATAAGCTATTCAAATAA--CGTGACAACTTGTCCATGGG-GAACTTACAGAATGGGCTTTCGAGTTTAGGGAGAGAAACAGAGGAGGGGCCTAAACACCTTTTGTAATATATGAGAATCACTTGTATGCCAAAGACAATA------------------------TC--CCAAGTACCTTAAAAGAAAATCAACTG-AAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      344495 547 -   1175262 ----------------------TTTGttttgcctcatgctctgccgtggcttggcacagtactatcagcaa-ttttatctttatttaaggttttgatatttcgtctattacagaattttgcattacctttggatcttttaaagaattgcagcagaatattatttatggtgattactgtgtgtttt-----------agcttacgttttgtgcctgaggcgcaagaacctcactcacctcaTGCATCTCCC------------------CTTGCTCTGGGCT---ATATCAGGAGTCCCCCTAAGATCAGAGGCAGCAGAAGTGTGCTCTGAGGCCATCTTTGGATA-TTATTTAAAGGTTTGTAAGTCTCTTTGCCAGAGCCCACTCTTAATGTGACTGGCTCTGATGTTTGACCTCAGGATAAAGCTTGGAGATAAGTTATTTAAATAA--CGTGACAACTTGTCCATGGG-GAACTTATAGAATGGGCTTTCGAGTTTAGGGAGAGAAACAGAGGAGGGGCCTAAACACCTTTTGTAATATATGAGAATCACTTGTATGCCAAAGACAATA------------------------TC--CCAAGTACCTTAAAAGAAAATCAACTG-AAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123692786 582 - 204313951 aaaaaatcagaactactgatgttttgttttgcctcatcctctgcagtggcttggcagagtactatcagtga-ttttgac-ttatttaacac--tgatattttatttattatagaattttgtattacttttggatcttttaaagtattacactagagtattatttatggtgattactgtgtgtttt-----------agcttaagttttgtgcccgac--gcaagaacctcactaatctcaTGAATCTCCC------------------CTTGGTCGGGGCTGCAGCACCAGGAGTCCCCTTAAGATCAGAGGCAGCAGAAGTGGGCTCTGAGGCCATCCTTGGATATTTATTTAAAGGATCATGAGTCTCTTTGCAAGAGCCCACTCTTAATGTGACTGGCTGTGATGTTTGACTTCAGGATAAAGCTTGGAGATACATTATTTAAATAA---GTGACAACTCATCCATGGGAGAACTTACAGAATGGGC-TTCATGCTTAGGGAGAGAAACAGAGGAGAGGTCTAAATATCTTTTGTAATACATGAG-ACCACC--------AAAGAAAAGATCCCTAGAAGCTTAAAAGAAAAGTTC--CCAAGTACCTTAAAAGAAAATCAACTG-AAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55736776 591 -  71252344 aaaaaatcacaactactgattttttgttttgcctcatcttctgccgtggcttggc--agttctatcagtga-ttttgactttatttaagactttgatattttgtttattacagaattttgcattacttttggatctcttaaagtattgcactagagtattatttatggtgattactgtgtgtttt-----------agcttatgttttgtgcccaag--gcgagcacctcagtcatctcTTGAATGTCCC------------------CTTGGTCTGGGCTGCAGCACCAGGAGTCCCCTTAAGATCAGAGGCAGCAGAAGTGGGCTCTGAGGCCATCTTTGGATATTTATTTAAAGGATCGTGAGTCTCTTTGCAAGAGCCCACTCTTAATGTGACTGACTCTGATGTTTGACCTCAGGATAAAGTGTGGAGATATGTTACTTAAATAA---GCGACAACTTTTCCGTGGCAGAACTTAAAGAATGGGC-TTCGTGCTTAGGGAGAGAGACAGAGGAGGGGTCTAAATATCTTTTGTAATATACGAG-ATCACCTGCATGCTGAAGAAAAGATCCCTAGAAGCTTAAAAGAAAAGATC--CCAAGTACCTTAAAAGAAAATCAACTG-AAAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       40266 591 -   3089952 aaaaaatcagaactactgattttttgttttgcctcatcctctgcagtggcttggcagagtactatcagtga-ttttgac-ttatttaagactttgatactttgtttattacagaattctgcattacttttgggtcttttgaagtattgcactagagtattatttatggtgattactgtgtgtttt-----------agcttaagttttgtgcccgag--gcaagaacctcactcgtctcaTGAATCTCCC------------------CTTGGTCTGGGCTGCAGCACCAGGAGTCCCCTTAAGATCAGAGGCAGCAGAAGTGGGCTCTGAGGCCATCTTTGGATATTTATTTAAAGGATTGTGAGTCTCTTTGCAAGAGCCCACTCTTAATGTGACTGGCTCTGATGTCTGACCTCAAGATAGAGCTTGGAGATACGTTATTTAAATAA---GTGACAACTTGTCCATGGGAGAACTTACAGAATGGGC-TTTGTG-TTAGGGAGAGAAACAGAGGAGGGGTCTAAATATCTTTTGTAATAGATGAG-ATCACCTGTATGCCAAAGAAAAGATCCCTAGAAGCTTAAAAGAAAAGATC--CCAAGTACCTTAAAAGAAAATCAACTG-AAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13240605 591 -  42888418 aaaaaatcagaactactgattttttgttttgcctcatcctctgcagtgacttggcagagtactatcagtga-ttttgaatttatttaagactttgatattttgtttattacagaattttgcattacttttggatcttttaaagtattgcactagaggattattcatggtgattactgtgtgtttt-----------agcttaagttttgtgcccgag--gcaagaacctcactcatctcaTGAATTTCCC------------------CTTGGTCTGGGCTGCAGTACCAGGAGTCCCCTTAAGATCAGAGGCAGCAGAAGTAGGCTCTGAGGCCACGTTTGGATATTTATTTAAAGGATCGTGAGTCTCTTTGCAAGAGCCCACTCTTAATGTGACTGGCTTTGATGTTTGACCTCAGGATAAAGCTTGGAGATACGTTTTTTAAATAA---GTGACAACTTGTCCATGGGAGAACTTACAGAATGGGC-TTTGTGCTTAGGGAGAGAA--AGAGGAAGGGTCTAAATATCTTTTGTAATATATGAG-ATCACCTGTATGCCAAAGAAAAGATCCCTAGAAGCTTAAAAGAAAAGATC--CCAAGTACCTTAAAAGAAAATAAACTG-AAAA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3101459 568 +   4132165 AAGAAatcagtaatgctgat------ttttgcctcatgctccactatggcttgacacagcactgtttgtga-tcctgtctttatttaaagttttgtcattttgtaccctataaatatttgtatcactttctgctcttttcaaatattgccctaaactattatctagggtgtttactgtgtgttct-----agcaacagcttaaatttagtacatgag--gcgagaatatcacttgcctcaTGAGTCTCAC---------------CTTCTTCATCTTCGCT---GTAT---GAGTCCCCTTCAGATCAGAGGTAGCAGACTTGGGCTCTAAGGCTGTTAGGGGATATTTATTTAAAGGATTGTGAATCACTTGGTCAGATGCCACTCTTAAGGTGGCTGGCTCTGGTGTTTGATGTAGGGATAAAGCTGGGAGATAAGTTATTTAAATAA--TGTGGCAACTTTTCCATGGG-GAACTTAACAAGTGAGT-TTTGGGCTTAGGGAAAGAAACAGATCAGGGGTCTAGATAACTTTTGTGATGTGCAAGAGTCGCCTGTATGCTAAAGATAAGC------------------------TT--TCAGGGACCTTGAACAAAAACCAACTGCACGA
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2669122 578 +   3667625 aaacaattcctgctgatgaataattgatttgtggaagg----gctgagtcctggcac-------tcactac-tttta--------caagttaccaaaatcctctccatcatagatttttgcattaattttgatttttagaaaatgttgcattaaaatattacttattttgattactgaggattttttttaaacatctgattaaattttgtttctgag--gtgaatgcctcactcccctcaTGCATCTCATTCCCCTCATCTGTTTCATCTTAGTCCTGACC---ATGCTTGAGGTAACCTTCAAATCAGAGCCAGCATGAATAGGCTGTACAAAAATCTTTGGGTATTTATTTAAAGGATTGTGAAATTGCTCTGCAGGTCCCCCTCTTAGTGTG-TTGGCTCTGGTGTCTGTCCTCAGGATAAAGCTGGGAGATGAATTCTTTAGATAAAAAGTGGTAACTTTTTCATGGG-TAAGTTGCAGAATCA-C-TTTGGATTTAAAGGGACAAACAGACCAGGGATTTAAATAGTGCTTATCACAAATATGGCTCCCTTGTGTGCAGAAAATAAGC------------------------TCCTCTATTTTCCTTAAAAG-AAATCATTTT-AAAA
i dasNov3.JH567306         I 9359 I 552
e micMur3.chr12             60576001 5205 + 108143057 I
e canFam3.chr11             14939876  14 +  74389097 I
e proCoq1.NW_012155062v1     3611922 4732 +  11683526 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=24752.000000
s hg38.chr5_KI270796v1_alt    120144 2 +    172708 TA
s panTro5.chr5             125223830 2 + 181907262 TA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126560528 2 + 183735486 TA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1752312 2 +   8933513 TA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139886662 2 + 163208435 TA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122871309 2 + 180051392 TA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124294930 2 + 181584905 TA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16293290 2 +  18395747 TA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5306039 2 +  26952557 TA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28406514 2 +  82825804 TA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4076449 2 -   4237731 TA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      345042 2 -   1175262 TA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123693368 2 - 204313951 TA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55737367 2 -  71252344 TA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       40857 2 -   3089952 TA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13241196 2 -  42888418 TA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3102027 2 +   4132165 TA
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60576001 5205 + 108143057 I
e canFam3.chr11             14939876 14 +  74389097 I
e proCoq1.NW_012155062v1     3611922 4732 +  11683526 I
e dasNov3.JH567306           2669700 552 +   3667625 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=5180481.000000
s hg38.chr5_KI270796v1_alt    120146 547 +    172708 TGCT-------CCCATCCA-----CCAGGCCCTTTCCTGCTTATTTGCTACTGATTATTTGCTACAATCAGATGGCCTGTGAACAGAACCCACATAC---CTTGCCTGGGGAACAGTGATATTTACTTGAACTGGGGAAGCCTTATTTAGTCCTTGGTATAGATCAATCATCATGAACATGAGAAAAGTCAACATATCATAAAGATATACCTATTATTCATTTtatatatatatatatatatatacctatatatataatttattatataAAATGATAAACTCTCACCTTACAAAGTGAAGTTGATACCAgaaatagaagaaaaatttaaaatagatgttcatatcct--cagagattcgagaggatacgcaattcataaaataagaataggctgctgcatgcaaatgagttagtcaATGTTTG-GAAAAGCTTAGTGCAAATTCCAGATAATTTCAATACAAAGCCAGAAGAG---CAGTGAAATAGGTGAATCACAACCTGAGTTTAAGTTTCAT-----AAAA-------------AAA-GGA------TAGCTTTATTCCTTATAGTATCTC-TAACACTTAGATGAGCTC-------------------
s panTro5.chr5             125223832 542 + 181907262 TGCT-------CCCATCCA-----CCAGGCCCTTTCCTGCTTATTTGCTACTGATTATTTGCTACAATCAGATGGCCTGTGAACAGAACCCACATAC---CTTGCCTGGGGAACAGTGATATTTACTTGAACCGGGGAAGCCTTATTTAGTCCTTGGTATAGATCAATCATCATGAACATGAGAAAAGTCAACatatcataaagatatacctattattcatt------gtatatatatatatatacctatatatatcatttattatataAAATGATAAACTCTCACCTTACAAAGTTAAGTTGATACCAgaaatagaagaaaaatttaaaatagatgttcatatcct--cagagattcgagaggatacgcaattcataaaataagaataggctgctgcatgcaaatgagttagtcaACGTTTG-GAAAAGCTTAGTGCAAATTCCAGATAATTTCAATACAAAGCCAGGAGAG---CAGTGAAATAGGTGAATCACAACCTGAGTTTAAGTTTCAT-----AAAA-------------AAAAGGA------TAGCTTTATTCCTTATAGTATCTC-TAACACTTAGATGAGCTC-------------------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126560530 540 + 183735486 TGCT-------CCCATCCA-----CCAGGCCCTTTCCTGCTTATTTGCTACTGATTATTTGCTACAATCAGATGGCCTGTGAACAGAACCCACATAC---CTTGCCTGGGGAACAGTGATATTTACTTGAACCGGGGAAGCCTTATTTAGTCCTTGGTATAGATCAATCATCATGAACATGAGAAAAGTCAACatatcataaagatatacctattattcatt--------gtatatatatatatacctatatatatcatttactatataAAATGATAAACTCTCACCTTACAAAGTTAAGTTGATACCAgaaatagaagaaaaatttaaaatagatgttcatatcct--cagagattcgagaggatacacaattcataaaataagaataggctgctgcatgcaaatgagttagtcaACGTTTG-GAAAAGCTTAGTGCAAATTCCAGATAATTTCAATACAAAGCCAGGAGAG---CAGTGAAATAGGTGAATCACAACCTGAGTTTAAGTTTCAT-----AAAA-------------AAAAGGA------TAGCTTTATTCCTTATAGTATCTC-TAACACTTAGATGAGCTC-------------------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1752314 537 +   8933513 TGCT-------CCCATCCA-----CCAGGCCCTTTCCTGCTTATTTGCTACTGATTATTTGCTACAATCAGATGGCCTGTGAACAGAACCCACATAC---CTTGCCTGGGGAACAGTGATATTTACTTGAACTGGGGAAGCCTTATTTAGTCCTTGGTATAGATCAATCATCATGAACATGAGAAAAGTCAACatatcataaagatatacctattattcatt--------atatatatatatacacc--tatatatcatttattatataAAATGATAAACTCTCACCTTACAaagtaaagttgataccagaaatagaagaaaaatttaaaatagatgttcatatcct--cagagattcgagaggatatgaaattcataaaataagaataggctgctgcatgcaaatgagttagtcaACGTTTG-GAAAAGCTTAGTGCAAATTCCAGATAATTTCAATACAAAGCCAGAAGAG---CAGTGAAATAGGTAAATCACAACCTGAGTTTAAGTTTCAT-----AAAA-------------AAA-GGT------TAGCTTTATTCCTTAGAGTATCTC-TAACACTTAGATGAGCTC-------------------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139886664 498 + 163208435 TGCT-------CCCATCCA-----CCATGCCCTTTCCTGCTTATTTGCTACTGATTATTTGCTACAATCAGATGGCCTGTGAACAGAACCCACATAC---CTTGCCTGGGGAACAGTGATATTTACTTGAACTGGGGAAGCCTTATTTAGTCCTTGGTATAGATCAatcactatgaacatgagaaaagtcaacatatcataaagatataccta------------------------------------------------actatataaagtgataaactctcaccttacaaagtaaagttgataccagaaatagaagaaaaatttaaaatagatgttcatatctt--cagagatttgagaggataccaaattcataaaataagaataggctgctgcatgcaaatgagttagtcaACGTTTG-GAAAAGCTTAGTGCAAATTCCAGATAATTTCAATACAAAGCCAGAAAAG---CAGTGAAATAGGTAAATCACAACCTGAGTTTAAGTTTCAT-----AAAA-------------AAA--GA------TAGCTGTATTCCTTATAGCATCTC-TAACACTTCGATGAGCTC-------------------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122871311 497 + 180051392 TGCT--------CCATCCA-----CCAGACCCTTTCCTGGTTATTTGCTACTGATTATTTGCTGCAATCAGATGACCTCTGAACAGAATCCATACAC---CTTGCCTGGGGAACAGTGATATTTACTTGAACTGGTGAAGCCTTCTTTAGTCCTTGGTATAGATCAATCACTGTGAACATGAGAAAAGTCAACATATCATAAAGATATACGTA------------------------------------------------ACTATATAAAATGATACTCTCTCACCTTACAAAGTAAAGTTGATACCAGACATagaagaaaattttaaaatagatgttcatatccc--cagagatttgagaggataccaaattcataaaataagaataggctgctGCATGCAAATGAGTTAGTCAATGTTTG-GAAAAACTTAGTGCAAATTCTGGATAATTTCAATACAAAGCTAGAAGAG---TAGTGCAATAGGTATATCACAACCTGAGTTTAAGTTTCAT-----AAAA-------------AAG--GA------TAGCTTTATTCCTTATAGTATCTC-TAACACTTAGATGAGATC-------------------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124294932 497 + 181584905 TGCT--------CCATCCA-----CCAGACCCTTTCCTGGTTATTTGCTACTGATTATTTGCTGCAATCAGATGACCTCTGAACAGAATCCATACAC---CTTGCCTGGGGAACAGTGATATTTACTTGAACTGGTGAAGCCTTCTTTAGTCCTTGGTATAGATCAATCACTGTGAACATGAGAAAAGTCAACATATCATAAAGATATACGTA------------------------------------------------ACTATATAAAATGATACTCTCTCACCTTACAAAGTAAAGTTGATACCAGACatagaagaaaattttaaaatagatgttcatatccc--cagagatttgagaggataccaaattcataaaataagaataggctgctgcatgcaaatgagttagtcaACGTTTG-GAAAAACTTAGTGCAAATTCTGGATAATTTCAATACAAAGCTAGAAGAG---TAGTGCAATAGGTATATCACAACCTGAGTTTAAGTTTCAT-----AAAA-------------AAG--GA------TAGCTTTATTCCTTATAGTATCTC-TAACACTTAGATGAGATC-------------------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16293292 497 +  18395747 TGCT--------CCATCCA-----CCAGACCCTTTCCTGGTTATTTGCTACTGATTATTTGCTGCAATCAGATGACCTCTGAACAGAATCCATACAC---CTTGCCTGGGGAACAGTGATATTTACTTGAACTGGTGAAGCCTTCTTTAGTCCTTGGTATAGATCAATCACTGTGAACATGAGAAAAGTCAACATATCATAAAGATATACGTA------------------------------------------------ACTATATAAAATGATACTCTCTCACCTTACAAAGTAAAGTTGATACCAGACATagaagaaaattttaaaatagatgttcatatccc--cagagatttgagaggataccaaattcataaaataagaataggctgctGCATGCAAATGAGTTAGTCAACGTTTG-GAAAAACTTAGTGCAAATTCCGGATAATTTCAATACAAAGCTAGAAGAG---TAGTGAAATAGGTATATCACAACCTGAGTTTAAATTTCAT-----AAAA-------------AAG--GA------TAGCTTTATTCCTTATAGTATCTC-TAACACTTAGATGAGATC-------------------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5306041 497 +  26952557 TGCT--------CCATCCA-----CCAGACCCTTTCCTGGTTATTTGCTACTGATTATTTGCTGCAATCAGATGACCTCTGAACAGAACCCATACAC---CTTGCCTGGGGAACAGTGATATTTACTTGAACTGGTGAAGCCTTCTTTAGTCCTTGGTATAGATCAATCACTGTGAACATGAGAAAAGTCAACATATCATAAAGATATATGTA------------------------------------------------ACTATATAAAATGATACTCTCTCACCTTACAAAGTAAAGTTGATACCAGACATAGAAGAAAATTTTAAAATAGATGTTCATATCCC--CAGAGATTTGAGAGGATACCAAATTCATAACATAAGAATAGGCTGCTGCATGCAAATGAGTTAGTCAACGTTTG-GAAAAACTTAGTGCAAATTCCGGATAATTTCAATACAAAGCTAGAAGAG---TAGTGAAATAGGTATATTACAACCTGAGTTTAAGTTTCAT-----AAAA-------------AAG--GA------TAGCTTTATACCTTATAGTATCTC-TAACACTTAGATGAGATC-------------------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28406516 496 +  82825804 TGCT--------CCATCCA-----CCAGACCCTTTCCTGGTTATTTGCTACTGATTATTTGCTGCAATCAGATGACCTGTGAACAGAACCCATACAC---CTTGCCTGGGGACCAGTGATATTTACTTGAACTGGTGAAGCCTTCTTTAGTCCTTGGTATAGATCAATCACTGTGAACATGAGAAAAGTCAACATATCATAAAGATATACCTA------------------------------------------------ACTATATAAAATGATACTCTCTCACCTTACAAAGTAAAGTTGATACCAGACatagaagaaaatttttaaatagatgttcatatccc--cagagatttgagaggataccaaattcataaaataagaataggctgctgcatgcaaatgagttagtcaATGTTTG-GAAAAACTTAGTGCAAATTCCGGATAATTTCAATACAAAGCTAGAAGAG---TAGTGAAATAGGTATATCACAACCTGAGTTTAAG-TTCAT-----AAAA-------------AAG--GA------TAGCTTTATTCCTTATAGTATCTC-TAACACTTAGATGAGCTC-------------------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4076451 500 -   4237731 TGCT--------CCATCCA-----CCAGACCCTTTCCTGGTTATTTGCTACTGATTATTTGCTGCAATCAGATGACCTCTGAACAGAACCCATACACCTTCTTGCCTGGGGAACAGTGATATTTACTTGAACTGGTGAAGCCTTCTTTAGTCCTTGGTATAGATCAATCACTGTGAACATGAGAAAAGTCAACATATCATAAAGATATATGTA------------------------------------------------ACTATATAAAATGATACTCTCTCACCTTACAAAGTAAAGTTGATACCAGACatagaagaaaattttaaaatagatgttcatatccc--cagagatttgagaggataccaaattcataaaataagaataggctgctgcatgcaaatgagttagtcaACGTTTG-GAAAAACTTAGTGCAAATTCCGGATAATTTCAATACAAAGCTAGAAGAG---TAGTGAAATAGGTATATCACAACCTGAGTTTAAGTTTCAT-----AAAA-------------AAG--GA------TAGCTTTATACCTTATAGTATCTC-TAACACTTAGATGAGATC-------------------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      345044 497 -   1175262 TGCT--------CCATCTA-----CCAGACCCTTTCCTGGTTATTTGCTACTGATTATTTCCTGCAATCAGCTGACCTGTGAACAGAACCCATACAC---CTTGCCTGGGGAACAGTGGTATTTACTTGAACTGGTGAAGCCTTCTTTAGTCCTTGGTATAGATCAATCACAGTGAACATGAGAAAAGTCAACATATCATAAAGATATACCTA------------------------------------------------ACTATATAAAATGATACTCCCTCACCTTACAAAGTAAAGTTGATACCAGACATAGAAGAAAATTTTAAAATAGATGTTCATATCCC--CAGAGATTTGAGAGGATACCAAATTCATAAAATAAGGATAGGCTGCTGCATGCAAATGAGTTAGTCAACGTTTG-GAAAAACTTAGCGCAAATTCCAGATAATTTCAATACAAAGCTAGAAGAG---TAGTGAAATAGGGGTATCACAACCTGAGTTTAACTTTCAT-----ATAA-------------AAG--GA------TAGCTTGATTCCTTATAGTATCTC-TAACACTTAGATGAGCTG-------------------
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123693370 479 - 204313951 TGTT-------CCCACACA-----CAAGGCACTTTC--------------CTGATTATTTGCAATAATCAGATGGCCTGTGAACAGAACCCACATAC---TTTGTCTGGGGAACAGTGGTATTTACTTGAACTGGGGAAGCCTTCTTTAGTCCTTGGTATAGATCAATCACTATGAACATGAGAAAAGTC-ACATATTATAAAGATATACCTA------------------------------------------------AATATATAAAATGATAAACTCTCACCTTACA-----AAGTTGATACCAGAAATAGAAGAAAATTTTAACATAGATGTTCATATCCC--CAGAGATCTGAGAGGATACCAAATTCATAAAATAAGAATAGGCTGCTGCATGCAAATGAGCTAGTCAGAGTTTG-G-AAA----AGTGCAAATTCCAGATAATTTCAATACAAAGCCAGAAGAA---TAGTGAAATAGGTAAATCACAACCTGAGTTTAAGTTTCATAAAAAAAAA-------------AAG--GA------TAGCTTTATTCTCTATAGTATCTCTTAGCACTTAGATGAGCTC-------------------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55737369 489 -  71252344 TGTT-------CCCACACA-----CCAGGCCCTTTCCTGGTTATTTGCTACTGATTATTTGCAATAATCAGATGACCTGTGAGCAGAACCCACATAC---CTTGCCTGGAGAACAGTGGTATTTACTTGAACTGGGGAAGCCTTCTTTAGTCCTTGGTATAGATCAATCACTATGAACATGAGAAAAGTC-ACATATAATAAAGATATTCCTA------------------------------------------------ACTGCATAAAATGATAAACTCTCACCTTaca-----aagttgataccagaaatagaagaaaatttttaaatagatgttcatattgc--cagggatttgagaggataccaaattcataaaataagaataggctgctgcatgcaaatgagctagtcagggTTTG-GAAAA----AGTGCAAATTCCAGATAATTTCAATACAAAGCCAGAAGAA---TAGTGAAATAGGTAAATCAGAACCTGATTTTAAGTTTCAT----AAAAA-------------AAG--GA------TAGCTTTATTCCTTATAGTATCTC-TAGCACTTAGATGAGCTC-------------------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       40859 492 -   3089952 TGTT-------CCCACATA-----CCAGGCCCTTTCCTGGTTATTTGCTACTGATTATTTGTAATAATCAGATGGCCTGTGAGCAGAACCCACATAC---CTTGCCTGGGGAACAGTGGTATTTACTTGAACTGGGGAAGCCTTCTTTAGTCCTTAGTATAGATCAATCACTATGAACATGAGAAAAGTC-ACATATTATAATGATATACATA------------------------------------------------ACTATATAAAATGATAAACTCTCACCTTaca-----aagttgataccagaaatagaagaaaattttaaaatagatgttcatatccc--cagagatttgagaggataccaaattcataatataagaataggctgctgcatgcaaatgagctagtcagggTTTG-GAAAA----AGTGCAAATTCCAGATAATTTCAATACAAAGCCAGAAGAA---TAGTGAAATAGGTAGATCATAACCTGAGTTTAAGTTTCAT-TAAAAAAA-------------AAG--GA------TAGCTTTATTCCTTATAGGATCTC-TAGCACTTAGATGAGCTC-------------------
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13241198 462 -  42888418 TGTT-------TCCACACA-----CCAGGCCCTTTCCTGGTTATTTGCTACTGATTATTTGCAATAATCAGATGGCCTGTGAGCAGAACCCACATAC---TTTGTCTGGGGAACAGTGATATTTACTTGAACTGGGGAAGCCTTCTTTAGTCCTTGGTATAGATCAATCACTATGAACATGAGAAAAGTC-ACATATTATAAAGATATACCTA------------------------------------------------ACTATATAAAATGACA---------------------------------Aaatagaagaaaattttaaaatagatgttcatatccc--cagagatttgagaggataccaaattcataaaataagaacaggctgctgcatgcaaatgagccagtcagggTTTG-GAAAA----AGTGCAAATTCCAGATAATTTAAATACAAAGCCAGAAGAA---TAGTGAAATAGGTAAATCACAACCTGAGTTTAAGTTTCAT---AAAAAA-------------AGG--GA------TAGCTTTATTCCTTATAGTATCTC-TAGTACTTAGATGAGCTC-------------------
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3102029 444 +   4132165 TGCTCACGGCTCCCACCTA-----CCAGGCCCTTTCCTGACTCTTTGCTACTGATTATTTGCTACA-----------------------------AC----------------CAGGGATATTTACTTGAACTGGGGAAGTCCTCTTTAGTCCT---TATAGATCATTTACCAGGAACATGAGAAAAAACAGTGTGAAATAACCATCAACCTA------------------------------------------------ACTACATAAAAGGATAAACTCTCACCCAGGAAAGTAAAGTCGATACCAG------------------AAATAAGTGTTCACATCCC--CAGCGATTTGACAGGATACCAAATTCACAGGACAAGAATAGGCTGCGGTATGCAGATGGGGTAGTGGAAGTTTG-AGAAAACTTAGTGCAAATTCCAAATAA-TCCAATGCAAAGCCAGAAAAG---TAATGAGATAGGACAGTCACAACCTGCatgtaagttccat---ggaaac-------------aag--gatcattttatttttattccttacagtatcat-tagccctgagaTG------------------------
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2670252 498 +   3667625 TGCT-------CCCATACAGACCCTCAGGTCTCTTCCTGATTTTTCACTGCTGATTATTTACCACAGCCCCATAGCCTGTCAACAGAAACTGCCTTC---CCTGCCTGAAGAACTGTGATATTTACTTGAATTGAAGAA--------TAACTCATG-TGAAGTTCTATCACC-------TTAGAAAAGCCAACCTATGGTAAT-ATAAATGTA------------------------------------------------ACTACATAAAAAGGTA---------------AAGTAAATTTGattctagaaataaaaggtaactctataatccttgttcatatccccacagagatgtgacaggataccaagttcatggaacaagaaccagttgcttta---aaaaggggtagtcagaACTTATGAAGAATTTAGTGCAAATTCCATAT-------ATATAAAAAAATAAGAGTGCTGGTGGGATAGA-AAATCACAAactgaacttgagctccat-----gagatggttttgttcctaag--ga------cggctttgttccttaccgtattcc-cagcacctgggtaaaagcctggcacataagcgtactc
i dasNov3.JH567306         I 552 C 0
e micMur3.chr12             60576001 5205 + 108143057 I
e canFam3.chr11             14939876  14 +  74389097 I
e proCoq1.NW_012155062v1     3611922 4732 +  11683526 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=1856749.000000
s hg38.chr5_KI270796v1_alt    120693 158 +    172708 AGTACGTTTTGATCTTATCTTGTCAGAGCAACAGGATAGAGTTACTGTAGTACATAGTGCCATCATTTTCAGTTATTCtctaccctctctgttgccatgtgacataaagcaccatcttatagggggagctt---------atgtcccaacccctttgatattaggct
s panTro5.chr5             125224374 158 + 181907262 AGTACGTTTTGATCTTATCTTGTCAGAGCAACAGGATAGAGTTACTGTAGTACATAGTGCCATCATTTTCAGTTATTCTCTACCCTCTCTGTTGCCATGGGACATAAAGCACCATCTTATagggggagctt---------atgtcccaaaccctttgatattaggct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126561070 158 + 183735486 AGTACGTTTTGATCTTATCTTGTCAGAGCAACAGGATAGAGTTACTGTAGTACATAGTGCCATCATTTTCAGTTATTCTCTACCCTCTCTGTTGCCATGGGACATAAAGCACCATCTTATagggggagctt---------atgtcccaacccctttgatattaggct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1752851 157 +   8933513 AGTACGTGTTGATCTTATCTTGTCAGAGCAACAGGATAGAGTTACTGTAGTACATAGTGCCATCATTTTCAGTTATTCtctaccctctctgttgccatgtgacat-aagcaccatcttatagggggagctt---------ttgtcccaacccctttgatattaggct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139887162 158 + 163208435 AGTACGTGTTGATCTTACCTTGTCAGAGCAACAGGGTAGAGTTACTGTAGTACATAGTGCCATCGTTTTCAGTTATTCtctaccctctctgttgccatgtggcataaagcaccatcttatagggggagctt---------gtgtcccaacccctttgatattaggct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122871808 158 + 180051392 AGTACATGTTGATCTTATCTTGTCAGAGCAACAGGGTAGAGTTACTATAGTACATGGTGCCATCATTTTCAGTTattctctaccctccctgttgccatgtgacataaagcaccatcttatagggggagctt---------acatcccaacccctttgatattaggct
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124295429 158 + 181584905 AGTACATGTTGATCTTATCTTGTCAGAGCAACAGGGTAGAGTTACTATAGTACATGGTGCCATCATTTTCAGTTATTCTCTACCCTccctgttgccatgtgacataaagcaccatcttatagggggagctt---------acatcccaacccctttgatattaggct
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16293789 158 +  18395747 AGTACATGTTGATCTTATCTTGTCAGAGCAACAGGGTAGAGTTACTATAGTACATGGTGCCATCATTTTCAGTTattctctaccctccctgttgccatgtgacataaagcaccatcttatagggggagctt---------acatcccaacccctttgatattaggct
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5306538 158 +  26952557 AGTACATGTTGATCTTATCTTGTCAGAGCAACAGGGTAGAGTTACTATAGTACATGGTGCCATCATTTTCAGTTattctctaccctccctgttgccatgtgacataaagcaccatcttatagggggagctt---------acgtcccaacccctttgatattaggct
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28407012 158 +  82825804 AGTACATGTTGATCTTATCTTGTCAGAGCAACAGGGTAGAGTTACTATAGTACATGGTACCATCATTTTCAGTTATTCTCTACCCTccctgttgccatgtgacataaagcaccatcttatagggggagctt---------acgtcccaacccctttgatattaggct
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4076951 158 -   4237731 AGTACATGTTGATCTTATCTTGTCAGAGCAACAGGGTAGAGTTACTATAGTACATGGTGCCATCATTTTCAGTTATTCTCTACCCTCCCTGTTGCCATGTGACATAAAGCACCATCTTATAGGGGGAGCTT---------ACGTCCCAACCCCTTTGATATTAGGCT
i manLeu1.NW_012103321v1   C 0 M 1230
s colAng1.NW_012119644v1      345541 158 -   1175262 AGTACATGTTGATCTTATCTTGTCAGAGCAACAGGGTAGAGTTACTATAGTACATGGTGCCATCATTTTCAGTTATTCtctaccctctctgttgccatgtgacataaagcaccatcttatagggggagctt---------acgtcccaacccctttgatattaggct
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123693849 158 - 204313951 AGTGCATGTTGATCTTATCTTGTCAGAGCAACAGGCTAGAGTTACTGTAGTACATAGTGCCATCATTTTTAGATATTCTCTAGTCTCCCTGTTGCCAGGTGACATAAAGCATCGTCTGATATGGggagctt---------atgtcccaacccctttgatattaggtt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55737858 157 -  71252344 AGTGCATGTTGATCTTGTCTTGTCAGAGCAACAGGCTAGAGTTACTGCAGTACGTAATGCCATCATTTTCAGTTATTCTCTACTCTccctgttgccatgtgacataaagcatcatcttat-cggggagctt---------atgtcccaacccctttgatattaggct
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       41351 158 -   3089952 AGTGCATGTTGATCTTATCTTGTCAGAGCAACAGGTTAGAGTTACTGTAGTACATAGTGCCATCGTTTTCAGGTATTCTCTACTCTAcctgttgccatgtgacataaagcatcatcttataggggaagctt---------atgtcccaacccctttgatattaggct
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13241660 158 -  42888418 AGTGCATGTTGACCTTATCTTGTCAGAGCAACAGGCTAGAGTTACTGTAGTACACAGTGCCATCGTTTTCAGTTATTCTCTACTCTccctgttgccatgtgacataaagcatcatcttatagggggagctt---------atgtcccaacccctctgatattaggct
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3102473 108 +   4132165 -----------------------------------------------------------TCACCCTTTCTAGTTATTCTCTGCCTTCCCCAGTCCCCTAAGAATTAAAACACTACCATAGGGGAGAAGCTTATGTCTCCAATGTCTCAGCCACCTCCGTGCCAGGCA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14939890 152 +  74389097 AGTACATGTTGATGTTGTCTT---AGAGCAACAGGCTAGAGTCACTATAGTAAACTTTGCCATCCTTTCCAGTTAATCTCTACCTTTTCTATTGCCATGTGACTT---GTACCATCTTATACAAAGAGCAT---------acatctcaatccccttcatatcaggag
i canFam3.chr11            I 14 C 0
s dasNov3.JH567306           2670750 135 +   3667625 agtacatgttGATCTTGTTTGGTAGGAACAAGAGGCTGAAATTACTACTGTCAGTTGTACCATTCTTT-----------------------TTGCCATATGCCTTATAGCACCTTCTTAAgggaggagtat---------acttcccttcctccttaatatcaggct
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60576001 5205 + 108143057 I
e proCoq1.NW_012155062v1     3611922 4732 +  11683526 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=1618545.000000
s hg38.chr5_KI270796v1_alt    120851 166 +    172708 tggccatgtgacttgctttggctaatgggcagtgagtaaacatgaaatataccacattcaatcagaagttttgagaatctcgagtgccttagtc------------tggtatttttctgt-tg--caaaagaatggcatgtccttttcagatctgctcctgcagcctagattctggaatga
s panTro5.chr5             125224532 166 + 181907262 tggccatgtgacttgctttggctaatgggcagtgagtaaacatgaaatataccacattcaatcagaagttttgagaatctcgagtgccttagtc------------tggtatttttctgt-tg--caaaagaatggcatgtccttttcagatctgctcctgcagcctagattctggaatga
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126561228 165 + 183735486 tggccatgtgacttgctttggctaat-ggcagtgagtaaacatgaaatataccacattcaatcagaagttttgagaatctcgagtgccttagtc------------tggtatttttctgt-tg--caaaagaatggcatgtccttttcagatctgctcctgcagcctagattctggaatga
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1753008 166 +   8933513 tggccatgtgacttgctttggctaatgggcagtgagtaaacatgaaatataccacattcaatcagaagttttgagaatctcgagtgccttagtc------------tggtatttttctgt-tg--caaaagaatggcatgtccttttcagatctgctcctgcagcctagattctggaatga
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139887320 165 + 163208435 tggccatgtgacttgctttggctaatgggcagtcagtaaacatgaaatataccacattcaatcagaagttttga-aatctcgagtgccttagtc------------tggtatttttctgt-tg--caaaagaatggcatgtccttttcagatctgctcctgcagcctagattctggaatga
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122871966 166 + 180051392 tggccatgtgacttgctttggctaatgggcagtgagtaaacatgaaatataccacattcaatcagaagtattaagaatcttgagtgccttagcc------------tggtatttttctgt-tg--caaaagaatggcatgtccttttcagatttgctcctgcagcttagattctggaatga
i rheMac8.chr6             C 0 I 24
s macFas5.chr6             124295587 166 + 181584905 tggccatgtgacttgctttggctaatgggcagtgagtaaacatgaaatataccacattcaatcagaagtattgagaatcttgagtgccttagtc------------tggtatttttctgt-tg--caaaagaatggcatgtccttttcagatttgctcctgcagcttagattctggaatga
i macFas5.chr6             C 0 I 24
s macNem1.NW_012012355v1    16293947 162 +  18395747 tggccatgtgacttgctttggctaatgggcagtgagtaaacatgaaatataccacattcaatcagaagtattgagaatcttgagtgccttagtc------------tgg----tttctgt-tg--caaaagaatggcatgtccttttcagatttgctcctgcagcttagattctggaatga
i macNem1.NW_012012355v1   C 0 I 36
s cerAty1.NW_012002512v1     5306696 166 +  26952557 aggccatgtgacttgctttggctaatgggcagtgagtaaacatgaaatataccacattcaatcagaagtattgagaatcttgagtgccttagtc------------tggtatttttctgt-tg--caaaagaatggcatgtccttttcagatttgctcctgcagcctagattccgaaatgg
i cerAty1.NW_012002512v1   C 0 I 28
s chlSab2.chr23             28407170 166 +  82825804 tggccatatgacttgctttggctaatgggcagtgagtaaacatgaaatataccacattcaatcagaagtattgagaatcttgagtgctttagtc------------tggtatttttctgt-tg--caaaagaatggcatgtccttttcagatttgctcctgcagcctagattctggaatgc
i chlSab2.chr23            C 0 I 16
s colAng1.NW_012119644v1      345699 166 -   1175262 tggccatgtgacttgctttggctaatgggcagtgagtaaacatgaaatataccacattcaatcagaagtattgagaatcttgagtgccttagtc------------tggtatttttctgt-tg--caaaagaatggcatgtccttttcagatttgctcctgcagcctagattctggaatga
i colAng1.NW_012119644v1   C 0 I 130
s calJac3.chr2             123694007 153 - 204313951 tggccatgtgacttgctttggctaatgggcag----------tgaaatataccacattcaatctgaagttttgagagtcttgagtgcCCTAGTC------------TGGTATTTTTCTGT-TG--CAAAAGAATGGCATGTCTTTTTCAGATCTGCTCCTACAGCCTAGAT---GGAATGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55738015 153 -  71252344 tggccatgtgacttgctttgcctaatgggcag----------tgaaatataccatattcaatttgaagttttgagagtcttgagtgcCTTAGTC------------TGGTATTTTTCTGT-CG--CAAAAGAATGGCATGTCTTTTTCAGATCTGCTCCTACAGCCtatat---atatata
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       41509 152 -   3089952 tggccatgtgacttgctttggctaatgggcag----------tgaaatataccacattcaatttgaagttttaagagtcttgagtgcCTTAGTC------------TGGTATTTTTCTGT-TG--CAAAAGAATGGCATGTCTTTTTCAGATCTGCTCCTGT-GCCTAGAT---GGAATGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13241818 153 -  42888418 tggccatgtgacttgctttggctaatgggcac----------tgaaatataccacattcaatctgaagttttgacagtcttgagtgcCTTAGTC------------TGGTATTTTTCTGT-TG--CAAAAGAATGTCATATCTTTTTCAGATCTGCTCCTACAGCCTAGAT---GGAATGA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3102581 136 +   4132165 TGGCC--GTGCCTTGGTTCAGCCAATGGACAGTGAGCAAATGTGAAG-ACACCATCTCCAGTCAGATGTGTTGAGACTCTTAAATACTTTAGTC------------CACTATTTATCTGT-TTGCCAAAAGAATGGCATGCCTTAAAGAGGG-----------------------------
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14940042 158 +  74389097 -----atgtgacatgttttggccaatgaaagatgagaagacacaaaatataccatatccaaccagaagttttgagagtcttgtgtgccttagttcttttgattttattttatttttctgtata--tactaaaaagggat--------------tgctcct-tagcctagat-ctggaatga
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2670885 165 +   3667625 tggccatgtgatgtgctttgactaatggaaggtaagcaagcatgaaatacacctcatccaagaagaagctttaagagcct-aagtgcctcagct-----------gtggttcttttgttt-gt--caaaagaacagcatacccaaagaaggt-tgctcattcagcctaaattctggaataa
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60576001 5205 + 108143057 I
e proCoq1.NW_012155062v1     3611922 4732 +  11683526 I
e manLeu1.NW_012103321v1     4077109 1230 -   4237731 M
e mm10.chr18                55536584 2005 +  90702639 I

a score=1981.000000
s hg38.chr5_KI270796v1_alt    121017 20 +    172708 aaa-aaatatatata-----------------tgt--------cat
s panTro5.chr5             125224698 20 + 181907262 aaa-aaaaatatgta-----------------tgt--------cat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126561393 20 + 183735486 aaa-aaaaatatgta-----------------tgt--------cat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1753174 21 +   8933513 aaatatatatatata-----------------tgt--------cat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139887485 20 + 163208435 aaa-aaatatataca-----------------tgt--------cat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122872156 27 + 180051392 aga-gagtatatgtg-----------------tgtata-tatatat
i rheMac8.chr6             I 24 I 12
s macFas5.chr6             124295777 27 + 181584905 aga-gagtatatgtg-----------------tgtata-tatatat
i macFas5.chr6             I 24 I 12
s macNem1.NW_012012355v1    16294145 27 +  18395747 aga-gagtatatgtg-----------------tgtata-tatgtat
i macNem1.NW_012012355v1   I 36 I 10
s cerAty1.NW_012002512v1     5306890 27 +  26952557 aga-gagtatatgtg-----------------tgtata-tatatat
i cerAty1.NW_012002512v1   I 28 I 8
s chlSab2.chr23             28407352 22 +  82825804 ------gtgtgtgtg-----------------tgtata-tatatat
i chlSab2.chr23            I 16 I 30
s calJac3.chr2             123694160 25 - 204313951 --A-atatatatata-----------------tataca-tatatat
i calJac3.chr2             C 0 I 58
s saiBol1.JH378106          55738168 25 -  71252344 --t-atatatatata-----------------tatata-tatatat
i saiBol1.JH378106         C 0 I 70
s cebCap1.NW_016107590v1       41661 43 -   3089952 --A-Atatatatatatttcatgtgtgtgtctgtgtatattatatat
i cebCap1.NW_016107590v1   C 0 I 55
s aotNan1.NW_018505940v1    13241971 38 -  42888418 --A-atatatatatatttcatgtgtgtg----tgtaga-tatatgt
i aotNan1.NW_018505940v1   C 0 I 57
s otoGar3.GL873679           3102717 14 +   4132165 AAA-AAATACATAGT-------------------------------
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14940200 16 +  74389097 aga-aaatatattt------------------cat-----------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2671050 16 +   3667625 aga-agatatacata------------------gt-----------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60576001 5205 + 108143057 I
e proCoq1.NW_012155062v1     3611922 4732 +  11683526 I
e manLeu1.NW_012103321v1     4077109 1230 -   4237731 M
e mm10.chr18                55536584 2005 +  90702639 I
e colAng1.NW_012119644v1      345865 130 -   1175262 I

a score=3859265.000000
s hg38.chr5_KI270796v1_alt    121037 383 +    172708 agagccacagt-caacccg------ttaaaatt-------gacataaaacctaagagagaaatgggctttttgtggtaacccactgaggcctggaggtt-atttgtcat-gaagcaAAGCTGATTAA-ta-aagtt-actgattga-ttttgatgttgttaggaaaatttatccagaacttttaaaatttataatatatggtactagctag----aaaa----aat-atagttagaattat----gtatttc-aaaaaaacaagaatgaaataaaatgtgac----caaacaataattaggaaaggaaaagctaaagaagcaaaatgataagaaacagaaaacggaataagagaaaa---ataagggaagctagtagaaataagaat--gcattttaga------aataa----tataa----atgcattaaaATTCCTT
s panTro5.chr5             125224718 383 + 181907262 agagccacagt-caacccg------ttaaaatt-------gacataaaacctaagagagaaatgggctttttgtggtaacccactgaggcctggaggtt-atttgtcat-gaagcaAAGCTGATTAA-TA-AAGTT-ACTGATTGA-TTTTGATGTTGTTAGGAAAATTTATCCAGAACTTTTAAAATTTATAATATATGGTACTAACTAG----AAAA----AAT-ATAGTTAGAATTAT----GTATTTC-AAAAAAACAAGAATCAAATAAAATGTGAC----CAAACAATAATTAGGAAATGAAAAGCTAAAGAAGCAAAATAATAAGAAACAGAAAACGGAATAAGAGAAAA---ATAAGGGAAGCTAGTAGAAATAAGGAT--GCATTTTAGA------AATAA----TATAA----ATACATTAAAATTCCTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126561413 383 + 183735486 agagccacagt-caacccg------ttaaaatt-------gacataaaacctaagagagaaatgggctttttgtggtaacccactgaggcctggaggtt-atttgtcat-gaagcaAAGCTGATTAA-TA-AAGTT-ACTGATTGA-TTTTGATGTTGTTAGGAAAATTTATCCAGAACTTTTAAAATTTATAATATATGGTACTAACTAG----AAAA----AAT-ATAGTTAGAATTAT----GTATTTC-AAAAAAACAAGAATCAAATAAAATGTGAC----CAAACAATAATTAGGAAATGAAAAGCTAAAGAAGCAAAATAATAAGAAACAGAAAACGGAATAAGAGAAAA---ATAAGGGAAGCTAGTAGAAATAAGGAT--GCATTTTAGA------AATAA----TATAA----ATACATTAAAATTCCTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1753195 384 +   8933513 agagccacagt-caacccg------ttaaaatt-------gacataaaacctaagagagaaatgggctttttgtggtaacccactgaggcctggaggtt-atttgtcat-gaagcaAAGCTGATTAA-TA-AAGTT-ACTGATTGA-TTTTGATGTTGTTAGGAAAATTTATCCAGAACTTTTAAAATTTATAATATATGGTACTAACCAG----AAAA----AAT-ATAGTTAGAATTAT----GTATTTCAAAAAAAACAAGAATCAAATAAAATGTGAC----CAAACAATAATTAGGAAAGGAAAAGCTAAAGAAGCAAAATAATAAGAAACAGAAAATGGAATAAGAGAAAA---ATAAGGGAAGCTAGTAGAAATAAGGAT--GCATTTTAGA------AATAA----TATAA----ATGCATTAAAATTCCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139887505 385 + 163208435 agagccacagt-caacccg------ttaaaatt-------gacataaaacctaagagagaaatgggctttttgtggtaacccactgaggtctggaggtt-atttgtcat-gaagcaAAGCTGATTAA-ta-aagtt-actgattga-ttttgatgttgttaggaaaatttatccggaacttgtaaaatttataatatatggtactaactag----aaaa----aat-atagttagaattat----gtatttc-aaaaaaacaagagtcaaataaaatgtgac----caaacaataattaggaaaggaaaagctaaagaagcaaaataataagaaacagaaaacggaataagagaaaa---ataagggaagctagtagaaataagaacgagcattttaga------aataa----tataa----atgcattaaaattcctc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122872195 385 + 180051392 agagccacagt-caacctg------ttaaaatt-------gacataaaacctaagagagaaatgagctttttatggcaacccactgaggtctggaggtt-atttgtcat-gaagcaAAGCTGATTAA-TA-AAGTG-ACTGATTGA-TTTTGATGTTGTTAGGAAAATTTATCCAGAGCTTTTAAAATTAATAATATATGATAGTAACTAG----AAAA----AAT-ATAGTTAGAATTAT----CTATTTC-Aaaaaaacaagaatcaaataaaatgtgac----caaacaataattaggaaaggaaaaactaaagaagcaaaataataagaaacggaaaacGGACTAAGAGAAAA---ATAAGGGAAGCTAGTAGAAATAAGAACGAGCATTTTAGA------AATAA----TATAA----ATCCATTAAAATTCCTT
i rheMac8.chr6             I 12 C 0
s macFas5.chr6             124295816 386 + 181584905 agagccacagt-caacctg------ttaaaatt-------gacataaaacctaagagagaaatgagctttttatggcaacccactgaggtctggaggtt-atttgtcat-gaagcaAAGCTGATTAA-TA-AAGTG-ACTGATTGA-TTTTGATGTTGTTAGGAAAATTTATCCAGAGCTTTTAAAATTAATAATATATGATAGTAACTAG---AAAAA----AAT-ATAGTTAGAATTAT----CTATTTC-Aaaaaaacaagaatcaaataaaatgtgac----caaacaataattaggaaaggaaaaactaaagaagcaaaataataagaaacggaaaacGGACTAAGAGAAAA---ATAAGGGAAGCTAGTAGAAATAAGAACGAGCATTTTAGA------AATAA----TATAA----ATCCATTAAAATTCCTT
i macFas5.chr6             I 12 C 0
s macNem1.NW_012012355v1    16294182 386 +  18395747 agagccacagt-caacctg------ttaaaatt-------gacataaaacctaagagagaaatgagctttttatggcaacccactgaggtctggaggtt-atttgtcat-gaagcaAAGCTGATTAA-TA-AAGTG-ACTGATTGA-TTTTGATGTTGTTAGGAAAATTTATCCAGAGCTTTTAAAATTAATAATATATGATAGTAACTAG---AAAAA----AAT-ATAGTTAGAATTAT----CTATTTC-AAAAAAACAAGAATCAAATAAAATGTGAC----CAAACAATAATTAGGAAAGGAAAAACTAAAGAAGCAAAATAATAAGAAACGGAAAATGGACTAAGAGAAAA---ATAAGGGAAGCTAGTAGAAATAAGAACGAGCATTTTAGA------AATAA----TATAA----ATCCATTAAAATTCCTT
i macNem1.NW_012012355v1   I 10 C 0
s cerAty1.NW_012002512v1     5306925 386 +  26952557 agagccacagt-caaccta------ttaaaatt-------gacataaaacctaagagagaaatgagctttttatggcaacccactgaggtctggaggtt-atttgtcat-gaagcaAAGCTGATTAA-TA-AAGTG-ACTGATTGA-TTTTGACGTTGTTAGGAAAATTTATCCAGAGCTTTTAAAATTAATAATATATGATAGTAACTAG---AAAAA----AAT-ATAGTTAGAATTAT----CTATTTC-Aaaaaaacaagaatcaaataaaatgtgac----caaacaataattaggaaaggaaaaactaaagaagcaaaataataagaaacggaaaacGGACTAAGAGAAAA---ATAAGGGAAGCTAGTAGAAATAAGAACGAGCATTTTAGA------AATAA----TATAA----ATCCATTAAAATTCCTT
i cerAty1.NW_012002512v1   I 8 C 0
s chlSab2.chr23             28407404 385 +  82825804 agagactcagt-caacctg------ttaaaatt-------gacataaaacctaagagagaaatgagctttttatggtaacccactgaggtctggaggtt-atttgtcat-gaagcaAAGCTGATTAA-TA-AAGTG-ACTGATTGA-TTTTGACGTTGTTAGGAAAATTTATCCAGAGCTTTTAAAATTAATAATATATGATAGTAACTAG----AAAA----AAT-ATAGTTAGAATTAT----CTATTTC-AAGAAAACAAGAATCAAATAAAATGTGAC----CAAACAATAATTAGGAAAGGAAAAACTAAAGAAGCAAAATAATAAGAAACGGAAAATGAACTAAGAGGAAA---ATAAGGGAAGCTAGTAGAAATAAGAACGAGCATTTTAGA------AATAA----TATAA----ATGCATTAAAATTCCTT
i chlSab2.chr23            I 30 C 0
s colAng1.NW_012119644v1      345995 386 -   1175262 agagccacagt-caacctg------ttaaaatt-------gacataaaacctgagagagaaatgagctttttatggtaacccactgaggtctggaggtt-atttgtcat-gaagcaAAGCTGATTAA-TA-AAGTT-ACTGATTGATTTTTGACGTTGTTAGGAAAATTTATCCAGAACTTTAAAAATTAATAATATATGATAGTAACTAG----AAAA----AAT-ATAGTTAGAATCAT----CTATTTC-AAAAAAACAACAATCAAATAAAATGTGAC----CAAACAATAATTAGGAAAGGAAAAACTAAAGAAGCAAAATAATAAGAAACAGAAAATGGACTAAGAGAAAA---ATAAGGGAAGCTAGTAGAAATAAGAACGAGCATTTTAGA------AATAA----TATAA----ATGCATTAAAATTCCTT
i colAng1.NW_012119644v1   I 130 C 0
s calJac3.chr2             123694243 380 - 204313951 AGTGCTGCAGT-CAACCTG------TTACAA-T-------GACATAAAACCAAACAGAGAAATGAGCTTTTTATGGTAACCCACTGAAGTCTGAAGGTT-ATTTGTGAT-CAAGCAAAGCTGATTAA-TA-AAGTT-ACTGCTTGA-TTTTGA---TGTTAGGAAAATTTATTCAGAATGTTAAAAA-TAATAATATATGGTACTAACTAG----AAAA----AAT-ATAATTAGAATTAT----CTATTTG-AAAAACACAAGAATCAAAATATGACCAAC----CAAACAATAACTAGGAAATGAAAAACTAAACAAGCAAAATAATAAGGAACAGAAAACAGAATAAGAGAAAA---ATAAGGGAAGCTAGTAGAAATAAGAACAAGCATTTTAGA------AATAA----TATAA----ATGCATTGAAATTCCTT
i calJac3.chr2             I 58 C 0
s saiBol1.JH378106          55738263 385 -  71252344 AGAGCTACAGT-CAACCTG------TTACAATT-------GACATAAAACCAAACAGAGAAATGAGCTTTTTGTGGTAACCCACCGAAGTCTGGAGGCT-ATTTGTCAT-CAAGCAAAGCTGATAAG-TA-AAGCT-ACTGCTTGA-TTTTGATGTTGTTAGGAAAATTTATTCAGAACTTTAAAAA-TAATAATATGTGGGACTAACTAG---AAAAA----AAT-ATAGTTAGAATTAC----CTATTTC-AAAAACACAAGAATCAAAATATGACCAAT----CAAACAATAACTAGGAAATGAAAAACTAAAGAAGCAAAATAATAAGGAACAGAAAACAGAATAAGGGAAAG---ATAAGGGAAGCTAGTAGAAATAAGAACAAGCATTTTAGA------AATAA----TATAA----ATGCATTGAAATTTCTT
i saiBol1.JH378106         I 70 C 0
s cebCap1.NW_016107590v1       41759 385 -   3089952 agagccacagt-caacctg------ttacaatt-------gacgtaaaaccaaacagagaaatgagctttttgtggtaacccactgaagtctggaagtt-atttgtcaT-CAGGCAAAGCTGATTAA-TA-AAGTT-ACTGCTTGA-TTTTGATGTTGTTAGGAAAATTTATTCAGAACTTTTAAAA-TAATAATATGTAGTACTAACTAG---AAAAA----AAT-ATAGTTAGAATTAC----CTATTTC-AAAAACACAAGAATCAAAATATGACCAAT----CAAACAATAACTAGGAAATGAAAAACTAAAGAAGCAAATTAATAAGGAACAGAAAACAGAATAAGAGAAAA---ATAAGGGAAGCTAGTAGAAATAAAAACAAGCATTTTAGA------AATAA----TATAA----ATGCATTGAAATTCCTT
i cebCap1.NW_016107590v1   I 55 C 0
s aotNan1.NW_018505940v1    13242066 380 -  42888418 AGAGCCACAGT-CAACCTG------TTACAATT-------GACATAAAACCAAACAGAGAAATGAGCTTTTTGTGGTAACCCACTGAAATCTGGAGG-----TTGTCAT-CAAGCAAAGCTGATTAA-TA-AAGTT-ACTGCTTGA-TTTTGATGTTGTTAGGAAAATTTATTCAGAACTTTTAAAA-TAATAATATATGGTACTAACTAG----AAAA----AAT-ATAGTTAGAATTAC----CTATTTC-AAAAACACAAGAATTAAAATATGATCAAC----CAAGCAATAACTAGGAAATGAAAAACTAAAGAAGCAAAATAATAAGGAACAGAAAACAGAATAAGAGAAAA---ATAAGGAAAGCTAGTAGAAATAAGAATAAGCATTTTAGA------AATAA----TATAA----ATGCATCAAAATTCTTT
i aotNan1.NW_018505940v1   I 57 C 0
s otoGar3.GL873679           3102731 384 +   4132165 TGAGTCACAGC-CAACCTGCAATTCTCACAGAT-------GATATAAAACATAAGAAAAAAATGAGCGTTTTGTGGTAAACCCCTGAAGTTTGGAGGTT-A-TTATCA---AAGCAATgaggactaagtacaagtt-actgattgatttttgatgtcgttaggaaaagttgtataaactgttt--tgttaataaactatggtatttaccag----aaaa------------ctaagattac----atatttg-gaaaaaa-gagaatcaaataaaatgtgacagatcaaacaatactcaagaaaggaaaaggtaaagaagcag------gaaaaagaagaaacaaaataagagaaca-atataagggaagatagtagaaataaaaataaaaattttaga---gataacaa----tataa----atacattaaaatcCTTT
i otoGar3.GL873679         C 0 I 768
s canFam3.chr11             14940216 410 +  74389097 aaagctaaaggacaacctg------caaatattcatggaagacacaaaacataagagagaaatgagctttctatggtaacccactgaagtttgaagg-----ttgtcatcaaagcaaagctgactaa-ta-GAATTAACTAATTAA-TTCTGA---TGTTAGGAAAATTTATCCAAAATCTTT-TTGTTACTAGTATATAATAATTACTAG---TAAAATATAACT-AAAGCTAGAATTACCTaactattgg-aaaaatattaggatcaaataaaatgtggccaagcaaacaataatcaagaaaggaataa-taaacaagataaataataagaaacagaaaacagaacagaaaaaaaaatataacagaggatggtgcaaataaatacacatattttagt------gacaacaattataatattgtacattaaaatacctt
i canFam3.chr11            C 0 I 16
s dasNov3.JH567306           2671066 392 +   3667625 atagccacagt-tgacctatagccttcacagat-------gacatgaaatgtgaataagaaattaattctttgtggcaaatcactgaggtttgttgactcatttattatcaaagcaaacctgactaa-tt-caatt-actgatTGA-TTTTGATGTCGATAGGAACATATGTCAAAGAGGTTT--TGTTAAAAATATATAGTAATCACTAGCAAAAAAA----AATGAAAGGTAGAATTAC----CTCTTTG-AAGGAAATGGTGATCAAataa------ac----ctaacattaatcaagaaaggaaaaagtaaaca--caaaataataagaa--tataaacaaagtaagaaaaag---atatgagaagatggtagaaatatgtacaaaaattttataataacaattaa----tataa----atggattataacaccct
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60576001 5205 + 108143057 I
e proCoq1.NW_012155062v1     3611922 4732 +  11683526 I
e manLeu1.NW_012103321v1     4077109 1230 -   4237731 M
e mm10.chr18                55536584 2005 +  90702639 I

a score=55033.000000
s hg38.chr5_KI270796v1_alt    121420  8 +    172708 ----------------ATTTAGGT-----------
s panTro5.chr5             125225101  8 + 181907262 ----------------ATTTAGGT-----------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126561796  8 + 183735486 ----------------ATTTAGGT-----------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1753579  8 +   8933513 ----------------ATTTAGGT-----------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139887890  8 + 163208435 ----------------atttaGGT-----------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122872580  8 + 180051392 ----------------ATTTAGGT-----------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124296202  8 + 181584905 ----------------ATTTAGGT-----------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16294568  8 +  18395747 ----------------ATTTAGGT-----------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5307311  8 +  26952557 ----------------ATTTAGAT-----------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28407789  8 +  82825804 ----------------GTTTAGGT-----------
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      346381  8 -   1175262 ----------------ATTTAGGT-----------
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123694623  7 - 204313951 ----------------G-TTAGGT-----------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55738648  8 -  71252344 ----------------ATTTAGGT-----------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       42144  8 -   3089952 ----------------ATTTAGAT-----------
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13242446  8 -  42888418 ----------------ATTTAGGT-----------
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14940642  8 +  74389097 ----------------tttcaggt-----------
i canFam3.chr11            I 16 I 11
s dasNov3.JH567306           2671458 35 +   3667625 attaaaagaaaagtaatttcagatcgaattaTTAC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60576001 5205 + 108143057 I
e proCoq1.NW_012155062v1     3611922 4732 +  11683526 I
e manLeu1.NW_012103321v1     4077109 1230 -   4237731 M
e otoGar3.GL873679           3103115 768 +   4132165 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=596088.000000
s hg38.chr5_KI270796v1_alt    121428 55 +    172708 TATTGAGAAATAAAAATTAAAATCTGGT-AATGTAAGCACTGAATTTGTTGGTTTC
s panTro5.chr5             125225109 55 + 181907262 TATTGAGAAATAAAAATTAAAATCTGGT-AATGTAAGCACTGAATTTGTTGGTTTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126561804 55 + 183735486 TATTGAGAAATAAAAATTAAAATCTGGT-AAAGTAAGCACTGAATTTGTTGGTTTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1753587 55 +   8933513 TATTGAGAAATAAAAATTAAAATCTGGT-AATGTAAGCCCTGAATTTGTTGGTTTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139887898 55 + 163208435 TATCGAGAAATAAAAATGAAAATCTGGT-AATGTAAGCACTAAATTTGTTGGTTTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122872588 55 + 180051392 TATTGAGAAATAAAAATTAAAATCTGGT-AATGTAAGCACTGAATTTGTTGGTTTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124296210 55 + 181584905 TATTGAGAAATAAAAATTAAAATCTGGT-AATGTAAGCACTGAATTTGTTGGTTTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16294576 55 +  18395747 TATTGAGAAATAAAAATTAAAATCTGGT-AATGTAAGCACTGAATTTGTTGGTTTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5307319 55 +  26952557 TATTGAGAAATAAAAATTAAAATCTGGT-AATGTAAGCACTGAATTTGTTGGTTTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28407797 55 +  82825804 TATTGAGAAATAAAAGTTAAAATCTGGT-AATGTAAGCACTGAATTTGTTGGTTTC
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      346389 55 -   1175262 TATTGAGAAATAAAAATTAAAATCTGGT-AATGTAAGCACTGAATTTGTTGGTTTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123694630 55 - 204313951 TATTGAGAAATAAAAATTAAAATCTGCT-AATGTAAGCACTGAATTTTTTGGTTTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55738656 55 -  71252344 TATTGAGAAATAAAAATTAAAATCTGCT-AATGTAAACACTGAATTTTTTGGTTTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       42152 55 -   3089952 TATTAAGAAATAAAAATTAAAATCTGCT-AATGTAATCACTGAATTTTTTGGTTTC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13242454 55 -  42888418 TATTGAGAAATAAAAATTAAAATCTGCT-AATGTAAGTACTGAATTTTTTGGTTTC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3103883 50 +   4132165 TGCTGAAAAATTAAAATTAAAATCTGGTAAATGCAAGCACTT--TTCTTTTG----
i otoGar3.GL873679         I 768 C 0
s canFam3.chr11             14940661 51 +  74389097 TATTAAGAAATT----TAAAAATCTGGT-AATGTAAGTGCTGGATTATTTAGTGTG
i canFam3.chr11            I 11 C 0
s dasNov3.JH567306           2671493 54 +   3667625 TATTGAGAAATAAAA-TTAAAATCTGGT-AATATATGGACTATACTATTTTGTCTG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60576001 5205 + 108143057 I
e proCoq1.NW_012155062v1     3611922 4732 +  11683526 I
e manLeu1.NW_012103321v1     4077109 1230 -   4237731 M
e mm10.chr18                55536584 2005 +  90702639 I

a score=202017.000000
s hg38.chr5_KI270796v1_alt    121483 18 +    172708 AGATTGTAACTC--TTAGCA
s panTro5.chr5             125225164 18 + 181907262 AGATTGTAACTC--TTAGCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126561859 18 + 183735486 AGATTGTAACTC--TTAGCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1753642 18 +   8933513 AGATTGTAACTC--TTAGCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139887953 18 + 163208435 AGATTGTAACTC--TTAGCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122872643 18 + 180051392 AGATTGTAACTC--TCAGCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124296265 18 + 181584905 AGATTGTAACTC--TCAGCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16294631 18 +  18395747 AGATTGTAACTC--TCAGCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5307374 18 +  26952557 AGATTGTAACTC--TCAGCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28407852 18 +  82825804 AGATTGTAACTC--TCAGCA
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      346444 18 -   1175262 AGATTGTAACTC--TCAGCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123694685 18 - 204313951 AGTTTATAACTC--TTAGCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55738711 18 -  71252344 AGATTATAACTC--TTAGTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       42207 18 -   3089952 AGATTATAACTC--TTAGCA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13242509 18 -  42888418 AGGTTATAACTC--TTAGCA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60581206 18 + 108143057 AGATTCTAACTC--TCATTA
i micMur3.chr12            I 5205 C 0
s otoGar3.GL873679           3103933 18 +   4132165 CGATTCTAACTC--TCATTA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14940712 20 +  74389097 AGACTGTAAAAAGGTCAGTA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2671547 18 +   3667625 AGATTGAAATTT--GCAATA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3611922 4732 +  11683526 I
e manLeu1.NW_012103321v1     4077109 1230 -   4237731 M
e mm10.chr18                55536584 2005 +  90702639 I

a score=669960.000000
s hg38.chr5_KI270796v1_alt    121501 51 +    172708 TTCCAAAATTAAGTTTTAATGAAGA-TTTAAACATATTTATGCAACATTTGA
s panTro5.chr5             125225182 51 + 181907262 TTCCAAAATTAAGTTTTAATGAAGA-TTTAAACATATTTATGCAACATTTGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126561877 51 + 183735486 TTCCAAAATTAAGTTTTAATGAAGA-TTTAAACATATTTATGCAACATTTGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1753660 51 +   8933513 TTTCAAAATTAAGTTTTAATGAAGA-TTTAAACGTATTTATGCAACATTTGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139887971 51 + 163208435 TTCCAAAATTAAGTTTTAATGAAGA-TTTAAGCATATTTATGCAACATTTGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122872661 51 + 180051392 TTCCAAAATTAAGTTTTAATGAAAA-TTTGAAAATATTTATGCAACATTTGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124296283 51 + 181584905 TTCCAAAATTAAGTTTTAATGAAAA-TTTGAAAATATTTATGCAACATTTGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16294649 51 +  18395747 TTCCAAAATTAAGTTTTAATGAAAA-TTTGAAAATATTTATGCAACATTTGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5307392 51 +  26952557 TTCCAAAATTAAGTTTTAATGAAAA-TTTGAAAATATTTATGCAACATTTGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28407870 51 +  82825804 TTCCAAAATTAAATTTTAATGAAAA-TTTAAAAATATTTATGCAACAGTTGA
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      346462 51 -   1175262 TTCCAAAATTAAGTTTTAATGAAGA-TTTAAAAATATTTATGCAACATTTGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123694703 49 - 204313951 TTCCAAAATTAAGTTTTAATGAAGA-TTTAAAAATA--TGTATGACATTTGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55738729 51 -  71252344 TTCCAAAATTAAGTTTTAATGAAGA-TTTAAAAATATTTATATGACATTTGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       42225 50 -   3089952 TTCCAAAATT--GTTTTAATGAAGATTTTAAAAATATTTATGTGACATTTGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13242527 51 -  42888418 TTCCAAAATTAAGTTTTAATGAAGA-TTTAAAAATATTTAATTGACATTTGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60581224 51 + 108143057 TTCCAAAATTAAATTTTAATAAGGA-TTTAAAGATATTTATGCAACATTTGA
i micMur3.chr12            C 0 I 42
s proCoq1.NW_012155062v1     3616654 51 +  11683526 TTCCAAAATTAAATTTTAATAAGGA-TTTAAAGATATTTATGCAGCATTTGA
i proCoq1.NW_012155062v1   I 4732 C 0
s otoGar3.GL873679           3103951 51 +   4132165 TTCCAAAATTAAATTTTAATGAGGA-TTGAAATATATTTATGCAACCTTTGA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14940732 51 +  74389097 TTCCAAAATTAAATTTTAATGAGCA-TGTAAAGATACTTAGATAACATTTGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2671565 34 +   3667625 TTCCAAAATT-ATTTTTAGTG-----------------TATGCAACACTTGA
i dasNov3.JH567306         C 0 C 0
e manLeu1.NW_012103321v1     4077109 1230 -   4237731 M
e mm10.chr18                55536584 2005 +  90702639 I

a score=181263.000000
s hg38.chr5_KI270796v1_alt    121552 20 +    172708 ATGCTTTAAAAAGTGCTCAA
s panTro5.chr5             125225233 20 + 181907262 ATGCTTTAAAAAGTGCTCAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126561928 20 + 183735486 ATGCTTTAAAAAGTGCTCAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1753711 20 +   8933513 ATGCTTTAAAAAGTGCTCAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139888022 20 + 163208435 ATGCTTTAAAAAGTGCTCAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122872712 20 + 180051392 ATGCTTTAAAAAGTGCTCAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124296334 20 + 181584905 ATGCTTTAAAAAGTGCTCAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16294700 20 +  18395747 ATGCTTTAAAAAGTGCTCAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5307443 20 +  26952557 ATGCTTTAAAAAGTGCTCAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28407921 20 +  82825804 ATGCTTTAAAAAGTGCTTAA
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      346513 20 -   1175262 ATGCTTTAAAAAGTACTCAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123694752 16 - 204313951 ATGCTTTAAAAAATA----A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55738780 16 -  71252344 ATGCTTTAAAAAATG----A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       42275 16 -   3089952 ATGCTTTAAAAAATG----A
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13242578 16 -  42888418 ATGCTTTAAAAAATG----A
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3616705 19 +  11683526 GTGTTTAAAAAATTATACA-
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3104002 20 +   4132165 GTGTTTAAAAAATTACACAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14940783 20 +  74389097 TTATTTAAGAAAGTACCCAA
i canFam3.chr11            C 0 I 6283
s dasNov3.JH567306           2671599 20 +   3667625 ATATTTGAAAAAGTATCCAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60581275 42 + 108143057 I
e manLeu1.NW_012103321v1     4077109 1230 -   4237731 M
e mm10.chr18                55536584 2005 +  90702639 I

a score=450960.000000
s hg38.chr5_KI270796v1_alt    121572 39 +    172708 CAGTAGTCATTTTCATTATCCCAATCAATTTGCTTAAGA
s panTro5.chr5             125225253 39 + 181907262 CAGTAGTCATTTTCATTATCCCAATCAATTTGCTTAAGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126561948 39 + 183735486 CAGTAGTCATTTTCATTATCCCAATCAATTTGCTTAAGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1753731 39 +   8933513 CAGTAGTCATTTTCATTATCCCAATCAACTTGCTTAAGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139888042 39 + 163208435 CAGTAGTCATTTTCATTATCCCAATCTATTTGCTTAAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122872732 39 + 180051392 CAGTAGTCATTTTCATTATCCCAATCTATTTGCTCGAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124296354 39 + 181584905 CAGTAGTCATTTTCATTATCCCAATCTATTTGCTCGAGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16294720 39 +  18395747 CAGTAGTCATTTTCATTATCCCAATCTATTTGCTCGAGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5307463 39 +  26952557 CGGTAGTCATTTTCATTATCCCAATCTATTTGCTCGAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28407941 39 +  82825804 CAGTAGTCATTTTCATTATCCCAATCTATTTGCTCAAGA
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      346533 39 -   1175262 CAGTAGTCATTTTCATTATCCCAATCTATTTGCTCGAGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123694768 39 - 204313951 CAGTACTCATTTTCATTATCCCAATCTATTTGCTTAAGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55738796 39 -  71252344 TAGTAGTCATTTTCATTATCCCAATGTATTTGCTTAAGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       42291 39 -   3089952 CAGTAGTCATTTTCATTATCCCAATCTATTTGCTTAAGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13242594 39 -  42888418 CAGTAGTCATTTTCATTATCCCAATCTATTTGCTTAAGA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3616724 37 +  11683526 --GTAGTCATTTCCATTATTCCAACCTATCTGCTTAAGA
i proCoq1.NW_012155062v1   C 0 I 36
s otoGar3.GL873679           3104022 39 +   4132165 CTATAGTCATTTCCATTATCCCAAACTATCTGTTTAACA
i otoGar3.GL873679         C 0 I 1
s dasNov3.JH567306           2671619 39 +   3667625 TATTAGCCATTTCCAGTATTCCTCTGTATCTTCCCAAAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60581275 42 + 108143057 I
e canFam3.chr11             14940803 6283 +  74389097 I
e manLeu1.NW_012103321v1     4077109 1230 -   4237731 M
e mm10.chr18                55536584 2005 +  90702639 I

a score=-9697.000000
s hg38.chr5_KI270796v1_alt    121611 4 +    172708 -AAA-----A
s panTro5.chr5             125225292 4 + 181907262 -AAA-----A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126561987 4 + 183735486 -AAA-----A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1753770 4 +   8933513 -AAA-----A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139888081 4 + 163208435 -AAA-----A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122872771 4 + 180051392 -GAA-----A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124296393 4 + 181584905 -GAA-----A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16294759 4 +  18395747 -GAA-----A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5307502 4 +  26952557 -GAA-----A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28407980 4 +  82825804 -GAA-----A
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      346572 4 -   1175262 -GAA-----A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123694807 6 - 204313951 -TAAGG---A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55738835 9 -  71252344 -TAAGGaaaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       42330 6 -   3089952 -TAAGG---A
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13242633 9 -  42888418 -TAAGGAAAA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3104062 3 +   4132165 -AAA------
i otoGar3.GL873679         I 1 C 0
s dasNov3.JH567306           2671658 4 +   3667625 CAAG------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60581275 42 + 108143057 I
e canFam3.chr11             14940803 6283 +  74389097 I
e proCoq1.NW_012155062v1     3616761 36 +  11683526 I
e manLeu1.NW_012103321v1     4077109 1230 -   4237731 M
e mm10.chr18                55536584 2005 +  90702639 I

a score=240647.000000
s hg38.chr5_KI270796v1_alt    121615 33 +    172708 AAA-AAAA-gccaggtgtggtagctcatgcctata
s panTro5.chr5             125225296 34 + 181907262 AAA-AAAAAgccaggtgtggtagctcatgcctgta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126561991 33 + 183735486 AAA-AAAA-gccaggtgtggtagctcatgcctgta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1753774 32 +   8933513 AAA-AAA--gccaggtgtggtagctcatgcctgta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139888085 31 + 163208435 AAT-AA---gccaggtgcggtagctaatgcctgta
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122872775 33 + 180051392 AAA-AAAA-gccaggtgtggtagctcatgcctgta
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124296397 32 + 181584905 AA--AAAA-gccaggtgtggtagctcatgcctgta
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16294763 34 +  18395747 AAAGAAAA-gccaggtgtggtagctcatgcctgta
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5307506 32 +  26952557 AA--AAAA-gccaggtgtggtagctcatgcctgta
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28407984 31 +  82825804 A---AAAA-gccaggtgtggtagctcatgcctgta
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      346576 33 -   1175262 AAA-AAAg-gtcaggtgtggtagctcatgcctgta
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123694813 33 - 204313951 AAA-AAAA-Tccaggtgtggtagcacatgcctgta
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55738844 33 -  71252344 aaa-aaaa-tgcaggtgtggtagcacatgccttta
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       42336 33 -   3089952 AAA-AAAA-Tccaggcgtggtggcacatgcctgta
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13242642 33 -  42888418 AAA-AAAA-TCGAggtgtggtagcacatgcctgta
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2671662 24 +   3667625 -AA-AAAA---------TGTAAGtacatacatata
i dasNov3.JH567306         C 0 I 420
e micMur3.chr12             60581275 42 + 108143057 I
e canFam3.chr11             14940803 6283 +  74389097 I
e proCoq1.NW_012155062v1     3616761 36 +  11683526 I
e manLeu1.NW_012103321v1     4077109 1230 -   4237731 M
e otoGar3.GL873679           3104065  0 +   4132165 C
e mm10.chr18                55536584 2005 +  90702639 I

a score=2136432.000000
s hg38.chr5_KI270796v1_alt    121648 245 +    172708 atcccagtactttgggaggctgaggcaggaggatttcttgaggccaggagtttgagaccagcatgggccaaaagcaagaccccatctgtacaaaaagtaaatttgccaggtgcggtggtacacacctgtagtcttagctgcttgggaggctgagatgggaggatcacttgagtcccggagttcaaggctgcagtgaactatgatcatgctactgcactccagcctgagtgacagagtgagaagtc
s panTro5.chr5             125225330 245 + 181907262 atcccagtactttgggaggctgaggcaggaggatttcttgaggccaggagtttgagaccagcgtgggccaaaagcaagaccccatctgtacaaaaagtaaatttgccaggtgcggtggtacacacctgtagtcttagctgcttgggaggctgagatgggaggatcacttgagtcctggagttcaaggctgcagtgaactatgatcatgctactgcactccagcctgagtgacagagtgagaaatc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126562024 245 + 183735486 atcccagtactttgggaggctgaggcaggaggatttcttgaggccaggagtttgagaccagcgtgggccaaaagcaagaccccatctgtacaaaaagtaaatttgccaggtgcggtggtacacacctgtagtcttagctgcttgggaggctgagatgggaggatcacttgagtcctggagttcaaggctgcagtgaactatgatcatgatactgcactccagcctgagtgacagagtgagaagtc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1753806 245 +   8933513 atcccagtactttgggaggctgaggcaggaggatttcttgaggccaggagtttgagaccagcatgggccaaaagcaagaccccatctgtacaaaaagtaaatttgccaggtgtggtggtacacacctgtagtcttagctgcttgggaggctgagatgggaggatcacttgagtcctggagttcaaggctgcagtcaactatgatcatgctactgcactccagcctgagtgacagagtgagaagtc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139888116 245 + 163208435 atcccagtactttgagaggctgagacaggaggatttcttgaggccaggagtttgagaccagcatgggccaaaagcaagaccccatctgtacaaaaagtaaatttgccaggtgtggtggtacccacctgtagtcttagctgcttgggaggctgcgatgggaggatcacttcagtcccggagttcaagcctgcagtgaactatgatcatgctactgcactctagcctgagtgacagagtgagaagtc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122872808 244 + 180051392 atctcagtactttgggaggctgggggaggaggatttcttgaggacaggagtttgaggccagcatgggccaaaagcaagaccccatctgtacaaaaaataaatttacgaggtgtggtggcacacacctgtagtcttagctacttgggaggctgagatgggagattcacttgagtcccagagttcatggctgcagtgaactatgatcatgctactgcactccagcctgattg-cagagtcagaagtc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124296429 244 + 181584905 atctcagtactttgggaggctgggggaggaggatttcttgaggacaggagtttgaggccagcatgggccaaaagcaagaccccatctgtacaaaaaataaatttacgaggtgtggtggcacacacctgtagtcttagctacttgggaggctgagatgggagattcacttgagtcccagagttcatggctgcagtgaactatgatcatgctactgcactccagcctgattg-cagagtcagaagtc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16294797 244 +  18395747 atctcagtactttgggagactgggggaggaggatttcttgaggacaggagtttgaggccagcatgggccaaaagcaagaccccatctatacaaaaaataaatttacgaggtgtggtggcacacacctgtagtcttagctacttgggaggctgagatgggagattcacttgagtcccagagttcatggctgcagtgaactatgatcatgctactgcactccagcctgattg-cagagtcagaagtc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5307538 244 +  26952557 atctcagtactttgggaggctgggggaggaggatttcttgaggccaggagtttgagaccagcatgggccaaaagcaagaccccatctgtacaaaaaacaaatttacgaggtgtggtggcacacacctgtagtcttagctacttgggaggctgagatgggaggatcacttgagtcccagagttcaaggctgcagtgaactatgatcatgctactgcactccagcctgattg-cagagtcagaagtc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28408015 244 +  82825804 atctcagtactttgggaggctgggggaggaggatttcttgaggccaggagtttgagaccagcatgggccaaaagcaagaccccatctgtacaaaaaataaatttacgaggtgtggtggtacacacctgtagtcttagctacttgggaggctgagatgggaggatcacttgagtcccagagttcaaggctgcagtgaactatgatcatgctactgcactccagcctgattg-cagagtcagaagtc
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      346609 241 -   1175262 atcccagtactttgggaggctggggcaggaggatttcttgaggccaggagtttgagaccagcatgagccaaaagcaagaccccatctgtacgaaaaataaatttacgaggtgtggtggtacacacctgtagtcttagctacttgggaggctgaggtgggaggatcacttgagtcccagagttcaaggcttctg---actgtgatcatgctactgcactccagcctgactg-cagagtcagaagtc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123694846 245 - 204313951 atcccagtactttgggaggctgaggcaggaagatttcttaaggtcaggagtttaagaccagtatgcaccaaaagcaagaccccatctgtacaaaagataaattagccaggtgtggtggtacacacctatagtcttagctacttgggaggctgagatgggaggatcacttgagtccaggagttcaaggctgcagtgaactatgatcatgctactgcactctagcctgagtgacagagtgagaagtc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55738877 245 -  71252344 atcccagtactttcggaggctgaggcaggaagatttcttgaggtcaggagtttgagaccagtatgagccaaaagcaagaccccatctgtaccaaaggtaaattaaccagttgtggtggtacacacctctagtcttagctacttgggaggctgagatgtgaggatcacttgagtgcaggagttcaaggctgcagtgaactatgatcatgctactgcactccagcctgagtgacagagtgagaactc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       42369 245 -   3089952 atcccagtactttgggaggctgaggcaggaagatttcttgaggtcaggagtttgagaccagtatgtgccaaaagcaagaccccatctgtacaaaagataaattagccaggtgcggtggtacacacctatagtcttagctacttgggaggctgagatgggaggatcacttgagtccaggagttcaaggctgcagtgaactatgatcatgctactgcactccagcctgagtgacagagtgagaactc
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13242675 245 -  42888418 atcccagtactttgggaggctgaggcaggaagatttcttgatgtcaggagtttgagaccagtatgcgccaaaagcaagaccccatctgtacaaaagataaattagccaggtgcggtaatacacacctatagtcttagctacttggggggctgagatgggaggatcacttgagtccaggagttcaaggctgcagtgaactatgatcatgctactgtactcccgcctgagtgacagagtgagaactc
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60581275  42 + 108143057 I
e canFam3.chr11             14940803 6283 +  74389097 I
e proCoq1.NW_012155062v1     3616761  36 +  11683526 I
e manLeu1.NW_012103321v1     4077109 1230 -   4237731 M
e otoGar3.GL873679           3104065   0 +   4132165 C
e dasNov3.JH567306           2671686 420 +   3667625 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=45200.000000
s hg38.chr5_KI270796v1_alt    121893 33 +    172708 atgtccaaaaa-----------------------a--------------------aaaaaaaa---aaaaaaaaaGAC----C---
s panTro5.chr5             125225575 22 + 181907262 atgtccaaaaa-----------------------a--------------------aaaaaaaa--------------c----c---
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126562269 53 + 183735486 atgtccaaaaa-----------------------nnnnnnnnnnnnnnnnnnnncaaaaaaaa---aaaaaaaaaaaC----C---
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1754051 36 +   8933513 atgtccaaaaa-----------------------a--------------------ataaaaaataaaaaaaaaaaaaC----C---
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139888361 26 + 163208435 atgtccaaaaa-----------------------a--------------------aaaaagaa----------agacc----a---
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122873052 30 + 180051392 acctcaaaaaa-----------------------a--------------------aaaaaaaa-----aaaaaaggac--------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124296673 30 + 181584905 acctcaaaaaa-----------------------a--------------------aaaaaaaa-----aaaaaaggac--------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16295041 27 +  18395747 acctc---aaa-----------------------a--------------------aaaaaaaa-----aaaaaaggac--------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5307782 30 +  26952557 acctcaaaaaa-----------------------a--------------------aaaaaaaa-----aaaaaaaaaa--------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28408259 31 +  82825804 acctcaaaaaa-----------------------a--------------------aaaaaaaa-----aaaaaaggac--c-----
i chlSab2.chr23            C 0 I 1
s colAng1.NW_012119644v1      346850 31 -   1175262 acctcaaaaaa-----------------------a--------------------aaaaaaaa-----aaaaaaagac---a----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123695091 29 - 204313951 atctcaaaaa------------------------a--------------------aaaagaaa-----agacaaagac--------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55739122 55 -  71252344 atctcaaaaaaaaaaaaaaaaagaaaaaaaaaaga--------------------aaaagaaa-----agaaaaagacaa------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       42614 46 -   3089952 atctcaaaaaaaaaaaataataaataa-------a--------------------taaaTAAA-----AGAAAAAGGC--------
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13242920 26 -  42888418 atctcaa---------------------------a--------------------aaaaaata-----agaaaaagac--------
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14947086 33 +  74389097 ATGTGCAAATG-----------------------c--------------------acacacac-----acaaatacac-----aca
i canFam3.chr11            I 6283 C 0
e micMur3.chr12             60581275 42 + 108143057 I
e proCoq1.NW_012155062v1     3616761 36 +  11683526 I
e manLeu1.NW_012103321v1     4077109 1230 -   4237731 M
e otoGar3.GL873679           3104065  0 +   4132165 C
e dasNov3.JH567306           2671686 420 +   3667625 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=147718.000000
s hg38.chr5_KI270796v1_alt    121926 16 +    172708 AAAAAAC-------------ATGTGTACA
s panTro5.chr5             125225597 16 + 181907262 aaaaaaa-------------aTGTGTACA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126562322 16 + 183735486 AAAAAAA-------------ATGTGTACA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1754087 16 +   8933513 AAAAAAA-------------ATGTGTACA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139888387 16 + 163208435 aaaaaaa-------------aTGTGTACA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122873082 16 + 180051392 aaaaaAA-------------ATGTGTATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124296703 16 + 181584905 aaaaaaA-------------ATGTGTATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16295068 16 +  18395747 aaaaaaa-------------aTGTGTATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5307812 29 +  26952557 aagaaaaaGGACAAACAAGCATGTGTACA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28408291 16 +  82825804 aaaaaaa-------------aTGTGTATA
i chlSab2.chr23            I 1 C 0
s manLeu1.NW_012103321v1     4078339 16 -   4237731 AAAAAAA-------------ATGTGTATA
i manLeu1.NW_012103321v1   M 1230 C 0
s colAng1.NW_012119644v1      346881 12 -   1175262 ----aaa-------------aAATGTATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123695120 15 - 204313951 -aaaaaa-------------ATGTGTATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55739177 16 -  71252344 aaaaaaa-------------aTGTGTGTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       42660 16 -   3089952 AAAAAAA-------------ATGTGTATA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13242946 15 -  42888418 -aaaaaa-------------aTGTATGTA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3104065 16 +   4132165 AACAAAT-------------ATATGTGTA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14947119 16 +  74389097 cacaTAT-------------ATGTGTGTG
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60581275 42 + 108143057 I
e proCoq1.NW_012155062v1     3616761 36 +  11683526 I
e dasNov3.JH567306           2671686 420 +   3667625 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=101825.000000
s hg38.chr5_KI270796v1_alt    121942 15 +    172708 A----------ATACACA-TACATAA
s panTro5.chr5             125225613 15 + 181907262 A----------ATACACA-TACATAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126562338 15 + 183735486 A----------ATACACA-TACATAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1754103 15 +   8933513 A----------ATACACA-TACATAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139888403 15 + 163208435 A----------ATACACA-TACATAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122873098 15 + 180051392 A----------ATACACA-TACGTAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124296719 15 + 181584905 A----------ATACACA-TACATAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16295084 15 +  18395747 A----------ATACACA-TACATAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5307841 15 +  26952557 C----------ATATACT-TACATAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28408307 15 +  82825804 A----------ATACACA-TACATAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4078355 15 -   4237731 C----------ATACACA-TACATAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      346893 15 -   1175262 A----------ATACACA-TACATAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123695135 23 - 204313951 AGTACAAGT--ACAAACA-TACATAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55739193 23 -  71252344 AGTACAAGT--ACACACA-TACATAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       42676 25 -   3089952 AGTACAAGTacacacaca-cacacac
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13242961 23 -  42888418 AGTACAAGT--ACACACA-TATATAC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3104081 16 +   4132165 A----------GTATATACCGCGCGC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14947135 25 +  74389097 TGTTTATGTATATACGCA-TGCATGC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2672106 15 +   3667625 A----------ACACACA-CGTATGC
i dasNov3.JH567306         I 420 C 0
e micMur3.chr12             60581275 42 + 108143057 I
e proCoq1.NW_012155062v1     3616761 36 +  11683526 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=2758310.000000
s hg38.chr5_KI270796v1_alt    121957 195 +    172708 ATTTATATCCTGGAAAATCTCTGAAGAT-GGAACATTTTCTCTATGATTA-TCT---TTCATACTATTTAATTGAA-------TGTGGCTGATTAACCAGAATAATGCTTTCAGAGAAATTGAGAA--------GTAAAGAGGAAAAAAGTGCTTTGTCTTGGTTAAGAATGAAATTATGTTCCTCAAA-CACCTCTTACTCTGGC-AAAAAC-AAAA
s panTro5.chr5             125225628 195 + 181907262 ATTTATATCCTGGAAAATCTCTGAAGAT-GGAACGTTTTCTCTATGATTA-TCT---TTCATACTATTTAATTGAA-------TGTGGCTGATTAACCAGAATAATGCTTTCAGAGAAATTGAGAA--------GTAAAGAGGAAACAAGTGCTTTGTCTTGGTTAAGAATGAAATTATGTTCCTCAAA-CACCTCTTACTCTGGC-AAAAAC-AAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126562353 195 + 183735486 ATTTATATCCTGGAAAATCTCTGAAGAT-GGAACGTTTTCTCTATGATTA-TCT---TTCATACTATTTAATTGAA-------TGTGGCTGATTAACCAGAATAATGCTTTCAGAGAAATTGAGAA--------GTAAAGAGGAAACAAGTGCTTTGTCTTGGTTAAGAATGAAATTATGTTCCTCAAA-CACCTCTTACTCTGGC-AAAAAC-AAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1754118 196 +   8933513 ATTTATATCCTGGAAAATCTCTGAAGAT-GGAACGTTTTCTCTATGATTA-TCT---TTCATACTATTTAATTGAA-------TGTGGCTGATTAACCAGAATAATGCTTTCAGAGATATTGAGAA--------GTAAAGAGGAAACAAGTGCTTTGTCTTGGTTAAGAATGAAATTATGTTCCTCAAA-CACCTCTTACTCTGGCAAAAAAA-AAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139888418 195 + 163208435 ATTTATATCCTGGAAACTCTCTGAAGAT-GGAATGTTTAATCTATGATTA-TCT---TTCATACTATTTAATTGAA-------TGTAGCTGATTAACCAGAATAATGCTTTCAGAGATATTGAGAA--------GTAAAGAGCAAACAAGTGCCTTGTCTTGGTTAAGAATGAAATTATGTTCCTCAAA-CACCTCTTACTCTGGC-AAAAAC-AAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122873113 195 + 180051392 ATTTATATCCTGGAAAATCTCTGAAGAC-GGAATGTTTTCTCTATGATTA-TAT---TTCATATTATTTGATTGAA-------TGTGGCTGATTAACCAGAATAATGCTTTCAGAGATATTGAGAA--------GTAAAGAGGAAACAACTGCCTTGTCTTAGTTAAGAGTGAAATTATGTTCCTCAAA-CACCTCTTACTCTGGC-AAAAAC-AAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124296734 195 + 181584905 ATTTATATCCTGGAAAATCTCTGAAGAC-GGAATGTTTTCTCTATGATTA-TAT---TTCATATTATTTGATTGAA-------TGTGGCTGATTAACCAGAATAATGCTTTCAGCGATATTGAGAA--------GTAAAGAGGAAACAACTGCCTTGTCTTAGTTAAGAGTGAAATTATGTTCCTCAAA-CACCTCTTACTCTGGC-AAAAAC-AAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16295099 195 +  18395747 ATTTATATCCTGGAAAATCTCTGAAGAC-GGAATGTTTTCTCTATGATTA-TAT---TTCATATTATTTGATTGAA-------TGTGGCTGATTAACCAGAATAATGCTTTCAGCGATATTGAGAA--------GTAAAGAGGAAACAACTGCCTTGTCTTAGTTAAGAGTGAAATTATGTTCCTCAAA-CACCTCTTACTCTGGC-AAAAAC-AAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5307856 195 +  26952557 ATTTATATCCTGGAAAATCTCTGAAGAC-GGAATGTTTTCTCTATGATTA-TAT---TTCATATTATTTGATTGAA-------TGTGGCTGATTAACCAGAATAATGCTTTCAGCGATATTGAGAA--------GTAAAGAGGAAACAAGTGCCTTGTATTAGTTAAGAGTGAAATTACGTTCCTCAAA-CACCTCTTACTCTGGC-AAAAAC-AAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28408322 195 +  82825804 ATTTATATCCTGGAAAATCTCTGAAGAT-GGAATGTTTTCTCTATGATTA-TAT---TTCATATTATTTGATTGAA-------TGTGGCTGATTAACCAGAATAATGCTTACAGCGATATTGAGAA--------GTAAAGAGGAAACAAGTGCCTTGTCTTAGTTAAGAGTGAAATTACGTTCCTCAAA-CACCTCTTACTCTGGC-AAAAAC-AAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4078370 195 -   4237731 ATTTATATCCTGGAAAATCTCTGAAGAC-GGAATGTTTTCTCTATGATTA-TAT---TTCATATTATTTGATTGAA-------TGTGGCTGATTAACCAGAATAATGCTTTCAGCGATATTGAGAA--------GTAAAGAGGAAACAAGTGCCTTGTCTTAGTTAAGAGTGAAATTACATTCCTCAAA-CACCTCTTACTCTGGC-AAAAAC-AAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      346908 196 -   1175262 ATTTATATCCTGGAAAATCTCTGAAAAT-GGAATGTTTTCTCTATGATTA-TAT---TTCATATTATTTGATTGAA-------TGTGGGTGATTAACCAGAATAATGCTTTCAGCAATATTGAGAA--------GTAAAGAGGAAACAAGTGCCTTGTCTTAGTTAAGAGTGAAATTACATTCCTCAAAGCACCTCTTACTCTGGC-AAAAAC-AAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123695158 195 - 204313951 ATTTATATCCTGGAAAATCTCTAAAGAA-GGAATGTTTTTCCTATGATTA-TCT---TTCGTATTATGTAATTGAA-------TGTGACTGATTAACCGGCATAAGGTTTTCAGAGATACTGAGAA--------GTAAGGAGGAAACAATTGCCTTTTCTTGGTTAAGAGTGAAATTACATTCCTCAAA-CCCCTCTTACCCTGGC-AAAAAC-AAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55739216 197 -  71252344 GTTTATATCCTGGAAAATCTCTGAAGAA-GGAATGTTTTCCCTATGATTA-TCT---TTTGTATTATGTAATTGAAT------TGTGACTGATTAACCAGCATAAGGTTTTCAGAGATACTGAGAA--------GTAAAGAGGAAACAATTGCCTTTTCTTGGTTAAGAGTAGAATTATATTCCTCAAA-CCCCTCTTACCCTGGC-AAAAACAAAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       42701 202 -   3089952 aTTTATATCCTGGAAAATCTCTGAAGAA-GGAATGTTTTCCCTATGATTA-TCT---TTCATATTATGTAATTGAATGTGGAATGTGACTGATTAACCGGCATAAGGTTTTCGGAGATACTGAGAA--------GTAGAGAGGAAACAATTGCCTTTTCTTGGTTAAGAGTGGAATTACATTCCTCAAA-TCCCTCTTACCCTGGC-AAAAAC-AAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13242984 195 -  42888418 GTTTATATCCTGGAAAATCTCTGAAGAA-GGAATGTTTTCCCTATGATTA-TCT---TTCGTATTATGTAATTGAA-------TGTGACTGATTAACCGGCATAAGGTTTTCAGAGATACTGAGAA--------GTAAAGAGGAAACAATTGCCTTTTCTTGGTTAAGAGTGGAATTACATTCCTCAAA-CCCCTCTTACCCTGGC-AAAAAC-AAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60581317 195 + 108143057 ATTCATATCCTGGAAAAACTCTGGAGAT-GGAAAGTTTGCCCTATGATTA-TCT---TTTATAATATTTAACTGAA-------TATGGCTGACTAACATGAATAATATTTGCAGAGATATTAAGAA--------ATAAAGAGGGAACAAATGTCCTGTCTTGGTTAACAGTGGAATTACTATCCTCCAC-CACCTCTTATCCTGAC-AAaaac-aaaa
i micMur3.chr12            I 42 I 96
s proCoq1.NW_012155062v1     3616797 195 +  11683526 ATTCATATCCTGGAAAACCTCTGGGGAT-GGAAACTTTGCCCTATGATTA-TCT---TTTATAATATTTAACTGAA-------AATGGCTGACTAACCCGAATAATATTTGCAGAGATATTAAGAA--------ATAAAGAGGGAACAAATGCCCTGTCTTGGTTAACAGTGAAATTACTCTCCTCAAC-CACCTCTTACCCTGAC-AAaaac-aaaa
i proCoq1.NW_012155062v1   I 36 I 159
s otoGar3.GL873679           3104097 194 +   4132165 ATTCATACCCTGGAAAACCTCTGAATGT-GGCAAGTCTTCCCCA-GACTA-ACT---TTTGTCTTATTTAACTGGA-------CATGGCTGACTAACCTGCATCATATTTTCAGAGATATTAAGAA--------GTAAAGAAGGAGCAAATGCCCCGTCTTGGTTCACAGTGGAACTACTCTCCTTAAC-CCCCTCTTTCCTTGAC-AAAAGC-AAGA
i otoGar3.GL873679         C 0 I 4
s canFam3.chr11             14947160 192 +  74389097 ATACATATTCTGGAAAATCTCTGAAGACAAAAATATTTTCCTTAAAATTATTAT---TTTGCATCATTGGCCTAAA-------TATGTCTGACTAACCTAAATAATACTCTCAGATATCTTAAGAA-------------GAGGGAACAAATGTCCCATCCTGCTTAAGGGGAGAATTGTTTTCCTCAGG-TACCTCTTACCCTAGC-aaaaaa-aaaa
i canFam3.chr11            C 0 I 14
s dasNov3.JH567306           2672121 199 +   3667625 ATACATGCACTGGAAAACCTCTGAAGAC-----CGTTTTCCCTATAATTT-TTTTTGTTTGTTTTGTTTGCTTGAC-------TATGGCTGACTAATCCACAAAATACTCTCAAAGATAATAAAAAGTGAAGAGGTGAAGAGGGAACAAATGCCC-ATCATAATTAAGGTAAGAATTAC-TCTCTCAAC-CA-CTTTTATTCTGGC-AGAAAG-CAAA
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55536584 2005 +  90702639 I

a score=928107.000000
s hg38.chr5_KI270796v1_alt    122152  89 +    172708 ---------------CACAAGC---------------AAAATTCACATA--TGCATAAGAAAAGGAATCTCACTC---TTCTGGGA---------AAACAAAACAAAAAGAA---------------------------------------ATATACACA------ATTGTTTTTTTC--
s panTro5.chr5             125225823  89 + 181907262 ---------------CACAAGC---------------AAAATTCACATA--TGCATAAGAAAAGGAATCTCACTC---TTCTGGGA---------AAACAAAACAAAAAGAA---------------------------------------ATATACACA------ATTTTTTTTTTC--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126562548  89 + 183735486 ---------------CACAAGC---------------AAAATTCACATA--TGCATAAGAAAAGGAATCTCACTC---TTCTGGGA---------AAACAAAACAAAAAGAA---------------------------------------ATATACACA------ATTTTTTTTTTC--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1754314  89 +   8933513 ---------------CACAAGC---------------AAAATTCACATA--TGCATAAGAAAAGGAATCTCACTC---TTCTGGGA---------AAACAAAACAAAAAGAA---------------------------------------ATATACACA------ATTTTTTTTTTC--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139888613  89 + 163208435 ---------------CACAAAC---------------AAAATTCATGTA--TGCATAAGAAAAGGAAGCTCACTC---TTCTGGGa---------aaacaaaacaaaacgaa---------------------------------------atatacaca------aTTTTTTTTTTC--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122873308  89 + 180051392 ---------------CACAAGC---------------AAAATTCACATA--TGCATAAGAAAAGGAATCTCACTC---TTCTGGGA---------AAACAAAACAGAAAGAA---------------------------------------ATATACACA------ATTTTTTTTTTT--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124296929  89 + 181584905 ---------------CACAAGC---------------AAAATTCACATA--TGCATAAGAAAAGGAATCTCACTC---TTCTGGGA---------AAACAAAACAGAAAGAA---------------------------------------ATATACACA------ATTTTTTTTTTT--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16295294  89 +  18395747 ---------------CACAAGC---------------AAAATTCACATA--TGCATAAGAAAAGGAATCTCACTC---TTCTGGGA---------AAACAAAACAGAAAGAC---------------------------------------ATATACACA------ATTTTTTTTTTT--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5308051  89 +  26952557 ---------------CACAAGC---------------AAAATTCACATA--TGCATAAGAAAAGGAATCTCACTC---TTCTGGGA---------AAACAAAACAGAAAGAA---------------------------------------ATATACACA------ATTTTTTTTTTT--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28408517  89 +  82825804 ---------------CACAAGC---------------AAAATTCACATA--TGCATAAGAAAAGGAATCTCACTC---TTCCGGGA---------AAACAAAACAGAAAGAA---------------------------------------ATATACACA------Attttttttttt--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4078565  89 -   4237731 ---------------CACAAGC---------------AAAATTCACATA--TGCATAAGAAAAGGAATCTCACTC---TTCTGGGA---------AAACAAAACAGAAAGAA---------------------------------------ATATACACA------ATTTTTTTTTTT--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      347104  91 -   1175262 ---------------CACAAGC---------------AAAATTCACATA--TGCATAAGAAAAGGAATCTCACTC---TTCTGGGA---------AAACAAAACAGAAAGAA---------------------------------------ATATACACA----TTATTATTTTTTTT--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123695353  91 - 204313951 ---------------AACAAGC---------------AAAATTCACATATTTGCATAAAAAAAGCATGCTCACTC---CTCTGGCA---------CAACAAAACAGAAAGAA---------------------------------------ATATACACA------TTTTTTTTTTTT--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55739413  91 -  71252344 ---------------AACAAGC---------------AAAATTCACATA--CGCATAAGAAAAGAATTCTCACTC---CCCTGGCA---------CAACAAAACAGAAAGAA---------------------------------------ATATACACA----TTTTTTTTTTTTTT--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       42903  87 -   3089952 ---------------AACAAGC---------------AAAATTCACATA--TGCATAAAAAAAGAGTTCTCACTC---CTCTGGCA---------TAACAAAACAGAAAAAA---------------------------------------A-ATACAC-------TTTTTTTTTTTT--
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13243179  95 -  42888418 ---------------AACAAGC---------------AAAATTCACATA--TGCATAGGGAAAGAATTCTCACTC---CTCTGGCA---------CAACAAAACAGAAAGAA---------------------------------------ATATACACAtttttttttttttttttt--
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3104295  97 +   4132165 ---------------AACAAAC---------------AAAAGTT-CACA--CTCATGAGAAAAGGACTTTCTGTC---TTTGGGCAACACAAAACAAGCAAAACAGAAGAAA---------------------------------------ATACCCTCA------AAGCACTTTTTT--
i otoGar3.GL873679         I 4 I 2
s canFam3.chr11             14947366 143 +  74389097 ---------------CACAAACTAAGCAAGGAAACAAAAAACCCTTACA--CACCTAAGAAAAGGACTTTCACCT---TTGTGGCA---------AAACAAAACACATAGAACTGAAAAatatatatatgtatatatagagatacagatatatataCACA------AACGTGTTTTTG--
i canFam3.chr11            I 14 I 1
s dasNov3.JH567306           2672320 106 +   3667625 CAAACATAAAAACAAAACAAAT---------------AAAGACCACATG--CATGCAAGAAAAAGATTACCACTCTTGTTTTGACA---------AGACAAAACAGAAAAAA---------------------------------------A---ACAAA------AAAAATTTTTTTAG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60581512  96 + 108143057 I
e proCoq1.NW_012155062v1     3616992 159 +  11683526 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=17290.000000
s hg38.chr5_KI270796v1_alt    122241 1 +    172708 T
s panTro5.chr5             125225912 1 + 181907262 T
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126562637 1 + 183735486 T
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1754403 1 +   8933513 T
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139888702 1 + 163208435 T
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122873397 1 + 180051392 T
i rheMac8.chr6             C 0 I 31
s macFas5.chr6             124297018 1 + 181584905 T
i macFas5.chr6             C 0 I 3
s macNem1.NW_012012355v1    16295383 1 +  18395747 T
i macNem1.NW_012012355v1   C 0 I 31
s cerAty1.NW_012002512v1     5308140 1 +  26952557 T
i cerAty1.NW_012002512v1   C 0 I 32
s chlSab2.chr23             28408606 1 +  82825804 t
i chlSab2.chr23            C 0 I 8
s manLeu1.NW_012103321v1     4078654 1 -   4237731 T
i manLeu1.NW_012103321v1   C 0 I 32
s colAng1.NW_012119644v1      347195 1 -   1175262 T
i colAng1.NW_012119644v1   C 0 I 32
s calJac3.chr2             123695444 1 - 204313951 T
i calJac3.chr2             C 0 I 5
s saiBol1.JH378106          55739504 1 -  71252344 T
i saiBol1.JH378106         C 0 I 5
s cebCap1.NW_016107590v1       42990 1 -   3089952 T
i cebCap1.NW_016107590v1   C 0 I 2
s aotNan1.NW_018505940v1    13243274 1 -  42888418 t
i aotNan1.NW_018505940v1   C 0 I 5
s micMur3.chr12             60581608 1 + 108143057 T
i micMur3.chr12            I 96 C 0
s otoGar3.GL873679           3104394 1 +   4132165 T
i otoGar3.GL873679         I 2 C 0
s canFam3.chr11             14947510 1 +  74389097 T
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2672426 1 +   3667625 T
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3616992 159 +  11683526 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=74620.000000
s hg38.chr5_KI270796v1_alt    122242 9 +    172708 CAACAGTTT
s panTro5.chr5             125225913 9 + 181907262 CAACAGTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126562638 9 + 183735486 CAACAGTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1754404 9 +   8933513 CAACAGTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139888703 9 + 163208435 GAACAGTTT
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124297022 9 + 181584905 CAACAGTTT
i macFas5.chr6             I 3 I 1
s chlSab2.chr23             28408615 9 +  82825804 CAACAGTTT
i chlSab2.chr23            I 8 I 19
s calJac3.chr2             123695450 9 - 204313951 CAACAGTTT
i calJac3.chr2             I 5 C 0
s saiBol1.JH378106          55739510 9 -  71252344 CAACAGTTT
i saiBol1.JH378106         I 5 C 0
s cebCap1.NW_016107590v1       42993 9 -   3089952 CAACAGTTT
i cebCap1.NW_016107590v1   I 2 C 0
s aotNan1.NW_018505940v1    13243280 9 -  42888418 CAACAGTTT
i aotNan1.NW_018505940v1   I 5 C 0
s micMur3.chr12             60581609 9 + 108143057 CAACAGTTT
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3104395 9 +   4132165 AAACAGATT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14947511 9 +  74389097 CAGTAGTTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2672427 9 +   3667625 CAACAATTT
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3616992 159 +  11683526 I
e manLeu1.NW_012103321v1     4078655 32 -   4237731 I
e cerAty1.NW_012002512v1     5308141 32 +  26952557 I
e macNem1.NW_012012355v1    16295384 31 +  18395747 I
e rheMac8.chr6             122873398 31 + 180051392 I
e mm10.chr18                55536584 2005 +  90702639 I
e colAng1.NW_012119644v1      347196 32 -   1175262 I

a score=40995.000000
s hg38.chr5_KI270796v1_alt    122251 12 +    172708 TCCCATGTCTCC
s panTro5.chr5             125225922 12 + 181907262 TCCGATGTCTCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126562647 12 + 183735486 TCCGATGTCTCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1754413 12 +   8933513 TCCGATGTCTCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139888712 12 + 163208435 TCCGATCTCTCC
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124297032 12 + 181584905 TTTAGAGTCACT
i macFas5.chr6             I 1 I 6
s calJac3.chr2             123695459 12 - 204313951 TCCCGTCTCTTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55739519 12 -  71252344 TCCAGTCTCCAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       43002 12 -   3089952 TCCAGTCTCCAC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13243289 12 -  42888418 TCCCGTCTCTAC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60581618 12 + 108143057 TCCAATCTCTAC
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3104404 12 +   4132165 GCCAATCTCTAC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14947520 11 +  74389097 -TTTACCTGTAC
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2672436 12 +   3667625 TCCAATCTCTAC
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3616992 159 +  11683526 I
e manLeu1.NW_012103321v1     4078655 32 -   4237731 I
e chlSab2.chr23             28408624 19 +  82825804 I
e cerAty1.NW_012002512v1     5308141 32 +  26952557 I
e macNem1.NW_012012355v1    16295384 31 +  18395747 I
e rheMac8.chr6             122873398 31 + 180051392 I
e mm10.chr18                55536584 2005 +  90702639 I
e colAng1.NW_012119644v1      347196 32 -   1175262 I

a score=356122.000000
s hg38.chr5_KI270796v1_alt    122263 38 +    172708 TTATATTTACAGTCA--------------CTACATAAG----------------------gtcctgacataatc
s panTro5.chr5             125225934 38 + 181907262 TTATATTTATAGTCA--------------CTACATAAG----------------------gtcctgacataatc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126562659 38 + 183735486 TTATATTTATAGTCA--------------CTACATAAG----------------------gtcctgacataatc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1754425 38 +   8933513 TTATATTTACAGTCA--------------CTACATAAG----------------------gtcctgacataatc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139888724 38 + 163208435 TTATATTTAGAGTCA--------------CTACATAAG----------------------gtcctgacataatc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122873429 38 + 180051392 TTATATTTAGAGTCA--------------CTCCATAAA----------------------gtcctgatataatc
i rheMac8.chr6             I 31 C 0
s macFas5.chr6             124297050 38 + 181584905 TTATATTTAGAGTCA--------------CTCCATAAA----------------------gtcctgatataatc
i macFas5.chr6             I 6 C 0
s macNem1.NW_012012355v1    16295415 38 +  18395747 TTATATTTAGAGTCA--------------CTCCATAAA----------------------gtcctgatataatc
i macNem1.NW_012012355v1   I 31 C 0
s cerAty1.NW_012002512v1     5308173 38 +  26952557 TTATATTTAGAGTCA--------------CTCCATAAA----------------------gtcctgatataatc
i cerAty1.NW_012002512v1   I 32 C 0
s chlSab2.chr23             28408643 38 +  82825804 TTTTATTTAGAGTCA--------------CTACATAAA----------------------gtcctcatataatc
i chlSab2.chr23            I 19 C 0
s manLeu1.NW_012103321v1     4078687 38 -   4237731 TTATATTTAGAGTCA--------------CTCCATAAA----------------------gtcctgatataatc
i manLeu1.NW_012103321v1   I 32 C 0
s colAng1.NW_012119644v1      347228 38 -   1175262 TTATATTTAGAGTCA--------------CTACATAAA----------------------gtcctgacataatc
i colAng1.NW_012119644v1   I 32 C 0
s calJac3.chr2             123695471 35 - 204313951 TTATATTTAGAATGC--------------CTGCATAAG----------------------gtactgacata---
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55739531 35 -  71252344 TTACATTTAGAATGT--------------CTGCATAAG----------------------gtgctgacata---
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       43014 35 -   3089952 TTATATTTAGAATGA--------------CTGCATAAG----------------------gtactgacata---
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13243301 35 -  42888418 TTACATTTAGAATGT--------------CTGCATAAG----------------------gtactgacata---
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60581630 38 + 108143057 TCATATCTAGGGTGA--------------CTACACAAG----------------------gttctagcataatt
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3104416 38 +   4132165 TCATATTTGTGGTGA--------------CCACCTCAA----------------------GTTCTAGCATAATT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14947534 35 +  74389097 ---TTTCTAGAGTGA--------------TCATATAAt----------------------gtttcagcataatt
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2672448 74 +   3667625 TCATAGGtagactgaacaactgtcccagtttgcctaaagcagtccaggcttattcctgttgtctcagcataatt
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3616992 159 +  11683526 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=5213957.000000
s hg38.chr5_KI270796v1_alt    122301 348 +    172708 attagtagcgtccccgttcactctcaaaactgccctggttaggttg--ataaattCCTACAATTCATGTGCCAGCCATACAATGATTTATTACCCCA---TATGCAATATGTGGCAATATAACCACAGAGA-TTTTAGCCAGAGAACTTTACTCTTATTCATAATAGTGCGCTATAGAATCCT-GGAGGATACAG-------AGAGGAAAATGGTAGGTACACAAAATGAGTCATTCATTGA----CCTATAATCTAAATCTATTACTGTCATTACGTTTCTGTTTTAGTTTAGTCATCTATA-----AAAGAGAGATAATACATAATTTTAGTAACTTCCTA-ATGTTCCACTAAAAGTTGGGTAATATAG
s panTro5.chr5             125225972 348 + 181907262 attagtagcgtccccgttcactctcaaaactgccctggttaggttg--ataaattCGTACAATTCATGTGCCAGCCATACAATGATTTATTACCCCA---TATGCAATATGTGGCAATATAACCACAGAGA-TTTTAGCCAGAGAACTTTACTCTTATTCGTAATAGTGTGCTATAGAATCCT-GGAGGATACAG-------AGAGGAAAATGGTAGGTACACAAAATGAGTCATTCATTGA----CCTATAATCTAAATCTATTACTGTCATTAAGTTTCTGTTTTAGTTTAGTCATCTATA-----AAAGAGAGATAATACATAATTTTAGTAACTTCCTA-ATGTTCCACTAAAAGTTGGGTAATATAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126562697 348 + 183735486 attagtagcgtccctgttcactctcaaaactgccctggttaggttg--ataaattCCTACAATTCATGTGCCAGCCATACAATGATTTATTACCCCA---TATGCAATATGTGGCAATATAACCACAGAGA-TTTTAGCCAGAGAACTTTACTCTTATTCGTAATAGTGTGCTATAGAATCCT-GGAGGATACAG-------AGAGGAAAATGGTAGGTACACAAAATGAGTCATTCATTGA----CCTATAATCTAAATCTATTACTGTCATTAAGTTTCTGTTTTAGTTTAGTCATCTATA-----AAAGAGAGATAATACATAATTTTAGTAACTTCCTA-ATGTTCCACTAAAAGTTGGGTAATATAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1754463 348 +   8933513 attagtagcgtccctgttcactctcaaaactgccctggttaggttg--ataaattCCTACAATTCATGTGCCAGCCATACAATGATTTATTACCCCA---TATGCAATATGTGGCAATATAACCAAAGAGA-TTTTAGCCAGAGAACTTTACTCTTATTCGTAATAGTGTGCTATAGAATCCT-GGAGGATACAG-------AGAGGAAAATGGTAGGTACACAAAATGAGTCATTCATTGA----CCTATAATCTAAATCTATTACTGTCATTAAGTTTCTGTTTTAGTTTAGTCATCTATA-----AAAGAGAGATAATACATAACTTTAGTAACTTCCTA-ATGTTCCACTAAAAGTTGGCTAATATAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139888762 348 + 163208435 attagtagcgtcccctttcactctcaaaactgccctggtgaggttg--ataaattCTTACAATTCATGTGCCAGCCATACAATGATTTATTACCCCA---TGTGTAATACGTGGCAATATAACCACAGAGA-TTTTAGCCAGAGAACTTTACTCTTATTCATAATGGTGTGCTATAGAATCCT-GGAGGATTCAG-------AGAGGAAAATGGTAGGTACACAAAATGAGTCATTCATTGA----CCTATAATCTAAATCTATTACTGTCATTAAGTTTCGGTTTTAGTTTAGTTATCTATA-----AAATAGAGATAATACATAATGTTAGTAACTTCCTA-ATGTTCCACTAAAAGTTGGATAATATAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122873467 348 + 180051392 attagtagcgtccccgttcactctcaaaactgacctggttaggttg--ataaattCTTACAATTCATGTGCCAGCCATACAATGATTTATTAATCCA---TATGTAATACATGGCAATATAACCACAGAGA-TTTTAGCCAGAGATCTTTACTCTTATTCATAATAGTGTGCTATAGAATCCT-GGAGGATTTGG-------AGAGGAAAATGGTAGGTACACAAAATGAGTCATTTATTGA----CCTATAATCTAAATCTATTACTGTCATTAAGTTTCTGTTTTAGTTTAGTCATCTATA-----AAATAGAGATAATACATAATTTTAGTAACTTCCTA-ATGTTCCACTAAAAGTTGGATAGTATAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124297088 348 + 181584905 attagtagcgtccccgttcactctcaaaactgacctggttaggttg--ataaattCTTACAATTCATGTGCCAGCCATACAATGATTTATTAATCCA---TATGTAATACATGGCAATATAACCACAGAGA-TTTTAGCCAGAGATCTTTACTCTTATTCATAATAGTGTGTTATAGAATCCT-GGAGGATTTGG-------AGAGGAAAATGGTAGGTACACAAAATGAGTCATTCATTGA----CCTATAATCTAAATCTATTACTGTCATTAAGTTTCTGTTTTAGTTTAGTCATCTATA-----AAATAGAGATAATACATAATTTTAGTAACTTCCTA-ATGTTCCACTAAAAGTTGGATAATATAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16295453 348 +  18395747 attagtagcggccccgttcgctctcaaaactgacctggttaggttg--ataaattCTTACAATTCATGTGCCAGCCATACAATGATTTATTAATCCA---TATGTAATACATGGCAATATAACCACAGAGA-TTTTAGCCAGAGATCTTTACTCTTATTCATAATAGTGTGCTATAGAATCCT-GGAGGATTTGG-------AGAGGAAAATGGTAGGTACACAAAATGAGTCATTCATTGA----CCTATAATCTAAATCTATTACTGTCATTAAGTTTCTGTTTTAGTTTAGTCATCTATA-----AAATAGAGATAATACATAATTTTAGTAACTTCCTA-ATGTTCCACTAAAAGTTGGATAATATAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5308211 348 +  26952557 attagtagcgtccctgttcactctcaaaactgacctggttaggttg--ataaattCTTACAATTCATGTGCCAGCCATACAATGATTTATTAATCCA---TATGTAATACGTGGCAATATAACCACAGAGA-TTTTAGCCAGAGATCTTTACTCTTATTCATAATAGTGTGCTATAGAATCCT-GGAGGATTCGG-------AGAGGAAAATGGTAGGTACACAAAATGAGTCATTCATTGA----CCGATAATCTAAATCTATTACTGTCATTAAGTTTCTGTTTTAGTTTAGTCATCTATA-----AAATAGAGATAATACATAATTTTAGTAACTTCCTA-ATGTTCCACTAGAAGTTGGATAATATAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28408681 348 +  82825804 attagtagcgtccccgttcactctcaaaactgacctggttaggttg--ataaattCTTACAATTCATGTGCCAGCCATACAATGATTTATTAATCCA---TATGTAATACGTGGCAATATAACCACAGAGA-TTTTAGCCAGAGATCTTTACTCTTATTCATAATAGTGTGCTATAGAATCCT-GGAGGATTCGG-------AGAGGAAAATGGTAGGTACACAAAATGAGTCATTCATTGA----CCTATAATCTAAATCTATTACTGTCATTAAGTTTCTGTTTTAGTTTAGTCATCTATA-----AAACAGAGATAATACATAATTTTAGTAACTTCCTA-ATGTTCCACTAAAAGTTGGATAATATAG
i chlSab2.chr23            C 0 I 201
s manLeu1.NW_012103321v1     4078725 348 -   4237731 attagtagcgtccctgttcactctcaaaactgacctggttaggttg--ataaattCTTACAATTCATGTGCCAGCCATACAATGATTTATTAATCCA---TATGTAATACGTGGCAATATAACCACAGAGA-TTTTAGCCAGAGATCTTTACTCTTATTCATAATAGTGTGCTATAGAATCCT-GGAGGATTCGG-------AGAGGAAAATGGTAGGTACACAAAATGAGTCATTCATTGA----CCTATAATCTAAATCTATTACTGTCATTAAGTTTCTGTTTTAGTTTAGTCATCTATA-----AAATAGAGATAATACATAATTTTAGTAACTTCCTA-ATGTTCCACTAGAAGTTGGATAATATAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      347266 347 -   1175262 attagtagcgtccccattcactctcaaaactgacctggttaggttg--ataaattCTTACAATTCATGTGCCAGCCGTACAATGATTTATTACTCCA---TATGTAATACGTGGCAATATAACCACAGAGA-GTTTAGCCGGAGATCTTTACTCTTATTCGTAATAGTGTGCTATAGAATCCT-GGAGGATTCAG-------AGAGGAAAATGGTAGGTACACAAAATGAGTCATTCATTGA----CCTATAATCTAAATCTATTACTGTCATT--GTTTCTGTTTTAGTTTAGTCATCTATA-----AAATAGAGATAATACATAATTTTAGTAACTTCCTATATGTTCCACTAAAAGTTGGATAATGTAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123695506 345 - 204313951 attagtagcatccccattcactctcaaaactgccctggttaggttg--ataaattCTTACAATTCATGCATCAGCCATACAATGATTGATTAATGAG---TATGTAATAAATGACAATGTAACCACAGAGA-TTTTAGCCAGAGAGCTTTACTCTTATTCCTAACAGTGTGTTATA-AATCCT-GGAGGATTC---------AGAGGAAAATGGTGAGTACACAAATTGAGTCATTCATTGA----CCTATAATCTAGATCTATTACTGTCATTAAGTTTCTGTTTTAGTTTAGCCATCTATA-----AAATAGAGATAATACACAATTTTAGTAACTTCCTA-ATGTTACACTAAAAGTTGGATAATATAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55739566 340 -  71252344 attagtagcatccccattcactctcaaaactgccctggttaggttg--ataaattCTTACAATTCATGCACCAGCCATGCAATGATTGATTACTGGG---TATGTAATAAATGACAATATAACCACAGAGA-TTTTAGCCAGAGAGCTTTACTCTTATTCCTAATAGTGTG------AATCCT-GGAGGATTC---------AGAGGAAAATGGTGAGTACACAAATTGAGTCACTCATTGA----CCTATAATCTAGATCTATTACTCTCATTAAGTTTCTATTTTAGTTTAGCCATCTATA-----AAATAGAGATAATACATAATTTTAGTAACTTCCTA-ATGTTCCACTAAAAATTGGATAATATAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       43049 346 -   3089952 attagtagcatccctgttcactctcaaaactgccctggttaggttg--ataaattCTTATAATTCATGCACCAGCCATACGAGGATTGATTACTGCG---TATGTAATAAATGACAATATAACCGCAGAGA-TTTTAGCCAGAGAGCTTTACTCTTATTCCTAATAATGCGTTATAGAATCCT-GGAGGATTC---------AGAGGAAAATGGTGAGTACACAAATTGAGTCATTCATTGA----CCTATAATCTAGATCTATTACTGTCATTAAGTTTCTGTTTTAGTTTAGCCATCTATA-----AAACAGAGATAATACATAATTTTAGTAACTTCCTA-ATGTTCCACTAAAAGTTGGATAATATAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13243336 346 -  42888418 attagtagcatccccattcactctcaaaactgccctggttaggttg--ataaattCTTAAAATTCACGCACCAGCCATACAATGATTGATTACTGCG---TATGTAATAAATGACAATATAACCACAGAGA-TTTTAGCCAGAGATCTTTACTCTTATTCCTCATAGTGTGTTATAGAATCCT-GGAGGATTC---------AGAGGAAAATGGTGAGTACACAAATTGAGTCATTCATTGA----CCTATAATCTAGATCTATTACTgtcactaagtttctgttttagtttagccatctata-----aaatagagataatACATAATTTTAGTAACTTCCTA-ATGTTCCACTAAAAGTTGGATAATATAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60581668 348 + 108143057 attagtagcattccctttcactctcaaaattaccctggttaggttg--ataaatCTTTGGTATTTGTGTACCAGTCTTACAATGATTTATTACTGTG---TATATAATAAATGGAAATATAAGCACAGAGA-TTTCATCCAGAGAGATTTACTCTTTTTCCTAACAAAGTGTCAAAGAGTCCT-GGGGGATTCAG-------AGAGAAAAATGCTAGGTACACAAAATGAATCATTAATCGA----CCTGTAATCTAGATCCATTACTgtcattaagtttctattttagtttagtcatctgta-----aaatagagataacacataattttagtaacttccca-atgttccactaaaagttggataatatag
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3617151 350 +  11683526 attagtagcattccctttcactctcaaaattaccctagttaggttg--ataaatCTTTGGTATTTGTATACCAGCCTTACAATGATTTATTACTGTG---TATATAATAAACGGAAATATAACCACAGAGATTTTTATCCAGAGAGATCTACTCTTTTTCCTAACAAAGTGTCACAGAATCCTGGGGGGATTCAG-------AGGGGAAAATGGTAGGTACACAAAATGAATCATTAATCAA----CCTGTAATCTAGATCCATTACTGTCATTAAGTTTCTATTTTAGTTTAGTCATCTGTA-----AAATAGAGATTACACATAATTTTAGTAACTTCCAA-ATGTTCCACTAAAAGTTGGATAATATAG
i proCoq1.NW_012155062v1   I 159 C 0
s otoGar3.GL873679           3104454 335 +   4132165 GTTAGTACCATTACCTTT-ACTTTCAAAATTACTCTGGTTAGGTTG--ATAAATCCTTGGTATTCATGTACCAGCATTACAATGATTTATTACCATG---CATATAATAAATGGAAATATAACCACAGTGA-TTTTATCCAGGGACATTCGC------TCCCAACAAAGTGCTATAGAATCAT-AGGGGATTCAG-------A--GGAAAATGGTAGGTACGCAAAATGAATTATTAATTGA----CCTGTAATCTAAATCCGTTACTgtcattaagtttctgttttagcttagtcatctgta-----aaatagagata----ataattttagtgatttccca-atattccactaaaagttggataatgtag
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14947569 356 +  74389097 actagtaccatcccctttcattccccaaacagccctgatttggttgataTAAATTTATACTACTCACGTACCAGCCTCACTATGATCGATTACAGTA---TATATAATAAATGGAAATATAACTACAAAGA-TTGCAGCCAGAGAGCTTTATTCCTCTTCATAATAGTGTGCTACAGAATCCT-GGGAGATTGAGATTTAGAAAGGAAAAATGGCAGGTACACAAGATGACTGACTCATTAACTGCCCTGTAATCTAGATCCATCACCATCATTAAGGTTCTATTTTACTTTCGTCATCCGT----------AGAGATAACACATAATTTTAGTATCTTCAGG-ATATTCCTCTAACACTTCGATAATATAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2672522 337 +   3667625 actagtagcatcccatttcattctcaaaa-TAAGCTGCTTTAGTTG--A-AAATTTGTACTATGCATGTAATAACCTTACTACAATT-ATTACTGTAATTTCCATAATAAATG--------ACTACAAATA-TTTTTGCCAAAGAGTTTTGGTGTTTCTCATAA--GTGTGCTATATAATCCT-GAGGGAGTCAG-------AAAGGAAAATGGTA-GTATACAAAATGAGTCATTAATTGA----CCTATCATCTAGATTCATTA--GTCGTTAACTTTCCATTTTAGTTTAGACATCTAAACTGCGAAGTACGAATAACACCCAATTTTAGT--CTTTATA-CCGTTCT-TTAAGACTTGGGTAACATAG
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55536584 2005 +  90702639 I

a score=5234610.000000
s hg38.chr5_KI270796v1_alt    122649 373 +    172708 AAAAGAGACCATTTTGAGTATTATGTAGTGCTTTAAGCATGTTAAGT--------------ACATTATAATTGTCT--------------------------------------------------GATAAGCA-TTTTTTATGCAG------------------------------------------CTGT------AAGGTACCATTATGTTCCC-----------------------------TGACCATCCAAACATTATTTAGAGCATTTGGAGTATTTAGCATTGTCTTTTTTCTCTTTGATAACCCTGTATATAGATTCATCAAGATAATAATGTCTTGAGGCAATAATGTAATCTACCATTTACATAAGGTAATATTATCTTTAGAACTAA-TTTTTGAGC----TT----AATTT------------------------------------------TTATAAAAGGAGAAATCACGTGACATTATTTCATTCCTATGATTTCCTTACAACATCTTTCTTCAGATATAACCTGCAAAAA----AGTCAGTCAGACCATTT
s panTro5.chr5             125226320 373 + 181907262 AAAAGAGATCATTTTGAGTATTATATAGTGCTTTACGCATGTTAAGC--------------ACATTATAATTGTCT--------------------------------------------------GATAAGCA-TTTTTTATGCAG------------------------------------------CCGT------AAGGTACCATTAGGTTCCC-----------------------------TGATCATCCAAACTTTATTTAGAGCATTTAGAGTACTTAGCATTGTCTTTTTTCTCTTTGATAACCCTGTATATAGATTCATCAAGATAATAATGTCTTGAGGCAATAATGTAATCTACCATTTACATAGGGTAATATTATCTTTAAAACTAA-TTTTTGAGC----TT----AATTT------------------------------------------TTATAAAAGGAGAAATCACGTGACATTATTTCATTCCTATGATTTCCTTACAACATCTTTCTTCAGATATAACCTGCAAAAA----AGTCAGTCAGACCATTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126563045 373 + 183735486 AAAAGAGATCATTTTGAGTATTATATAGTGCTTTACGCATGTTAAGC--------------ACATTATAATTGTCT--------------------------------------------------GATAAGCA-TTTTTTATGCAG------------------------------------------CCGT------AAGGTACCATTAGGTTCCC-----------------------------TGATCATCCAAACTTTATTTAGAGCATTTAGAGTACTTAGCATTGTCTTTTTTCTCTTTGATAACCCTGTATATAGATTCATCAAGATAATAATGTCTTGAGGCAATAATGTAATCTACCATTTACATAGGGTAATATTATCTTTAAAACTAA-TTTTTGAGC----TT----AATTT------------------------------------------TTATAAAAGGAGAAATCACGTGACATTATTTCATTCCTATGATTTCCTTACAACATCTTTCTTCAGATATAACCTGCAAAAA----AGTCAGTCAGACCATTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1754811 373 +   8933513 AAAAGAGACCATTTTGAGTATTATATAGTGCTTTACGCATGTTAAGT--------------ACATTATAATTGTCT--------------------------------------------------GATAAGCA-TTTTTTACGCAG------------------------------------------CCGT------AAGGTACCATTAGGTTCCC-----------------------------TGATCATCCAAACTTTATTTAGAGCATTTGGAGTACTTAGCATTGTCTTTTTTCTCTTTGATAACCCTGTATATAGATTCATCAAGGTAATAATGTCTTGAGGCAATAATGTAATCTACCATTTACATAGGGTAATATTATCTTTAAAACTAA-TTTTTGAGC----TT----AATTT------------------------------------------TTATAAAAGGAGAAATCACGTGACATTATTTCATTCCTATGATTTCCTTACAATATCTTTCTTCAGATATAATCTGCAAAAA----AGTCAGTCAGACCATTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139889110 370 + 163208435 AAAAGAGACCATTTTGAGTATTATATAGTGCTTTAAGCATGTTAAGT--------------ATATTATAATTGTCT--------------------------------------------------GATAAGCA-TTTTTTATGCAG------------------------------------------CCGT------AAGGTGCCACTGGGTTCCC-----------------------------TGATCATCTAAACATTATTTAGAGCATTTGGAGTACTTAGCATTGTCTTTTTTCCCTTTGATAACCCTGTATATAGATTCATCAAGATAATAATGTCTTGAGGCAATAATGTAATCTACCATTTACATAGGGTAATATTATCTTTAAAACTAA-TTTTTGAGC----TT----AATTT------------------------------------------TTATAAA---AGAAATCATGTGACATTATTTCATTCCTATGATTTCGTTACAATATCTTTCTTCAGATATTACTTTCAAAAA----AGTCAGTCAGACCATTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122873815 375 + 180051392 AAAAGAGACCATTTTGAG--TTACATAGTGCTTTAAACATGTTAAGT--------------ACATTATAATTGTCT--------------------------------------------------GATAATCA-TTTTTTATGCAG------------------------------------------CCCT------AAGGTTCCATTACATTCCC-----------------------------TGATAATCTAAACATTATTTAGAGCATTTGGAGTACTTAGCATTGTCTTTTTTCTCTTTATTAACCATGTATATAGATTCATCAAGATCATAATGTCTTGAGGCAATAATGTAATCTACCATTTACATAGGGTAATATTATCTTTAAAACTAA-CTTTTGAGC----TT----AATTT------------------------------------------CTATAAAAGGAGAAATCATGTGACATTATTTCATTCCTATGATTTCCTTAGAACATCTTTCTTCAGATATAACCTGCAAAAAAGTCAGTCAGTCAGACCATTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124297436 375 + 181584905 AAAAGAGACCATTTTGAG--TTACATAGTGCTTTAAACATGTTAAGT--------------ACATTATAATTGTCT--------------------------------------------------GATAATCA-TTTTTTATGCAG------------------------------------------CCCT------AAGGTTCCATTACATTCCC-----------------------------TGATAATCTAAACATTATTTAGAGCATTTGGAGTACTTAGCATTGTCTTTTTTCTCTTTGATAACCATGTATATAGATTCATCAAGATCATAATGTCTTGAGGCAATAATGTAATCTACCATTTACATAGGGTAATATTATCTTTAAAACTAA-CTTTTGAGC----TT----AATTT------------------------------------------CTATAAAAGGAGAAATCATGTGACATTATTTCATTCCAATGATTTCCTTAGAACATCTTTCTTCAGATATAACCTGCAAAAAAGTCAGTCAGTCAGACCATTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16295801 375 +  18395747 AAAAGAGACCATTTTGAG--TTACATAGTGCTTTAAACATGTTAAGT--------------ACATTATAATTGTCT--------------------------------------------------GATAATCA-TTTTTTATGCAG------------------------------------------CCCT------AAGGTTCCATTACATTCCC-----------------------------TGATAATCTAAACATTATTTAGAGCATTTGGAGTACTTAGCATTGTCTTTTTTCTCTTTGATAACCATGTATATAGATTCATCAAGATCATAATGTCTTGAGGCAATAATGTAATCTACCATTTACATAGGGTAATATTATCTTTAAAACTAA-CTTTTGAGC----TT----AATTT------------------------------------------CTATAAAAGGAGAAATCATGTGACATTATTTCATTCCTATGATTTCCTTAGAACATCTTTCTTCAGATATAACCTGCAAAAAAGTCAGTCAGTCAGACCATTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5308559 377 +  26952557 AAAAGAGACCATTTTGAGTATTACATAGTGCTTTAAACATGTTAAGT--------------ACATTATAATTGTCT--------------------------------------------------GATAATCA-TTTTTTATGCAG------------------------------------------CCCT------AAGGTTCCATTACATTCCC-----------------------------TGATAATCTAAACATTATTTAGAGCATTTGGAGTACTTAGCATTGTCTTTTTTCTCTTTGATAACCATGTATATAGATTCATCAAGATCATAATGTCTTGAGGCAATAATGTAATCTACCATTTACATAGGGTAATATTATCTTTAAAACTAA-CTTTTGAGC----TT----AATTT------------------------------------------CTATAAAAGGAGAAATAATGTGACATTATTTCATTCCTATGATTTCCTTAGAACATCTTTCTTCAGATATAACCTGCAAAAAAGTCAGTCAGTCAGACCATTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28409230 376 +  82825804 aaaaGAGACCATTTTGAGTATTACATAGTGCTTTAAACATGTTAAGT--------------ACATTATAATTGTCT--------------------------------------------------GATAATCA-TTTTTTATGCAG------------------------------------------CCCT------AAGGTTCCATTACATTCCC-----------------------------TGATAATCTAAACATTATTTAGAGCATTTGGAGTACTTAGCATTGTCTTTTTTCTCTTTGATAACCATGTATGTAGATTCATCAAGATCATAATGTCTTGAGGCAATAATGTAATCTACCATTTACATAGGGTAATATTATCTTTAAAACTAA--TTTTGAGC----TT----AATTT------------------------------------------CTATAAAAGGAGAAATCATGTGACATTATTTCATTCCTATGATTTCCTTAGAACATCTTTCTTCAGATATAACCTGCAAAAAAGTCAGTCAGTCAGACCATTT
i chlSab2.chr23            I 201 C 0
s manLeu1.NW_012103321v1     4079073 374 -   4237731 AAAAGAGACCATTTTGAGTATTACATAGTGCTTTAAACATGTTAAGT--------------ACATTATAATTGTCT--------------------------------------------------GATAATC----TTTTATGCAG------------------------------------------CCCT------AAGGTTCCATTACATTCCC-----------------------------TGATAATCTAAACATTATTTAGAGCATTTGGAGTACTTAGCATTGTCTTTTTTCTCTTTGATAACCATGTATATAGATTCATCAAGATCATAATGTCTTGAGGCAATAATGTAATCTACCATTTACATAGGGTAATATTATCTTTAAAACTAA-CTTTTGAGC----TT----AATTT------------------------------------------CTATAAAAGGAGAAATCATGTGACATTATTTCATTCCTATGATTTCCTTAGAACATCTTTCTTCAGATATAACCTGCAAAAAAGTCAGTCAGTCAGACCATTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      347613 377 -   1175262 AAAAGAGACCATTTTGAGTATTACATAGTGCTTTAAACATGTTAAGT--------------ACATTATAATTGTCT--------------------------------------------------GATAATCA-TTTTTTATGCAG------------------------------------------CCCT------AAGGTTCCATTACATTCCC-----------------------------TGATAATCTAAACATTATTTAGAGCATTTGGAGTACTTAGCATTGTCTTTTTTCTCTTTGATAACCATGTATATAGATTCATCAAGATCATAATGTCTTGAGGCAATAATGTAATCTACCATTTACATAGGGTAATATTATCTTTAAAACTAA-CTTTTGAGC----TT----AATTT------------------------------------------CTATAAAAGGAGAAATCATGTGACATTATTTCATTCCTATGATTTCCTTAGAACATCTTTCTTCAGATATAACCTGCAAAAAAGTCAGTCAGTCAGACCATTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123695851 372 - 204313951 AAAAGAGACCATCTTGAGTATGATAGAGGGTTTTAAACATGTTAAAT--------------ACATTACAATTGTCT--------------------------------------------------GATAATCA-TTTTTTATGTAG------------------------------------------CCCC------AAGGTACTATTACATTCTC-----------------------------TGATCATCTAAATATTATTTAGAACATTTGGAGTACTTAGCATTGTC-TTTTTCTCTTTGATAACCCTGTATATAGATTTATCAAGGTCATAATATCTTGAGGTGATAATGTAATCTACCATTTACATAGGGTAATATTCTCTTTAAAGTTAA-TTTTTGAGC----TT----AACTT------------------------------------------TCATAAAAGGAGAAATCTCATGACATTATTTCATTCCTGTGATTTTCTTAGAACATCTTTCTTCAGATATAAACTGCAGAAA----AGTCAGTAAGACTATTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55739906 372 -  71252344 AAAAGAGACCATCTTGAGTATGATATAGGGCTTTAAACATGTTAAAT--------------ACATTATAATTGTCT--------------------------------------------------GATAATCA-TTTTTTATGCAG------------------------------------------CCCC------AAGGTACTATTACATTCTC-----------------------------TGATCATGTAAACATTATTTAGAACATTTGGAGTACTTAGCATTGTC-TTTTTCTCTTTGATAACCCTGTATATAGATTTATCAAGGTCATAATATCTTGAGGTGATAATATAATCTACCATTTCCATAGAGTAATATTATCTTTAAAGCTAA-TTTTTGAGC----TT----AACTT------------------------------------------TTATAAAAGCAGAAATCACGTGACATTATTTCATTCCTGTGATTTTCTTAGAACATCTTTTTTCAGATATAACCTGCAGAAA----AGTCAGTAAGACCGTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       43395 374 -   3089952 AAAAGAGCCCATCTTGAGTATGATATAGGGCTTTAAACATGTTAAAT--------------ACATTATAATTGTCT--------------------------------------------------GATAATCATTTTTTTATGCAG------------------------------------------CCCC------AAGGTACCATTACATTCTC-----------------------------TGGTCATCTAAACATTATTTAGAACATTTGGAGTACTTAGCATTGTC-TTTTTCTCTTTGATAACCCTGTATATAGATATATCAAGGTCATCATATCTTGAGGCGATAATGTAATCTACCATTTACATAGGGTAGTATTATCTTTAAAGCTAATTTTTTGAGC----TT----AACTT------------------------------------------TTACAAAAGGAGAAATCATGTGACATTATTTCATTCCTGTGATTTCCTTAGAACATCTTTCTTCAGATATAACCTGCAGAAA----AGTCAGTAAGACCATTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13243682 369 -  42888418 AAAAGAGACCATCTTGAGTATGATATAGTGCTTTAAACATGTTAAAT--------------ACATCATAATAGTCT--------------------------------------------------GGTAATCA-TTTTTTATGCAG------------------------------------------CCCC------AAGGTACCATTACATTCTC-----------------------------TGATCATCTAAACATTATTTAGAACATTTGGAGTACTTAGCATTGTC-TTTTTCTCTTTGATAACTCTGTATATAGATTTATCAAGGTCATAATATCTTGAGGTGATAATGTAATCTACCATTTACATAGGGTAATATTATCTTTAAAGCTAA-TTTTTGAGC----TT----AACTT------------------------------------------TTATAAAAGGAGAAATCACATGACATTATTTCATTCCTGTGATTTCCTTAGAACATCT---TTCAGATATAACCTGCGGAAA----AGTCAGTAAGACCATTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60582016 365 + 108143057 acgagagaccattttggatattatacaatgctttaaacatgtCAAAT--------------ACTTTATAATTGTCT--------------------------------------------------GATAATAA-TTTTTTATGCAG------------------------------------------CCTT------AAGGTACCATTATTTGCAC-----------------------------TAATCATTTAAACATTATTTAGAGTATTTAGAGTGCTTAGCATTGTC-TTTTTCTCTTTGACAATCATGTATAAAGATTTATCAAGATCATAATGTCTTGAGGCAATGATGTAATATGCCATTTAAGTGGGATAACATTATCTTTAAAACTAA-TTTTTGATC---------------------------------------------------------ATACAAAGGGAGAAATCATGTGGTATTATTTCATTTGTAGGATTTCCTTAGAACATCTTTCTTCAGCTATAACCCAAAGAAA----AGCCAATAAGGCCATTT
i micMur3.chr12            C 0 I 18
s proCoq1.NW_012155062v1     3617501 365 +  11683526 ACAAGAGACCATTTTGAGTATTATATAGTGCTTTAAACATGTCAAAT--------------ACATTATAATTGTCT--------------------------------------------------GATAATCA-TTTTTTATGCAG------------------------------------------CCTT------GAGGTACCATTATTCCCAC-----------------------------TGATTATTTAAACATTATTTAGAGTATTTAGAGTGCTTAGCATTGTC-TTTTTCTCTTTGACAATCATGTATATAGATTTATCAAGATCATAATGTCTTGAGGCAATGATGTAATATGCCATTTAACTGGGATAACATTATCTTTAAAACTAA-TTTTTGATC---------------------------------------------------------TTACGAAGGGAGAGATCATGTGGTATTATTTCATTCCTTTGATTTCCTTAGAACATCTTTCTTCAGCTGTAACCCAAAGGAA----AGCCAATAAGGCCATTT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3104789 414 +   4132165 acaagagaccattttgagtactatacagtgctttaagcatgtTAAAT--------------ACATCACAGTTGTCT--------------------------------------------------GATAATCA-TTTCTTATGCAG------------------------------------------CTTT------AAGCTATCATTATTCCCAC-----------------------------TGATTATTTAAACATTATTTAGAGAATTTAGAGTGCTTAGCCTGGTT-GTTTTCTCTTTGACGATCATGTATACAGATTTATTAAGATCATAATGTCTTGAGGCAATGATGTAATATACTATTTAAGCAGGATAACATTATCTTTCAAACTAA-TTTTTGACCTTGGTT----AATTTTGCAAAGGGAGAAAATCAACTAATTTTTGACCTTGGTTAATTTTGTAAAGGGAAAAATCATGTGGTTGTATTTCATTCCTATGATTTTCTTAGAACATCTTT----ATATATAACTCAAAGAAA----AGCCAATAAGGCCATTT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14947925 507 +  74389097 -CCTGGAGCCATTTTGAGTGTTATATAGTGCTTTAAATATTTTAAGTGGTTtttttttttaagattttatttatttatgagacagagagaaagagagagagaaagagagagagagacaggtagagggagaagca-ggctccatgcagggagcccgatgcgggactcgatcccaggtctccaggatcacaccttgggctgaaggctgcgctaaacccctgagcctcccgggctgcccTGTTTTCTTAATTATAATCTAACCATTATCT-----ATTTAGAGCATTTAGGATTGTCTTTTTCCTCTTTGATAGCTATGTATG--GGTTCATGAAGATCATAATGTCTTCAGGCCATGATGTATTATACCATTTGAGTAGGATAATATTATCTTTAAAACTAG-TTTTCGAGC----TTAGTGAATTT------------------------------------------TTATAGGAGGAGGAATC--GTGGTATTATTTTATTCCTACAATTTCCTTAG-ATACCTTTCTTCTGATACAATCTGAAGTAA----AGTAAAAAAGCCCACTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2672859 330 +   3667625 ACATGAGACTATTTTGAAAATCATATAGTGCTTTAAACAGTATAAAA--------------ACATTATAATTGTCT--------------------------------------------------GATA-----ATTTTTATTCAG------------------------------------------TCCT------GAGGCACAATTATTCTCCT-----------------------------TGATCATAAGTACCTTATTTA---------GGGTATTTAGCATTGTATT------------------TGTGTGTACATTCAACAAGATCATAATGTCTTGAGGCA-----------TTTCATTTGAGTAAGCTAATGTTAGTTTTAAAACTCT-TTGCTGAGC----TTAGTTAATTT------------------------------------------TTATA---GGAGGAATCATGTAGTTCTGTTTTATTCCTATGATTTCCTTAAAA-ATCTTCCTTCAGATATAACATG-AAAAA----TGTGAATAAGACCATTT
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55536584 2005 +  90702639 I

a score=203265.000000
s hg38.chr5_KI270796v1_alt    123022 23 +    172708 TACTCTCTTTAAAGTCTGTCTGT
s panTro5.chr5             125226693 23 + 181907262 TACTCTCTTTAAAGTCTGTCTGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126563418 23 + 183735486 TACTCTCTTTAAAGTCTGTCTGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1755184 23 +   8933513 AACTCTCTTTAAAGTCTGTCTGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139889480 19 + 163208435 TACTCCCTTTAAA----GTCTGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122874190 19 + 180051392 TACTCCCTTTAAA----GTCTGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124297811 19 + 181584905 TACTCCCTTTAAA----GTCTGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16296176 19 +  18395747 TACTCCCTTTAAA----GTCTGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5308936 19 +  26952557 TACTCCCTTTAAA----GTCTGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28409606 19 +  82825804 TACTCCCTTTAAA----GTCTGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4079447 19 -   4237731 TACTCCCTTTAAA----GTCTGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      347990 19 -   1175262 TACTCCCTTTAAA----GTCTGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123696223 19 - 204313951 TACCCCCTTTAAA----GCCTGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55740278 19 -  71252344 TACCCCCTTTAAA----GTCTGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       43769 19 -   3089952 TACCCCCTTTAAA----GTCTGT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13244051 19 -  42888418 TACCCCCTTTAAA----GTCTGT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3617866 18 +  11683526 -AATCCCCATGAA----GTCCAT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3105203 18 +   4132165 -CATGTCCTTGAA----GTCCCT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14948432 18 +  74389097 TACTCTC-TTGAA----GTCCAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2673189 18 +   3667625 CACTCT-TTTGAA----GTCCAG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60582381 18 + 108143057 I
e mm10.chr18                55536584 2005 +  90702639 I

a score=1087632.000000
s hg38.chr5_KI270796v1_alt    123045 75 +    172708 TTCTCCCAACATAGATATAGCCT-ACAAAGAGCTCAAAGTTTA-GTTGCCAACAAAAGACATCATGAG-AAATTTCTC
s panTro5.chr5             125226716 75 + 181907262 TTCTCCCAACATAGATATAGCCT-ACAAAGAGCTCAAAGTTTA-GTTGCCAACAAAAGACATCATGAG-AAATTTCTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126563441 75 + 183735486 TTCTCCCAACATAGATATAGCCT-ACAAAGAGCTCAAAGTTTA-GTTGCCAACAAAAGACATCATGAG-AAATTTCTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1755207 75 +   8933513 TTCTCCCAACATAGATATAGCCT-ACAAACAGCTCAAAGTTTA-GTTGCCAACAAAAGACATCATGAG-AAATTTCTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139889499 75 + 163208435 TTCTCCCAACACAGATATAGCCT-ACAAACAGCTCAAAGTTTA-GTTGCTAACAAAAGACATCATGAG-AAATTTCTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122874209 76 + 180051392 TTCTCCCAACATAGAGATAGCCT-ACAAACAGCCCAAAGTTTA-GCTGCCAACAAAAGACATCATGAGAAAATTTCTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124297830 76 + 181584905 TTCTCCCAACATAGAGATAGCCT-ACAAACAGCCCAAAGTTTA-GCTGCCAACAAAAGACATCATGAGAAAATTTCTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16296195 76 +  18395747 TTCTCCCAACATAGAGATAGCCT-ACAAACAGCCCAAAGTTTA-GCTGCCAACAAAAGACATCATGAGAAAATTTCTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5308955 76 +  26952557 TTCTCCCAACATAGAGATAGCCT-ACAAACAGCCCAAACTTTA-GCTGCCAACAAAAGACATCATGAGAAAAGTTCTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28409625 76 +  82825804 TTCTCCCAACATAGAGATAGCCT-ACAAATAGCCCAAAGTTTA-GCTGCCAACAAAAGACATCATGAGAAAATTTCTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4079466 76 -   4237731 TTCTCCCAACATAGAGATAGCCT-ACAAACAGCCCAAACTTTA-GCTGCCAACAAAAGACATCATGAGAAAAGTTCTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      348009 77 -   1175262 TTCTCCCAACATACAGAGAGCCT-ACAAACAGCCCAAAGTTTAGGCTGCCAACAAAAGACATCATGAGAAAATTTCTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123696242 75 - 204313951 TTCTTCCAACATAGATGTAGCCC-ACACACAGCTCAAAGTTTA-GTTGCCAACAAAAGACATGATGAG-AAATTTCTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55740297 75 -  71252344 TTCTTCCAACATAGATGTAGCCC-ACAAACAGCTCAAAGTTTA-GTTGCCAACAAAAGACATGATGAG-AAATTTCTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       43788 75 -   3089952 TTCTTCCAACATAGATGTAGCCC-ACAAACAGCTCAAAGTTTA-GTCGCCAACAAAAGACATGATGAG-AAATTTCTC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13244070 75 -  42888418 TTCTTCCAACATAGATGTAGCCC-ACAAACAGCTCAAAGTTTA-GTTGCCAACAAAAGACATGATGAG-AAATTTCTC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60582399 75 + 108143057 TTCTCCCAACATAGAAATAACCC-CCAAACAGCTCAAAGTTTA-CTTGCACACAAAAGACATGCAGAG-AAATGTCTC
i micMur3.chr12            I 18 C 0
s proCoq1.NW_012155062v1     3617884 75 +  11683526 TTCTCCCAACATAGAAATAGCCC-CCAAACAGTTCAAAGTTTA-CTTGCACACAAAAGACATGCAGAG-AAATGTCTC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3105221 75 +   4132165 TTCTCCCAACATGGAAATAGCCC-CCAATTAGCTCAAAGTTTA-CTTTGAAACAAAAGGCATGAAGAG-AAATTTCTC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14948450 75 +  74389097 TTCTCCCAACAGGGAAATAGTTT-CCAAACTGCTCAAAGTTTA-GCTGCAAACTAAAGACATCCAGAG-AAATGTCTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2673207 76 +   3667625 TTCTTTCAACATGGAAATGACCTCCCAAATTGCTCTGTGTTTA-GTTACAAACAAAACAGGTCCAAGG-AAATTTCTC
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55536584 2005 +  90702639 I

a score=2329447.000000
s hg38.chr5_KI270796v1_alt    123120 165 +    172708 TG-TTTTCCTAGAAATGAATTATTTATGCTATTCAATAA-GTTCTTACAATGATGAAATATAC-------------------TCCATCTTTATTAATGACTTTTAAATTAGAAATATGC-AATAAAAGTCACAGTGAGGATCAGATTTTAATTTCAATTTCCCTACTATGCCT-AATCTTCAAAGTCT
s panTro5.chr5             125226791 165 + 181907262 TA-TTTTCCTAGAAATGAATTATTTATGCTATTCGATAA-GTTCTTATAATGATGAAATATAC-------------------TCCATCTGTATTAATGACTTTTAAATTAGAAATATGC-AATAAAAGTCACAGTGAGGATCAGATTTTAATTTCAATTTCCCTACTATGCCT-AATCTTCAAAGTCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126563516 165 + 183735486 TA-TTTTCCTAGAAATGAATTATTTATGCTATTCGATAA-GTTCTTATAATGATGAAATATAC-------------------TCCATCTGTATTAATGACTTTTAAATTAGAAATATGC-AATAAAAGTCACAGTGAGGATCAGATTTTAATTTCAATTTCCCTACTATGCCT-AATCTTCAAAGTCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1755282 165 +   8933513 TA-TTTTCCTAGAAATGAATTGTTTATGCTATTCGATAA-GTTCTTATAATGATGAAATATAC-------------------TCCATCTTTATTAATGACTTTTAAATTAGAAATATGC-AATAAAAGTCACAGTGAGGATCAGATTTTAATTTCAATTTCCCTACTATGCCT-AATCTTCAAAGTCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139889574 165 + 163208435 TA-TTTTCTTAGAAATCAATTGTTTATGCTATTTTAAAA-GTTCTTATAATGATGAAATATAC-------------------TCCATCTTTATTAATGACTTTTAAATTAGAAATATGC-AAAAAAAGTCACAATGAGGATCAGATTTTAATTTGAATTTCCCTACTATGCCT-GATCTTCAAAGTCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122874285 165 + 180051392 TA-TTTTCCTAGAAATGAATTGTTTATGCTATTCGATAA-ATTCTTATAATGATGAAATATAC-------------------TCCATCTTTATTAATGGCTTTTAAATAAGAAATATGC-AATAAAAGTCACAATGAGAATCAGATTTTAATTTTAATTTGCCTACCACGCCT-AATCTTCAAAGTCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124297906 165 + 181584905 TA-TTTTCCTAGAAATGAATTGTTTATGCTATTCGATAA-ATTCTTATAATGATGAAATATAC-------------------TCCATCTTTATTAATGGCTTTTAAATAAGAAATATGC-AATAAAAGTCACAATGAGAATCAGATTTTAATTTTAATTTGCCTACCACGCCT-AATCTTCAAAGTCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16296271 165 +  18395747 TA-TTTTCCTAGAAATGAATTGTTTATGCTATTCGATAA-ATTCTTATAATGATGAAATATAC-------------------TCCATCTCTATTAATGGCTTTTAAATAAGAAATATGC-AATAAAAGTCACAATGAGAATCAGATTTTAATTTTAATTTGCCTACCACGCCT-AATCTTCAAAGTCT
i macNem1.NW_012012355v1   C 0 I 313
s cerAty1.NW_012002512v1     5309031 165 +  26952557 TA-TTTTCCTAGAAATGAATTTTTTATGCTATTCAATAC-ATTCTTATAATGATGAAATATAC-------------------TCCATCTTTATTAATGGCTTTTAAATAAGAAATATGC-AATAAAAGTCACAATGAGAATCAGATTTTAATTTTAATTTCCCTACTACGCCT-AATCTTCAAAGTCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28409701 165 +  82825804 GA-TTTTCCTAGAAATGAATTGTTTATGCTATTTGATAA-ATTCTTATAATGATGAAATATAC-------------------TCCATCTTTATTAATGGCTTTTAAATAAGAAATATGC-AATAAAAGTCATGATGAGAATCAGATTTTAATTTTAATTTGCCTACTACGCCT-AATCTTCAAAGTCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4079542 165 -   4237731 TA-TTTTCCTAGAAATGAATTGTTTATGCTATTCGATAA-ATTCTTATAATGATGAAATATAC-------------------TCCATCTTTATTAATGGTTTTTAAATAAGAAATATGC-AATAAAAGTCACAATGAGAATCAGATTTTAATTTTAATTTCCCTACTACGCCT-AATCTTCAAAGTCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      348086 165 -   1175262 TA-TTTTCCTAGAAATGAATTGTTTATATTATTCTATAA-ATTCTTATAATGATGAAATATAC-------------------TCCATCTTTATTAATGGCTTTTAAATAAGAAATATGC-AATAAAAGTCACAATGAGAATCAGATTTGAATTTTAATTTCCCCACTATGCCT-AATCTTCAAAGTCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123696317 160 - 204313951 TAATTTTTCTAGAAATGAATTGTTTATGGTATTTGGTGA-TTTCTTATGATGATGAAATACAC-------------------CCCATCTTTATTAATGACTTTTAAATTAGAAATATGC-AATAAAAGTCACAAGGAGAATCAGATTTTA------ATTTCCCTACTATGCCT-AATCTTCAAAGTCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55740372 164 -  71252344 TAGTTTTCCTAGAAATGAATTGTTTACGGTATTCAGTGA-TTTCTTATGATGACGAAATACAC-------------------CCCATCTTTATTAATGAC--TTAAATTAGAAATAAGC-AATAAAAATCACAATGAGAATCAGATTTTAATTTTTATTTCCCAACTATGCCT-AATCTTCAAAGTCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       43863 167 -   3089952 TAATTTTCCTAGAAATGAATTGTTTACAGTATTCAGTGA-TTTCTTATGATGATGAAATACAC-------------------CCCATCTTTATTAATGACTTTTAAATTAGAAATATGT-AATAAAAGTCACAATGAGAATCAGATTTTAATTTTAATTTCCCTACTAGGCCTAAATCTTCAAAGTCT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13244145 166 -  42888418 TAATTTTCCTAGAAATGAATTGTTTACGGTATTCAGTGA-TTTCTTATGATGATGAAATACAC-------------------CCCATCTTTATTAGTGACTTTTAAATTAGAAATATGC-AATAAAAGTCACAATAAGAATCAGATTTTAATTTTAATTTCCCTACTATGCCT-AATCTTCAAAGTCT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60582474 162 + 108143057 TAATTTTCCTAGAAGTGAATGGTTTATGGTACTCAATGA-GTTCTTATGGTAATGAAATATA---------------------TCATCTTCTTTAATGACTTTTAAATTAGAAATATGC-AATAAAAGTAGCAAGGAGAATCAGATTTTAGTTTTAATTCCCCTACTATGCCT-AATCTCC--AGTCT
i micMur3.chr12            C 0 I 13
s proCoq1.NW_012155062v1     3617959 164 +  11683526 TAATTTTCCTGGAAATGAATGGTTTATGGTACTCAATGA-GTTCTTATGATAATGAAATATA---------------------CCATCTTCTTTAATGACTTTTAAATTAGAAATATGC-AATAAAAGTAGCAATGAGAATCAGATTTTAGTTTTAATTTCCCTACTAAGCCT-AATCTCCAAAGTCT
i proCoq1.NW_012155062v1   C 0 I 13
s otoGar3.GL873679           3105296 155 +   4132165 TAATTTTCCTCGGAATGAATGGTCTATGGTACTCAGTGA-GTTTTTATGATAATGAAATATA---------------------CCACCTTCATTAATGACTTTTAAATTAGCAATATGC-AATAAAAGCAGCAATGAGAATCAGATTTTAGTTTTAATTTC---------CCT-AATTTCCAAAGTCT
i otoGar3.GL873679         C 0 I 13
s mm10.chr18                55538589 148 +  90702639 TG-TACCCTTTGAAAAAGAT--TTTATGTTACTCAGAAA-AGTGTTAA---GATAAAATTTA---------------------TCTTCTTTGCCAATAAATTTT-AGTTACAAATATGA-CAGACAGGTAGAAATGAGAATTCCACTTAAGTTTGTATAT-CGTACAAAGCTG-AAGCTC--------
i mm10.chr18               I 2005 C 0
s canFam3.chr11             14948525 164 +  74389097 TAATTTTCCTGGAAACAAATGATTTCTGTTACTCAATGACTTTTTTACAACGATGAACTATA---------------------CCTTCTCTATGAATGAC--TTAAACAAGAAAGAGGCAAATAAAAATAGCAATGAGGGTCAGATTTTAGTTTTCATCTCCCTAACATGACT-AATCTCCAAAATTT
i canFam3.chr11            C 0 I 13
s dasNov3.JH567306           2673283 172 +   3667625 TAATTTTCCTGGAAATGAGTGATTGATGTTAATCAACGA-ACTATTATTAAAATAATATGTACATTCTTTACTTTCTATTGTGCCCTCTTCAGTAATGACTTTTAAAC-AAAAATATAT-AATCAAAGTAGCAATGAGAATC------------TGATTTCCTTACCATGCCT-AATTTCCAAATTCT
i dasNov3.JH567306         C 0 C 0

a score=3738904.000000
s hg38.chr5_KI270796v1_alt    123285 256 +    172708 TAAATTT-------------TTACAGTCTAACTTTCCACCTACCCACATAACATGGCTCTATAAACTTAATGAACAGCCTGTTTTAACATGAGTTTTAAATTGTTTACATTTTAAACCCAGAATATTAGCATCTGAAGTGAGAGTTGATTTCACCGGACTCTGTCTTTGGTAAGGCCAT---TTCTTC---TC---TTATTTGAAGAGTATAGTTCTTTCAGTTTCGTCTCATCCTGAATACTTTCGGAAGAAAGTAAACAGGGCATAA--ATATGCAGA
s panTro5.chr5             125226956 256 + 181907262 TAAATTT-------------TTACAGTCTAACTTTCCACCTACCCACATAGCATGGCTCTATAAACTTAATGAACAGCCTGTTTTAACATGAGTTTTAAATTGTTTACATTTTAAACCCAGAATATTAGCATCTGAAGTGAGAGTTGATTTCACCGGACTCTGTCTTTGGTAAGGCCAT---TTCTTC---TC---TTATTTGAAGAGTATAGTTCTTTCAGTTTTGTCTCATCCTGAATACTTTCGGAAGAAAGTAAACAGGGCATAA--ATATGCAGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126563681 256 + 183735486 TAAATTT-------------TTACAGTCTAACTTTCCACCTACCCACATAGCATGGCTCTATAAACTTAATGAACAGCCTGTTTTAACATGAGTTTTAAATTGTTTACATTTTAAACCCAGAATATTAGCATCTGAAGTGAGAGTTGATTTCACCGGACTCTGTCTTTGGTAAGGCCAT---TTCTTC---TC---TTATTTGAAGAGTATAGTTCTTTCAGTTTTGTCTCATCCTGAATACTTTCGGAAGAAAGTAAACAGGGCATAA--ATATGCAGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1755447 256 +   8933513 TAAATTT-------------TTACAGTCTAACTTTCCAGCTACCCACATAGCATGGCTCTATAAACTTAATGAACAGCCTGTTTTAACATGAGTTTTAAATTGTTTACATTTTAAACCCAGAACATTAGCATCTGAGGTGAGAGTTGATTTCACCGGACTCTGTCTTTGGTAAGGCCAT---TTCTTC---TC---TTATTTGAAGAGTATAGTTCTTTCAGTTTTGTCTCATCCTGAATACTTTCGGAAGAAAGTAAACAGGGCATAA--ATATGCAGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139889739 256 + 163208435 TAAATTT-------------TTACAGTCTAAGTTTCCACCTACCCACATAGCATGGCTCTATAAACTTAAGGAACAGCCTGTTTTAACATGAGTTTTAAATTGTTTACATTTTAAACCCAGAATATTAGCATCTGAGGTGAGAGTTGATTTTACTGAACTCCGTCTTTGGTAAGGCCAT---TTCTTC---TC---TTATTTGAAGAGTATAGTTCTTTCAGTTTTGTCTCATCCTGAATACTTTTGGAAGAAAGTAAACAGGGCATAA--ATATGCAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122874450 256 + 180051392 TAAACTT-------------TTACAGTCTAACTTTCCACCTACCCACATAGCATGGCTCTATAAACTTAATTAACAGCCTGTTTTAACATGAGTTTTAAATTATTTACATTTTAAACCCAGAATTTTAGCATGTCAGATGAGAGTTGATTTCACCAGACTCTGTCTTTCGTAAGGCCAT---TTCTTC---TC---TTATTTGAAGAATATAGTTCTTTCAGTTTTGTCTCATCCTGAATACTTTCGGAAGAAAGTAAACAGGGCATAA--ATATGCAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124298071 256 + 181584905 TAAACTT-------------TTACAGTCTAACTTTCCACCTACCCACATAGCATGGCTCTATAAACTTAATTAACAGCCTGTTTTAACATGAGTTTTAAATTATTTACATTTTAAACCCAGAATTTTAGCATGTCAGATGAGAGTTGATTTCACCAGACTCTGTCTTTCGTAAGGCCAT---TTCTTC---TC---TTATTTGAAGAATATAGTTCTTTCAGTTTTGTCTCATCCTGAATACTTTCGGAAGAAAGTAAACAGGGCATAA--ATATGCAGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16296749 256 +  18395747 TAAACTT-------------TTACAGTCTAACTTTCCACCTACCCACATAGCATGGCTCTATAAACTTAATTAACAGCCTGTTTTAACATGAGTTTTAAATTATTTACATTTTAAACCCAGAATTTTAGCATGTCAGATGAGAGTTGATTTCACCAGACTCTGTCTTTCGTAAGGCCAT---TTCTTC---TC---TTATTTGAAGAATATAGTTCTTTCAGTTTTGTCTCATCCTGAATACTTTCGGAAGAAAGTAAACAGGGCATAA--ATATGCAGA
i macNem1.NW_012012355v1   I 313 C 0
s cerAty1.NW_012002512v1     5309196 256 +  26952557 TAAACTT-------------TTACAGTCTAACTTTCCACCTACCCACATAGCATGGCTCTATAAACTTAATTAACAGCCTGTTTTAACATGAGTTTTAAATTATTTACATTTTAATCTCAGAATTTTAGCATGTCAGATGAGAGTTGATTTCACCAGACTCTGTCTTTGGTAAGGCCAT---TTCTTC---TC---TTATTTGAAGAATATAGTTCTTTCAGTTTTGTCTCATCCTGAATACTTTCGGAAGAAAGTAAACAGGGCATAA--ATATGCAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28409866 256 +  82825804 CAAACTT-------------TTACAGTCTAACTTTCCACCTACCCACATAGCATGGCTCTATAAACTTAATTAACAGCCTGTTTTAACATGAGTTTTAAATTATTTACATTTTAAACCCAGAATTTTAGCATCTCAGATGAGAGCTGATTTCACCAGACTCTGTCTTTGGTAAGGCCAT---TTCTTC---TC---TTATTTGAAGAATATAGTTCTTTCAGTTTTGTCTCATCCTGAATACTTTTGGAAGAAAGTAAACAGGGCATAA--ATATGCAGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4079707 256 -   4237731 TAAACTT-------------TTATAGTCTAACTTTCCACCTACCCACATAGCATGGCTCTATAAACTTAATTAACAGCCTGTTTTAACATGAGTTTTAAATTATTTACATTTTAAACCCAGAATTTTGGTATGTCAGATGAGAGTTGATTTCACCAGACTCTGTCTTTGGTAAGGCCAT---TTCTTC---TC---TTATTTGAAGAATATAGTTCTTTCAGTTTTGTCTCATCCTGAATACTTTCGGAAGAAAGTAAACAGGGCATAA--ATATGCAGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      348251 256 -   1175262 TAAACTT-------------TTACAGTCTAACTTTCCACCTACCCACATAGCATGGCTCTATAAACTTAATTAACAGCCTGTTTTAACATGAGTTTTAAATTATTTACATTTTAAACCCAGAATTTTAGCATCTCAGATGAGAGTTGATTTCACCAGACTCTGTCTTTGGTAAGGCCAT---TTCTTC---TC---TTATTTGAAGAATATAGTTCTTTCAGTTTTGTCTCATCCTGAATACTTTCAGAAGAAAGTAAACAGGGCATAA--ATATGCAGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123696477 256 - 204313951 GAAATTT-------------TTATAGTCTAAGTTTCCATCTACCTACATAGCATGGCTCTATAAACTTAATGAACAGTCTGTTTTAATGTGAGTTTCAAATTGTTTACATTTTAAATTCAGAACATTAGCATCTGAGGTGAGAGTTGATTTTACCGGACTGTATCTTTGGTAAGGCCAC---TTCTTC---GT---TTACTTGAAGAGTACAGTTCTTTCAATTTTGTCTCATCCTTAATACTTTTGGAATAAAGTAAACAGGGAAGAA--ATATGCAGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55740536 255 -  71252344 TACATTT-------------TTATAGTCTAAGTTTCCATCTACCCACATAGCCTGGCTCTA-AAACTTAATGAACAGTCTGTTTTAACATGAGTTTTAAATTGTTTACATTTTAAATTCAGAACATTAGCATCTGAGGTGAGAGTTGATTTTACTGGACTCTGTCTTTGGTAAGGCCGT---TTCTTT---GT---TTACTTGAAGACTATAGTTCTTTCAATTTTGTCTCATCCTGAATACTTTTGGAAGAAAGTAAACAGGACAGAA--ATATGCAGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       44030 256 -   3089952 TAAATTT-------------TTATTGTCGAAGTTTCCATATACCTACATAGCATGGCTCTATAAACTTAATGAACAGTCTGTTTTAACATGAGTTTTAAATTGTTTACATTTTAAATTCAGAACATTAGCATCTGAGGTGAGAGTTGATTTCACTGGACTCTGTCTTTGGTAAGGCCAT---TTGTTC---GT---TTACTTGAAGAGTACAGTTCTTTCAATTTTGTCTCATCCTGAATACTTTTGCAAGAAAGTAAACAGGGCAGAA--ATATGCAGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13244311 256 -  42888418 TAAATTT-------------TTATAGTCTAAGTTTCCATCTACCCACATAGCATGTCTCTATAAACTTAATGAACAGTCTGTTTTAACATGAGTTTTAAATTGTTTACATTTTAAGTTCAGAACATTAGCATCTGAGGTGAGAGTTGATTTCACTGGACTCTGTCTTTGGTAAGGCCAT---TTCTTC---GT---TTACTTGAAGAGTACAGTTCTTTCAATTTTGTCTCATCCTGAATACTTTTGGAAGAAAGTAAACAGGGCAGAA--ATATGCTGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60582649 252 + 108143057 AAAATTC-------------TCACAGTCTGACTTTTCACATACTGACATAGCATGGCTCTATAAATTTAATGAACAGCTTGTTTTAGCATGAGTTTTTAATTGTTCACATTTTAAACCCAGAACATTCACACCTGAGGTGAGAATTGATTTCACTTAGCTCTG----TGGCAGGGCCAT---TTCTTC---TA---TTACTTGAGGAGTGCAGTTACTTCAGCTTTGTCTTATTCTGAATAAATCTAGGAGAAAGTTAACAGGGCATAA--ATCTACAGA
i micMur3.chr12            I 13 C 0
s proCoq1.NW_012155062v1     3618136 252 +  11683526 AAAATTC-------------TCACAGTCTGACTTTTCACCTACTGACATAGCAGGGCTCTATAAATTTAATGAACAGTCTGTTTTAGCATGAGTTTTTAATTGTTCACATTTTAAACCCAGAGCATTCACACCTGAGGTGAGAATTGATTTCACTTAGCTCTG----TGGcaaggccat---ttcttc---ta---ttacttcaagagtgcagttgcttcagctttgtcttatcctgaataaatctaggagaaagTTAACAGGGCATAA--ATATACAGA
i proCoq1.NW_012155062v1   I 13 C 0
s otoGar3.GL873679           3105464 255 +   4132165 AAAATTT-------------TCATAGTCTGACTTTCCATCTACTGACATAGCACGGCTCTATAAATTTAATGAACAGCCTGTTTTAGCATGAGTTTTTAATTGTTCACATTTTAAACCCAGAACATTCACACCTGAAGTGAGAATCAATTTCACTTAGCTCTGTCTTTGGCAAGGCCAT---TTTTTC---TA---TTACGTGAAGAATGTGCTTCCTTCAGCTTTGTCTTATCCTG-GTAAGTCCAGGAGAAAGTTAACAGGGCATAA--AAATGTAGA
i otoGar3.GL873679         I 13 C 0
s mm10.chr18                55538737 210 +  90702639 ---ATTC-------------GTGTGGCCTCACTCTCCACTGGCTAACCTAGTTAGGCTTGCTAAACTTGGGCAACAGCATACTTTACTGTAAATTT-------------------------ATTGTTAGCATCTGAGGGAAGTGAAAATTT-------CCTTGTCTCTGA------CAT---TTCTTCTCTTC---TTGCTGGAAGGGTTCAAACCCTT----------TCTTTAGAAGTGATTCTAGGAGCAAGTTAATGCTGCAAAATTACATATAAG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14948702 210 +  74389097 AAAATTC-------------TCACAGCCTAACTTTCCACCTACCAAAACAGTATGGCTCTCTAA-------------CCTGTTTTAGGAAGACTTTTTAATTACT----TCTTAAACCCAGAACATT------TGAGGCAAGAATTGATTTCACTTGGCTAT----TTGGCAAGGCCATCTCTTTTTC---TC---TTACTTCAAA--------------------GTCTGATCCTGGATAACACTAGAAGGAAGTTAAC--GGAATAA--ATACACAGA
i canFam3.chr11            I 13 C 0
s dasNov3.JH567306           2673455 265 +   3667625 TAAATTTGTTGTTGATCTTCTTACAGCCTAACTTTCAAGCTACCAAAATAGCACGGCCTTCTGAACTTAAAAAGCAGCTTTTTTAAACAAGAGTTTTTAAT---TTAATTTTTCAACCCGAAACATTCACATATGAGGGGAGAGTTGATTTCACTTGAC--TGTTTTTGACAAGGCACT---CTCTTT---TCATGTCAGTTAAGCAGTACAGTTTCTTTAGCTTGATCTCATTCTGAAAAATTCTAGGCGAAAGATGAT--GGCATAA--CTACGTAGA
i dasNov3.JH567306         C 0 I 272

a score=4824273.000000
s hg38.chr5_KI270796v1_alt    123541 341 +    172708 GATAAGTC---ATGTTTACCTTGTTCTT-ACCCTGCACAGATCACTGGTTTTACTAG-TTACAAAAAACTACTTGTATTATATGAATAGGGATACTACTTTTTCAACATAATTTTTGAGA--CTGCTATACAACAGGGCACTTTAAAGA------------ATAC---CGTTGTGTGCAATGAT------AGCTATTGGCATTGATAAGACTCTCCAGAAAGTCTGAAATAACCATCTTAATTGTTGATGTATAAAGA--GAAAGAGAAGAATCTTTCCATGTGGCATCAGCTCAAAGGAGC---ACAGAGCCAGATGGAAATATTTCTATCATAAGATAGGCATTT-CACCATTTAGGAAGGCTGAAGAAA----AGG
s panTro5.chr5             125227212 341 + 181907262 GATAAGTC---ATGTTTACCTTGTTCTT-ACCCTGCACAGATCACTGGTTTTACTAG-TTACAAGAAACTACTTGTATTATATGAATAGGGATACTACTTTTTCAACATAATTTTTGAGA--CTGCTATACAACAGGGCACTTTAAAGA------------ATAC---CGTTGTGTGCAATGAT------AGCTATTGGCATTGATAAGACTCTCCAGAAAGTCTGAAATAACCATCTTAATTGTTGATGTATAAAGA--GAAAGAGAAGAATCTTTCCATGTGGCATCAGCTCAAAGGAGC---ACAGAGCCAGATGGAAATACTTCTATCATAAGATAGGCATTT-CACCATTTAGGAAGGCTGAAGAAA----AGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126563937 341 + 183735486 GATAAGTC---ATGTTTACCTTGTTCTT-ACCCTGCACAGATCACTGGTTTTACTAG-TTACAAGAAACTACTTGTATTATATGAATAGGGATACTACTTTTTCAACATAATTTTTGAGA--CTGCTATACAACAGGGCACTTTAAAGA------------ATAC---CGTTGTGTGCAATGAT------AGCTATTGGCATTGATAAGACTCTCCAGAAAGTCTGAAATAACCATCTTAATTGTTGATGTATAAAGA--GAAAGAGAAGAATCTTTCCATGTGGCATCAGCTCAAAGGAGC---ACAGAGCCAGATGGAAATACTTCTATCATAAGATAGGCATTT-CACCATTTAGGAAGGCTGAAGAAA----AGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1755703 341 +   8933513 GATAAGTC---ATGTTTACCTTGTTCTT-ACCCTGCACAGATCACTGGTTTTACTAG-TTACAAAAAACTATTTGTATTATATGAATAAGGATACTACTTTTTCAACATAATTTTTGAGA--CTGCTATACAACAGGGCACTTTAAAGA------------ATAC---CGTTGTGTGCAATGAT------AGCTATTGGCATTGATAAGGCTCTCCAGAAAGTCTGAAATAACCATCTTAATTGTTGATGTATAAAGA--GAAAGAGAAGAATCTTTCCATGTGGCATCAGCTCAAAGGAGC---ACAGAGCCAGATGGAAATATTTCTATCATAAGATAGGCATTT-CACCATTTAGGAAGGCTGAAGAAA----AGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139889995 341 + 163208435 GATAAGTC---ATGTTTACCTTGTTCTT-ACCCTGCACAGATCACTGGTTTTACTAG-TTACAAAAAACTATTTGTATTATATGAATAAGGATACTGCTTTTTCAACATAATTTTTGAGA--CTGCTATACAACAGGACACTTTAAAGA------------ATAC---CATTGTGTGCAATGAT------AGCTATTGGCATTGATGAGACTCTCCAGAAAGTCTGAATTAACCATCTTAATTGTTGATGTATAAAGA--GAAAGAGAAGAATCTTTCCATGTGGCATCAGCTCAAAGGAGC---ACGGAGCCAGATGGAAATATTTCTGTCATAAGATAGGCATTT-CACCATTTAGGAAGGTCGAAGAAA----ACG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122874706 342 + 180051392 GATAAGTC---ATGTTTACCTTGTTCTTGACCCTGCACAGATCACTGGTTTTACTAG-TTACAAAAAACTATTCGTATTATATGAATAAGGATACTACTTTTTCAACATAAATTTTGAGA--CTGCTATACAACAGGGCACTTTAAAGA------------ATAC---CATTGTGTGCAATGAT------TGCTATTGGCATTGATAAGACTCTCCAGAAAGTCTGAATTAACCATCTTAATTGTTGATGTATAAAGA--GAAAGAGAAGCGACTTTCCATGTGGCATCTTTTCAAAGGAGT---ACAGAGCTAGATGGAAATATTATTATCATAAGATAGGCATTT-CACCATTTAGGAAGGTCAAAGAAA----AGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124298327 342 + 181584905 GATAAGTC---ATGTTTACCTTGTTCTTGACCCTGCACAGATCACTGGTTTTACTAG-TTACAAAAAACTATTCGTATTATATGAATAAGGATACTACTTTTTCAACATAATTTTTGAGA--CTGCTATACAACAGGGCACTTTAAAGA------------ATAC---CATTGTGTGCAATGAT------TGCTATTGGCATTGATAAGACTCTCCAGAAAGTCTGAATTAACCATCTTAATTGTTGATGTATAAAGA--GAAAGAGAAGCGTCTTTCCATGTGGCATCTTTTCAAAGGAGT---ACAGAGCTAGATGGAAATATTATTATCATAAGATAGGCATTT-CACCATTTAGGAAGGTCAAAGAAA----AGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16297005 342 +  18395747 GATAAGTC---ATGTTTACCTTGTTCTTGACCCTGCACAGATCACTGGTTTTACTAG-TTACAAAAAACTATTCGTATTATATGAATAAGGATACTACTTTTTCAACATAATTTTTGAGA--CTGCTATACAACAGGGCACTTTAAAGA------------ATAC---CATTGTGTGCAATGAT------TGCTATTGGCATTGATAAGACTCTCCAGAAAGTCTGAATTAACCATCTTAATTGTTGATGTATAAAGA--GAAAGAGAAGCGTCTTTCCATGTGGCATCTTTTCAAAGGAGT---ACAGAGCCAGATGGAAATATTATTATCATAAGATAGGCATTT-CACCATTTAGGAAGGTCAAAGAAA----AGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5309452 342 +  26952557 GATAAGTC---ATGTTTACTTTGTTCTTGACCCTGCACAGATCACTGGTTTTACTAG-TTACAAAAAACTATTTGTATTATATGAATAAGGATACTACTTTTTCAACATAATTTTTGAGA--CTGCTATACAACAGGGCACTTTAAAGA------------ATAC---CATTGTGTGCAATGAT------TGCTATTGGCATTGATAAGACTCTCCAGAAAGTCTGAATTAACCATCTTAATTGTTGATGTATAAAGA--GAAAGATAAGCGTCTTTCCATGTGGCATCTTTTCAAAGGAGT---ACAGAGCCAGATGGAAATATTATTATCATAAGATAGGCATTT-CACCATTTAGGAAGGTCAAAGAAA----AGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28410122 342 +  82825804 GATTAGTC---ATGTTTACCTTGTTCTTGACCCTGCACAGATCACTGGTTTTACTAG-TTACAAAAAACTATTTGTATTATATGAATAAGGATACTACTTTTTCAACATAATTTTTGAGA--CTGCTATACGACAGGGCACTTTAAAGA------------ATAC---CATTGTGTGCAATGAT------TGCTATTGGCATTGATAAGACTCTCCAGAAAGTCTGAATTAACCGTCTTAATTGTTGATGTATAAAGA--AAAAGAGAAGCGTCTTTCCATGTGGCATCTTTTCAAAGGAGT---ACAGAGCCAGATGGAAATATTATTATCATAAGATAGGCATTT-CACCATTTAGGAAGGTCAAAGAAA----AAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4079963 342 -   4237731 GATAAGTC---ATGTTTACTTTGTTCTTGACCCCGCACAGATCACTGGTTTTACTAG-TTACAAAAAACTATTTGTATTATATGAATAAGGATACTACTTTTTCAACATAATTTTTGAGA--CTGCTATACAACAGGGCACTTTAAAGA------------ATAC---CATTGTGTGCAATGAT------TGCTATTGGCATTGATAAGACTCTCCAGAATGTCTGAATTAACCATCTTAATTGTTGATGTATAAAGA--GAAAGAGAAGCGTCTTTCCATGTGGCATCTTTTCAAAGGAGT---ACAGAGCCAGATGGAAATATTATTATCATAAGATAGGCATTT-CACCATTTAGGAAGGTCAAAGAAA----AGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      348507 342 -   1175262 GATAAGTC---ATGTTTACCTTGTTCTTGACCCTGCACAGATAACTGGTTTTACTAG-TTACAAAAAACTATTTGTATTATATGAATAAGGATACTACTTTTTCAACATAATTTTTGAGA--CTGCTATACAACAGGGCACTTTAAGGA------------ATAC---CATTGTGTGCAATGAT------TGCTATTGGCATTGATAAGATTCTCCGGAAAGTCTGAATTAACCATCTTAATTGTTGATGTATAAAGA--GAAAGAGAAGCGTCTTTCCATGTGGCATCTTTTCAAAGGAGT---ACAGAGCCAGATGGAAATATTATTATCATAAGATAGGCATTT-CACCATTTAGGAAGGTCGAAGAAA----AGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123696733 293 - 204313951 GATAAGTC---ATGTTTACCTTGTTCTTGACACTGCACAGATCACTGGTTTTACTAG-TTACAAAAAACTATTTGTGTTATATGAATAAGGATACCGC-TTTTCAACATAATTTTTTAGA--CTGCTATATGACAGGGCCCTTTGAAAA------------ATAC---CATTGTGTGTAATGATAGGGCAAGCTATTGGGGCTGATAATACTCTCCAGAAAGTCTGAATTAACCATCTTAATTGTTGATGTATACAGGCCGCAAGCGAAGAAT-----------------------------------------------------------ACAAGATAGGCATTT-CACCATTTAGTAAGGTCAAAGAAA----AGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55740791 350 -  71252344 GATAAGTC---ATGTTTACCTTGTTCTTGACCCTGCACAGATTACTGGTAGTACTAG-TTACAAAAAACTATTTGTGTTATATAAATAAGGATACCAC-TTTTCAACATAATTTTTTAGA--CTGCTATATGGCAGGGCCCTTTAAAAC------------ATACCATCATTGTGTGTAATGATAGGGCAAGCTATTGGGGCTGATAAAACCCTCCAGAAAGTCTGAAGTAACCATCTTAATTGTTGATGTATACAGA--GCAAGAGAAGAATCTTTCCATATGGCATCAGTTCAGAGGAGT---ACAAAGCCAGATAGAAATACTACTATCATAAGATAGGCATTT-CACCATTTAGTAAGGTCAAAGAAA----AGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       44286 347 -   3089952 GATAAGTC---ATGTTTACCTTGTTCTTGACCCTGCACAGATCACTGGTTTTACTAG-TTACAAAAAACTATTTGTGTTATATGAATAAGGATACCAC-TTTTCAACATAATTTTTTAGA--CTGATATATGACAGGGCCTTTTAAAAT------------ATAC---CATTGTGTGTAATGATAGGGCAAGCTATTGGGGCTGATAAAACTCTCCAGAAAGTCTGAAGTAATCATCTTAATTGTTGATGTATACAGA--GCCAGAGAAGAATCTTTCCATATGGCATCAGTTCAAAGGAGT---ACAAAGCCAGATAGAAATACTACTGTCGTAAGATAGGCATTT-CACCATTTAGTAAGGTCAAAGAAA----AGG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13244567 347 -  42888418 GATAAGTC---ATGTTTACCTTGTTCTTGACCCTGCACAGATCAGTGGTTTTACTAG-TTACAAAAAACTATTTGTCTTATATGAATAAGGATACCAC-TTTTCAACATAATTTTTTAGA--CTGCTATATGACAGGGCCCTTTAAAAA------------ATAC---CATTGTGTGTAATGATAGGGCAAGCTATTGGGGCTGATAAAACTCTCCAGAAAGTCTGAAGTAACCATCTTAATTGTTGATGTATACAGA--GCAAGAGAAGAATCTTTCCATATGGCATCAGTTCAAAGGATT---ACAAAGCCAGACAGAAATACTACTGTCATAAGATAGGCATTT-CACCATTTAGTAAGGTCAAAGAAA----AGG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60582901 360 + 108143057 GATGAGGC---ATGTTTACCTTGTTCTCGACCCTGCACAAATCACTGGTTTTAGTAG-TTACAAAACATTATTTATATTATATAAATAAGGATACTACTTTTTCAACATAATTTTGAAGA--CTTTTATACAACAGGGCGCTTGAAAAA-TGCAGCAATTGCTGC---CATTGTGTGCAATGACAGGGCAAACTATTGGCATTGATGAAACTCTCCAGAAAGCCTTAATTAACCATCTTAATTGTTGATGAAAACAGA--GAAAGAGAAAAGTCTTTCCATGTTGCATCAGATCAAAGGAAT---ATAGAGCCAGATGGAAATATTGCTATCACAAGACAGGCATTTTTACCATGTAAGAAGGTTGCAGAAA----AGA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3618388 360 +  11683526 GATGAGGT---ATGTTTACCTTGTTCTTGACCCTGCACAAATCACTGGTTTTAGTAG-TTACAAAATGCTATTTATATTATATAAACAAGGATACTACTTTTTCAACATAATTTTGAGGA--CTTTGATACAACAGGGCGCTTAAAAAA-TGCAGCAATTGCTAC---CATTGTGTGCAATGACAGGGCAAACTATTGGCATTGATAAAACTCTCCAGAAAGCCTGGCTTAACCATCTTAATTGTTGATGAATACGGA--GAAAGAGAAAAATCTTTCCATGTGGCATGAGATCAAAGGAATACAACAGAGCCAGATGGAAATATTGCTATCATAAGACAGGTATTTTT---ATGTAGGGAGGTTGCAGAAA----AGA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3105719 364 +   4132165 GGAGAGGCTTTCTGGTGACCTTGTTCTAGACCCTGCACAGATCACTGGTTTCAGTAGTTTACAAAACACTATTTGTATTATATAAACAAGGATACTAC-TTTTCAACATAATTTTAAAGATCTTTTTACACAAC-GAGCCTTTAAAAAA-TGCAACAATTCCTGC---CATTGTGTACAATCACAGGGCAAACTAATGACATTGATAAAACTCTTCAGAAAGCCTGCATCAACCCTCTTGATTGTTGATGAAGACAGA--GAAACAGAAAAATCTTACCACATGGCATCAGATCAAAGGTGT---ACAAGGCCAAATAGAAATATTGTGAGCACAAGATAGGCATTTCCATGGTTTAGAAAGGTTGCAGCAA----AGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55538947 359 +  90702639 AATGATGC---ATATTTACCTTCTTCTGGTCTCTGCATGTATCACTGACATTGAAAG-TT-CAAGATCCTGTTTGTATTACAACAA-ATGGATGTCAC-TTTTTAATAT-GCTTTTAAGA--TTTTTATACAATGGTGCACTTTAAAAA-CACAGCAATTGCTGT---CACT-TGTGCAATGTCAGGACAAGCTTTTGGCATTGTTAAAGCTCACCAAAAAGGCTGAATTAACCATCTTGACTATTGAGAAATTTAGA--GAAAGAGAAAAATCTTTCCATGTGGTGACAGTTCAAAGGAAC---ACAGAGACAGATGGATAGAGTGTTATCACTAGACAGACATTCCCACCATTCAGGAAGCTCAAAGAAAAGAGAGA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14948912 350 +  74389097 GATG---C---ACGTTTGCCTTGTTCTTGGTCCTGCATAAAACACAGGTTTTAGTAG-TTCCAAAACACTATTTGTATTATATAAA----GACGCTACTTTTTCAACACGATTCTGAAGG--CTTTGATACAATAGTACACTTTAAAAAATATAGCAATCGCTGT---CATGGTGTGCAACTACAGGAA-AGCTACTGGCATTGATAAAACTCTCCAGAAAGCCTGACTTAACCTTCTTGACTGTTGAGGAATACAGA--GAAAAAGAAAACTCTTTCCATGTGGCCTCAGTTCAAAGGAGC---ACAGAGCCAGATGGAAATATTGCTATCAGAAGACAGGCATTTGCAACATA-AGGAAGGTC--AGAAA----AGA
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2673720 272 +   3667625 I

a score=9569523.000000
s hg38.chr5_KI270796v1_alt    123882 620 +    172708 CAACAAATCAGCCA-CCAACAGCAAG------------------------------------------------------------ACAATTTTTCAAAAGTAGTTAGTCCTCAAGAATAACAATATTGAGCAAATTGTCTACAAAACTCGAGCTCTTCTCTGGTAACTCTATGGCTGAGAACAATATCTATGAACTGTCTCTGGT-GCACTAGAGA----------CTTCTTTAAAGTATGGCAACCTTAACAATAAAGGGTGTTATTGCA--TCATTATTGCTGCAGTGCAGCTAATGAGAGGAAGGTAAATGTTGCTCCTGAAAGTGTTAATTCTGCATCTCTCCTTGCACCTGATTAACACCAAGAAGGCCTTAGGCAAA-AGGGAAAGTAGGACTCTTGGGATTAAGTAATCTCATCTCTGACTCC-AAGTAAACCCAAAGATTACCTGTCAACCAGATAG-AAGAAAGTAGCAGTTAGGATTTGCAATCTGATATTTAAGCCCTTCTGTGGGGAAATAGATGTAAAGGTAGAAGAAAAGGAATTTGCTTCAGTTAAGCTTCATA-TTTCTAGAGGGCTGCTAAATCAAATTCACAACCTCTAAG-------------ACATCTAACAAGTA-------TTCGCTTTTGCATTTAGTAAAA-TTCAC-A-CTTGGACTAAGAAAAAATAACATAAATTTTGAATTA---AACAATATCT
s panTro5.chr5             125227553 620 + 181907262 CAACAAATCAGCCA-CCAACAGCAAG------------------------------------------------------------ACAATTTTTCAAAAGTAGTTAGTCCTCAAGAATAACAATATTGAGCAAATTGTCTACAAAACTCGAGCTCTTCTCTGGTAACTCTATGGCTGAGAACAATATCTATGAACTGTCTCTGGT-GCACTAGAGA----------CTTCTTTAAAGTATGGCAACCTTAACAATAAAGGGTGTTATTGCA--TCATTATTGCTGCAGTGCAGCTAATGAGAGGAAGGTAAATGTTGCTCCTGAAAGTGTTAATTCTGCATCTCTCCTTGCACCTAATTAACACCAAGAAGGCCTTAGGCAAA-AGGGAAAATAGGACTCTTGGGATTAAGTAATCTCATCTCTGACTCC-AAGTAAACCCAAAGATTACCTGTCAACCAGATAG-AAGAAAGTAGCAGTTAGGATTTGCAATCTGATATTTAAGCCCTTCTGTGGGGAAATAGATGTAAAGGTAGAAGAAAAGGAATTTGCTTCAGTTAAGCTTCATA-TTTCTAGAGGGCTGTTAAATCAAATTCACAACCTCTAAG-------------ACATCTAACAAGTA-------TTCGCTTTTGCATTTAGTAAAA-TTCAC-A-CTTGGACTAAGAAAAAATAACATAAATTTTGAATTA---AACAATATCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126564278 620 + 183735486 CAACAAATCAGCCA-CCAACAGCAAG------------------------------------------------------------ACAATTTTTCAAAAGTAGTTAGTCCTCAAGAATAACAATATTGAGCAAATTGTCTACAAAACTCGAGCTCTTCTCTGGTAACTCTATGGCTGAGAACAATATCTATGAACTGTCTCTGGT-GCACTAGAGA----------CTTCTTTAAAGTATGGCAACCTTAACAATAAAGGGTGTTATTGCA--TCATTATTGCTGCAGTGCAGCTAATGAGAGGAAGGTAAATGTTGCTCCTGAAAGTGTTAATTCTGCATCTCTCCTTGCACCTAATTAACACCAAGAAGGCCTTAGGCAAA-AGGGAAAATAGGACTCTTGGGATTAAGTAATCTCATCTCTGACTCC-AAGTAAACCCAAAGATTACCTGTCAACCAGATAG-AAGAAAGTAGCACTTAGGATTTGCAATCTGATATTTAAGCCCTTCTGTGGGGAAATAGATGTAAAGGTAGAAGAAAAGGAATTTGCTTCAGTTAAGCTTCATA-TTTCTAGAGGGCTGTTAAATCAAATTCACAACCTCTAAG-------------ACATCTAACAAGTA-------TTCGCTTTTGCATTTAGTAAAA-TTCAC-A-CTTGGACTAAGAAAAAATAACATAAATTTTGAATTA---AACAATATCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1756044 620 +   8933513 CAACAAATCAGCCA-CCAACAGCAAG------------------------------------------------------------ACAATTTTTCAAAAGTAGTTAGTCCTCGAGATTAACAATATTGAGCAAATTGTCTACAAAACTCGAGCTCTTCTCTGGTAATTCTATGGCTGAGAACAATATCTATGAACTGTCTCTGGT-GCACTAGAGA----------CTTCTTTAAAGTATGGCAACCTTAACAATAAAGGGTGTTATTACA--TCATTATTGCTGCAGTGCAGCTAATGAGAGGAAGGTAAATGTTGCTCCTGAAAGTGTTAATTCTGCATCCCTCCTTGCACCTAATTAACACCAAGAAGGCCTTAGGCAAA-AGGGAAAATAGGACTCTTGGGATTAAGTAATCTCATCTCTGACTCC-AAGTAAACCCAAAGATTACCTGTCAACCAGATAG-AAGAAAGTAGCAGTTAGGATTTGCAATCTGATATTTAAGCCCTTCTGTGGGGAAATAGATGTAAAGGTAGAAGAAAAGGAATTTACTTCAGTTAAGCTTCATA-TTTCTAGAGGGCTGTTAAATCAAATTCACAACCTCTAAG-------------ACATCTAACAAGTA-------TTCGCTTTTGCATTTAGTAAAA-TTCAC-A-CTTGGATTAAGAAAAAATAACATAAATTTTGAATTA---AACAATATCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139890336 620 + 163208435 CAACACATCAGCCA-CCAGCAGCAAG------------------------------------------------------------ACAATTTTTCAAAAGTAGTTAGTCCTCAAGAATAACAATATTGAGCAAATTGCCTACAAAACTCGAGCTCTTCTATGGTAATTCTATGGCTGAGAACAATATCTATGAACTGCCTCTGGT-GCACTAGAGA----------CTTCTTTAAAGTATGGCAACCTTAACAATAAAGGGTGTTATTACA--TCATTATTGCTGCAGTACAGCTAATGAGAGGAAGGTAAATGTTGCTCCTGAAAGTGTTAATTCTGCATCTCTCCTTGCACGTAATTAACACCAAGAAGGCCTTAGGCAAA-AGGGAAAATAGGACTCTTGGGATTGAGTAATCTCATCTCTGACTCC-AAGTAAACTCAAAGATTACCTGTCAACCAGATAG-AAGAAAGTAGCAGTTAGGATTTGCAATCTGATATTTAAGCTCTTCTGTGGGGAAATGGATGTAAAGGTAGAAGAAAAGGAATTTGCTTCAGTTCAGCTTCATA-TTTCTAGAGGGCTGTTAAATCAAATTCACAACCTCTAAG-------------ACATCTAACAAGTA-------TTTGCTTTTGCATTTAGTAAAATTTCACAA-TTTGGACTA--AAAAAATCACATAAATTTTGAATTA---AACAATATCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122875048 611 + 180051392 CAACAAATCAACCA-CCAACAGCAAG------------------------------------------------------------ACAATTTTTCAATAGTAGTTAGTCTTCAAGAATAATAATATTGAGCAAATTGTCTACAAAACTCGAGCTCTTCTCTGGTAACTCTATGGCTGAGAACAGTGTCTATGAACTGTGTCTGGG-GCACTAGAGA----------CTGCTTTAAAGTATGGCAACCTTAACAGTAAAGGGTGTTATTACA--TCATTATTGCTGCAGTGCAGCTAATGAGAGGAAGGTAAATGTTGCTCCTGAAAGTGTTAATTCTGCATCTCTCCTTGCACctaattaacaccaggaaggccttaggcaaa-agggaaaataggacccttgggattaagtaatctcatctctgactcc-aAGT-----------CTACCTGTCAACCAGATAG-AGGAAAGTAGCAGTTAGGATTTGCAATCTCATTTTTAAGCCCTTCTGTGGGGAAATAGATGTAAAAGTAGAATAACAGGAATTTGCTTCAGTTAAGCTTCATA-TTTCTAGAGAACTGCTAAATCAAATTCACAACCTCTAAG-------------ACATCTAACAAGTA-------TTTGCTTTTGCATTTAATAAAATTTCAC-ATTTTGGACTAAGAAAAAATAACATAAATTTTGAATTA---AACAATATCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124298669 611 + 181584905 CAACAAATCAACCA-CCAACAGCAAG------------------------------------------------------------ACAATTTTTCAATAGTAGTTAGTCTTCAAGAATAATAATATTGAGCAAATTGTCTACAAAACTCGAGCTCTTCTCTGGTAACTCTATGGCTGAGAACAGTGTCTATGAACTGTGTCTGGG-GCACTAGAGA----------CTGCTTTAAAGTATGGCAACCTTAACAGTAAAGGGTGTTATTACA--TCATTATTGCTGCAGTGCAGCTAATGAGAGGAAGGTAAATGTTGCTCCTGAAAGTGTTAATTCTGCATCTCTCCTTGCACCTAATTAACACCAGGAAGGCCTTAGGCAAA-AGGGAAAATAGGACCCTTGGGATTAAGTAATCTCATCTCTGACTCC-AAGT-----------CTACCTGTCAACCAGATAG-AGGAAAGTAGCAGTTAGGATTTGCAATCTCATTTTTAAGCCCTTCTGTGGGGAAATAGATGTAAAAGTAGAATAACAGGAATTTGCTTCAGTTAAGCTTCATA-TTTCTAGAGAACTGCTAAATCAAATTCACAACCTCTAAG-------------ACATCTAACAAGTA-------TTTGCTTTTGCATTTAGTAAAATTTCAC-ATTTTGGACTAAGAAAAAATAACATAAATTTTGAATTA---AACAATATCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16297347 611 +  18395747 CAACAAATCAACCA-CCAACAGCAAG------------------------------------------------------------ACAATTTTTCAATAGTAGTTAGTCTTCAAGAATAATAATATTGAGCAAATTGTCTACAAAACTCGAGCTCTTCTCTGGTAACTCTATGGCTGAGAACAGTGTCTATGAACTGTGTCTGGG-GCACTAGAGA----------CTGCTTTAAAGTATGGCAACCTTAACAGTAAAGGGTGTTATTACA--TCATTATTGCTGCAGTGCAGCTAATGAGAGGAAGGTAAATGTTGCTCCTGAAAGTGTTAATTCTGCATCTCTCCTTGCACctaattaacaccaggaaggccttaggcaaa-agggaaaataggacccttgggattaagtaatctcatctctgactcc-aAGT-----------CTACCTGTCAACCAGATAG-AGGAAAGTAACAGTTAGGATTTGCAATCTCATTTTTAAGCCCTTCTGTGGGGAAATAGATGTAAAAGTAGAATAACAGGAATTTGCTTCAGTTAAGCTTCATA-TTTCTAGAGAACTGCTAAATCAAATTCACAACCTCTAAG-------------ACATCTAACAAGTA-------TTTGCTTTTGCATTTAGTAAAATTTCAC-ATTTTGGACTAAGAAAAAATAACATAAATTTTGAATTA---AACAATATCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5309794 611 +  26952557 CAACAAATCAACCA-CCAACAGCAAG------------------------------------------------------------ACAATTTTTCAATAGTAGTTAGTCTTCAAGAATAATAATATTGAGCAAATTGTCTACAAAACTCGAGCTCTTCTCTGGTAACTCTATGGCTGAGAACAGTGTCTATGAACTGTGTCTGGT-GCACTAGAGA----------CTGCTTTAAAGTATGGCAACCTTAACAGTAAAGGGTGTTATTACA--TCATTATTGCTGCAGTGCGGCTAATGAGAGGAAGGTAAATGTTGCTTCTGAAAGTGTTAATTCTGCATCTCTCCTTGCACctaattaacaccaggaaggccttaggcaaa-agggaaaataggacccttgggattaagtaatctcatctctgactcc-aAGT-----------CTACCTGTCAACCAGATAG-AGGAAAGTAGCAGTTAGGATTTGCAATCTGATTTTTAAGCCCTTCTGTGGGGAAATAGATGTAAAAGTAGAATAAAAAGAATTTGCTTCACTTAAGCTTCATA-TTTCTAGAGAACTGCTAAATCAAATTCACAACCTCTAAG-------------ACATCTAACAAGTA-------TTTGCTTTTGCATTTAGTAAAATTTCAC-ATTTTGGACTAAGAAAAAATAACATAAATTTTGAATTA---AACAATATCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28410464 611 +  82825804 CAACAAATCAACCA-CCAACAGCAAG------------------------------------------------------------ACAATTTTTCAATAGTAGTTAGTCTTCAAGAATAATAATATTGAGCAAATTGTCTACAAAACTCGAGCTCTTGTCTGGTAACTCTATGGCTGAGAACAGTGTCTATGAACTGTGTCTGGT-GCACTAGAGA----------CTGCTTTAAAGTATGGCAACCTTAACAGTAAAGGGTGTTATTACA--TCATTATTGCTGCAGTGCAGCTAATGAGAGGAAGGTAAATGTTGCTCCTGAAAGTGTTAATTCTGCATCTCTCCTTGCACCTAATTAACACCAGGAAGGCCTTAGGCAAA-AGGGAAAATAAGACCCTTGGGAATAAGTAATCTCATCTCTTACTCC-AAGT-----------CTACCTGTCAACCAGATAG-AGGAAAGTAGCAGTTAGGATTTGCAATCTGATTTTTAAGCCCTTCTGTGGGGAAATAGATGTAAAAGTAGAATAAAAGGAATTTGCTTCAGTTAAGCTTCATA-TTTCTAGAGAACTGCTAAATCAAATTCACAACCTCTAAG-------------ACATCTAACAAGTA-------TTTGCTTTTGCATTTAGTAAAATTTCAC-ATTTTGGACTAAGAAAAAATAACATAAATTTTGAATTA---AACAATATCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4080305 611 -   4237731 CAACAAATCAACCA-CCAACAGCAAG------------------------------------------------------------ACAATTTTTCAATAGTAGTTAGTCTTCAAGAATAATAATATTGAGCAAATTGTCTACAAAACTCGAGCTCTTCTCTGGTAACTCTATGGCTGAGAACAGTGTCTATGAACTGTGTCTGGT-GCACTGGAGA----------CTGCTTTAAAGTATGGCAACCTTAACAGTAAAGGGTGTTATTACA--TCATTATTGCTGCAGTGCAGCTAATGAGAGGAAGGTAAATGTTGCTTCTGAAAGTGTTAATTCTGCATCTCTCCTTGCACctaattaacaccaggaaggccttaggcaaa-agggaaaataggacccttgggattaagtaatctcatctctgactcc-aAGT-----------CTACCTGTCAACCAGATAG-AGGAAAGTAGCAGTTAGGATTTGCAATCTGATTTTTAAGCCCTTCTGTGGGGAAATAGATGTAAAAGTAGAATAAAAGGAATTTGCTTCAGTTAAGCTTCATA-TTTCTAGAGAACTGCTAAATCAAATTCACAATCTCTAAG-------------ACATCTAACAAGTA-------TTTGCTTTTGCATTTAGTAAAATTTCAC-ATTTTGGACTAAGAAAAAATAACATAAATTTTGAATTA---AACAATATCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      348849 611 -   1175262 CAAAAAATCAACCA-CCAACAGCAAG------------------------------------------------------------ACAATTTTTCAGTAGTAGTTAGTCTTCAAGAATAATAATATTGAGCAAATTGTCTACAAAACTCGAGCTCTTCTATGGTAACTCTGTGGCTGAGAACAGTGTCTATGAACTGTGTCTGGT-GCACTAGAGA----------CTGCTTTAAAGTATGGCAACTTTAACAGTAAAGGGTGTTATTACA--TCATTATTGCTGCAGTGCAGCTAATGAGAGGAAGGTAAATGTTGCTCCTGAAAGTGTTAATTCTGCATCTCTCCTTGCACCTAATTAACACCAGGAAGGCCTTAGGCAAA-AAGGAAAATAGGACCCTTGGGATTAAGTAATCTCATCTCTGACTCC-AAGT-----------CTACCTGTCAACCAGATAG-AGGAAAGTAGCAGTTAGGATTTGCAATCTGATTTTTAAGCCTTTCTGTGGAGAAATAGATGTAAAGGTAGAATAAAAGGAATTTGCTTCAGTTAAGCTTCATA-TTTCTAGAGGACTGCTAAATCAAATTCACAACCTCTAAG-------------ACATCTAACAAGTA-------TTTGCTTTTGCATTTAGTAAAATTTCAC-ATTTTGGACTAAGAAAAAATAACATAAATTTTGAATTA---AACAATATCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123697026 620 - 204313951 TAACCAATCAGCCA-CCAACAGCAAG------------------------------------------------------------ACAAATTTTCAAAAGTAGTTAGTCCCCAAGAATGATAACGTTGAGCAAATCGTCTTCAAAACTCAGGCTCTTCCCTGGTAACTCTATGGCTGAGAACAAAATCTATGAACTGTCTCT-GT-GCACTAGAGA----------CTGCTTTAAAATATGGCAACCTTAACAATGAAGGATGTTATTACA--TCATTTTTGCTGCAGTGCAGCTAATGAGAGGAAGGTAAATGTTGCTCCTGAAAGTGTTAATTCTGCATCTCTTCTTGCACCTAATTAACACCAGGAAGGCCTTAGGCAAA-AGGGAAAATAGGACTCTTGGGATTAAGTAATCTCGTCTCTGACTCC-AAAAAAACCTAAAGATTACCTGTCAAACAGATAG--AAAAAGTAGCAGTTAGGATTTGCAATCTGATTTTTAAGCCCTTCTGCGGGGAAATAGATCTAAAGGCAGAAGAAAAGGAATTTGTTTCAGTTAAGCTTTATA-TTTCTAGAGGGCTGTTAAATCAGATTCACAACCTCTAAG-------------ACATCTAACAAGTG-------TTTGCTTTTGCATTTAGTAAAATTTCAC-AATTTGGACTAAGGAAAAATAACACAAATTTTGAATTA---AACAATGTCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55741141 626 -  71252344 CAGCGAATCAGCCA-CCAACAGCAAG------------------------------------------------------------ACAAATTTTCAAAAGTAGTTAGTCCCCAAGAATAATAACATTGAGCAAATTGTCTTCAAAACTCGGGCTCTTCCCTGGTAACTCTATGGCTGAGAACAAAATCTATGAACTGTCTCTGGT-GCACTAGAGA----------CTGCTTTAAAATACGGCAACCTTAACAATGAAGGATGTTATTCCA--TCATTTTTGCTGCAGTGCAGCTAATGAGAGGAAGGTAAATGTTGCTTCTGAAAGCGTTAATTCTGCATCTCTCCTTGCACCTAATTAACACCAGGAAGGCCTTAGGCAAA-AGGGAAAATAGGACTCTTGGGATTAAGTAATCTCATCTCTGACTCC-AAATAAACCCAAAGATTACCTGTCAAACAGATAGAAAAAAAGTAGCAGTTAGGATTTGCAATCTGATTTTTAAGCCCTTCTGCGGGGAAATAGAAGTAAAGGCAGAAGAAAAGGAATTTGTTTCAGTTAAGCTTTATA-TTTCTAGAGGGCTGTTAAATCAGATTCACAACGTCTAAG-------------ACATCTAACAAGTA-------TTTGCTTTTGCATTTAGTAAAATTTCAC-AATTTGGACTAAGGAAAAATAACATAAATTTTGAATTAAACAACAATGACT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       44633 623 -   3089952 CAACCAATCAGCCACCCAACAGCAAG------------------------------------------------------------ACAAATTTTCAAAAGTAGTTAGTCCCCAAGAGTAATAACATTGAGCAAATTGTCTTCAAAACTCAGGCTCTTCCCTGGTAAATCTATGGCTGAGAACAAAATCTATGAACTGTCTCTGGT-GCACTAGAGA----------ATGCTTTAAAATATGGCATCCTTAGCAATGAAGGATGTTATTACA--TCATTTTTGCTGCAGTGCAGCTAATGAGAGGAAGGTAAATGTTGCCCCTGAAAGTGTTAATTCTGCATCTCCACTTGCACCTAATTAACACCAGGAAAGCCTTAGGCAAA-AGGGAAAATAGGACTCCTGGGATTAAGTAATCTCGTCTCTGACTCC-AAATAAACCCAAAGATTACCTGTCAAACAGATAG-AAAAAAGTAGCAGTTAGGATTTGCAATCTGATTTTTAAACCCTTCTTCGGGGAAATAGATGTAAAGGCAGAAGAAAAGGAATTTGTTTCAGTTAAGCTTTATA-TTTCTAGTGGGCTGTTAAATCAGATTCACAACCTCTAAG-------------ACATCTAGCAAGTA-------TTTGCTTTTGCATTTAGTAAAATTTCAC-AATTTGGACTAAGGAAAAATAACATGAATTTTGAATTA---AACAGTGCCT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13244914 622 -  42888418 CAACCAATCAGCCA-CCAACAGCAAG------------------------------------------------------------ACAAATTTGCAAAAGTAGTTAGTCCCTAAGAATAATAGCATTGAGCAAATTGTCTTCAAAACTCAGGCTCTTCCCTGGTAACTCTATGGCTGAGAACAAAATCTATGAACTGTCTCTGGT-GCACTAGAGA----------CTGCTTTAAAATATGGCAAACTTAACAATGAAGGATGTTATTACA--TCATTTTTGCTGCAGTGCAGCTAATGAGAGGAAGGTAAATGTTGCTCCTGAAAGTGTTAATTCTGCATCTCTCCTTGCACCTAATTAACACCAGGAAGGCCTTAGGCAAA-AGGGAAAATAGGACTCTTGGGATTAAGTAATCTCATCTCTGACTCC-AAATAAACCCAAAGATTACCTGTCAAACAGATAG-AAAAAAGTAGCAGTTAGGATTTGCAATCTGATTTTTAAGCCCTTCTGCAGGGAAATAGATGTAAAGGCAGAAGAAAAGGAATTTGTTTCAGTTAAGCTTTATA-TTTCTAGAGGGCTGTTAAATCAGATTCACAACGTCTAAG-------------ACATCTAGCAAGTA-------TTTGCTTTTGCATTTAGTAAAATTTCAC-AATTTGGACTAAGGAAAAATAATATAAATTTTGAATTA---AACAATGTCT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60583261 607 + 108143057 CAATAAACCGGCTA-CCAGTGGTGAG------------------------------------------------------------AAAA-TTTTCAAAAGTAGTTAGTCCCCAAGAATAATGATTCTGAACAAACTCTCAACAAAACTCAAGTTTTTCCC-GGTAGCTTTACGGCTGAGAATTAGATCTATGAACTCTCTCTGGC-ACGTTAGGAA----------TTCCTTTGAAATATGGCAACT-CAACAATGAAGGGTGTTATTACA--TCATTATTGCTGTAGTGCACTTAATGAGAGGAAGG-CCAAGTTGCTCCTG--------AATTCTTCCTCTCCCTTTACACCTAATTAACACAAGAAAGGCCTTAGGCAAA-AAGGAAAATAGGACTCTTGGGATTAAGTAATCTCATCACTGACTCC-AAGTAAACCCAAAGATTACC-ATCAACCAGATAG-AAGGCAGCTGCAATTAGAATTTGCTATTTGAGCTTGAAGTTCTTCTGTAGGGAAATAGATGTGAAGGTAG---AAAAGGAATTTGCTTCAATTAAGCTTTATA-TTTCTAGAGGGCTATTAAATCCAATTCACAGTCTCTGAG-------------AAATCTTGCAAGTA-------TTTGCTTTTTCATTTAGTAGAATCTCACTAATTTGGCCTAAGGAAAAAGAAGATAAATTTTGAGTTA---AACAATGTCT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3618748 602 +  11683526 CAACAAACCAGCTA-CCAACAGTAAG------------------------------------------------------------AAAA-TTTTCAAAAGTAGTTAATCCCCAAGAATAATGATATTGAGCAAACTCTCAATAAAAGTCAAGTTTTTCCCTGGTAGCTTTATGGCTGAGAATTAGATCTATGAACTCTCTCTGGT-GCACTAGGGA----------TTCCTTTGAAATATGGCAACC-CAGCAATGAAGGGTGTTATTACA--TCATTATTGCTGTAGTGCACTTAATGAGAGG-------AAGTTGCTCCTG--------AATTCTTCCTCTCTCCTTACACCTAATTAACACAAGGAAGGCCGCAGGCAAA-AAGGAAAATAGGACTCTTGAGATTAAGTAATCTCATCACTGACTGC-AAGTAAACCCAAAGATTACC-ATCAACCAGATAG-AAAGCAGTTGCAATTAGAATTTGCGATCTGAGCTTGAAGTTCTTCTGCAGGGAAATAGACATGAAGGTAG---AAAAGGAATTTGCTTCAATTAAGCTTCATA-TTTCTAGAGGGCTGTTAAATCCAATTCACAATCTCTGAG-------------AAATTTTACAAGTA-------TTTGCTTTTGCATTTAATAAAATCTCACTAATTTGACCTAAGGAAAAAGAAGAAAAATTTTGAATTA---AACAGTATCT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3106083 613 +   4132165 CAGCAACCC-GCTT-CCAACATTGAG------------------------------------------------------------ACAA-TTTTTAAA---AAATAGTTCCCAAGAATAATGCTATTGAGCAAA--CTCAACAAAATTCGTGTCCTTCT--GGTAGTTTTACGGCTGAGAATAAGATGTATGAACTCTTTTCGGT-GCACTTGGGA----------TTCCTTTAAAATACAGCAACC-GAACAATAAAAGGTGTCATTACA--TCCTTCTTGTAGCAGTGATCTTAATGAGAGGAAGGCCCGTGTTGCTCCTG--------AATTCTTCCTCCCACTTTACACCTAATTAACACCAGGAAGGCCTTAGGCAAA-AAGAAAAATAGGACTCTTGGGATTAAGTAATCTCATCACTGACTCC-AAGTAAACTTAAAGATTACCTGTCAACCAGGTAG-AAGGCAGCTGCAGTTAGAATTTGCCATCAGAGTTTAAAGTCCTTCTGTAGAGAAATAAATGTGAAGGCAG---AAAAGGAATTCACTTCAGTTAAGCTTCATA-TTTCTAGAAGGCTGTGGTATCAAATTTACAGTCTCTGAGGCTTGCTTTTGTAAAATCT--CAAGTA-------TTTGCTCTTGCTTTTAGTACAATCTCACTAATTTGGCCTAAGGAAAGAGAAAATAAATTTTGAATTA---AACAATAGCT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55539306 682 +  90702639 CCAGGAGCCAGCTA-CCAACAGCAAGctctctctctctctctctctctctctctctctctctctctctctctctctctctctctcCACCCTTTTTCTCCA-TAGTTAATCTCTGAGAATAATAATATTGAACAAACTGGTAACAGAATTACAGTCCTTCTCCGGGATCTTTGTGCTAGGGAATTAGCTCTATGAATTCTGTCTTTT-GCACTGGAGGGAGGAGGGGTATTCTTTAGGA-AGGGCAGCCCCAGTAATGAAAGCCATTATTACA--TCTTTATTGCTGCTGTGTACTTAATGAGAGGAAAGCAACAGCTACTCCTGAAAGAGTTAACGCTGCATCTCTTCTTACACCTAATTAACAGCAGGAAAGCTTTAGGCAAACGGGGGAAATGGGACTCTTGGGACAAGGTAATCTTCTTACTGACTCC-ATGTAAACCCAAAGAATACCTGTTAGCCAGACAG-AAGACAGGAGCAGATAGGTTTTACAATCTG-CTCACACGTCCTTCTGTGGCAAAATAGATGTGAAGTT------AAAAGAGGTTGTAACAGTTAAGCTTCGTGTTTTTTATAAGGTTGCAAA-----ATTCATATTCTCTGAA-------------AAATGTAACAGGTATGTCTCTTTTTTTTTTGCATTTAATACAATTTTGCTAATTTAGACCA--AAAAAGTAAGATGTATTTTGAATTA---AAC----TCT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14949262 618 +  74389097 CAACAAACCAGCCC-CCACCAACAAG------------------------------------------------------------GGATTCTTTCAAAAGGAGTTAGCCTCCAAGAACAGTGGTACTGGGCAAACTGTCAAGAAATTTC-AGTCCTTCCCTGGTATATCTCCGGCTGAGAAATAGATATACAAACTTTCGCAGGTAACACTAGGGA----------TTCCTTTAAAATATGGTAACCTCCAAAATGATGAGCATTATTATACCTCATTATTGCTTCAGAGTATGTAATCAAAGAAAGGTTGATGCTATTCCTGAAAGGGTTAATTCCTCACCTCTCCTTACACCTAATTAACACCAGGAAGGCTTTAGGCAAA-AGGAAAAATAGGACTCCTGGGATTAAGTAATCTCATCCCTGACTCCAAAGCAAACCCAAGGAATACCTGTCAACCAGATAG-AAGACAGCAGCATTTAGGATTTTGCATCTGAT-TTTAAGTCTTCCAG--GCAAAATAG-TGTGAA----GCAGGGAAAGAATTTGCTTCAGTTAAGCTTCAGA-TTTCTAGAGGGCCAGTAAATTAAATTCACAATCTCTCAG-------------AAATCTAACAAGTA-------TTTGCTTTTGCATTTAGTGGAATCTCACTAAGTTGGACTAAGGAAGAGAAAGACAAATTTTGATTTA---AACAATATCT
i canFam3.chr11            C 0 I 145
s dasNov3.JH567306           2673992 558 +   3667625 CAACCAAACAGCCA-CTACCAACATG------------------------------------------------------------GCAGTTTGTCAAA---AGTTAGTCCCCCAAAATAATGATGTTGTGCACATTGTCAAAAAAACTCAA--CCTTTTCTGGTAGCTCTCTGGATGAAAATTAGATCTATGAACTCTTTTTGGT-CCACTAGGGA----------GATCTTTAAAATATGACAACCCCAACAATGAGTGTTGTTATTACA--TCATT--------GGTGCATTTAATGAGAGGAAGTTAAATGTTGCTCTTGAAAGAGTTAATTC----TCTCCCTTT--------------CCAGGAAGGCTTTAGGCAAA-AGGGAATATAGGACTTTTGGGATTAGGCAATCTTATCACTGACTCG-AAGTAAACTCAAAGAATACTTATCAACCAGATAG-AAGGCAATAG-AGTCAGAATTTGCAATCTGATTTTTACATTTTTCTGTGGTGAAACAGATGTGAG----ACAGGAAAGGAATCTGCATCAGTTAA---------CTTC-----------------AAATTCACAATCTCTGAG-------------GAGTCTAACAAGTA-------TTTGGTTTTGCATTTAGTAAAATCT----AATGTGGACTAAGAGAGAGAAAGAAAAACTTTGAATTA---AAATATATTT
i dasNov3.JH567306         I 272 C 0

a score=2384435.000000
s hg38.chr5_KI270796v1_alt    124502 186 +    172708 GCAAAAAAAAAA-----------------------AGTGAAGA-------------------------------------------CTTACAACCAGATAAATAGAAT-GTAGCCTCAGGGGATTTAAATAATAATGGCTTATAGATAGTTAGAATCTCAATTTATGGTAAATTTATTACTTGTTTAtaaaggcaagaaatgacagcttatcttcagctttgaaaagggctatcatgcagaaaagagagccaa
s panTro5.chr5             125228173 185 + 181907262 GC-AAAAAAAAA-----------------------AGTGAAGA-------------------------------------------CTTGCAACCAGATAAATAGAAT-GTAGCCTCAGAGGATTTAAATAATAATGGCTTATAGATAGTTAGAATCTCAATTTATGGTAAATTTATTACTTGTTTAtaaaggcaagaaatgacagcttatcttcagctttgaaaagggctatcatgcagaaaagagagccaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126564898 184 + 183735486 GC--AAAAAAAA-----------------------AGTGAAGA-------------------------------------------CTTGCAACCAGATAAATAGAAT-GTAGCCTCAGAGGATTTAAATAATAATGGCTTATAGATAGTTAGAATCTCAATTTATGGTAAGTTTATTACTTGTTTAtaaaggcaagaaatgacagcttatcttcagctttgaaaagggctatcatgcagaaaagagagccaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1756664 185 +   8933513 GC-AAAAAAAAA-----------------------AGTGAAGA-------------------------------------------CTTGCAACCAGATAAATAGAAT-GTAGCCTCAGAGGATTTAAATAATAATGGCTTATAGATAGTTAGAATCTCAATTGATGGTTAATTTATTACTTGTTTAtaaaggcaagaaatgacagcttatcttcagctttgagaagggctatcatgcagaaaagagagccaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139890956 182 + 163208435 TA----AAAAAA-----------------------AATGAAGA-------------------------------------------CTTGCAACCAGATGAATAGAAT-GTAGCCTCAGAGGATTTAAATAATAATGGCTTATAGATAGTTAGAATCTCAGTTTATGGTTAATTTATTACTTGTTTAtaaaggcaagaaatgacagcttattttcagctttgagaagggctatcatgcagaaaagagagccaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122875659 192 + 180051392 TC-AAAAAAAAA------------AAGAAAAAAGCAGTGAAGA-------------------------------------------CTTGAAACCAGATAAATAGAAT-GTAGCCTCAGAGGATTTAAATAATAATGGCTT----ATAGTTAGAATCTCAATTTATGGTTAATTTATTACTTGTTTAtaaaggcaagaaatgacagcttatcttcagctttgagaagggctatcatgcagaaaagagagccaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124299280 197 + 181584905 TC-aaaaaaaaaaaaaa-------aagaaaaaaGCAGTGAAGA-------------------------------------------CTTGAAACCAGATAAATAGAAT-GTAGCCTCAGAGGATTTAAATAATAATGGCTT----ATAGTTAGAATCTCAATTTATGGTTAATTTATTACTTGTTTAtaaaggcaagaaatgacagcttatcttcagctttgagaagggctatcatgcagaaaagagagccaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16297958 198 +  18395747 TC-aaaaaaaaaaaaaa------gaagaaaaaaGCAGTGAAGA-------------------------------------------CTTGAAACCAGATAAATAGAAT-GTAGCCTCAGAAGATTTAAATAATAATGGCTT----ATAGTTAGAATCTCAATTTATGGTTAATTTATTACTTGTTTAtaaaggcaagaaatgacagcttatcttcagctttgagaagggctatcatgcagaaaagagagccaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5310405 191 +  26952557 TC-AAAAAAAA-------------AAGAAAAAAGCAGTGAAGA-------------------------------------------CTTGAAACCAGATAAATAGAAT-GTAGCCTCAGAGGATTTAAATAATAATGGCTT----ATAGTTAGAATCTCAATTTATGGTTAATTTATTACTTGTTTAtaaaggcaagaaatgacagcttatcttcagctttgagaagggctatcatgcagaaaagagagccaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28411075 188 +  82825804 TC-AAAAAAAA----------------AAAAAAGCAGTGAAGA-------------------------------------------CTTGAAACCAGATAAATAGAAT-GTAGCCTCAGAGGATTTAAATAATAATGGCTT----ATAGTTAGAATCTCAATTTATGGTTAATTTATTACTTGTTTAtaaaggcaagaaatgacagcttatcttcagctttgagaagggctatcatgcagaaaagagagccaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4080916 202 -   4237731 TC-aaaaaaaaaaaaaaaa--aaaaagaaaaaaGCAGTGAAGA-------------------------------------------CTTGAAACCAGATAAATAGAAT-GTAGCCTCAGAGGATTTAAATAATAATGGCTT----ATAGTTAGAATCTCAATTTATGGTTAATTTATTACTTGTTTAtaaaggcaagaaatgacagcttatcttcagctttgagaagggctatcatgcagaaaagagagccaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      349460 192 -   1175262 TC-AAAAAAAAA------------AAAAAAACAGCAGTGAAGA-------------------------------------------CTTGGAACCAGATAAATAGAAT-GTAGCCTCAGAGGATTTAAATAATAATGGCTT----ATAGTTAGAATCTCAATTTATGGTTAATTTATTACTTGTTTAtaaaggcaagaaatgacagcttatcttcagctttgagaggggctatcatgcagaaaagagagccaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123697646 161 - 204313951 TC-AAAAAAAC------------------------AATGAAGA-------------------------------------------CTTGCAACCAGGTAAATAGAAT-GTGGCCTCAGAGGATTTAAATAATAATGGCTG-----------------------ATAGTTAATTTAGTACTTGTTTAtaaaggcaagaaatgacagcttatcttcagctttgagaagggctatcatacagaaaagaaagccaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55741767 161 -  71252344 TC-AAAAAAAC------------------------AATGCAGG-------------------------------------------CTTGCAACCAGGTAAATAGAAT-GTGGCCTCAGAGGATTTAAATAATAATGGCTT-----------------------ATAGTTAATTTAGTACTTGTTTAtaaaggcaagaaatgacacctcatcttcagctttgagaagggctatcatacagaaaagagagccaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       45256 160 -   3089952 TC-AAAAAAAC------------------------AATGAAGA-------------------------------------------CTTGCAACCAGGT-AATAGAAT-GTGGCCTCAGAGGATTTAAATAATAATGGCTC-----------------------ATAGTTAATTTAGTACTTGCTTAtaaaggcaagaaatgacagcttatcgtcagcttcgagaagggctatcatacagaaaagagagccaa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13245536 161 -  42888418 TC-AAGAAAAC------------------------AATGAAGA-------------------------------------------CTTGCAACCAGGTAAATAGAAT-GTGGCCTCGGAGGATTTAAATAATAATGGCTT-----------------------ATGGTTAATTTAGTACTTGTTTAtaaaggcaagaaatgacagcttatcttcagttttgagaagggctatcgtacagagaagagagccaa
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60583868 179 + 108143057 TC-GAATAAAT------------------------AATGAAGA-------------------------------------------CTTGCAACTAGGAAAATAGAAT-GTGGCCCCAGGGGATTTAAATAATAAAGTTGG----ATAGCTAGGATATCAATTTATACTTAATTTATTACTTGTTTAtaaaggcaagaaatgacagct-ctctccagctatgtgaagagctatcatgcagacaaggggaccaa
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3619350 178 +  11683526 TT-GAATAAAC------------------------AATGAAGA-------------------------------------------CTTGCAACTAGGAAAACAGAAT-GTGGCCCCAGGGGATTTAAATAAT-ATGTCGT----ATAGTTAGAATATCAATTTATAGTTAATTTATTACTTGTTTAtaaaggcaagaaatgacagct-ctcttcagctatgtggagagctatcatgcagaaaaggggaccaa
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3106696 178 +   4132165 TC-AAAGAAAC------------------------AATAAAGA-------------------------------------------CTTGCAACTAGGAAAACAGAAT-GTGGCCACAGGAGATTTAAATAATAATGATGT----ATAGTTAGAATGTCAATTTATAGATAATTTATTGCTGGTTTAtaaaggcaaggaatgacagct-atcttcagctacgtgaagaaccatcctgcggagaaggggacc-a
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55539988 175 +  90702639 TT-TTAATGAAT-----------------------GGTGAAGG-------------------------------------------CTTGGAATTCAGTAATAGAAAC-ATGGCTTGGGGGAGCTAAGGTAGGAATGCCAT----ATAGGCCTGGTGTCAATTTCTA--TGCTTGTTTACTTATTAAAGAAGGTAGAAGTTAG----TTATATTCAGTTATCGGAAGAGCTATCCAGCTGAAAGTGGGTCTAA
i mm10.chr18               C 0 I 247
s canFam3.chr11             14950025 239 +  74389097 --aaaaaaaaaaaaaaaaaagaaaaagaaaaagaaaaagaaaaaaaaCAGTATCTTTAAGGAAAATGCTAAAAAAAATGCTAATGTCTTGAAACTAGATAAATAGAAT-GTGGCCTCAGGGGAATTAAATAATAATGACTT----ATAGTTAGAATATCAATTTAAAGTCAGTTTATTACTTGTTTATAAGgacaagaaataacagct-------aactatatgaaaggctgtcacacagtagaggcggccag
i canFam3.chr11            I 145 C 0
s dasNov3.JH567306           2674550 170 +   3667625 ---------------------------AAAGAAGCATTAAA---------------------------------------------CATCAAACTATTTACTTTAAATAATAAT----GAGGATTTAAATAATAATGAC------ATAATTAGAATATTTATTTATAGTTAATTTGTTACTTGTTTATGAGGGCAagaaatggcagtt-atcttcagctatgtgaagcaccgttatggagaaaagggagttga
i dasNov3.JH567306         C 0 C 0

a score=3641012.000000
s hg38.chr5_KI270796v1_alt    124688 227 +    172708 cctgttttacacggctccagaaggcaccattaaaatccttgagttgaggtttcagcgaactgatga----------------------------------------ttttggctctatactgaatatgaatttactgtttcccacgaagaaaagagcctcctgtcatgaaaagt-------agtccaactacccattgaccatctgtaagggatgctgtgtaaagaattctttcatttggtaagattctgaattaaatCGGTACTTTTAAC----------TTT
s panTro5.chr5             125228358 229 + 181907262 cctgttttacacggctccagaaggcaccattaaaatccttgagttgaggtttcagcgaactgatga----------------------------------------ttttggctctatactgaatatgaatttactgtttcccacgaagaaaagagcctcctgtcatgaaaagt-------agtccaactacccattgaccatctgtaagggatgctgtgtaaagaattctttcatttggtaagattttgaattaaatCGGTACTTTTAAC--------TGTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126565082 229 + 183735486 cctgttttacacggctccagaaggcaccattaaaatccttgagttgaggtttcagcgaactgatga----------------------------------------ttttggctctatactgaatatgaatttactgtttcccacgaagaaaagagcctcctgtcatgaaaagt-------agtccaactacccattgaccatctgtaagggatgctgtgtaaagaattctttcatttggtaagattttgaattaaatCGGTACTTTTAAC--------TGTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1756849 229 +   8933513 cctgttttacacagctccagaaggcaccattaaaatccttgagttgaggtttcagcgaactgatga----------------------------------------ttttggctctatactgaatatgaatttactgtttcccacgaagaaaagagcctcctgtcatgaaaagt-------agtccaactacccattgaccatctgtaagggatgctgtgtaaagaattctttcatttggtaagattttgaattaaatCGGTACTTTTAAC--------TGTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139891138 229 + 163208435 cctgttttacacggctccagaaggcaccattaaaatccttgagttgaggtttcagcgagctgatga----------------------------------------ttttggctctatactgaatatgaatttactgtttcccacgaagaaaagagcctcctgtcatgaaaagt-------agtccaactacccattgaccatctgtaagggatgctgtgtaaagaattctttcatttggtaagattttgaattaaatCGGTACTTTTAAC--------TTTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122875851 229 + 180051392 cctgttttacactgctccagaaggcaccattaaaatccttgagttgaggtttcagcgagctgatga----------------------------------------ttttggctctctactgaatatgaatttactgtttcccacgaagaaaggagcctcctgtcatgaaaagt-------agtccaactacccattgaccatctgtaagggatgctgtgtagagaattctttcatttggtaagattttgaattaaatCGGTACTTTTAAC--------TTTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124299477 229 + 181584905 cctgttttacactgctccagaaggcaccattaaaatccttgagttgaggtttcagcgagctgatga----------------------------------------ttttggctcTCTACTGAATATgaatttactgtttcccacgaagaaaggagcctcctgtcatgaaaagt-------agtccaactacccattgaccatctgtaagggatgctgtgtagagaattctttcatttggtaagattttgaattaaatCGGTACTTTTAAC--------TTTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16298156 229 +  18395747 cctgttttacactgctccagaaggcaccattaaaatccttgagttgaggtttcagcaagctgatga----------------------------------------ttttggctctctactgaatatgaatttactgtttcccacgaagaaaggagcctcctgtcatgaaaagt-------agtccaactacccattgaccatctgtaagggatgctgtgtagagaattctttcatttggtaagattttgaattaaatCGGTACTTTTAAC--------TTTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5310596 229 +  26952557 cctgttttacactgctccagaaggcaccattaaaatccttgagttgaggtttcagcgagctgatga----------------------------------------ttttggctctctactgaatatgaatttactgtttcccacgaagaaaggagcctcctgtcatgaaaagt-------agtccaactacccattgaccatctgtaagggatgctgtgtagagaattctttcatttggtaagattttgaattaaatCGGTACTTTTAAC--------TTTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28411263 229 +  82825804 cctgttttacactgctccagaaggcaccattaaaatccttgagttgaggtttcagcgagctgatga----------------------------------------ttttggctcTCTACTGAATATgaatttactgtttcccacgaagaaaggagcctcctgtcatgaaaagt-------agtccaactacccattgaccatctgtaagggatgctgtgtaaagaattctttcatttggtaagattttgaattaaatCGGTACTTTTAAC--------TTTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4081118 229 -   4237731 cctgttttacactgctccagaaggcaccattaaaatccttgagttgaggtttcagcgagctgatga----------------------------------------ttttggctctctactgaatatgaatttactgtttcccatgaagaaaggagcctcctgtcatgaaaagt-------agtccaactacccattgaccatctgtaagggatgctgtgtagagaattctttcatttggtaagattttgaattaaatCGGTACTTTTAAC--------TTTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      349652 230 -   1175262 cctgttttacactgctccagaaggcaccattaaaatccttgagttgaggtttcagcgagctgatga----------------------------------------ttttggctctctactgaatatgaatttactgtttcccacgaagaaaggagcctcctgtcatgaaaagt-------agtccaactacccattgaccatctgtaagggatgctgtgtaaagaattctttcatttggtaagattttgaattaaatCGGTACTTTTAAC-------TTTTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123697807 230 - 204313951 cctgttttacactgctccagaaggcaccattaaaaccctttagttgaggtttcagtgagctgatga----------------------------------------ttttggctctctgctgaatatgaatttactgttttccacgaagaaaagagcctcctgtcacgtaaagt-------agtccaactacccattgaccatctgtaagggatgctgtgtaaagaattctttcatttggtaagattttgaattaaatTGGTACTTTTAAC-------TTTTTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55741928 229 -  71252344 cctgttttacactgctccagaaggcaccattaaaatcctttagttgaggtttcagcgagctgatga----------------------------------------ttttggctctctactgaatatgaatttactgtttcccacgaagaaaagagcctcctgtcatgtaaagt-------agtccaactacccattgaccatctgtaagggatgctgtgtaaagaattctttcatttggtaagattttgaattaaatCGGTACTTTTAAC--------TTTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       45416 229 -   3089952 cctgttttacactgctccagaaggcaccattaaaatcctttagttgaggtttcagcgagttgatga----------------------------------------ttttggctctctactgaatatgaatttactgtttcccacgaagaaaagagcctcctgtcatgtaaagt-------agtccaactacccattgaccatctgtaagggatgctgtgtaaagaattctttcatttggtaagattttgaattaaatCGGTACTTTTAAC--------TTTTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13245697 229 -  42888418 cctgttttgcactgctccagaaggcaccattaaaatcctttagttgaggtttcagcgagctgatga----------------------------------------ttttggctctctactgaatatgaatttactgtttcccacgaagaaaagagcctcctgtcatgtaaagt-------agtccaactacccattgaccatctgtaagggatgctgtgtaaagaattctttcatttggtaagattttgaattaaatCGGTACTTTTAAC--------TTTTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60584047 235 + 108143057 tccattttacattgctccagaaggcacagttgaaatctttgggtggaagtttcagcgagctgatga----------------------------------------ttttggctttctactgaatacaaattcactgtttcccgtgaggaagcgagcctcctgtcatggaaagt-------agtccaactacccgctgaccatctgtaagggatgttgtgtcaagaattctttcatttggtaagattttgaattagatcaggacttcgaaCCTTTTTTTTTT--
i micMur3.chr12            C 0 I 2
s proCoq1.NW_012155062v1     3619528 227 +  11683526 cccattttacattgctccagaaggcacagttgaaatctttgggtggaagtttcagcgagctgatga----------------------------------------ttttggctttctactgtatacgaattcactgtttcccatgaggaagcgagccccctgtcacgtacagt-------agtcctactacctgttgaccatctgtaagggatgttgtgtcaagaattctttcatttggtaagattttgaattagatCAGGACTTTGAAC--------TTT--
i proCoq1.NW_012155062v1   C 0 I 2
s otoGar3.GL873679           3106874 263 +   4132165 cctgttttacattgttcctggaggcacagttgaaatctttgggtggaagtttcactaagctcatgattttggctTTCTTTCATCATCATTATTATTATTATTTTCTTTTTGGCTTTCTACTTAATACAGATTAACTGTTTCCTGTGAGAAAGGGAACCTCCTGTCATGTAAAGT-------ACTCTAACTACCCATTGGCCATCTGTAGGAAATGTTGTCTAAACAATTCATTC---TAGCAAGA-TTTGAATTACAACAGTACATTGAAC--------TTT--
i otoGar3.GL873679         C 0 I 2529
s canFam3.chr11             14950264 232 +  74389097 actgtcttacagtgctccggaaggcagagttaagacccatgggctgacatatca-caggctgatgc-------------------------------------------tggctttcttctggatatagatttaccatttcccatgaagaagtgagcatcctgtcatgaaacatgtaacacagtccatctacccactgaccatctctaagggatgttgagtaaagaattctggcatttggtgagattttgaattagatTAGTACTTTGATT--------TTTTT
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2674720 224 +   3667625 cttattttacattgctccagaaggcagaattaaaatccatgggttgaaatttcaggaagctcc-------------------------------------------ttttggctttctactgaatatgattttactgtttcctgtaaggcagtgactcacctgtcatgtaaagt-------agtccaactatgcaatgaccatctgtaagggatgtcgtgaaaagaattcttgcat-tggtaagatgttgagttaaataaTAACTTACATC--------ATTT-
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55540163 247 +  90702639 I

a score=569963.000000
s hg38.chr5_KI270796v1_alt    124915 40 +    172708 TTGGCAACA-GAA---ATTTTGAAAAATTGATATCTTTCTCAGA
s panTro5.chr5             125228587 40 + 181907262 TTGGCAACA-GAA---ATTTTGAAAAATTGATATCTTTCTCAGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126565311 40 + 183735486 TTGGCAACA-GAA---ATTTTGAAAAATTGATATCTTTCTCAGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1757078 40 +   8933513 TTGGCAACA-GAA---ATTTTGAAAAATTGATATCTTTCTCAGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139891367 40 + 163208435 TTGGCAACA-GAA---ATTTTGAAAAATTGATATCTTTCTCAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122876080 40 + 180051392 CTGGCAACA-GAA---ATTTTGAAAAATTGATATCTTTCTCAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124299706 40 + 181584905 CTGGCAACA-GAA---ATTTTGAAAAATTGATATCTTTCTCAGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16298385 40 +  18395747 CTGGCAACA-GAA---ATTTTGAAAAATTGATATCTTTCTCAGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5310825 40 +  26952557 CTGGCAACA-GAA---ATTTTGAAAAATTGATATCTTTCTCAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28411492 40 +  82825804 CTGGCAACA-GAA---ATTTTGAAAAATTGATATCTTTCTCAGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4081347 40 -   4237731 CTGGCAACA-GAA---ATTTTGAAAAATTGATATCTTTCTCAGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      349882 40 -   1175262 TTGGCAACA-GAA---ATTTTGAAAAATTGATATCTTTCTCAGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123698037 40 - 204313951 TTGGCAACA-GAT---ATTTTGAAAAATTGATATCTTAGTTGGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55742157 40 -  71252344 TTGGCAACA-GAA---ATTTTGAAAAATTGATATCTTAGTTGGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       45645 40 -   3089952 TTGGCAACA-GAA---ATTTTGAAAAATTGATATCTTAGTTGGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13245926 40 -  42888418 TTGGCAACA-GAA---ATTTTGAAAAATTGATATATTAGTTGGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60584284 40 + 108143057 TTGGCAATA-GAA---ATTTTGAAAAATTGAAATCTTACTCAGA
i micMur3.chr12            I 2 I 104
s proCoq1.NW_012155062v1     3619757 40 +  11683526 TTGGCAATA-GAA---ATTTTGAAAAATTGAAATCTTACTCAGA
i proCoq1.NW_012155062v1   I 2 I 16
s otoGar3.GL873679           3109666 40 +   4132165 TTATCATTA-GAA---ATTTTGAAAAATTGAAGTCTTACTCAGA
i otoGar3.GL873679         I 2529 I 16
s canFam3.chr11             14950499 41 +  74389097 TTAAAAACAGGAA---ATTTTGAAACCTTGAAATCTTACTCAGA
i canFam3.chr11            I 3 I 24
s dasNov3.JH567306           2674944 30 +   3667625 TTTGCAGCA-GAACTCAGTACATAAAACAGA-------------
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55540163 247 +  90702639 I

a score=707699.000000
s hg38.chr5_KI270796v1_alt    124955 54 +    172708 TGAAAAAGATGAAATGATTCCTT-GGCGAGTAAGAATTTTCACTGTTTGGGAAGA
s panTro5.chr5             125228627 53 + 181907262 TGAAAAA-ATGAAATGATTCCTT-GGCGAGTAAGAATTTTCACTGTTTGGGAAGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126565351 53 + 183735486 TGAAAAA-ATGAAATGATTCCTT-GGCGAGTAAGAATTTTCACTGTTTGGGAAGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1757118 54 +   8933513 TGAAAGAGATGAAATGATTCCTT-GGCGAGTAAGAATTTTCACTGTTTGGGAAGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139891407 54 + 163208435 TGAAAAAGATGAAATGATTCCTT-GGCGAGTAAGAATTTTCACTGTTTGGGAAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122876120 54 + 180051392 TGAAAAAGATGAAATGATTCCTT-GGCAAGTAAGAATTTTCACTGTTTAGGAAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124299746 54 + 181584905 TGAAAAAGATGAAATGATTCCTT-GGCAAGTAAGAATTTTCACTGTTTAGGAAGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16298425 53 +  18395747 TGAAAAAGATGAAATGATTCCTT-GGCAAGTAAGAATTTTCACTGTTTAGG-AGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5310865 54 +  26952557 TGAAAAAGATGAAATGATTCCTT-GGCAAGTAAGAATTTTCACTGTTTAGGAAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28411532 54 +  82825804 TGAAAAAGATGAGATGATTCCTT-GGCAAGTAAGAATTTTCACTGTTTAGGAAGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4081387 54 -   4237731 TGAAAAAGATGAAATGATTCCTT-GGCAAGTAAGAATTTTCACTGTTTAGGAAGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      349922 54 -   1175262 TGAAAAAGATGAAATGATTCCTT-GGCAAGTAAGAATTTTCACTGCTTAGGAAGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123698077 54 - 204313951 TGAAAAATATGAAATGATTCCTT-GGCAAGTAAGAATTTTCACTGTTTGGGAAGA
i calJac3.chr2             C 0 I 2
s saiBol1.JH378106          55742197 54 -  71252344 TGAAAAAGGTGAAATGATTCCTT-GGCAAGTAAGGATTTTCACTGTTTGGGAAGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       45685 54 -   3089952 TGAAAAAGATGAAACGATTCCTT-GGCAAGTAAGAATTTTCACTGTTTGGGAAGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13245966 52 -  42888418 TGAAAAAGATGAAATGATTCCTT-GGCAAGTAAGAATTTTCA--GTTTGGGAAGA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3619813 55 +  11683526 TACAAAAGCTGAAACGATTCCTCAAGTGACTCAGAATTTTCACTGTTTGGGAAAA
i proCoq1.NW_012155062v1   I 16 I 35
s otoGar3.GL873679           3109722 53 +   4132165 TTCGAAAGCTGAAA--ATTCTTCAAGTGAGTCTGAATTTCTGCTGTTTGGGAAAA
i otoGar3.GL873679         I 16 I 14
s canFam3.chr11             14950564 54 +  74389097 TGGAAGAGCTGAAATGATTCCTT-GGTGAGTCAAAAGTTTCACTACTCGGGAAGA
i canFam3.chr11            I 24 C 0
s dasNov3.JH567306           2674974 52 +   3667625 TAAAGGAGTGGAAATAATATTTT-ATTCAGTTAGAATTTTCA--GTTTGGAAAGA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60584324 104 + 108143057 I
e mm10.chr18                55540163 247 +  90702639 I

a score=195379.000000
s hg38.chr5_KI270796v1_alt    125009 19 +    172708 ------------ATATATT------------TCCACTTCAGCA
s panTro5.chr5             125228680 19 + 181907262 ------------ATATATT------------TCTACTTCAGCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126565404 19 + 183735486 ------------ATATATT------------TCTACTTCAGCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1757172 19 +   8933513 ------------ATATATT------------TCCACTTCAGCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139891461 19 + 163208435 ------------ATATATT------------TCCACTCCAGCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122876174 19 + 180051392 ------------ATATATT------------TCCACTCCAGCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124299800 19 + 181584905 ------------ATATATT------------TCCACTCCAGCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16298478 19 +  18395747 ------------ATATATT------------TCCACTCCAGCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5310919 19 +  26952557 ------------ATATATT------------TCCACTCCAGCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28411586 19 +  82825804 ------------ATATATT------------TCCACTCCAGCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4081441 19 -   4237731 ------------ATATATT------------TCCACTCCAGCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      349976 19 -   1175262 ------------ATATATT------------TCCACTCCAGCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123698133 19 - 204313951 ------------ATATATC------------TCCACCACACCA
i calJac3.chr2             I 2 C 0
s saiBol1.JH378106          55742251 19 -  71252344 ------------ATATATC------------TCCACTCCACCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       45739 19 -   3089952 ------------ATATATC------------TCCACTCCACCA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13246018 19 -  42888418 ------------ATATATC------------TCCACTCCACCA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3109789 19 +   4132165 ------------ATATAAT------------TCAGCTCCAGTA
i otoGar3.GL873679         I 14 C 0
s canFam3.chr11             14950618 31 +  74389097 ------------ACATACCATGGTTCAAATAACTGCTCTAATA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2675026 31 +   3667625 ATATGCCATTGTTTATGTA------------GCCATTCTTGCA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60584324 104 + 108143057 I
e proCoq1.NW_012155062v1     3619868 35 +  11683526 I
e mm10.chr18                55540163 247 +  90702639 I

a score=16511.000000
s hg38.chr5_KI270796v1_alt    125028 1 +    172708 C
s panTro5.chr5             125228699 1 + 181907262 C
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126565423 1 + 183735486 C
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1757191 1 +   8933513 C
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139891480 1 + 163208435 C
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122876193 1 + 180051392 C
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124299819 1 + 181584905 C
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16298497 1 +  18395747 C
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5310938 1 +  26952557 C
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28411605 1 +  82825804 C
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4081460 1 -   4237731 C
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      349995 1 -   1175262 C
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123698152 1 - 204313951 C
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55742270 1 -  71252344 C
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       45758 1 -   3089952 C
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13246037 1 -  42888418 C
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60584428 1 + 108143057 C
i micMur3.chr12            I 104 C 0
s otoGar3.GL873679           3109808 1 +   4132165 T
i otoGar3.GL873679         C 0 I 1
s canFam3.chr11             14950649 1 +  74389097 C
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2675057 1 +   3667625 C
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3619868 35 +  11683526 I
e mm10.chr18                55540163 247 +  90702639 I

a score=707344.000000
s hg38.chr5_KI270796v1_alt    125029 47 +    172708 CTACTGGGG-CCCTTATGCTTCACTCAG-AGCAGAGTGTAAGCTTACTC
s panTro5.chr5             125228700 47 + 181907262 CTATTGGGG-CCCTTATGCTTCACTCAG-AGCAGAGTGAAAGCTTACTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126565424 47 + 183735486 CTATTGGGG-CCCTTATGCTTCACTCAG-AGCAGAGTGAAAGCTTACTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1757192 47 +   8933513 CTATTGGGG-CCCTTATGCTTCACTCAG-GGCAGAGTGAAAGCTTACTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139891481 48 + 163208435 CTATTGGGGCCCCTTATGCTTCACTCAG-AGCAGAGTGAAAGCTTACTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122876194 47 + 180051392 CTATTGGGG-CCCTTATGCTTCACTCAG-AGCAAAGTGAAAGCTTACTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124299820 47 + 181584905 CTATTGGGG-CCCTTATGCTTCACTCAG-AGCAAAGTGAAAGCTTACTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16298498 47 +  18395747 CTATTGGGG-CCCTTATGCTTCACTCAG-AGCAAAGTGAAAGCTTACTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5310939 47 +  26952557 CTATTGGGG-CCCTTATGCTTCACTCAG-AGCAAAGTGAAAGCTTACTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28411606 47 +  82825804 CTATTGGGG-CCCTTATGCTTCACTCAG-AGCAAAGTGAAAGCTTACTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4081461 47 -   4237731 CTATTGGGG-CCCTTATGCTTCACTCAG-AGCAAAGTGAAAGCTTACTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      349996 47 -   1175262 CTATTGGGG-CCCTTATGCTTCATTCAG-AGCAAAGTGAAAGCTTACTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123698153 47 - 204313951 CTATCGGGG-TCCTTATGCTTCACTGAA-AGCAGAGTGAAAACTTACTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55742271 47 -  71252344 CTATTGGGG-TCCTTATGCTTCACTGAA-AGCAGAGTGAAAACTTACTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       45759 47 -   3089952 CTATTGGGG-TCCTTATGCTTCACTGAA-AGCAGAGTGAAAACTTACTC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13246038 47 -  42888418 CTATTGGGG-TCCTTATGCTTCACTGAA-AGCAGAGTGAAAACTTACTC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60584429 47 + 108143057 CTACTGGGG-CCCTTATGCTTCACAGAG-AGCAGAGTGAAAGATTACTC
i micMur3.chr12            C 0 I 746
s proCoq1.NW_012155062v1     3619903 47 +  11683526 CTATTGGGA-CGCTTATGTTTCACAGAG-AGCGGAGTGAAAGATGACTC
i proCoq1.NW_012155062v1   I 35 I 11
s otoGar3.GL873679           3109810 48 +   4132165 CTATTGGGG-CTCCTATGTTTCACAGAGAAAAAGATTGACAGCTCACTC
i otoGar3.GL873679         I 1 I 11
s canFam3.chr11             14950651 46 +  74389097 TTATTGAGG--CCTTATGCTTCACAGAG-AACAGAGGGAAGACTCACTC
i canFam3.chr11            I 1 I 13
s dasNov3.JH567306           2675058 46 +   3667625 CTTATGGAG-CCCCTAGACTTCACAGAG-AACAGAGTCAAAG-GCACTC
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55540163 247 +  90702639 I

a score=814342.000000
s hg38.chr5_KI270796v1_alt    125076 61 +    172708 ----TC---------TGATTGAAAATAATGGTCTCAAAG------TACTAGAGAAGATTATTTAGTTGA----AAACAAACAAA
s panTro5.chr5             125228747 65 + 181907262 ----TC---------TGATTGAAAATAATGGTCTCAAAG------TACTAGAGAAGATTATTTAGTTGAaaacaaacaaacaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126565471 64 + 183735486 ----TC---------TGATTGAAAATAATGGTCTCAAAG------TACTAGAGAAGATTATTTAGTTGAAAACAAACAAAC-AA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1757239 65 +   8933513 ----TC---------TGATTGAAAATAATGGTCTCACAG------TACTAGAGAAGATTATTTAGTTGAAAACAAACAAACAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139891529 65 + 163208435 ----TC---------TGATTGAAAATAATGGTTTCAAAG------TACTAGAGAAGATTGTTTAGTTGAAAACAAACAAACAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122876241 61 + 180051392 ----TC---------TGATTGAAAACAATGGTTTCAAAG------TACTAGGGAAGATTATTTAGTTGA----AAACAAACAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124299867 61 + 181584905 ----TC---------TGATTGAAAACAATGGTTTCAAAG------TACTAGGGAAGATTATTTAGTTGA----AAACAAACAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16298545 61 +  18395747 ----TC---------TGATTGAAAACAATGGTTTCAAAG------TACTAGGGAAGATTATTTAGTTGA----AAACAAACAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5310986 61 +  26952557 ----TC---------TGATTGAAAACAATGGTTTCAAAG------TACTAGGGAAGATTATTTAGTTGA----AAACAAACAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28411653 58 +  82825804 ----TC---------TGATTGAAAATAATGGTTTCAAAG------TACTAGGGAAGATTATTTAGTCGA----AAACAAAC---
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4081508 61 -   4237731 ----TC---------TGATTGAAAACAATGGTTTCAAAG------TACTAGGGAAGATTATTTAGTTGA----AAACAAACAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      350043 61 -   1175262 ----TC---------TGATTGAAAATAATGGTTTCAAAG------TACTAGGGAAGATTATTTAGTTGA----AAATAAACAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123698200 65 - 204313951 ----TC---------TGATTGAAAATAATGGTTTCAAAG------TACTAGGGATGATTATTTAGTTGAAAACAAACAAACAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55742318 65 -  71252344 ----TC---------TGATTGAAAATAATGGTTTCAACA------TACTAGGGATGATTATTTAGTTGAAAACAAACAAACAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       45806 65 -   3089952 ----TC---------TGATTGAAAATAATGGTTTCAAAG------TACTAGGGATGATTATTTAGCTGAAAACAAACAAACAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13246085 65 -  42888418 ----TC---------TGATTGAAAATAATGGTTTCAAAG------TACTAGGGATGATTATTTAGTTGAAAACAAACAAACAAA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3619961 67 +  11683526 ----TC---------TGATTGAGAATAACGGTTTCAATGTATTAATACTAGGGAAGATTATTTAGTTGT----AAACAAAGAAA
i proCoq1.NW_012155062v1   I 11 I 256
s otoGar3.GL873679           3109869 61 +   4132165 ----TC---------TGCTCGGGAATTTTTGTTTCAATG------CACTAGAAAAGATAAGTTAGATGT----AAAGAAACAAA
i otoGar3.GL873679         I 11 C 0
s canFam3.chr11             14950710 61 +  74389097 ----TC---------TGATGGAGAATAATAGTTTCAAAG------TACTAGGAATGATTATTCAATTGA----AAACAAAGAAA
i canFam3.chr11            I 13 C 0
s dasNov3.JH567306           2675104 74 +   3667625 TAGATCAAGGCTTGGTGACTGAGAATAATCCTTTCAAAG------TACAAGAGCTGATTATTTAATTGA----AAACAAAGAAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60584476 746 + 108143057 I
e mm10.chr18                55540163 247 +  90702639 I

a score=2061679.000000
s hg38.chr5_KI270796v1_alt    125137 193 +    172708 AAACCC--AAAAACCTTAGACTTACTGAAAATTTCCTTCATAAACTT-ATA-GATTCATTCTTCAAAGC--AAAAAAGCTGT---CAACTTCAGGTTATTATGAAACTAAGTGAGC---ATTTTGAACTGATGATTATGTCACAAACTGGATTCCCGGATGTAGAGA-TTTTCTG-AACAAAGGC----TTGGTCTTC------------------gtggcagtcagct-
s panTro5.chr5             125228812 193 + 181907262 aaaccc--aaaaacCTTAGACTTACTGAAAATTTCCTTCATAAACTT-ATA-GATTCATTCTTCAAAGC--AAAAAAGCTGT---CAACTTCAGGTTATTATGAAACTAAGTGAGC---ATTTTGAACTGATGATTATGTCACAAACTGGATTCCCGGATGTAGAGA-TTTTCTG-AACAAAGGC----TTGGTCTTC------------------gtggcagtcagct-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126565535 193 + 183735486 AAACCC--AAAAACCTTAGACTTACTGAAAATTTCCTTCATAAACTT-ATA-GATTCATTCTTCAAAGC--AAAAAAGCTGT---CAACTTCAGGTTATTATGAAACTAAGTGAGC---ATTTTGAACTGATGATTATGTCACAAACTGGATTCCCGGATGTAGAGA-TTTTCTG-AACAAAGGC----TTGGTCTTC------------------gtggcagtcagct-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1757304 193 +   8933513 AAACCC--GAAAACCTAAGACTTACTGAAAATTTCCTTCATAAACTT-ATA-GATTCATTCTTCAAAGC--AAAAAAGCTGT---CAACTTCAGGTTATTATGAAACTAAGTGAGC---ATTTTGAACTGATGATTATGTCACAAACTGGATTCCCGGACGTAGAGA-TTTTCTG-AACAAAGGC----TTGGTCATC------------------gtggcagtcagct-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139891594 193 + 163208435 AAACCC--AAAAGCCTAAGACTTACTGAAGATTTCCTTCATAAACTT-ATA-GATTCATTATTCAAAGT--AAAAAAGCTGT---CAACTTCAGGTTATTATGGAACTAAGTGAGT---GTTTTGAACTGATGATTATGTCACAAACTGGATTCCCTGATGTAGAGA-TTTTCTG-AACAAAGGC----TTGGTCATt------------------gtggcagtcagct-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122876302 195 + 180051392 AAA-AC--AAAAGCCTAAAACTTATTGAAAATTTGCTTCATAAACTT-ATA-GATTCATTCTTCAAAGT--AAAAAAGCTGTCAACAACTTCAGGATATTATGAAACTAAATGAGT---GTTTTGAACTGATGATTATGTCACAAACTGGATTCCTGGATGTAGAGA-TTTTCTG-AACAAAGGC----TTGGTCATt------------------gtggcagtcagct-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124299928 196 + 181584905 AAACAC--AAAAGCCTAAGACTTATTGAAAATTTGCTTCATAAACTT-ATA-GATTCATTCTTCAAAGT--AAAAAAGCTGTCAACAACTTCAGGATATTATGAAACTAAATGAGC---GTTTTGAACTGATGATTATGTCACAAACTGGATTCCTGGATGTAGAGA-TTTTCTG-AACAAAGGC----TTGGTCATt------------------gtggcagtcagct-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16298606 196 +  18395747 AAACAC--AAAAGCCTAAGACTTATTGAAAATTTGCTTCATAAACTT-ATA-GATTCATTCTTCAAAGT--AAAAAAGCTGTCAACAACTTCAGGATATTATGAAACTAAATGAGC---ATTTTGAACTGATGATTATGTCACAAACTGGATTCCCGGATGTAGAGA-TTTTCTG-AACAAAGGC----TTGGTCATt------------------gtggcagtcagct-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5311047 196 +  26952557 AAACCC--AAAAGCCTAAGACTTTTTGAAAATTTGCTTCATAAACTT-ATA-AATTCATTCTTCAAAGT--AAAAAAGCTGTCAACAACTTCAGGATATTATGAAACTAAATGAGC---GTTTTGAACTGATGATTATGTCACAAACTGGATTCCCAGATGTAGAGA-TTTTCTG-AACAAAGGC----TTGGTCATt------------------gtggcagtcagct-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28411711 195 +  82825804 -AACCC--AAAAGCCTAAGACTTATTGAAAATTTGCTTCATAAACTT-ATA-GATTCATTCTTCAAAGT--AAAAAAGCTGTCAACAACTTTAGGATATTATGAAACTAAATGAGC---GTTTTGAACTGATGATTATGTCACAAACTGGATTCCCGGATGTAGAGA-TTTTCTA-AACAAAGGC----TTGGTCATt------------------gtggcagtcagct-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4081569 196 -   4237731 AAACCC--AAAAGCCTAAGACTTATTGAAAATTTGCTTCATAAACTC-ATA-AATTCATTCTTCAAAGT--AAAAAAGCTGTCAACAACTTCAGGATATTATGAAACTAAATGAGC---GTTTTGAACTGATGATTATGTCACAAACTGGATTCCCAGATGTAGAGA-TTTTCTG-AACAAAGGC----TTGGTCATt------------------gtggcagtcagct-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      350104 195 -   1175262 AAACCC--AAAAGCCTAAGACTTACTG-AAATTTGCTTCATAAACTT-ATA-GATTCATTCTTCAAAGT--AAAAAAGCTGTCAACAACTTCAAGATATTATGAAACTAAATGAGC---GTTTTGAACTGATGATTATGTCACAAACTGGATTCCCAGATGTAGAGA-TTTTCTG-AACAAAGGC----TTGGTCATt------------------gtggcagtcagct-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123698265 195 - 204313951 AAAACCCGAAAAGCCTAAGACTTACTGAAAATGTACTTCATAAACTT-ATA-GATTCATTCTTCAGAGT--AAAAAAGCTGT---CAACTTCAAGTTACTAGAGAACTAAATGAGC---GTTTGGAACTAATGACTGTGTCACAAACTGGATTCC-AGATGTAGAGATTTTTCTA-GACAGAGTC----TTGGTAATt------------------atggcagtcagct-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55742383 196 -  71252344 AAACCCCAAAAAGCCTAAGACTTACTGAAAATGTACTTCGTAAACTT-ACA-GATTCATTCTTCAGAGTAAAAAAAAGCTGT---CAACTTCAAGTTATTAGGGAACTAAATGAGC---GTTTTGAACTAATGACTATGTCACAAACTGGATTCT-GGACGTAGAGATTTTTCTC-AACAAAG-C----TTGGTAATT------------------ACggcagtcagct-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       45871 196 -   3089952 AAAACCCAAAAAGCCTAAGACTTACTGAAAACGTACTTCATAAACTT-ATA-GATCCATTCTTCAAAGT-AAAAAAAGCTGT---CAACTTCAAGTTATTAGGGAACTAAATGAGC---ATTTGGAACTAATGACTATGTCACAAACTGGATTAC-AGACGTAGAGATTTTTCTA-AACAAAGGC----TTGGTAATt------------------atggcagtcagct-
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13246150 195 -  42888418 AAACCCCCAAAAGCTTAAGACTTACTGAAAATGTACTTCATAAACTT-ATA-GATTCATTCTTCAAAGT-AAAAAAAGCTGT---CAACTTCAAGTTATTAGGGAACTAAATGAGC---GTTTGGAACT-ATGACTATGTCACAAACTGGATTCC-GGACATAGAGATTTTTCTA-AACAAAGAC----TTGGTAAAT------------------ATCgcagtcagct-
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3109930 207 +   4132165 ----------AATTCTAGGACTGCCTGAAAATTTGTTTCACAAACTT-GTA-GATTCTATCCTCTGAGT--AAAAGAGCTGT---CAACTTCAACTTATTAGTGAACTATATTAGA---GTTTTGAATTCACAACTTAGTTACAAATTAGATTTGGAAATGCGGAGA-TTTTCTA-AACAAAAGTGATGTTTGCTATTTTTAACATGCTAAATTTCATGGTGATTAGTT-
i otoGar3.GL873679         C 0 I 635
s canFam3.chr11             14950771 166 +  74389097 ------CAAAAAGCTCAGTACTGCCTGAAAATTTGTACCTTAAGTTTAATA-GATTCTTTATTTTAACT--AAAAGAGCTGT---TAACTTCAACTTCTGGG---------------------TGAACTAACAACTATGTCACAAATTAGATTCAGAGATGTGGAAA-TTTTCC-------AGAC----TCAGTAATt------------------gcagtagccagct-
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2675178 195 +   3667625 ------CAAAAAGCCCAATACTTTCTGAAAAATTGTTCCACAGATAT-ATCTGATTCTTTCTTCTAAGT--AAAAGAGCTAT---CAATTTCAATTTATTAGTGAATGAAAAGATCTAGAGTTTGAACTGATGACTATGTCACAGACAAGATTCAGGAATGTGGAGA-TACTTTGAAACAAAGGC----TTAGTAATt------------------gtggtagccagcct
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60584476 746 + 108143057 I
e proCoq1.NW_012155062v1     3620028 256 +  11683526 I
e mm10.chr18                55540163 247 +  90702639 I

a score=732205.000000
s hg38.chr5_KI270796v1_alt    125330 79 +    172708 ccaaggctg-tccccagtgattttcaccatctgatatttatgccctagcttg-----gtc---ttcaccattgaatcaaagcttatca-----
s panTro5.chr5             125229005 79 + 181907262 ccaaggctg-tccccagtgattttcaccatctgatatttatgccctagcttg-----gtc---ttcaccattgaatcaaagcttatca-----
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126565728 79 + 183735486 ccaaggctg-tccccagtgattttcaccatctgatatttatgccctagcttg-----gtc---ttcaccattgaatcaaagcttatca-----
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1757497 79 +   8933513 ccaaggctg-tccccagtgattttcaccatctgatatttatgccctagcttg-----gtc---ttcaccattgaatcaaagcttatca-----
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139891787 79 + 163208435 ccaaggtgg-cccccagtgattttcaccatctgatatttatgccctagcttg-----gtc---tccaccattggatcaaagcttatca-----
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122876497 79 + 180051392 ccaaggtgg-cccccagtgattttcaccatctgatatctatgccctagctta-----gtc---tccaacattgaatcaaagcttatca-----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124300124 79 + 181584905 ccaaggtgt-cccccagtgattttcaccatctgatatctatgccctagctta-----gtc---tccaacattgaatcaaagcttatca-----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16298802 79 +  18395747 ccaaggtgg-cccccagtgattttcaccatctgatatctatgccctagctta-----gtc---tccaacattgaatcaaagcttatca-----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5311243 79 +  26952557 ccaaggtgg-cccccagtgattttcaccatctgatatctatgccctagctta-----gtc---tccaacattgaatcaaagcttatca-----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28411906 79 +  82825804 ccaaggtgg-cccccagtgattttcaccatctgatatctatgccctagctta-----gtc---tccaacattgcatcaaagcttatca-----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4081765 79 -   4237731 ccaaggtgg-cctccagtgattttcaccatctgatatctatgccctagctta-----gtc---tccaacattgaatcaaagcttatca-----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      350299 79 -   1175262 ccaaggtgg-cccccagtgattttcaccgtctggtatctatgccctagctta-----gtt---tccaacattgaatcaaagcttctca-----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123698460 69 - 204313951 ccaaggcgg-cccccagtgattttcatcttctgatatttatgctttagctta-----gtc---tcccacattgaatca---------------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55742579 69 -  71252344 ccaagatgg-cccccagtgaatttcatcttctgaaatttatgctttagctta-----gtc---tcccacgttgaatca---------------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       46067 69 -   3089952 ccaaggcgg-cccccagtgaatttcatcttctgatatttatgctttagctta-----gtc---tcccacattgagtca---------------
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13246345 69 -  42888418 ccaaggcgg-cccctggtgaatttcatcttctgatatttatgctttagctta-----gtc---tcccacattgaatca---------------
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14950938 82 +  74389097 ccaaggtag-gcccaatggg--ttcacctcctggtgttcattccctagtgtgtggtttcc---tcccgcatttaattaaggcttgtta-----
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2675373 86 +   3667625 tcaagactgccccccagtgaatttc-ccttctg-tcttcatgctatagtata-----gccccttcctacactgaaacaacgctccttgtgtcc
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60584476 746 + 108143057 I
e proCoq1.NW_012155062v1     3620028 256 +  11683526 I
e otoGar3.GL873679           3110137 635 +   4132165 I
e mm10.chr18                55540163 247 +  90702639 I

a score=3952779.000000
s hg38.chr5_KI270796v1_alt    125409 344 +    172708 agtagaatactatgggtgagttcctgtg-ttttt-ttctgaggctaggtcataaaaggagccacagcttccaacttggcctgttggatcatttgctct-gggga-aaaccag-tgccatgccatgaggccacttacgcagctgtgtggagaagtgcaccagcaaggagctgaggcctcccacaaacagcc------------------ttgtgtctg-cgtgtccttggaagc----agatcctctagtgtggcctaaccttcaaaaagatta-ca-ctcagcc---------aaaatt-tgaccaaaacttcatgaga--cccccagccaaaatag-cccagc-taagctgctctgaaattcctgacccacagaaactgtgagataa
s panTro5.chr5             125229084 343 + 181907262 agtagaatactatggatgagttcctgtg-ttttt-ttctgaggctaggtcataaaaggagccacagcttccaacttggcctgttggatcatttgctct-gggga-aaaccag-tgccatgccatgaggccacttacgcagctgtgtggagaagtgcaccagcaaggagctgaggcctcccacaaacagcc-------------------tgtgtctg-cgtgtccttggaagc----agatcctctagtgtggcctaaccttcaaaaagatta-ca-ctcagcc---------aaaatt-tgaccaaaacttcatgaga--cccccagccaaaatag-cccagc-taagctgctctgaaattcctgacccacagaaactgtgagataa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126565807 343 + 183735486 agtagaatactatggatgagttcctgtg-ttttt-ttctgaggctaggtcataaaaggagccacagcttccaacttggcctgttggatcatttgctct-gggga-aaaccag-tgccatgccatgaggccacttacgcagctgtgtggagaagtgcaccagcaaggagctgaggcctcccacaaacagcc-------------------tgtgtctg-cgtgtccttggaagc----agatcctctagtgtggcctaaccttcaaaaagatta-ca-ctcagcc---------aaaatt-tgaccaaaacttcatgaga--cccccagccaaaatag-cccagc-taagctgctctgaaattcctgacccacagaaactgtgagataa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1757576 343 +   8933513 agtagaatactatggatgagttcctgtg-ttttt-ttctgaggctaggttataaaaggagccacagcttccaacttggcctgttggatcatttgctct-gggga-aaaccag-tgccatgccatgaggccacttatgcagctgtgtggagaagtgcaccagcaaggagctgaggcctcccacaaacagcc------------------ttgtgtctg-cgtggccttggaagc----agatcctctagtgtggcctaaccttc-aaaagatta-ca-ctcagcc---------aaaatt-tgaccaaaacttcgtgaga--cccccagccaaaatag-cccagc-taagctgctctgaaattcctgacccacagaaactgtgagataa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139891866 345 + 163208435 agtagaatactatggatgagttcctgtgtttttt-ttctgaggctaggtcataaaaggagccacagcttccaacttggcctgttggatcatttgctctgggggg-aaaccaa-tgccatgccatgaggccacttatgcacctgtgtggagaagtgcaccagcaaggagctgaggcctcccacaaacagtc------------------ttgtgtctg-cgtggccttggaagc----agatcctctagtgtggcctaaccttc-aaaagatta-ca-ctcggcc---------aaaatt-tgactaaaacttcatgaga--cccccagccaaaatag-cccagc-taagctgctctgaaattcctgacccacaggaactgtgagataa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122876576 345 + 180051392 cgtagaatactatggatgggttcctgtg-ttttt-ttctgaggctaggtcataaaaggagccacagcttccaacttggcctgttggatcatttgctct-ggggg-aaaccag-tgccatgccatgaggccacttacgcagctgtgtggagaagtgcaccagcaaggagctgaggcctcccacaaacagtc------------------ttgtgtctg-catggccttggaagc----agatcttctagtgtagcctaatcttc-aaaagatta-ca-gtcagcc---------aaaatt-tgactaaaacttcatgagagccccccagccaaaatag-cccagc-taagctgctttgaaattcctgacccacagaaactgtgagataa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124300203 345 + 181584905 cgtagaatactatggatgggttcctgtg-ttttt-ttctgaggctaggtcataaaaggagccacagcttccaacttggcctgttggatcatttgctct-ggggg-aaaccag-tgccatgccatgaggccacttatgcagctgtgtggagaagtgcaccagcaaggagctgaggcctcccacaaacagtc------------------ttgtgtctg-catggccttggaagc----agatcttctagtgtagcctaatcttc-aaaagatta-ca-gtcagcc---------aaaatt-tgactaaaacttcatgagagccccccagccaaaatag-cccagc-taagctgctttgaaattcctgacccacagaaactgtgagataa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16298881 345 +  18395747 cgtagaatactatggatgggttcctgtg-ttttt-ttctgaggctaggtcataaaaggagccacagcttccaacttggcctgttggatcatttgctct-ggggg-aaaccag-tgccatgccatgaggccacttatgcagctgtgtggagaagtgcaccagcaaggagctgaggcctcccacaaacagtc------------------ttgtgtctg-catggccttggaagc----agatcttctagtgtagcctaatcttc-aaaagatta-ca-gtcagcc---------aaaatt-tgactaaaacttcatgagaccccccccagccaaatag-cccagc-taagctgctctgaaattcctgacccacagaaactgtgagataa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5311322 345 +  26952557 cgtagaatactatggatgggttcctgtg-ttttt-ttctgaggctaggtcataaaaggagccacagcttccaacttggcctgttggatcatttgctct-ggggg-aaaccag-tgccatgccatgaggccatttatgcagctgtgtggagaagtgcaccagcaaggagatgaggcctcccacaaacagtc------------------ttgtgtctg-catggccttggaagc----agatcttctagtgtagcctaatcttc-aaaagatta-ca-gtcagcc---------aaaatt-tgactaaaacttcatgagaaccccccagccaaaatag-cccagc-taagctgctctgaaattcctgacccacagaaactgtgagataa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28411985 338 +  82825804 cgtagaatactatggatgggttcctgtg-ttttt-ttctgaggctaggttataaaaggagccacagcttccaacttggcctgttggatcatttgctct-ggggg-aaaccag-tgccatgccatgaggccacttatgcagttgtgtggagaagtgcaccagcaaggagctgaggcctcccacaaacagtc------------------ttgtgtctg-cgtggccttggaagc----agatcttctagtgtagcctaatcttc-aaaagatta-ca-gtcagcc---------aaaatt-tgactaaaacttcgag-------tttagccaaaatag-cccagc-taagctgctctgaaattcctgacccacagaaactgggagataa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4081844 345 -   4237731 cgtagaatactatggatgggttcctgtg-ttttt-ttctgaggctaggtcataaaaggagccgcagcttccaacttggcctgttggatcatttgctct-ggggg-aaaccag-tgccatgccatgaggccatttatgcagctgtgtggagaagtgcaccagcaaggagctgaggcctcccacaaacagtc------------------ttgtgtctg-catggccttggaagc----agatcttctagtgtagcctaatctgc-aaaagatta-ca-gtcagcc---------aaaatt-tgactaaaacttcatgagacgcccccagccaaaatag-cccagc-taagctgctctgaaattcctgacccacagaaactgtgagataa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      350378 345 -   1175262 cacagaatactatggatgggttcctgtg-ttttt-ttctgaggctaggtcataaaaggagccacagcttccaacttggcctgttggatcatttgctct-ggggg-aaaccag-tgccatgccatgaggccacttatgcagctgtgtggagaagtgcaccagcaaggagctgaggcctcccacaaacagtc------------------ttgtgtctgccgtggccttggaagc----agatcttctagtgtagcctaatcttc-aaaagatta-ca-gccagcc---------aaaatt-tgactaaaacttcatgaga-ccccccagccaaaatag-cccagt-gaagctgctctgaaattcctgacccacagaaactgtgagataa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123698529 327 - 204313951 -gtagaatactatgg----gttcctgtg-ttttt-atctgaggctaggtcataaaagaagccacagcttccaacttggcctattggatcatctgctct-ggagg-acaccag-tgccatgccatgaggtcacttatgcagctgcgtggagaagtgcagcagc-aggagccttgaactcccacaaacag------------------------------cctggccttggaagc----agatcctttagtgtggcttaaccctc-aaaagagta-ca-cttagcc---------aaactc-tgactaaaactttaggaga-cttcccagccaaaatag-ctcagc-taagctgctctgaaattcctgacccctagaaacagtgagataa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55742648 335 -  71252344 -gtagaatactatgg----gttcctgtg-tttttaatctgaggctaggtcataaaagaagccacagcttccaagttggcctattggatcatctgctct-ggagg-gcaccag-tgccatgccatgaggtcacttatgcagctgcgtggagaagtgcaacagcaagaagcctcggtctcccacaaacag------------------------------cctggccttggaagctgatcgatcctctagtgtggcctacccctc-aaaagagta-ca-cttagct---------aaactcttgaataaaattttatgaga-cttccccgccaaaatag-ctcagcttgagctgctctgaaattcctgacccctagaaactgtgagataa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       46136 329 -   3089952 -gtagaatactatgg----gttcctgtg-ttttttatctgaggctaggtcataaaagaagccacagcttccaacttggcctattggatcatctgctcc-ggagg-acaccag-tgccatgccgtgaggtcacttatgcagctgcgtggagaagctcagcagcaaggagctttggcctcccacaaacgg------------------------------catggccttggaagc----agatcctctagtgtggcctaatcctc-aaaagagca-ca-cttagcc---------aaactc-tgactaaaactttacgagg-cttcccagccaaaatag-ctcagc-taagctgctctgaaattcctgacccctagaaactgtgagataa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13246414 329 -  42888418 -gtagaatactatgg----gttcctgtg-ttttttctctgaggctaggtcataaaagaagccgcagcttccaacttggcctgttggatcatctgctct-ggagg-acaccag-tgccatgccatgaggtcacttatgcagctgcgtggagaagtgcagcagcaaggagccttggcctcccacaaagag------------------------------cctggccttggaagc----cgatcctccagtgtggcctaaccctc-agaagagta-ca-cttagcc---------aaactc-tgactaaaactttatgaga-cttcccagccaaaatag-ctcagc-taagctgctctgaaattcctgacccctagaaactgtgagataa
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3620284 334 +  11683526 agtaggatactgcggatgggttcatgtg-tgttt--tctgaggctaggtca------gagtcacaccttccaacttgctttgttggatcattcgctct-agggg-aagccag-tgctgtgtcatgggctcacttatgcagctgtgtggacaagt-----aacaaggagccgaggcctctcaccaacagcc------------------atgtgtctg-agtgaccttggaaac----agatcctctagcctggcctaaccttc-taaagatta-cagctcagcc---------aaaatc-tgactacagctttatgagagaccttccgccagaacag-tccagc-taagctgttccaaaatttctgaaccacagaaattgggagataa
i proCoq1.NW_012155062v1   I 256 C 0
s canFam3.chr11             14951020 342 +  74389097 -atagaatactgtggatgggatcatgta-tggta--actgaggctaggatataaaaggagtcacagctttcagtctggtctgttggatcgtttgctct-gatgg-aaaccag-tgccatatcctgaggtcactcaagcttccttatggagaagcccagtgac-atgagctgaggaatcctaccatcagcc------------------atgtgtcag-agagatcttggaagc----ag--cctttaggctagcctgatcttc-agaagatagtca-cccagcc---------aatatc-tgactgcaacttcatgacagatcctgagtcagaacagcccccac-aaagctgctccaaaattcttgatccaaataaaatgtgagatag
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2675459 358 +   3667625 agaagaatactgtgaatggtatcatgtg-tgttt--tctgtgacaagtatataacgggagtcacaaattccaacctggcctcctg----actagcttt-gggggaaaaccagctatcatgccatgaagcttttcaagcagctttgtggagaagaccagcaacaagtaactgaggtctcccatccacagccagtactcatttgtcagccatgtgtccg-aacaattttgaaagt----atatcctccatcctggtgtaaacttt-agaagacta-ta-gtccacctgataactggatatc-tgactgcagtttcctgagagacccagagccagaatag-cccaat-taagcca-----------ctgacctacagaaactgtgagataa
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60584476 746 + 108143057 I
e otoGar3.GL873679           3110137 635 +   4132165 I
e mm10.chr18                55540163 247 +  90702639 I

a score=1241717.000000
s hg38.chr5_KI270796v1_alt    125753 109 +    172708 taagtaattatta----ttttaa-gacactatgttttgtgatgatttgttatgcagaaataaaaacccaaa---------------------------------------caCTAATATATGAG--TTTCACTT-----GGAAATTTTCTTCTAGACACA
s panTro5.chr5             125229427 109 + 181907262 taagtaattatta----ttttaa-gacactatgttttgtgatgatttgttatgcagaaataaaaaccaaaa---------------------------------------caCTAATATATGAG--TTTCACTT-----GGAAATTTTCTTCTAGACACA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126566150 109 + 183735486 taagtaattatta----ttttaa-gacactatgttttgtgatgatttgttatgcagaaataaaaaccaaaa---------------------------------------caCTAATATATGAG--TTTCACTT-----GGAAATTTTCTTCTAGACACA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1757919 108 +   8933513 taagtaattatta----ttttaa-gacactatgttttgtgatgatttgttatgcagaaataaaaaccaaaa---------------------------------------caCTGATATATGAG--TTTCACTT------GAAATTTTCTTCTAGACACA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139892211 109 + 163208435 taagtaattatta----ttttaa-gacactatgttttgtgatgatttgttatgcagaaataaaaaccaaaa---------------------------------------cGCTAATATATGAG--TTTCACTT-----AGAAATTTTCTTCTAGACACA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122876921 110 + 180051392 taagtaattatta----ttttaa-gacactatgttttgtgatgatttgttatgcagaagtaaaaactaaaa---------------------------------------caCTAATATATCAGT-TTTCACAT-----AGAAATTTTCTTCTAGACACG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124300548 110 + 181584905 taagtaattatta----ttttaa-gacactatgttttgtgatgatttgttatgcagaagtaaaaactaaaa---------------------------------------caCTAATATATCAGT-TTTCACAT-----AGAAATTTTCTTCTAGACACG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16299226 110 +  18395747 taagtaattatta----ttttaa-gacactatgttttgtgatgatttgttatgcagaagtaaaaactaaaa---------------------------------------caCTAATATATCAGT-TTTCACGT-----AGAAATTTTCTTCTAGACACG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5311667 110 +  26952557 taagtaattatta----ttttaa-gacactatattttgtgatgatttgttatgcagaagtaaaaactaaaa---------------------------------------caCTAATATATCAGT-TTTCACGT-----AGAAATTTTCTTCTAGACACG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28412323 110 +  82825804 taagtaattatta----ttttaa-gacactatgttttgtgatgatttgttatgcagaagtaaaaactaaaa---------------------------------------caCTAATATATCAGT-TTTCATGT-----AGAAATTTTCTTCTAGACACG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4082189 110 -   4237731 taagtaattatta----ttttaa-gacactatgttttgtgatgatttgttatgcagaagtaaaaactaaaa---------------------------------------caCTAATATATCAGT-TTTCACGT-----ACAAATTTTCTTCTAGACACG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      350723 110 -   1175262 taagtaattatta----ttttaa-gacactatgttttgtgatgatttgttatgcagaagtaaaaactaaAG---------------------------------------CACTAATATATCAGT-TTTCACGT-----AGAAATTTTCTTCTAGACACG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123698856 110 - 204313951 taagtaattacta----ttttaa-gatacaatgttttgtgatgatttgttatgcagaaacaaaacccaaaa---------------------------------------caTTAATATATGAGT-TTTCACTT-----AGAAATTTTCTTCTAGACACC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55742983 110 -  71252344 taagtaattacta----ttttaa-gatacaatgttgtgtgatgatttgttatgcagatataaaacccaaaa---------------------------------------caTTAATATATGACT-TTTCACTT-----AGAAATTTTCTTCTAGACACA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       46465 110 -   3089952 taagtaattacta----ttttaa-gatacaatgttgtgtgatgatttgttatgcagaaataaaacccaaaa---------------------------------------caTTAATATATGAGT-TTTCACTT-----AGAAATTTTCTTCTAGACACA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13246743 110 -  42888418 taagtaattacta----ttttaa-gatacaatgttttgtcatgatttgttatgcagaaataaaacccaaaa---------------------------------------caTTAATATATGAGT-TTTCACTT-----AGAAATTTTCTTCTAGACACA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3620618 118 +  11683526 taagtaatttttactatttttaa-gatgctaagtttcatggtgatttgttatgaagaaatCAAACCCCAAA---------------------------------------AAGTAATATATGAGTAATCCACTTCTT--AGAAATTTTCTTCTAGACACA
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55540410 142 +  90702639 tagacatttatca----tttT---GACACTAG----------GATTTGTTATTCAAAAGTACAAACCAAAATAATAAATAATAACAAATGAGCAAATAATAATAATTAGCTAATAATAAGTGAGG-ATTCATTTCTTAGAGGGGTTCTCCTGTGGACAAA
i mm10.chr18               I 247 C 0
s canFam3.chr11             14951362 107 +  74389097 taaatgatgattg----ttttca-gacacaaagttttgtgataatgtggtgtatagcag------acacaa---------------------------------------aggtaatacaTTAGT-ATCCATTTCTT--AGAGATTTTCTTCTAGACCCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2675817  87 +   3667625 taaataattattg----ttctactaacagttaattttatggtaatttattattcagcaaaaaaa-----aa-------------------------------------------------------atgca--------aAACATATTCTCCTAGACCA-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60584476 746 + 108143057 I
e otoGar3.GL873679           3110137 635 +   4132165 I

a score=424770.000000
s hg38.chr5_KI270796v1_alt    125862 39 +    172708 TTCACCACGTTCA-------TGATGATTGAGGAGA-GATGGCCTCAA
s panTro5.chr5             125229536 39 + 181907262 TTCACCACGTTCA-------TGATGATTGAGGAGA-GATGGCCTCAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126566259 39 + 183735486 TTCACCACGTTCA-------TGATGATTGAGGAGA-GATGGCCTCAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1758027 46 +   8933513 TTCACCACGTTCATGATGATTGATGATTGAGGAGA-GATGGCCTCAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139892320 39 + 163208435 TTCACCACATTCA-------TGATGATTGAGGAGA-GATGGCCTCAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122877031 39 + 180051392 TTCACTATGTTCA-------TGATGATTGAGGAGA-GATGGCCTCAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124300658 39 + 181584905 TTCACTATGTTCA-------TGATGATTGAGGAGA-GATGGCCTCAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16299336 39 +  18395747 TTCACTATGTTCA-------TGATGATTGAGGAGA-GATGGCCTCAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5311777 39 +  26952557 TTCACTATGTTCA-------TGATGATTGAGGAGA-GATGGCCTCAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28412433 39 +  82825804 TTCACTATGTTCA-------TGATGATTGAGGAGA-GATGGCCTTAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4082299 39 -   4237731 TTCACTATGTTCA-------CGATGATTGAGGAGA-GATGGCCTCAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      350833 39 -   1175262 TTCACTATGTTCA-------TGATGATTGAGGAGA-GATGGCCTCAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123698966 39 - 204313951 ATAACTATGTTCA-------TAATGAGAGAGGAGA-GATGGCCTCAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55743093 39 -  71252344 TTAGCTATGTTGA-------TAATGATTGAGGAGA-GATAGCCTCAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       46575 39 -   3089952 TTAACTATGTTCA-------TGATGTTAGAGGAGA-GATGGCCTCAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13246853 38 -  42888418 TTAACTAT-TTCA-------TAATGATTAAGGAGA-GATGGCCTCAA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3620736 38 +  11683526 TTCACT--ATTCG-------TGATAATTGAGGAGAAGATGGCCACAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3110772 32 +   4132165 ctcacctgggtct-------aaaaaatcgaggggagggg--------
i otoGar3.GL873679         I 635 C 0
s mm10.chr18                55540552 30 +  90702639 -------TGCTAT-------TTATGACTAAGGGGA---CAGCATCAA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14951469 35 +  74389097 CTAACT--GTTGA-------TGATGGATAGGAAGA---TGGCCTCAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2675904 38 +   3667625 TTCATT--GTTCA-------TGATGGTTAAAGACAAAATGACTTCAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60584476 746 + 108143057 I

a score=1402152.000000
s hg38.chr5_KI270796v1_alt    125901 106 +    172708 AGATTtataagctccatgacagcatgaggttacattt-gtttt-ttcacccttatattcacagtagctaccatagttc-ttaggaaaagtttatgtagattc-aataaaa
s panTro5.chr5             125229575 106 + 181907262 AGATTtataagctccatgacagcatgaggttacattt-gtttt-ttcacccttatattcacagtagctaccatagttc-ttaggaaaagtttatgtagattc-aataaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126566298 106 + 183735486 AGATTtataagctccatgacagcatgaggttacattt-gtttt-ttcacccttatattcacagtagctaccatagttc-ttaggaaaagtttatgtagattc-aataaaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1758073 106 +   8933513 AGATTtataagctccatgacagcatgaggttacattt-gtttt-ttcacccttatattcacagtagctaccatagttc-ttaggaaaagtttatgtagattc-aataaaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139892359 106 + 163208435 AGATTTTtaagctccatgacagcatgaggttacattt-gtttt-ttcacccttatattcacagtagctaccatagttc-ttaggaaaagtttatgtagattc-aataaaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122877070 106 + 180051392 AGATTtataagctccatgacagcatggagttacattt-gtctt-ttcacccttatattcacagtagctaccatagttc-ttaggaaaagtttatgtagattc-aataaaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124300697 106 + 181584905 AGATTtataagctccatgacagcatggagttacattt-gtctt-ttcacccttatattcacagtagctaccatagttc-ttaggaaaagtttatgtagattc-aataaaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16299375 106 +  18395747 AGATTtataagctccatgacagcatggagttacattt-gtctt-ttcacccttatattcacagtagctaccatagttc-ttaggaaaagtttatgtagattc-aataaga
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5311816 106 +  26952557 AGATTtataagctccatgacagcatggagttacattt-gtttt-ttcacccttatattcacagtagctaccatagttc-ttaggaaaagtttatgtagattc-aataaaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28412472 105 +  82825804 AGATTtataagctccatgacagcatgaagttacattt-g-ttt-ttcacccttatattcacagtagctaccatagttc-ttaggaaaagtttatgtagattt-aataaaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4082338 106 -   4237731 AGATTtataagctccatgacagcatggagttacattt-gtttt-ttcactcttatattcacagtagctaccatagttc-ttaggaaaagtttatgtagattc-aataaaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      350872 106 -   1175262 AGATTtataagctccatgacagcaggaagttacattt-gtttt-ttcacccttatattcacagtagctaccatagttc-ttaggaaaagtttatgtagatcc-aataaaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123699005 106 - 204313951 AGATTTACaagctccatgacagcatgaggttacattt-gtttt-ttcacctttatattcacagtagctgtcacagttc-ttaaaaaaagtttatgttgattc-aataaaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55743132 107 -  71252344 AGATTtataagctccatgacagcatgaggttacatttggtttt-ttcacccttatattcacagtagctatcatagttc-ttagaataagtttatgtagattc-aataaaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       46614 107 -   3089952 AGACTtataagctccatgacagcatgaggttacatttgttttt-ttcacccttatattcacagtagctatcacagttc-ttagaaaaagtttatgtaggttc-aataaaa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13246891 107 -  42888418 AGATTtataagctccatgacagcatgaggttacatttattttt-ttcacccttatattaacagtagctatcacagttc-ttagaaaaagtttatgtagattc-aataaaa
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60585222 103 + 108143057 AGATTTATAAGCTCCATGACAGCATGAGGACACATTTGTTTTT-TTCAGCCT----TTCACAGGTGCTATCATAGGTC-TTAGGAAAGTTTTATATAGATTC-AAATAAA
i micMur3.chr12            I 746 C 0
s proCoq1.NW_012155062v1     3620774 104 +  11683526 AGATTTATAAGCTCCATGACAGCATGAGGCCACATTTGTTTTT-TTCAGCCT----TTCACAGGTGCTATCATAGGTC-TTAGGAAAGTTTTATGTAGATTCAAAAAAAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3110804  69 +   4132165 --------agtccctgtgaagccctgagt---------------------------------ggtggaatcctgtatcaTTAGGAAAAGCTTATGTAGAGTTGACAAAAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55540582  92 +  90702639 ACACCTATAA-TGCTGTGAGGACATGTAGCTACTGTT-GTCTGAGTTACTCTGATATCCTTAGCTGCT-------CTC-CCA-------TTTACATAGATTG-CACCAAG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14951504 104 +  74389097 ACATCTACAACCATCATGAAAACATGAGACCACATT--GCTTT-TACACTCCTGTATCCCTAGTAATTCCCACAGTTC-TTA-GAGAAGTTCATGTAGATTC-AATACCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2675942 105 +   3667625 AGTTctataaattccttgagaagatgaggccatgtattttttt-cccacccttgtatccccagtactcagcaATATTT-TGAG--AAGGTTTAAGTAGATCC-AATAAAA
i dasNov3.JH567306         C 0 I 2011

a score=6748664.000000
s hg38.chr5_KI270796v1_alt    126007 464 +    172708 ttttgttggatagatgaaC--AAATAAACAAGAT---------------GTATATTTTGAAGAATT------------------------------TAAAATG-AATGAGGTCAA------------------ATTGAGTCATTTATTAGTTGTTTTATTATAAATATCAAATTTCCATTTG-TAAAAAACAAATACTTTT-TTGAGGAAAGAGGTAGAGAATTTTCCTAAATTATTAATT--GTTTCTATAAAATATAAATAACATTTGTATTATAGTCAAGGAAGGCCTTTTTAACAGGATGTGATTTAAACCCAAAGCTGTATATCAAcatatgct---tttccctctgcctgaaatgaacattgcttcctttctccaggctaaattcccttatccttcaagacttagtgtggttgtaacatccatctgcaga----ctttcctgattcc-TTTTGACTGTATTTTGTATCATACTGCATTTGAAAGAATGGCATACTCAACTTTCTTTTTCAAAATAGCTTTATTATTTTTATAAAAA-
s panTro5.chr5             125229681 464 + 181907262 ttttgttggatagatgaaC--AAATAAACAAGAT---------------ATATATTTTGAAGAATT------------------------------TAAAATG-AATGAGGTCAA------------------ATTGAGTCATTTATTCGTTGTTTTATTATAAATATCAAATTTCCATTTG-TAAAAAACAAATACTTTT-TTGAGGAAAGAGGTAGAGAATTTTCCTAAATTATTAACT--GTTTCTATAAAATATAAATAACATTTGTATTATAGTCAAGGAAGGCCTTTTTAACAGGATGTGATTTAAACCCAAAGCTGTATATCAAcatatgct---tttccctctgcctgaaatgaaccttgcttcctttctccaggctaaattcctttatccttcaagacttagtgtggttgtaacatccgtctgcaga----ctttcctgattcc-TTTTGACTGTATTTTGTATCATACTGCATTTGAAAGAATGGCATACTCAACTTTCTTTTTCAAAATAGCTTTATTATTTTTATAAAAA-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126566404 464 + 183735486 ttttgttggatagatgaaC--AAATAAACAAGAT---------------ATATATTTTGAAGAATT------------------------------TAAAATG-AATGAGGCCAA------------------ATTGAGTCATTTATTAGTTGTTTTATTATAAATATCAAATTTCCATTTG-TAAAAAACAAATACTTTT-TTGAGGAAAGAGGTAGAGAATTTTCCTAAATTATTAACT--GTTTCTATAAAATATAAATAACATTTGTATTATAGTCAAGGAAGGCCTTTTTAACAGGATGTGATTTAAACCCAAAGCTGTATATCAAcatatgct---tttccctctgcctgaaatgaaccttgcttcctttctccaggctaaattcctttatccttcaagacttagtgtggttgtaacatccatctgcaga----ctttcctgattcc-TTTTGACTGTATTTTGTATCATACTGCATTTGAAAGAATGGCATACTCAACTTTCTTTTTCAAAATAGCTTTATTATTTTTATAAAAA-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1758179 494 +   8933513 ttttgttggatagatgaaC--AAATAAACAAGAT---------------ATATATTTTGAAGAATTATGAATGAGGTCATTTTGAAGAATTATGAAGAAAATG-AATGAGGTCAA------------------ATTGAGTCATTTATTAGTTGTTTTATTATAAATATCAAATTTCCATTTG-TAAAAAACAAATACTTTT-TTGAGGAAAGAGGTAGAGAATTTTCCTAAATTATTAATT--GTTTCTATAAAATATAAATAACATTTGTATTATAGTCAAGGAAGGCCTTTTTAACAGGATGTGATTTAAACCCAAAGCTGTATATCAAcatatgct---tttccctctgcctgaaatgaaccttgcttcctttctccaggctaaattcccttatccttcaagacttagtgtggttgtaacatccatctgcaga----ctttcctgattcc-TTTTGACTGTATTTTGTATCATACTGCATTTGAAAGAATGGCATACTCAACTTTCTTTTTCAAAATAGCTTTATTATTTTTATAAAAA-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139892465 454 + 163208435 ttttgttggatagattaaC--AAATAAACACAAT---------------ATATATTTTGAAGAATT------------------------------TAAAATG-AATGAGGTCAA------------------ATTGAGTTATTTATTAGTTGTTTTATTATAAATATCAAATTTCCATTTG-TAAAAAGCAAATACTTTT-TTGAGGAAAGAGGTAGAGAATTTTCCTAAA----TGATT--GTTTCTATAAAATATAAATAACATTTGTATTATAGTCAAGGAAGGCCTTTTTAACAGGATATGATTTAAAGCCAAAGCTGTACATCAAcatatgct---tttccctctgcctgaaatgaaccttgcttcctttctccaggctaaattcccttatccttcaagacttagtgtggttgtaacatccatctgcaga----ctttcctgattcc-TTTTGACCGTATTTGGTATCATACTGCATTTGAAAGAATGGCATACTCAACTTTCTTTTTCAAAATAGCTTTA------TTATAAAAA-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122877176 465 + 180051392 ttttgttggatagacgaaC--AAATAAACAAGAT---------------ACATATTTTGAAGAATT------------------------------TAAAGTT-AATGAGGTAAC------------------ATTGAGACATTTATTAATTGTTTTATTATAAATATCAAATTTCCATTTG-TAAAAAGCAAATACTTTT-TTGAGGAAAGAGGTAGAGAATTTTCCTAAATTATTAATT--GTTTCTATAAAATATAAATAACATTTGTATTATAGTCAAGGAAGGCCTTTTTAACATGATGTGATTTAAACCCAAAGCTGTACAGCAAcatatgtt---cttccctctgcctgaaatgaaccttgcttcctttctccaggctaaattcccttatccttcaagacttagtgtggttataacatccatctgcaga----ctttcctgattccTTTTTGACTATATTTGCTATCATACTGCATTTGAAAGAATGGCATACTCAACTTTCTTTTTCAAAATAGCTTTATTATTTTTATAAAAA-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124300803 465 + 181584905 ttttgttggatagacgaaC--AAATAAACAAGAT---------------ACATATTTTGAAGAATT------------------------------TAAAGTT-AATGAGGTAAC------------------ATTGAGACATTTATTAATTGTTTTATTATAAATATCAAATTTCCATTTG-TAAAAAGCAAATACTTTT-TTGAGGAAAGAGGTAGAGAATTTTCCTAAATTATTAATT--GTTTCTATAAAATATAAATAACATTTGTATTATAGTCAAGGAAGGCCTTTTTAACATGATGTGATTTAAACCCAAAGCTGTACAGCAAcatatgtt---cttccctctgcctgaaatgaaccttgcttcctttctccaggctaaattcccttatccttcaagacttagtgtggttataacatccatctgcaga----ctttcctgattccTTTTTGACTATATTTGCTATCATACTGCATTTGAAAGAATGGCATACTCAACTTTCTTTTTCAAAATAGCTTTATTATTTTTATAAAAA-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16299481 464 +  18395747 ttttgttggatagacgaaC--AAATAAACAAGAT---------------ACATATTTTGAAGAATT------------------------------TAAAGTT-AATGAGGTAAC------------------ATTGAGACATTTATTAATTGTTTTATTATAAATATCAAATTTCCATTTG-TAAAAAGCAAATACTTTT-TTGAGGAAAGAGGTAGAGAATTTTCCTAAATTATTAATT--GTTTCTATAAAATATAAATAACATTTGTATTATAGTCAAGGAAGGCCTTTTTAACATGATGTGATTTAAACCCAAAGCTGTACAGCAAcatatgtt---cttccctctgcctgaaatgaaccttgcttcctttctccaggctaaattcccttatccttcaagacttagtgtggttataacatccatctgcaga----ctttcctgattccTTTTTGACTATATTTGCTATCATACTGCATTTGAAAGAATGGCATACTCAACTTTCTTTTTCAAAATAGCTTTATT-TTTTTATAAAAA-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5311922 465 +  26952557 ttttgttggatagacgaaC--AAATAAACAAGAT---------------ACATATTTTGAAGAATT------------------------------TAAAGTT-AATGAGGTAAA------------------ATGGAGACATTTATTAATTGTTTTATTATAAATATCACATTTCCATTTG-TAAAAAGCAAATACTTTT-TTGAGGAAAGAGGTAGAGAATTTTCCTAAATTATTAATT--GTTTCTATAAAATATAAATAACATTTGTATTATAGTCAAGGAAGGCCTTTTTAACATGATGTGATTTAAACCCAAAGCTGTACAGCAAcatatgtt---cttccctctgcctgaaatgaaccttgcttcctttctccaggctaaattcccttatccttcaagacttagtgtggttataacatccatctgcaga----ctttcctgattccTTTTTGACTATATTTGCTATCATACTGCATTTGAAAGAATGGCATACTCAACTTTCTTTTTCAAAATAGCTTTATTATTTTTATAGAAA-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28412577 459 +  82825804 ttttgttggatagatgaaC--AAATAAACAAGAT---------------ACATATTTTGAAGAATT------------------------------TAAAGTT-AATGAGGTAAA------------------ATTGAGACATTTATTAATTGTTTTATTATAAATATCAAATTTCCATTTG-TAAAAAGCAAATACTTTT-TTGAGGAAAG----AGAGAATTTTCCTAAATTATTAATT--GTTTCTATAAAATATAAATAACATTTGTATTATAGTCAAGGAAGGCCTTTTTAACATGATATGA-TTAAACCCAAAGCTGTACAGCAAcatatgtt---ctttcctctgcctgaaatgaaccttgcttcccttctccaggctaaattcccttatccttcaggacttagtgtggttgtaacatccatctgcaga----ctctcctgattcc-ttttgactaTATTTGGTATCATACTGCATTTGAAAGAATGGCATACTCAACTTTCTTTTTCAAAATAACTTTATTATTTTTATAAAAA-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4082444 465 -   4237731 ttttgttggatagacgaaC--AAATAAACAAGAT---------------ACATATTTTGAAGAATT------------------------------TAAAGTT-AATGAGGTAAA------------------ATTGAGACATTTATTAATTGTTTTATTATAAAGATCAAATTTCCATTTG-TAAAAAGCAAATACTTTT-TTGAGGAAAGAGGTAGAGAATTTTCCTAAATTATTAATT--GTTTCTATAAAATATAAATAACATTTGTATTATAGTCAAGGAAGGCCTTTTTAACATGATGTGATTTAAACCCAAAGCTGTACAGCAAcatatgtt---cttccctctgcctgaaatgaaccttgcttcctttctccaggctaaattcccttatccttcaagacttaatgtggttataacatccatctgcaga----ctttcctgattccTTTTTGACTATATTTGCTATCATACTGCATTTGAAAGAATGGCATACTCAACTTTCTTTTTCAAAATAGCTTTATTATTTTTATAGAAA-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      350978 464 -   1175262 ttttgttggatagacgaaC--AAATAAACAAGAT---------------ACATATTTTGAAGAATT------------------------------TAAAGTT-AATGAGGTAAA------------------ATTGAGACATTTATTAGTTGTTTTATTATAAATATCAAATTTCAATTTG-TAAAAAGCAAATACCTTT-TTGAGGAAAGAGGTAGAGAATTTTCCTAAATTATTAATT--GTTTCTATAAAATATAAATAACATTTGTATTATAGTCAAGGAAGGCCTTTTTAACATGATGTGATTTAAACCGAAAGCTGTACAGCAAcatatgtt---cttccctctgcctgaaatgaaccttgcttcctttctccaggctaaattcccttatccttcaagacttagtgtggttgtaacatccatctgccga----ctttcctgattcc-TTTTGATTATATTTGGTATCATACTGCATTTGAAAGAGTGGCATACTCAACTTTCTTTTTCAAAATAGCTTTATTATTTTTATAAAAA-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123699111 467 - 204313951 ttttgttggatagatgaaCAAAAATATATAAGAT---------------ATATATTTTGAAGAACT------------------------------GAAAACG-AATGAGGTCAA------------------ACTGAGTCATTTATTAGTTGTTTTATTATAAATCTCAAATTTCTATTTGAAAAAAAGCAAATACTTTT-TTGAGGAAAGAGGTAGAGAATTTTCCTAAATTATTAATT--GTTTCTATAAAATATAGATAACATTTGTATTATAGTCAAGGAAGGCCTTTTTAACGTGATGTGATTTAAACCCAAAGCTGTACAGCAAcatatgtt---cttccctctgcctgaaatgaaccttgcttcctttctccaggctaaattctcgtatcctttaagacttagtgtggttgtaacattcatctgcaga----cttttcAGATTCT-TTTTGTCTGTATTTGGCTTCATTCTCCATTTGAAAGGATGGCATACTCAACTTTCTTTTTCAAGAAAGCTTTATTATTTTTATAAAAA-
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55743239 464 -  71252344 ttttgttggatagatgaaC--AAATATACAAGAT---------------ATATATTTTGAAGAATT------------------------------TAAAACT-AACGAGGTCAA------------------ACTGAGTCATTTATTAGTTGTTTTATTATAGATCTCAAATTTCTATTTG-AAAAAAGCAAATACTTTT-TTGAGGAAAGAGGTAGAGAATTTTCCTAAATTATTAATT--GTTTCTATAAAATATAAAGAACATTTGTATTATAGCCAAGGAAAGCCTTTTTAACGTGATGTGATTTAAACCCAAAGCCATACAGCAAcatatgtt---cttccctctgcctgaaatgaaccttgcttcctttctccaggctaaattcccttatcctttaagacttagtgtggttgtaacattcatctgcaga----ctttcctgattcT-TTTTGTCTGTATTTGGCACCATATTCCATTTGAAAGAATGGCATACTCAACTTTCTTTTTCAAAAGAGCTTTATTACTTTTATAAAAA-
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107590v1       46721 463 -   3089952 ttttgttggatagatgaaA--AAATATACAAGAT---------------ATATATTTTGAAGAATT------------------------------TAAAAC--AATGAGGTCAA------------------ATTGAGTCATTTATTAGTTGTTTTATTATAAACCTCATATTTCTATTTG-AAAAAAGCAAAAGCTTTT-TTGAGGAAAGAGGTAGAGAATTTTCCTAAATTATTAATT--GTTTCTATAAAATATAAATAACATTTGTATTATAGTCAAGGAAGGCCTTTTTAACGTGATGTGATTTAAACCCAAAGCTGTACAGCAAcatatgtt---cttccctctgcctgaaatgtacctcgcttcctttctccaggctaaattcccttatcctttaagacttagtgtggttgttacattcatctgcaga----ctttcctgattct-ttttgtctgtatttggcgtcatactcCATTTGAAAGAAAGGCATACTCAACTTTCTTTTTCAAAAGAGCTTTATTATTTTTATAAAAA-
i cebCap1.NW_016107590v1   C 0 I 1
s aotNan1.NW_018505940v1    13246998 464 -  42888418 ttttgttggatagatgaaC--AAATACACAAGAT---------------ATATATTTTGAAGAATT------------------------------TAAAACT-AACGAGGTCAA------------------ATTGAGTCATTTATTAGTTGTTTTATTATAAATCTCAAATTTCTATTTG-AAAAAAGCAAATCCTTTT-TTGAGGAAAGAGGTAGAGAATTTTCCTAAATTATTAATT--GTTTCTATAAAATATAAATAACATTTGTATTATAGCCAAGGAAGGACTTTTTAATGTGATGTGATTTAAACCCAAAGCTGTAAAGCAAcatatgtt---cttcccactgcctgaaatgaaccttgcttcctttctccaggctaaattcccttatcctttaagacttagtgtggttgtaacattcatctgcaga----ctttcctgattcT-TTTTGTCTGTATTTGGCATCATACTCCATTTGAAAGAATGGCATACTCAACTTTCTTTTTCAAAAGAGCTTTATTATTTTTATAAAAA-
i aotNan1.NW_018505940v1   C 0 I 1
s micMur3.chr12             60585325 468 + 108143057 TTTTGTTGGATAGATGAAC--AAATAACCAAGAT---------------AAATGTTTTT-AGAAGT------------------------------TAAAATT-ACTGAGATCAA------------------GTTGAGTGA-TTATTAGCTATTTCACGATAAATCTCAAATTTACATTTT-AAAAAAGTAAATACATTT-TTGAGAAAAGAGGTAGGGAATTTTCCTAAATTATTAATTAAGTTTTTATAAAATATAAATCACATTTGTATTATAGTTCGGAAAGGCCTATCTAAC---ATATGATTTAAACTCAAAGCTATATAGCAACGTATTCTCctctttcctttgcctgaaatgaaccttctttccttcctccaggctaaatttccttatctttcaggactcagcgaagttgtagcatccatctgcagggtacatttcctgatttc-tttcgtctgggtATGGCATCGTACTGCATTTGAAAAAATGGCATATTCAATTTTCTTTTTCAAAATAGCTTTATTATCTTTATTAAAA-
i micMur3.chr12            C 0 I 247
s proCoq1.NW_012155062v1     3620878 471 +  11683526 TTTTGTTGGATAGATGAGC--AAATAAACAAGAT---------------AAATGTTTTT-AGAAGT------------------------------TAAAATT-ACTGAGGTCAA------------------GTCGAGCCA-TTATTAGCCATTTCATGATAAATCTCAAATTTCCATTTT-AAAAAAGTAAATACATTT-TTGAGAGAAGAGGTAGGGAATTTTCCTAAATTATTAATTAAGTTTCTATAAAATATAAATCACATTTGTATTATAGTTCCGGAAGGCCTATCTAACATGATATGATTTAAACTCAAAGCTATATAGCAACATATCCTCctctttcctttgcctgaaatgaaccttccttccttcctccaggctaaatttccttatccttcagaactcagtgacgttgtagcatccatctgcagggtagatttcctgatttc-ttttgtctgggtATGACATCATACTGCATTTGAAAAAATGGTATATTCAATTTTCTTTTTCAAAATAGCTTTATTATCTTTATTAAAA-
i proCoq1.NW_012155062v1   C 0 I 121
s otoGar3.GL873679           3110873 469 +   4132165 TTTTGTTGGATAGATGAAC--AAATAAACAAGAT---------------AAATGTTTTT-AGAAAT------------------------------TAAAATTCACTGATGTCAAGTCAGGCCATTATTAGTTGTCAGGCCA-TTATTAGCTATCTTATGATAAATCTTAAATTTCCATTTT-AAAAAAGTAGATACTTTT-CTGAGGGAAGAAGTAGAGAATTTTCCTAGACTATTACTTAAGCTTATATAAAGTATACATCACATTTGTATCATAGTTAGGGAAGACTT-TCTAACTTGATATGATTTAAGCCCAAAGCTACATCTCAACATAACCTTGGCtttcctttacctgaaatgaaccttactccctttctccaggctaaatccccttaaccttcaggactcagAATAGTCGTAGC-----------------CCTTCCCCATTTC-TGTTGTCTGT---TGACATCATACCACATTTTAAAAAAAGGCATATTCAATTTTCTATTTCAAAATGGCTTTAATGTCTTTACAAAAA-
i otoGar3.GL873679         C 0 I 4
s mm10.chr18                55540674 447 +  90702639 TTTTG-TGGTTCCATGAAC--AAATGAACAAGAT---------------GAGTCTTTTC-TGAGGT------------------------------TAATATT-AATGAGGTTGA------------------GTTGGGACATTTATTAGAAGCTTGATTGCAAATTTCAATTGTTTACTTT-AAAAGAGTAAATGCTTTTCTTGAGAGAAGAGGTAGAGAATTTTCCTAAATTATTAA----GTCCCTGTGAAATATAATTAACAGTTGTATTATAGTGGGGGAAGGCATTTTTAAGGTGACCTAATTTAAACCCAAAGCCACATAGGAAtacacatt---tttcctcctgcctgacatg-gccttgcttcttt--ttcaggcaaaattcttttgtccttcaagatccagtgt--ttgtggcatcc-tctgcagg-----------aaggtt-tAAGGGTAGCAGGATGCCACAAACTGGATTTAGAAAAGTAGCATA-TGGACTTACTTTGTCAAATTATCTTTATTATACTTGTAACTC-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14951608 476 +  74389097 TTTTATTGACTAGATGAAC--AAATAAACAAGATTGTTGTTTATTATTCAAATATTGTC-AAAAGT------------------------------GAAAATG-AATGAGATCAC------------------ACTGAACCATTTAATAACTGTTTTATTATAAATCCCAAATTTCAATTTT-AAAAAAGTAA----TTTT-TTGAAGGAGGAGGTAGAGAATTTCCCTCAATTATTCATCAAATCTCTACAAAATATAAATAACATTAGTCTTATAGTCAGGAAAGGCATGTCT-TCGTGGTCTGATTTAAACTGAAAGCTAAAGAACAATGTatgct---cttccct----ctgaaatgaatctggctttccggctccaggctaaatccccttatccttcaagactcagcatagttgtaacattgatctgcaggtagccttttctgattcc-ttttgtctgggtTTCGTGGCACACTGCATTTGAAAGTATGGCACATCCAGTTTTCTTTTTCAAAAAATCCTTGCTGTTTTTACAAAAAA
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2676047 2011 +   3667625 I

a score=461321.000000
s hg38.chr5_KI270796v1_alt    126471 51 +    172708 TAATATATGCTTACTTAAGAAGAGTGAAATAATATGTTATATGACAATGAC
s panTro5.chr5             125230145 51 + 181907262 TAATATATGCTTACTTAAGAAGAGTGAAATAATATGTTATATGACAATGAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126566868 51 + 183735486 TAATATATGCTTACTTAAGAAGAGTGAAATAATATGTTATATGACAATGAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1758673 51 +   8933513 TAATATATGCTTACTTAAGAAGAGTGAAATAATATGTTATATGACAATGAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139892919 46 + 163208435 TAATATATGCTTACTT-----GAGTGAAATAATATGTTATATGACAATGAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122877641 47 + 180051392 TAATATATGCTTA----AGAAAAGTGAAATAATATGTTATATGACAATGAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124301268 47 + 181584905 TAATATATGCTTA----AGAAAAGTGAAATAATATGTTATATGACAATGAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16299945 47 +  18395747 TAATATATGCTTA----AGAAAAGTGAAATAATATGTTATATGACAATGAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5312387 47 +  26952557 TAATATATGCTTA----AGAAAAGTGAAATAATATGTTATATGACAATGAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28413036 47 +  82825804 TAATAAATGCTTA----AGAAGAGTGAAATAATATGTTATATGACAATGAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4082909 47 -   4237731 TAATATGTGCTTA----AGAAAAGTGAAATAATATGTTATATGACAATGAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      351442 47 -   1175262 TAATATATACTTA----AGAAGAGTGAAATAATATGTTATATGACAATGAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123699579 46 - 204313951 TAATACATGCTTACTTAAGAAGAGTGAAATAA-----TATATTACAATGAT
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55743704 45 -  71252344 TAATACATGCTTACATAAGAAGAGTG-AATAA-----TATATGACAATGAT
i saiBol1.JH378106         I 1 C 0
s cebCap1.NW_016107590v1       47185 46 -   3089952 TAATTCATGCTTACTTAAGAAGAGTGAAATAA-----TATATGACAATGAT
i cebCap1.NW_016107590v1   I 1 C 0
s aotNan1.NW_018505940v1    13247463 46 -  42888418 TAATACATGCTTACTTAAGAAGAGTGAAATAA-----TATATGACAATGAT
i aotNan1.NW_018505940v1   I 1 C 0
s otoGar3.GL873679           3111346 38 +   4132165 AAAAACATGTTTA----AGAAGAGT---ACAATATGTTACATGAC------
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55541121 45 +  90702639 --AAAGATATTGG----AGAAGAGAAAAATACTGTGTCACCAGACAATGAC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14952084 46 +  74389097 GAGTGCATGCTTATTTAAGAAGAGTAACATAA-----TATATGGCAATGGT
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60585793 247 + 108143057 I
e proCoq1.NW_012155062v1     3621349 121 +  11683526 I
e dasNov3.JH567306           2676047 2011 +   3667625 I

a score=63459.000000
s hg38.chr5_KI270796v1_alt    126522 5 +    172708 TATtg
s panTro5.chr5             125230196 5 + 181907262 TATtg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126566919 5 + 183735486 TATtg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1758724 5 +   8933513 TATtg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139892965 5 + 163208435 TATtg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122877688 5 + 180051392 TATtg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124301315 5 + 181584905 TATtg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16299992 5 +  18395747 TATtg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5312434 5 +  26952557 TATtg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28413083 5 +  82825804 TATtg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4082956 5 -   4237731 TATtg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      351489 5 -   1175262 TATtg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123699625 5 - 204313951 TATtg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55743749 5 -  71252344 TATtg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       47231 5 -   3089952 TATtg
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13247509 5 -  42888418 TATtg
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3111384 5 +   4132165 TACTG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55541166 5 +  90702639 TTCTG
i mm10.chr18               C 0 C 0
e micMur3.chr12             60585793 247 + 108143057 I
e canFam3.chr11             14952130 0 +  74389097 C
e proCoq1.NW_012155062v1     3621349 121 +  11683526 I
e dasNov3.JH567306           2676047 2011 +   3667625 I

a score=242368.000000
s hg38.chr5_KI270796v1_alt    126527 26 +    172708 tattagtccgttctcctgctgctata---
s panTro5.chr5             125230201 26 + 181907262 tattagtccgttctcctgctgctata---
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126566924 26 + 183735486 tattagtccgttctcctgctgctata---
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1758729 26 +   8933513 tattagtccgttctcctgctgctata---
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139892970 26 + 163208435 tattagtccgttttcccgctgctata---
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122877693 26 + 180051392 tattagtccgttctcccactgctata---
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124301320 26 + 181584905 tattagtccgttctcccactgctata---
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16299997 26 +  18395747 tattagtccgttctcccactgctata---
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5312439 26 +  26952557 tattagtccgttctcccactgctata---
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28413088 26 +  82825804 tattagtccattctcccactgctata---
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4082961 26 -   4237731 tattagtccgttctcccactgctata---
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      351494 26 -   1175262 tattagtccattctcccactgctata---
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123699630 26 - 204313951 aattactttgttctcacactgctata---
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55743754 26 -  71252344 tattagtttgttctcacactgctata---
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       47236 26 -   3089952 tattagtttgttctcacactgctata---
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13247514 26 -  42888418 tattagtttgttctcacactgctata---
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55541171 26 +  90702639 ---AAACCTTGCTTTCTACTACTAAAATA
i mm10.chr18               C 0 I 922
e micMur3.chr12             60585793 247 + 108143057 I
e canFam3.chr11             14952130  0 +  74389097 C
e proCoq1.NW_012155062v1     3621349 121 +  11683526 I
e otoGar3.GL873679           3111389  0 +   4132165 C
e dasNov3.JH567306           2676047 2011 +   3667625 I

a score=3262158.000000
s hg38.chr5_KI270796v1_alt    126553 345 +    172708 aaggactgccagatactgggtaatttataaaggaaagagatttaattgactaaaagttcagcatggctggggaggcctcaggaaacttacaatcatggtagaatgggaagcaaacacatccttcttcacatga-------------------------------tggcaggaaggagaagtataagcagggg-aatgccagatgcttataaaaccatcaggtctcctgagaactcacacagtatcacgagaacaccatggggtaaagtgctcccatgattcaattatctccacctggtccatctcatgacagatgaggattatgggaactccaattcaagatgagatttgggt-gggacacaaccaaaccatatcaAC
s panTro5.chr5             125230227 345 + 181907262 aaggactgccagatactgggtaatttatagaggaaagagatttaattgactaaaagttcagcatggctggggaggcctcaggaaacttacaatcatggtagaatgggaagcaaacacatccttcttcacatga-------------------------------tggcaggaaggagaagtataagcagggg-aatgccagatgcttataaaaccatcaggtctcctgagaactcacatagtatcacaagaacaccatggggtaaagtgctcccatgattcaattatctccaccttgtccatctcatgacagatgaggattatgggaactccaattcaagatgagatttgggt-gggacacaaccaaaccatatcaAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126566950 345 + 183735486 aaggactgccagatactgggtaatttataaaggaaagagatttaattgactaaaagttcagcatggctggggaggcctcaggaaacttacaatcatggtagaatgggaagcaaacacatccttcttcacatga-------------------------------tggcaggaaggagaagtataagcagggg-aatgccagatgcttataaaaccatcaggtctcctgagaactcacatagtatcacaagaacaccatggggtaaagtgctcccatgattcaattatctccacctcgtccatctcatgacagatgaggattatgggaactccaattcaagatgagatttgggt-gggacacaaccaaaccatatcaAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1758755 345 +   8933513 aaggactgccaaatactgggtaatctataaaggaaagagatttaattgactaaaagttcagcatggctggggaggcctcaggaaacttacaatcatggtagaatgggaagcaaacacatccttcttcacatga-------------------------------tggcaggaaggagaagtataagcagggg-aatgccagatgcttataaaaccatcaggtctcctgagaactcacacagtatcacaagaacaccatggggtaaagtgctcccatgattcaattatctccacctggttcatctcatgacagatgaggattatgggaactccaattcaagatgagatttgggt-gggacacagccaaaccatatcaAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139892996 342 + 163208435 aaggactgcctgatactgggtaatttataaaggaaagagatttaactgactaaaagttcagcatggctggggaggcctcaggaaacttacaatcatggcagaatgggaagcaaacacgtccttcttcatgtga-------------------------------tggcagga---agaagtataagcagggg-aatgccagatgcttataaaaccgtcagatctcctgagaactcactcagtatgacaagaacaccatggagtaaactgctcccatgattcaattatctccacctagtccatcccatgacagatggggattatgggaactacaattcaagatgagatttgggt-gggacacagccaaaccatatcaAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122877719 342 + 180051392 aaggactgcctgatactggataatttataaaggaaagaggtttaattgactcacagtgcagcatgactggggaggcctcaggaaacttacaaccattgcagaatgggaagtaaacacatccttcttcacatga-------------------------------tggcaggaaggagaaatataagaaggggaaatgccagatgcttataaaactgtcagatctcgtgaga----actcagtatcacgagaacaccatagggtaaactgctcccattattccattatctccacctggtccatccaatgacagatggggattatgggaacaacaattcaagatgagatctgggt-gggacacggccaaaccatatcaAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124301346 346 + 181584905 aaggactgcctgatactggataatttataaaggaaagaggtttaattgactcacagtgcagcatgactggggaggcctcaggaaacttacaaccattgcagaatgggaagtaaacacatccttcttcacatga-------------------------------tggcaggaaggagaaatataagcaggggaaatgccagatgcttataaaactgtcagatctcgtgagaactcactcagtatcacgagaacaccatggggtaaactgctcccattattccattatctccacctggtccatccaatgacagatggggattatgggaacaacaattcaagatgagatctgggt-gggacacggccaaaccatatcaAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16300023 346 +  18395747 aaggactgcctgatactggataatttataaaggaaagaggtttaattgactcacagtgcagcatgactggggaggcctcaggaaacttacaaccattgcagaatgggaagtaaacacatccttcttcacatga-------------------------------tggcaggaaggagaaatataagcaggggaaatgccagatgtttataaaactgtcagatctcgtgagaactcactcagtatcacgagaacaccatggggtaaactgctcccattattccattatctccacctggtccatccaatgacagatggggattatgggaacaacaattcaagatgagatctgggt-gggacacggccaaaccatatcaAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5312465 344 +  26952557 aaggactgcctgatactggataatttataaaggaaagaggtttaattgactcacagtgcagcatgactggggaggcctcaggaaacttacaaccattgcagaatgggaagtaaacacatccttcttcacatga-------------------------------tggcaggaaggagaaatataagcaggggaaatgccagatgcttataaaac--tcagatctcgtgagaactcactcagtatcacgagaacaccatggggtaaactgctcccattattccattatctccacctggtccatccaatgacagatggggattatgggagcaacaattcaagatgagatctgggt-gggacacggccaaaccatatcaAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28413114 342 +  82825804 aaggactgcctgatactggataatttataaaggaaagaggtttaattgactcacagtgcagcatggctggggaggcctcaggaaacttacaaccattgcagaatgggaagtaaacacatccttcttcacatga-------------------------------tggcaggaaggagaaatataagcaggggaaatgccagatgcttataaaactatcagatctcgtgaga----actcagtatcacgagaacaccatggggtaaactgctcccattattccattatctccacctggtccatccaatgacagatggggattatggaaacaacaattcaggatgagatctgggt-gggacacggccaaaccatatcaAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4082987 344 -   4237731 aaggactgcctgatactggataatttataaaggaaagaggtttaattgactcacagtgcagcatgactggggaagcctcaggaaacttacaaccattgcagaatgggaagtaaacacatccttcttcacatga-------------------------------aggcaggaaggagaaatataagcaggggaaatgccagatgcttataaaac--tcagatctcgtgagaactcactcagtatcacgagaacaccatggggtaaactgctcccattattccattatctccacctggtccatccaatgacagatggggattatgggaacaacaattcaaggtgagatctgggt-gggacacggccaaaccatatcaAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      351520 341 -   1175262 aaggactggctgatactggataatttgtaaaggaaagaggtttaattgacccacagtgcagcatggctggggaggcctcaggacacttacaaccattgcagaatgggaagtaaacacatccttcttcacatga-------------------------------tggcaggaaggagacatataagcaggggaaatgccagatgcttataaaactatcagatctcgtgagaactcactcagtatcacaagaacaccatggggtaaactgctcccattattccattatctccacctggtccatccaatgacagatgggaattatgggaacaacaa-----gatgagatctgggt-gggacacggccaaactatatcaAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123699656 347 - 204313951 atggactgcctgagactgggtaagttataaaggaaagaggtttaattgactcacagttcagcatggctggggaggcctcaggaaacatacaatgatagcagaaggggaagcaaacacatccttcttcatatga-------------------------------tggcaggaaggacaagtacaagcaggggaaatgccagatgcttataaaaccatcagatctagtgaaaagtcattcactatcacaagaacaccatgggataaactgcccccatgattcaattatctccacctggtctgccccatgacacatgaggattatgggaactacaattcaagaagagatttgggtaggaacacagccaagccatatcaAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55743780 378 -  71252344 atggactgcctgagactgggtaagttataaaggaaagaggtttaattgactcacagttcagcagggctagggaggcctcaggaaacatacaatcatggcagaaggggaagtaaacacatccttcttcccacgatggcaggaaggacaagtacaagcaggggagatggcaggaaggacaagtacaagcaggggaaatgccagatgcttataaaaccatcagatctagtgagaagtcattcactatcacaagaacaccatgggataaactgcccccgtgattcaattatctccacttggtctgccccatgacacatggggattacgggaactacaattccagatgagatttgggtaggaacacaaccaaaccatatcaAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       47262 347 -   3089952 atggactgcctgagactgggtaagttataaaggaaagaggtttaattgactcacagttcagcatggctggggaggccacaggaaacatacaatcatggcagaaggggaagcaaacacacccttcttcacatga-------------------------------tggcaggaaggacaagtacaagcagaggaaatgccagatgcttataaaaccatcagatctaatgagaagtcattcactatcacaagaacaccatgggataaactgcccccatgattcaattatctccacctggtccgccccatgacacatggggattctgggaactacaattcaagatgagatttggttaggaacacagccaaaccatatcaAC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13247540 347 -  42888418 atggactgcctgagactgggtaagttataaaggaaagaggtttaattgacttacagttcagcatggctggggaggcctcaggaaacttaaaatcatggcagaaggggaagcaaacacacccttcttcacatga-------------------------------tggcagaaaggacaagtacaagcaggggaaatgccagatgcttataaaaccatcagatctagtgagaagtcattcagtatcacaagaacaccatgggataaactgcccctgtgattcaattatctccacctggtctgccccatgacacatggggattatgggaactacaattcaagatgagatttgggtaggaacacagccaaaccatatcaAC
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60585793 247 + 108143057 I
e canFam3.chr11             14952130   0 +  74389097 C
e proCoq1.NW_012155062v1     3621349 121 +  11683526 I
e otoGar3.GL873679           3111389   0 +   4132165 C
e dasNov3.JH567306           2676047 2011 +   3667625 I
e mm10.chr18                55541197 922 +  90702639 I

a score=43157.000000
s hg38.chr5_KI270796v1_alt    126898 5 +    172708 TATTA
s panTro5.chr5             125230572 5 + 181907262 TATTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126567295 5 + 183735486 TATTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1759100 5 +   8933513 TATTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139893338 5 + 163208435 TATTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122878061 5 + 180051392 TATTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124301692 5 + 181584905 TATTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16300369 5 +  18395747 TATTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5312809 5 +  26952557 TATTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28413456 5 +  82825804 TATTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4083331 5 -   4237731 TATTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      351861 5 -   1175262 GATTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123700003 5 - 204313951 AATTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55744158 5 -  71252344 AATTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       47609 5 -   3089952 AATTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13247887 5 -  42888418 GATTA
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14952130 5 +  74389097 TACAA
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60585793 247 + 108143057 I
e proCoq1.NW_012155062v1     3621349 121 +  11683526 I
e otoGar3.GL873679           3111389 0 +   4132165 C
e dasNov3.JH567306           2676047 2011 +   3667625 I
e mm10.chr18                55541197 922 +  90702639 I

a score=666289.000000
s hg38.chr5_KI270796v1_alt    126903 68 +    172708 AATTATTT-CTTTCTGTTACTAAAGTACTTAAATAAGTGATTGTCAAATTTGAGTC-TCACTCCAACAGG
s panTro5.chr5             125230577 68 + 181907262 AATTATTT-CTTTCTGTTACTAAAGTACTTAAATAAGTGATTGTCAAATTTGAGTC-TCACTCCAACAGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126567300 68 + 183735486 AATTATTT-CTTTCTGTTACTAAAGTACTTAAATAAGTGATTGTCAAATCTGAGTC-TCACTCCAACAGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1759105 68 +   8933513 AATTATTT-CTTTCTGTTACTGAAGTACTTAAATAAGTGATTGTCAAATTTGAGTC-TCACTCCAACAGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139893343 68 + 163208435 AATTATTT-CTTTCTGTTACTAAAGTACTTAAATAAGTGATTGTCAAATTTAAGTC-TCACTCCAACAGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122878066 68 + 180051392 AATTATTT-CTTTCTGTTACTAAAGTACTTAAATAAGTGATTGCCAAATTTAAGTC-TCATTCCAACAGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124301697 68 + 181584905 AATTATTT-CTTTCTGTTACTAAAGTACTTAAATAAGTGATTGCCAAATTTAAGTC-TCATTCCAACAGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16300374 68 +  18395747 AATTATTT-CTTTCTGTTACTAAAGTACTTAAATAAGTGATTGCCAAATTTAAGTC-TCATTCCAACAGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5312814 68 +  26952557 AATTATTT-CTTTCTGTTACTAAAGTACTTAAATAAGTGATTGCCAAATTTAAGTC-TCATTCCAACAGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28413461 68 +  82825804 AATTATTT-CTTTCTGTTACTAAAGTACTTAAATAAGTGATTGTCAAATTTAAGTC-TCACTCCAATAGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4083336 68 -   4237731 AATTATTT-CTTTCTGTTACTAAAGTACTTAAATAAGTGATTGCCAAATTTAAGTC-TCATTCCAACAGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      351866 68 -   1175262 AATTATTT-CTTTCTGTTACTAAGGTACTTAAATAAGTGATTGTGAAATTTAAGTC-TCATTCCTACAGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123700008 62 - 204313951 AATTATTTCCTTTATGTTACT-AAGTTCTTAAATG------TGTCAAGTTTAAGTC-TCACACCAATAGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55744163 63 -  71252344 AATTATTTCCTTTATGTTACTAAAGTACTTAAATG------TGTCAAGTTTAAGTC-TCACACCAATAGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       47614 63 -   3089952 AATTATTTCCTTTATGTTACTAAAGTACTTAAATG------TATCAAGTTTAAGTC-TCACACCAATAGG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13247892 63 -  42888418 AATTATTTCCTTTATGTTACTAACGTACTTAAATG------TGTCAAGTTTAAGTC-TCACACCAATAGG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3111389 70 +   4132165 AAGTATTTCCTTCCTGTTACTACGCTGATTAAATGAGTGATTGTCAAGTAGAAGTCATTGCAGTAACAAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14952135 61 +  74389097 AATTATTCTCTTCCTGCTAATAAAGTATTTAAGTGAGTAACTGCCAAA---------TGATAAGAACAGG
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60585793 247 + 108143057 I
e proCoq1.NW_012155062v1     3621349 121 +  11683526 I
e dasNov3.JH567306           2676047 2011 +   3667625 I
e mm10.chr18                55541197 922 +  90702639 I

a score=559264.000000
s hg38.chr5_KI270796v1_alt    126971 40 +    172708 TCTAAAAGCAGAAGAAGGTGCAGCTACAGGTTCTTGCAAA
s panTro5.chr5             125230645 40 + 181907262 TCTAAAAGCAGAAGAAGGTGCAGCTACAGGTTCTTGCAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126567368 40 + 183735486 TCTAAAAGCAGAAGAAGGTGCAGCTACAGGTTCTTGCAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1759173 40 +   8933513 TCTAAAAGCAGAAGAAGGTGCAGCTACAGGTTCTTGCAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139893411 40 + 163208435 TCTAAAAGCAGTAGAAGGTGCAGCTTCAGGTTCTTGCAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122878134 40 + 180051392 TCTAAAAGCAGAAGAAGGTGCAGCTACAGGTTCTTGCAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124301765 40 + 181584905 TCTAAAAGCAGAAGAAGGTGCAGCTACAGGTTCTTGCAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16300442 40 +  18395747 TCTAAAAGCAGAAGAAGGTGCAGCTACAGGTTCTTGCAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5312882 40 +  26952557 TCTAAAAGCAGAAGAAGGTGCAGCTACAGGTTCTTGCAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28413529 40 +  82825804 TCTAAAAGCAGAAGAAGGTGCAACTACAGGTTCTTGCAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4083404 40 -   4237731 TCTAAAAGCAGAAGAAGGTGCAGCTACAGGTTCTTGCAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      351934 40 -   1175262 TCTAAAAGCAGAAGAAGGTGCAGCTACAGGTTCTTGCAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123700070 40 - 204313951 TCTAGAAGCAGAAGAAGGTGCATCTACAGGTTCTTGCAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55744226 40 -  71252344 TCTAGAAGCAGAAGAAGGTGCATCTACAGGTTCTTCCAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       47677 40 -   3089952 TCTAGAAGCAGAAAAAGGTGCATCTACAGGTTCTTGCAAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13247955 40 -  42888418 TCTAGAAGCAGAAGAAGGTGCATCTACAGGTTCTTGCAAA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3621470 40 +  11683526 TCTAAAAGCAGAAGAAAGTGCAGCTACACGTTTTTGCaaa
i proCoq1.NW_012155062v1   I 121 I 37
s otoGar3.GL873679           3111459 39 +   4132165 CCTAAAAGCAGAAGAAATGTCAGCTATAGGTCCTTGCAG-
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14952196 40 +  74389097 TCTAAAAGCAGAAGAAGGTGCAGCTACAGGTTCTCATAGG
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60585793 247 + 108143057 I
e dasNov3.JH567306           2676047 2011 +   3667625 I
e mm10.chr18                55541197 922 +  90702639 I

a score=40057.000000
s hg38.chr5_KI270796v1_alt    127011 25 +    172708 C-ATTTATGC--AAAAAAAAAAAC-------------------CACG
s panTro5.chr5             125230685 24 + 181907262 C-ATTTATGC---AAAAAAAAAAC-------------------CACG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126567408 24 + 183735486 C-ATTTATGC---AAAAAAAAAAC-------------------CACG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1759213 25 +   8933513 C-ATTTATGC--AAAAAAAAAAAC-------------------CACG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139893451 26 + 163208435 C-ATTTATGCA-AAAAAAAAAAAA-------------------CACA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122878174 19 + 180051392 C-ATTTATGC--------AAAAAA-------------------CACA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124301805 19 + 181584905 C-ATTTATGC--------AAAAAA-------------------CACA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16300482 19 +  18395747 C-ATTTATGC--------AAAAAA-------------------CACA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5312922 20 +  26952557 C-ATTTATGC--------AAAAAAC------------------CACA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28413569 23 +  82825804 C-ATTAATGC----AAAAAAAAAA-------------------CACA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4083444 20 -   4237731 C-ATTTATGC-------AAAAAAA-------------------CACA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      351974 20 -   1175262 C-ATTTATGC-------AAAAAAA-------------------CACA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123700110 24 - 204313951 G-GTTTATAG---GGAAAAAAAAA-------------------CACA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55744266 22 -  71252344 G-GTTTATA-----GAAAAAAAAA-------------------CACA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       47717 22 -   3089952 GTGTTTATA------GAAAAAAAC-------------------CACA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13247995 20 -  42888418 G-GTTTATA-------GAAAAAAA-------------------CGCA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3111498 23 +   4132165 ------------------------TTTGTTGCAACCCCCCCCCCACA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14952236 18 +  74389097 ----------CTTAAGGAGAATAT-------------------CATA
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60585793 247 + 108143057 I
e proCoq1.NW_012155062v1     3621510 37 +  11683526 I
e dasNov3.JH567306           2676047 2011 +   3667625 I
e mm10.chr18                55541197 922 +  90702639 I

a score=925149.000000
s hg38.chr5_KI270796v1_alt    127036 82 +    172708 TTCTAAATACATAATAATAGA-AGACATTTTTAAGATGAGGACTCA-------CCTAAATACAAAGATTTGTTTCTTTATTTGTGCCTTG
s panTro5.chr5             125230709 82 + 181907262 TTCTAAATACATAATAATAGA-AGACATTTTTAAGATGAGGACTCA-------CCTAAATACAAAGATTTGTTTCTTTCTTTGTGCCTTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126567432 82 + 183735486 TTCTAAATACATAATAATAGA-AGACATTTTTAAGATGAGGACTCA-------CCTAAATACAAAGATTTGTTTCTTTCTTTGTGCCTTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1759238 82 +   8933513 TTCTAAATACGTAATAATAGA-AGACATTTTTAAGATGAGGACTCA-------CCTAAATACAAAGATTTGTTTCTTTCTTTGTGCCTTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139893477 82 + 163208435 TTCTAAATACATAATAATAGA-AGACATTTTTAAGATGAGGACTGA-------CCTAAATACAAAGATTTGTTTCTTTCTTTGTGCCTTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122878193 81 + 180051392 TTATAAATACATAATAATAGA-AGAC-TTTTTAAGATGAGGACTCA-------CCTGAATGCAAAGGTTTGTTTCTTTCCTTGTGCCTTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124301824 81 + 181584905 TTATAAATACATAATAATAGA-AGAC-TTTTTAAGATGAGGACTCA-------CCTGAATGCAAAGGTTTGTTTCTTTCCTTGTGCCTTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16300501 81 +  18395747 TTATAAATACATAATAATAGA-AGAC-TTTTTAAGATGAGGACTCA-------CCTGAATGCAAAGGTTTGTTTCTTTCCTTGTGCCTTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5312942 81 +  26952557 TTATAAATACATAATAATAGA-AGAC-TTTTTAAGATGAGGACTCA-------CCTGAATGCAAAGATTTGTTTCTTTCCTTGTGCCTTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28413592 81 +  82825804 TTATAAATACGTAATAATAGA-AGAC-TTTTTAAGATGAGGACTCA-------CCTGAATGCAAAGATTTGTTTCTTTCCTTGTGCCTTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4083464 81 -   4237731 TTATAAATACATAATAATAGA-AGAC-TTTTTAAGATGAGGACTCA-------CCTGAATGCAAAGATTTGTTTCTTTCCTTGTGCCTTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      351994 81 -   1175262 TTATAAATACATAATAATAGA-AGAC-TTTTTAAGGTGAGGACTCA-------CCTGAATGCAAAGATTTGTTTCTTTCCTTGTGCCTTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123700134 82 - 204313951 TTCTAAATACATAATCTTAGA-GGTCATTTTTAAGATGAGGCCTCA-------CCTTAATGCGAAGATTTGTCTCTTTCTTTGTGCCTTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55744288 82 -  71252344 TTCTAAATACATAATCTTAGA-GGACATTTTTAAGATGAGGCCTCA-------CCTTAATGCAAAGGTTTGTTTCTTTCTTTGTGCCTTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       47739 82 -   3089952 TTCTAAATACATAGTCTTAGA-GGACATTTTTAAGATGAGGCCTCA-------CCTTAATGCAAAGATTTGTTTCTTTCTTTGTGCCTTG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13248015 82 -  42888418 TTCTAAATACATAATCTTAGA-GGGCATTTTTAAGATGAGGCCTCA-------CCTCAATGCGAAGATTTGTTTTGTTCTTTGTGCCTTG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3621547 89 +  11683526 TTCTAAATATGTAATGATAGAAAGACATTTTCAAGACTAGGACTCA-CCTAAATCTAAATACCTAGATTCATTTTTTTGTTTGTACCTTA
i proCoq1.NW_012155062v1   I 37 C 0
s otoGar3.GL873679           3111521 86 +   4132165 TTCTAAATACATAATAAT----AGGCATTTTCAATGTTAAGATGCATCCAAAATCTGAATACCTACATTCATATTCTTGTTTGTACCTTA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14952254 77 +  74389097 TTCTACGTATGTAATAATAGAAAGACAGTTTCAAAA------CTTT-------TCTGAATGCCAAGATTCATTTCTTTATTTGTACCTTA
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60585793 247 + 108143057 I
e dasNov3.JH567306           2676047 2011 +   3667625 I
e mm10.chr18                55541197 922 +  90702639 I

a score=62947.000000
s hg38.chr5_KI270796v1_alt    127118 4 +    172708 TAAT
s panTro5.chr5             125230791 4 + 181907262 TAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126567514 4 + 183735486 TAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1759320 4 +   8933513 TAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139893559 4 + 163208435 TAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122878274 4 + 180051392 TAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124301905 4 + 181584905 TAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16300582 4 +  18395747 TAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5313023 4 +  26952557 TAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28413673 4 +  82825804 TAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4083545 4 -   4237731 TAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      352075 4 -   1175262 TAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123700216 4 - 204313951 TACT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55744370 4 -  71252344 TAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       47821 4 -   3089952 TAAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13248097 4 -  42888418 TAAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60586040 4 + 108143057 TAAT
i micMur3.chr12            I 247 C 0
s proCoq1.NW_012155062v1     3621636 4 +  11683526 TAAT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3111607 4 +   4132165 CAAT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14952331 4 +  74389097 TAAT
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2676047 2011 +   3667625 I
e mm10.chr18                55541197 922 +  90702639 I

a score=1320702.000000
s hg38.chr5_KI270796v1_alt    127122 90 +    172708 CTTCCCTTCTACTGCTGGTATATTGATTTAATTCTAATAGGTGTATTATTTTAATCATATTTTAGGGAAATCTTCATTTTTGCAATATGA
s panTro5.chr5             125230795 90 + 181907262 CTTCCCTTCTACTGCTGGTATATTGATTTAATTCTAATAGGTGTATTATTTTAATCATATTTTAGGGAAATCTTCATTTTTGCAATATGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126567518 90 + 183735486 CTTCCCTTCTACTGCTGGTATATTGATTTAATTCTAATAGGTGTATTATTTTAATCATATTTTAGGGAAATCTTCATTTTTGCAATATGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1759324 90 +   8933513 CTTCCCTTCTACTGCTGGTATATTGATTTAATTCTAATAGGTGCATTATTTTAATCATATTTTAGGGAAATCTTCACTTTTGCAATATGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139893563 90 + 163208435 CTTACCTTCTACTGCTGGTATATTGATTTAATTCTAACAGGTGTATTATTTTAATCATATTTTAGGGAAATCTTCATTTTTGCAATATGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122878278 90 + 180051392 CTTCCCTTCTACTGCTGGTATATTGATTTAATTCTAATAAGTGTATTAGTTTAATCATGTTTTAGGGAAATCTTCATTTTTGCAATATGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124301909 90 + 181584905 CTTCCCTTCTACTGCTGGTATATTGATTTAATTCTAATAAGTGTATTAGTTTAATCATGTTTTAGGGAAATCTTCATTTTTGCAATATGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16300586 90 +  18395747 CTTCCCTTCTACTGCTGGTATATTGATTTAATTCTAATAAGTGTATTAGTTTAATCATGTTTTAGGGAAATCTTCATTTTTGCAATATGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5313027 90 +  26952557 CTTCCCTTCTACTGCTGGTATATTGATTTAATTCTAATAAGTGTATTAGTTTAATCATGTTTTAGGGAAATCTTCATTTTTGCAATATGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28413677 90 +  82825804 CTTCCCTTCTACTGCTGGTATATTGATTTAATTCTAATAGGTGTATTAGTTTAATCATGTTTTAGGGAAATCTTCGTTTTTGCAATATGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4083549 90 -   4237731 CTTCCCTTCTACTGCTGGTATATTGATTTAATTCTAATAAGTGTATTAGTTTAATCATGTTTTAGGGAAATCTTCATTTTTGCAATATGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      352079 90 -   1175262 CTTCCCTTCTACTGCTGGTATATTGATTTAATTCTAATAGGTGTATTAGTTTAATCATGTTTTAGGGAAATCTTCATTTTTGCAATATGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123700220 90 - 204313951 CTTCCCTTCTACTGTTGGTATATTAATTTAACTCTAATAAGTGCATTACTTCAATCATATTTTAGGGAAATCTTCATTTTTGTAATATGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55744374 90 -  71252344 CTTCCCTTCTACTGTTGGTATATTGATTTAACTCTAATAAGTGTTTTATTTCAATCATATTTTAGGGAAATCTTAATTTTTGTAATGTGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       47825 90 -   3089952 CTTCCCTTCTACTGTTGGTATACTGATTTAACTCTAATAAGTGTATTATTTCAATCATATTTTAGGGAAATCTTCATTTTTGTAATATCA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13248101 90 -  42888418 CTTCCCTTCTACTGTTGGTATATTGATTTAACTCTAATAAGTGTATTATTTCAATCATATTTTAGGGAAATCTTCATTTTTGTAATATGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60586044 90 + 108143057 CTTTTCTTCTACCACTGGCATATTGGTTTAACTCTATCAATTGTATTAATTTAATTGCATTTTAGGGAAATCTCCATTTTTACAATATGA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3621640 90 +  11683526 CTTTCCTTCTACCCCTGGCATATTGGTTTAACTCTATCAGCTGTATTAATTTAACTGCATTTTAGGGAAATCTCCATTTTTGCAATATGA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3111611 90 +   4132165 CCTTCCTTCAACCCCCGACATATTGGTTTAACTCTAACAGTTACATTAATTTAATTACATTTTTGGGAAATCTCTGTTTTTGAAATATGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55542119 71 +  90702639 CTTCTCTCCCACCTCAAGTGT-----TTTAATTCAAAAAGGTGCCAGAA--------------AAAAAAATCAAGAGTTTTGTGATATAA
i mm10.chr18               I 922 I 5
s canFam3.chr11             14952335 88 +  74389097 CTTCCCTCCTCCT-CTGGCATATTGCTTTAACTCAACTTGATGTATTA-TTTAATTGTATTTTAGGAAAATAATCATTTTTGCAATATGA
i canFam3.chr11            C 0 I 207
e dasNov3.JH567306           2676047 2011 +   3667625 I

a score=1671691.000000
s hg38.chr5_KI270796v1_alt    127212 110 +    172708 ATGACATTTCTGCCTCTGAACCTGTGTCTAGCCTTAGGTGAATTCACAAACTGGACATTCTGTAAGTAGGAATGACTATTTTCCTATACATGTAAGTTGTACACATTGAT
s panTro5.chr5             125230885 110 + 181907262 ATGACATTTCTGCCTCTGAATCTGTGTCTAGCCTTAGGTGAATTCACAAACTGGACATTCTGTAAGTAGGAATGACTATTTTCCTATACATGTAAGTTGTACACATTGAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126567608 110 + 183735486 ATGACATTTCTGCCTCTGAATCTGTGTCTAGCCTTAGGTGAATTCACAAACTGGACATTCTGTAAGTAGGAATGACTATTTTCCTATACATGTAAGTTGTACACATTGAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1759414 110 +   8933513 ATGACATTTCTGCCTCTGAACCTGTGCCTAGCCTTAGGTGAATTCACAAACTGGACATTCTGTAAGCAGGAATGACTATTTTCCTATACATGTAAGTTGTACACATTGAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139893653 110 + 163208435 ATGACATTTCTGCCTCTGAACCTGTGTCTAGCCTTAGGTGAATTCACAAACCGGACATTCTGTAAGTAGGAGCGACTATTTTCCTATACGTGTAAGTTGTACACATTGAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122878368 106 + 180051392 ATGACATTTCTGCCTCTGAAACTGTGTCTAGCCTTAGGTGAATTCACAAACTGGACAT----TAAGTAGGAATGACCATTTTCCTATACATGTAAGTTGTACACATTGAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124301999 110 + 181584905 ATGACATTTCTGCCTCTGAAACTGTGTCTAGCCTTAGGTGAATTCACAAACTGGACATTCTGTAAGTAGGAATGACCATTTTCCTATACATGTAAGTTGTACACATTGAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16300676 110 +  18395747 ATGACATTTCTGCCTCTGAAACTGTGTCTAGCCTTAGGTGAATTCACAAACTGGACATTCTGTAAGTAGGAATGACCATTTTCCTATACATGTAAGTTGTACACATTGAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5313117 110 +  26952557 ATGACATTTCTGCCTCTGAAACTGTGTCTAGCCTTAGGTGAATTCACAAACTGGACATTCTGTAAGTAGGAATGACCCTTTTCCTATACATGTAAGTTGTACACATTGAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28413767 110 +  82825804 ATGACATTTCTGCCTCTGAACCTGTGTCTAGCCTTAGGTGAATTCACAAACTGGACATTCTGTAAGTAGGAACGACCATTTTCCTATACATGTAAGTTATACACATTGAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4083639 110 -   4237731 ATGACATTTCTGCCTCTGAAACTGTCTCTAGCCTTAGGTGAATTCACAAACTGGACATTCTGTAAGTAGGAATGACCATTTTCCTATACATGTAAGTTGTACACATTGAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      352169 110 -   1175262 ATGACATTTCTGCCTCTGAACCTGTGTCTAGCCTTAGGTGAATTCACAAACTGGACATTCTGTAAGTAGGAACGACCATTTTCCTATACATGTAAGTTGTACACATTGAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123700310 110 - 204313951 GTGAAATTTCTGCATCTGAACCTGTGTCTAGCCTTAGGTGAATTCACAAACAGGACATTCTGTAAGTTGGAATGACTATTTTCCTATACCTGTAAGTTGTACACATTGAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55744464 110 -  71252344 GTGACATTTCTCCATCTGAACCTGCGTCTAGCCTTAGGAGAATTCACAAACAGGACATTCTGTAAGTTGGAACGACTATTTTCCTATACATGTAAGTTGTACACATTGAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       47915 110 -   3089952 GTGACATTTCTGCATCTGAACCTGTGTCTAGCCTTAGGTGAATTCACAAACAGGACATTCTGTAAGTTGGAACGACTATTTTCCTATACATGTAAGTTGTACACATTGAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13248191 110 -  42888418 GTGACATTTCTGCATCTGAACCTGTGTCTAGCCTTAGGTGAATTCACAAACAGGACATTCTGTAAGTTGGAACGACTATTTTCCTATACATGTAAGTTGTACACATTGAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60586134 110 + 108143057 ATGACATATCTACCACTGAACCTGTGTCTAGGATTAAGTGAATTTGCAAACAGGACATTCTGTAAGCAGGAATGAATATTTTCCTATACGTGTAAATTGTACACATTGAT
i micMur3.chr12            C 0 I 23
s proCoq1.NW_012155062v1     3621730 110 +  11683526 ATGACATATCTACCTCTAAACCCATGTCTAGTATTAAGTGAATTTGCAAACAGGACATTCTGTAAGTAGGAACGAATATTTTCCTATATGTGTAAACTGTACACATTGAT
i proCoq1.NW_012155062v1   C 0 I 3
s otoGar3.GL873679           3111701  91 +   4132165 ATGACATTTCTACCTCTGAACCTATGTTTAGGATTAAGTGAATTC---------ACGTGCTGCAAGTAG----------TTTCCTACACATGTAAATTGTACACATTGAT
i otoGar3.GL873679         C 0 I 3
s mm10.chr18                55542195 104 +  90702639 ATGACATCTCTGCCTCTGCATATCTGTCCAGGTCTAAATGAATTCATAAATAGAGTATTCTATGAGGAGAAA----TATCTTCTTACACAAGTGAGTTATATTAGTTA--
i mm10.chr18               I 5 C 0
s canFam3.chr11             14952630 110 +  74389097 ATGACTTTTTAGTCTCTGAACTTCTATCTAGACTTAAGCAAATTCACAAACAGAATATTCTGTGAGTAGGAATGAACATTTTCATATACGTATGAATTGTATACACTGAT
i canFam3.chr11            I 207 C 0
e dasNov3.JH567306           2676047 2011 +   3667625 I

a score=319553.000000
s hg38.chr5_KI270796v1_alt    127322 29 +    172708 ---TACATGACTC--------------ATCT-CTCTACTACCATGGA
s panTro5.chr5             125230995 29 + 181907262 ---TACATGACTC--------------ATCT-CTCTACTACCATGGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126567718 29 + 183735486 ---TACATGACTC--------------ATCT-CTCTACTACCATGGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1759524 29 +   8933513 ---TACATGACTC--------------ATCT-CTCTACTACCATGGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139893763 29 + 163208435 ---TACATGACTC--------------ATCT-CTCTACTACCATGGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122878474 29 + 180051392 ---TACATGACTC--------------ATCT-CTCTACTACCATGGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124302109 29 + 181584905 ---TACATGACTC--------------ATCT-CTCTACTACCATGGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16300786 29 +  18395747 ---TACATGACTC--------------ATCT-CTCTACTACCATGGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5313227 29 +  26952557 ---TACATGACTC--------------ATCT-CTCTACTACTATAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28413877 29 +  82825804 ---TACATGACTC--------------ATCT-CTCTACTACCATGGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4083749 29 -   4237731 ---TACATGACTC--------------ATCT-CTCTACTACCATGGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      352279 29 -   1175262 ---TACATGACTC--------------ATCT-CTCTACTACCATGGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123700420 29 - 204313951 ---TACATGACTT--------------ATCT-GTCTACTACCATGGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55744574 29 -  71252344 ---TACATGACTT--------------GTCT-GTCTGCTACCATGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       48025 29 -   3089952 ---TACATGACTT--------------GTCT-GTCTACTACCATGAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13248301 29 -  42888418 ---TACATGACTT--------------GTCT-GTCTACTACCATGAA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3621843 24 +  11683526 ---TACATGACTT--------------GTTT-CTCTACAATC-----
i proCoq1.NW_012155062v1   I 3 C 0
s otoGar3.GL873679           3111795 27 +   4132165 ---GACATGACTT--------------GTTTCCTCTATAACCAT---
i otoGar3.GL873679         I 3 C 0
s mm10.chr18                55542299 38 +  90702639 ---TAAACAACTTAACATAGTTATGTGATGT-CTCTATTATC-----
i mm10.chr18               C 0 C 0
s canFam3.chr11             14952740 30 +  74389097 GATTACACTCCTT--------------GT---GCCCACCACCTCAGA
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60586244 23 + 108143057 I
e dasNov3.JH567306           2676047 2011 +   3667625 I

a score=7642350.000000
s hg38.chr5_KI270796v1_alt    127351 548 +    172708 GTAAAGAATGAATATTCAGGATGCCATAATTATTTAGGtcaacaaacatttattggacatttgctaaatgtgaggcattg------cgctaggtagtcagattggaaagatgaataagataaattccttactgccaaagaacttagaatttaagtaact---g-aagaggaacatatcaacCAAGGCTGCTTGGCCTTTATTTTAAAGATTCTTTAGATT-AC---CTGCACATTCTCTAAGATATAAGTC-CAGG-ACA--GGAATTCTGTCTGCTCAGGAAAATGCTCAGAATATTTTTCAGCTAGATTATATGGACTCATTGACAACAGCAG-AAAAGTCTCGACTTGGGCATAG------------TAGACTATTTGAATGCT-TTGCACTCGTTCC-ACATAC---TGATGTAAAAACTTACTTGA------ACTCTTTCAGGTATTTAAGTGACC----ATTTA-TTGAAATAAACGTGAAAG-------TTTGATAGC-AAAAACCAGTCAGACGAAGTCTGTCCTTGTATAATATAAATAGCCA-AGACCATAATAAAGACCAGAAACACTTGTACATCCT-TAATGTGTTTCTAAG
s panTro5.chr5             125231024 548 + 181907262 GTAAAGAATGAATATTCAGGATGCCATAATTATttaggtcaacaaacatttattggacatttgctaaatgtgaggcattg------cgctaggtagtcagattggaaagatgaataagataaattccttactgccaaagaacttagaatttaagtaact---g-aagaggaacatatcaacCAAGGCTGCTTGGCCTTTATTTTAAAGATTCTTTAGATT-AC---CTGCACATTCTCTAAGATATAAGTC-CAGG-ACA--GGAATTCTGTCTGCTCAGGAAAATGCTCAGAATATTTTTCAGCTAGATTATATGGACTCATTGACAACAGCAG-AAAAGTCCCGACTTGGGCATAG------------TAGACTATTTGAACGCT-TTGCACTCGTTCC-GCATAC---TGATGTAAAAACTTACTTGA------ACTCTTTCAGGTATTTAAATGACC----ATTTA-TTGAAATAAACGTGAAAG-------TTTGATAGC-AAAAACCAGTCAGACGAAGTCTGTCCTTGTATAATATAAATAGCCA-AGACCATAATAAAGACCAGAAACACTTGTACATCCT-TAATGTGTTTCTAAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126567747 548 + 183735486 GTAAAGAATGAATATTCAGGATGCCATAATTATttaggtcaacaaacatttattggacatttgctaaatgtgaggcattg------cgctaggtagtcagattggaaagatgaataagataaattccttactgccaaagaacttagaatttaagtaact---g-aagaggaacatatcaacCAAGGCTGCTTGGCCTTTATTTTAAAGATTCTTTAGATT-AC---CTGCACATTCTCTAAGATATAAGTC-CAGG-ACA--GGAATTCTGTCTGCTCAGGAAAATGCTCAGAATATTTTTCAGCTAGATTATATGGACTCATTGACAACAGCAG-AAAAGTCCCGACTTGGGCATAG------------TAGACTATTTGAATGCT-TTGCACTCGTTCC-GCATAC---TGATGTAAAAACTTACTTGA------ACTCTTTCAGGTATTTAAATGACC----ATTTA-TTGAAATAAACGTGAAAG-------TTTGATAGC-AAAAACCAGTCAGACGAAGTCTGTCCTTGTATAATATAAATAGCCA-AGACCATAATAAAGACCAGAAACACTTGTACATCCT-TAATGTATTTCTAAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1759553 548 +   8933513 GTAAAGAATGAATATTCAGGATGCCATAATTATttaggtcaacaaacatttattggacatttgctaaatgtgaggcattg------cgctaggtagtcagattggaaagatgaataagataaattcattactgccaaagaacttagaatttaagtaact---g-aagaggaacagaTCAACCAAGGCTGCTTGGCCTTTATTTTAAAGATTCTTTAGATT-AC---CTGCACATTCTCTAAGATATAAGTC-CAGG-ACA--GGAATTCTGTCTGCTCAGGAAAATGCTCAGAATATTTTCCAGCTAGATTATATGGACTCATTGACAACAGCAG-AAAAGTCTTGACTTGGGCATAG------------TAGTCTATTTGAATGCT-TTGCACTCGTTCC-GCATAC---TGATGTAAAAACTTACTTGA------ACTCTTTCAGGTATTTAAATGACC----ATTTA-TTGAAATAAACATGAAAG-------TTTGATAGC-AAAAACCAGTCAGACGAAGTCTGTCCTTGTATAAAATAAATAGCCA-AGACCATAATAAAGACCAGAAACACTTGTACATCCT-TAATGTGTTTCTAAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139893792 554 + 163208435 GTAAAGAATGAATATTCAGGATGCCATAATTATTTAGGtcaacaaacatttattggacatttgctaaatgtgaggcattg------tgctaggtagtcagattggaaagatgaagaagataaattccttactcccaaagaacttagaatttaagtaacg---g-aagaggaacatatcaacaaaGGCTGCTTGGCCTTTATTTTAAAGATTCTTTAGA-T-AC---CTGCACATTCTCTAAGATATCAGTC-CAGG-ACA--GGAATTCTGTCTGCTCAGGAAAATGGTCAGAATATTTTCCAGCTAGATTATGTGGACTCATTGACAATGGCAGAAAAAGTCTCAACTCGGGCATAG------------TAGACTATTTGAATGCT-TTGAACTCATTCC-GCATAC---TGATATAAAAACTTACTTGA------ACTCTCTCAGGTATGTAAATGACA----ATTTA-TTGTAATAAACATGAAAG-TTTGAATTTGATAGC-AAAAACCAGTCAGACGAAGTCTGTCCTTGTATAATATAAATAGTCA-AGACCATAATAAAGACCAGAAACACTTGTACATCCT-TAATGTGTTTCTAAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122878503 563 + 180051392 GTAAAGAATGAATATTCAGGATGCCATCATTATttaggtcaacaaacatttattggacatttgttaaatgtgaggcattg------ggctaagtagtcagattggaaagatgaagaagataaattccttactcccaaagaacttagaatttaagtaact---g-aagaggaacatatcagccaaGGCTGCTTGGCTTTTATTTTAAAGATTCTTTAGA-C-AC---CTGTACATTCTCTAAGATATAAGTC-CAGG-ACA--GGAATTCTGTCTGCTCAGGAAAATGCTCAGAATATTTTCCAGCTAGATTATGTGGACTCATTGACCACAGCAG-AAGAGTTTCGACTCGGGCATAG------------TAGACTATTTGAATGCT-TTGAACTCATTCC-ACATAC---TGATGTAAAATCTTACTTGAACTCTTACTCTTTCAGGTACTTAAGTGACCATTTATTTA-TTGTAATAAACATGAAAG-TTTGAATTTGATAGC-AAAAACCAGTCAGACGAAGTCTGTCCTTCTATAATATAAATAGCCA-AGACCTTAATAAAGACCAGAAACACTTGTACATCGT-TAATGTGTTTCTAAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124302138 563 + 181584905 GTAAAGAATGAATATTCAGGATGCCATCATTATTTAGGtcaacaaacatttattggacatttgttaaatgtgaggcattg------ggctaggtagtcagattggaaagatgaagaagataaattccttactcccaaagaacttagaatttaagtaact---g-aagaggaacatatcagcCAAGGCTGCTTGGCCTTTATTTTAAAGATTCTTTAGA-C-AC---CTGTACATTCTCTAAGATATAAGTC-CAGG-ACA--GGAATTCTGTCTGCTCAGGAAAATGCTCAGAATATTTTCCAGCTAGATTATGTGGACTCATTGACCACAGCAG-AAGAGTTTCGACTCGGGCATAG------------TAGACTATTTGAATGCT-TTGAACTCATTCC-ACATAC---TGATGTAAAATCTTACTTGAACTCTTACTCTTTCAGGTACTTAAGTGACCATTTATTTA-TTGTAATAAACATGAAAG-TTTGAATTTGATAGC-AAAAACCAGTCAGACGAAGTCTGTCCTTCTATAATATAAATAGCCA-AGACCTTAATAAAGACCAGAAACACTTGTACATCGT-TAATGTGTTTCTAAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16300815 563 +  18395747 GTAAAGAATGAATATTCAGGATGCCATCATTATttaggtcaacaaacatttattggacatttgttaaatgtgaggcattg------ggctaggtagtcagattggaaagatgaagaagataaattccttactcccaaagaacttagaatttaAGTATCT---G-AAGAGGAACATATCAGCCAAGGCTGCTTGGCCTTTATTTTAAAGATTCTTTAGA-C-AC---CTGTACATTCTCTAAGATATAAGTC-CAGG-ACA--GGAATTCTGTCTGCTCAGGAAAATGCTCAGAATATTTTCCAGCTAGATTATGTGGACTCATTGACCACAGCAG-AAGAGTTTCGACTCGGGCATAG------------TAGACTATTTGAATGCT-TTGAACTCATTCC-ACATAC---TGATGTAAAATCTTACTTGAACTCTTACTCTTTCAGGTACTTAAGTGACCATTTATTTA-TTGTAATAAACATGAAAG-TTTGAATTTGATAGC-AAAAACCAGTCAGACGAAGTCTGTCCTTCTATAATATAAATAGCCA-AGACCTTAATAAAGACCAGAAACACTTGTACATCGT-TAATGTGTTTCTAAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5313256 556 +  26952557 GTAAAGAATGAATATTCAGGATGCCATAATTATttaggtcaacaaacatttattggacatttgtcaaatgtgaggcattg------ggctaggtagtcagattggaaagatgaagaagataaattccttactcccaaagaacttagaatttaagtaact---g-aagaggaacatatcagccaaGGCTGCTTGGCCTTTATTTTAAAGATTCTTTAGA-C-AC---CTGTACATTCTC-------TAAGTC-CAGG-ACA--GGAATTCTGTCTGCTCAGGAAAATGCTCAGAATGTTTTCCAGCTAGATTATGTGGACTCATTGACCACAGCAG-AAGAGTCTCGACTCGGGCATAG------------TAGACTATTTGAATGCT-TTGAACTCATTCC-ACATAC---TGATGTAAAAACTTACTTGAACTCTTACTCTTTCAGGTACTTAAGTGACCATTTATTTA-TTGTAATAAACATGAAAG-TTTGAATTTGATAGC-AAAAACCAGTCAGACGAAGTCTGTCCTTCTATAATATAAATAGCCA-AGACCTTAATAAAGACCAGAAACACTTGTACATCCT-TAATGTGTTTCTAAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28413906 563 +  82825804 GTAAAGAATGAATATTCAGGATGCCATAATTATTTAGGtcaacgaacatttattggacatttgttaaatgtgaggcattg------ggctaggtagtcagattggaaagatgaagaagataaattccttactcccaaagaacttagaatttaagtaact---g-aagaggaacatatcaacCAAGGCTGCTTGGCCTTTATTTTAAAGATTCTTTAGA-C-AC---CTGTACATTCTCTAAGATATAAGTC-CAGG-ACA--GGAATTCTGTCTGCTCAGGAAAATGCTCAGAATATTTTCCAGCTAGATTATGTGGACTCATTGACCACAGCAG-AAGAGTCTCGACTCGGGCATAG------------TAGACTATTTGAATGCT-TTGAACTCATTCC-ACATAC---TGATGTAAAAACTTACTTGAACTCTTACTCTTTCAGGTACTTAAGTGACCATTCATTTA-TTGTAATAAACATGAAAG-TTTGAATTTGATAGC-AAAAACCAGTCAGACGAAGTCTGTCCTTCTATAATACAAATAGCCA-AGACCTTAATAAAGACCAGAAACACTTGTACATCCT-TAATGTGTTTCTAAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4083778 556 -   4237731 GTAAAGAATGAATATTCAGGATGCCATAATTATttaggtcaacaaacatttattggacatttgtcaaatgtgaggcattg------ggctaggtagtcagattggaaagatgaagaagataaattccttactcccaaagaacttagaatttaaggaact---g-aagaggaacatatcagccaaGGCTGCTTGGCCTTTATTTTAAAGATTCTTTAGA-C-AC---CTGTACTTTCTC-------TAAGTC-CAGG-ACA--GGAATTCTGTCTGCTCAGGAAAATGCTCAGAATGTTTTCCAGCTAGATTATGTGGACTCATTGACCACAGCAG-AAGAGTCTCGACTCGGGCACAG------------TAGACTATTTGAATGCT-TTGAACTCATTCC-ACATAC---TGATGTAAAAACTTACTTGAACTCTTACTCTTTCAGGTACTTAAGTGACCATTTATTTA-TTGTAATAAACATGAAAG-TTTGAATTTGATAGC-AAAAACCAGTCAGACGAAGTCTGTCCTTCTATAATATAAATAGCCA-AGACCTTAATAAAGACCAGAAACACTTGTACATCCT-TAATGTGTTTCTAAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      352308 563 -   1175262 GTAAAGAATGAATATTCAGGATGCCATAATTATttaggtcaacgaacatttatcggacatttgttaaatgtgaggcattg------ggctaggtagtcagattgtaaagatgaagaagataaattccttactcccaaagaacttagaatttaagtaact---g-aagaggaacatatcaacCAAGGCTGCTTGACCTTTATTTTAAAGATTCTTTAGA-C-AC---CTGCACATTCTCTAAGATATAAGTC-CAGA-ACA--GGAATTCTGTCTGCTCAGGAAAATGCTCGGAATATTTTCCAGCTAGATTATGTGGACTCATTGACAACAGCAG-AAGAGTCTCGACTCGGGCATAG------------TAGACTATTTGAATGCT-TTGAACTCATTCC-ACATAC---TGATGTAAAAACTTACTTGAATTCTTACTCTTTCAGGTACTTAAGTGACCATTTATTTA-TTGTAATAAACATGAAAG-TTTGAATTTGATAGC-AAAAACCAGTCAGACGAATTCTATCCTTGTATAATATAAATAGCCA-AGACCTTAATAAAGACCAGAAACACTTGTACATCCT-TAATGTGTTTCTAAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123700449 552 - 204313951 GTAAAGAATGAATATTCAAGATGCCATAattctttaggtcaacaaacatttattgggcatttgctaaatgtgaggcattg------tgctgggtattcagattggaaagatgaagaagataaattccttactgccaaagaacttagaatttaag-aact---g-aagaggaacatatcaacCAAGGTTGCATGGCCTTTGTTTTAAAGATTCTTTCGA-T-AC---CTGCACATTCGCTAAGATATAAGTC-CAGG-ACATGGGAATTCTGCTGGCTCAGAAAAATGCTCAGAATATTTTCTAGCTAGATTATGTGGACTCATTGACAACAGCAG-AAAAGTCTGGACTCGGGCATAG------------TAGACTATTTGAATGCT-TTGAACTCATTCA-GCATACTGATGATGTAAAA----ACTTGA------ACGCTTTCAGGTATTTAAGTGACC----GTTTA-TTGTAATAAACATGAAAG-TTTGAATTTGATAGC-AAAAACTAGTCAGACAAAGTCTGTTCTTATATAATA-AAATAGCCA-AGACCATAATAAAGACCAGAGACACTTGTACATCCT-TAATGTATTTCTAAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55744603 550 -  71252344 GTAAAGAATGAATATTCAAGATGCCATAATTATTTAGGtcaacaaacatttattggacatttgctaaatgtgaggcattg------tgcagggtactcagattggaaagatgaagaagataaattccttactcccaaagaacttagaatttaAG-AACT---G-AAGAGTAACGTATCAGCCAAGGCTGCATGGCGTTTGTTTTAAAGATTCTTTAGA-T-AC---CTGCACATTCTCTAAGATGTAAGTC-CAGG-ACATGGGAATTCTGCTGGCTCAGAAAAATACTCAGAATATTTTCTAGCTAGATTATGTGGACTCATTGACAACAGCAG-AAAAGTCTTGACTCGAGCATAG------------TAGACTATTTAAATGCT-TTGAACTCATTCA-GCATAC---TGATGTAAAA----ACTTGA------ACTCTTTCAGGTATTTAAGTGACT----GTTTA-TTGTAATAAACATGAAAG-TTTGAATTTGATAGC-AAAAACTAGTCAGACAAAGTCTGTCCTTGTATAATATAAATAGCCA-AGACCGTAATAAAGACCAGAGACACTTGTACATCCT-TAATGTATTTCTAAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       48054 550 -   3089952 GTAAAGGATGAATATTCAAGATGCCATAATTATttaggtcaacaaacatttattggacatttgctaaatgtgaggcattg------tgctaggtactcagcttggaaagatgaagaagataaattccttactcccaaagaacttagaatttaAG-AACT---G-AAGAGTAATGTATCAACCAAGGCTGCATGGCCTTTGTTTTAAAGATTCTTTACA-T-GC---TTGCACATTCTTTAAGATATAAGTC-TAGG-ACATGGAAATTCTGCCGTCTCAGAAAAATGCTCAGAATATTTTCTAGCTAGATTATGTGGACTCATTGACAACAGCAG-AGAAGCCTTGACTCAAGCATAG------------TAGACTATTTGAATGCT-TTGAACTCATTCA-GCATAC---TGATGTAAAA----ACTTGA------ACTCTTTCAGGTATTTAAGTGACC----GTTTA-TTGTAATAAACATGAAAG-TTTGAATTTGATAGC-AAAAACTAGTCAGACAAAGGCTGTCCTTGTCTAATATAGATAGCCA-AGACCATAATAAAGACCAGAGACACTTGTACATCCT-TAATGTATTTCTAAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13248330 550 -  42888418 GTAAAGAATGAATATTCAAGATGCCATAATTATTTAGGtcaacaaacatttattggacatttgctaaatgtgaggcattg------tgctgggtactcagattggaaagatcaagaagataaattccttgctcccaaagaacttacaattTAAG-AACT---G-AAGAGGAACATATCAACCAAGGCTGCATGGCCTTTGTTTTAAAGATTCTTTAGA-T-AC---CTGTAAATTCTCTAAGATATAAGTC-CAGG-ACATGGGAATTCTGCCAGCTCAGAAGAATGCTCAGAATATTTTCTAGCTAGATTATGTGGACTCATTGACAACAGCAG-AAAAGTCTTGACTCAGGCATAG------------TAGACTATTTGAATGCT-TTGAACTCATTCA-GCATAC---TGATGTAAAA----ACTTGA------ACTCTTTCAGGTATTTAAGTGACT----GTTTA-TTGTAATAAACATGAAAG-TTTGAATTTGATAGC-AAAAACTAGTCAGACAAAGTCTGTCCTTGTGTAATATAAATAGCCA-AGACCATAATAAAGACCAGAGACACTTGTACATTCT-TAATGTGTTTCTAAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60586267 549 + 108143057 TTAAAGAATGAATATTGAGAATGCCAcaattatttaggtcaacaaacatttattgaatatttactaagtgtgaggcaccg------tgctaggtactcagattggaaagttgagaa--atatagttcttaccttcaaagaatttagagtttaca-tatt---g-aagagaaacatatcaactaatgctacatgaCCTTTATTTTAAAGATTATTTAAA-T-AC---TTGCACATACTATAAGAAATAAGTCACAGC-AAG--AGAATTCTGTCTGCTTAGGAAAATGCTCAGAATAATTTCCAACTAGATTATGTTAGCTAATTGACAATAGCGG-GAAAGTCTTGACTCAGGCACAGC-----------TAGACTATTTGAATTTT-TTGGACTCATTCA-GCATTC---TGATGTCAAAACTTACTTGA------ACTCTTTCAGGTATTTAAATGACC----ATTTG-TTGTAATAACCATGAAAGTTTTAAAGCTGATGACAAAAAATTAATTAGACCAAGTCTGTCCTC-----ATCTAAATAGCCA-AAACCACAATAAAGGCCAGAAACACCTGTCCATCCT-TAACGTGTTTCTAAG
i micMur3.chr12            I 23 I 26
s proCoq1.NW_012155062v1     3621867 549 +  11683526 TTAAAGAATGAGTATTCAGGATGCCACAATTATttaggtcaacaaacatttattgaatatttactaaatgtgaggcactg------tgctaggaactcagattggaaagttgagaaagatacatttcttaccctcaaagaatttagagtttaca-tatt---g-aagagaaacatatcaacCAATGCTGCATGACCTTTATTTTAAAGATTCTTTAAA-T-AC---TTGCACATGCTATAAGATATAAGTCACAGC-AAG--GGAATTCTGTCTGCTCAGGAAAATGCTCAGAATAATTTCTAACTAGATTATGTTGGCTAATTGACAACAGCAG-GAAAGTCTTGACTCAAGCAGAGC-----------TAGACTATTTGAATTTT-TTGGACTCATTCA-GCATAC---TGATGTCAAAACTTACTTGA------ACTCATTCAGGTATTTAAGTGACC----ATTTA-TTGTAATAAACATGAAAG-TTTAAATCTGATAGC-AAAAATTAGTCAGACCAAGTCTGTCCTC-----ATCTAAATAGCCA-AGACCGCAATAAAGACCAGAAACACCTGTCCATCCT-TAATGTGTTTCTAAG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3111822 550 +   4132165 --AAGGTGTGAATATTCGGGATGTCATAATTATTTAGGCcaacaaacattcattgaatacttactaaatgggaggcattg------tgcgaggtgctcagattggaatgttgaggaagacggattccttaccttccaagaatctagagtctaag-aacttgaa-aaaagaaaaacagcaaccaGTGCTGCATAGCCGTCATTTTAAAGATTTCATAAA-TAAC---TTGCACATCCTTTAAAATAGAAGTCACTGC-AAG--GGAATTCTGACTGCTCAGGAAGGTGCTCAGAATAATTTCCAACTAGATTATGTTCGTTAATCGACAATAGCAG-GAAAGCCTCAATTCGGGGACACC-----------TAGACTATTGGAGTTTTAAAAAACTCATTTA-GCACAC---TGATGTAAAAACTGACTTGA------ACTCTGTCCAATATTTAAGTGACC----GTTTA-TTGTAATAAACATGAAAG-TTTAAATCTGACAGC-AAAAATTCATCAGACTAGGTCTGTCCTC-----ATCAAAATAGCCA-AGACCACAAT-CAGACCAGAAACACCT-TCCGCCCT-CAATGTGTTTCCAAG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55542337 525 +  90702639 TTAAAGAAGAGATGCAGAGGCTCCCATAGTTATTTAGGTCAACAACTATTTAATGAAGCTTT-CTAAATGTTAAGACTCA------GGCTAGGTAC-----TTGGAAAAACAAGAAAAGGAAAGAGTTCACTCTCAAAGCCTTTAGAGTTTGAGCAAAG---G-GAGAGGACTCTGTGAACCAAACCATCAGAGGTGCCATGTTAAAGACTCTTTAGG-C-ACTCACTACACACT---GGAGATATAAGTA-AAGGCACG--GGGAGCCCATCTGGTTAGGAAGAT----AGATCAT-----AGTTATGTCATATTGGCCCGTTAACC---GTAG-GAAGGTGTTAACTCAGGCACAA---------------AACATTGGAAAATT-TTCAGCTTGTTTATTTACGT---TGATGAAAG-----ACTTGA------TCTCTTCCAGGCATTTACCATATC----TTTTAGTTGTAATAAACACAAAAG-ACTGAACTTTATAGA-AA----CATGCAAATATGACTTGGTCTACTCTAATA-AAATAGCCA-GGTCTACCGTAAAGATCAGA-CTGCCGATCCATCCTCCAGTGACTTTCTAAG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14952770 540 +  74389097 ATGAAGAATGAATATTCAGGATGCCGTAATTATTTAGATTAATAAACATTTATTGAAGACTTACTAAAGGTGAGCCATTGCTAAATGGCTAGAT-TTCAGATGAGGAAGGTGAGGCAGGTAAATTCTCTACTTTCTGGGAATTTACAGTTTAAGTAATT---GAAAAAGGAACATATCAATTAAGGCCATGTGACCTTTATCTTAAACATTTTTCA-A-C-AG---CTGGGCATCCTCTGAGATCCAGGCCATGTC-AAG--GGAGTTCCACCTACTCAAAAAATGGTACAGAATATTTTTCAACTAGATTAGGGCGGCTAATTGACAATAGCAA-GGGAGTCTCAACTCAGGCATAGCTAGGTGTGCATTAGAGTATTTGAATTTT-TAAAACTCAATCA-GCATAA---TGATGAGAAAACTTGCTTGA------ACTCTTGCAGGTATTTAG----------------GTACAATAAACACGAAAG-------ATTGATAGA-AAAA-------AGACCAAATCTGCCTTT-----GTCTAAGTAGCCACAGAC---AGTAGACACCAGAAGCATTTTCCCCTCAC-CAGTATGTGATTAAA
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2676047 2011 +   3667625 I

a score=373726.000000
s hg38.chr5_KI270796v1_alt    127899 31 +    172708 AAGGTCATTGTGAGCAACCCTGCACACTTTT
s panTro5.chr5             125231572 31 + 181907262 AAGGTCATTGTGAGCAACCCTGCACACTTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126568295 31 + 183735486 AAGGTCATTGTGAGCAACCCTGCACACTTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1760101 31 +   8933513 AAGGTCATTGTGAGCAACCCTGCACACTTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139894346 31 + 163208435 AAGGTCATTGTGAGCTACCCTGCACACATTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122879066 31 + 180051392 AAGGTCATTGTGAGCTGCCTTGCACACATTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124302701 31 + 181584905 AAGGTCATTGTGAGCTGCCTTGCACACATTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16301378 31 +  18395747 AAGGTCATTGTGAGCTGCCTTGCACACATTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5313812 31 +  26952557 AAGGTCATTGTGAGCTGCCTTGCACACATTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28414469 31 +  82825804 AAGGTCATTGTGAGCTGCCTTGCACACATTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4084334 31 -   4237731 AAGGTCATTGTGAGCTGCCTTGCACACATTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      352871 31 -   1175262 AAGGTCATTGTGAGCTGCCTTGCACACATTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123701001 31 - 204313951 AAGGTCATTGTGAGCTTCCCTGAACAAATTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55745153 31 -  71252344 AAGGTCATTGTGAGCTGCCCTGAACACATTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       48604 31 -   3089952 AAGGTCATTGTGAGCTGCCCGGAACACATTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13248880 31 -  42888418 AAGGTCATTGTGAGCTGCCCTGAACACATTT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3622416 28 +  11683526 ---GTCATGGTGAGCTGCTCTATACACATGT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3112372 28 +   4132165 ---GTCACAGTGAGCAGCTCTAGACACGTGT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55542862 28 +  90702639 ---ATCTCAGGGGATAGCACTTCACTGATTT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14953310 28 +  74389097 ---GCCACAGTGAGCTGCCCTACACACACTT
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60586816 26 + 108143057 I
e dasNov3.JH567306           2676047 2011 +   3667625 I

a score=4909117.000000
s hg38.chr5_KI270796v1_alt    127930 359 +    172708 CAATTCTGAATGGACTTTATCAATATTCCACACATTTGGCCTG-AATCAG--TGGCTCCTTCTTTTAACTGGGGCATTCCTAGACATGGTGTTATAAAGTAGAGAGTGGAAAGGTAAAGTCATCATAGCATGGTTATCTGTCTGGACAAGGTCAGAAGTCAGAAATAGGCAAAGAAAATGTTAGAACTGTGAGCAGTGTGAAATGTGTAT-TTCTCTTGGAAGCACTGGATGAAAGGCAGGGCAGATAGGGAAGCAGGT----------AAAATAAAGCACTGCTAATATTTCAATTTGGTGTAACAT-CTACATTTT--AAAATAAACCAACTACCAGGACTCAGGACTATTACAAACTACAAT-TTAAAAA---AATT-
s panTro5.chr5             125231603 359 + 181907262 CAATTCTGAATGGACTTTATCAATATTCCACACATTTGGCCTG-AATCAG--TGGCTCCTTCTTTTAACTGGGGCATTCCTAGACATGGTGTTATAAAGTAGAGAGTGGAAAGGTAAAGTCATCATAGCATGGTTATCTGTCTGGACAAGGTCAGAAGTCAGAAATAGGCAAAGAAAATGTTAGAACTGTGAGCAGTGTGAAATGTGTAT-TTCTCTTGGAAGCACTGGATGAAAGGCAGGGCAGATAGGGAAGCAGGT----------ACAATAAAGCACTGCTAATATTTCAATTTGGTGTAACAT-CTACATTTT--AAAATAAACCAACTACCAGGACTCAGGACTATTACAAACTACAAT-TTAAAAA---AATT-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126568326 359 + 183735486 CAATTCTGAATGGACTTTATCAATATTCCACACATTTGGCCTG-AATCAG--TGGCTCCTTCTTTTAACTGGGGCATTCCTAGACATGGTGTTATAAAGTAGAGAGTGGAAAGGTAAAGTCATCATAGCATGGTTATCTGTCTGGACAAGGTCAGAAGTCAGAAATAAGCAAAGAAAATGTTAGAACTGTGAGCAGTGTGAAATGTGTAT-TTCTCTTGGAAGCACTGGATGAAAGGCAGGGCAGATAGGGAAGCAGGT----------AAAATAAAGCACTGCTAATATTTCAATTTGGTGTAACAT-CTACATTTT--AAAATAAACCAACTACCAGGACTCAGGACTATTACAAACTACAAT-TTAAAAA---AATT-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1760132 358 +   8933513 CAATTCTGAATGGACTTTATCAATATTCCACACATTTGGCCTG-AATCAG--TGGCTCCTTCTTTTAACTGGGGCATTCCTAGACATGGTGTTATAAAGTAGAGAGTGGAAAGGTAAAGTCATCATAGCATGGTTATCTGTCTGGACAAGGTCAGAAGTCAGAAATAGGCAAAGAAAATGTTAGAACTGTGAGCAGTGTGAAATGTGTAT-TTCTCTTGGAAGCACTGGATGAAAGGCAGGGCAGATAGGGAAGCAGGT----------AAAATAAAGCACTGCTAATATTTCAATTTGGTGTAACAT-CTACATTTT--AAAATAAACCAACTACCAGGACTCAGGAGTATTACAAACTACAAT-TT-AAAA---AATT-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139894377 359 + 163208435 CAATTCTGAATGGACTTTATCAATATTCCACATATTTGGCCTG-AATAAG--TGGCTCTCTCTTTTAACTGGGGCATTCCTAGACATGGTGTTATAAAGTAGAGAGTTGAAAGGTAAAGTCATCATAGCATGGTTGTCTGTCTGGACAAGGTCAGAAGTCAGAAATAGGCAAATAAAATGTTAGAGCTGCGAGCAGTGTGAAATGTGTAT-TTCTCTTGGAAGCACTGGATGAAAGGCAGGGCAGATAGGGAAGCAGGC----------AAAATAAAGCACTGCTAATACTTCAATTTGGTGTAACAT-CTACATTTT--AAAATAAACCAACTACCAGGACTCAGGACTATTACAAACTACAAT-TTAAAAA---AATT-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122879097 353 + 180051392 CAATTCTGAATGGACTTTATCAATATTCCACACATTTGGCCTG-AATAAG--TGGCTCCTTCTTTTAACTGGGGCATTCCTAGACATGGTGTTATAAAATGGAGAGTTGAAAGGTAAAGTCATGATAGCATGGTTGTCTGTCTGGACAAGGTCAGAAGTCAGAAATAGGCAAAGAAAATGTTAGAGCTGTGAGCAGTGTGAAATGTGTAT-TTCCCTTGGAAGCACTGGATGAA----AGGGCAGATAGGGAAGCACGT----------AAAAT-GAGCGCTGCTAATACTTCAATTTGGTGTAACAT-CTACATTTT--AAAATAAACCAACTACCAGGACTCAGGACTATTGCAAACTACAGT-TA-AAAA---AATT-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124302732 353 + 181584905 CAATTCTGAATGGACTTTATCAATATTCCACACATTTGGCCTG-AATAAG--TGGCTCCTTCTTTTAACTGGGGCATTCCTAGACATGGTGTTATAAAATGGAGAGTTGAAAGGTAAAGTCATGATAGCATGGTTGTCTGTCTGGACAAGGTCAGAAGTCAGAAATAGGCAAAGAAAATGTTAGAGCTGTGAGCAGTGTGAAATGTGTAT-TTCCCTTGGAAGCACTGGATGAA----AGGGCAGATAGGGAAGCACGT----------AAAAT-GAGCGCTGCTAATACTTCAATTTGGTGTAACAT-CTACATTTT--AAAATAAACCAACTACCAGGACTCAGGACTATTGCAAACTACAGT-TA-AAAA---AATT-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16301409 353 +  18395747 CAATTCTGAATGGACTTTATCAATATTCCACACATTTGGCCTG-AATAAG--TGGCTCCTTCTTTTAACTGGGGCATTCCTAGACATGGTGTTATAAAATGGAGAGTTGAAAGGTAAAGTCATGATAGCATGGTTGTCTGTCTGGACAAGGTCAGAAGTCAGAAATAGGCAAAGAAAATGTTAGAGCTGTGAGCAGTGTGAAATGTGTAT-TTCCCTTGGAAGCACTGGATGAA----AGGGCAGATAGGGAAGCACGT----------AAAAT-GAGCGCTGCTAATACTTCAATTTGGTGTAACAT-CTACATTTT--AAAATAAACCAACTACCAGGACTCAGGACTATTGCAAACTACAGT-TA-AAAA---AATT-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5313843 353 +  26952557 CAATTCTGAATGGACTTTATCAATATTCCACACATTTGGCCTG-AATAAG--TGGCTCCTTCTTTTAACTGGGGCATTCCTAGACATGGTGTTATAAAATGGACAGTTGAAAGGTAAAGTCATGATAGCATGGTTGTCTGTCTGGACAAGGTCAGAAGTCAGAAATAGGCAAAGAAAATATTAGAGCTGTGAGCAGTGTGAAATGTGTAT-TTCCCTTGGAAGCACTGGATGAA----AGGGCAGACAGGGAAGCACGT----------AAAAT-GAGCGCTGCTAATACTTCAATTTGGTGTAACAT-CTACATTTT--AAAATAAAGCAACTACCAGGACTCAGGACTGTTGCAAACTACAAT-TT-AAAA---AATT-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28414500 353 +  82825804 CAATTCTGAATGGACTTTATCAATATTCCACACATTTGGCCTG-AATAAG--TGGCTCCTTCTTTTAACTGGGGCATTCCTAGACATGGTGTTATAAAATGGAGAGTTGAAAGGTAAAGTCATGATAGCATGGTTGTCTGTCTGGACAAGGTCAGAAGTCAGAAATAGGCAAAGAAAATGTTAGAGGTGTGAGCAGTGTGAAATATGTAT-TTCCCTTGGAAGCACTGGATGAA----AGGGCAGATAGGGAAGCACAT----------AAAAT-GAGCACTGCTAATACTTCAATTTGGTGTAACAT-CTACATTTT--AAAATAAACCAACTACCAGGACTCAGGACTATTGCAAACTACAAT-TT-AAAA---AATT-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4084365 353 -   4237731 CAATTCTGAATGGACTTTATCAATATTCCACACACTTGGCCTG-AATAAG--TGGCTCCTTCTTTTAACTGGGGCATTCCTAGACATGGTGTTATAAAATGGAGAGTTGAAAGGTAAAGTCATGATAGCATGGTTGTCTGTCTGGACAAGGTCAGAAGTGAGAAATAGGCAAAGAAAATATTAGAGCTGTGAGCAGTGTGAAATGTGTAT-TTCCCTTGGAAGCACTGGATGAA----AGGGCAGACAGGGAAGCACGT----------AAAAT-GAGCGCTGCTAATACTTCAATTTGGTGTAACAT-CTACATTTT--AAAATAAAGCAACTACCAGGACTCAGGACTATTGCAAACTACAAT-TT-AAAA---AATT-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      352902 349 -   1175262 CAATTCTGAATGGACTTTATTAATATTCCACACATTTGGCCTG-AATAAG--TGGCTCCTTCTTTTAACTGGGGCATTCCTAGACATGGTGTTATAAAATGGAGAGTTGAAAGGTAAAGCCATGGTAGCATGGTTGTCTGTCTGGACAAGGTCAGAAGTCAGAAATAGGCAAAGAAAATGTTAGAGCTGTGAGCAGTGTGAAATGTGTAT-TTCCCTTGGAAGCACTGGATGAA----AGGGCAGATAGGGAAGCACGT----------AAAAT-GAGCACTGCTAATACCTCAATTTGGTGTAACAT-CCACATTTT--AAAAT----CAACTACCAGGACTCACGACTATTACAAACTACAAT-TA-AAAA---CATT-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123701032 359 - 204313951 CAACTCTGAATGGGCCTTATCAATATTCCACATATTTGGCCTG-AATAAG--TGGCTCCTTCTTTTAGCCAGGGCATTCCTAGACACAGCGTTATAAAGCAGAGAGTTAAAAGGTAAAGTCCTTATAGCACAGTTGTCTGTCTGGGCAAGGTCAGAAGTCAGAAATAGGCAAAGAAAATGTTAGAGCTGTGAGCAGTGTGAAATGTCTAT-TTCTCTTGGAAGCACTGAATGAAAGGCAGGGCAAATAGGGAAGCAGGT----------AAAATAAAGCACTGCTAATACTTCAATTTGGTGTAACAT-CTACATTTT--GAAATAAACCAACTACCAGGACTCAGGACTATTAGAAACTACAAT-TTAAAAA---AATT-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55745184 351 -  71252344 CAACTCTGAATGGGCCTTATCAATATTCCACATATTTGGCCTG-AATAAG--TGGCTCCCTCTTTTAGCTGGGGAATTTCTAGACACAGCGTTATAAAGCAGAGAGTTGAAAGGTAAAGTCATCATAGCACAGCTGTCTGTCTGGACAAGGTCAGAAGTCAGAAATAGGCAAAGAAAATGTTAGAGCTGTGAGCAGTGTGAAATGCATAT-TTCTCTTGGAAGCACTGAAT--------GGGTGGATAGGAAAGCAGGT----------AAAATAAAGCACTGCTAATACTTCAATTTGGTGTAACAT-CTACCTTTG--AAAATAAACCAACTACCAGGACTCAGGACTATTACAAACTATAAT-TTAAAAA---AATT-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       48635 358 -   3089952 TAACTCTGAATGGG-CTTATCAATATTCCACATATTTGGCCTG-AATAAG--TGGCTCCTTCTTTTAGCTGGGGCATTCCTAGACACAGCATTATAAAGCAGACAGTTGAAAGGTAAAGTCATCATAGCACAGTTGTCTGTCTGGACAAGGTCAGAAGTCAGAAATAGGCAAAGAAAATGTTAGAGCTGTGAGCAGTGTGAAATGTGTAT-TTCTCTTGGAAGCACTTAATGAAAGGCAGGGTGGATAGGGAAGCAGGT----------AAAATAAAGCATTGCTAATACTTCAATCTGGTGTAGCAT-CTACATTTT--AAAATAAACCAACTACCAGGACTCAGGACTATTACAAACTACAAT-TAAAAAA---AATT-
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13248911 360 -  42888418 CAACTCTGAATGGGCCTTATCAATATTCCACACATTTGGCCTG-AATAAG--TGGCTCCTTCTTTTAGCTGGGGCATTCCTAGACACAGCGTTATAAAGCAGAGAGTTGAAAGGTAAAGTCATGATAGCACAGTTGTCTGTCTGGACAAGGTCAGAAGTCAGAAATAGGCAAAGAAAATGTTAGACCTGTGAGTAGTGTGAAATGTGTAT-TACTCTTGGAAGCACTGAATGAAAGGCAGGGCGGATAGGGAAGCAGGT----------AAAATAAAGCACTGCTAATACTTCAATTTGGTGTAACAT-CTACATTTT--AAAATAAATCAACTACCGGGACTCAGGACTATTACAAACTACAATAAAAAAAA---AATT-
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60586842 336 + 108143057 CAGCTCTGAATTGACTTTATCAACATTCTACACATTTGGCCTG-AATAAG--TAGTTCCTTCTCTTAGCTGCAGTGTTCCTGGACATTGTGTTATAAAGTGGAGAGTTAAAAAGT--AGTCATCACAGCACAGTTGTCTGTCTGGACAAGGTCAG--------AATGGGCAAAGCAAACGGTAGCGCTGTGAGCA--GTGAAATATGTAT-TTTTCTCAAAAGCACGGGATGAAAGGCAGGGCAGATGGGGAAGCTGAT----------AAAAGAAGGC---------ACTTCAATTTGGTCTAACAT-CTGAATTTTACAAAATGACCCCACTCTTAGGACTCCGGACTATTACAAGC---AAT-T-AAAAA---AATT-
i micMur3.chr12            I 26 C 0
s proCoq1.NW_012155062v1     3622444 344 +  11683526 CAGCTCTGAATTGACTTTATCAATATTCTACACATTTGGCCTG-AATAAG--TGGTTCCTTCTCTTAGCTGGAGTGTTCCTGGACATTGTGTTATAAAGTGGAGAGTTAAAAAGT--AGTGATCATAGCACAGTTGTCTGTCTGGACAAGGTCAG--------AATGGGCAAAGCAAACGGTAGAGCTGTGAGCA--GTGAAATATGTAT-TTTTCTCAAAAGCACTGGATGAAAGGCAGGGCAGATGGGGAAGCTGAT----------AAAAGAAGGCGCTGTTAATACTTCAATTTGGTCTAACAT-CTGAAATGT--AAAATAACCCAACTACTAGGACTCAGGACTATTACAGAC---AAT-TAAAAAA---AATT-
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3112400 304 +   4132165 CAGCTCTGAATTGACTTTATCGATATGCTACACATTTGGCCTG-AATAAG--TGGTTCCTTCTTTTAGCTGGGATATTCCTGGACATTGTGTTATAAAGT--AGAGTTGAAATGC--AGTCATCACAGCAAAGTTGTCTGTTTGGACAAGGTCAG--------AATGGGTAAAGCAAATTGTAGAGTTGTGAGTA--GTGAGATGCGTAT-TTTTCCCAAAAGTACAGGATGAA----AGGGCAGACGGGGATG-----------------------------------------------CTAACAT-CAAAATTGT--AAAAGAACCCAACTACTAAGCCTCGGGACTATTATAAGG---AAT-TAAAAAAAACAATT-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55542890 348 +  90702639 CAGATCTCAGCTGACCCTATCAACACTTTCCACATTTGGCTTG-GGCAGGGCTTGCTTCTGTTCGCCTCTAGAGCATCCTTGGGCATTGTATCATGAGGTTGAGAGCTGAAAAAGAAAGTCATCATGACTGAATTGCCCAC----ACAAGGTAAAAAG-------TAGACAAGACAA--GGTGAAACAGTGGGAGGTG---GATACGTGT-TGTCCTCACAAATACTGGATGTGAGGCTTGGCAGATGGGAGAGCAGATCTTTACTCTGACACTGAGATACTGCTAATATTTCAACTTGGTCTAACATCCTGAATTTT--GAAATAAGCCAACTA-------TCAGGGCTATTGCAAGCTACAGC-TT-ACAG---TCTT-
i mm10.chr18               C 0 I 20
s canFam3.chr11             14953338 348 +  74389097 GGGCTCAGAAGTGACTTTATTAATCCTCTACGTGTCTAGCCTGCAGTAAG--TGGTTCCTTCTTTCAGGTATAATATTCCTAGATATTATGTTATAAAGTGAGGAGCTGAAAAGTAAAATCACGACAGCACAGTTGTCTGTCTGGACAGGGGCAGA-------AATGGGGAAAGAAAATAAGAAAGCAGTGAGTA--GTCAAATGCATGTATTTCCTAGGAAGTACTGCATGTG----TGGGCAGTTGGGGAAGCTGAT----------AAAAAGAGGCATTGCGAATACTTCAATTTGGTCTAACAT-CTAAATTTT--AAAACAAACCAACTACTAAGACTCAGGACTGTTAAGGAGTATACT-TC-AAAA---ACTTT
i canFam3.chr11            C 0 I 187
e dasNov3.JH567306           2676047 2011 +   3667625 I

a score=2082059.000000
s hg38.chr5_KI270796v1_alt    128289 154 +    172708 CCAAGTGTGTTTC-----------TAACTAAAACATATGTAATTAAAAAATATTTCCATTTGTTCTGTGGAACTGCCTATCGA------------------------------ACAC----ATATATATAGGTA----AGAGAAATGCTACAGGAGACTGACTGTTTCTTCTTTAGAAAACTGTGTTTAGCAGAGGAAAAGAA
s panTro5.chr5             125231962 156 + 181907262 CCAAGTGTGTTTC-----------TAACTAAAACATATGTAATTAAAAAATATTTCCATTTGTTCTGTGGAACTGCCTATCGA------------------------------ACAC--ATATATATATAGGTA----AGAGAAATGCTACAGGAGACTGACTGTTTCTTCTTTAGAAAACTGTGTTTAGCAGAGGAAAAGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126568685 152 + 183735486 CCAAGTGTGTTTC-----------TAACTAAAACATATGTAATTAAAAAATATTTCCATTTGTTCTGTGGAACTGCCTATCGA------------------------------ACAC------ATATATAGGTA----AGAGAAATGCTACAGGAGACTGACTGTTTCTTCTTCAGAAAACCGTGTTTAGCAGAGGAAAAGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1760490 154 +   8933513 CCAAGTGTGTTTC-----------TAACTAAAACATATGTAATTAAAAAATATTTCCATTTGTTCTGTGGAACTGCCTATTGA------------------------------ACAC----ACATATATAGGTA----AGAGAAATGCTACAGGAGACTGACTGTTTCTTCTTTAGAAAACTGTGTTTAGCAGAGGAAAAGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139894736 158 + 163208435 CCAAGTGTGTTTC-----------TAACTAAAACATATGTAATTAAAAAATATTTCCATTTGTTCTGTGGAACTGCATATCGA------------------------------ATACACACATATATATAGGTC----AGAGAAATGCTACAGGAGACTGCCTGTTTCTTCTTTAGAAAACTGTGTTTAGCAGAGGAAAAGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122879450 154 + 180051392 CCAAGTGTGCTTC-----------TAACTAAAACATATGTAATTTAAAAATATTTCCGTTTGTTCTGTGGAACTGCATATCGA------------------------------ACAC----ATATATATAGGTA----AGAGAAATGCTGCAGGAGCCTGCCTGTTTCTTATTTAGAAAACTGTGTTTAGCAGGGGAAAAGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124303085 154 + 181584905 CCAAGTGTGCTTC-----------TAACTAAAACATATGTAATTTAAAAATATTTCCGTTTGTTCTGTGGAACTGCATATCGA------------------------------ACAC----ATATATATAGGTA----AGAGAAATGCTGCAGGAGCCTGCCTGTTTCTTATTTAGAAAACTGTGTTTAGCAGGGGAAAAGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16301762 154 +  18395747 CCAAGTGTGCTTC-----------TAACTAAAACATATGTAATTTAAAAATATTTCCGTTTGTTCTGTGGAACTGCATATCGA------------------------------ACAC----ATATATATAGGTA----AGAGAAATGCTGCAGGAGCCTGCCTGTTTCTTATTTAGAAAACTGTGTTTAGCAGGGGAAAAGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5314196 154 +  26952557 CCAAGTGTGTTTC-----------TAACTAAAACATATGTAATTAAAAAATATTTCCGTTTGTTCTGTGGAACTGCATATCGA------------------------------ACAC----ATATATATAGGTA----AGAGAAATGCTGCAGGAGCCTGCCTGTTTCTTATTTAGAAAACTGTGTTTAGCAGGGGAAAAGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28414853 153 +  82825804 CCAAGTGTGTTTC-----------TAACTAAAACATATGTAATTAAAAAATATTTCCATTTGTTCTGTGGAACTGCATATCAA------------------------------ACAC----ATATACATAGGTA----AGAGAAATGC-GCAGGAGCCTGCCTGTTTCTTATTTAGAAAACTGTGTTTAGCAGGGGAAAAGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4084718 153 -   4237731 CCAAGTGTGTTTC-----------TAACTAAAACATATGTAATTAAAAAATATTTCCCTTTGTTCTGTGGAACTGCATATCAA------------------------------ACAC----ATATATATAGGTA----AGAGAAATGC-GCAGGAGCCTGCCTGTTTCTTATTTAGAAAACTGTGTTTAGCAGGGGAAAAGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      353251 151 -   1175262 CCAAGTGTGTTTC-----------TAACTAAAACATATGTAATTAAAAAATATTTCCATTTGTTCTGTGGAACTGCATATCGA------------------------------ACAC----ATATATATAAGTA----AGAGAAAT---GCAGGAGCCTGCCTGTTTCTTATTTAGAAAACTGTGTTTAGCAGGGGAAAAGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123701391 156 - 204313951 CCAAGTGTATTTT-----------TAACTAAAACATATGTAATTAAAAAATATTTCCATTTGTTCTGTGGAACTGCATATCAA----------------------------ACACAC----ACACAAACACGTA----TGAAAAATCCTACAGGAGCATGCCTGTTTCTTATTTAGAAAACTGTGTTTAGCAGAGGAAAAGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55745535 179 -  71252344 CCAAGTGTATTTC-----------TAACTAAAACATATGTAATT-AAAAATATTTCCATTTGTTCTGTGGAACTGCATATCAA----acacacacacacacacacacacacacacac----acacacacacGTG----TGAGAAATGCTACAGGAGCATGCCTGTTTCTTATTTAGAAAACTGTGTTTAGCAGAGGAAAAGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       48993 183 -   3089952 CCAAGTGTATTTC-----------TAACTAAAACATATGTAATT-AAAAATATTTCCATTTGTTCTGTGGAACTGCATGTCAAacacacacacacacacacacacacacacacacac----acacacacacaca----TGAGAAATGCTACAGGAGCATGCCTGTTTCTTATTTAGAAAACTGTGTTTAGCAGAGGAAAAGAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13249271 172 -  42888418 CCAAGTGTATTTC-----------TAACTGAAACATATATAATTAAAAAAAAATTCCATTTGTTCTGTGGAACTGCATATCAA------------acacacacacacacacacacac----acacacaTATGTA----TGAGAAATGCTACAGGAGCATGCCTGTTTCTTATTTAGAAAACTGTGTTTAGCAGAGGAAAAGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60587178 151 + 108143057 CCAAGTATTTTT------------TAACTAAAACATATGTAATTCAAAAATTTTTCCATTTTCTCTGTGGAACTG-ATGTAGA------------------------------ACAT----ATACA-GTAGGTA----AGAGAAATGCTACCAGAGCATGCCTGTTCCTTCTTTAGAAAACTGTGTTTAGCAGAGCAAAAGAA
i micMur3.chr12            C 0 I 34
s proCoq1.NW_012155062v1     3622788 150 +  11683526 TCAAGTGTTTTTC-----------TAACTAAAAC--ATGTAATTCAAACATTTTTCCATTTGCTGTGTGGAACTGCATGTAGA------------------------------ACAT----ATAGA-GTAGGTA----AGAGAAATGCTGCAGGAGCATG-CTGTTCCTTATTTAGAAAATTGTGCTTAGCAGAGCAAAAGAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3112704 140 +   4132165 CCAAGTGTTCTTC-----------TAACAAAAACATATGTAATTCCCTAATTTTTCCATTTGCTCC-------------TAGA------------------------------ACCT----ATGTG-GTGGGTA----AAAGAAATGGTACAGGAGCACGCCTGCTCCTTATTTAGAAGACTGTAGGTAGCAGAGGGAAAAAA
i otoGar3.GL873679         C 0 I 4
s mm10.chr18                55543258 170 +  90702639 CCAAGGTTTTTCCTCCTTTTATCTTAGCTAAAACATTAGTAATTGAAAAACATTTCCATTTGGTGTGTGGAACTGCATGTAGA------------------------------ATAT-TAAATATATTTAGGTAGGGTAGGGAAAACC--CCTTAAAACACCTATTTCTTATTTAAAAACCTGTATCTGGTAGGGCAAAGGAA
i mm10.chr18               I 20 C 0
s canFam3.chr11             14953873 151 +  74389097 CTAAGTGTTTTTT-----------TAACTGAAACATATGTAATTCAAACATATTTCTGTATGTTCTTTAGAATCACACATGGA------------------------------ACAT----ATA---GTGGGTA----AGAGAAATTTTGTCGGAGCATGTCTGTTTCTTTTTTAGAAAACCGTGGTTAGCCCAGCAAAAGAA
i canFam3.chr11            I 187 I 4
e dasNov3.JH567306           2676047 2011 +   3667625 I

a score=48626.000000
s hg38.chr5_KI270796v1_alt    128443  7 +    172708 ATC---AATG
s panTro5.chr5             125232118  7 + 181907262 ATC---AATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126568837  7 + 183735486 ATC---AATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1760644  7 +   8933513 ATC---AATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139894894  7 + 163208435 ATC---AGTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122879604 10 + 180051392 ATCAATAATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124303239 10 + 181584905 ATCAATAATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16301916 10 +  18395747 ATCAATAATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5314350 10 +  26952557 ATCAATAATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28415006 10 +  82825804 ATCAATAATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4084871 10 -   4237731 ATCAATAATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      353402 10 -   1175262 ATCAATAATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123701547 10 - 204313951 ATCAATAATG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55745714 10 -  71252344 ATCAATAATG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       49176 10 -   3089952 ATCAATAATG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13249443 10 -  42888418 ATCAATAATG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3622938  7 +  11683526 ---CTGAATA
i proCoq1.NW_012155062v1   C 0 I 18
s otoGar3.GL873679           3112848  7 +   4132165 ---ATAAATC
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55543428  7 +  90702639 ---CTGAATA
i mm10.chr18               C 0 I 3
s canFam3.chr11             14954028  6 +  74389097 ATC---AAT-
i canFam3.chr11            I 4 C 0
e micMur3.chr12             60587329 34 + 108143057 I
e dasNov3.JH567306           2676047 2011 +   3667625 I

a score=154717.000000
s hg38.chr5_KI270796v1_alt    128450 13 +    172708 CCTGTATTTTCCA
s panTro5.chr5             125232125 13 + 181907262 CCTGTATTTTCCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126568844 13 + 183735486 CCTGTATTTTCCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1760651 13 +   8933513 CCTGTATTTTCCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139894901 12 + 163208435 CTTG-ATTTTCCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122879614 13 + 180051392 CCTGTATTTTCCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124303249 13 + 181584905 CCTGTATTTTCCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16301926 13 +  18395747 CCTGTATTTTCCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5314360 13 +  26952557 CCTGTATTTTCCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28415016 13 +  82825804 CCTGTATTTTCCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4084881 13 -   4237731 CCTGTATTTTCCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      353412 13 -   1175262 CCTGTATTTTCCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123701557 13 - 204313951 CCTGTATTTTCCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55745724 13 -  71252344 CCTGTATTTTCCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       49186 13 -   3089952 CCTGTATTTTCCA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13249453 13 -  42888418 CCTGTATTTTCCA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3112855 12 +   4132165 -CTATGTTTGCCA
i otoGar3.GL873679         C 0 I 9
s mm10.chr18                55543438 12 +  90702639 TCTAGATTGCTT-
i mm10.chr18               I 3 C 0
s canFam3.chr11             14954034 13 +  74389097 CCTGTATTTGTCA
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60587329 34 + 108143057 I
e proCoq1.NW_012155062v1     3622945 18 +  11683526 I
e dasNov3.JH567306           2676047 2011 +   3667625 I

a score=119962.000000
s hg38.chr5_KI270796v1_alt    128463 10 +    172708 TTATGACAAA
s panTro5.chr5             125232138 10 + 181907262 TTATGACAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126568857 10 + 183735486 TTATGACAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1760664 10 +   8933513 TTATGACAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139894913 10 + 163208435 TTATGACAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122879627 10 + 180051392 TTATGACAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124303262 10 + 181584905 TTATGACAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16301939 10 +  18395747 TTATGACAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5314373 10 +  26952557 TTATGACAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28415029 10 +  82825804 TTATGACAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4084894 10 -   4237731 TTATGACAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      353425 10 -   1175262 TTATGACAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123701570 10 - 204313951 GGATGAGAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55745737 10 -  71252344 GTATGACAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       49199 10 -   3089952 GTATGACAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13249466 10 -  42888418 GTATGACAAA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3622963  8 +  11683526 --TTAAGAAA
i proCoq1.NW_012155062v1   I 18 I 2
s otoGar3.GL873679           3112876 10 +   4132165 TGATAACAAA
i otoGar3.GL873679         I 9 I 2
s mm10.chr18                55543450 10 +  90702639 TTCTAACAAA
i mm10.chr18               C 0 I 3
s canFam3.chr11             14954047 10 +  74389097 CTGCAATAAA
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60587329 34 + 108143057 I
e dasNov3.JH567306           2676047 2011 +   3667625 I

a score=3462369.000000
s hg38.chr5_KI270796v1_alt    128473 247 +    172708 ---GCT-------CATAATTGTCCTTAAATGGACTTTTTGTACTCAAGGCTTATGATTCCAATTTGTCATTAGTGATAACTTGCATCAGTATCTAGAAAAGAGAAAGTTTCAGAGAAGAC--AAAAAAGTCTTCTATCTTAATTTTCACAGCCATTTA-TTGATGTGCACATTACTTTCATTCTTTCAACCTAAATTGAATGTAATATGCAAAATAGACTATCTGAATAAGTAGA--TTATTAGGAAGAAAAAGGTAGCATG
s panTro5.chr5             125232148 247 + 181907262 ---GCT-------CATAATTGTCCTTAAATGGACTTTTTGTACTCAAGGCTTATGATTCCAATTTGTCATTAGCGATAACTTGCATCAGTATCTAGAAAAGAGAAAGTTTCAGAGAAGAC--AAAAAAGTCTTCTATCTTAATTTTCACAGCCATTTA-TTGATGTGCACATTACTTTCATTCTTTCAACCTAAATTGAATGTAATATGCAAAATAGACTATCTGAATAAGTAGA--TTATTAGGAAGAAAAAGGTAGCATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126568867 247 + 183735486 ---GCT-------CATAATTGTCCTTAAATGGACTTTTTGTACTCAAGGCTTATGATTCCAATTTGTCATTAGCGATAACTTGCATCAGTACCTAGAAAAGAGAAAGTTTCAGAGAAGAC--AAAAAAGTCTTCTATCTTAATTTTCACAGCCATTTA-TTGATGTGCACATTACTTTCATTCTTTCAACCTAAATTGAATGTAATATGCAAAATAGACTATCTGAATAAGTAGA--TTATTAGGAAGAAAAAGGTAGCATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1760674 247 +   8933513 ---GCT-------CATAATTGTCCTTAAATGGACTTTTTGTACTCAAGGCTTATGACTCCAATTTGTCATTAGTGATAACTTGCATCAGTATCTAGAAAAGAGAAAGTTTCAGAGAAGAC--AAAAAAGTCTTCTATCTTAATTTTCACAGCCATTTA-TTGATGTGCACATTACTTTCATTCTTTCAACCTAAATTGAATGTAATATGCAAAATAGACTATCTGAATAAGTAGA--TTATTAGGAAGAAAAAGGTAGCATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139894923 253 + 163208435 ---GCTCATAACACATAATTGTCCTTAAATGGACTTTTTGTACTCAAGGCTTATGATTCCAATTTGTCATTAGTGATAACTTGCATCAGTATCTAGAAAAGAG--AGTTTCAGAGAAGAC--AAAAAAGTCTTCTATCTTAATTTTCACAGCCATATATTTGATGTGCACATTACTTTCATTCTTTCATCCTAAATTGAATGTAATATACAAAATAGAATATCTGAGTAAGTAGC--TTGTTAGGAAGAAAAAGGTAGCATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122879637 249 + 180051392 ---GCT-------CATAATTGTCCTGAAATGGACTTTTTGTACTCAAGGCTTATGGTTCCAATTTGTCATTAGTGATAACTTGTGTCAGTATCTAGAAAAGAGAAAGTTTTAGAGAAGACAAAAAAAAGTCTTCTATCTTAATTTTCACAGCCATATA-TTGATGTGAACATTACTTTCATTCTTTCAACCTAAATTGAATGTAATATGTAAAATAGAATATCTGAATAAGTAGC--TTGTCAGGAAGAAAAAGGTAGCATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124303272 248 + 181584905 ---GCT-------CATAATTGTCCTGAAATGGACTTTTTGTACTCAAGGCTTATGGTTCCAATTTGTCATTAGTGATAACTTGCGTCAGTATCTAGAAAAGAGAAAGTTTTAGAGAAGAC-AAAAAAAGTCTTCTATCTTAATTTTCACAGCCATATA-TTGATGTGAACATTACTTTCATTCTTTCAACCTAAATTGAATGTAATATGTAAAATAGAATATCTGAATAAGTAGC--TTGTCAGGAAGAAAAAGGTAGCATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16301949 248 +  18395747 ---GCT-------CATAATTGTCCTGAAATGGACTTTTTGTACTCAAGGCTTATGGTTCCAATTTGTCATTAGTGATAACTTGCGTCAGTATCTAGAAAAGAGAAAGTTTTAGAGAAGAC-AAAAAAAGTCTTCTATCTTAATTTTCACAGCCATATA-TTGATGTGAACATTACTTTCATTCTTTCAACCTAAATTGAATGTAATATGTAAAATAGAATATCTGAATAAGTAGC--TTGTCAGGAAGAAAAAGGTAGCATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5314383 247 +  26952557 ---GCT-------CATAATTGTCCTGAAATGGACTTTTTGTACTCAAGGCTTATGGTTCCAATTTGTCAATAGTGATAACTTGCGTCAGTGTCTAGAAAAGAGAAAGTTTTAGAGAAGAC-AAAAAAAGTCTT-TATCTTAATTTTCACAGCCATATA-TTGATGTGAACATTACTTTCATTCTTTCAACCTAAATTGAATGTAATATGTAAAATAGAATATCTGAATAAGTAGC--TTGTCAGGAAGAAAAAGGTAGCATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28415039 248 +  82825804 ---GCT-------CATAATTGTCCTGAAATGGACTTTTTATACTCAAGGCTTATGATTCCAATTTGTCATTAGTGATAACTTGTGTCAGTGTCTAGAAAAGAGAAAGTTTTAGAGAAGAC-CAAAAAAGTCTTCTATCTTAATTTTCACAGCCATATA-TTGATGTGCACATTACTTTCATTCTTTCAACCTAAATTGAATGTAATATGTAAAATAGAATATCTGAATAAGTAGC--TTGTCAGGAAGAAAAAGGTAGCATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4084904 248 -   4237731 ---GCT-------CATAATTGTCCTGAAATGGACTTTTTGTACTCAAGGCTTATGATTCCAATTTGTCATTAGTGATAACTTGCATCAGTGTCTAGAAAAGAGAAAGTTTTAGAGAAGAC-AAAAAAAGTCTTCTATCTTAATTTTCACAGCCATATA-TTGATGTGCACATTACTTTCATTCTTTCAACCTAAATTGAATGTAATATGTAAAATAGAATATCTGAATAAGTAGC--TTGTCAGGAAGAAAAAGGTAGCATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      353435 248 -   1175262 ---GCT-------CATAATTGTCCTGAAATGGACTTTTTGTACTCAAGGCTTATGATTCCAATTTGTCATTAGTGATAACTTGCGTCAGTGTCTAGAAAAGAGAAAGTTTTGGAGGAGAC-AAAAGAAGTCTTCTATCTTAATTTTCACAGCCATATA-TTGATGTGCACATTACTTTCATTCTTTCAACCTAAATTGAATGTAATATGTAAAATAGAATATCTGAATAAGTAGC--TTGTCAGGAAGAAAAAGGTAGCATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123701580 244 - 204313951 ---GCT-------GATAATTGTTCTTAAATGGGCTCTTTGTACTCAAGGCTTATGATTGCAGTTTGTCATGAGTGATAACTTGCATCAGCATCTAGAAAAGAGAAAGTTTCAGAGAAGA---AAAAAAATCTTCTACCTT-ATTTTCACAGCCATATA-TTGATGTACACATTACTTTCATTCTTTCA-CCTAAATTAAATGTTGTATGTAAAACAGGATATCTGAATAAGTAGC--TTGTCAGGAAGAAAAAGGTAGCATG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55745747 245 -  71252344 ---GCT-------GATAATTGTTCTTAAATGGGCTCTTTGTACTGAAGGCTTATGATTCCAATTCGTCATGAGTGATAACTTGCATCAGCATCTAGAAAAGAGAAAGTTTCAGAGAAGAC--AAAAAAATCTTCTATCTT-ATTTTCACAGCCAGATA-TATATATGCACATTACTTTCATTCTTTCA-CCTAAATTGAATGTTAAATATAAAATAGGATATCTGAATAAGTAGC--TTGTCAGGAAGTAAAAGGTAGCATG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       49209 236 -   3089952 ---GCT-------GATAATTGTTCTTAAATGGGCTCTTTGTACTCAAGGCTTATGATTCCAATTTGTCATGAGTGATAACTTGCATCAGCAGCTAGAAAAGAGAAAGTTTCAGAGAAGA---CAAAAAATCTCTTA-------TTTCACAGCC--ATA-TTGATGTGCACATTACTTTCATTCTTTCA-CCTAAATTGAATGTTAAATGTAAAATAGGATAACTGAATAAGTAGC--TTGTCAGGAAGAAAAAGGTAGCATG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13249476 242 -  42888418 ---GCT-------GATAATTGTTCTTAAATGGGCTCTTTGTCCTCAAGGCTTATGATTCCAATTCGTCATGAGTGATAACTTGCATCAGCATCTAGAAAAGAGAAAGTTTCGGAGAAGA---CAAAGAATCTTCTATCTT-ATTTTCACAGCC--ATA-CTGATATGCACATTACTTTCATTCTTTCA-TCTAAATTGAATGTTAAATGTAAAATAGGGTATCTGAATAAGTAGC--TTGTCAGGAAGAAAAAGGTAGCATG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60587363 238 + 108143057 ---GAT-------AATAATTGTTCTTAAATGGAATTTTTGTACTTAAGGCTTATGATCTCAATTTGTCATGAGTGATAACTCGCATCAGTTTCTAGAAAAGAAAAAGTTTCAGGGGAGAC--CAAAAGGTCTTCTATCTTTATTTTCACAGGTATACA-GTGATGTGCACATTA--------CTTTCA-TCGAAATTGAATTTAATATGTAAAATAGAGTATCTGAATAAGTAGC--TTGTCTAAAAGAAAAAGGTAGCATG
i micMur3.chr12            I 34 C 0
s proCoq1.NW_012155062v1     3622973 246 +  11683526 ---GAT-------AATGATTGTTCTTAAATGGGATTTTTGTACTCAAGGCTTATGATCTCAATTTGTCATGAGTGATAACTCACATAGGCTTCTAGAGAAGAGAAAGTTGCAGGGGAGAC--CAAAACGACTTCTATCTTTATTTTCACAGGTATACA-TTGATGTGCACATTACTTTCATTCTTTCA-TCTAAATTGAATTTAATATGTAAAGTAGAGTATCTGAATAAGTAGG--CTGTCTGGAAGAAAAAGCTAGCATG
i proCoq1.NW_012155062v1   I 2 C 0
s otoGar3.GL873679           3112888 246 +   4132165 ---GAG-------AATAACTGTTCTTAAATGGGCTTTTTGTCCTCAAGGCTTATCATCTCAATCTGTTGTGAGTGATAACTCACATCAGTTTCCAGAAAAGAGGAAGTTTCTGGGGAGAC--CAAAATGTTTTCGGTCTTTATTTTCCCAGGCGTAGG-TTGATGTGCACATTACTTCCTTTCTTTCA-TCTAAATTGAATTTAATATGTAACCTAGAATATTTGAATGAGTCAC--TTGTCAGGAAGAAAAAGGTAGTGTG
i otoGar3.GL873679         I 2 C 0
s mm10.chr18                55543463 224 +  90702639 ---GGT-------AATCACCATGCTTAAATGGGCTTTTCCTATTGAAGAGTTGGAATCCCAGTTTATCATGAGCGATAACTTGCCTCAATATCTA---------AAGTTTCAGGAGAGAG--AATAG----TTCCATCTGTATTGTCATGGGTTTGAA-TGGATATGGACCTAACAGTCATT---------TAAACTGAGTTTAAAATATCAAATAGTACATAGGAATAAGAGGCAATTGTTAGATAGAAA---GTAGCATG
i mm10.chr18               I 3 C 0
s canFam3.chr11             14954057 241 +  74389097 GCTGAT-------AGTAATGGTCCTTAAATGGGCTTTTTGTACTCAAGAATTACGAAACCAACTTGTCACGAGTGATAACTTGAACCAATACCTAGAGAAAAGAAAATTTCAGATGGGGG------AAGCCTTCTGTCTTTATTTTCACAAGTATATA-TTGATGTGCACATTACTTTCATTATTTCA-CCTAACTTGACTTTAACATGTACAAAAGA----CTGAATAAATAGC--ATACTAGGAAAAAAAAGGTAGTTTG
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2676047 2011 +   3667625 I

a score=9529098.000000
s hg38.chr5_KI270796v1_alt    128720 670 +    172708 AGTCCTGTTCACTATAAGGGAAAGTATATTA-AAC-AAATT-ATAAATAATATAATTACAAACCATTGTAGATCTACAAAGTATTTCTTGTGTGGTTTACTTAAGGATAGTATAGTCATTTA-AGTTGCAAAGAATAGCCACAGAAGGAAGCATACCTATTCTACCTGAATT---CTACAGAATTTTCAG-TAACAAAAAAAA-------CTGCAGATCCCCTTTCTAATGTTCAATGTGGAAATAAAAAGCCTCGTCCTTTTAGCTATTAAACACCATATC----TTTTGATCACTGAGTC----TTCCTCTTTTATTT----ATTTATAGATGT--GAAAGAGCAGGTAGAATTATGCACTGCAGGTATCTGAGAATTTCAG-TTTCAGAAGGAACAATAAGGATGGTGCCATCC--AACCCGGCTATGCCACAGGCAAGACTCACAGAGGTAAAATG-AGTGTGCAAAGTC-------------AGGAGCAAATCCAGGGCTGGAATCTGGGG-CTTTTCCCATTATCCTAGGCTTGATCTAAGGTCAGCACTGTCTAAGTTAATGAACATACAGTTTTGCAGTTCTAGCAACAGAGCTCAATAAAA----CTACA---CTTGTTCTGGTGCACACCAATGAGATCATCCAAGGTCAT--TATTTCTGTCTTCCAAGCTCTGCAGATCAGCACACTACTGAAACCCAAT-TA--AACCACAAGAGG
s panTro5.chr5             125232395 670 + 181907262 AGTCCTGTTCACTATAAGGGAAAGTATATTA-AAC-AAATT-ATAAATAATATAATTACAAACCATTGTAGATCTACAAAGTATTTCTTGTGTGGTTTACTTAAGGATAGTATAGTCATTTA-AGTTGCAAAGAATAGCCACAGAAGGAAGCATACCTATTCTACCTAAATT---CTACAGAATTTTCAG-TAACAAAAAAAA-------CTACAGATCCCCTTTCTAATGTTCAATGTGGAAATAAAAAGCCTCGTCCTTTTAGCTATTAAACACCATATC----TTTTGATCACTGAGTC----TTCCTCTTTTATTT----ATTTATAGATGT--GAAAGAGCAGGTAGAATTATGCACCGCAGGTATCTGAGAATTTCAG-TTTCAGAAGGAACAATAAGGATGGTGCCATCC--AACCCGGCTATGCCACAGGCAAGACTCACAGAGGTAAAATG-AGTGTGCAAAGTC-------------AGGAGCAAATCCAGGGCTGGAATCTGGGG-CTTTTCCCATTATCCTAGGCTTGATCTAAGGTCAGCACTGTCTAAGTTAATGCACATACAGTTTTGCAGTTCTAGCAACAGAGCTCAATAAAA----CTACA---CTTGTTCTGGTGCACACCAATGAGACCATCCAAGGTCAT--TATTTCTGTCTTCCAAGCTCTGCAGATCAGCACACTACTGAAACCCAAT-TA--AACCACAAGAGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126569114 670 + 183735486 AGTCCTGTTCACTATAAGGGAAAGTATATTA-AAC-AAATT-ATAAATAATATAATTACAAACCATTGTAGATCTACAAAGTATTTCTTGTGTGGTTTACTTAAGGATAGTATAGTCATTTA-AGTTGCAAAGAATAGCCACAGAAGGAAGCATACCTATTCTACCTAAATT---CTACAGAATTTTCAG-TAACAAAAAAAA-------CTACAGATCCCCTTTCTAATGTTCAATGTGGAAATAAAAAGCCTCGTCCTTTTAGCTATTAAACACCATATC----TTTTGATCACTGAGTC----TTCCTCTTTTATTT----ATTTATAGATGT--GAAAGAGCAGGTAGAATTATGCACCGCAGGTATCTGAGAATTTCAG-TTTCAGAAGGAACAATAAGGATGGTGCCATCC--AACCCGGCTATGCCACAGGCAAGACTCACAGAGGTAAAATG-AGTGTGCAAAGTC-------------AGGAGCAAATCCAGGGCTGGAATCTGGGG-CTTTTCCCATTATCCTAGGCTTGATCTAAGGTCAGCACTGTCTAAGTTAATGCACATACAGTTTTGCAGTTCTAGCAACAGAGCTCAATAAAA----CTACA---CTTGTTCTGGTGCACACCAATGAGACCATCCAAGGTCAT--TATTTCTGTCTTCCAAGCTCTGCAGATCAGCACACTACTGAAACCCAAT-TA--AACCACAAGAGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1760921 670 +   8933513 AGTCCTGTTCACTGTAAGGGAAAGTATATTA-AAC-AAATT-ATAAATAATATAATTACAAACCATTGAAGATCTACAAAGTATTTCTTGTGTGGTTTCCTTAAGGATAGTATAGTCATTTA-AGTTGCAAAGAATAGCCACAGAAGGAAGCATACCTATTCTACCTAAATT---CTACAGAATTTTCAG-TAACAAAAAAAA-------CTACAGATTCCCTTTCTAATGTTCAGTGTGGAAATAAAAAGCCTCATCCTTTTAGCTATTAAACACCATATC----TTTTGATCACTGAGTC----TTCCTCTTTTATTT----ATTTATAGATGT--GAAAGAGCAGGTAGAATTATGCACTGCAGGTATCTGAGAATTTCAG-TTTCAGAAGGAACAATAAGGATGGTGCCATCC--AACCTGGCTATGCCACAGGCAAGACTCACAGAGGTAAAATG-AGTGTGCAAAGTC-------------AGGAGCAAATCCAGGGCTGGAATCTGGGG-CTTTCTCCATTATCCTAGGCTTGATCTAAGGTCAGCACTGTCTAAGTTAATGCACATACAGTTTTGCAGTTCTAGCAACAGAGCTCAATAAAA----CTACA---CTTGTTCTGGTGCACACCAATGAGACCATCCAAGGTCAT--TATTTCTGTCTTCCAAGCTCTGCAGATCAGCACACTACTGAAACCCAAT-TA--AACCACAAGAGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139895176 674 + 163208435 AGTCCTGTTCACTATAAGGGACAGTATATTA-AAC-AAATT-ATAAATAATATAATTACAAACCATTGTAGATCTACAGAATATTTCTTATGTGGTTTACTTGAGGATAGTATAGTCATTTA-AGTTGCAAAGAATAGCCACAGAAGGAAGCATACCTATTCTACCTAAATT---CTACAGAATTTTCAG-TAACAAAAAAAA-------CTACAGATCCCCTTTCTAATGTTCAATGTGGAAATAAAAAGCCTCGTCCTTTTAGCTATTAAACACCGTATC----TTTTGATCACTGAGTC----TTCCTCTTTTATTT----ATTTATAGATGT--GAAAGAGCAGGTAGAATTATGCACTGCAGGTATCTGAGAATTTCAG-TTTCAGAAGGAACAATAAGGATGGTGCCATCC--AACCCGGCTATGCCACAGGCAAGACTCACAGAGGTAAAATG-AGTGTGCAAAGTC-------------AGGAGCAAATCCGGAGCTGGAATCTGGGG-CTTTTCCCATTATCTTAGGCTTGATCTGAGGTCAGCACTGTCTAAGTTAATGCACATACAGTTTTGCAGTTCTACCAACAGAGCTCGATAAAACTACCTACA---CTTGTTCTGGTGCACACCAATGAGACCATCCGAGGTCAT--TATTTCTGTCTTTCAAGCTCTGCAGATCAGCACACTACTGAAACCCAAT-TA--AACCACAAGGGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122879886 667 + 180051392 AGTCCTGATGACTATGAGGGAAAGTATATTA-AAC-AAATT-ATAAATAATATAATTACAAACCATTGTAGATCTACAAAATATTTCTTGTGTGATTTACTTAAAGATAGTATAGTCATTTA-AGTTGCAAAGAATAGCCACAGAAGGAAGCGTACCTATTCTACCTGAATT---CTACAGAATTCTCAG-TAACAAAAAAAA-------CTATAGATTCCCTTTCTAATGTTCAATATGGAAGT-AAAAGCCTTGTCCTTTTAGCTATTAAATACCATATC----TTTTGATCACTGAGTC----TTCCTCTTTTATTT----ATTTATAGATAT--GAAAGAGCAGGTAGAATTATGCACCACAGGTATCTGAGAATTTCAG-TTTCAGAAGGAAC--TAAGGATGGTGCCATCC--AACCCGGCTATGCCACAGGCAAGACTCACAGAGGTAAAATG-AGTGTCCAAAGAC-------------AGGAGCAAATCTGGGGCTGGAATCTGGAG-CTTCTTCCATTATCCTAGGCTTGATCTAAGGTCAGCAGTGTCTAAGTCAATGCACATACAGTTTTGCAGTTCTAGCAAAAGAGCTAGATAAAA----CTACA---CATGTTCTGGTGCACACCAATGAGACCATCCGAGGTCAT--TATTTCTGTCTTCCAAGCTCTGCAGATCGGCACACTACTGAAACCCAAT-TA--AACCACAAGGGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124303520 667 + 181584905 AGTCCTGATGACTATGAGGGAAAGTATATTA-AAC-AAATT-ATAAATAATATAATTACAAACCATTGTAGATCTACAAAATATTTCTTGTGTGATTTACTTAAAGATAGTATAGTCATTTA-AGTTGCAAAGAATAGCCACAGAAGGAAGCGTACCTATTCTACCTGAATT---CTACAGAATTCTCAG-TAACAAAAAAAA-------CTACAGATTCCCTTTCTAATGTTCAATATGGAAGT-AAAAGCCTTGTCCTTTTAGCTATTAAATACCATATC----TTTTGATCACTGAGTC----TTCCTCTTTTATTT----ATTTATAGATAT--GAAAGAGCAGGTAGAATTATGCACCACAGGTATCTGAGAATTTCAG-TTTCAGAAGGAAC--TAAGGATGGTGCCATCC--AACCCGGCTATGCCACAGGCAAGACTCACAGAGGTAAAATG-AGTGTCCAAAGAC-------------AGGAGCAAATCTGGGGCTGGAATCTGGAG-CTTCTTCCATTATCCTAGGCTTGATCTAAGGTCAGCAGTGTCTAAGTCAATGCACATACAGTTTTGCAGTTCTAGCAAAAGAGCTAGATAAAA----CTACA---CATGTTCTGGTGCACACCAATGAGACCATCCGAGGTCAT--TATTTCTGTCTTCCAAGCTCTGCAGATCGGCACACTACTGAAACCCAAT-TA--AACCACAAGGGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16302197 667 +  18395747 AGTCCTGATGACTATGAGGGAAAGTATATTA-AAC-AAATT-ATAAATAATATAATTACAAACTATTGTAGATCTACAAAATATTTCTTGTGTGATTTACTTAAAGATAGTATAGTCATTTA-AGTTGCAAAGAATAGCCACAGAAGGAAGCGTACCTATTCTACCTGAATT---CTACAGAATTCTCAG-TAACAAAAAAAA-------CTACAGATTCCCTTTCTAATGTTCAATATGGAAGT-AAAAGCCTTGTCCTTTTAGCTATTAAATACCATATC----TTTTGATCACTGAGTC----TTCCTCTTTTATTT----ATTTATAGATAT--GAAAGAGCAGGTAGAATTATGCACCACAGGTATCTGagaatttcag-tttcagaaggaac--taaggatggtgccatcc--aacccggctatgccacaggcaagactcacagaggtaaaatg-agtgtccaaagac-------------aggagcaaatctggggctggaatctggag-cttctTCCATTATCCTAGGCTTGATCTAAGGTCAGCAGTGTCTAAGTCAATGCACATACAGTTTTGCAGTTCTAGCAAAAGAGCTAGATAAAA----CTACA---CATGTTCTGGTGCACACCAATGAGACCATCCGAGGTCAT--TATTTCTGTCTTCCAAGCTCTGCAGATCGGCACACTACTGAAACCCAAT-TA--AACCACAAGGGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5314630 670 +  26952557 AGTCCTGATGACTATGAGGGAAAGTATATTA-AAC-AAATTAAAAAATAATATAATTACAAACCATTGTAGATCTACAAAATATTTCTTGTGTGATTTACTTAAGGATAGTATAGTCATTTA-AGTTGCAAAGAATAGCCACAGAAGGAAGCGTACCTATTCTACCTGAATT---CTACAGAATTCTCAG-TAACAAAAAAAA-------CTACAGATTCCCTTTCTAATGTTCAATGTGGAAGA-AAAAGCCTTGTCCTTTTAGCTATTAAATACCATATC----TTTTGATCACTGAGTC----TTCCTCTTTTATTT----ATTTATAGATAT--GAAAGAGCAGGTAGAATTATGCACCACAGGTATCTGagaatttcag-tttcagaaggaacaataaggatggtgccatcc--aacccggctatgccacaggcaagactcacagaggtaaaatg-agtgtccaaagac-------------aggagcaaatctggggctggaatctggag-cttctTCCATTATCCTAGGCTTGATCTAAGGTCAGCAGTGTCTAAGTCAATGCACATACAGGTTTGCAGTTCTAGCAAAAGAGCTAGATAAAA----CTACA---CGTGTTCTGGTGCACACCAATGAGACCATCCGAGGTCAT--TATTTCTGTCTTCCAAGCTCTGCAGATTGGCACACTACTGAAACCCAAT-TA--AACCACAAGGGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28415287 674 +  82825804 AGTCCAGATGACTAAGAGGGAAAGTATATTA-AAC-GAATT-ATAAATAATATAATTACAAATCAATGTAGATCTACAAAATATTTCTTGTGTGATTTACTTAAGGATAGTATAGTCATTTA-AGTTGCAAAGAATAGCCACAGAAGGAAGCGTACGTATTCTACCTGAATT---CTACAGAATTCTCAG-TAACAAAAAAAAAAAAAACCTACAGATTCCCTTTCTAATGTTCAATGTGGAAGT-AAAAGCCTTGTCCTTTTAGCTGTTAAATACTATATC----TTTTGATCACTGAGTC----TTCCTCTTTTATTT----ATTTATAGATAT--GAAAGAGCAGGTAGAATTATGCACCACAGGTATCTGAGAATTTCAG-TTTCAGAAGGAAC--TAAGGATGGTGCCATCC--AACCCGGCTATGCCACAGGCAAGACTCACAGAGGTAAAATG-AGTGTCCAAAGAC-------------AGGAGCAAATCTGGGGCTGGAATCTGGAG-CTTCTTCCATTATCCTAGGCTTGATCTAAGGTCAGCAGTGTCTAAGTCAATGCACATACAGTTTTGCAGTTCTAGCAAAAGAGCTAGATAAAA----CTACA---CATGTTCTGGTGCACACCAATGAGACCATCGGAGGTCAT--TATTTCTGTCTTCCAAGCTCTGCAGATCGGCACACTACTGAAACCCAAT-TA--AACCACAAGGGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4085152 666 -   4237731 AGTCCTGATGACTATGAGGTAAAGTATATTA------AATT-ATAAATAATATAATTACAAACCATTGTAGATCTACAAAGTATTTCTTGTGTGATTTACTTAAGGATAGTATAGTCATTTA-AGTTGCCAAGAATAGCCACAGAAGGAAGCGTACCTATTCTACCTAAATT---CTACAGAATTCTCAG-TAACAAAAAAAAA------CTACAGATTCCCTTTCTAATGTTCAATGTGGAAGT-AAAAGCCTTGTCCTTTTAGCTATTAAATACCATATC----TTTTGATCACTGAGTC----TTCCTCTTTTATTT----ATTTATAGATAT--GAAAGAGCAGGTAGAATTATGCACCACAGGTATCTGagaatttcag-tttcagaaggaacaataaggatggtgccatcc--aacccggctatgccacaggcaagactcacagaggtaaaatg-agtgtccaaagac-------------aggagcaaatctggggctggaatctggag-cttctTCCATTATCCTAGGCTTGATCTAAGGTCAGCAGTGTCTAAGTCAATGCACATACAGGTTTGCAGTTCTAGCAAAAGAGCTAGATAAAA----CTACA---CATGTTCTGGTGCACACCAATGAGACCATCCGAGGTCAT--TATTTCTGTCTTCCAAGCTCTGCAGATTGGCACACTACTGACACCCAAT-TA--AACCACAAGGGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      353683 670 -   1175262 AGTCCTGATGACTATGAGGGAAAGTATATTA-AAC-AAATT-ATAAATAATATAATTACAAACCATTGTAGATCTACAAAATATTTCTTGTGTGATTTACTTAAGGATAGTATAGTCATTTA-AGTTGCAAAGAATAGCCACAGAAGGAAGCGTACCTATTCTACCTAAATT---CTACAGAATTCTCAG-TAACAAAATAAAA------CTACAGATTCCCTTTCTAATGTTCAATGTGGAAGT-AAAAGCCTTGTCCTTTTAGCTATTAAATACCATATC----TTTTGATCACTGAGTC----TTCCTCTTTTATTT----ATTTATAGATAT--GAAAGAGCAGGTAGAATTATGCACCACAGGTATCTGagaatttcag-tttcagaaggaacaataaggatggtgccatcc--aacccggctatgccacaggaaagactcacagaggtaaaatg-agtgtccaaagac-------------aggaacaaatctggggctggaatctggag-cttctTCCATTATCCTAGGCTTGATCTAAGGTCAGCACTGTCTAAGTCAATGCACATACAGTTTTGCAGTTCTAGCAAAAGAGCTAGATAAAA----CTACA---CATGTTCTGGTGCACACCAATGAGACCATCCGAGGTCAT--TATTTCTGTCTTCCAAGCTCTGCAGATCGGCACACTACTGAAACCCAAT-TA--AACCACAAGGGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123701824 657 - 204313951 AGTTCTGATCACTATAAGGGGAAGtatatta-aacaaa----aaaaataatataattaCAAACCATTGTAGGTCTACAGAGTA----TTATGTGGTTTACTTAAGGATAGTATAGTCATTTA-AGCTGCAAAGAATAGCTACAGAAGGAAGCATACCTATTCCACTGAAATT---CTATAGAATTTTCAG-TAACAAGAAAA--------CTACAGATTTCCTTTGTAATGTTCAATGTGGAAATAAAGAGCCTTGTTCTTTTAGCTATTAAATACCATATC----TTTTTATCACTGAGTC----TTCCTCTTTTATTT----ATTTATAGATGT--GAAAGAGCAGATAGAATTATGCACCACAGGTATCTGAGAATTTCAG-TTTTAGAAGGAACAGTAAGGTTGGTGCCATCC--GACCGGGCTATGCCATAGGCAAGACTCACAAAGGTAAAATG-AGTGTCCAAAATC-------------AGAAGCAAATCCAGGGCCAGAATCTGGGG-CTTTTCCCATTATTCTAGGCTTGATCTAAGGTCAGCACTGTCGAAGCCAATGCACATACAGTTTTGCAGTTCTAGCAACAGGGCTAGATAAAA----CTATA---CTTGCTCTGGTGCACACCAACGAGACCATCTGAGGTCAG--TAGTTCTGCTTTCCAAGCTCTGCAGGTT---AC---ACTGAAACCCAAT-TA--AACCACAAGGAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55745992 662 -  71252344 AGTCCTGATCACTATACGGGGAAGtatatta-aac-aa----ataaataatataattaCAAACCATTGTAGATCTACAAAGTATTTCTTATGTGGTTTACTTAAGGATAGTATAGTCATTTA-AGCTGCAAAGAATAGCCGCAGAAGGAAGCATATCTATTTTACTTAAATT---CTATAGAGTTTTCAG-TAACAAGAAAA--------CTACAGATTTCCTTTCTAATGTTCAATGTGGAAATAAAGAACCTTGTTCTTTTAGCTATTAAATACCATATC----TTTTTGTCACTGAGTC----TTCCTCTTTTATTT----ATTTACAGATGT--GAAAGAGCAGGTAGAATTATGCACCACAGGTATCTGAGAATTTCAG-TTTTAGAAGGAACAGTAAGGTTGGTGCCATCC--AACCGGGCTGTGCCATAGGTAAGACTCACAGAGGTAAAATG-AGTGTCCAAAATC-------------AGGAGCAAATCCAGGGCCAGAATCTGGGG-CTTCTCCCATTATCCTAGGCTTGATCTCAGGTCAG-AATGTCGAAGCCAATGCACATCCAGTTTTGCAGTTCCAGCGACAGGGCTAGATAAAA----CTACA---CTTGTTCTGGGGCACACCAGTGAGACCATCCAAGGTCAC--TAGTTTTGCTTTCCAAGCTCTGCAGGTT---ACACAACTGAAACCCAAT-TA--AACTGCAAGGAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       49445 662 -   3089952 AGTCCTGATCACTATAAGGGGAAGTATATTA-AAC-AA----ATAAATAATATCATTACAAGCCATTGTAGATCTACAAAGTATTTCTTATGTGGTTTACTTAAGGATAGTATAGTCATTTA-AGCTGCAAAGAATAGCTACAGAAGGAAGCATATCTATTCTACTTAAATT---CTATAGAATTTTCAG-TAACAAGAAAA--------CTACAGATTTCCTTTCTGATGTTCAATGTGGAAGTAAAGAGCCTCGTTCTTTTAGCTATTAAATACCATATC----TTTTTATCACTGAGTC----TTCCTCTTTTATTT----ATTTATAGATGT--GAAAGAGCAGGTAGAATTATGCACCACAGGTATCTGAGAATTTCAG-TTTTAGAAGGAACAGTAAGGTTGGTGCCATCC--AACTGGGCTATGCTATAGGCAAGACTCACAGAGGTAAAATG-AGTGTCCGAAACC-------------AGGAGCAAATCCAGGGCCAGAATCTGGGG-CTTTTCCCATTATCCTAGGCTTGATCTAAGGTCAG-AATGTCGAAGCCAATGCACATACAGTTTTGCAGTTCTAGCAACAGGGCTAGATAAAA----CTACA---CTTGTTCTGGTGCACACCAGTGAGACCATCCGAGGTCAC--TAGTTCTGCTTTCCAAGCTCTGCAGGTT---ACACAACTGAAACCCAAT-TA--AACCGCAAGGAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13249718 662 -  42888418 AGTCCTGATCACTATAAGGGGAAGTATCTTA-AAC-AA----ATAAATAATATAATTACAAACCATTGTAGATCTACAAAGTATTTCTTATGTGATTTACTTAAGGATAGTATAGTCATTTA-AGCTGCAAAGAATAGCCACAGAAGGAAGCCTATCTATTCTACTTAAATT---CTATAGAATTTTCAG-TAACAAGAAAA--------CTACAGATTTCCTTTCTAATGTTCAATGTGGAAATAAAGAGCCTTGTTCTTTTAGCTATTAAATACCGTATC----TTTTTATCACTGAGTC----TTCTTCTTTCATTT----ATTTATAGATGT--GAAAGAGCAGGTAGAATTATGCACCACAGGTATCTGAGAATTTCAG-TTTTAGAAGAAACAGTAAGGTTGGTGCCATCC--AACCGGGCTATGCCATAGGTAAGACTCACAGAGGTAAAATG-AGTGTCCAAAATC-------------AGGAGCAAATCCAGGGCCAGAATCTGGGG-CTTTTCCCATTATCCTAGGCTTGATCTAAGGTGAG-AATGTCGAAGCCAATGCACATACACTTTTGCAGTTCTAGAAACAGGGCTAGATAAAA----CTACA---CTTGTTCTGGTGCACACCAATGAGACCATCCGAGGTCAA--TAGTTCTGCTTTCCAAGCTCTGCAGGTT---ACACTACTGAAACCCAAT-TA--AACCGCAAGGGG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60587601 628 + 108143057 AATCCTGATCACTATAGGAGAAAGTATATTA-GAC-AA---------------------------------ATCTACAGTCTATTGCTTATGTGTTCTATTCAATGATAACATAGTCATTTA-GGCTGCCAAGAATAGTCTTGGAAGGAAGTATACCTATTCTAC-TTAACT---CTACAGAATTTG-------CAAGAAAA--------CTACAGATTTCCTTTTTAATATTCAACATGGAAATAAAGAACTTCATATTTTTAGCTACTAAATACCATATG----TTTGAACTACTGAGTG----TTCCTCCTGTATTT----ATTTATGGATGT--AAAAGAGCAGTTAAGATTATGTACCACAGGCATCCTAGAATTTTAG-TTTTGGAAGGAACAATAATGATCATGACGCCC--AACTCTGCTGTGTTATGGATAAAGCTCACAGAGGTTAAATG-AGTGTccaaagcc-------------agaggcaaatccagggccagacccTGGGGGCTTTCCCCATTATCCTAGGCTTGATCGGGAGCCAGCACAATCTAAGGCAGTGCACATGCAGTTTTGCAGTTCCAGCAACAGAGC----TAAAG----CGGCA---CGTGTTCTAGTTTGCACCAATGAGACCATCTGAGGTCACAGTACTTCTGTCTCCAAAGC-TTGCAGATCAGCACACTACTGGAACCCTGT-TA--AACTGCAAGGGG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3623219 654 +  11683526 AATCCTGATCACTATAGGAGAAAGTATATTA-GAC-AAATT-GGAAATAATACAATTACGCACCATTGTAGATCTACAGTGTCTTGCTTATGTGTTCTCTGCAATGACAATATAGTCATTTA-GGCTGCCAAGAATAGTCACTGAAGGAAGTGTACCTATTCTACAATAACT---CTACAGAATTTGTGG-TGACAAGAAAA--------CTACAGATTTCCTTTTTAATATCCAACATGGAAATAAAGAGCTTCATATTTTTAGCTACTAAATACCATATG----TTTTAACTTCTGAGTC----TTCCTCCCGTATTT----ATTTATGGATGT--AAAAGAGCAGTTAAGAGTATGCACCACAGGCATCCTAGGATTTTAG-TTTGGGAAGGACCAATAATGATTGTGATGCCC--AACGCTGCTGTGTTACAGATAAAGCTCACAGAGGTTAAATG-AGCATCCAGAGTC-------------AGAGGCAAATCCAGGCCTAGACCCTGGGG--CTTTCCCATTATCCTTGGCTCGGTCTAAGG---------TCTAAG---GTGCACATACAGTTTCGTAGTTCCAGCAATGGAGC----TAAAG----CTACA---CTCCTTCTAGTTTGCACCAGTGAGGCCATCTGAGGTCACAGTATTTCTATCTCCAAAGTGTTGCAGATCAGCACATTACTGAAACCCTAT-TA--AACTACAAGGGG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3113134 647 +   4132165 ATCCCTGATCACTGTAGAAGAAAGTGTATTT-GAC-AAATT-GGAAACAATACAA------ACGATTGTAGATCTACACTAGATTGCTTCTGTGGTCTGTTCAATGACAATATTGTCATTCA-GGCTGCCACT-GCAGTTACCGAAGAAAGGATACCTATTCTACATTACCT---GTACAGAATCTACAG-TAACAAGAAAA--------CTACAGGTTTCCTTTTTAATATTCAATACGAAAATAAAGAGCTGCTTATTTTTAGCTACTGCACACCATATG----TTTGAACTGCTGAGTC----TTTCTCCTATATTC----ATTT----ATGT--AAAAGAGCAGTTAAAGTTATGCATCACAAGTATCCTAGAACTTTAGTTTTTTAAAAAAACAATGACAATCAGGCCAGCC--ATCTCTGCTATGTCACAGACAAGGCTCACAGAGGTTAAATG-AGCGTCCAAAGGC-------------AGAGGCAAATCCAGGGCTGGACCC----G--------CATTATCCTAGGCTTGATCTAAGGTCACCACTATCTAAGTTGGTGCATATACGGTTTTGTAGTTCTGGCGATGAGGC----TAAAG----CTATG---CTTGTTCTAGCTTGCACCAATCAGACCATCTGAGGTCAAGGTATTTCTGTCAACAAAGCCTTGCAGATCAGGACACCACTGAAACCCACTATC--AACCACAAAGGG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55543687 584 +  90702639 --------------------------CATTA-ACC-AAATT-GGAAATCATATGATTATAACCAATTCTCTGTCTAAAATATA-TGCTGGTATGACTTACTCAGTGGTTGTATTGTCATTTG-AGATGAAAGCAATTGATACTGAAGGATGTACATCTAGTCTAC------G---CCATCG-----------------------------CTACAGATTTC------AACATTTTATGTGGAAATGAAGAGCGTCATAACCTTAGCTCCTAAGTCCCTTCCCTAAGTTTAGACTGTTGAATCTAGATCACTCTTTGACTCTTCGATTCACGGTTGC--AAATGCTCAGCTAGAATACTGTGCCATCCCTACCCTGAAACTTGTG-TTTGGAAATGAAGGGTGGTAATTAGGCAGTCCAAAACCCAAC-ATACTGTAGATAAGACCCACAAAGGTT-AATG-GTGGCCCCAAATC-------------AGGAATGAA-CTGAGGCCAGAAGCTACAG-CTT----------------CCTGACCTGAATGCAGCAGTACCCAAGT-------CATAAGGATTT----------CATGAGGGC--AGTAAAA----CCACAGGCCTTGGTCCAG--CACACCGAGGAGACCATCTGAGGTCACTTTATTTCTTTCT-CCAAGCTCTGCAGACCAGCATGTTATGGAA------T-TACTAACTGCAGAAAC
i mm10.chr18               C 0 I 1392
s canFam3.chr11             14954298 655 +  74389097 AATCCTGATCACAGGAGGAGAGAGTAAATTTTTAA-AAATG-CAAAAGAATACGATTACCAAATATTTTAGAGCTAAATCATATGACTTATATGGTCTACTCAATAATAATGTAGTCCTTTACGGCTGCAAAGAACAGTCACTGAAGGAAATGCACCTA-TCTACATTAACT---CTACCGAATTGGCAGTTAACAAGGAAA--------TCACAGGTTTACTTCTTCCTATCCAATATGGAAATAAAGAGCTTCCTACTTGTATCTACTAAATATC----C----TTT-----------------TT---------TTT----ATTTACAAATGCAAAAAAAAGCAGCTTAAATTATGTACCACACGCATCCTAGAGTTTTAG-TTTCAGAA-GAACAATGTCGGTTATGCCGCCT--CACTGTGCTATGTCACAGGtaaggctcacagaggttaaaggaagtgtccagagtcactgagctaagtaagggacaaatccagggctggaacctgggg-cattttccATTATCCTAGGCTTGATCTAAGGTCAATGCTATCTAAGGCAACG------CAGTTTTGTAGTTCTATCAACAGAGCTAGATAAAG----CTACAACACTTATTCTGGTTCACACCAACAAGACCATCTGAGGTCATCATATTTCTAGCTCCAAAGCTT----GATCAGCGTGTTACAGAAGCTCCAT-TA--AACTGCAAGGGG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2678058 680 +   3667625 AATCCTGATCACTACAGGAGAAATTATAAAA-ACA-AAACT-GGAAACAATACAATTACGAACCATTGTAAATCTGAAAAATACAACTCATGAGATTTATTCATTGAGACTAGATTCATCTGTGGTCATTATGAATAATTGCTGAAGGAAGTGTCCATATTCTACAATAACTAAGTTACAG------TAG-TAACAAGTAAA--------CTACAGATTTCCCTT-TAATAGACAATAAGAAAATAATGAGCCTTGTAAGTTTAGCTACTAAAAACCATGTT----TTTTGACTACTGAATC----TGCCTCCTAT-TTT----ACTTATGTATAC--AAAGAAGCAGCTGGAATTATGTACCATGGGCatcctagaattttag-ttctagaagggaaaataatgatcatgcagccc--aaccctgacacatcacagataagactcacagaggttaaatg-agtatccaaagtc--agagttactt-aggggcagatccagagctagaacctgggg-cttttTCTATTATCCTGGGCTTGATATAAGGTCAGCACAATTTAAGTGAATGCATGCACAGTTTCATAGTTCTGTTAGTGGCTCTGGATAAAG----CCACAACACTTGTTTTGGTTCACACCAGTGAGACTGTCTGAGATCATAATATTTCTGTCTCCATAGCTCTGCAAATCAGCACACTACAGAAATCCCAT-TA--AACGACAAGGGG
i dasNov3.JH567306         I 2011 C 0

a score=1578057.000000
s hg38.chr5_KI270796v1_alt    129390 111 +    172708 TGGGGAAACATTAAAAATGAATC-----------ATTGACTGTTTAGGGGGA---------------AATAAAAAGACAAGGCTTTCTGAGTCAGCTGAAACTTTCATCAGCCACTGGGCGTACCCTGTGAGCAAAG
s panTro5.chr5             125233065 111 + 181907262 TGGGGAAACATTAAAAATGAATC-----------ATTGACTGTTTAGGGGGA---------------AATAAAAAGACAAGGCTTTCTGAGTCAGCTGAAACTTTCATCAGCCACTGGGCGTACCCTGTGAGCAAAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126569784 111 + 183735486 TGGGGAAACATTAAACATGAATC-----------ATTGACTGTTTAGGGGGA---------------AATAAAAAGACAAGGCTTTCTGAGTCAGCTGAAACTTTCATCAGCCACTGGGCGTACCCTGTGAGCAAAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1761591 111 +   8933513 TGGGGAAACATTAAAAATGAATC-----------ATTGACTGTTTAGGGGGA---------------AATAAAAAGACAAGGCTTTCTGAGTCAGCTGAAACTTTCATCAGCCACTGGGCGTACCCTGTGAGGAAAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139895850 111 + 163208435 TGGGGAAACATTAAAAATGAATC-----------ATTGACTGTTTAGGGGGA---------------AATAAAAAGACAAGGCTTTCTGAGTCAGCTGAAACTTTAATCAGCCACTGGGCATACCCTGTGAGGAAAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122880553 111 + 180051392 TGGGGAAACTTTAAAAATGAATC-----------ATTGACTCTTTAGGGAGA---------------AATGGAAAGACAAGGCTTTCTGAGTCAGCTGAAACTTTCATCAGCCACTGGGCGTACCCTGTGAGGAAAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124304187 111 + 181584905 TGGGGAAACTTTAAAAATGAATC-----------ATTGACTCTTTAGGGAGA---------------AATGGAAAGACAAGGCTTTCTGAGTCAGCTGAAACTTTCATCAGCCACTGGGCGTACCCTGTGAGGAAAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16302864 111 +  18395747 TGGGGAAACTTTAAAAATGAATC-----------ATTGACTCTTTAGGGAGA---------------AATGGAAAGACAAGGCTTTCTGAGTCAGCTGAAACTTTCATCAGCCACTGGGCATACCCTGTGAGGAAAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5315300 111 +  26952557 TGGGGAAACTTTAAAAATGAATC-----------ATTGACTGTTCAGGGAGA---------------AATAGAAAGACAAGGCTTTCTGAGTCAGCTGAAACTTTCATCAGCCACTGGGTGTACCCTGTGAGGAAAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28415961 110 +  82825804 TGGGGAAACATTAAAAATGAATC-----------ATTGGCTGTTTAGGGAGA---------------AATAGAAAGACAAGGCTTTCTGAGTCAGCTGAAACTTTCATCAGCCACTGGGCGTA-CCTGTGAGGAAAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4085818 111 -   4237731 TGGGGAAACTTTAAAAATGAATC-----------ATTGACTGTTCAGGGAGA---------------AATAGAAAGACAAGGCTTTCTGAGTCAGCTGAAACTTTCATCAGCCACTGGGTGTACCCTGTGAGGAAAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      354353 111 -   1175262 TGGGGAAACATTAAAAGTGAATC-----------ATTGACTGTTTAGGGAGA---------------AATAGAAAGACAAGGCTTTCTGAGTCAGCTGAAACTTTCATCAGCAACTGGGCGTACCCTGTGAGGAAAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123702481 110 - 204313951 TGAGGAAACATTAAAAATGAATC-----------ATTGACTGTTTAGGGGGA---------------AATAAAAAGACAAGAATTTCTGAGTCAGCTGAAACTTTCATCAGCCACAGGGAGTACCCTGTGAGGAA-G
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55746654 111 -  71252344 TGGGGAAACATTAAAAATGAATC-----------ATCGACTGTTTGGAGGGA---------------AATAAAAAGACAAGGATTTCTGAGTCAGCTGAAACTTTCATCAGCCACAGGGCGTATCCTGTGAGGAAGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       50107 111 -   3089952 TGGGGAAACATGAAAAATGAATC-----------ATTGACTGTTTAGGGTGA---------------AATAAAAAGACAAGGATTTCTGAGTCAGCTGAAACTTTCATCAGCCACAGGGCATACCCTGTGAGGAAAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13250380 111 -  42888418 TGGGGAAACATTAAAAATGAATC-----------ATTGACTGTTTAGGGGGA---------------AATAAAAAGACAAGGATTTCTGAGTCAGCTGAAACTTTCATCAGCCACAGGGCGTGCCCTGTGAGGAAAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60588229 107 + 108143057 TAGGGAAACTTTAAAAATGAATA-----------ATTGACTATTTAGGGAAC---------------AATAAAAAGACAAGGCTCTCTGAGTTGGCTGGAGCTGTCCTTGGCTACTGGGTGTGCCCTGCAAAG----
i micMur3.chr12            C 0 I 34
s proCoq1.NW_012155062v1     3623873 106 +  11683526 TAGGGAAACTTTAAAAATGAATA-----------ATTGACTGTTT-GGGAAA---------------AATAACAAGACAAGGCTCTCTGAGTTGGCCGGAACTTTCATCAGCTACTGGGCGTGCCCTGCAAAG----
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3113781 106 +   4132165 TAGGGAAACTTTAAAAATGAATA-----------ATAGACTATTTAGGGAAA---------------ATTAAAAAGATCAGCCTCTCCGAGTTGGCTGGAACTTTCATCAGCTACTGGGTTTGCCCTGCAAA-----
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55545663 101 +  90702639 TAGGGAGACTTTGAAAGTAA-------------------TTGTTTATCGA-A---------------ATGAAAAAGGCAGGATTCTTTGAGACCA-TCAAACTTTCACCAGTTTCTGGGCGAGTGCTATGCAGAAGA
i mm10.chr18               I 1392 C 0
s canFam3.chr11             14954953 132 +  74389097 AGGGAAAACTTAAAACacaaaacaaaacaaaacaaaTAACTGTTTAGGGAAAGAAAAAAAAAAGAAGAAGAAGAAGACAAAGTTCTGTGCATCATCTGGAATGTTCATCAGCCG--GGACAGACTTTGCGAAGG---
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2678738 103 +   3667625 TGAGGACACTTTAAAAATGAATA-----------GTTGACTGTT-GGGGGTA---------------GGGGGGAAGGTAAATCTCTTTGAGCCTTTTGGAACTTT---CAGCCACTGGTCAGACCCTGCAAAG----
i dasNov3.JH567306         C 0 C 0

a score=361175.000000
s hg38.chr5_KI270796v1_alt    129501 37 +    172708 GAA------GTCACAGGGGCCCAATGAGATACCTCTGTCATA-T
s panTro5.chr5             125233176 38 + 181907262 GAA------GTCACAGGGGCCCAATGAGATACCTCTGTCATATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126569895 38 + 183735486 GAA------GTCACAGGGGCCCAATGAGATACCTCTGTCATATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1761702 36 +   8933513 GAA------GTCACAGGGGCCCAATGAGATACCTCTGTCATA--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139895961 36 + 163208435 GAA------GTCACAGGGGCCCAATGAGATACCTCTGTCATA--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122880664 36 + 180051392 GAA------GTCACAGGGGCCCAGTGAGATACCTCTGTCATA--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124304298 36 + 181584905 GAA------GTCACAGGGGCCCAGTGAGATACCTCTGTCATA--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16302975 36 +  18395747 GAA------GTCACAGGGGCCCAGTGAGATACCTCTGTCATA--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5315411 36 +  26952557 GAA------GTCACAGGGGCCCAGTGAGATACCTCCGTCATA--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28416071 36 +  82825804 GAA------GTCACAGGGGCCCAGTGAGATACCTCCGTCATG--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4085929 36 -   4237731 GAA------GTCACAGGGGCCCAGTGAGATACCTCCGTCATA--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      354464 36 -   1175262 GAA------GTCACAGGGGCCCAGTGAGATACCTCTGTCACC--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123702591 36 - 204313951 GAA------GTCACATGGGCCCAATGAGATGCCTCTGTCATT--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55746765 36 -  71252344 GAA------GTCACATGGGCCCAATAAGATGCCTCTGTCATT--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       50218 36 -   3089952 GAA------GTCACATGGGCCCAATGAGATGCCTCTGTCATT--
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13250491 36 -  42888418 GAA------GTCACATGGGCCCAATGAGATGCCTCTGTCATT--
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3623979 34 +  11683526 -AA------GTCCCACGTGCCCAATGAGATCATTTCATCAT---
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3113887 35 +   4132165 GAA------GTCCTACATGCCCAGTGAGATCATTTCATCAT---
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55545764 38 +  90702639 TAATTACTTGTAGCATGAGAACACTAAGAGAACCGAAT------
i mm10.chr18               C 0 I 1
s canFam3.chr11             14955085 33 +  74389097 CAA------GTCAC--GTGCCCAGTGGGAGTGCTACATCAT---
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2678841 21 +   3667625 -------------------GCCATTAAGATCACTAGATCT----
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60588336 34 + 108143057 I

a score=43576955.000000
s hg38.chr5_KI270796v1_alt    129538 2291 +    172708 TTTTTTCTCCAGATTGTGCTTTCTTGAAGAGATACTG-AATTTAAAA----------------TGGAGCTATTTGGCAATGACAGGAGTTTAAAGGAGAGAGTTGGGAATTAGACCTTGCACCAAATAATCTACATCCCTGCAAGTGAGTGCGCCGTATTTCAAGCTATTCTGGTTGGCTGAGCAAAGCCCTGCATTTTTGTTAACTCCCTTTAATTAATCTTGTCATAAGTCCTATAGTGAGGTGGATGAACTTTCAAACATTAAACAGTGGAATTACTCACC-GGGTGGCTTTTCCCAAACA-CTCCAACCCCAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAATGGCGCTCCTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCCGCAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACCGGTTAGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAATGTTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGGCTTTCAGTGAATAATTGTTTACATAATAGTGAACAGTGCTTGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATCGTGGTACCCTTGCCAACAAAAGCAGAGCAGTATGTACAGTTAGTAAATCTTTTCTTAGCTGCAAAATTAGCGTCAAG-TTGCTTGAGCCC-GTAAACTACGTCAGCATAAGTCACTCTCATTAAATTGATGTGTGAAGGTAGTATTCTTAAACAGCAGGT-TGCTCCATTCTGA-------------------------------TT-----TTTTTTTTT--AATCA-GTCAAATAATGAGGTGGGGGTAGAGTTGCTTAACCAGGCCAAGGGAAAAAGAA---AGCGGAATCATCTTAAAACGGCCATCCCGGATTTAATAGCCTACAACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCTCCAAAGCTTATCGGTGACGGCTGGTGTATAAGAGCTCCCAATGAGGACTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTCGAGTGCTTTCTGTA-------TTTTTAAGATCCCAGAAGATGATGTGGTTCTGTGATAGGAATCTCTTAAACTTTACCATTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTAAGCAGGAGTCAGGAGCA--------GTCTCTC----TCTCTCC---------------TTTTTTTCTGGGTCAGAGTCAGA---TTTTATCGAGTCAAGCTATCTAATTGAACACAAACCATGTGATAGGACCCAAACAGAGTGTATTAAAAATGAAACAGAA-GGAGCCAGGTTTGTCTCAGGCTAGTGCTGTTACACGC-G-TAAGTTTCAGACATCCCCTGAATACAAAATGA-TTTTTTTT--CCCCCTGCATTGACAAAAGTC--------CGTCTTGCAG----GGGG--AAAAAACAGTAGAGAAT----Aaaacaaacaaatccacacaaaca---------------------cacaaaTCTAGTTTCATGCTA-------GATGTATCTGTTGTGAAGCAATATGTTGGCTGAATAGGGAAAGTCAGGTGAGTTAAAGTCTTGTGGCAGCCTGATTTAAACCATGGCTACACAAACCAGAGCCCTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTACTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCATTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCACTGGGAGTTTGAGGACAAAGGCTCCCT-CCCCCGCCCTGTTCTTTCCCTGT--C--TTGGTAGTGAGCCAGGGAGAGCAAGTTCCTGTAAAAAGCCATTGGCAATGTGCT
s panTro5.chr5             125233214 2293 + 181907262 TTTTTTCTCCAGATTGTGCTTTCTTGAAGAGATACTG-AATTTAAAA----------------TGGAGCTGTTTGGCAATGACAGGAGTTTAAAGGAGAGAGTTGGGAATTAGACCTTGCACCAAATAATCTACATCCCTGCAAGTGGGTGCGCCGTATTTCAAGCTATTCTGGTTGGCTGAGCAAGGCCCTGCATTTTTGTTAACTCCCTTTAATTAATCTTGTCATAAGTCCTATAGTGAGGTGGATGAACTTTCAAACATTAAACAGTGGAATTACTCACC-GGGTGGCTTTTCCCAAACA-CTCCAACCCCAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAATGGCGCTCCTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCCGCAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACCGGTTAGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAACGTTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGGCTTTCAGTGAATAATTGTTTACATAATAGTGAACAGTGCTTGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATCGTGGTACCCTTGCCAACAAAAGCAGAGCAGTATGTACAGTTAGTAAATCTTTTCTTAGCTGCAAAATTAGCGTCAAG-TTGCTTGAGCCC-ATAAACTACGTCAGCATAAGTCACTCTCATTAAATTGATGTGTGAAGGTAGTATTCTTAAACAGCAGGT-TGCTCCATTCTGA-------------------------------TT-----TTTTTTTTT-AAATCA-GTCGAATAATGAGGTGGGGGTAGAGTTGCTTAACCAGGCCAAGGGAAAAAGAA---AGCGGAATCATCTTAAAACGGCCATCCCGGATTTAATAGCCTACAACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCTCCAAAGCTTCTCGGTGACGGCTGGTGTATAAGAGCTCCCAATGAGAACTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTCGAGTGCTTTCTGTA-------TTTTTAAGATCCCAGAAGATGATGTGGTTCTGTGATAGGAATCTCTTAAACTTTACCATTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTAAGCAGGAGTCAGGAGCA--------GTCTCTC----TCTCTCC---------------TTTTTTTCTGGGTCAGAGTCAGA---TTTTATCGAGTCAAGCTATCTAATTGAACACAAACCATGTGATAGGACCCAAACAGAGTGCATTAAAAATGAAACAGAA-GGAGCCAGGTTTGTCTCAGGCTAGTGCTGTTACACGC-G-TAAGTTTCAGACATCCCCTGAATACAAAATGA-TTTTTTTTC-CCCCCTGCATTGACAAAAGTC--------GGTCTTGCAG----GGGG--AAAAAATAGTAGAGAAT----Aaaacaaacaaatccacacaaaca---------------------cacaaaTCTAGTTTCATGCTA-------GATGTATCTGTTGTGAAGCAATATGTTGGCTGAATAGGGAAAGTCAGGTGAGTTAAAGTCTTGTGGCAGCCTGATTTAAACCATGGCTACACAAACCAGAGCCCTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTACTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCAGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCATTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCACTGGGAGTTTGAGGACAAAGGCTCCCT-CCCCCGCCCTGTTCTTTCCCTGT--C--TTGGTAGTGAGCCAGGGAGAGCAAGTTCCTGTAAAAAGCCATTGGCAATGTGCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126569933 2292 + 183735486 TTTTTTCTCCAGATTGTGCTTTCTTGAAGAGATACTG-AATTTAAAA----------------TGGAGCTGTTTGGCAATGACAGGAGTTTAAAGGAGAGAGTTGGGAATTAGACCTTGCACCAAATAATCTACATCCCTGCAAGTGGGTGCGCCGTATTTCAAGCTATTCTGGTTGGCTGAGCAAGGCCCTGCATTTTTGTTAACTCCCTTTAATTAATCTTGTCATAAGTCCTATAGTGAGGTGGATGAACTTTCAAACATTAAACAGTGGAATTACTCACC-GGGTGGCTTTTCCCAAACA-CTCCAACCCCAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAATGGCGCTCCTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCCGCAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACTGGTTAGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAACGTTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGGCTTTCAGTGAATAATTGTTTACATAATAGTGAACAGTGCTTGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATCGTGGTACCCTTGCCAACAAAAGCAGAGCAGTATGTACAGTTAGTAAATCTTTTCTTAGCTGCAAAATTAGCGTCAAG-TTGCTTGAGCCC-ATAAACTACGTCAGCATAAGTCACTCTCATTAAATTGATGTGTGAAGGTAGTATTCTTAAACAGCAGGT-TGCTCCATTCTGA-------------------------------TT-----TTTTTTTTA--AATCA-GTCGAATAATGAGGTGGGGGTAGAGTTGCTTAACCAGGCCAAGGGAAAAAGAA---AGCGGAATCATCTTAAAACGGCCATCCCGGATTTAATAGCCTACAACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCTCCAAAGCTTCTCGGTGACGGCTGGTGTATAAGAGCTCCCAATGAGAACTGATTTACAGCACTGAAGGGCTTTGCAGCAACAAAGGAGGGCCAGGGTCCTCGAGTGCTTTCTGTA-------TTTTTAAGATCCCAGAAGATGATGTGGTTCTGTGATAGGAATCTCTTAAACTTTACCATTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTAAGCAGGAGTCAGGAGCA--------GTCTCTC----TCTCTCC---------------TTTTTTTCTGGGTCAGAGTCAGA---TTTTATCGAGTCAAGCTATCTAATTGAACACAAACCATGTGATAGGACCCAAACAGAGTGCATTAAAAATGAAACAGAA-GGAGCCAGGTTTGTCTCAGGCTAGTGCTGTTACACGC-G-TAAGTTTCAGACATCCCCTGAATACAAAATGA-TTTTTTTTC-CCCCCTGCATTGACAAAAGTC--------GGTCTTGCAG----GGGG--AAAAAATAGTAGAGAAT----Aaaacaaacaaatccacacaaaca---------------------cacaaaTCTAGTTTCATGCTA-------GATGTATCTGTTGTGAAGCAATATGTTGGCTGAATAGGGAAAGTCAGGTGAGTTAAAGTCTTGTGGCAGCCTGATTTAAACCATGGCTACACAAACCAGAGCCCTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTACTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCAGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCATTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCACTGGGAGTTTGAGGACAAAGGCTCCCT-CCCCCGCCCTGTTCTTTCCCTGT--C--TTGGTAGTGAGCCAGGGAGAGCAAGTTCCTGTAAAAAGCCATTGGCAATGTGCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1761738 2291 +   8933513 TTTTTTCTCCAGATTGTGCTTTCTTGAAGAGATACT--AATTTAAAA----------------TGGAGCTGTTTGGCAATGACAGGAGTTTAAAGGAGAGAGTTGGGAATTAGACCTTGCACCAAATAATCTACATCCCTGCAACTGGGTGCGCCGTATTTCAAGCTATTCTGGTTGGCTGAGCAAGGCCCTGCATTTTTGTTAACTCCCTTTAATTAATCTTGTCATAAGTCCTATAGTGAGGTGGATGAACTTTCAAACATTAAACAGTGGAATTACTCACC-GGGTGGCTTTTCCCAAACA-CTCCAACCCCAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAATGGCGCTCCTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCCGCAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACCGGTTAGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAACGTTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGCCTTTCAGTGAATAATTGTTTACATAATAGTGAACAGTGCTTGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATCGTGGTACCCTTGCCAACAAAAGCAGAGCAGTATGTACAGTTAGTAAATCTTTTCTTAGCTGCAAAATTAGCGTCAAG-TTGCTTGAGCCC-GTAAACTACGTCAGCATAAGTCACTCTCATTAAATTGATGTGTGAAGGTAGTATTCTTAAACAGCAGGT-TGCTCCATTCTGA-------------------------------TT-----TTTTTTTTT--AATCA-GTCAAATAATGAGGTGGGGGTAGCGTTGCTTAACCAGGCCAAGGGAAAAAGAA---AGCGGAATCATCTTAAAACGGCCATCCCGGATTTAATAGCCTACAACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCTCCAAAGCTTATCGGTGACGGCTGGTGTATAAGAGCTCCCAATGAGGACTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTCGAGTGCTTTCTGTA-------TTTTTAAGATCCCAGAAGATGATGTGGTTCTGTGATAGGAATCTCTTAAACTTTACCATTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTAAGCAGGAGTCAGGAGCA--------GTCTCTC----TCTCTCC---------------TTTTTTTCTGGGTCAGAGTCAGA---TTTTATCGAGTCAAGCTTTCTAATTGAACACAAACCATGTGATAGGACCCAAACAGAGTGCATTAAAAATGAAACAGAA-GGAGCCAGGTTTGTCTCAGGCTAGTGCTGTTACACGC-G-TAAGTTTCAGACATCCCCTGAATACAAAATGA-TTTTTTTTT-CCCCCTGCATTGACAAAAGTC--------GGTCTTGCAG----GGGG--AAAAAATAGTAGAGAAT----Aaaacaaacaaatccacacaaaca---------------------cacaaaTCTAGTTTCATGCTA-------GATGTATCTGTTGTGAAGCAATATGTTGGCTGAATAGGGAAAGTCAGGTGAGTTAAAGTCTTGTGGCAGCCTGATTTAAACCATGGCTACACAAACCAGAGCCCTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTACTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCATTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCACTGGGAGTTTGAGGACAAAGGCTCCCT-CCCCCGCCCTGTTCTTTCCCTGT--C--TTGGTAGTGAGCCAGGGAGAGCAAGTTCCTGTAACAAGCCATTGGCAATGTGCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139895997 2296 + 163208435 TTTTTTCTCCAGATTGTGCTTTCGTGAAGAGATACTG-AATTTAAAA----------------TGGAGCTGTTTGGCAATGACAGGAGTTTAAAGGAGAGAATTGGGAATTAGACCTCGCACCAAATAATCTACATCCCCGCAACTGGGTGCACCGTATTTCAAGCTATTCTGGTTGGCTGAGCAAGGCCCTGCATTTTTGTTAACTCGCTTTAATTAATCTTGTCATAAGTCCTATAGTGAGGTGGATGAACTTTCAAACATTAAACAGTGGAATTACTCACC-GGGTGGCTTTTCCCAGACA-CTCCAACCCCAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAATGGCGCTCCTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCCGCAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACCGGTTAGTAATAGGCAGGGTGCAAAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAACATTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGCCTTTCAGTGAATAATTGTTTACATAATAGTGAAGAGTGCTTGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATCGTGGTACCCTTGCCAACAAAAGCAGAGCAGTATGTACAGTTAGTAAATCTTTTCTTAGCTGCAAAATTAGTGTCAAG-TTGCTTGAGCCC-ATAAACTACGTCAGCATAAGTCACTCTCATTAAATTGATGTGTGAAGGTAGTATTCTTAAACAGCAGGT-TGCTGCATTCTGA-------------------------------TT-----TTTTTTTTTTTAATCA-GTCAAATAATGAGGTGGGGGTAGAGTTGCTTAACCAGGCCAAGGGAAAAAGAA---AGCAGAATCATCTTAAAACGGCCATCCCGGATTTAATAGCCTACAACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCTCCAAAGCTTATCGGTGACGGCCGGTGTATAAGAGCTCCCAATGAGGACTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTCGAGTGCTTTCTGTG-------TTTTTAAGATCCCAGAAGATGATGTGGTTCTGTGATAGGAATCTCTTAAACTTTACCATTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTAAGCAGGAGTCAGGAGCA--------GTCTCTC----TCTCTCC---------------TTTTTTTCTGGGTCAGAGTCAGA---TTTTATCGAGTCAAGCTATCTAATTGAACACAGACCATGTGATAGGACCCAAACAGAGTGCATTAAAAATGAAACAGAA-GGGGCCAGGTTTGTCTCAGGCTAGTGCTGTTACACGC-GTTAAGTTTCAGACATCCCCTGAATACAAAATGA-TTTTTTTT--CCCCCTGCATTGACAAAAGTC--------GGTCTTGCAG----GGGG-AAAAAAATAGTAGAGGAT----Aaaacaaacaaatccacacaaaca---------------------cacaaaTCTAGTTTCATGCTA-------GATGTATCTGTTGCGAAGCAATATGTTGGCTGAATAGGGAAAGTCAGGTGAGTTAAAGTCTTGTGGCAGCCTGATTTAAACCATGGCTACACAAACCAGAGCCCTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTACTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTACTCTTCTATACAAAGATCATTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCACTGGGAGTTTGAGGACAAAGGCTCCCT-CCCCCGCCCTGTTCTTTCCCTGT--C--TTGGTAGTGAGCCAGGGAGAGCAAGTTCCTGTAAAAAGCCATTGGCAATGTGCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122880700 2298 + 180051392 GTTTTTCTCCAGATTGTGCTTTCTTGAAGAGATACTG-AATTTAAAATTGCCCAGTCTTAACGTGGAGCTGTTTGGCAATGACAGGAGTTTAAAGGAGAGGGTTGGGAATTAGACCTTGCACGAAATAATCTACACCCCCGCAACTGGGTGCGCCGTA--------AATTCTGGTTGGCTGAGCAAGGCCCTGCATTTTTGTTAACTCCCTTTAATTAATCTTGTCATAAGTCCTATAGTGAGGTGGATGAACTTTCAAACATTAAACAGTGGAATTACTCACC-GGGTGGCTTTTCCCAAACA-CTCCAACCCCAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAATGGTGCTCCTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCCGCAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACCGGTTAGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAACGTTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGCTTTTCAGTGAATAATTGTTTACATAATAGTGAAGAGTGCTTGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATTGTGGTACCCATGCCAACAAAAGCAGAGCAGTATGTACAGTTAGTAAATCTTTTCTTAGCTGCAAAATTAGCGTCAAG-TTGCTTGAGCCG-GTAAACTACGTCAGCATAAGTCACTCTGATTAAATTGATGTGTGAAGGTAGTATTCTTAAACAGCAGGT-TGCTCCATTCTGA-----------------------------TTTT-----TTTTTTTTT-AAATCA-GTCAAATAATGAGGTAGGGGTAGAGTTGCTTAACCAGGCCAAGGGAAAAAGAA---AGCGGAATCATCTTAAAACGGCCATCCTGGATTTAATAGTCTACAACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCTCCAAAGCTTATCGGTGATGGCTGGTGTATAAGAGCTCCCAATGAGGACTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTCAAGTGCTTTCTGTA-------TTTTTAAGATCCCAGAAGATGATGTGGTTCTGTGATAGGAATCTCTTACACTTTACCATTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTATGCAGGAGTCAGGAGCA--------GTCTCTC----TCTCTCC---------------TTTTTTTCTGGGTCAGAGTCAGA---TTTTATTGAGTCAAGCTATCTAATTGAACACAAACCATGTGATAGGACCCAAACAGAGTGCATTAAAAATGAAACAGAA-GGGGCCAGGTTTGTCTCAGGCTAGTGCTGTTACACAC-G-TAAGTTTCAGACATCCCCTGCATACAAAACGA-TTGTTTT---CCCCCTGCAGTGACAAAAGTT--------GGTCTTGCAG----GGGG--AAAAAATAGTAGAGAAT----AAAACAAATA----GACACAAACA---------------------CACAAATCTAGTTTCATGCTA-------GATATATCTGTTGTGAAGCAATATGTTGGCTGAATAGGGAAAGTCAGGTGAGTTAAAGTCTTGTGGCAGCCTGATTTAAACCATGGCTACACAAACCAGAGCCCTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTACTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCATTGTCAGTTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCATTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCACTGGGAGTTTGAGGACAAAGGCTCCCT-CCCCCGCCTTGTTCTCTCCCTGT--C--TTGGTAGTGAGCCAGGGAGAGCAAGTTCCTGTAAAAAGCCATTGGCAATGAGCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124304334 2297 + 181584905 GTTTTTCTCCAGATTGTGCTTTCTTGAAGAGATACTG-AATTTAAAATTGCCCAGTCTTAACGTGGAGCTGTTTGGCAATGACAGGAGTTTAAAGGAGAGGGTTGGGAATTAGACCTTGCACGAAATAATCTACACCCCCGCAACTGGGTGCGCCGTA--------AATTCTGGTTGGCTGAGCAAGGCCCTGCATTTTTGTTAACTCCCTTTAATTAATCTTGTCATAAGTCCTATAGTGAGGTGGATGAACTTTCAAACATTAAACAGTGGAATTACTCACC-GGGTGGCTTTTCCCAAACA-CTCCAACCCCAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAATGGTGCTCCTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCCGCAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACCGGTTAGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAACGTTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGCTTTTCAGTGAATAATTGTTTACATAATAGTGAAGAGTGCTTGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATTGTGGTACCCATGCCAACAAAAGCAGAGCAGTATGTACAGTTAGTAAATCTTTTCTTAGCTGCAAAATTAGCGTCAAG-TTGCTTGAGCCC-GTAAACTACGTCAGCATAAGTCACTCTGATTAAATTGATGTGTGAAGGTAGTATTCTTAAACAGCAGGT-TGCTCCATTCTGA-----------------------------TTTT-----TTTTTTTTT-AAATCA-GTCAAATAATGAGGTAGGGGTAGAGTTGCTTAACCAGGCCAAGGGAAAAAGAA---AGCGGAATCATCTTAAAACGGCCATCCTGGATTTAATAGTCTACAACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCTCCAAAGCTTATCGGTGATGGCTGGTGTATAAGAGCTCCCAATGAGGACTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTCAAGTGCTTTCTGTA-------TTTTTAAGATCCCAGAAGATGATGTGGTTCTGTGATAGGAATCTCTTACACTTTACCATTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTATGCAGGAGTCGGGAGCA--------GTCTCTC----TCTCTCC---------------TTTTTTTCTGGGTCAGAGTCAGA---TTTTATTGAGTCAAGCTATCTAATTGAACACAAACCATGTGATAGGACCCAAACAGAGTGCATTAAAAATGAAACAGAA-GGGGCCAGGTTTGTCTCAGGCTAGTGCTGTTACACAC-G-TAAGTTTCAGACATCCCCTGCATACAAAACGA-TTGTTTT---CCCCCTGCAGTGACAAAAGTT--------GGTCTTGCAG----GGGG--AAAAAATAGTAGAGAAT----AAAACAAATA----CACACAAACA---------------------CACAAATCTAGTTTCATGCTA-------GATATATCTGTTGTGAAGCAATATGTTGGCTGAATAGGGAAAGTCAGGTGAGTTAAAGTCTTGTGGCAGCCTGATTTAAACCATGGCTACACAAACCAGAGCCCTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTACTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCATTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCACTGGGAGTTTGAGGACAAAGGCTCCCT-CCCCCGCCTTGTTCTCTCCCTGT--C--TTGGTAGTGAGCCAGGGAGAGCAAGTTCCTGTAAAAAGCCATTGGCAATGAGCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16303011 2300 +  18395747 GTTTTTCTCCAGGTTGTGCTTTCTTGAAGAGATACTG-AATTTAAAATTGCCCAGTCTTAACGTGGAGCTGTTTAGCAATGACAGGAGTTTAAAGGAGAGGGTTGGGAATTAGACCTTGCACGAAATAATCTACATCCCCGCAACTGGGTGCGCCGTA--------AATTCTGGTTGGCTGAGCAAGGCCCTGCATTTTTGTTAACTCCCTTTAATTAATCTTGTCATAAGTCCTATAGTGAGGTGGATGAACTTTCAAACATTAAACAGTGGAATTACTCACC-GGGTGGCTTTTCCCAAACA-CTCCAACCCCAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAATGGTGCTCCTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCCGCAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACCGGTTAGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAACGTTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGCTTTTCAGTGAATAATTGTTTACATAATAGTGAAGAGTGCTTGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-GGGAGAAAAGAATTGTGGTACCCATGCCAACAAAAGCAGAGCAGTATGTACAGTTAGTAAATCTTTTCTTAGCTGCAAAATTAGCGTCAAGTTTGCTTGAGCCC-GTAAACTACGTCAGCATAAGTCACTCTGATTAAATTGATGTGTGAAGGTAGTATTCTTAAACAGCAGGT-TGCTCCATTCTGA---------------------------TTTTTT-----TTTTTTTTT-AAATCA-GTCAAATAATGAGGTAGGGGTAGAGTTGCTTAACTAGGCCAAGGGAAAAAGAA---AGCGGAATCATCTTAAAACGGCCATCCTGGATTTAATAGTCTACAACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCTCCAAAGCTTATCGGTGATGGCTGGTGTATAAGAGCTCCCAATGAGGACTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTCAAGTGCTTTCTGTA-------TTTTTAAGATCCCAGAAGATGATGTGGTTCTGTGATAGGAATCTCTTACACTTTACCATTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTATGCAGGAGTCAGGAGCA--------GTCTCTC----TCTCTCC---------------TTTTTTTCTGGGTCAGAGTCAGA---TTTTATTGAGTCAAGCTATCTAATTGAACACAAACCATGTGATAGGACCCAAACAGAGTGCATTAAAAATGAAACAGAA-GGGGCCAGGTTTGTCTCAGGCTAGTGCTGTTACACAC-G-TAAGTTTCAGACATCCCCTGCATACAAAACGA-TTTTTTT---CCCCCTGCAGTGACAAAAGTT--------GGTCTTGCAG----GGGG--AAAAAATAGTAGAGAAT----AAAACAAATA----CACACAAACA---------------------CACAAATCTAGTTTCATGCTA-------GATATATCTGTTGTGAAGCAATATGTTGGCTGAATAGGGAAAGTCAGGTGAGTTAAAGTCTTGTGGCAGCCTGATTTAAACCATGGCTACACAAACCAGAGCCCTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTACTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCATTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCACTGGGAGTTTGAGGACAAAGGCTCCCT-CCCCCGCCTTGTTCTCTCCCTGT--C--TTGGTAGTGAGCCAGGGAGAGCAAGTTCCTGTAAAAAGCCATTGGCAATGAGCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5315447 2296 +  26952557 GTTTTTCTCCAGATTGTGCTTTCTTGAAGAGATACTG-AATTTAAAATTGCCCAATCTTAACGTGGAGCTGTCTGGCAATGACAGGAGTTTAAAGGAGAGAGTTGGGAATTAGACCTTGCACGAAATAATCTACATCCCCGCAACTGGGTGCGCCGTA--------AATTCTAGTTGGCTGAGCAAGGCCCTGCATTTTTGTTAACACCCTTTAATTAATCTTGTCATAAGTCCTATAGTGAGGTGGATGAACTTTCAAACATTAAACAGTGGAATTACTCACC-GGGTGGCTTTTCCCAAACA-CTCCAACCCCAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAATGGTGCTCCTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCCGCAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACCGGTTAGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAACGTTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGCTTTTCAGTGAATAATTGTTTACATAATAGTGAAGAGTGCTTGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATTGTGGTACCCATGCCAACAAAAGCAGAGCAGTATGTACAGTTAGTAAATCTTTTCTTAGCTGCAAAATTAGCGTCAAG-TTGCTTGAGCCC-GTAAACTACGTCAGCATAAGTCACTCTGATTAAATTGATGTGTGAAGGTAGTATTCTTAAACAGCAGGT-TGCTCCATTCTGA-------------------------------TT-----TTTTTTTTT-ATATCA-GTCAAATAATGAGGTAGGGGTAGAGTTGCTTAACCAGGCCAAGGGAAAAAGAA---AGCGGAATCATCTTAAAACGGCCATCCTGGATTTAATAGTCTACAACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCTCCAAAGCTTATCGGTGATGGCTGGTGTATAAGAGCTCCCAATGAGGACTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTCAAGTGCTTTCTGTA-------TTTTTAAGATCCCCGAAGATGATGTGGTTCTGTGATAGGAATCTCTTACACTTTACCATTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTATGCAGGAGTCAGGAGCA--------GTCTCTC----TCTCTCC--------------TTTTTTTTCTGGGTCAGAGTCAGA---TTTTATCGAGTCAAGCTATCTAATTGAACACAAACCATGTGATAGGACCCAAACAGAGTGCATTAAAAATGAAACAGAA-GGGGCCAGGTTTGTCTCAGGCTAGTGCTGTTACACAC-G-TAAGTTTCAGACATCCCCTGCATACAAAACGA-TTTTTTT---CCCCCTGCAGTGACAAAAGTT--------GGTCTTGCAG----GGGG--AAAAAATAGTAGAGAAT----AAAACAAATA----CACACAAACA---------------------CACAAATCTAGTTTCATGCTA-------GATATATCTGTTGTGAAGCAATATGTTGGCTGAATAGGGAAAGTCAGGTGAGTTAAAGTCTTGTGGCAGCCTGATTTAAACCATGGCTACACAAACCAGAGCCCTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTACTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAATGTAGAGTTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCATTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCACTGGGAGTTTGAGGACAAAGGCTCCCT-CCCCCGCCCTGTTCTCTCCCTGT--C--TTGGTAGTGAGCCAGGGAGAGCAAGTTCCTGTAAAAAGCCATTGGCAATGAGCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28416107 2298 +  82825804 GTTTTTCTCCAGATTGTGCTTTCTTGAAGAGATACTG-AATTTAAAATTGCCCAATCTTAACGTGGAGCTGTTTGGCAATGACAGGAGTTTAAAGGAGAGAGTTGGGAATTAGACCTTGCACGAAATAATCTACATCCCCACAACTGGGTGCGCCGTA--------AATTCTGGTTGGCTGAGCAAGGCCCTGCATTTTTGTTAACTCCCTTTAATTAATCTTGTCATAAGTCCTATAGTGAGGTGGATGAACTTTCAAACATTAAACAGTGGAATTACTCACC-GGGTGGCTTTTCCCAAACA-CTCCAACCCCAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAATGGTGCTCCTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCCGCAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACCGGTTAGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAACGTTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGCTTTTCAGTGAATAATTGTTTACATAATAGTGAAGAGTGCTTGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGACAAGAATTGTGGTACCCATGCCAACAAAAGCAGAGCAGTATGTACAGTTAGTAAATCTTTTCTTAGCTGCAAAATTAGCGTCAAG-TTGCTTGAGCCC-GTAAACTACGTCAGCATAAGTCACTCTGATTAAATTGATGTGTGAAGGTAGTATTCTTAAACAGCACGT-TGCTCCATTCTGA-----------------------------TTTT-----TTTTTTTTT-AAATCA-GACAAATAATGAGGTAGGGGTAGAGTTGCTTAACCAGGCCAAGGGAAAAAGAA---AGCGGAATCATCTTAAAACGGCCATCCTGGATTTAATAGTCTACAACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTC-CCAAAGCTTATCGGTGATGGCTGGTGTATAAGAGCTCCCAATGAGGACTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTCAAGTGCTTTCTGTA-------TTTTTAAGATCCCAGAAGATGATGTGGTTCTGTGATAGGAATCTCTTACACTTTACCATTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTATGCAGGAGTCAGGAGCA--------GTCTCTC----TCTCTCC---------------TTTTTTTCTGGGTCAGAGTCAGA---TTTTATCGAGTCAAGCTATCTAATTGAACACAAACCATGTGATAGGACCCAAACAGAGTGCATTAAAAATGAAACAGAA-GGGGCCAGGTTTGTCTCAGGCTAGTGCTGTTACACAC-G-TAAGTTTCAGACATCCCCTGCATACAAAACGATTTTTTTT---CCCCCTGCATTGACAAAAGTT--------GGTCTTACAG----GGGG-AAAAAAATAGTAGAGAAT----AAAACAAATA----CACACACACA---------------------CACAAATCTAGTTTCATGCTA-------GATATATCTGTTGTGAAGCAATATGTTGGCTGAATAGGGAAAGTCAAGTGAGTTACAGTCTGGTGGCAGCCTGATTTAAACCATGGCTACACAAACCAGAGCCCTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTACTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCATTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCACTGGGAGTTTGAGGACAAAGACTCCCT-CCCCCGCCCTGTTCTTTCCCTGT--C--TTGGTAGTGAGCCAGGGAGAGCAAGTTCCTGTAAAAAGCCACTGGCAATGAGCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4085965 2297 -   4237731 GTTTTTCTCCAGATTGTG-TTTCTTGAAGAGATACTG-AATTTAAAATTGCCCAATCTTAACCTGGAGCTGTTTGGCAGTGACAGGAGTTTAAAGGAGAGAGTTGGGAATTAGACCTTGCACGAAATAATCTACATCCCCGCAACTGGGTGCGCCGTA--------AATTCTGGTTGGCTGAGCAAGGCCCTGCATTTTTGTTAACTCCCTTTAATTAATCTTGTCATAAGTCCTATAGTGAGGTGGATGAACTTTCAAACATTAAACAGTGGAATTACTCACC-GGGTGGCTTTTCCCAAACA-CTCCAACCCCAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAATGGTGCTCCTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCCGCAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACCGGTTAGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAACGTTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGCTTTTCAGTGAATAATTGTTTACATAATAGTGAAGAGTGCTTGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATTGTGGTACCCATGCCAACAAAAGCAGAGCAGTATGTACAGTTAGTAAATCTTTTCTTAGCTGCAAAATTAGCGTCAAG-TTGCTTGAGCCC-GTAAACTACGTCAGCATAAGTCACTCTGATTAAATTGATGTGTGAAGGTAGTATTCTTAAACAGCAGGT-TGCTCCATTCTGA----------------------------TTTTT-----TTTTTTTTT-ATATCA-GTCAAATAATGAGGTAGGGGTAGAGTTGCTTAACCAGGCCAAGGGAAAAAGAA---AGCGGAATCATCTTAAAACGGCCATCCTGGATTTAATAGTCTACAACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCTCCAAAGCTTATCGGTGATGGCTGGTGTATAAGAGCTCCCAATGAGGACTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTCAAGTGCTTTCTGTA-------TTTTTAAGATCCCAGAAGATGATGTGGTTCTGTGATAGGAATCTCTTACACTTTACCATTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTATGCAAGAGTCAGGAGCA--------GTCTCTC----TCTCTCC---------------TCTTTTTCTGGGTCAGAGTCAGA---TTTTATCGAGTCAAGCTATCTAATTGAACACAAACCATGTGATAGGACCCAAACAGAGTGCATTAAAAATGAAACAGAA-GGGGCCAGGTTTGTCTCAGGCTAGTGCTGTTACACAC-G-TAAGTTTCAGACATCCCCTGCATACAAAACGA-TTTTTTT---CCCCCTGCAGTGACAACAGTT--------GGTCTTGCAG----GGGG--AAAAAATAGTAGAGAAT----AAAACAAATA----CACACAAACA---------------------CACAAATCTAGTTTCATGCTA-------GATACATCTGTTGTGAAGCAATATGTTGGCTGAGTAAGGAAAGTCAGGTGAGTTAAAGTCTTGTGGCAGCCTGATTTAAACCATGGCTACACAAACCAGAGCCCTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTACTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCATTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCACTGGGAGTTTGAGGACAAAGGCTCCCT-CCCCCGCCCTGTTCTCTCCCTGT--C--TTGGTAGTGAGCCAGGGAGAGCAAGTTCCTGTAAAAAGCCATTGGCAATGAGCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      354500 2295 -   1175262 GTTTTTCTCCAGATTGTGCTTTCTTGAAGAGATACTG-AATTTAAAATTGCCCAATCCTAACGTGGAGTTGTTTGGCAATGACAGGAGTTTAAAGGAGAGAGTTGGGAATTAGACCTTGCACGAAATAATCTACATCCCTGCAACTGGGTGCACCGTA--------AATTCTGGTTGGCTGAGCAAGGCCCTGCATTTTTGTTAACTCCCTTTAATTAATCTTGTCATAAGTCCTATAGTGAGGTGGATGAACTTTCAAACATTAAACAGTGGAATTACTCACC-GGGTGGCTTTTCCCAAACA-CTCCAACCCCAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAATGGTGCTCCTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCCGCAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACCGGTTAGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCATTGGGCAGGTCTGAAAGCAACGTTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGCTTTTCAGTGAATAATTGTTTACATAATAGTGAAGAGTGCTTGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATTGTGGTACCCATGCCAACAAAAGCAGAGCAGTATGTACAGTTAGTAAATCTTTTCTTAGCTGCAAAATTAGCGTCAAG-TTGCTTGAGCCC-GTAAACTACGTCAGCATAAGTCACTCTGATTAAATTGATGTGTGAAGGTAGTATTCTTAAACAGCAGGT-TGCTCCATTCTGA-------------------------------TT-----TTTTTTTTT-AAATCA-GTCAAATAATGAGGTAGGGGTAGAGTTGCTTAACCAGGCCAAGGGAAAAAGAA---AGCGGAATCATCTTAAAACGGCCATCCTGGATTTAATAGTCTACAACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCCCCAAAGCTTATCGGTGATGGCTGGTGTATAAGAGCTTCCAATGAGGACTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTCAAGTGCTTTCTGTA-------TTTTTAAGATCCCAGAAGATGATGTGGTTCTCTGATAGGAATCTCTTACACTTTACCATTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTATGCAGGAGTCAGGAGCA--------GTCTCTC----TCTCTCC---------------TTTTTTTCTGGGTCAGAGTCAGA---TTTTATCGAGTCAAGCTATCTAATTGAACACACACCATGTGATAGGACCCAAACAGAGTGCATTAAAAATGAAACAGAA-GGGGCCAGGTTTGTCTCAGGCTAGTGCTGTTACACAC-G-TAAGTTTCAGACATCCTCTGAATACAAAACGA-TTTTTTT---CCCCCTGCATTGACAAAAGTT--------GGTCTTGCAG----GGAG--AAAAAATAGTAGAGAAT----AAAACAAATA----CACACAAACA---------------------CACAAATCTAGTTTCATGCTA-------GATATATCTGTTGTGAAGCAATATGTTGGCTGAATAGGGAAAGTCAGGTGGGTTAAAGTCTTGTGGCAGCCTGATTTAAACCATGGCTACACAAACCAGAGCCCTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTACTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACTGTGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCACTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCCCTGGGAGTTTGAGGACAAAGGCTCCCT-CCCCCGCCCTGTTCTTTCCCTGT--C--TTGGTAGTGAGCCAGGGAGAGCCAGTTCCTGTAAAAAGCCATTGGCAATGAGCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123702627 2318 - 204313951 TTTTTTCTCCAGATAGTGCTTTCTTGAGTAGATACTG-AATTAAAAATTGCCCAA-CTTAACGTGGAGCTGTTTGGCAATGATAGGAGTTTAAAAGAGAGAGTAGAGTATTAGATCTTGCACCAAATAATCTACACCCCCACAACTGGGTGCACTGTATTTCAAGCTATTCGGGTTGGCTGAGCAAGGCCCTGCATTTTTGTCAATTCCCTTTAATTAATCTTGTCATAAGTCCTATAGTGAGGTGGATGAACTTTCAAACATTAAACAGTGGAATTACTCACC-GGGTGGCTTTTCCCAAACA-CTCCAACCCCAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAATGGCGCTCCTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTACCCGCAGTGTGAAAGCCTTGTGCAAATAATCAGCACATTTCTAACTGGTTAGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAACATTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGCCTTTCAGTGAATAATTGTTTACATAATAGTGAAGAGTGCTTGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATCGTGGTACCCATGCCAACAAAAGCAGAGCAGTATGTACAGTTAGTAAATCTTTTCTTTGCTGCAAAATTAGCGTCAAG-TTGCTTGAGCCC-GTAAACTACGTCAGCATAAGTCACTCTCATTAAATGGATGTGTGAAGGTAGTATTCTTAAACAGCAGGT-TGCTCCATTCtaa---------------------------tttttt-----ttttttttt-taatCA-GTCAAATAATGAGGTGGGGGTAGAGTTGCTTAACCAGGCCAAGGGAAAAAGAA---AGCGGAATCATCTTAAAACGGCCATCCCGGATTTAATAGCCTACAACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCTCCAAAGCTTATCGGTGACGGCTGGTGTATAAGAGCTCCCAATGAGGACTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTCGAGTGCTTTCTGTA-------TTTTTTAGATCCCAGAAGATGATGTGTTTCTGTGATAGGAATCTCTTACACTTTACCATTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTACGCAGGAGTCAGGAGCA--------GTCTCTC-------CTCT--------------TTTTTTTTCTGGGTCAGAGTCAGA---TTTTATCGAGTCAAGCTATCTAATTGAACACAAACCATGTGATAGGACCCAAACAGAGTGCATTAAAAATGAAACAGAA-GGGCCCAGGTTTGTCTCACGCTAGTGCTGTTACATGG-G-TAAATTTCCGACATTCCCTGAATACAAAATGA-ATTGTTTTT-CCTCCTGCCTTGACAAAAGTC--------GGTCTTTCAG----GGGGGAAAAAAATAGTTGAGAGT----AAAACAAACAAAGACACACATGCA---------------------CACAAATCTAGTGTCATGCTACATGTATCATGTATCTGTTGTGAAGCCATATGTTGGCTAAATAGGGAATGTCAGGTGAGTTAAAGTCTTGTGGCAGCCTGATTTAAACCATGGCTACACAAACCGGAGCCCTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTACTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAATTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCGTCAACCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGGAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAACGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCTTTTAA-AACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCGCTGGGAGTTTGAAGACAAAGGCCCCCT-CCCCTGCCCTGTTCTTTCCCCGT--C--TTGGTAGTGAGCCAGGGAGAGCAAGTTCCTGTAAAAAGCCGTTGGCAATGAGCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55746801 2313 -  71252344 TTTTTTCTCCAGATTGTGCTTTCTTGAGTAGATACTG-AATTAACAATTGCCCAGTCTTAACGTGGAGCTGTTTGGCAACGATTGGAGTTTAAAAGAGAGAGTAGGGAATTAGATCTTGCACCAAATAATCTATGCCCCCACAAGTGGGTGCACCATATTTCAAGCTATTCGAGTTGGCTGAGCAAGGTCCTGCATTTTTGTCAATTTCCTTTAATTAATCTTGTCATAAGTCCTATAGTGAGGTGGATGAACTTTCAAACATTAAACAGTGGAATTACTCACC-GGGTGGCTTTTCCCAAACA-CTCCAACCCCAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAATGGCGCTCCTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCCGCAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTGACTGGTTAGTAATAGGCAGAGTGC-AAAGAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAACATTACAGCTGAAAAATATTCATTTACAATTTAAAGCAAGGCTTTCAGTGAATAATTGTTTACATAATAGTGAAGAGTGCTTGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATCGTGGTACCCATGCCAACAAAAGCAGGGCAGTATGTACAGTTAGTAAATCTTTTCTTTGCTGCAAAATTAGCGTCAAG-TTGCTTGCGCCC-GTAAACTACGTCAGCATAAGTCACTCTCATTAAATGGATGTGTGAAGGTAGTATTCTTAAACAGCAGGT-TGCTCCATTCTAA-------------------------------TT-----TTTTTTTTT-AAATCA-GTCAAATAATGAGGTGGGGGTAGAGTTGCTTAACCAGGCCAAGGGAAAAAGAA---AGCGGAATCATCTTAAAACGGCCATCCCGGATTTAATAGCCTACAACAAAACCCTAAGCAGGTCAACTTCACGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCTCCAAAGCTTATCGGTGATGGCTGGTGTATAAGAGCTCCCAATGAGGACTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTCGAGTGCTTTCTGTAT------TTTTTTAGATCCCAGAAGATGATGTGTTTTTGTGATAGGAATCTCTTACACTTTACCACTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTATGCAGGAGTCAGGAGCA--------GTCTCTCTCTCTCTCTCT--------------TTTTTTTTCTGGGTCAGAGTCAAA---TTTTATCGAGTCAAGCTATCTAATTGAACACAAACCATGTGATAGGACCCAAACAGAGTGCATTAAAAATGAAACAGAA-GGGCCCAGGTTTGTCTCAGGCTGGTGCTGTTACATGG-G-TAAGTTTCAGACATCCCCTGAATACAAAATGA-ATTGTTTCT-CCCCCTGCCTTGACAAAAGTC--------GGTCTTTCAG----GGGGAAAAAAAATAGTTGAGGAT----A----AAACAAAGACACGTATGCA---------------------CACAAATCTAGTTTCATGCTA-------CATGTATCTGTTGTGAAGCCGTATGTTGGCTAAACAGGGAAAGTCAGGTGAGTTAAAGTCTTGTGGCAGCCTGATTTAAACCATAGCTACACAAACCAGAGCCCTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTACTGCTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCTTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAACATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCTTTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCACTGGGAGTTTGAAGACAAAGGCTCCCT-CCCCCGCCCTGTTCTTTCCCAGT--C--TTGGTAGTGAGCCAGGGAGAGCAAGTTCCTGTAAAAAGCCATTGGCAATGAGCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       50254 2308 -   3089952 TTGTTTCTCCAGATTGTGCTTTCTTGAGTAGATACTG-AATTAAAAATTGCCTAATCTTAACGTGGAGCTGTTTGGCAAAGATAGGATTTTAAAACAGAGAGAAGGGAATTAGATCTTGCACCAAATAATCTACACCCCCACAAGCGGGTGCACCGTATTTCAAGCTATTCGGGTTGGCTGAGCAAGGTCCTGCATTTTTGTCAATTTCCTTTAATTAATCTTGTCATAAGTCCTATAGTGAGGTGGATGAACTTTCAAACATTAAACAGTGGAATTACTCACC-GGGTGGCTTTTCCCAAACA-CTCCAACCCCAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAATGGCGCTCCTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCGGCAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACTGGTTAGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAACATTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGCCTTTCAGTGAATAATTGTTTACGTAATAGTGAAGAGTGCTTGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATCGTGGTACCCATGCCAACAAAAGCAGAGCAGTATGTACAGTTAGTAAATCTTTTCTTTCCTGCAAAATTAGCGTCAAG-TTGCTTGAGCCC-GTAAACTACGTCAGCATAAGTCACTCTCATTAAATGGATGTGTGAAGGTAGTATTCTTAAACAGCAGGT-TGCTCCATTCTAA-----------------------------TTTT-----TTTTTTTTT-AAATCA-GTCAAATAATGAGGTGGGGGTAGAGTTGCTTAACCAGGCCAAGGGAAAAAGAA---AGCGGAATCATCTTAAAACGGCCATCCCGGATTTAATAGCCTACAACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAGTTCCTAAAAGCCTTGTCTACTTCTCCAAAGCTTATCGGTGACGGCTGGTGTATAAGAGCTCCCAATGAGGACTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTCGAGTGCTTTCTGTA-------TTTTTTAGATCCCAGAAGATGATGTGTTTCTGTGATAGGAATCTCTTACACTTTACCAGTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTATGCAGGAGTCAGGAGCA--------GTCTCTC------TCTCT--------------CTTTTTTTCTGGGTCAGAGTCAGA---TTTTATCGAGTCAAGCTATCTAATTGAACACAAACCATGTGATAGGACCCAAACAGAGTGCATTAAAAATGAAAGAGAA-GGGCCCAGGTTTGTCTCAGGCTAGTGCTGTTACATGG-G-TAAGTTTCAGACATCCCCTGAATACGAAATGA-ATTGCTTTT-CTCCCTGCCTTGGCAAAAGTC--------AGTCTTTCAG----GGGG--AAAAAATAGTTGAGAGT----AAAACAAACAAAGACACACATGCA---------------------CACAAATCTAGTTTCATGCTA-------CATGTATCTGTTGTGAAGCCATATGCTGGCTAAATAGGGAAAGTCAGGTGAGTT--AGTCTCGTGGCAGCCTGATTTAAACCATGGCTACACAAACCAGAGCCCTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTACTGCTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCCTCTATACAAAGATCTTTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCACTGGGAGTTTGAAGACAAAGGCTCCCT-CCCCCGCCCTGTTCTTTCCCCAT--C--TTGGTAGTGAGCCAGGGAGAGCAAGTTCCTGTAAAAAGCCATTGGCAATGAGCT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13250527 2313 -  42888418 TTTTTCCTCCAGATTGTGCTTTCTTGAGTAGATACTC-AATTAAAAATTGCCCAATCTTAACGTGGAGCTGTTTGGCAATGATAAGAGTTTAAAAGAGAGAGTAGGGAATTAGATCTTGCACCAAATAATCTACACCCCCACAAGTGGGTGCACCATATTTCAAGCTATTCGGGTTGGCTGAGCAAGGTCCTGCATTTTTGTCAATTCCCTTTAATTAATCTTGTCATAAGTCCTATAGTGAGGTGGATGAACTTTCAAACATTAAACAGTGGAATTACTCACC-GGGTGGCTTTTCCCAAACA-CTCCAACTCCAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAATGGCGCTCCTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCCGCAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACCGGTTAGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCTACATTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGCCTTTCAGTGAATAATTGTTTACATAATAGTGAAGAGTGCTTGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATCGTGGTACCCATGCCAACCAAAGCAGAGCAGAATGTACAGTTAGTAAATCTTTTCTTTGCTGCAAAATTAGCGTCAAG-TTGCTTGAGCCC-GTCAACTACGTCAGCATAAGTCACTCTCATTAAATGGATGTGTGAAGGTAGTATTCTTAAACAGCAGGT-TGCTCCATTCTAA-----------------------------TTTT-----TTTTTTTTT-AAATCA-GTCAAATAATGAGGTGGGGGTAGAGTTGCTTAACCAGGCCAAGGGAAAAAGAA---AGCGGAATCATCTTAAAACGGCCATCCCGGATTTAATAGCCTACAACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCCCCAAAGCTTATCGGTGACGGCTGGTGTATAAGAGCTCCCAATGAGGACTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTCGAGTGCTTTCTGTA-------TTTTTTAGATCCCAGAAGATGATGTGTTTCTGTGATAGGAATCTCTTACACTTTACCATTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTATGCAGGAGTCAGGAGCA---------TCTCTC----TCTCTTT--------------TTTTTTTCCTGGGTCAGAGTCAGA---TTTTATCGAGTCAAGCTATCTAATTGAACACAAACCATGTGATAGGACCCAAACAGAGTGCATTAAAAATGAAACAGAA-GGGCCCAGGTTTGTCTCAGGCTAGTGCTGTTACATGGAG-TAAGTTTCAGACATCCCCTGAATACAAAATCA-ATTGTTTTT-CCCCCTGCCTTGACAAAAGTT--------GGTCTTTCAG----GGGG-AAAAAGATAGTTGAGAGT----AAAACAAACAAAGACACACATGCA---------------------CACAAATCTAGTTTGATTCTA-------CATGTATCTGTTGTGAAGCCATATGTTGGCTAAATAGGGAATGTCAGGTGAGTTAAAGTCTTGTGGCAGCCTGATTTAAACCATGGCTACACAAACCAGAGCCCTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTACTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCTTTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCACTGAGAGTTTGAAGACAAAGGCTCCCT-CCCCTGCCCTGTTCTTTCCCAGT--C--TTGGTAGTGAGCCAGGGAGAGCAAGTTCCTGTAAAAAGCCATTGGCAATGAGCT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60588370 2290 + 108143057 TTTCTTCTCCAAATTGTGCTTTCTTTGAGGGATGCTG-AATATT-AATGGCCTAATCCCATCATGGAGCTGTTTGGCAATGGCAGAAGTTTGAAAGAGAGTGTTGGGAATTAGACCCTGCACCAAGTAATCTGCTCCTCAATAACTGGGTGCACCATATCTCAAGCTATTTGGGTTGGCTGAGCAAAGCTCTAAATTTTTGTCAACTCCCTTTAATTAATCTTGTCATAAGTCCTATGGTGAGGTGCGTGAACTTTTGAACATTAAACAGTGAAATTACTCACC-GGGTGGCTTTTCCCAAACACCCCCAACCCCAATTAAAGAGCTGTGTTTTGGTTTTGGTTTCCTCAAATGGCGCTCTTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCCACAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACTGGTTAGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAACATTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGCCTTTCAGTGAATAATTGTTTACATAATAGTGAAGAGTGCTCGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATCGTGGTACCCATGCCAACAAAAGCAGAGCGGTATGTACAGTTAGTAAATCTTTTCTTAGCTGCAAAATTAGCATCAAG-TTCCTTGAGCCC-GTAAACTACGTCAGCATAAGTCACTCTCATT-AACCGATGTGTGAAGGTAGTATTCTTAAACAGCAGGT-TGCTCCATTCTGA------------------------------TTT-----TTTTTTTTT-AAATAATGCCAAATAATGAGGT-GGGGTAGAGTTGCTTAACCAGGCCAAGGGAAAAAGAA---AGCGGAATCATCTTAAAACGGCCATCCTGGATTTAATAGCGTACAACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCTCCAAAGCTTATCGGTGACGGCTGGTGTATAAGAGCTCCCAATGAGGACTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTTGAGTGCTTTCTGTA-------TTTTTTAGATCCCAGAAGATGATGTGGCTCTGTGATAGGAATCTC-TACACTGCGCCATTGACATAAACAGGTCACAGCACCGGCAGAAGCTTATGCAGGAGTCAGGAGCA--------GCCTCTC----TCCCTTT---------------TTTTTTTCTGGGTCAGAGTCAGA---TTTTATCGAGTCAAGCTATCTAATTGAACACAAACCATGTGATAGGACCCAAACGGAGTGCATTAAAAATGAAACAGAA-AGGGCCAGTTTTGTCTCAGGCTAGTACTGTTACACGG-A-TAAGTTTCAGACATCACCTGAATACAAAATGA-ATTTTTTTT----CCTGCATTGACAAAAGTC----------------------AGAG--GGAAAAAAGTTGAGAAT----AAAACATA------CACACATACA---------------------CACAAATCTAGTTTCATGCTA-------GATGTATCTGTTGTGAAGCAATATGTTGGCTAAATAGGAAATGTCAGGTGAGTTAAAGTCTCGTGGCAGCCTGATTTAAACCATGGCCACACAAACCAGAGCTCTGTCCAGATCCCAGGAAAGTGAATTATATGTAATAACACTCACAGTTTCCTAGTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCAGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCATTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCACAGGGAGTTTGAAGACAAAGGCTCCCA-CCCCCGCCCTGTTCTTTCCTTTC--C--TTGGTAGTGAGCCAAGGAGAGCAAGTTCCTGTAACAAGCTATTGGCAATGAACT
i micMur3.chr12            I 34 I 15
s proCoq1.NW_012155062v1     3624013 2284 +  11683526 TTTCTTCTCCAAAGGGTGCTTTCTTTGAGGGATGCTG-AATATGAAATTGCCTAATCCCATCATGGAGCTGTTTGGCAATAGCAGAAGTTTAAAAGAGAGTGTTGGGAATTGGACCCTGCACCCAGTGATCTACTCTCCAATAACTGGATGCGCCATATTTCAAGCTATTCAGGTTGGCTGAGCAAGGCTCTAAATTTTTGTCAACTCCCTTTAATTAATCTTGTCATAAGTCCTATGGTGAGGTGGATGAACTTTCAAACATTAAACGGTGAAATTACTCACC-GGGTGGCTTTTCCCAGACACCCCCAACCCCAATTAAAGAGCTGTGTTTTGGTTTGGGTTTCCTCAAATGGCGCTCTTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCCGCAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACTGGTTAGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAACATTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGCCTTTCAGTGAATAATTGTTTACATAATAGTGAAGAGTGCTCGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATCCTGGTACCCATGCCAACAATAGCAGAGTGGTATGTACAGTTAGTAAATCTTTTCTTAGCTGCAAAATTAGCATCAAG-TTGCTTGAGCCT-GTAAACTACGTCAGCATAAGTCACTCTCATT-AACTGATGTGTGAAGGTAGTATTCATAAGCAGCAGGT-TACTCCACTCTGA--------------------------------T-----TTTTTTTTT-AAATAATGCCAAATAATGAGGTGGGGGTAGAGTTGCTTAACCAGGCCAAGGGAAAAAGAA---AGCAGAATCATCTTAAAATGGCCATCCTGGATTTAATAGCCTACAACAAAACCCTAAGCAGGTCAACTTCACGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCTCCAAAGCTTATCGGTGACGGCTGGTGTATAAGAGCTCCCAATGAGGACTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTTGAGTGCTTTCTGTA-------TTTTTTAGATCCCAGAAGATGATGTGGTTCTGTGATAGGAATCTCTTACACTTTACCATTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTATTCAGGACTCAGGAGCA--------GTCTCTC----TCTC-TT---------------TTTTTTTCTGGGTCAGAGTCAGA---TTTTATCGAGTCAAGCTATCTAATTGAACACAAACCATGTGATAGGACCCAAATGGAGTGCATTAAAAATGAAATAGAA-AGGGCTGGTTTTGTCTCAGGCTAGTACTGTTATAGGG-A-TAAGTTTTGGACATCGCCTGAATACAAAATGA-ATTTTTTTT----CCTGCATTGACAGA--------------------------AGGG--GAAAAAAAGTTGAGAAT----AAAATATA------CACGCACACA---------------------CACAAATCTAGTTTCATGCTA-------GATGTATCCGTTGTGAAGCAATATGTTGGCTAAATAGGAAAAGTCAGGTGAGTTCAAGTCTCATGGCAGCCTGATTTAAACCATGGCTACACAAACCAGAGCTCTGTCCACATCTCAGGAAAGTGAATTATGTATAATAACACTTACAGTTTCCTAGTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTACAGTCATTTCATGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTGT--AAAGATCATTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCACTGGGAGTTTGAAGACAAAGGCTCCCG-CCCCCGCCCTGTTCTTTCCCTTC--C--TTGGTCTTGAGCCAAGGAGAGCAAGTTCCTGTAACAAGCTATTGGCAATGAACT
i proCoq1.NW_012155062v1   C 0 I 7
s otoGar3.GL873679           3113922 2319 +   4132165 TTTCTTCTCCAAATTGTGCTCTTGTTGAGAGACATCA-AATATAAAACAGCCTGATCCCAATACAGAGCTGTTTGGCAATGGCAGAAGTTTAGAAGAGAGAGTTGGGAATTAGATGCTACACCAACTAATCTACTCCCCAGTAACTGGACGCACCATATTTCATGTTATTCGGGTTGGCTGAACAAAGCTCTAAATTTTTGTCAACTCCCTTTAATTAATCTTGTCGTAAGTCCTATGGTGAGGTGGGTGAACTTTCGAACATTAAACAGTGGAATTACTCGCC-GGGTGGCTTTTCCCAAACACCCCCAACCCCAATTAAAGAGCTGTGTTTGGGTTTGGGTTTCCTCAAATGGAGCTCTTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCCCGCAGTGTGAAAGGCTTGTGCAAATAATCGGCACATTTCTAACTGGTTAGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAACATTACAGCTGAAATATATTCATTTACAATGTAAAGCAAGCCTTTCAGTGAATAATTGTTTACATAATAGTGAAGAGTGCTCGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATCGTGGTACCCATGCCAACCAAAGCAGAGCAGGATGTACAGTTAGT--GCCTTTTCTTAGCTGCAAAATTAGCATCAAC-TTGCTTGAGCCCTGTAAACTATGTCAGCCTAAGTCACTCTCAGA-AACTGATGTGTGA--GTAGTATTCTGAAACAGAAGTTCTGCTCCATTCTGa------------------------------tttatttatttattttt-aaataatGCCAAATAATGAGGTGGGGGTAGAGTTCCTTAACCAGGCCAAGGGAAAAAGAAAGCAGCGGAATCATCTTAAAACGGCCATCTTGGATTTAATAGCCTACAACAAAACCCTAAGAAGGTCAACTTCATGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCTCCAAAGCTTATCGGTGACGGCTGGTGTATAAGAGCTCCCAATGAGGCCTGATTTACAGCACTGAAGGGCTTTGCAGTGACAAAGGAGGGCCAGGGTCCTTGAGTGCCTTCTGTA-------TTTTTTAGATCCCAGAAAATGATGTGGTTCTGTGATAGGAATCTCTTACACTTTAACACTGACATAAACAGGTCACAGTGCCGGCA-AAGCTTAGGCAGGAGTCAGAAGCACATTCTCTCTCTCTC----TCTC-TT---------------TTTATTTCTGGGTCAGAGTCAGA---TTTTATCAAATCAAGCTATCTAATTGAACACAAACCATGTGATAGGACCCAAACGGAGTGCATTAAAAATGAAACAGAA-GGGGCCAGGTTTGTCTCAGGCTGGTGCTGTTACAAGG-A-TAAGTTTCAGACATCACTTGAATACAAAATGA-CTTTTTTTT-CCCCCTACCTTGACAAAAGTC--------TGTCTTTCAG---TGGGT--TGGGGAGAGTTGAGACG----AAAACGCA------CACAAACACA---------------------CACAAATCTAGTTTCATGCTA-------GATGTATCTGTTGTGAAGCAATACGTTGGCTAAATAGGAAAAGTCAGGTGAGTTAAAGTCTCGTGGCAGCCTGATTCAAACCATAGCTACACAAACCAGAGCTCTGTCCAGAACTCGGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTAGTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCCTTTCAGTCTCAGCACATCTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCAGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCACGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCATTTAATAACATTTGGCTAATTTTAATAATAATCGGTAATATTAACCCTATATTTCACTGAGAGTTTGAAGACAAAGGCTCCCA-CCCCCGCCCTGCTCTTTCCCTTC--T--TTGGTAGTGAGCCAAGGAGAGCAAGTTCCTGTAACAAGCCCTTGGCAATGAACT
i otoGar3.GL873679         C 0 I 9
s mm10.chr18                55545803 2346 +  90702639 TTTTTTCTGTAAATTA---TCTCTTTGAGACACACTG-GATACCAGA-TGGCCAGTCACGATGTGGGTCTGTTTGGTAATGGCAGAAGCTGAAAGAACAGAG--AGGAACCA----CTCTACCCATGGATCTAGATGCCAATACCTGGGTGAACCATATTTCAAGTTACTTGGGTTGGGTGAGCAAGGTCCTAAATTTGTGTCAAGTCCTTTTAATGACTCTTGCTGTAAGACCTATGGTGTTGTGAGTGAGCTTTC-------AAACAGTAGAATTACTCACCGGGGTAGGTTTTCCCTCACA-CTCCTCTCTCAATTAGAGAGCCGCATTT-GGTTTGGGTTCCCTGGAAT---GCTCTTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAACTAAACTGTGTTGACCATGTGAAAACCTTGTTCAAATACTATGCACAGTCCTAACTGGCTAGCAATGGACAGAGTGG-GAAAGAACAAAAGAACAAAAGAAAAAAAAAAAACCCAAAGGTTCAGATTTATACCACTGGGCAGGTCTGAAAGCAAAGCCACAGCTGAAAAATATCCATTTACAATTTAAAACTAGCCTTTCAGTGAATAACTGTTTACATTATCGAGAAGAGG--CTATGCAGCGCAACCGGGACCCATTTACAACGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTG-TGGAGAAAAGGACCACAGTACCCATGCCAACTAAAACTGGGTAGTGTGGGCAGTTAGGAAATCTTTTCTTAGCTGCAAAATTAGTGTCAAG-TTACTTAAGTCC-CTTGACTACAACAGCGTAAGTCACTC--ATTAAATTGATGTGTGAAGATGGTATGCTTAAACAGCCAAC-TGATtctctctctctctctctctctctctct---------ctctct-----ctctctctT-AAATCA-GCCCAGTAATGAGGTGGAGGTAGAGTTGCTTAACCAGG-GAAGGAAAAAGGAA---AGCAGAACCATGATAAAATGGCCATCCCAGATTTAATAGTGTACAACAAAACCCTAAGCAGGTCAACTACATGGTTCAGCAACTCCTAAAAGCCCTGTCTGCTTCTCCAGGGCTTATCAGTGAGGGGTGGTACATGAGAGTTCCCAAGGAGAGCTGATTTACAGCACTGGAGAGCTGCTCGGTGACAAAGGAGGGCCA-GGTCCTCCAATGCCTTCTGTA-------TTATTTAGATTCC---AGATGATACGGACTTGTGATA-GAATCTCTT--ACTCTGCCACCGACATGAACAGGTCACAGTGTCTGCTAAAGC-----CAGGAGTCAG-AGCA--------ATCGCTC----TCCCTCC---------------CCGCTGTCTAGGTCAGAGCCAGATTTTTTTATTGAGTCAAGCTATCTAATTGAACACAAATCATGTGATCAGGCTCA----GAGTATATTAAAAATGAAACAG-A-GGGACCAGATTTGTCTCAGACGAGAGCTGTTACAGGG-T-TAAGTTTCAGACAACTCCTGAATACAAAATGA-ATTTTAT---ATTCTTGCATTGGCAGAAGTTCAATGGGCGGTGGCGCCGGGTGGGGG--ATGGGAAGGTAGGGGGTGTTGAacacacacacacacacacacacacacCATGCGCATGCGCTCGTGCACAAATCTAGTTTCAGGCTA-------GCTGTGTCTGTTGTGAAGCAATATGTTGGCTAAATAGGACAAGTCAGGTGAGTTAACGGCTCCTGGCAGGCTGATTTAAACCATGGCTCCACAAGCCAGAGCCTTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTAGTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAGAAAACAGGGCCA-TGTCAGTTCCTCTCAGTCTCAGCACATTCGCTATTAGCATAAGAAATGCTGCTTAAGGCAGACCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTCGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAACGCTGGCATGCAGATAAAATGGGTTTCAGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACGGGGCTGCTCCTAGGCAC-AAAGAAATGCCAGGAAAATGAAGTCATGTTTTTGTTAAGTATAGTCATTTCATGAAAGCATGGAGCTGCAGATGTCATTGTCTGCCACAGGGAAAACTATACTTATTCTTCTATACAAAGATCATTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCCGTGTTTCACTGGGAGCTTAAAGACAAAG----------CCATCTCAGTTCTCCCCATTC-GG--TTGGGAGCGAGCCAAGAAGGGCAAGTTCCTG-AAAGAGCTCTTGGCAAAGAGGG
i mm10.chr18               I 1 C 0
s canFam3.chr11             14955118 2349 +  74389097 -TTTCTTTGTAAACTGTGCTTCCTTGGAGGGATACAG-AATGCAGAACTGCCTTCTCCAAACATGGAGATGTTTGGTACTGGGAGAAGCTTTAAAAAGGGAGTTGGGAATCAGCTCCCTCACCAAGGAATCTGCTCCCCAGTAACTGGATGCACCATATTTGCAGCCATCCCCGAGGCTTGAGCAGGGCAGCGCATTTTTGTCAATCCCCTTTAATTAATCTTGCCGTGAGTCCTACGGTGGGGTGGGCGAACTCTCAAACATTAAACAGTGGAATGACTCGCA-GGGTGGCTTTTCCCAAACACCCCCAACCCCAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAACGGCGCTCTTGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGCGTTCACAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACTGGTTCGTAATAGGCAGAGTGC-AAAAAA-----------------------------CAAATGACCAGATTTATACCACTGGGCAGGTCTGAAAGCAACATCACAGCTGAAATATAGTCATTGACAATTTAAAGCAAGCCTTTCAGTGAATAATTGTTTACATAACGGTGAAGAGCGCTCGCGCAGCACAACTGGGATCCATTTACAATGTGTTAAGCAAAGAACGCATGTTTACAAAAGAGTTTGAGTTCGTTTTGGGGAGAAGAGAATCGTGGCACTCATGCCAACAAAAGCAGAGCAGTATGTACAGTTAGTAAATCTTTTCTGAGCTGCAAAATCGGCGGCAAG-ATGTTTGAGCCC-GTAAACTACGTCAGCATCAGTCACTCTCATTAAATTGGTGCGTGAAGGTAGCATTCTCAGACAGCAGGT-TGCTCCATtctctctctctctctctctctctctctcgctctctctc-----tctctTTTT-AAATCA-GCCAAATAATGAGCTGGGGGTGAAGTTCCTTAACCAGGCCAAGGGAAGAAGAA---AACGGAATCGTCTTAAAACGGCCATCCTGGATTTAATAGCCTACCACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAGTTCCTAAAAGCCTTGTCTACTTCTCCAAAGCTTATCGGTGACGGCTGGTATATAAGAGCTCCCAATGAGGACTGATTTATAGCACTGGAGGGCTTTGCAGTGACAAAGGAGGGCTAGGGTTCTTGAGAGCTCTCTGTAT------TTTTTTAGATCCCAAAAGATGATGTGGTTCTGTGATAGGAATCTCGTACACTTTACTGGTGACATAAACAGGTCACAGTGCCTGCAAAAGCTTATGTGGGAGTCAGGAGCA--------ATTtctc----tctctctctctctctctctctctctttttctGGGTCACAGTCAGA---TTTTATTGAGTCAAAGTATCTAACTGAACACAAATCATGTGATAGGACCCAAACAGTGTGCATTAAAAATGAAGCAGAATGGGGCCAGGTTTGTCTCAAGCTGGTGCTATAACAGGG-A-TATGTTTCAGGCATCACTTGAATACAAATGAA-TTTTTTTTTCCCCCCGGCATTGACAAAAGTC--------AG----GCCG----GAAA--AAAAAAAAGTTGAAAAA----AAAAGAAACC--------CAAAAC---------------------CACAAATCTAGTTTCATGCTG-------GATGTATCTGTTGTGAAGCAATATGTTGGCTAAATAGGAAAAGTCAGGTGAGTTAAAGTCTCGTGGCAGCTTGATTTAAACCATGGCTACACAAACCAGAGCCCTGTCCAGATCTCAGGAAAGTGAATTATATATAATAACACTTACAGTTTCCTAGTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTTCTTTCAGCCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCTAGTCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCAGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGGTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCATTTAATAACATTTGGCTAATTTTAATAATAATTGCTAATATTAACCCTATATTTCACTAGGAGTTTGAAGACAAAGAGTCCCT-GCCCCCGCCTGTTCTTTCCTTTCAGT--TTGGTAGAGAGCCAACAAGAGCAAGTTCCTGTAAAAAGCTATTGGCAAGGAACT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2678862 2330 +   3667625 TTTCTTCTCTAAATTGTGTTTTCTTTGAGGGTTATGGAAATGTAAATTTGCCTCATCCAAACATGGAATTGTTTGGTAATGACAGGAGTTTAAAAGAGAGAGTTGGGAATTAGACATCACACAAAGCAATCTGCA-CCAGATAACTGGATGTTCCATATTTCAAGCTCTTCAGGTTGGGTGAGCAAGACCCTGAATTTTTGTCAACTACCTTTAATTAATCCTGCCATGAGTCCTATGGTGAGGTGGGTGAACTTTTAAATATTAACCAGTGGAATTACTCACC-AGGTGGCTTTTCCTGAACAACGCCAACCACAATTAAAGAGCTGTATTT-GGTTTGGGTTTCCTCAAATGGCCCTCTCGTTAACACTCATCAAACACAGGAAAAATAAAACAGCAATTTAACTGTGCTCGCAGTGTGAAAGGCTTGTGCAAATAATCAGCACATTTCTAACTGGTTAGTAATAGGCAGAGTGCAAAAAAA-----------------------------CAAATGACCAGATTTATACCACAGGGCAGGTCTGAAAGCAACATTACAGCTGAAATATATTCATTTACAATTTAAAGCAAGCCTTTCAGTGAATAATTGTTTACATAATAGTGAAGAGTGCTTGTGCTGCACAACTGGGATCCATTTACAATGTGTTAACCAAATAATGCATGTTTACAAAAGATTTAGAGTTTGTTTT-TGGAGAAAAGAATCATGGTACCCATGCCAACAAAAGCAGAGCTGTATGTACAGTTAGTAAATCTTTTCTTAGCTGCATAATTAGTGTCAAG-TTGCTTGAGCCC-GCAAACTACGTCAGCATAAGTCATTCTCATTAAGTTGATGTGTGAAGGTAGTATTCTCAAACAGCAGGT-TTCTCCATTCTGA-------------------------------TT-----TTTCTTTTT-TAATCA-GCCAAATAATGAGCTGGGGGTAGAGTTGCTTAACCAGGCCAGGGGAGGAAGAA---AGCAGAATCATCTTAAAACAGCCATCCTGGATTTAATAGCCTACAACAAAACCCTAAGCAGGTCAACTTCATGGTTCAGCAATTCCTAAAAGCCTTGTCTACTTCTCCCAAGCTTATCGCTGACGGCTAGTGTATAAGGGCTCCCAATGAGGGCTGATTTACAGCACCAAAGGGCTTTGTGGTGACAAAGGAGGGCCAGAGTCCTCCAGTGCTTTCTGTACTTTGTACTTTTTAGATCCCAGAAGATGATGTGGTTCTCAGATAGGAATCTCTTACACTTTACCATTGACAT-AACAGGTCACAGTGCCTGTAAAATCTTATGCAGAAGCCAGAAGCA--------ATCTTTC----TCTTTCTCTCACATGCACGCTCTCTTTTTCTGGGTCAGAGGCAGA---TTTTATCGAATCAAGCTATCTAATTGAACACAAACCATGTGATAGAACCCAAACAGAGTGCATTAAAAATGAAGCAGAATGGGGCCAGGTTTGTCTCAGGCTAGTGCTGTTACAGGG-A-TAAGTTTCAGACATCATCTGAATACAAAATGA-AATTTTTTT-----CTGCTTTGACAAAAGCC--------TCTCTCTCAG----AAGG--AAAAAAAAGTGGAGAAT-----TAACAAAGAAAAAAGAAGAAAGC---------------------CACAAATCGAGTTTCATGCTA-------GATGTATCTGTTGTGAAGC-ATATGATGGCTAAATAGGAAAAGTCAGGTGGTTTAAAGTCTCGTGGCAGCCTGATTTAAACCACGGCTACACAAACCAGAGGCCTGTCCAGATCTCAGGAAAGTGAATTATATGTAATAACACTTACAGTTTCCTAGTACTATTAGATTTGCCTTCTTACATAAATGCTTAAGTTATGATAAAAAACAGGGCCA-TGTCAGTTCCTTTCAGTCTCAGCACATTTGCTATTAGCATAAGAAATGCTGCTTATGGCAGAGCCAGCCGGGCTTGAAATTTCTGAATTAATGGATTTGATTTCCTCTTGAGACAAACCATCAGCCTTGCAGTAATGGAAATAGATATAGTTGGTAAAACAAATAAAAAGCTGGCATGCAGATAAAATGGGTTTCGGTTTAAAATAGTAATGTTGTAATTGAAGTGAACAATTACAGGCTTGCTCCTAGGCACAAAAGAAATACCATGAAAATGAAGTAATGTTTTTGTTAAGTATAGTCATTTCATGAAAATGTAGAGCTGCAGATGTCATTGTCTGCCAAAGGGAAAACTATACTTATTCTTCTATACAAAGATCAGTTAATAACATTTGGCTAATTTTAATAATGATTGCTAATATTAACCCTATATTTCACTGAGAGTGTGAAGACAAAGGCTCCCCGCCCCTGCCCTGTTCTTTCCTTTT--TCGTTGGTCCTGAGCCAAGGAGAGCAAGTTCCTGTAAAAAGCTATTGGTGATGAACT
i dasNov3.JH567306         C 0 C 0

a score=118208.000000
s hg38.chr5_KI270796v1_alt    131829 10 +    172708 ATC--AAATCCC
s panTro5.chr5             125235507 10 + 181907262 ATC--AAATCCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126572225 10 + 183735486 ATC--AAATCCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1764029 10 +   8933513 ATC--AAATCCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139898293 10 + 163208435 ATC--AAATCCC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122882998 10 + 180051392 ATC--AAATCCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124306631 10 + 181584905 ATC--AAATCCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16305311 10 +  18395747 ATC--AAATCCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5317743 10 +  26952557 ATC--AAATCCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28418405 10 +  82825804 ATC--AAATCCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4088262 10 -   4237731 ATC--AAATCCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      356795 10 -   1175262 ATC--AAATCCC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123704945 12 - 204313951 ATCAGAAATCCC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55749114 12 -  71252344 ATCAGAAATCCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       52562 12 -   3089952 ATCAGAAATCCC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13252840 12 -  42888418 ATCAGAAATCCC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3626304 10 +  11683526 ACC--CCGCCCC
i proCoq1.NW_012155062v1   I 7 C 0
s otoGar3.GL873679           3116250 10 +   4132165 ACC--CCACCCC
i otoGar3.GL873679         I 9 I 4
s mm10.chr18                55548149 12 +  90702639 CTCAGAATTCCC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14957467 12 +  74389097 ATCAGAAATCCC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2681192 12 +   3667625 AGCAGAAATCCC
i dasNov3.JH567306         C 0 I 13
e micMur3.chr12             60590660 15 + 108143057 I

a score=1821456.000000
s hg38.chr5_KI270796v1_alt    131839 105 +    172708 CACCCCCAGCAGCAGTCTACTCTTTTTTAATGTCTTATTTCTCTTTCTTTGTCAAGCATCTGTTATCAGGAATGGAGCCTGTTAGCTGGCAATTGGAGGTGCAGG
s panTro5.chr5             125235517 105 + 181907262 CACCCCCAGCAGCAGCCTACTCTTTTTTAATGTCTTATTTCTCTTTCTTTGTCAAGCATCTGTTATCAGGAATGGAGCCTGTTAGCTGGCAATTGGAGGTGCAGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126572235 105 + 183735486 CACCCCCAGCAGCAGCCTACTCTTTTTTAATGTCTTATTTCTCTTTCTTTGTCAAGCATCTGTTATCAGGAATGGAGCCTGTTAGCTGGCAATTGGAGGTGCAGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1764039 105 +   8933513 CACCCCCAGCAGCAGCCTACTCTTTTTTAATGTCTTATTTCTCTTTCTTTGTCAAGCATCTGTTATCAGGAATGGAGCCTGTTAGCTGGCAATTGGAGGTGCAGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139898303 103 + 163208435 CACCCCCAGCAGCAGCCTACTC--TTTTAATGTCTTATTTCTCTTTCTTTGTCAAGCATCTGTTATCAGGAATGGAGCCTGTTAGCTGGCAATTGGAGGTGCAGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122883008 105 + 180051392 CACCCCCAGCAGCAGCCTACTCTTTTTTAATGTCTTATTTCTCTTTCTTTGTCAAGCATCTGTTATCACGAATGGAGCCTGTTAGCCGGCAACTGGAGGTGCAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124306641 105 + 181584905 CACCCCCAGCAGCAACCTACTCTTTTTTAATGTCTTATTTCTCTTTCTTTGTCAAGCATCTGTTATCACGAATGGAGCCTGTTAGCCGGCAACTGGAGGTGCAGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16305321 105 +  18395747 CACCCCCAGCAGCAACCTACTCTTTTTTAATGTCTTATTTCTCTTTCTTTGTCAAGCATCTGTTATCACGAATGGAGCCTGTTAGCCGGCAACTGGAGGTGCAGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5317753 105 +  26952557 CACCCCCAGCAGCAACCTACTCTTTTTTAATGTCTTATTTCTCTTTCTTTGTCAAGCATCTGTTATCACGAATGGAGCCTGTTAGCCGGCAACTGGAGGTGCAGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28418415 105 +  82825804 CACCCCCAGCAGCAACCTACTCTTTTTTAATGTCTTATTTCTCTTTCTTTGTCAAGCATCTGTTATCACGAATGGAGCCTGTTAGCCGGCAATTGGAGGTGCAGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4088272 105 -   4237731 CACCCCCAGCAGCAACCTAGTCTTTTTTAATGTCTTATTTCTCTTTCTTTGTCAAGCATCTGTTATCACGAATGGAGCCTGTTAGCCGGCAACTGGAGGTGCAGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      356805 105 -   1175262 CACCCCCAGCAGCAACCTACTCTTTTTTAATGTCTTATTTCTCTTTCTTTGTCAAGCATCTGTTATCACGAATGGAGCCTGTTAGCCGGCAATTGGAGGTGCAGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123704957 104 - 204313951 CACCCCCAGCAGCAGCCTACTC-TTTTTAATGTCTTATTTCTCTTTCTTTGTCAAGCATCTGTTATCAGGAAAGGAGCCTGTTAGCTGGCAACTGGAGGTGCAGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55749126 105 -  71252344 CACCCCCAGCAGCAGCCTACTCTTTTTTAATGTCTTATTTCTCTTTCTTTGTGAAGCATCTGTTATCAGGAATGGAGCCTGTTAGCTGGCAACTGGGGGTGCAGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       52574 105 -   3089952 CACCCCCAGCAGCAGCCTACTCTTTTTTAATGTCTTATTTCTCTTTCTTTGTCAAGCATCTGTTATCAGGAATGGAGCCTGTTAGCTGGCAACTGGAGGTGCAGG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13252852 102 -  42888418 CACCCC---CAGCAGCCTACTCTTTTTTAATGTCTTATTTCTCTTTCTTTGTCAAGCATCTGTTATCGGGAATGGAGCCTGTTAGCTGGCAACTGGAGGTGCAGG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60590675 100 + 108143057 CCCCCGCCGCAGCAGCCTTCTCCTTTTTAATGTCTTATT----TCTCTTTGTCAGGCATCTGTTATCAGAAATGGAGCCCGTTAGCTTGCAATTGGAGGTGCAG-
i micMur3.chr12            I 15 C 0
s proCoq1.NW_012155062v1     3626314 101 +  11683526 CTCCCGCCGCAGCAGCCTTCTCGATTTTAATGTCTTATT----TCTCTTTGTCAAGCATCTGTTATCAGAAAGGGAGCCTGTTAGCTTGCCTTTGGAGGTGCAGG
i proCoq1.NW_012155062v1   C 0 I 11
s otoGar3.GL873679           3116264 101 +   4132165 CCCCCACC-CAGCAGCATTGCCCTTTTTAATGTCTTATTTTTCTTTCTTTGTCAAGCATCTGCTATCAGAAATGGAGCCTGTTAGCTTGCAATCAGAGGTGC---
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55548161  95 +  90702639 CACCC----------CCCTCTCCTTGTTAATGTCTTATTTCTCTTTCTTTGTTGAGCATCTGTTATCAGAAATGGAGCGTGGTAGCTGGCAAGAGGAGATGTGGG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14957479 103 +  74389097 CACAC-CGGCATCAGCCTTCTC-CTTTTAATGTCTTATTTCTCTTTCTTTGTCAAGCATCTGTTATCAGAAATGGAGCCTGTTAGCTGGCAACTGGAGTGGCAGG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2681217 103 +   3667625 CACCCCCGGCAGCAGCCTTCTTCTTTTTAATGTCTTATT--TCTTTCTTTGTCAAGCATCTGCTATGAGAAATGGAGCCTGTTAGCTGGCGGTTTGAGGTGCAGG
i dasNov3.JH567306         I 13 C 0

a score=436975.000000
s hg38.chr5_KI270796v1_alt    131944 38 +    172708 AGGAACTG-GAATAAAGAG------GGGAAGGAGAGTGGGAACGC
s panTro5.chr5             125235622 38 + 181907262 AGGAACTG-GAATAAAGAG------GGGAAGGAGAGTGGGAACGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126572340 38 + 183735486 AGGAACTG-GAATAAAGAG------GGGAAGGAGAGTGGGAACGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1764144 38 +   8933513 AGGAACTG-GAATAAAGAG------GGGAAGGAGAGTGGGAACGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139898406 38 + 163208435 AGGGACTG-GAATAAAGAG------GGGAAGGAGAGTGGGAACGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122883113 37 + 180051392 AGGGACTG-GAATAAAGA-------GGGATAGAGAGTGGGAACGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124306746 37 + 181584905 AGGGACTG-GAATAAAGA-------GGGATAGAGAGTGGGAACGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16305426 37 +  18395747 AGGGACTG-GAATAAAGA-------GGGATAGAGAGTGGGAACGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5317858 37 +  26952557 AGGGACTG-GAATAAAGA-------GGGATAGAGAGTGGGAACGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28418520 37 +  82825804 AGGGACTG-GAATAAAGA-------GGGATAGAGAGTGGGAACGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4088377 37 -   4237731 AGGGACTG-GAATAAAGA-------GGGATAGAGAGTGGGAACGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      356910 37 -   1175262 AGGGACTG-GAATAAAGA-------GGGATGGAGAGTGGGAACGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123705061 38 - 204313951 AGGCACTG-GAATAAAGAG------GAGATGGAGAGTGGGAGCAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55749231 38 -  71252344 AGGCCCTG-GAATAAAGAG------GAGATGGAGAGTGGGAGCAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       52679 38 -   3089952 AGGCACTG-GAATAAAGAG------GAGATGGAGAGTGGGAGCAC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13252954 38 -  42888418 AGGCACTG-GAATAAAGAG------GAGATGGAGAGTGGGAGCAC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60590775 37 + 108143057 --GGACCGAGAATAAAGGA------AGGACGGAGAGTGGGAACCC
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3116365 39 +   4132165 AGGGACTGAGAGAAAAAGG------AGGGTGGAGAGTGGGAACCC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55548256 22 +  90702639 -------------AGGGAG------GAAGAGATCAGCCGGA----
i mm10.chr18               C 0 C 0
s canFam3.chr11             14957582 45 +  74389097 AGGGAGTGAGGATAAAGGAGGGGGTGGGGTGGAGACTGGGAACCC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2681320 39 +   3667625 AGGGAGTGAGAAGAAAGAG------GAGATGGAGGGCGGGAACCC
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3626415 11 +  11683526 I

a score=844693.000000
s hg38.chr5_KI270796v1_alt    131982 49 +    172708 CAGGCAGGACAGGAAAGTGGGCTCT-GGAATGTTCACATTTG---------------------AT-----CCCCTG
s panTro5.chr5             125235660 49 + 181907262 CAGGCAGGACAGGAAAGTGGGCTCT-GGAATGTTCACATTTG---------------------AT-----CCCCTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126572378 49 + 183735486 CAGGCAGGACAGGAAAGTGGGCTCT-GGAATGTTCACATTTG---------------------AT-----CCCCTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1764182 49 +   8933513 CAGGCAGGACAGGAAAGTGGGCTCT-GGAATGTTCACATTTG---------------------AT-----CCCCTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139898444 49 + 163208435 CAGGCAGGACAGGAAAGTGGGCTCT-GGAATGTTCACGTTTG---------------------AT-----CCCCTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122883150 49 + 180051392 CAGGCAGGACAGGAAAGTGGGCTCT-GGAATGTTCACATTTG---------------------AT-----CCCCTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124306783 49 + 181584905 CAGGCAGGACAGGAAAGTGGGCTCT-GGAATGTTCACATTTG---------------------AT-----CCCCTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16305463 49 +  18395747 CAGGCAGGACAGGAAAGTGGGCTCT-GGAATGTTCACGTTTG---------------------AT-----CCCCTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5317895 49 +  26952557 CAGGCAGGACAGGAAAGTGGGCTCT-GGAATGTTCACATTTG---------------------AT-----CCCCTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28418557 50 +  82825804 CAGGCAGGACAGGAAAGTGGGCTCT-GGAATGTTCACATTTG---------------------AT----CCCCCTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4088414 49 -   4237731 CAGGCAGGACAGGAAAGTGGGCTCT-GGAATGTTCACATTTG---------------------AT-----CCCCTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      356947 49 -   1175262 CAGGCAGGACAGGAAAGCGGGCTCT-GGAATGTTCACATTTG---------------------AT-----CCCCTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123705099 49 - 204313951 CAGGCAGGACAGGAAAGTGGGCTCT-GGAATGTTCACATTTG---------------------AT-----CCCCTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55749269 49 -  71252344 CAGGCAGGACAGGAAAGTGGGCTCT-GGAATGTTCACATTTG---------------------AT-----CCCCTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       52717 49 -   3089952 CAGGCAGGACAGGAAAGTGGGCTCT-GGAATGTTCACATTTG---------------------AT-----CCCCTG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13252992 49 -  42888418 CAGGCAGGACAGGAAAGTGGGCTCC-GGAATGTTCACATTTG---------------------AT-----CCCCTG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60590812 45 + 108143057 ----CAGGATGGAGAAGCGGGCTCT-GGAATGTTCACATCTG---------------------AT-----CCCCTT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3626426 49 +  11683526 AAGGAAGGACGGGAAAGTGGGCTCT-GGAATGTTCACATCTG---------------------AT-----CCCCTT
i proCoq1.NW_012155062v1   I 11 C 0
s otoGar3.GL873679           3116404 45 +   4132165 ----CAGGACGGGAAAGTGGGCTCT-GGAATGTTCACATCTG---------------------AT-----CCCCTT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55548278 71 +  90702639 TATTCAGGGCAGAAAAGTGGTCTCCAGAAATGTTCACTTTCACAGGCAGCTCTcccaacccccag-----cccctg
i mm10.chr18               C 0 I 41
s canFam3.chr11             14957627 49 +  74389097 ----CAGGACAGGAAAGTAAGCTCT-GGAATGTTCAAATCTG---------------------ATTGAATCCCTT-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2681359 45 +   3667625 ----CACGACTGGAAATCAGGCTGC-GGAATGTTCACATCTG---------------------AT-----CTCCTT
i dasNov3.JH567306         C 0 C 0

a score=58202.000000
s hg38.chr5_KI270796v1_alt    132031 5 +    172708 CACAT
s panTro5.chr5             125235709 5 + 181907262 CACAt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126572427 5 + 183735486 CACAt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1764231 5 +   8933513 CACAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139898493 5 + 163208435 CACAt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122883199 5 + 180051392 CACAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124306832 5 + 181584905 CACAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16305512 5 +  18395747 CACAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5317944 5 +  26952557 CACAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28418607 5 +  82825804 CACAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4088463 5 -   4237731 CACGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      356996 5 -   1175262 CACAt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123705148 5 - 204313951 CACAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55749318 5 -  71252344 CGCAt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       52766 5 -   3089952 CACAt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13253041 5 -  42888418 CACAt
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60590857 5 + 108143057 Catat
i micMur3.chr12            C 0 I 9
s proCoq1.NW_012155062v1     3626475 5 +  11683526 CATAT
i proCoq1.NW_012155062v1   C 0 I 53
s otoGar3.GL873679           3116449 3 +   4132165 GAC--
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14957676 4 +  74389097 -CCCt
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2681404 5 +   3667625 CACAG
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55548349 41 +  90702639 I

a score=-13112.000000
s hg38.chr5_KI270796v1_alt    132036 7 +    172708 TCTTTCT---
s panTro5.chr5             125235714 7 + 181907262 tctttct---
i panTro5.chr5             C 0 I 7
s panPan2.chr5             126572432 7 + 183735486 tctttct---
i panPan2.chr5             C 0 I 5
s gorGor5.CYUI01015135v1     1764236 7 +   8933513 TCTTTCT---
i gorGor5.CYUI01015135v1   C 0 I 3
s nomLeu3.chr2             139898498 7 + 163208435 tctttct---
i nomLeu3.chr2             C 0 I 3
s rheMac8.chr6             122883204 2 + 180051392 TC--------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124306837 2 + 181584905 TC--------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16305517 2 +  18395747 TC--------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5317949 2 +  26952557 TC--------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28418612 2 +  82825804 TC--------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4088468 2 -   4237731 TC--------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      357001 7 -   1175262 tcttttt---
i colAng1.NW_012119644v1   C 0 I 1
s calJac3.chr2             123705153 7 - 204313951 TCTTCTT---
i calJac3.chr2             C 0 I 2
s saiBol1.JH378106          55749323 7 -  71252344 tcttctt---
i saiBol1.JH378106         C 0 I 10
s cebCap1.NW_016107590v1       52771 7 -   3089952 tcttctt---
i cebCap1.NW_016107590v1   C 0 I 8
s aotNan1.NW_018505940v1    13253046 7 -  42888418 tcttctt---
i aotNan1.NW_018505940v1   C 0 I 8
s otoGar3.GL873679           3116452 5 +   4132165 --TTTGT---
i otoGar3.GL873679         C 0 I 3
s canFam3.chr11             14957681 5 +  74389097 --tgtgt---
i canFam3.chr11            I 1 I 3
s dasNov3.JH567306           2681409 7 +   3667625 ---ATTTGTG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60590862 9 + 108143057 I
e proCoq1.NW_012155062v1     3626480 53 +  11683526 I
e mm10.chr18                55548349 41 +  90702639 I

a score=106608.000000
s hg38.chr5_KI270796v1_alt    132043 13 +    172708 TTTTTTTTTTTCC
s panTro5.chr5             125235728 13 + 181907262 tttctttttttcc
i panTro5.chr5             I 7 C 0
s panPan2.chr5             126572444 13 + 183735486 tttttttttttCC
i panPan2.chr5             I 5 C 0
s gorGor5.CYUI01015135v1     1764246 13 +   8933513 TTTTTTTTTTTCC
i gorGor5.CYUI01015135v1   I 3 C 0
s nomLeu3.chr2             139898508 13 + 163208435 tttttttttttcc
i nomLeu3.chr2             I 3 C 0
s rheMac8.chr6             122883206 11 + 180051392 --TTTTTTTTTCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124306839 11 + 181584905 --TTTTTTTTTCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16305519 12 +  18395747 -TTTTTTTTTTCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5317951 11 +  26952557 --TTTCTTTTTCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28418614 11 +  82825804 --TTTTTTTTTCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4088470 11 -   4237731 --TTTCTTTTTCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      357009 13 -   1175262 tttttttttttCC
i colAng1.NW_012119644v1   I 1 C 0
s calJac3.chr2             123705162 13 - 204313951 TTTTTTTTTTTCC
i calJac3.chr2             I 2 C 0
s saiBol1.JH378106          55749340 13 -  71252344 tttttttttttcC
i saiBol1.JH378106         I 10 C 0
s cebCap1.NW_016107590v1       52786 13 -   3089952 tcttttttttTCC
i cebCap1.NW_016107590v1   I 8 C 0
s aotNan1.NW_018505940v1    13253061 13 -  42888418 tcttttttttTCC
i aotNan1.NW_018505940v1   I 8 C 0
s micMur3.chr12             60590871 12 + 108143057 tatatTTTTTTT-
i micMur3.chr12            I 9 I 1
s otoGar3.GL873679           3116460 12 +   4132165 TTTATTTTTTTC-
i otoGar3.GL873679         I 3 C 0
s canFam3.chr11             14957689 12 +  74389097 tgtgtgtgtgtg-
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2681416  7 +   3667625 --TGTGTGT----
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3626480 53 +  11683526 I
e mm10.chr18                55548349 41 +  90702639 I

a score=17290.000000
s hg38.chr5_KI270796v1_alt    132056 1 +    172708 T
s panTro5.chr5             125235741 1 + 181907262 t
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126572457 1 + 183735486 T
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1764259 1 +   8933513 T
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139898521 1 + 163208435 t
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122883217 1 + 180051392 T
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124306850 1 + 181584905 T
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16305531 1 +  18395747 T
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5317962 1 +  26952557 T
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28418625 1 +  82825804 T
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4088481 1 -   4237731 T
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      357022 1 -   1175262 T
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123705175 1 - 204313951 T
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55749353 1 -  71252344 T
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       52799 1 -   3089952 T
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13253074 1 -  42888418 T
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60590884 1 + 108143057 T
i micMur3.chr12            I 1 C 0
s proCoq1.NW_012155062v1     3626533 1 +  11683526 T
i proCoq1.NW_012155062v1   I 53 C 0
s otoGar3.GL873679           3116472 1 +   4132165 T
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14957701 1 +  74389097 t
i canFam3.chr11            C 0 I 13
e dasNov3.JH567306           2681423 0 +   3667625 C
e mm10.chr18                55548349 41 +  90702639 I

a score=4027856.000000
s hg38.chr5_KI270796v1_alt    132057 217 +    172708 TTGGTCTGTTGCAACTTGTCTGTGAACCATACGAAATTCAGAATAGAAACTTCCATTTTTAGAACTTGAAATCTTTTCATTTTCAT--ACACACACAAACGGAGGCAGCCAAGGCCACAGGATATCACAAGAAACATAAGTGTCTCATTGACTCTG-AAAAGACAGTGACACAAATACACTTTCACAAAATGCTCAGCTGGGTCCCAGCCTGCCACTTGG
s panTro5.chr5             125235742 217 + 181907262 tTGGTCTGTTGCAACTTGTCTGTGAACCATACGAAATTCAGAATAGAAACTTCCATTTTTAGAACTTGAAATCTTTTCATGTTCAT--ACACACACAAACGGAGGCAGCCAAGGCCACAGGATATCACAAGAAACATAAGTGTCTCATTGACTCTG-AAAAGACAGTGACACAAATACACTTTCACAAAATGCTCAGCTGGGTCCCAGCCTGCCACTTGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126572458 217 + 183735486 TTGGTCTGTTGCAACTTGTCTGTGAACCATACGAAATTCAGAATAGAAACTTCCATTTTTAGAACTTGAAATCTTTTCATGTTCAT--ACACACACAAACGGAGGCAGCCAAGGCCACAGGATATCACAAGAAACATAAGTGTCTCATTGACTCTG-AAAAGACAGTGACACAAATACACTTTCACAAAATGCTCAGCTGGGTCCCAGCCTGCCACTTGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1764260 217 +   8933513 TTGGTCTGTTGCAACTTGTCTGTGAACCATACGAAATTGAGAATAGAAACTTCCATTTTTAGAACTTGAAATCTTTTCATGTTCAT--ACACACACAAACGGAGGCAGCCAAGGCCACAGGATATCACAAGAAACATAAGTGTCTCATTGACTCTG-AAAAGACAGTGACACAAATACACTTTCACAAAATGCTCAGCTGGGTCCCAGCCTGCCACTTGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139898522 219 + 163208435 tTGGTCTGTTGCAACTTGTCTGTGAACCATACGAAATTCAGAATAGAAACTTCCATTTTTAGAACTTGAAATCTTTTCATGTTCATACACACACACAAACGGAGGCAGCCAAGGCCACAGGATATCACAAGAAACATAAGTGTCTCATTGACTCTG-AAAAGACAGTGACACAAATACACTTTCACAAAATGCTCAGCTGGGTCCCAGCCTGCCACTTGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122883218 217 + 180051392 TTGGTCTGTTGCAACTTGTCTGTGAACCATATGAAATTCAGAATAGAAACTTCCATTTTTAGAACTTGAAATCTTCTCATGTTCAT--ACACACACAAACGGAGGCAGCCAAGGCCACAGGATATCACAAGAAACATAAGTGTCTCATTGACTCTG-AAAAGACAGTGACACAAATACACTTTCACAAAATGCTCAGCTGGGTCCCAGCCCGCCACTTGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124306851 217 + 181584905 TTGGTCTGTTGCAACTTGTCTGTGAACCATATGAAATTCAGAATAGAAACTTCCATTTTTAGAACTTGAAATCTTCTCATGTTCAT--ACACACACAAACGGAGGCAGCCAAGGCCACAGGATATCACAAGAAACATAAGTGTCTCATTGACTCTG-AAAAGACAGTGACACAAATACACTTTCACAAAATGCTCAGCTGGGTCCCAGCCCGCCACTTGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16305532 217 +  18395747 TTGGTCTGTTGCAACTTGTCTGTGAACCATATGAAATTCAGAATAGAAACTTCCATTTTTAGAACTTGAAATCTTCTCATGTTCAT--ACACACACAAACGGAGGCAGCCAAGGCCACAGGATATCACAAGAAACATAAGTGTCTCATTGACTCTG-AAAAGACAGTGACACAAATACACTTTCACAAAATGCTCAGCTGGGTCCCAGCCCGCCACTTGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5317963 217 +  26952557 TTGGTCTGTTGCAACTTGTCTGTGAACCATATGAAATTCAGAATAGAAACTTCCATTTTTAGAACTTGAAATCTTCTCATGTTCAT--ACACACACAAACGGAGGCAGCCAAGGCCACAGGATATCACAAGAAACATAAGTGTCTCATTGACTCTG-AAAAGACAGTGACACAAATACACTTTCACAAAATGCTCAGCTGGGTCCCAGCCCGCCACTTGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28418626 217 +  82825804 TTGGTCTGTTGCAACTTGTCTGTGAACCATATGAAATTCAGAATAGAAACTTCCATTTTTAGAACTTGAAATCTTCTCATGTTCAT--ACACACACAAACGGAGGCAGCCAAGGCCACAGGATATCACAAGAAACATAAGTGTCTCATTGACTCTG-AAAAGACAGTGACACAAATACACTTTCACAAAATGCTCAGCTGGGTCCCAGCCCGCCACTTGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4088482 217 -   4237731 TTGGTCTGTTGCAACTTGTCTGTGAACCATATGAAATTCAGAATAGAAACTTCCATTTTTAGAACTTGAAATCTTCTCATGTTCAT--ACACACACAAATGGAGGCAGCCAAGGCCACAGGATATCACAAGAAACATAAGTGTCTCATTGACTCTG-AAAAGACAGTGACACAAATACACTTTCACAAAATGCTCAGCTGGGTCCCAGCCCGCCACTTGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      357023 217 -   1175262 TTGGTCTGTTGCAACTTGTCTGTGAACCATATGAAATTCCGAATAGAAACTTCCATTTTTAGAACTTGAAATCTTCTCATGTTCAT--ACACACACAAACGGAGGCAGCCAAGGCCACGGGATATCACAAGAAACATAAGTGTCTCATTGACTCTG-AAAAGACAGTGACACAAATACACTTTCACAAAATGCTCAGCTGGGTCCCAGCCCGCCACTTGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123705176 217 - 204313951 TTGGTCTGTTTCAACTTGTCTGTGAACCATATGAAATTCAGAATAGAAACTTCCATTTTTAGAACGTGAAATCTTTTCATGTTCAT--ACACACACAAACGGAGGCAGCCAAGGCCACGGGATATCACAAAAAACATAAGTGTCTCATTGACTCTG-AAAAGACAGTGACACAAATACACTTTCACAAAATGCTCAGCTGGGTCCCAGCCCGTCACTTGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55749354 217 -  71252344 TTGGTCTGTTTCAACTTGTCTGTGAACCATATGAAATTCAGAATAGAAACTTCCATTTTTAGAACGTGAAATCTTTTCATGTTCAT--ACACACACAAACGGAGGCAGCCAAGGCCATGGGATATCACAAGAAACGTAAGTGTCTCATTGACTCTG-AAAAGACAGTGACACAAATACACTTTCACAAAATGCTCAGCTGGGTCCCAGCCCGCCACTTGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       52800 217 -   3089952 TTAGTCTGTTTCAACGTGTCTGTGAACCATATGAAATTCAGAATAGAAACTTCCATTTTTAGAACGTGAAATCTTTTCATGTTCAT--ACACACACAAACGGAGGCAGCCAAGGCCACGGGATATCACAAGAAACATAAGTGTCTCATTGACTCTG-AAAAGACAGTGACACAAATACACTTTCACAAAATGCTCAGCTGGGTCCCAGCCCGCCACTTGG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13253075 217 -  42888418 TTGGTCTGTTTCAACTTGTCTGTGAACCATATGAAATTCAGAATAGAAACTTCCATTTTTAGAACGTGAAATCTTTTCATGTTCAT--ACACACACAAACGGAGGCAGCCAAGGCCACGGGATATCACAAGAAACATAAGTGTCTCATTGACTCTG-AAAAGATAGTGACACAAATACACTTTCACAAAATGCTCAGCTGGGTCCCAGCCCGCCACTTGG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60590885 218 + 108143057 TTGGTCTGTTTCAACTTCTCTGTGAACCATATGAAATTCAGAATAGAAACTTCCATTTTTAGAACTTGAAATCGTTTCATGCTCAT--ACACACACAAACTGAGGCAGCCAAGGCCACGGGATATCACAAGAAACATAAGTGTCTCATTGACTCTGAAAAAGACAGTGACACAAATACACTTGAACAAACTGCTCAGCTGGGGCCCAGCCCTCCGCCTGG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3626534 217 +  11683526 TTGGTCTGTTTCAACTTCTCTGTGAACCATATGAAATTCAGAATAGAAACTTCCATATTTAGAACTTGAAGTCTTTTCATGTTCAT--ACACACACAAACTGAGGCAGCCAAGGCCACCGGATATCACAAGAAACACAAGTGTCTCATTGACTCTG-AAAATACACTTTAACAAATACACTTTAACGAAATGCTCAGCTGGGGCCCAGCCCGCCGCCTGG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3116473 216 +   4132165 GCTGTCTGTTTCAACTTGTCTGTGAACCATATGAAATTCAGAATAGAAACTTCCATTTTTAGAACTTGAAATCTTTTCATGTTCAT--ACACACACAAACTGAGACAGCCAAGGCCACGGGATATCACAAGAAACATAAGTGTCTCATTGACTCTG-AGAAGACAGTGACACAAATACACTTTAACAAAATGCTCAGCTGGGTCCCAG-CCGCTGCTCGG
i otoGar3.GL873679         C 0 M 754
s mm10.chr18                55548390 162 +  90702639 cTGATCTGTTTCAACTTCTCTGTGAACCATATGAAATTCAGAACAGCAACTTCCATTTTTAGAACTTGAAGTCTTTTCATGTGCGC--------------------------------------------------------CCGCATGGGTTCCA-AGAAAACAGTGATACAAACACACTTAAGCAAAATGCTCCACTGAGTTCTAACCCTGGCTCTG-
i mm10.chr18               I 41 C 0
s canFam3.chr11             14957715 217 +  74389097 tgtgtctgtTTCAACTTGTCTGTGAACCATATGAAATTCAAAACAGAAACTTCCATTTTTAGAACTTGAAATCCTTTCATGTTCAT--ACACACACAAACTGAGGCAGCCAAGGCCACAGGATGTCACGAGAAACATAAGTGTCTCATTGAGTCTG-CAAAGGCAGTGACACAAATTCACTCTAACAAAATGCTCAGCTGGGTCCCAGCCTACCACGTGG
i canFam3.chr11            I 13 C 0
s dasNov3.JH567306           2681423 205 +   3667625 ---GTCTGTTTCAACTTGTC---------TATGAAATTCAGAACAGAGGCCTCCATTTTTAGAACTCAAAATCTTTTCATGTTCAT--ACACACACAAACGGAGGCAGCCAAGGCCACAGGATGTCAGGAGAACCGTCTGTGTCTCATTGAATCCA-AAAAGGCAATGACACAAATACACTTGAACAAAATGCTCGGCTGGGTCTGGGCCCACCACTTGG
i dasNov3.JH567306         C 0 C 0

a score=3427239.000000
s hg38.chr5_KI270796v1_alt    132274 216 +    172708 CCCTTTCTCCCACTCCTCCG-TTTCATTGCATTGAAGGAAGAGACATGCACTGTGTTTCCTCCTCAGGTTTTAGTAATTAAAACAATATTGTAGCTCTTTGAAGTTTTATTTGGAAATATACTGCGCTTTGTTCCCTCCAATGCTGCCTGGCT-CACACA----GCCT---ATTTGGCGCATTTGGCATCTCTTTATCCA--AGGGAAGCGCTTTTCCCGGGGTTGG
s panTro5.chr5             125235959 216 + 181907262 CCCTTTCTCCCACTCCTCCG-TTTCATTGCATTGAAGGAGGAGACATGCACTGTGTTTCCTCCTCAGGTTTTAGTAATTAAAACAATATTGTAGCTCTTTGAAGTTTTATTTGGAAATATACTGCGCTTTGTTCCCTCCAATGCTGCCTGGCT-CACATA----GCCT---ATTTGGCGCATTTGGCATCTCTTTATCCA--AGGGAAGCGCTTTTCCCGGGGTTGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126572675 216 + 183735486 CCCTTTCTCCCACTCCTCCG-TTTCATTGCATTGAAGGAGGAGACATGCACTGTGTTTCCTCCTCAGGTTTTAGTAATTAAAACAATATTGTAGCTCTTTGAAGTTTTATTTGGAAATATACTGCGCTTTGTTCCCTCCAATGCTGCCTGGCT-CACACA----GCCT---ATTTGGCGCATTTGGCATCTCTTTATCCA--AGGGAAGCGCTTTTCCCGGGGTTGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1764477 216 +   8933513 CCCTTTCTCCCACTCCTCCG-TTTCATTGCATTGAAGGAAGAGACATGCACTGTGTTTCCTCCTCAGGTTTTAGTAATTAAAACAATATTGTAGCTCTTTGAAGTTTTATTTGGAAATATACTGCGCTTTGTTCCCTCCAATGCTGCCTGGCT-CACACA----GCCT---ATTTGGCACATTTGGCATCTCTTTATCCA--AAGGAAGCGCTTTTCCCGGGGTTGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139898741 214 + 163208435 CCCTTTCTCCCACTCCTCCG-TCTTATTGCATTGCAGGAAGAGACATGCAC--TGTTTCCTCCTCAGGTTTTAGTAATTAAAACAATATTGTAGCTCTTTGAAGTTTTATTTGGAAATATACTGCGCTTTGTTCCCTCCAATGCTGCCTGGCT-CACACA----GCCT---ATTTGGCGCATTTGGCATCTCTTTAACCA--AGGGAAGCGCTTTTCCCGGGGTTGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122883435 216 + 180051392 CCCTTTCTCCCACTCCTCCG-TTTTATTGCATTGCAGGAAGAGACATGCACTGTGTTTCCTCCTCAGGTTTTAGTAATTAAAACAATATTGTAGCTCTTTGAAGTTTTATTTGGAAATATACTGCGCTTTGTTCCCTCCAATCCTGCCTGGCT-CACACA----GCCT---ATTTGGCGCATTTGGCATCTCTTTATCCA--AGGAAAGCGCTTTTCCCCGGGTTGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124307068 216 + 181584905 CCCTTTCTCCCACTCCTCCG-TTTTATTGCATTGCAGGAAGAGACATGCACTGTGTTTCCTCCTCAGGTTTTAGTAATTAAAACAATATTGTAGCTCTTTGAAGTTTTATTTGGAAATATACTGCGCTTTGTTCCCTCCAATCCTGCCTGGCT-CACACA----GCCT---ATTTGGCGCATTTGGCATCTCTTTATCCA--AGGAAAGCGCTTTTCCCCGGGTTGG
i macFas5.chr6             C 0 I 4
s macNem1.NW_012012355v1    16305749 216 +  18395747 CCCTTTCTCCCACTCCTCCG-TTTTATTGCATTGCAGGAAGAGACATGCACTGTGTTTCCTCCTCAGGTTTTAGTAATTAAAACAATATTGTAGCTCTTTGAAGTTTTATTTGGAAATATACTGCGCTTTGTTCCCTCCAATCCTGCCTGGCT-CACACA----GCCT---ATTTGGCGCATTTGGCATCTCTTTATCCA--AGGAAAGCGCTTTTCCCCGGGTTGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5318180 216 +  26952557 CCCTTTCTCCCACTCCTCCG-TTTTATTGCATTGCAGGAAGAGACATGCACTGTGTTTCCTCCTCAGGTTTTAGTAATTAAAACAATATTGTAGCTCTTTGAAGTTTTATTTGGAAATATACTGCGCTTTGTTCCCTCCAATCCTGCCTGGCT-CACACA----GCCT---ATTTGGCGCATTTGGCATCTCTTTATCCA--AGGAAAGCGCTTTTCCCCGGGTTGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28418843 216 +  82825804 CCCTTTCTCCCACTCCTCCG-TTTTATTGCATTGCAGGAAGAGACATGCACTGTGTTTCCTCCTCAGGTTTTGGTAATTAAAACAATATTGTAGCTCTTTGAAGTTTTATTTGGAAATATACTGCGCTTTGTTCCCTCCAATCCTGCCTGGCT-CACACA----GCCT---ATTTGGCGCATTTGGCATCTCTTTATCCA--AGGAAAGCGCTTTTCCCCGGGTTGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4088699 216 -   4237731 CCCTTTCTCCCACTCCTCCG-TTTTATTGCATTGCAGGAAGAGACATGCACTGTGTTTCCTCCTCAGGTTTTAGTAATTAAAACAATATTGTAGCTCTTTGAAGTTTTATTTGGAAATATACTGCGCTTTGTTCCCTCCAATCCTGCCTGGCT-CACACA----GCCT---ATTTGGCGCATTTGGCATCTCTTTATCCA--AGGAAAGCGCTTTTCCGCGGGTTGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      357240 216 -   1175262 CCCTTTCTCCCGCTCCTCCG-TTTTATTGCATTGCAGGAAGAGACATGCACTGTGTTTCCTCCTCAGGTTTTAGTAATTAAAACAATATTGTAGCTCTTTGAAGTTTTATTTGGAAATATACTGTGCTTTGTTCCCTCCAATGCTGCCTGGCT-CACACA----GCCT---ATTTGGCGCATTTGGCATCTCTTTATTTA--AGGGAAGCGCTTTTCCCCGGGTTGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123705393 216 - 204313951 CCCTTTCTCCCACTCCTCGG-TTTTATTGCATTGCAGAAAGAGACATGCACTGTGTTTCCTCCTCAGGTTTTAGTAATTAAAACAATATTGTAGCTCTTTGAAGTTTTATTTGGAAATATACGACACTTTGTTCCCTCCATTGCTGCCTGGCT-CACACA----GCCT---ATTTGGCACATTTGGCATCTCTTTATCCA--AGGGAAGTGCTTTCCCCAGGGTTGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55749571 207 -  71252344 CCCTTTCTCCCACTCCTCCG-TTTTATTGCATTGCAGAAAGAGACATGCCCTGTGTTTCCTCCTCAGGTTTTAGTAATTAAAACAATATTGTAGCGCTTTGAAGTTTTATTTGGTAATATAATGCACTTTGTTCGCTCCAATGCTGCCTGGCT-CACACA----GCCT------------ATTTGGCATCTCTTTATCCA--AGGGAAGTGCTTTCCCCAGGGTTGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       53017 207 -   3089952 CCCTTTCTCCCACTCCTCCG-TTTTATTGCATTGCAGAAAGAGACATGCACAGTGTATCCTCCTCAGGTTTTAGTAATTAAAACAATATTGTAGCTCTTTGAAGTTTTATTTGGAAATATACTGCACTTTGTTCCCTCCAATGCTGCCTAGCT-CATACA----GCCT------------ATTTGGCATCTCTTTATCCA--AGGGAAATGCTTTCCCCAGGGTTGG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13253292 216 -  42888418 CCCTTTCTCCCACTCCTCCG-TTTTATTGCATTGCAGGAAGAGACATGCACTGTGTTTCCTCCTCAGGTTTTAGTAATTAAAACAATATTGTAGCTCTTTGAAGTTTTATTTGGAAATATACTGCACTTTGTTCCCTCCAATGCTGCCTGGCT-CACACA----GCCT---ATTTGGCGCATTTGGCATCTCTTTATCCA--AGGGAAGTGCTTTCCCCTGGGTTGG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60591103 220 + 108143057 CCCTCCCTCCCCCTCCTCCG-TTTTAGTGCTTTGCAGGAAGAGGCAGACACTGTGTTTCCTCCTCAGGTTTTCCTAATTAAAACAGTATTGTAGCTCTGTGAAATTTTATTTGGAAATAGAGTGCGCTTTGTTCCCTACAATGCTGACTGGCG-CATACAGCCTGCCT---GTTTGACTCATTTGGCATGTCCTTATCCA--AGGGGAGTGCCTTTCCTGGGGCTGG
i micMur3.chr12            C 0 I 53
s proCoq1.NW_012155062v1     3626751 213 +  11683526 ----CCCGCCCCCTCCGCCGCTTTCAGTGCTTTGCATGAAGAGACAGGCACTGTGTTTCCTCCTCAGGTTTTCGTAATTAAAACAATATTGCAGCTCTGTGAAATTTTATTTGGAAATAGAGCACGCTTTGTTCCCTACGATGCTGACTGGCG-CACACA----GCCT---ATTTGACTCATTTGGCATCTCTTTATCCA--AGGGGAGTGCTTTTCCTGGGGTTGa
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55548552 210 +  90702639 -CCCTCCTTCCCCTCCTCTT-GTTTACTACACTGCAGGAAGAGACCTGCCCTGGGTTTCCTCTTCAGGTTGTGGTAATTAAAACAGTATTGGAA--CTGTGGGATTTTGTTTGGAAATACACGGTGCTTTGTGCTTTCCAAGGCTGATTGGTT-CACACA----GCCT---GTTGGATTCATTTGGCAGCTTCTTATATACGAGGGAAGAG-----CCTAAGGTTGA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14957932 219 +  74389097 CCCTCCCTCCCACTCCTCGG-TTTTATTGCAGCGCAGGAAGAGACACGCACTCTGTTTCCTCCTCAGGTTTTAGGAATTAAAACAACACTGTCGCTCTGCAGAATTTTATTTGGAAATGCACCGCGCTTTGTTCCCTACAACGCTGACTGCTTGCACACA----GCCTTTTTTTTGGCTCATTTGGCATCT-TTTATCAG--AGGGAAGCACTCTTCCCGGGGTTGG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2681628 215 +   3667625 CCCTCCCTCCCACTCCTCGG-TTTTATTGCATTGCAAGAAGAGACACTTACTGTGTTCCCTCCTCAGGTTTTAGTAATTAAAACTATATTGAAGCTCTGTGAAATTTTATTTGGAAATGTACCGTGCTTTGCTCTCTGTAATGCCGACAGCCA-CACACA----ACCT---GTTTGGCTC-TTAGGCATCTCTTTATCCA--AGGGAAGCGTTTTTCACAGGACTGG
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3116689 754 +   4132165 M

a score=-20459.000000
s hg38.chr5_KI270796v1_alt    132490 18 +    172708 TA-------------------------TTTTTTTT--------------------TTT-----------------------------------------------------TTCTT-
s panTro5.chr5             125236175 19 + 181907262 TA------------------------TTTTTTTTT--------------------TTT-----------------------------------------------------TTCTT-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126572891 15 + 183735486 TA----------------------------TTTTT--------------------TTT-----------------------------------------------------TTCTT-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1764693 20 +   8933513 TA-----------------------TTTTTTTTTT--------------------TTT-----------------------------------------------------TTCTT-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139898955 15 + 163208435 TA----------------------------TTTTT--------------------TTT-----------------------------------------------------TTCTT-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122883651 31 + 180051392 --------------------------------TTTNNNNNNNNNNNNNNNNNNNNTTT-----------------------------------------------------TTCTT-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124307288 20 + 181584905 tt-----------------------tttttttttt--------------------ttt-----------------------------------------------------ttctt-
i macFas5.chr6             I 4 C 0
s macNem1.NW_012012355v1    16305965 19 +  18395747 -t-----------------------tttttttttt--------------------ttt-----------------------------------------------------ttctt-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5318396 17 +  26952557 --------------------------TTTTTTTTT--------------------TTT-----------------------------------------------------TTCTT-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28419059 13 +  82825804 ------------------------------TTTTT--------------------TTT-----------------------------------------------------TTCTT-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4088915 18 -   4237731 -------------------------TTTTTTTTTT--------------------TTT-----------------------------------------------------TTCTT-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      357456 20 -   1175262 tt-----------------------tttttttttt--------------------ttt-----------------------------------------------------ttctt-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123705609 40 - 204313951 TG---tttttttcttttcttttcttttcttttttt--------------------ttt-----------------------------------------------------ttttT-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55749778 43 -  71252344 TGGtttttttttttttttttttttttttttttttt--------------------ttt-----------------------------------------------------ttttt-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       53224 28 -   3089952 ---------------tttttttttttttttttttt--------------------ttt-----------------------------------------------------ttttt-
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13253508 18 -  42888418 TA-------------------------TTTTTTTT--------------------TTT-----------------------------------------------------TTTCT-
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3626964 81 +  11683526 ---------------tatatacatacatatatata--------------------tataCANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTATTT-
i proCoq1.NW_012155062v1   C 0 I 1
s mm10.chr18                55548762 13 +  90702639 -------------------------------------------------------------------------------------------------------AATAGATATACTT-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14958151 18 +  74389097 -------------------------TGTTTTTTTT--------------------TGT-----------------------------------------------------TTTTT-
i canFam3.chr11            C 0 I 11
s dasNov3.JH567306           2681843  9 +   3667625 -------------------------------------------------------TAT-----------------------------------------------------TTCTTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60591323 53 + 108143057 I
e otoGar3.GL873679           3116689 754 +   4132165 M

a score=8689767.000000
s hg38.chr5_KI270796v1_alt    132508 512 +    172708 GGCATCACAGCATTGAAGA-AGGCACAGAGGAGTGAGAAAATGAAAG--------------------------------------T--------CCCCCT---------------------------------------------TAACAAAGGATTGAGCTGTGACTTCTTAAGAGAAAAGGTTAAATTGACTGGCTGCGTGTCTTGGAGTGAAAC-AGG-AGAAGGGCTG-----CTTCCC-TTTTTACTCACCGCCAGTCAGAATAATTCATTTCCTAAGGCAGCCTACCTGTGAC-AGTCACAGGTGACCTCCCAGCCTGCTAAGCTCGGATGATTTCCCCTTCCCATTGCCCGAGTGCAGCTCCTGCCAGAAGACAAATGTACTGCAAGTCGAAGACATATCTGTAGTGCGGAGGAAAAGCAGCCTGTCTACATATGTCATTTTAAAGCCT--CGCA---CGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACAGTACAGGCAAGTTCCCCAGACTCCCAAGCGTTTCTCTCCCATTAGGAGACATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCTATTGGCCT-AAATG
s panTro5.chr5             125236194 512 + 181907262 GGCATCACAGCATTGAAGA-AGGCACAGAGGAGTGAGAAAATGAAAG--------------------------------------T--------CCCCCT---------------------------------------------TAACAAAGGATTGAGCTATGACTTCTTAAGAGAAAAGGTTAAATTGACTGGCTGTGTGTCTTGGAGTGAAAC-AGG-AGAAGGGCTG-----CTTCCC-TTTTTACTCACCGCCAGTTAGAATAATTCATTTCCTAAGGCAGCCTACCTGTGAC-AGTCACAGGTGACCTCCCAGCCTGCTAAGCTCGGATGATTTCCCCTTCCCATTGCCCGAGTGCAGCTCCTGCCAGAAGACAAATGTACTGCAAGCCGAAGACATATCTGTAGTGCGGAGGAAAAGCAGCCTGTCTACATATGTCATTTTAAAGCCT--CGCA---CGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACAGTACAGGCAAGTTCCCCAGACTCCCAAGCGTTTCTCTCCCATTAGGAGACATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCTATTGGACT-AAATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126572906 512 + 183735486 GGCATCACAGCATTGAAGA-AGGCACAGAGGAGTGAGAAAATGAAAG--------------------------------------T--------CCCCCT---------------------------------------------TAACAAAGGATTGAGCTATGACTTCTTAAGAGAAAAGGTTAAATTGACTGGCTGTGTGTCTTGGAGTGAAAC-AGG-AGAAGGGCTG-----CTTCCC-TTTTTACTCACCGCCAGTTAGAATAATTCATTTCCTAAGGCAGCCTACCTGTGAC-AGTCACAGGTGACCTCCCAGCCTGCTAAGCTCGGATGATTTCCCCTTCCCATTGCCCGAGTGCAGCTCCTGCCAGAAGACAAATGTACTGCAAGCCGAAGACATATCTGTAGTGCGGAGGAAAAGCAGCCTGTCTACATATGTCATTTTAAAGCCT--CGCA---CGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACAGTACAGGCAAGTTCCCCAGACTCCCAAGCGTTTCTCTCCCATTAGGAGACATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCTATTGGACT-AAATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1764713 510 +   8933513 GGCATCACAGCATTGAAGA-AGGCACAGAGGAGTGAGAAAATGAAAG--------------------------------------T---------CCCCT---------------------------------------------TAACAAAGGACTGAGCTGTGACTTCTTAAGAGAAAAGGTTAAATTGGCTGGCTGTGTGTCTTGGAGTGAAAC-AGG-AGAAGGGCTG-----CTTCCC-TTTTTACTCACCGCCAGTTAGAATAATTCATTTCCTAAGGCAGCCTACCTGTGAC-AGTCACAGGTGACCTCCCAGCCTGCTAAGCTCAGATGATTTCCCCTTCCCATTGCCCGAGTGCAGCTCCTGCCAGAAGACAAATGTACTGCAAGCCGAAGACATATCTGTAGTGCGGAGGAAAAGCAGCCTGTCTACATATGTCATTTTAAAGCCT--CGCA---CGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACAGTACAGGCAAGTTCCCCAGACTCCCAAGCGTTTCTCT-CCATTAGGAGACATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCTATTGGCCT-AAATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139898970 512 + 163208435 GGCATCACAGCATTGAAGA-AGGCACAGAGGAGTGAGGAAATGAAAG--------------------------------------T--------CCCCCG---------------------------------------------TAACAAAGGATTGAGCTGTGACTTCTTAAGAGAAAAGGTTAAATCGACCGGCTGTGTGTCTTGGAGTGAAAC-AGG-AGAAGGGCTG-----CTTCCC-TTTTTACTCACCGCCAGTTAGAATAATTCATTTCCTAAGGCAGCCTACCTGTGAC-AGTCACAGGTGACCTCCCAGCCTGCTAAGCTCGGATGATTTCCCCTTCCCATTGCCCGAGTGCAGCTCCTGCCAGAAGACAAATGTACTGCAAGCCGAAGACATATCTGTAGTGCGGAGGAAAAGCAGCCTGTCTACATATGTCATTTTAAAGCCT--TGCA---CGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACAGTACAGGCAAGTTCCCCAGACTCCCAGGCGTTTCTCTCCCATTAGGAGACATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCTAGTGGCCT-AAATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122883682 510 + 180051392 GGCATCATAGCATTGAAGA-AGGCACAGAGGAGTGAGAAAATGAAAG--------------------------------------T--------CCCCCT---------------------------------------------TAACAAAGGATTGAGCTGTGACTTCTTAAGAGAAAAGGTTAAATCGACCGGCTGTGTGTCTTGGAGTGAAAC-AGG-AGAAGGGCTG-----CTTCCC-TTTTTACTCACCGCCAGTTAGAATAATTCATTTCCTAAGGCAGCCTACCTGTGAC-AGTCACAGGTGACCTCCCAGCCTGCTAAGCTCGGATGATTTCCCCTTCCCATTGCCTGAGTGCAACTCCTGCCAGAAGACAAATGTACTGCAAGCCGAAGACATATCTGTAGTGCGGAGGAAAAGCAGCCTGTCTACATATGTCATTTTAAAGCCT--CGCA---TGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACAGTACAGGCAAGTTCCCCAGACTCCCAAGCATTTCTC--CCATTAGGAGACATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCTATTGGCCT-AAATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124307308 510 + 181584905 GGCATCATAGCATTGAAGA-AGGCACAGAGGAGTGAGAAAATGAAAG--------------------------------------T--------CCCCCT---------------------------------------------TAACAAAGGATTGAGCTGTGACTTCTTAAGAGAAAAGGTTAAATCGACCGGCTGTGTGTCTTGGAGTGAAAC-AGG-AGAAGGGCTG-----CTTCCC-TTTTTACTCACCGCCAGTTAGAATAATTCATTTCCTAAGGCAGCCTACCTGTGAC-AGTCACAGGTGACCTCCCAGCCTGCTAAGCTCGGATGATTTCCCCTTCCCATTGCCTGAGTGCAACTCCTGCCAGAAGACAAATGTACTGCAAGCCGAAGACATATCTGTAGTGCGGAGGAAAAGCAGCCTGTCTACATATGTCATTTTAAAGCCT--CGCA---TGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACAGTACAGGCAAGTTCCCCAGACTCCCAAGCATTTCTC--CCATTAGGAGACATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCTATTGGCCT-AAATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16305984 510 +  18395747 GGCATCATAGCATTGAAGA-AGGCACAGAGGAGTGAGAAAATGAAAG--------------------------------------T--------CCCCCT---------------------------------------------TAACAAAGGATTGAGCTGTGACTTCTTAAGAGAAAAGGTTAAATCGACCGGCTGTGTGTCTTGGAGTGAAAC-AGG-AGAAGGGCTG-----CTTCCC-TTTTTACTCACCGCCAGTTAGAATAATTCATTTCCTAAGGCAGCCTACCTGTGAC-AGTCACAGGTGACCTCCCAGCCTGCTAAGCTCGGATGATTTCCCCTTCCCGTTGCCTGAGTGCAACTCCTGCCAGAAGACAAATGTACTGCAAGCCGAAGACATATCTGTAGTGCGGAGGAAAAGCAGCCTGTCTACATATGTCATTTTAAAGCCT--CGCA---TGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACGCAGTACAGGCAAGTTCCCCAGACTCCCAAGCATTTCTC--CCATTAGGAGACATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCTATTGGCCT-AAATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5318413 510 +  26952557 GGCATCACAGCATTGAAGA-AGGCACAGAGGAGTGAGAAAATGAAAG--------------------------------------T--------CCCCCT---------------------------------------------TAACAAAGGATTGAGCTGTGACTTCTTAAGAGAAAAGGTTAAATCGACCGGCTGTGTGTCTTGGAGTGAAAC-GGG-AGAAGGGCTG-----CTTCCC-TTTTTACTCACCGCCAGTTAGAATAATTCATTTCCTAAGGCAGCCTACCTGTGAC-AGTCACAGGTGACCTCCCAGCCTGCTAAGCTCGGATGATTTCCCCTTCCCATTGCCCGAGTGCAACTCCTGCCAGAAGACAAATGTACTGCAAGCCGAAGACATATCTGTAGTGCGGAGGAAAAGCAGCCTGTCTACATATGTCATTTTAAAGCCT--CGCA---TGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACAGTACAGGCAAGTTCCCCAGACTCCCAAGCATTTCTC--CCATTAGGAGACATTTT-AAAACAAATTAGCACCCTTCCCAAAAGCCTATTGGCCT-AAATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28419072 510 +  82825804 GGCATCACAGCATTGAAGA-AGGCACAGAGGAGTGAGAAAATGAAAG--------------------------------------T--------CTCCCT---------------------------------------------TAACAAAGGATTGAGCTGTGACTTCTTAAGAGAAAAGGTTAAATCGACCGGCTGTGTGTCTTGGAGTGAAAC-AGG-AGAAGGGCTG-----CTTCCC-TTTTTACTCACCGCCAGTTAGAATAATTCATTTCCTAAGGCAGCCTACCTGTGAC-AGTCACAGGTGACCTCCCAGCCTGCTAAGCTCGGATGATTTCCCCTTCCCATTGCCCGAGTGCAACTCCTGCCAGAAGACAAATGTACTGCAAGCCGAAGACATATCTGTAGTGCGGAGGAAAAGCAGCCTGTCTACATATGTCATTTTAAAGCCT--CGCA---TGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACAGTACAGGCAAGTTCCCCAGACTCCCAAGCATTTCTC--CCATTAGGAGACATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCTATTGGCCT-AAATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4088933 510 -   4237731 GGCATCACAGCATTGAAGA-AGGCACAGAGGAGTGAGAAAATGAAAG--------------------------------------T--------CCCCCT---------------------------------------------TAACAAAGGATTGAGCTGTGACTTCTTAAGAGAAAAGGTTAAATCGACCGGCTGTGTGTCTTGGAGTGAAAC-AGG-AGAAGGGCTG-----CTTCCC-TTTTTACTCACCGCCAGTTAGAATAATTCATTTCCTAAGGCAGCCTACCTGTGAC-AGTCACAGGTGACCTCCCAGCCTGCTAAGCTCGGATGATTTCCCCTTCCCATTGCCCGAGTGCAACTCCTGCCAGAAGACAAATGTACTGCAAGCCGAAGACATATCTGTGGTGCGGAGGAAAAGCAGCCTGTCTACATATGTCATTTTAAAGCCT--CGCA---TGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACAGTACAGGCAAGTTCCCCAGACTCCCAAGCATTTCTC--CCATTAGGAGACATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCTATTGGCCT-AAATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      357476 510 -   1175262 GGCATCGCAGCATTGAAGA-AGGCACAGAGGAGTGAGAAAATGAAAG--------------------------------------T--------CCCCCT---------------------------------------------TAACAAAGGATTGAGCTGTGACTTCTTAAGAGAAAAGGTTAAATCGACCGGCTGTGTGTCTTGGAGTGAAAC-AGG-AGAAGGGCTG-----CTTCCC-TTTTTACTCATCGCCAGTTGGAATAATTCGTTTCCTAAGGCAGCCTACCTGTGAC-AGTGACAGGTGACCTCCCAGCCTGCTAAGCTCGGATGATTTCCCCTTCCCATTGCCCGAGTGCAACTCCTGCCAGAAGACAAATGTACTGCAAGCCGAAGACATATCTGTAGTGCGGAGGAAAAGCAGCCTGTCTACATATGTCATTTTAAAGCCT--CGCA---CGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACAGTACAGGCAAGTTCCCCAGACTCCCAAGCATTTCTC--CCATTAGGAGACATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCTAGTGGCCT-AAATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123705649 509 - 204313951 GGCATCACAGCATTGAAGA-AGACACAGAGGAGTGAGAAAATGAAAG--------------------------------------T--------CCCCCT---------------------------------------------TAACAAAGGATTGAGCTGTGACTTCTTAAGAGAAAAGGTTAAATCGACCGGCTGTGTGTCTTGGAGTGAAAC-----AGAAGGGCTG-----CTTCCC-TTTTTACTCACCGCCAGTTAGAATAATTCATTTCCTAAGGCAGCCTACCTGTGAC-AGTCACAGGTGACCTCCCAGCCTGCTAAGCTCGAATGATTTCCCCTTCCCATTGCCCGAGTGCAACTCCTGCCAGAAGACAAATGTACTGCAAGCCGAAGACGTATCTGTAGTGCGGAGGAAAAGCAGCCTGTCTACATATGTCATTTTAAAGCCT--CGCT---CGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACAGTACAGGCAAGTTCCCCAGACTCCCAAGCGTTTCTCTCCCATTAGGAGACATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCTATTGGCCT-AAATG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55749821 510 -  71252344 GGCATCACAGCATTGAAGA-AGACACAGAGTAGCTAGAAAATGAAAG--------------------------------------T--------CCCCCT---------------------------------------------TAACAAAGGATTGAGCTGTGACTTCTTAAGAGAAAAGGTTAAATCGACCGGCTGTGTGTCTTGGAGTGAAAC-----AGAAGGGCTG-----CTTCCCTTTTTTACTCACCGCCAGTTAGAATAATTCATTTCCTAAGGCAGCCTACCTGTGAC-AGTCACAGGTGACCTCCCAGCCTGCTAAGCTCGAATGATTTCCCCTTCCCATTGCCCGAGTGCAACTCCTGCCAGAAGACAAATGTACTGCAAGCCGAAGACATATCTGTAGTGTGGAGGAAAAGCAGCCTGTCTACATATGTCATTTTAAAGCCT--CGCT---CGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACAGTACAGGCAACTTCCTCAGACTCCCAAGCGTTTCTCTCCCATTAGGAGACATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCTATTGGCCT-AAATG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       53252 511 -   3089952 GGCATCACAGCCTTGAAGA-AGACACAGAGTAGCAAGAAAATGAAAG--------------------------------------T--------CCCCCT---------------------------------------------TAACAAAGGATTGAGCTGTGACTTCTTAAGAGAAAAGGTGAAATCGACCGGCTGTGTGTCTTGGAGTGAAAC-----AGAAGGGCTG-----CTTCCC-TTTTTACTCACCGCCAGTTAGAATAATTCATTTCCTAAGGCAGCCTACCTGTGAC-AGTCACAGGTGACCTCCCAGCCTGCTAAGCTCGAATGATTTCCCCTTCCCATTGCCCGAGTGCAACTCCTGCCAGAAGACAAATGTACTGCAAGCCGAAGACATATCTGTAGTGCGGAGGAAAAGCAGCCTGTCTACATATGTCATTTTAAAGCCTCGCGCG---CGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACAGTACAGGCAAGTTCCCCAGACTCCCAAGCATTTCTCTCCCATTAGGAGACATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCTATTGGCCT-AAATG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13253526 509 -  42888418 GGCATCACAGCATTAAAGA-AGACACAGAGGAGTGAGAAAATGAAAG--------------------------------------T--------CCCCCT---------------------------------------------TAACAAAGGATTGAGCTGTGACTTCTTAAGAGAAAAGGTTAAATCGACCGGCTGTGTGTCTTGGAGTGAAAC-----AGAAGGGCTG-----CTTCCC-TTTTTACTCACCGCCAGTTAGAATAATTCATTTCCTAAGGCAGCCTACCTGTGAC-AGTCACAGGTGACCTCCCAGCCTGCTAAGCTCGAATGATTTCCCCTTCCCATTGCCCGAGTGCAACTCCTGCCAGAAGACAAATGTACTGCAAGCCGAAGACATATCTGTAGTGCGGAGGAAAAGCAGCCTGTCTACATATGTCATTTTAAAGCCT--CGCG---CGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACGGTACAGGCAAGTTCCCCAGACTCCCAAGCGTTTCTCTCCCATTAGGAGACATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCTATTGGCCT-AAATG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60591376 509 + 108143057 GGCTTCACAACATTGAAGA-AGCCACAGAGGAGTGAGAAAATGAAAG--------------------------------------T--------CCCCCC---------------------------------------------TAACAAAGGATTGAGCTGTGACTTCTTCTGAGAAAAGGTTAAATTGACTGGCTGTGTGTCTTGGAGTGAAAC-AGG-AGAAGGGCCT-----CTTCCC-TTTTGACTCA--GCCAGTTAGAATAATTCATTTCCTAAGGCAGGCTACCTGTGAC-AGTCACAGGTGACCT-CCCGCCTGCTAAGCTCGGGTGGTTTCCCCTTCCCATTGCCCAAGTACAACTCCCGCCAGAAGACAAATGTACTGCTAGCCGGAGACATATCTGTAGTGCAGAGGAAAAGCAGCCTGCCTACATCTGTCATTTTAAAGCCT--CGCT---CGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACAGTACAGGCAAGTTCCGCAGACTCCCAAGCCTTTCTCTTCCATTAGGAGGCATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCTATGGGCCT-AAATG
i micMur3.chr12            I 53 C 0
s proCoq1.NW_012155062v1     3627046 491 +  11683526 GGCTTCACAACATTGAAGA-AGCCACAGAGGAGTGAGAAAATGAAAG--------------------------------------T--------CCCCCC----------------------------------------------AACAAAGGATTGAGCTGTGACTTCTTCTGAGAAAAGGTTAAATCGACCGGCTGTGTGTCTTGGAGTGAAAC-AGG-AGAAGGGCCT-----CTTCCC-TTTTGACTGA--GCCAGTTAGAATAATTCATTTCCTAAGGCAAGCTACCTGTGAC-AGTCGCAGGTGACCTCCCCGCCTGCTAAGCTCGGATGATTTCCCCTTCCCACTGCCCCAGC-------------GAAGACAAACGCACT----GCCAGAGACGGGTCTGCAGTGTGGAGGAAAAGCAGCCTCCCTGCATCTGTCA-TTTAAAGCCT--CGCT---CAGAGATTTTACTGCTTTCTTCACACTCTCGCACTTACATAAATACACCCACACAGTACAGGCAAGTTCCTCAGACTCCCAAGCGTTTCTTTTCCATTAGGAGGCATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCTATTGGCCT-AAATG
i proCoq1.NW_012155062v1   I 1 C 0
s mm10.chr18                55548775 602 +  90702639 CACATCATATCCTTCCCCATAGCCACAGAGGAGATAGAAAACAAAAGGTccccacccccactccgcctcttgcccccatcttcact--------ccccctacctccaccccgcttcccttctccctgccccctcctccaccccgcccccaGAGGGTTGTGCTGTGACTTCCTGAGAGAAAAGGTTAAATGGACCAGCTCTGTGGCTTGGATTGAATCCAGA-AGACGAGCCGAGCCTCTTCCT-TTTTGTTCCTCAGCCAGTTCGAATAATTCATTCCCTAAGGCTGCCTACCTGTGACAAGTCACAGGTGACCT-CCAGCCTGCTGAGCTCCGGTGATTTCCCCTTCCCATCGCCCAAGTACAACTCCTGTCAGCAGACAAATGCTCTGCAGGCCCAGGACGGATCTGGAGAGCAG-GGACCAGCAGGCTGTCTGCGTATGTCACTGTAAAGCCT--TGCAGGGGGGAGGTTTCACTGCCTCCTCCACACTCCCACGCTCATATAAACACACCCACTCGCAACA-TCAAGTTGCCCACGCTGGAGAGCAGTCCTTTTCTGTTAGGAGACATTTT-AAAACGTATTAGCACCCTCCCCCTAAGCC-ATCAGCCT-AACGG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14958180 501 +  74389097 CCTCCCCCTGTATTGCAGC-------AGAGGAGTGAGAAAATGAAAG--------------------------------------G--------CCCCCT----------------------------------------------AACAAAGGATTGAGCTGTGACTTCTTAAGAGAAAAGGTTAAATCGACCGGCTGTGTGTCTCCGAGTGAGAC-GGGAAGAAGGGCCA-----CTTCCC-TTTTTACTCC------GTTGGAATAATTCATTTCCTAACGCGGCCTACCTGTGAC-AGGCACAGGTGACCTCCCAGCCTGCTAAGCTCGGATGATTTCCCCTTCCCGTTGCCCAAGTACAACTCCTGCCAGAAGACAAATGTACTGCAAGGCGGAGACATATCCGTGGTGCCGAGGCAAAGCAGCCTGTCTACATATGTCATTTTAAAGCCT--AGCG---TGGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACGGTACAGGCAAGTCCCCGAGACTCCCAAGCGTTTCTCTTCCATTAGGAGACATTTT-AAAACAAATTAGCACCCTCCCCAAAAGCCCATTGGCCTAAAATG
i canFam3.chr11            I 11 C 0
s dasNov3.JH567306           2681852 520 +   3667625 GGTATGGCAGCACAGAAGA-AGCCACAGAAGAGTAAGTAAATGAAAG--------------------------------------TGTCCCCGCCGCCCC---------------------------------------------CAACAAAGGATTGAGCTGTGACAGCTTAGGAGAAACGGTTAAATCCAGCGGTTGTGTGTCTTGGAGTGAGAAAAGG-AGAAGGGCCT-----TTTCCC-TTTGGACTCA--GCCGGTTAGAATAATTCATGTCCTAACGCAGCCTACCTGTGAC-AGTCACAGGTGACCTCCCAGACTGCTAAGCTCGGGTGATTTCCCCTTCCCATTGCCCACGTACAGCTCCTGCCAGAAGACAAATGTACTGCGAGCTGAAGGCATATCTGTAGTGCAGAGGAAAAGCAGGCTGTCTACATATGTCATTTTAAAGCCT--CGCA---CAGAGATTTTACTGCTTTCTTCACACTCTCACACTTACATAAATACACCCACACGGTACAGACAAGTTCCTGAGCCTCCCAAGCATTTCTCTTCCATTAGGAGACATTTTAAAAACAAATTAGCACCCTCCCCAAAAGCCCATTGGCCC-AAATG
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3116689 754 +   4132165 M

a score=7421222.000000
s hg38.chr5_KI270796v1_alt    133020 402 +    172708 TGTTTATTACTTTGTTTGCTGTTTTAAAAACTCTTCCTAAAGGCGTCAAACGAGGCT-GGGGAGTTCCTACAGAATTAAGCACACCCTTCGTCTGTTGAGGAATATACACATTCGACAAAGACTGAAA----TCTCTC----------------------T---TTTTT----TTTTTCCTCTTGACACAGC----GGCTGGTGACACATAAATGTACTTTTT-------TTCCTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATGATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTG-CTCATTGCCATGCAGGCCCCGTGACTGTCAGGGCTC
s panTro5.chr5             125236706 406 + 181907262 TGTTTATTACTTTGTTTGCTGTTTTAAAAACTCTTCCTAAAGGCGTCAAACGAGGCT-GGGGCGTTCCTACAGAATTAAGCACACCCGTCGTCTGTTGAGGAATATACACATTCGACAAAGACTGAAATCTCTCTCTC----------------------T---TTTTT----TTTTTCCTCTTGACACAGC----GGCTGGTGACACATAAATGTACTTTTT-------TTCCTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATGATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTG-CTCATTGCCATGCAGGCCCCGTGACTGTCAGGGCTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126573418 405 + 183735486 TGTTTATTACTTTGTTTGCTGTTTTAAAAACTCTTCCTAAAGGCGTCAAACGAGGCT-GGGGCGTTCCTACAGAATTAAGCACACCCGTCGTCTGTTGAGGAATATACACATTCGACAAAGACTGAAATCTCTCTCTC--------------------------TTTTT----TTTTTCCTCTTGACACAGC----GGCTGGTGACACATAAATGTACTTTTT-------TTCCTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATGATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTG-CTCATTGCCATGCAGGCCCCGTGACTGTCAGGGCTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1765223 400 +   8933513 TGTTTATTACTTTGTTTGCTGTTTTAAAAACTCTTCCTAAAGGCGTCAAACAAGGCT-GGGGAGTTCCTACAGAATTAAGCACACCCTTCGTCTGTTGAGGAATATACACATTCGACAAAGACTGAAA------TCTC----------------------T---TTTTT----TTTTTCCTCTTGACACAGC----GGCTGGTGACACATAAATGTACTTTTT-------TTCCTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATGATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTG-CTCATTGCCATGCAGGCCCCGTGACTGTCAGGGCTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139899482 400 + 163208435 TGTTTATTACTTTGTTTGCTGTTTTAAAAACTCTTCCTAAAGGCGTCAAACAAGGCT-GGGGAGTTCCTACAGAATTAAGCACACCCTTCGTCTGTTGCGGAATATACGCATCTGACAAAGACTGCAA----TCTCTT--------------------------TTTTT----TTTTTCCTCTTGACACAGC----GGCTGGTGACACATAAATGTAC-TTTT-------TTCCTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATGATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTG-CTCATTGCCATGCAGGCCCCGTGACTGTCAGGGCTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122884192 400 + 180051392 TGTTTATTACTTTGTTTGCTGTTTTAAAAACTCTTCCTAAAGCCATCAAACAAGGCTGGGGGAGTTCCTACAGAATTAAGCACACCCTTCGTCTGTTGAGGAATATACACATCTGACAAAGACTGAAA------ACTC----------------------T---TTTTT----TTTTTCCTCTTGACACAGC----GGCTGGTGACACATAAATGTAC-TTTT-------TTCCTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATGATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTG-CTCATTGCCATGCAGGCCCCGTGACTGTCAGGGCTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124307818 400 + 181584905 TGTTTATTACTTTGTTTGCTGTTTTAAAAACTCTTCCTAAAGCCATCAAACAAGGCTGGGGGAGTTCCTACAGAATTAAGCACACCCTTCGTCTGTTGAGGAATATACACATCTGACAAAGACTGAAA------ACTC----------------------T---TTTTT----TTTTTCCTCTTGACACAGC----GGCTGGTGACACATAAATGTAC-TTTT-------TTCCTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATGATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTG-CTCATTGCCATGCAGGCCCCGTGACTGTCAGGGCTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16306494 396 +  18395747 TGTTTATTACTTTGTTTGCTGTTTTAAAAACTCTTCCTAAAGCCATCAAACAAGGCTGGGGGAGTTCCTACAGAATTAAGCACACCCTTCGTCTGTTGAGGAATATACACATCTGACAAAGACTGAAA------ACTC----------------------T---TTTTT----TTTTTCCTCTTGACACAGC----GGCTGGTGACACATAAATGTAC-TTTT-------TTCCTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATGATTATTTCAATAGAATT----AGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTG-CTCATTGCCATGCAGGCCCCGTGACTGTCAGGGCTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5318923 402 +  26952557 TGTTTATTACTTTGTTTGCTGTTTTAAAAACTCTTCCTAAAGCCATCAAACAAGGCTGGGGGAGTTCCTACAGAATTAAGCACACCCTTCATCTGTTGAGGAATATACACATCTGACAAAGACTGAAA------ACTC--------------------TTT---TTTTT----TTTTTCCTCTTGACACAGC----GGCTGGTGACACATAAATGTAT-TTTT-------TTCCTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATGATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTG-CTCATTGCCATGCAGGCCCCGTGACTGTCAGGGCTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28419582 405 +  82825804 TGTTTATTACTTTGTTTGCTGTTTTAAAAACTCTTCCTAAAGCCATCAAACAAGGCTGGGGGAGTTCCTACACAATTAAGCACACCCTTCGTCTGTTGAGGAATATACACATCTGACAGAGACTGAAA------ACTC-----------------TCTTTT---TTTTT----TTTTTCCTCTTGACACAGC----GGCTGGTGACACATAAATGTAC-TTTT-------TTCCTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATGATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTG-CTCATTGCCATGCAGGCCCCGTGACTGTCAGGGCTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4089443 401 -   4237731 TGTTTATTACTTTGTTTGCTGTTTTAAAAACTCTTCCTAAAGCCATCAAACAAGGCTGGGGGAGTTCCTACAGAATTAAGCACACCCTTCGTCTGTTGAGGAATATACACATCTGACAAAGACTGAAA------ACTC---------------------TT---TTTTT----TTTTCCCTCTTGACACAGC----GGCTGGTGACACATAAATGTAC-TTTT-------TTCCTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATGATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTG-CTCATTGCCATGCAGGCCCTGTGACTGTCAGGGCTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      357986 400 -   1175262 TGTTTATTACTTTGTTTGCTGTTTTAAAAACTCTTCCTAAAGCCTTCAAACAAGGCTAGGGGAGTTCCTACAGAATTAAGCACACCCTTCGTCTGTTGAGGAATATACACATCTGACAAAGACTGAAA------TCTC----------------------T---TTTTT----TTTTTCCTCTTGACACAGC----GGCTGGTGACACATAAATGTAC-TTTT-------TTCCTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATGATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTG-CTCATTGCCATGCAGGCCCCGTGACTGTCAGGGCTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123706158 398 - 204313951 TGTTTATTACTTTGTTTGCTGTTTGAAAAACTCTTCCTAAAGGCGTCAAGCAAGACT-GGGGAGTTCCTACAGAATTAAGCACACCCCTCGTCTGTTGAGGAATATACACATCTGACATAGACTGAAA------TCTC----------------------T---CTTTT----TTTCCCCTCTTGACACAGC----GGCTGGTGACACATAAATGTAC--TTT-------TTCCTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATGATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTG-CTCATTGCCATGCAGGCCCCGTGACTGTCAGGGCTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55750331 402 -  71252344 TGTTTATTACTTTGTTTGCTGTTTGAAAAACTCTCCCTAAAGGCGTCAAACAAGACT-GGGGAGTTCCTACAGAATTAAGCACACCCTTCGTCTGTTGAGGAATACACACATCTGACATAGACTGAAA------TCTC----------------------T---CTTTTTTTCTTTCCCCTCTTGACACAGC----GGCTGGTGACACATAAATGTAC--TTT-------TTCCTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATGATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTG-CTCATTGCCATGCAGGCCCTGTGACTGTCAGGGCTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       53763 399 -   3089952 TGTTTATTACTTTGTGTGCTATTTGAAAAACTCTTCCTAAAGGCGTCAAACAAGACT-GGGGAGTTCCTACAGAATTAAGCACACCCTTCGTCTGTTGAGGAATATACACATCTGACATAGACTGAAA------TCTC----------------------T---CTTTTT---TTTTCCCTCTTGACACAGC----GGCTGGTGACACATAAATGTAC--TTT-------TTCCTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATGATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTG-CTCATTGCCATGCAGGCCCCGTGACTGTCAGGGCTC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13254035 398 -  42888418 TGTTTATTACTTTGTTTGCTGTCTGAAAAACTCTTCCTAAAGGCGTCAAACAAGACT-GGGGAGTTCCTACAGAATTAAGCACACCCTTCGTCTGTTGAGGAATATACACATCTGACATAGACTGAAA------TCTC----------------------T---CTTTT----TTTTCCCTCTTGACACAGC----GGCTGGTGACACATAAATGTAC--TTT-------TTCCTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATGATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTG-CTCATTGCCATGCAGGCCCCGTGACTGTCAGGGCTC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60591885 393 + 108143057 TGTTTATTACTTTGTTTGCTGCTTT-AAAACTCCTCCTAAAGGCTTCAGA-GAAGC--GGGGACTTCCTACGGCACTGAGCACACCCTTCGTCTGTTGAGCAGTACACATGTCTGACAAAGACCGAAA------TCTT----------------------TTTCTTTTT----TTTTCCCTCTTGACACAGC----GGCTGGTGACACATAAATGTAC-TTTT-------TTCTTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATTATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTGCAGCTAAATAGGGCAGGCCCGCGGGCTCACCTG-CTCACTGCCGTGCAGGCCC---GACTG---GGGCTC
i micMur3.chr12            C 0 I 12
s proCoq1.NW_012155062v1     3627537 397 +  11683526 TGTTTATTACTTTGTTTGCTGCTTTAAAAACTCCTCCTAAAGGCTTCAGACGAGAC--CCGGAGTTCCTACAGCGCTGAGCGCACCCTTCATCTGTTGAGGAATACACACATCTGACAAAGACTGAAA------TCTT----------------------T---TTTTT----TTTTCCCTCTTGACACAGC----GGCTGGTGACACATAAATGTAC-TTTT-------TTCTTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATTATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTG-CTCATTGCCATGCAGGCCCCGTGACTGTC-GGGCTC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3117444 397 +   4132165 TGTTTATTACTTTGTTTGGGGCTTTAAAAACTCCTCCTAAAGGCTTCAAACGCCACT-GGGGAGTTCTCCCGGAATTGAGCACACCCTTCCTCTGTTGAAGAATACACACATCTGACAAAGACTGAAA------TCTT----------------------T---TTTTT----TTCCCCCTCTTGACACAGC----GGCTGGTGACACATAAATGTAC-TTTT-------TTCTTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATTATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAACAGGGCAGGCCTGCGATTTCACCTG-CCCATGGCCATGCTGGCCTGGTGACTGCC-GGGCG-
i otoGar3.GL873679         M 754 C 0
s mm10.chr18                55549377 421 +  90702639 TGTTTATTACTT----TGCTGTTTT-AAAACCCCTCCTAATGGCTTCCAAGGAGACA-AGGGACTTCCTGGAGACTGAATCACACCCTTCCTCTAGTGAGGAATATCCACATCTGACAAAGACTTAAA------TCTCCACCCCATCCCAACACACCTCCC---CCCCC----CCGCCCCCGTTGATATAGCGGCTGGCTGGTGACACAT-AATGTAC-TTTTTTTCTTCTTCTTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATTATTATTTCAATAGAATTAGAGAAAGAAATCACCAGAGTGCAGCTAAATAGGGCCAGCCT---ATTTCACCTG-CTTATTGCCATTCAGGCCC--TGGCTGCCAGGGCCC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14958681 416 +  74389097 TGTTTATTACTTTGTTTGCTGTTTTAAAAGCTCTTCCTAAAGGCTTCAAATAAGACC-GGGGAGTTCCTGCAGAATGAAGCACACCCCT-GTCTGTTGAGGAACATACACATCTGACAAAGACTTAAA------TCTT-----TCCTCCTCTTCTTTTTTT---TTTTT----TTTTCCCTCTTGACACAGC----GGCTGGTGACACATAAATGTAC-TTTT-------TTCTTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATTATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTACAGCTAAATAGGGCAGGCCTGCGGTTTCACCTGCCTCATTGCCATGCACACCCCGTGATTGTCAGGGCTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2682372 390 +   3667625 TGTTTATTACTTTGTTTGCTGTTGTACAAGCTCTTCCTAAGGGCTTGACACAAGACG-GAAGAGTTCCTGCCAAATTCAGCACACCCTCGGTCTATTCAGAAATATACACATCTGACAAAGTCTGGAT--------------------------------T---TTTTT----TTT--CCTCTTGACACAGC----GGCTGGTGACACATACATGTAC-TTTT-------TTCTTTTGACAGAGTAATAAAAATCTCATTATCTCTGAATAGGCAGCAATTTCGTTATCTAATCTTTTTACCAAAAGGTTAGTTAATTAATCAGAAACAAATCCTGATTATTATTTCAATAGAATTAGAAAGACAAATCACCAGAGTGCAGCTAAATAGGGCAGGCCTGCGGTTTAACCTGCCTCATTGCCATGCAGGCCT-GTGA-TGTCAGGTC--
i dasNov3.JH567306         C 0 C 0

a score=357770.000000
s hg38.chr5_KI270796v1_alt    133422 20 +    172708 CTCCAGGCAGACAGCCTCCG
s panTro5.chr5             125237112 20 + 181907262 CTCCAGGCAGACAGCCTCCG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126573823 20 + 183735486 CTCCAGGCAGACAGCCTCCG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1765623 20 +   8933513 CTCCAGGCAGACAGCCTCCG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139899882 20 + 163208435 CTCCAGGCAGACAGCCTCCG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122884592 20 + 180051392 CTCCAGGCAGACAGCCTTCG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124308218 20 + 181584905 CTCCAGGCAGACAGCCTTCG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16306890 20 +  18395747 CTCCAGGCAGACAGCCTTCG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5319325 20 +  26952557 CTCCAGGCAGACAGCCTTCG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28419987 20 +  82825804 CTCCAGGCAGACAGCCTTCG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4089844 20 -   4237731 CTCCAGGCAGACAGCCTTCG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      358386 20 -   1175262 CTCCAGGCAGGCAGCCTTCG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123706556 20 - 204313951 CTCCAGGCAGACAGCCTTCG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55750733 20 -  71252344 CTCCAGGCAGACAGCCTTCG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       54162 20 -   3089952 CTCCAGGCAGACAGCCTTTG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13254433 20 -  42888418 CTCCAGGCAGACAGCCTTCG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3627934 20 +  11683526 CTCCAGGCAGACAGCCTTCG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3117841 20 +   4132165 CGCCGGGCACACGGCCTTGG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55549798 20 +  90702639 CTCCAGGCACCCAGCCCTTG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14959097 20 +  74389097 CTCCAGGCAGACAGCCTTAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2682762 20 +   3667625 CTCCAGGCAGACAGCCTTCG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60592278 12 + 108143057 I

a score=11468853.000000
s hg38.chr5_KI270796v1_alt    133442 609 +    172708 GAACAGCAGCCAGCAGATGGCTGC------GCCGAGCGGCCAGCCTGCCTCCGCTCCAATGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCACCACTACTCCT--GGGTCAGCCACAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACGAAAGTTTATGTAAACACAAGAAAAGATAGAATTAAAAGCTGGATTCTTAGCTGCA-CAGAGCAAATGCTTCT---TTTT-----CTGTGCAAGGGCTCTGGGAGCTTGAAGAACATCAGATTGCTCCCTTTGTTTTTGTTG-TTTTTTAATTTAAAGCATGCTAGAT------AAAAATAACCTTTGCTGGGGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACGAGG------AAAAAA-ATCCTTTGTTCCTAAAA-TCTGTC---TTTCTTTTTTTCAGATGCTATCTTACTGGCTC-TTTTTATTAAAGGGTCAGGGTGCTT---TAAAAAAT--GATTTGGATTTGAGAG
s panTro5.chr5             125237132 609 + 181907262 GAACAGCAGCCAGCAGATGGCTGC------GCCGAGCGGCCAGCCTGCCTCCGCTCCAATGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCACCACTACTCCT--GGGTCAGCCACAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACGAAAGTTTATGTAAACACAAGAAAAGATAGAATTAAAAGCTGGATTCTTAGCTGCA-CAGAGCAAATGCTTCT---TTTT-----CTGTGCAAGGGCTCTGGGAGCTTGAAGAACATCAGATTGCTCCCTTTGTTGTTGTTG-TTTTTTAATTTAAAGCATGCTAGAT------AAAAATAACCTTTGCTGGGGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACGAGG------AAAAAA-ATCCTTTGTTCCTAAAA-TCTGTC---TTTCTTTTTTTCAGATGCTATCTTACTGGATC-TTTTTATTAAAGGGTCAGGGTGCTT---TAAAAAAT--GATTTGGATTTGAGAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126573843 608 + 183735486 GAACAGCAGCCAGCAGATGGCTGC------GCCGAGCGGCCAGCCTGCCTCCGCTCCAATGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCACCACTACTCCT--GGGTCAGCCACAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACGAAAGTTTATGTAAACACAAGAAAAGATAGAATTAAAAGCTGGATTCTTAGCTGCA-CAGAGCAAATGCTTCT---TTTT-----CTGTGCAAGGGCTCTGGGAGCTTGAAGAACATCAGATTGCTCCCTTTGTTGTTGTTG-TTTTTTAATTTAAAGCATGCTAGAT------AAAAATAACCTTTGCTGGGGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACGAGG-------AAAAA-ATCCTTTGTTCCTAAAA-TCTGTC---TTTCTTTTTTTCAGATGCTATCTTACTGGCTC-TTTTTATTAAAGGGTCAGGGTGCTT---TAAAAAAT--GATTTGGATTTGAGAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1765643 609 +   8933513 GAACAGCAGCCAGCAGATGGCTGC------GCCGAGCGGCCAGCCTGCCTCCGCTCCAATGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCACCACTACTCCT--GGGTCAGCCACAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACGAAAGTTTATGTAAACACAAGAAAAGATAGAATTAAAAGCTGGATTCTTAGCTGCA-CAGAGCAAATGCTTCT---TTTT-----CTGTGCAAGGGCTCTAGGAGCTTGAAGAACTTCAGATTGCTCCCTTTGTTGTTGTTG-TTTTTTAATTTAAAGCATGCTAGAT------AAAAATAACCTTTGCTGGGGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACGAGG------AAAAAA-ATCCTTTGTTCCTAAAA-TCTGTC---TTTCTTTTTTTCAGATGCTATCTTACTGGCTC-TTTTTATTAAAGGGTCAGGGTGCTT---TAAAAAAT--GATTTGGATTTGAGAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139899902 609 + 163208435 GAACAGCAGCCAGCAGATGGCTGC------GCCGAGCGGCCAGCCTGCCTCCGCTCCAGTGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCACCACTACTCCT--GGGTCAGCCACAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACGAAAGTTTATGTAAACACAAGAAAAGATAGAATTAAAAGCTGGATTCTTAGCTGCA-CAGAGCAAATGCTTCT---TTTT-----CTGTGGAAGGGCTCTGGGAGCTTGAAGAACATCGGATTGCTCCCTTTGTTGTTGTTG-TTTTTTAATTTAAAGCATGCTAGAT------AAAAATAACCTTTGCTGGGGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCATGAGG------AAAAAACATCCTTTGTTCCTAAAA-TCTGTC---TTTC-TTTTTTCAGATGCTATCTTACTGGCTC-TTTTCATTAAAGGGTCAGGGTGCTT---TAAAAAAT--GATTCGGATTTGAGAG
i nomLeu3.chr2             C 0 I 2
s rheMac8.chr6             122884612 608 + 180051392 GAACAGCAGCCAGCAGATGGCTGC------GCCGAGCGGCCAGCCTGCCTTCGCTCCAATGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCACCACTACTCCC--GGGTCAGCCACAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACGAAAGTTTATGTAAACACAAGAAAAGATAGAATTAAAAGCTGGATTCTTAGCTGCA-CAGAGTGAATGCTTCT---TTTT-----CTGTGGAAGGGCTCTGGGAGCTTGAAGAACATCAGATTGCTCCCTTTGTTGTTGTTG-TTTTTTAATTTAAAGCATGCTAGAT------AAAAATAACCTTTGCTGGGGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACAAGG------AAAAAA-ATCCTTTGTTCCTAAAA-TCTGTC---TTTC-TTTTTTCAGATGCTATCTTACTGGCTC-TTTTCATTAAAGGGTCAGGGTGCTT---TAAAAAAT--GATTCGGATTTGAGAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124308238 608 + 181584905 GAACAGCAGCCAGCAGATGGCTGC------GCCGAGCGGCCAGCCTGCCTTCGCTCCAATGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGTAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCACCACTACTCCC--GGGTCAGCCACAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACGAAAGTTTATGTAAACACAAGAAAAGATAGAATTAAAAGCTGGATTCTTAGCTGCA-CAGAGTGAATGCTTCT---TTTT-----CTGTGGAAGGGCTCTGGGAGCTTGAAGAACATCAGATTGCTCCCTTTGTTGTTGTTG-TTTTTTAATTTAAAGCATGCTAGAT------AAAAATAACCTTTGCTGGGGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACAAGG------AAAAAA-ATCCTTTGTTCCTAAAA-TCTGTC---TTTC-TTTTTTCAGATGCTATCTTACTGGCTC-TTTTCATTAAAGGGTCAGGGTGCTT---TAAAAAAT--GATTCGGATTTGAGAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16306910 608 +  18395747 GAACAGCAGCCAGCAGATGGCTGC------GCCGAGCGGCCAGCCTGCCTTCGCTCCAATGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCACCACTACTCCC--GGGTCAGCCACAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACGAAAGTTTATGTAAACACAAGAAAAGATAGAATTAAAAGCTGGATTCTTAGCTGCA-CAGAGTGAATGCTTCT---TTTT-----CTGTGGAAGGGCTCTGGGAGCTTGAAGAACATCAGATTGCTCCCTTTGTTGTTGTTG-TTTTTTAATTTAAAGCATGCTAGAT------AAAAATAACCTTTGCTGGGGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACAAGG------AAAAAA-ATCCTTTGTTCCTAAAA-TCTGTC---TTTC-TTTTTTCAGATGCTATCTTACTGGCTC-TTTTCATTAAAGGGTCAGGGTGCTT---TAAAAAAT--GATTCGGATTTGAGAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5319345 608 +  26952557 GAACAGCAGCCAGCAGATGGCTGC------GCCGAGCGGCCAGCCTGCCTTCGCTCCAATGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCACCACTACTCCC--AGGTCAGCCACAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACGAAAGTTTATGTAAACACAAGAAAAGATAGAATTAAAAGCTGGATTCTTAGCTGCA-CAGAGTGAATGCTTCT---TTTT-----CTGTGGAAGGGCTCTGGGAGCTTGAAGAACATCAGATTGCTCCCTTTGTTGTTGTTG-TTTTTTAATTTAAAGCATGCTAGAT------AAAAATAACCTTTGCTGGGGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACAAGG------AAAAAA-ATCCTTTGTTCCTAAAA-TCTGTC---TTTC-TTTTTTCAGATGCTATCTTACTGGCTC-TTTTCATTAAAGGGTCAGGGTGCTT---TAAAAAAT--GATTCGGATTTGAGAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28420007 608 +  82825804 GAACAGCAGCCAGCAGATGGCTGC------GCCGAGCGGCCAGCCTGCCTTCGCTCCAATGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCACCACTACTCCC--GGGTCAGCCACAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACGAAAGTTTATGTAAACACAAGAAAAGATAGAATTAAAAGCTGGATTCTTAGCTGCA-CAGAGTAAATGCTTCT---TTTT-----CTGTGGAAGGGCTCTGGGAGCTTGAAGAACATCAGATTGCTCCCTTTGTTGTTGTTG-TTTTTTAATTTAAAGCATGCTAGAT------AAAAATAACCTTTGCTGGGGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACAAGG------AAAAAA-ATCCTTTGTTCCTAAAA-TCTGTC---TTTC-TTTTTTCAGATGCTATCTTACTGGCTC-TTTTCATTAAAGGGTCAGGGTGCTT---TAAAAAAT--GATTCGGATTTGAGAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4089864 608 -   4237731 GAACAGCAGCCAGCAGATGGCTGC------GCCGAGCGGCCAGCCTGCCTTCGCTCCAATGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCACCACTACTCCC--GGGTCAGCCACAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACGAAAGTTTATGTAAACACAAGAAAAGATAGAATTAAAAGCTGGATTCTTAGCTGCA-CAGAGTGAATGCTTCT---TTTT-----CTGTGGAAGGGCTCTGGGAGCTTGAAGAACATCAGATTGCTCCCTTTGTTGTTGTTG-TTTTTTAATTTAAAGCATGCTAGAT------AAAAATAACCTTTGCTGGGGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACAAGG------AAAAAA-ATCCTTTGTTCCTAAAA-TCTGTC---TTTC-TTTTTTCAGATGCTATCTTACTGGCTC-TTTTCATTAAAGGGTCAGGGTGCTT---TAAAAAAT--GATTCGGATTTGAGAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      358406 608 -   1175262 GAACAGCAGCCAGCAGATGGCTGC------GCCGAGCGGCCAGCCTGCCTTCGCTCCAATGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCACCACTACTCCC--GGGTCAGCCACAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACGAAAGTTTATGTAAACACAAGAAAAGATAGAATTAAAAGCTGGATTCTTAGCTGCA-CAGAGTGAATGCCTCT---TTTT-----CTGTGGAAGGGCTCTGGGAGCTTGAAGAACATCAGATTGCTCCCTTTGTTGTTGTTG-TTTTTTAATTTAGAGCATGCTAGAT------AAAAATAACCTTTGCTGGGGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACAGGG------AAACAA-ATCCTTTGTTCCTAAAA-TCTGTC---TTTC-TTTTTTCAGATGCTATCGTACTGGCTC-TTTTCATTAAAGGGTCAGGGTGCTT---TAAAAAAT--GATTCGGATTTGAGAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123706576 607 - 204313951 GAACAGCAGCCAGCAGATGGCTGC------GCCGAGCGGCCAGCCTGCCTCCGCTCCAATGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTGACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCACCACTACTCCC--GGGTCAGTCACAGGAATCTTTCCATAAGGCTCCTGAAATGCAAATGAAAGTTTATGTAAACACAAGAAAAGATAGAATTAAAAGCTGGATTCCTAGCTGCA-CAGAGCGAATGCTTCT---TTTT-----CTGTGGAAGGGCTCTGAGAGCTTGAAGAACATCAGATTGCTCCCTTTGTTGTTGTTG-TTTTTTAATTTAAAGCATGCTAGAT------AAAAATAACCTTTGCTGGGGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACAAGG------AAAAAA-ATCCTTTGTTCCTAAAA-TCTGTC---TTTC--TTTTTCAGATCCTATCTTATTGGCTG-TTTTCATTAAAGGGTCAGGGTGCTT---TAAAAAAT--GATTTGGATTTGAGTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55750753 607 -  71252344 GAACAACAGCCAGCAGATGGCTGC------GCAGAGCGGCCGGCCTGCCTCCGCTCCAATGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACACTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCACCGCTACTCCC--GGGTCAGCCCCAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACGAAAGTTTATGTAAACACAAGAAAAGATAGAATTAAAAGCTGGATTCCTAGCTGCA-CGGAGCGAATGCTTCT---TTTT-----CTGTGGAAGGGCTCTGGGAGCTTGAAGAACATCAGATTGCTCCCTTTCTTGTTGTTG-TTTTTTAATTTAAAGCATGCTAGAT------AAAAATAACCTTTGCTGGGGAGAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACAAGG------AAAAAA-ATCCTTTGTTCCTAAAA-TCTGTC---TTTC--TTTTTCAGATCCTATCTTATTGGCTG-TTTTCATTAAAGGGTCAGGGTGTTT---TAAAAAAT--AATTTGGATTTGAGCG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       54182 607 -   3089952 GAGCAGCAGCCAGCAGATGGCTGC------GCCGAGCGGCCAGCCTGCCTCCGCTCCAATGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCACCGCTACTCCT--GGGTCAGCCACAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACGAAAGTTTATGTAAACATGAGAAAAGATAGAATTAAAAGCTGGATTCCTAGCTGCA-CAGAGCGAATGCTTCT---TTTT-----CTGTGGAAGGGCTCTGGGAGCTTGAAGAACATGAGATTGCTCCCTTTGTTGTTGTTG-TTTTTTAATTTAAAGCATGCTAGAT------AAAAATAACCTTTGCTGGGGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACAAGG------AAAAAA-ATCCTTTGTTCCTAAAA-TCTGTC---TTTC--TTTTTCAGATCCTATCTTATTGGCTG-TTTTCATTAAAGGGTCAGGCTGCTT---TAAAAAAT--AATTTGGCTTTGAGCG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13254453 607 -  42888418 GAACAGCAGCCAGCAGATGGCTGC------GCCGAGCGGCCAGCCTGCCTCCGCTCCAATGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCACCACTACTCCC--GGGTCAGCCACAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACGAAAGTTTAAGTAAACACAAGAAAAGATAGAATTAAAAGCTGGATTCCTAGCTGCA-CAGAGCGAATGCTTCT---TTTG-----CTGTGCAAGGGCTCTGGGAGCTTGAAGAACATCAGATCGCTCCCTTTGTTGTTGTTG-TTTTTTAATTTAAAGCATGCTAGAT------AAAAATAACCTTTGCTGGGGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACAGGG------AAAAAA-ATCCTTTGTTCCTAAAA-TCTGTC---TTTC--TTTTTCAGATCCTATCTTATTGGCTG-TTTTCATTAAAGGGTCAGGATGCTT---TAAAAAAT--AATTTGGATTTGAGCG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60592290 591 + 108143057 GAGCCGCAGCCAGCAGAT-------------------GGCCGGCCTGCCTC-GCTCCCGCGCCTGTGATCCCATTACCTCACCGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATAGTCACTTGATGTAGAAATTCACCACTACTCCC--GGGTCAGCCACAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACGAAAGTTTATGTAAACACAAG-GAAGATAGAATGAAAAGCTAGATTCTTAGCTGCA-GAGAACGAATACTTCTGTCTTTT-----CTCTGGAAGGGCTCTGGGAGCTTGAAGAACATCAGATTGTTCCCTTTGTTGTTGTTG-TGTTTTAATTTAAAGCATGCTAGAT-------AAAAAACCCTTTGCTGGGGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACAAGGC-----AGAAAA-TTCCTTTGTTCCTAAAA-TCTGTC---TTTT------TCAGATCCTATCTTATTGGTTG-TTTTCATTAAAGGGTCATGGTACTT---AAAAAAAT--GATTTAGATTTGAGCA
i micMur3.chr12            I 12 C 0
s proCoq1.NW_012155062v1     3627954 601 +  11683526 GAGCAGCAGCCAGCAGAT-------------------GGCCAGCCTGCCTCTGCTCCGACGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATAGTCACTTGATGTAGAAATTCACCACTACTCCT--GGGTCAGCCACAGGAATCTTTCCATAAGGCTTCTGAAATGCAAAGGAAAGTTTATGTGAACACAGG-CAAGATAGAATGAAAAGCTGGATTCTTAGCTGCA-TGGAATGGATGCTTCCGTCTTTT-----CTGTGAAAGGGCTCTGGGAGCTTGAAGAACATCAGATTGCTCCCTTTGTTGTTGTTG-TGTTTTAATTTAAAGCATGCTAGATTAAAAAAAAAAACCCCTTTGCTGGGGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACAGGGC---AAAAAAAA-TTCCTTTGTTCCTAAAA-TCTGTC---TTTT------TCAGATCCTATCTTATTGGTTG-TTTTCATTAAAGGGTCATGGTACTT---AAAAAAAT--GATTTGGATTTGAGCG
i proCoq1.NW_012155062v1   C 0 I 66
s otoGar3.GL873679           3117861 613 +   4132165 GAGCCGCAGCCAGCAGATGGCTGC------TCGGAGCGGCCAGCCTGCCTCTGCTCCCGCGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATAGTCACTTGATGTAGAAATTCACCACGACTCCA--GGGTCAGCCGCAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACGAAAGTTTATGTAAACACTGG-GAAGAGGGAATGAAAGGCTGGCTTCTTAGCTGCACCAGAGCCAAGGCTT-----TTTT-----CTGTGGAAGGGCTCTGGGAGCCTGAAGAACATCAGATTGCTCCCTTTGTTGTTGTTGTTGTTTTAATTTAAGGCATGCTGGAT------AAAAATAACCTTTGGTGGGGAAAGACAGCTGTGATGAATTCAAGACTGGGAAAACAAAACACAAGGCAAAAAAGAAAA-ATCCTTTGTTCCTAAAA-TCTTTC---TTTT------TCAGATCCTATCTTACTGGTTG-TTTTCATTACAGGGTCATGGTACTTTAAAAAAAAATAAGATTTGGATTTGAGCA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55549818 621 +  90702639 GAACATCAGCCAGCAGATGGCTGCTGGGAGAGAGAGCGGCCAGCCTGCCTGGGCTCTAATGCCTGTGATCACATTACCTCACCGAATCCGTTACCAGGGTAACTGTTAAATTGCCGTGAAAGGCATGGTAATAAAGTAACCTGTCACATCGACAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACGCACTTGATGGAGAAATTCCTCACTCCTCCCCGGGGTCAG-CGGGGGAATCTTTCCATAAGGTCTCTGAAATGCAAAAGAAAGTTCATGTAAACACAAG--AAGGTAGGATGAAAAGTGGAATTCCTCGCTGCA-CAGGGCAAATGCCTGC---TTCTCTCTACTGTGGGGTGGTTATGGGAGTTTGCAGAACATCAGGTTGCTCCCTTC-TTGTGGTTG--CTTTGAATTTAAACCACACTAGAT-----AAAAAATAACCTTTGCTAGTGAGAGACAGCTGTAATTAATAGGAAACCGAGAAAACCAAGCACAAGG-AAGAGAGAAAA-ACAGAAACCTCCTAAAA--CTCTC---TTCC--TCTCTCAGATCCTATCTTATTGGCTGTTTTTTATTAAAGGGTCACGGTACTT---TAAAAAAT--GGTTTGGATTTAGGCA
i mm10.chr18               C 0 I 12
s canFam3.chr11             14959117 606 +  74389097 GAACAGCAGCCAGCAGATGGCTGC------TCCGAGCGGCCAGCCTGCCTCTGCTCTAATGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACATTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCGCCACTACTCCG--GGGTCCGCCGCAGGAATCTTTCCATAAGGCTTCTGAAATGCAAACTAAAGTTCATGTAAACACAAG-AAAGATATAATTAAAAGCTGGATTCTTAGCTGCA-CAGAGCTCACGCTTCCCTCTTTT-----CTGTGGAA-GGTTATGGAGGCTTGAAGAACATCAGATCGCTTTCTTTGTTGTTGTTT-TTTTTTAATTTAAAGCGTGCTAGAC------AAAAATAACCTTTGCTGGTGAAAGACAGCTGTGATTAATTCAAGACTGGGAAAACAAAGCACAAGG----GGAAAAAA-ATCCCTTGTTCCTAAAAATCTGTC---TTTT------TCAGATCCTATCTTATTGGCTG-TTTTCATTAAAGGGTCATGGTACTT---TAAAAATT---ATTTGGATTTGAGCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2682782 598 +   3667625 GAGCCGCAGCCAGCAGAT-------------------GGCCGGCCTTCCTCTGCTCTAATGCCTGTGATCCCATTACCTCACTGAATCCGTTACCAGGGTAACTGTTAAATTGCTGTGAAAGGCATGGTAATAAAGTAACCTGTCACACTGGCAATAAAAGGAGCAGAATTTTCCTGTTCACTGAACTTTGCAGCTCATCAATACTCACTTGATGGAGAAATTCACCACTATTCCA--GGGTCAGCCACAGGAATCTTTCCATCAGGCTTCTGAAATGCAAACTAAAGTTCATGTAAACACAAG-GAAGATATAATTAAAAGCTGGATTCTTAGCTGCA-CAGCACTAATGCTTCACTCTTTT-----CTCTGGAA-GGTTATGGGAGCTTGAAGAGCATCAGATTGCTCCCT---TTGTTGTTG-TTTTTTAATTTAAAGCATGCTAGAT------AAAAATACCCTTTACTAGTGAAAGACAGCTGTGATTTATCCAAGACCTGAAAAACAAAGCACAAGG---GGGAAAAAA-AACCCTTGTTCCTAAAA-TCTGCCTTATTTC-TTTTTTCAGATTCTGTCCTATTGGCTC-TTTTCATTAAAGGGTCATGGTACCT----AAAAAAT--TATTTGGATTTGAGCA
i dasNov3.JH567306         C 0 C 0

a score=13923.000000
s hg38.chr5_KI270796v1_alt    134051 1 +    172708 t
s panTro5.chr5             125237741 1 + 181907262 t
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126574451 1 + 183735486 t
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1766252 1 +   8933513 T
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139900513 1 + 163208435 T
i nomLeu3.chr2             I 2 C 0
s rheMac8.chr6             122885220 1 + 180051392 T
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124308846 1 + 181584905 T
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16307518 1 +  18395747 T
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5319953 1 +  26952557 T
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28420615 1 +  82825804 T
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4090472 1 -   4237731 T
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      359014 1 -   1175262 T
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123707183 1 - 204313951 t
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55751360 1 -  71252344 T
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       54789 1 -   3089952 T
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13255060 1 -  42888418 T
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60592881 1 + 108143057 T
i micMur3.chr12            C 0 I 59
s dasNov3.JH567306           2683380 1 +   3667625 T
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14959723 0 +  74389097 C
e proCoq1.NW_012155062v1     3628555 66 +  11683526 I
e otoGar3.GL873679           3118474 0 +   4132165 C
e mm10.chr18                55550439 12 +  90702639 I

a score=574246.000000
s hg38.chr5_KI270796v1_alt    134052 74 +    172708 ttttttt-ttttttgtttttttttt--------tAAGAATGGAGAGCCTTGGTTTTCATAAGCATAAGGAGTTGAAAACAGCA
s panTro5.chr5             125237742 75 + 181907262 tttttttgtttgtttgtttgttttt--------tAAGAATGGAGAGGCTTGGTTTTCATAAGCATAAGGAGTTGAAAACAGCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126574452 75 + 183735486 tttttttgtttgtttgtttgttttt--------tAAGAATGGAGAGGCTTGGTTTTCATAAGCATAAGGAGTTGAAAACAGCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1766253 64 +   8933513 TTTTTTT-----------TTTTTTT--------TAAGAATGGAGAGCCTTGGTTTTCATAAGCATAAGGAGTTGAAAACAGCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139900514 75 + 163208435 Ctttttttttttttttttttttttt--------tAAGAATGGAGAGCCTTGGTTTCCATAAGCATAAGGAGTTGAAAAGAGCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122885221 65 + 180051392 ATTTTTT----------TCTTTTTT--------AAAGAATGGGGAGCCTTGGTTTTCATAAGCATAAGGAGTTGAAAACAGCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124308847 65 + 181584905 GTTTTTT----------TCTTTTTT--------AAAGAATGGGGAGCCTTGGTTTTCATAAGCATAAGGAGTTGAAAACAGCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16307519 65 +  18395747 GTTTTTT----------TCTTTTTT--------AAAGAATGGGGAGCCTTGGTTTTCATAAGCATAAGGAGTTGAAAACAGCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5319954 65 +  26952557 GTTTTTT----------TCTTTTTT--------AAAGAATGGAGAGCCTTGGTTTTCATAAGCATAAGGAGTTGAAAACAGCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28420616 65 +  82825804 GTTTTTT----------TCTTTTTT--------AGAGAATGGAGAGCCTTGGTTTTCATAAGCATAAGGAGTTGAAAACAGCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4090473 65 -   4237731 GTTTTTT----------TCTTTTTT--------AAAGAATGGGGAGCCTTGGTTTTCATAAGCATAAGGAGTTGAAAACAGCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      359015 64 -   1175262 G-TTTTT----------TCTTTTTT--------AAAGACTGGAGAGCCTTGGTTTTCATAAGCATAAGGAGTTGAAAACAGCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123707184 72 - 204313951 tttcttt---ttttttttttttttt--------AAAGAATGGATAGCCTTGGTTTTCATAAGCTTAAGTAGTGGAAAACAATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55751361 62 -  71252344 TTTC-------------TTTTTTTT--------AAAGAATGGATAGCCTTGGTTTTCATAAGCTTAAGGAGTTGAAAACAATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       54790 62 -   3089952 TTTC-------------TTTTTTTT--------AAAGAATGGATAGCCTTGGTTTTCAGAAGCTTAAGGAGTTGAAAACAATA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13255061 63 -  42888418 TTTC-------------TTTTTTTTA-------AAAGAATGGATAGACTTGGTTTTCATAAGCTTAAGGAGTTGAAAACAGTA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3118474 55 +   4132165 -------------------------TTAAGGAAAAAAAATAGAAAGCATTGGTTTTCACAATAATGAAGAGACGAAAACA---
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55550451 29 +  90702639 ------------------------------------TTATGGCAAGCCTGAGTTTTCACAAGCAA------------------
i mm10.chr18               I 12 C 0
s canFam3.chr11             14959723 58 +  74389097 -----------------TTTAACAG--------TAAGAATGGAAAGCCTCGGTTTTAACAAGCATGAGGAGTTGAAAACAACA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2683381 57 +   3667625 ---------------TTTAATAATA--------TATGAAAGGGGGGCTTTGGTTTTCACAAGGAGGAAGAGTTGATCGCA---
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60592882 59 + 108143057 I
e proCoq1.NW_012155062v1     3628555 66 +  11683526 I

a score=157189.000000
s hg38.chr5_KI270796v1_alt    134126 12 +    172708 AGCCCCCTTCTT
s panTro5.chr5             125237817 12 + 181907262 AGCCCCCTTCCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126574527 12 + 183735486 AGCCCCCTTCCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1766317 12 +   8933513 AGCCCCCTTCCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139900589 12 + 163208435 AGGCCCCTTCCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122885286 12 + 180051392 AGGCCCCCTCCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124308912 12 + 181584905 AGGCCCCCTCCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16307584 12 +  18395747 AGGCCCCCTCCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5320019 12 +  26952557 AGCCCCCCTCCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28420681 12 +  82825804 AGCCCCCCTCCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4090538 12 -   4237731 AGCCCCCCTCCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      359079 12 -   1175262 AGCCCCCCTCCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123707256 12 - 204313951 AGTCTCCCTCCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55751423 12 -  71252344 AGTCCCCCTCCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       54852 12 -   3089952 AGTCCCCCTCCT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13255124 12 -  42888418 AGTCCCCCTCCT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60592941 12 + 108143057 ACCCCCCATCCC
i micMur3.chr12            I 59 C 0
s otoGar3.GL873679           3118529 10 +   4132165 --CCCCCTCCCC
i otoGar3.GL873679         C 0 I 4
s mm10.chr18                55550480 11 +  90702639 -CCCCCCCCCCT
i mm10.chr18               C 0 I 1
s canFam3.chr11             14959781 12 +  74389097 ATCTCCCCACCC
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2683438 12 +   3667625 CACCCCTTTCCT
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3628555 66 +  11683526 I

a score=1167224.000000
s hg38.chr5_KI270796v1_alt    134138 75 +    172708 CCAGCCCACCCCAACAGTTAGGGCTCATCAGTTCTAACTGCAAAGAGATGAATGTGTTCTGA---ATGTATG-GTGTGG
s panTro5.chr5             125237829 75 + 181907262 CCAGCCCACCCCAACAGTTAGGGCTCATCAGTTCTAACTGCAAAGAGATGAATGTGTTCTGA---ATGTATG-GTGTGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126574539 75 + 183735486 CCAGCCCACCCCAACAGTTAGGGCTCATCAGTTCTAACTGCAAAGAGATGAATGTGTTCTGA---ATGTATG-GTGTGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1766329 75 +   8933513 CCAGCCCATCCCAACAGTTAGGGTTCATCAGTTCTAACTGCAAAGAGATGAATGTGTTCTGA---ATGTATG-GTGTGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139900601 75 + 163208435 CCAGCCCACCCCAACAGTTAGGGCTCATCAGTTCTAACTGCAAAGAGATGAATGTGTTCTGA---ATGTATG-GTGTGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122885298 75 + 180051392 CCAGCCCACCCCAACAGTTAGGGCTCATCGGTTCTAACTGCGAAGAGATGAATGTGTTCTGA---ATGTATG-GTGTGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124308924 75 + 181584905 CCAGCCCACCCCAACAGTTAGGGCTCATCGGTTCTAACTGCGAAGAGATGAATGTGTTCTGA---ATGTATG-GTGTGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16307596 75 +  18395747 CCAGCCCACCCCAACAGTTAGGGCTCATCGGTTCTAACTGCGAAGAGATGAATGTGTTCTGA---ATGTATG-GTGTGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5320031 75 +  26952557 CCAGCGCACCCCAACAGTTAGGGCTCATCGGTTCTAACTGCGAAGAGATGAATGTGTTCTGA---ATGTATG-GTGTGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28420693 75 +  82825804 CCAGCCCACCCCAACAGTTAGGGCTCATCGGTTCTAACTGCGAAGAGATGAATGTGTTCTGA---ATGTATG-GTGTGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4090550 75 -   4237731 CCAGCGCACCCCAACAGTTAGGGCTCATCGGTTCTAACTGCGAAGAGATGAATGTGCTCTGA---ATGTATG-GTGTGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      359091 75 -   1175262 CCGGCCCACCCCAACAGTTAGGGCTCATCGGTTCTAACTGCGAAGAGATGAATGTGTTCTGA---ATGTATG-GTGTGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123707268 75 - 204313951 CCAGTCCACCCCAACAGTTAGGGCCCATCAGTTGTAACTGTGAAGAGATGAATGTGTTCTGC---ATGTATG-GTGTGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55751435 75 -  71252344 CCAGCCGACCCCAACAGTTAGGGCCCATCAGTTGTAACTGTGAAGAGATGAATGTGTTCTGA---ATGTATG-GTGTGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       54864 75 -   3089952 CCAGCCCACCCCAACAGTTAGGGCCCATCAGTTGCAACTGTGAAGAGATGAATGTGTTCTGA---ATGTATG-GTGTGG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13255136 75 -  42888418 CCAGCCCACCCCAACAGTTAGGGCCCATGAGTTGTAACTGTGAAGAGATGAATGTGTTCTGA---ATGTATA-GTGTGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60592953 75 + 108143057 CCATCCCACCCCAGCAGTTAGGGCCCATCAGTTCTGACTGCAAAGAGATAAATGTGTGCGAA---ATGTGTG-GTGTGG
i micMur3.chr12            C 0 I 6
s proCoq1.NW_012155062v1     3628621 75 +  11683526 CCATCCCACCCCAACAGTTAGGGCCCATCAGTTCTAACTGCAAAGAGATAAATGTGCCCTGA---ATGTATG-GCATGT
i proCoq1.NW_012155062v1   I 66 C 0
s otoGar3.GL873679           3118543 78 +   4132165 GCATCCCACTCCACCAGTTAGGGCCCATCAGCTCTAACTGGGAAGAGATGGATGTGCCCGTGTTCCTGCGTG-AGATGG
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55550492 71 +  90702639 CTTCCCCACACCAATATCTA----CTGTCAGTTGTTATTTTACAGAGATGAATACTCACTGA---GTGTGTC-TTGTGA
i mm10.chr18               I 1 C 0
s canFam3.chr11             14959795 76 +  74389097 CCTTCCCAGCCCAGCAGTTAGGGTCCATCAGCTGTAACTGCAAAGAGATAAACGTATGCTGA---ATGGATGCATATGA
i canFam3.chr11            I 2 C 0
s dasNov3.JH567306           2683450 65 +   3667625 -CTCCGCAATGCAATTGTTAGGGACCAACAGTTATAACTGTGAAGA-ATAAATGTAAACTGA---ATGTA---------
i dasNov3.JH567306         C 0 C 0

a score=97600.000000
s hg38.chr5_KI270796v1_alt    134213 8 +    172708 TTCTGTCT
s panTro5.chr5             125237904 8 + 181907262 TTCTGTCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126574614 8 + 183735486 TTCTGTCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1766404 8 +   8933513 TTCTGTCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139900676 8 + 163208435 TTCTGTCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122885373 8 + 180051392 TTCTGTCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124308999 8 + 181584905 TTCTGTCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16307671 8 +  18395747 TTCTGTCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5320106 8 +  26952557 TTCTGTCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28420768 8 +  82825804 TTCTGTCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4090625 8 -   4237731 TTCTGTCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      359166 8 -   1175262 TTCTGTCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123707343 8 - 204313951 TTCTGTCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55751510 8 -  71252344 TTCTGTCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       54939 8 -   3089952 TTCTGTCT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13255211 8 -  42888418 TTCTGTCT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3628696 8 +  11683526 CTGTGTCT
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55550563 6 +  90702639 CTACGT--
i mm10.chr18               C 0 C 0
s canFam3.chr11             14959871 8 +  74389097 CTTTGTCC
i canFam3.chr11            C 0 I 9
e micMur3.chr12             60593028 6 + 108143057 I
e otoGar3.GL873679           3118621 0 +   4132165 C
e dasNov3.JH567306           2683515 0 +   3667625 C

a score=11280936.000000
s hg38.chr5_KI270796v1_alt    134221 703 +    172708 CCCCCTCCTTCTATAAATGCCCTTCAAAGATTTCTATGTCATGGACTCTAGTGGTGACGCTACCAGGTATAAGATTTACTAGAGTTAATTGAGTGGGGTTCTTTGAAGTAAGAAAAGAGAATAGCCAAATGCTTTCTCAGTA-----TTAAAGAATAAGCAATAAGTTGAAAACCCTATTTACCTCAATTACATTTTGCAGCCAGACCTACAAACATACATGGAAAGTGGGAGTGGGGTATATCTATGCTGCCCTCATTACT-----AGGCATTTGCAGACTTCACGCTTTTGGCTCCATTTGGTGCTGTCA-TTAATTAGTCAGTATTAACCTTAGAATACTTTAGAGCTTGCCTATTGAAATAACTTTGGGCACACTCCTTTTT----CTCCCTCCCTCCCTTTCACTTGCAAGTGC---TTACAGCTTGTT-------AATAAAAAAC------------------TGA-------CAGTATTTCTTTGACCAGCCAGCAGCAGACATAAATCGTACTTCTAGTT----GTAGCTGCAACCCATGAAAAGAAATGCCTCCAAACAGGAATTGTCCTCATTACAGGCTGCCCAGC-ATGGAATTACTGCAGAGCCTCACTGGCTGGCCACATCAGATAGAGCCTTCGACTGGCATCTTAGACAGGATAGAGCTTTT-AGGAATGAGGTGGCAATGTGCTACAC----ATTAAAAAGTAGATGAGCTAGTTTTCAGTTAAAATCAGGAAAATGAAGGCTATG
s panTro5.chr5             125237912 708 + 181907262 CCCCCTCCTTCTATAAATGCCCTTCAAAGATTTCTATGTCATGGACTCTAGTGGTGACACTACCAGGTATAAGATTTACTAGAGTTAATTGAGTGTGGTTCTTTGAAGTAAGAAAGGAGAATAGCCAAATACTTTCTCAGTA-----TTAAAGAATAAGCAATAAGTTGAAAACCCTATTTACCTCAATTACCTTTTGCAGCCAGACCTACAAACATACATGGAAAGTGGGAGTAGGGTATATCTATGCAGCCCTCATTATGCATGAAGGCATTTGCAGACTTCATGCTTTTGGCTCCATTTGGTGCTGTCA-TTAATTAGTCAGTATTAACCTTAGAATACTTTAGAGCTTGCCTATTGAAATAACTTTGGGCACACTCCTTTTT----CTCCCTCCCTCCCTTTCATTTGCAAGTGC---TTACAGCTTGTT-------AATAAAAAAC------------------TGA-------CAGTATTTCTTTGACCAGCCAGCAGCAGACATAAACCGTACTTGCAGTT----GTAGCTGCAACCCATGAAAAGAAATGCCTCCAAACAGGAATTGTCCTCATTACAGGGTGCCCAGC-ATGGAATTACTGCAGAGCCTCACTGGCTGGCCACATCAGATAGAGCCTTCGACTGGCATCTTAGACAGGATGGAGCTTTT-AGGAATGAGGTGGCAATGTGCTACAC----ATTAAAAAGTAGATGAGCTAGTTTTCAGTTAAAATCAGGAAAATGAAGGCTATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126574622 708 + 183735486 CCCCCTCCTTCTATAAATGCCCTTCAAAGATTTCTATGTCATGGACTCTAGTGGTGACACTACCAGGTATAAGATTTACTAGAGTTAATTGAGTGTGGTTCTTTGAAGTAAGAAAGGAGAATAGCCAAATACTTTCTCAGTA-----TTAAAGAATAAGCAATAAGTTGAAAACCCTATTTACCTCAATTACCTTTTGCAGCCAGACCTACAAACATACATGGAAAGTGGGAGTAGGGTATATCTATGCAGCCCTCATTATGCATGAAGGCATTTGCAGACTTCATGCTTTTGGCTCCATTTGGTGCTGTCA-TTAATTAGTCAGTATTAACCTTAGAATACTTTAGAGCTTGCCTATTGAAATAACTTTGGGCACACTCCTTTTT----CTCCCTCCCTCCCTTTCACTTGCAAGTGC---TTACAGCTTGTT-------AATAAAAAAC------------------TGA-------CAGTATTTCTTTGACCAGCCAGCAGCAGACATAAACCGTACTTGCAGTT----GTAGCTGCAACCCATGAAAAGAAATGCCTCCAAACAGGAATTGTCCTCATTACAGGGTGCCCAGC-ATGGAATTACTGCAGAGCCTCACTGGCTGGCCACATCAGATAGAGCCTTCGACTGGCATCTTAGACAGGATGGAGCTTTT-AGGAATGAGGTGGCAATGTGCTACAC----ATTAAAAAGTAGATGAGCTAGTTTTCAGTTAAAATCAGGAAAATGAAGGCTATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1766412 703 +   8933513 CCCCCTCCTTCTATAAATGCCCTTCAAAGATTTCTATGTCATGGACTCTAGTGGTGACACTACCAGGTATAAGATTTACTAGAGTTAATTGAGTGTGGTTCTTTGAAGTAAGAAAGGAGAATAGCCAAATACTTTCTCAGTA-----TTAAAGAATAAGCAATAAGTTGAAAACCCTATTTACCTCAATTACCTTTTGCAGCCAGACCTACAAACATACATGGAAAGTGGGAGTGGGGTATATCTATGCAGCCCTCATTACT-----AGGCATTTGCAGACTTCACGCTTTTGGCTCCATTTGGTGCTGTCA-TTAATTAGTCAGTATTAACCTTAGAATACTTTAGAGCTTGCCTATTGAAATAACTTTGGGCACACTCCTTTTT----CTCCCTCCCTCCCTTTCACTTGCAAGTGC---TTACAGCTTGTT-------AATAAAAAAC------------------TGA-------CAGTATTTCTTTGACCAGCCAGCAGCAGACATAAACTGTACTTCTAGTT----GTAGCTGCAACCCATGAAAAGAAATGCCTCCAAACAGGAATTGTCCTCATTACAGGGTGCCCAGC-ATGGAATTACTGCAGAGCCTCACTGGCTGGCCACATCAGATAGAGCCTTTGACTGGCATCTTAGACAGGATGGAGCTTTT-AGGAATGAGGTGGCAATGTGCTACAC----ATTAAAAAGTAGATGAGCTGGTTTTCAGTTAAAATCAGGAAAATGAAGGCTATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139900684 698 + 163208435 CCCACTCCTTCTATAAATGCCCTTAAAAGATTTCTATGTCATGGACTGTAGTGGTGACACTACCAGGTATAAGATTTACTAGAGTTAATTGAGTGCGGTTCTTTGAAGTAAGAAAGGAGAATAGCCAAATACTTTCTCAGTA-----TTAAAGAATAAGCAATAAGTAGAAAACCCTATTTACCTCAATTACATTTTGTACCCAGACCTACAAACATACATGGGAAGTGGGAGTGGGGTATATCTATGCAGCCCTCATTACT-----AGGCATTTGCAGACTTCACGCTTTTGGCTCCATTTGGTGCTGTCA-TTAATT----AGTATTAACCTTAGAATACTTTAGAGCTTGCCTATTGAAATAACTTTGGGCGCACTCCTTTTT----CTCCCTCCCTCCCTTTCACTTGCAAGTGC---TTACAGCTTGTT-------AATAAAAAAC------------------TGA-------CAGTATTTCTTTGACCAGCCGGTAGCAGACATAAACCGTACTTCTAGTT----ATAGCTGCAACCCATGAAAAGAAATGCCTCCAAACAGGAATCGTCCCCATTACAGGGTG-CCAGC-ATGGAATTACTGCAGAGCCTCACTGGCTGGCCCCATCAGACAGAGCCTTCGATTGGCATCTTAGACAGGATGGAGCTTTT-AGGAATGAGGTGGCAATGTGCTGCAC----ATTAAAAAGTAGATGAGTTAGTTTTCAGTTAAAATCAGGAAAATGAAGGCTATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122885381 698 + 180051392 CCCCCTCCTTCTATAAATGCCCTTCAAAGATTTCTATGTCATGGATTCTAGTGGTGATACTACCAGGTATAAGATTTACTAGAGTTAATTGAGTGCGGTTCTTTGAAGTAAGAAAGGAGAATAGCCACATACTTTCTCAGTA-----TTAAAGAATAAGCAATAAGTAGAAAACCCTATTTACCTCAATTACATTTTGCAGCCAGACTTACAAACATACATGGACAGTGGGAGTGGGGTTTATCTATCCAGCCCTCATTACT-----AGGCATTTGCAGACTTCACACTTTTGGCTCCATTTGGTGCTGTCA-TTAATTAGTCAGTATTAACCTTAGAATACTTTAGAGCTTGCCTATTGAAATAACTTTGGGCACACTCCTTTTT----CTCCCTCCCTCCCCTTCACCTGTAAGTGC---TTACAGCTTGTT-------ATTAAAAAAC------------------TGA-------CAGTATTTCTTTGACCAACCAGCAGCAGACGTAAACTGTACTTCTAGTT----GTAGCTGCAACCCATGAAAA-AAATGCCTCCAAGCAGGAATTGTTCTCATTACAGGGTGCTCAGC-ATGGAATTACTGCAGAGCCTTACTGGTTGGCCACATCAGATAGAGTCTTCGATTGGCACCTTAGACAGGATGGAGCTTTT-AGGAATGAGGTGGCAATGTGCTGCAC----ATTAAAAAGTGGTTGAGC----TTTCAGTTAGAATCAGGAAAATGAAGGCTATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124309007 698 + 181584905 CCCCCTCCTTCTATAAATGCCCTTCAAAGATTTCTATGTCATGGATTCTAGTGGTGATACTACCAGGTATAAGATTTACTAGAGTTAATTGAGTGCGGTTCTTTGAAGTAAGAAAGGAGAATAGCCACATACTTTCTCAGTA-----TTAAAGAATAAGCAATAAGTAGAAAACCCTATTTACCTCAATTACATTTTGCAGCCAGACTTACAAACATACATGGACAGTGGGAGTGGGGTTTATCTATCCAGCCCTCATTACT-----AGGCATTTGCAGACTTCACACTTTTGGCTCCATTTGGTGCTGTCA-TTAATTAGTCAGTATTAACCTTAGAATACTTTAGAGCTTGCCTATTGAAATAACTTTGGGCACACTCCTTTTT----CTCCCTCCCTCCCCTTCACCTGTAAGTGC---TTACAGCTTGTT-------ATTAAAAAAC------------------TGA-------CAGTATTTCTTTGACCAACCAGCAGCAGACGTAAACTGTACTTCTAGTT----GTAGCTGCAACCCATGAAAA-AAATGCCTCCAAGCAGGAATTGTTCTCATTACAGGGTGCTCAGC-ATGGAATTACTGCAGAGCCTTACTGGTTGGCCACATCAGATAGAGTCTTCGATTGGCACCTTAGAGAGGATGGAGCTTTT-AGGAATGAGGTGGCAATGTGCTGCAC----ATTAAAAAGTGGTTGAGC----TTTCAGTTAGAATCAGGAAAATGAAGGCTATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16307679 698 +  18395747 CCCCCTCCTTCTATAAATGCCCTTCAAAGATTTCTATGTCATGGATTCTAGTGGTGATACTACCAGGTATAAGATTTACTAGAGTTAATTGAGTGCGGTTCTTTGAAGTAAGAAAGGAGAATAGCCACATACTTTCTCAGTA-----TTAAAGAATAAGCAATAAGTAGAAAACCCTATTTACCTCAATTACATTTTGCAGCCAGACTTACAAACATACATGGAAAGTGGGAGTGGGGTTTATCTATCCAGCCCTCATTACT-----AGGCATTTGCAGACTTCACACTTTTGGCTCCATTTGGTGCTGTCA-TTAATTAGTCAGTATTAACCTTAGAATACTTTAGAGCTTGCCTATTGAAATAACTTTGGGCACACTCCTTTTT----CTCCCTCCCTCCCCTTCACCTGTAAGTGC---TTACAGCTTGTT-------ATTAAAAAAC------------------TGA-------CAGTATTTCTTTGACCAACCAGCAGCAGACGTAAACTGTACTTCTAGTT----GTAGCTGCAACCCATGAAAA-AAATGCCTCCAAGCAGGAATTGTTCTCATTACAGGGTGCTCAGC-ATGGAATTACTGCAGAGCCTTACTGGTTGGCCACATCAGATAGAGTCTTCGATTGGCACCTTAGACAGGATGGAGCTTTT-AGGAATGAGGTGGCAATGTGCTGCAC----ATTAAAAAGTGGTTGAGC----TTTCAGTTAGAATCAGGAAAATGAAGGCTATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5320114 698 +  26952557 CCCCCTCCTTCTATAAATGCCCTTCAAAGATTTCTATGTCATGGATTCTAGTGGTGACACTACCAGGTATAAGATTTACTAGAGTTAATTGAGTGTGGTTCTTTGAAGTAAGAAAGGAGAATAGCCACATACTTTCTCAGTA-----TTAAAGAATAAGCAATAAGTAGAAAACCCTATTTACCTCAATTACATTTTGCAGCCAGACTTACAAACATACATGGAAAGTGGGAGTGGGGTTTATCTATCCAGCCCTCGTTACT-----AGGCATTTGCAGACTTCACGCTTTTGGCTCCATTTGATGCTGTCA-TTAATTAGTCAGTATTAACCTTAGAATACTTTGGAGCTTGCCTATTGAAATAACTTTGGGTACACTCCTTTTT----CTCCCTCCCTCCCTTTCACTTGTAAGTGC---TTACAGCTCGTT-------ATTAAAAAAC------------------TGA-------CAGTATTTCTTTGACCAACCAGCAGCAGACGTAAACTGTACTTCTAGTT----GTAGCTGCAACCCGTGAAAA-AAATGCCTCCAAGCAGGAATTGTTCTCATTACAGGGTGCTCAGC-ATGGAATTAGTGCAGAGCCTTACTGGTTGGCCACATCAGATAGAGTCTTCGATTGGCACCTTAGACAGGATGGAGCTTTT-AGGAATGAGGTGGCAATGTGCTGCAC----ATTAAAAAGTGGTTGAGC----TTTCAGTTAGAATCAGGAAAATGAAGGCTATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28420776 698 +  82825804 CCCCCTCCTTCTATAAATGCCCTTCAAAGATTTCTATGTCATGGATTCTAGTGGTGACACTACCAGGTATAAGATTTACTAGAGTTAATTGAGTGCGGTTCTTTGAAGTAAGAAAGGAGAATAGCCACATACTTTCTCAGTA-----TTAAAGAATAAGCAATAAGTAGAAAACCCTATTTACCTCAATTACATTTTGCAGCCAGACTTACAAACATACATGGAAAGTGGGAGTGGGGTATATCTATCCAGCCCTCGTTACT-----AGGCATTTGCAGACTTCACGCTTTTGACTCCATTTGGTGCTGTCA-TTAATTAGTCAGTATTAACCTTAGAATACTTTAGAGCTTGCCTATTGAAATAACTTTGGGCACACTCCTTTTT----CTCCCTCCCTCCCCTTCACTTGTAAGTGC---TTACAGCTCGTT-------ATTAAAAAAC------------------TGA-------CAGTATTTCTTTGACCAACCAGCAGCAGACGTAAACTGTACTTCTAGTT----GTAGCTGCAACCCATGAAAA-AAATGCCTCCAAGCAGGAATTGTTCTCATTACAGGGTGCTCAGC-ATGGAATTACTGCAGAGCCTCACTGCTTGGCCACATCAGATAGAGTCTTCGATTGGCACCTTAGACAGGATGGAGCTTTT-AGGAATGAGGTGGCAATGTGCTGCAC----ATTAAAAAGTGGATGAGC----TTTCAGTTAGAATCAGGAGAATGAAGGCTATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4090633 702 -   4237731 CCCCCTCCTTCTATAAATGCCCTTCAAAGATTTCTATGTCATGGATTCTAGTGGTGACACTACCAGGTATAAGATTTACTAGAGTTAATTGAGTGCGGTTCTTTGAAGTAAGAAAGGAGAATAGCCACATACTTTCTCAGTA-----TTAAAGAATAAGCAATAAGTAGAAAACCCTATTTACCTCAATTACATTTTGCAGCCAGACTTACAAACATACATGGAAAGTGGGAGTGGGGTTTATCTATCCAGCCCTCGTTACT-----AGGCATTTGCAGACTTCACGCTTTTGGCTCCATTTGGTGCTGTCA-TTAATTAGCCAGTATTAACCTTAGAATACTTTGGAGCTTGCCTATTGAAATAACTTTGGGCACACTCCTTTTT----CTCCCTCTCTCCCTTTCACTTGTAAGTGC---TTACAGCTCGTT-------ATTAAAAAAC------------------TGA-------CAGTATTTCTTTGACCAACCAGCAGCAGACGTAAACTGTACTTCTAGTT----GTAGCTGCAACCCGTGAAAA-AAATGCCTCCAAGCAGGAATTGTTCTCATTACAGGGTGCTCAGC-ATGGAATTAGTGCAGAGCCTTACTGGTTGGCCACATCAGATAGAGTCTTCGATTGGCACCTTAGACAGGATGGAGCTTTT-AGGAATGAGGTGGCAATGTGCTGCACTTTTTTTAAAAAGTGGTTGAGC----TTTCAGTTAGAATCAGGAAAATGAAGGCTATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      359174 701 -   1175262 CCCCCTCCTTCTATAAATGCTCTTCAAAGATTTCTATGTCATGGATTCTAGTGGTGACACCACTAGGTATAAGATTTACTAGAGTTAATTGAGTGCAGTTCTTTGAAGTAAGAAAGGAGAATAGCCACATACTTTCTCAGTA-----TTAAAGAATAAGCAATAAGTAGAAAACCCTATTTACCTCAATTACGTTTTGCAGCCAGACTTACAAACATACGTGGAAAGTGGGAGTGGGGTATATCTGTCCAGCCCTCATTACT-----AGGCATTTGCAGACTTCACGCTTTTGGCTCCATTTGGTGCTGTTA-TTAATTAGTCAGTATTAACCTTAGAATACTTTAGAGCTTGCCTATTGAAATAACTGTGGGCACACTCCTTTTTCTCCCTCCCTCCCTCCCTTTCACTTGTAAGTGC---TTACAGCTCGTT-------ATTTAAAAAC------------------TGA-------CAGTATTTCTTTGACCAACCAGCAGCAGACGTAAACTGTACTTCTAATT----GTAGCTGCAACCCATGAAAA-AAATGCCTCCAAGCAGGAATTGTTCTCATTACAGGGGGCTCAGC-ACGGAATTACTGCAGAGCCTTACTGGTTGGCCACATCAGATAGAATCTTCGATTGGCACCTTAGACAGGATGGAGCTTTT-AGGAATGAGGTGGCAATGTGCTGCAC----ATTAAAAAGTGGATGAGT----TTTCAGTTA-AATCAGGAAAATGAAGGCTATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123707351 684 - 204313951 CCCCCTCCTT------------TTTAAAGGTTTCTATGTCATGGATTCTAGCGGTGACACTACCAGGTATAAGATTTACTACAATTAACTGAGTGTGATTCTTTGAAGTAAGAAAGGAGAATAGCCAAATACATTCTCAGTA------TAAAGAA-AAGAAATGAGTAGAAAACTCTATTTACCTCAATTACATTTTGCAGCCAGACCTACGAACACACATGGAAAGTGGGAGTGGGGTGTATCTATCCAGCCCTCATTACT-----AGGCATTTGCAGACTTCAGGCTTTTGGCTCTATTTGGTGCTGTCG-TTAATTAGACAGTATTAACCTTAGAATACTTTGGAGCTTGCCCATTGAAATAA--CTGGGCACACTCCTTTTT----CTCCCTCCCTCCCTTTCACTTGCAAGTGC---CTGCAGCTTGTT-------ATTAAAAAAC------------------TGA-------CAGTATTTCTTTGACCAGCCAGCAGCAGACATAAACCCTACTTCTAGTT----GTAGCTGCAATCCATGAAAAGAAATGCCTCCAAGCAGGAATCGTCCTCATTACAGGGTGCTCAGC-ATGGAATGACTGCAGAGCCTCAACCGCTGGCCACATCAGATACAGCCTTCGATTGGCATCTCAGACAGGGTGGTGCTTTTAAGGAATGAGGTAGCAATGTGCCACAC----ATTGAAAAGTGGATGAGT----TTTGAGTTAGAATCAGGAAAATGAAGGCTATG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55751518 699 -  71252344 CTCCCTCCTTCTGTGAATGCCCTTCAAAGGTTTCTATGTCATGGATTCTAGCCGTGACACTATCAGGTATAAGATTTACTGAAATTAATTGAATGTGGTTCTTTGAAGTAAGAAAGGAGAATAGCCAAATACTTTCTCAGTA------TAAAGAATAGGAAATAAGTAGAAAACCCTATTTACCTCAATTACATTTTGCAGCCAGACCTAGGAACATACATGGAAAGTGGGAGTGGGGTGTATCTATCCAGCCCTCATTACT-----AGGCATTTGCAGACTTCAGGCTTTTGGCTCCATTTGGTGCTGTCA-TTAATTAGACAGTATTAACCTTAGAATACTTTGGAGCTTGCCCATTGGAATAACTCTGGGCACACTCCTTTTC----CTCCCTCCCTCCCTTTCACTTGCAAGTGC---CTGCAGCTTGTT-------ATTAAAAAAC------------------TGA-------CAGTATTTCTTTGACCAGCCAGCAGCAGACATAAACTGTACTTCGAGTT----GTAGCTGCAATCCATGAAAAGAAATGCCTCCAAGCAGGAATCGTCCTCATTACAGGGTGCTCAGC-ATGGAATGACTGCAGAGCCTCACCGGCTGGCCACATCAGATAGAGCCTTCGACTGGCACCTTAGACAGGATGGTGCTTTTAAGGAATGAGGTAGCAATGTGCCACGC----ATTGAAAAGTGGATGAGT----TTTGAGTTAGAATCAGGAAAATGAAGGCTATG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       54947 678 -   3089952 CCCTCTCCTTCTGTAAATGCCCTTCGAAGGTTTCTATGTCATGGATTCTAGCCGTGACACTATCAGGTATAAGATTTACTAAAATTACTTGAGTGTGGTTCTTTGAATTAAGAAAGGAGAATAGCCAAATACTTTCTCAGTA------TAATGAATAAGAAATGAGTAGAAAACCCTATTTACCTCAATTACATTTTGCAGCCAGACCTACGAACATGCATGGAAAGTGGGAGTTGGGTGTATCTATCCAGCCCTCATTACT-----AGGCATTTGCAGACTTCAGGCTTTTGGCTCCATTTGGTGCTGTCA-TTAATTAGACAGTATTAACCTTAGAATACTTTGGAGCTTGCCCATTGAAATAACTCTGGGCACACTCCTTTTT----CTCCCTCCCTCCCTTTCACTTGCAAGTGC---CTGCAGCTTGTT-------ATTAAAAAAC------------------TGA-------CAGTATTTCTTTGACCAGCCAGCAGCAGACATAAACCGTACTTCTAGTT----GTAGCTGCAATCCATGAAAAGAAATGCCTCCAAGCAAGAATCATCCTCATTACAGGGTGCTCAGC-ATGGAATGACTGCAGAGCCTCACCGGCTGGCCACATCAGATACAGCCTTCGATTGGCACCTTCG---------------------ATGAGGTAGCAGTGTGCCACGC----ATTGAAAAGTGGATGAAT----TTTGAGTTAGAATCAGGAAAATGAAGGCTATG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13255219 688 -  42888418 CCCCCTCCTTTTGT-----------AAAGGTTTCTATGTCATGGATTCTAGCGGTGACACTACCAGGTGTAAGATTTACTACAATTAATTGAGTGTGGTTCTTTGAAGTAAGAAAGGAGAATAGCCAAATACTTTCTCAGTA------TAAAGAATAAGAAATGAGTAGAAAACCCCATTTACCTCAATTACATTTTGCAGCCAGACCTACGAACATACATGGAAAGTAGGAGTGGGGTGTATCTATCCAGCCCTCATTACT-----AGGCATTTGCAGACTTCAGGCTTTTGGCTCCATTTGGTGCTGTCA-TTAATTAGACAGTATTAACCTTAGAATACTTTGGAGCTTGCCCATTGAAATAACTCTGGGCACACTCCTTTTT----CTCCCTCCCTCCGTTTCACTTGCAAGTGC---CTGCAGCTTGTT-------ATTAAAAAAC------------------TGA-------CAGTATTTCTTTGACCAGCCAGCAGCAGACATAAACCGTACTTCTAGTT----GTAGCTGCAATCCATGAAAAGAAATGCCTCCAAGCAGGAATCGTCCTCATTACAGGGTGCTCAGC-ATGGAATTACTGCAGAGCCTCACCGGCTGGCCACATCAGATACAGCCTTCGATTGGCACCTAAGACAGGATGGTGCTTTTAAGGAATGAGGTAGCAATGTGACATGC----ATTGAAAAGTGGATGAGT----TTTGAGTTAGAATCAGGAAAATGAAGACTGTG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60593034 691 + 108143057 ACCCCTCCTTCTGTAAATGCCCTGCAAAGATTTCTATGTCACAGATTCTAGCGGTGACACCACCAGGTGAAATATCCACTACAATTAATTGA----GGTTCTTTGAGGGAAGAAAGGAAAATAGCCAAACACTCTCTTGGTATTAAATTAAAGAATAAGAAATAAGTCGAAAACCCCATTTA-CTCAATTACATTTTGCAGCCAGACCTACAAACACACATGGAAAGTG------GGGTACATCCATCTAGCCCTCATTATT-----AGGCATTTGCAGACTTCACGCTTTCGGCTTCATTTGGTGCTGTCA-TTAATTAGGCAGCATTAACCTTAGAATACTTTGGAGCTTGCCGGTTGAAATAACTTTGGGCATACTCCTTTTC----CTCTGTCTCTCCCTTTGACTTGCAAGTGC---TTACAGCTTGCT-------ATTAAAAAAC------------------TGA-------CAGTGTTTCTTTGGCCAGCCGGCAGCAGACATAAACCATACTTGTAGTG----GTAGCTGCAAGCCATGAGAAGAAATGCCTCCAAGCAGGAATTGTCCTCATTACAGAGAGCTCAGC-ATGGGATGAC-GCAGAGCGTCACTGGCTGGTCACATCAGATAGGGCCTTCTATTGGCATCTTAGACCTGACAGTGCCTTT-AAGACTGGAGTGGCAATGTGC-ACAT----ATGGAAAAGTGGATGGGT----TTCCAGTCAGAGTCAGGAAAATGAAGGCTATG
i micMur3.chr12            I 6 C 0
s proCoq1.NW_012155062v1     3628704 681 +  11683526 ---CTCCCTCCTGTAAATGCCCTGCAAAGATTTCTATGTCACAGATTATAGCGGTGACACTACCAGGTGTAAGATCCACTACAATTAATTGA----GGTTCTTTGAGGTAAGAAAGGAGAATA-CCAAACACTCTCTCACTAGTAAATTAAAG-------AATAAGTAGAAAACCCCATTTACCTCAATTACATTTTGCAGCCAGACCTACAAACACACATAGAAAGTG------GGGTATATCCATCTAGCCCTCATTATT-----AGGCATTTGCAGACTTCACGCTTTTGGCTTCATTTGGTGCTGTCA-TTAATTAGGCAGCATTAACCTCAGAATACTTTGGAGCTTGCCTATAGAAATAACTTTGGGCATGCTCCTTTTC----CTCC-TCTCTCCCTTTGACTTGCAAGTGC---GTACAGCTTGTT-------ATTAAAAAAC------------------TGA-------CAGTATTTCTTTGACCAGCCGGCAGCAGACATAAACCATACTTCTAGTG----GTAGCTGCAAGCCATGAAAAGAAATGCCTCCAAGCAGGAATTGTCCTCATTACAGAGAGCTCAGC-AGGGGATGACTACAGAGCTTCAGTGGCTGGTCACATCAGACAGGGCCTTCTATTGGCATCTTAGACATGACGGTGCTTTT-AAGAATGAGGTGGCAATGTGC-ACAG----ATGGAAAAGTGGATGGGT----TTCCAGTCAGAATCAGGAAAATGAAGGCTATG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3118621 684 +   4132165 -----CCGGTCTATAAAAGCTCTACAAAGGTTTCTATGTCACGGATTCTAGTGGTGACACCAGCAGGTCTAAAATCCGCTACAATTAATTGA----GCTTCTTTGAGGTAAGACAGGAGAATAGCCACATACTCTCTCAGTGTTAAATTAAGGAATAAGAAATAAATAGAAAACCTCATTTACCTCAATTACATTTTGCAGCCAAACCTACAAAC-CACGTGGAAAGTG------GGGTCTATCTATCTAGCCCTCATTATT-----AGGCATTTGCAGACATCATGCTTTGGGCTTCATTTGGTGCTGTCA-TTAATTAGGTGGTATTAACCTTAGAATACTTTGGAGCTTGCCTATTGAAATAACTTTGCACATGCTCCTTTTT----CTCC----CTCCCTTTGACTTGCAAGAGC---TTACAGCTTGTT-------ATTAAAAAAC------------------TGA-------CAGTATTCCTTTAACCAGCCCGCAGCAGACATAAACCATACTTCTAGTG----GTAGCTGCAAGCCATGAAAAGAATTGCCTCTAAGCAGGAATTGTCCTCATTACAGAGCGCTCAGCGAGGGGATTACTGCAGAGCTTCATGGGCTGGTCACATCAGACAGGGCCTTCTAGGGGCATCTCAGTCATGATGGTACTTTT-AAGAACGAGGTGGCGATGTGCTACGT----ATGGAAAAGTGGATGGGT----TTCTAGTCAAAAGT-GGAAAATGAAGGCTTTG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55550569 645 +  90702639 -CCCCTTCTTCTGCAAA-GCCCTTTGGAGGTTTTTATATCATGACTTCTAGTGGCAACCTT-----------------------------------TATTCTCTATGGTAAGCAAACAGAATGTCCAAATA----------------TTAAGAAATGGGGAGTAAGTAGAAAACTTCATTTACTTCAATCGCATGTTGAAGCCAGCCCTCTTCACACACTTGGGAAGTA-------GGTATAACCGACTAGCTTTCATTCTT-----ATACATTTGTAGTCTTCAAGATTTGGGCTCCATTTCGAACCACCACTTAATTAGGCAGTGTTAACCCAAAAGTACTTTAAGACTTGCCTATTGATGTGTCTTGGGGCATGATCCCTTTT----CTCATGCCCTCCATTTGGCTAGCAGGTAAGAGTTACAGCTTGTTTAATAACAATAAAGAACAACAAACACAAACACAAATGAAAAATCTCAACATTT-TTGGACCAGCCCACAGCTGATATGAATCATATTCCTATTGGCCAGTAGCTACAACCCATGGAA--AACTGCCTCCAAACTGGCATGGCCCTCAATACAGATGTCTCAAG-AAATGGTCACCACAGAGCCTCACTGGTCGGCCAC--CATGTTGATGCTTTGATT-GCATCTTAGATAAGATG--------------------------GTGCCACCT----TAGGGGAAATGGAAGAGT----TCCTAGT--------AGAAAATGAAGGTTATG
i mm10.chr18               C 0 I 6394
s canFam3.chr11             14959888 664 +  74389097 CCCCCCCCTTCTGTAAATGCCCTTCAAGGGTTTCTGTGTCAAGGATTCTAGCGGTGACACCATCAGACACAAGATTTGCTACAATTAACTGA----GGTGCTTTAAGGTAAGAAACGAGAACAG-CAAACA----CTCAGCA-----CTAAAGGAGAAGAAATAAATAGAAACCCCCATTTATTTCAATTACATTTTGCAGCCAGCCCTATGAACATACATGGAAAGTG------GGATATATCTATCTAGCCCTCATTATT-----AGCCATTTGCAGACTTCATGCTTTTGGCTCCATTTGGCGCTGTCA-TTAATTAGGCGGTATTAACCTTAGAATGCGTTAGAGCTTGCCTATTGAAATAACTTTGGACACGCT--TTTTT----CTCTCTCCCTCCCTTTGACTTGCAAGTGC---TTATAGCTTGTT-------ATTGAAAAAC------------------TGA-------CAGTATTTCTTTGACTAGCCGGCAGCAGACGTGAACCATTCTTCTAGTG----GTAGCTACAACCCATGAAA------------------GAGTCATCTTCATTACAGATTGCTCAGC-ATGGGATCACAGCCGAGCGTCTTTGGCTGGCCACGTCCGGTAGGGTCTTGGATTGGTGTCTTAGAAATGATGGTGCTTTT-CAGAATGAGGTAGCAATGTGCCGCAC----ATGGAAAAGTGGATGAGA----TTTCAGCCAGAATCAGGCAAATGAAGGCTCTG
i canFam3.chr11            I 9 C 0
s dasNov3.JH567306           2683515 673 +   3667625 ------ACCTCTGAA------CTTCAGAGGTTCCTGTGTCATGGATTCTAGAAGTGACATGACCAGGCAGAAGACTTGCTGCAATTAATTGA----GATTCTTT-TGGTGAGAAAGGAGAATAACCA----CTCTCTCAACACTAAATTAAAGAATAAGAAATAAGTAGAAAACCCCATTTACCTCAATTACATTTTGTAGGCAGCCCTACAAACAC-CATGGAAAGAG------GGGTGTATCTATCTAGCCCTCATTATT-----AGCCATTTGCAGACTTCATGCTTTGGGCTCCATTTGGTGCTGTCA-TTAATTAGGTGGTATTAACCTTAGAATACTTTGGAGCTTGCCTATTGAACTAAGTTTGGACACACTCTTCTTT----TTCCCTCATTTTCTTTGACTTGCAAGCTC---TTACAGCTTGTT-------ATTAAAAAAC------------------TGA-------CAGTATTTCTTTGACCAGCCTGCAGCAGACATGAATCACACTTCTAGTG----GTAGCGGCAACCCATGAAAAGGAATGCTTCAAAGCAGGAATCATCCTCATTACAGAGTACTCAGC-ATGGGATTACAACAGAGCCTCGCTGGCTGGCCACATCAGATAGGGCCTTCAATTGGTATCTTAGACAGGATGGTGCTTTT-CAGAATGAGGTAGAGAAGGGCT---C----ATGGAAAAGTAAATGCGT----TTATACTCAGAATCAGAAAAGTGAAGGCTATG
i dasNov3.JH567306         C 0 C 0

a score=1214342.000000
s hg38.chr5_KI270796v1_alt    134924  87 +    172708 GCTTCATGGTATCCAAATTTGTTTAAAAATGGAAAATA-TTTTCTATCCTGTTGAAAG-CAATTCTTAA------------------------ATATAAAGTCACA---ACACACA--
s panTro5.chr5             125238620  87 + 181907262 GCTTCATGGTATCCAAAATTGTTTAAAAAAGGAAAATA-TTTTCTATCCTGTTGAAAG-CAATTCTTAA------------------------ATATAAAGTCACA---ACACACA--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126575330  87 + 183735486 GCTTCATGGTATCCAAAATTGTTTAAAAAAGGAAAATA-TTTTCTATCCTGTTGAAAG-CAGTTCTTAA------------------------ATATAAAGTCACA---ACACACA--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1767115  87 +   8933513 GCTTCATGGTATCCAAATTTGTTTAACAATGGAAAATA-TTTTCTATCCTGTTGAAAG-CAATTCTTAA------------------------ATATAAAGTcaca---acacaca--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139901382  85 + 163208435 GCTTCATGGTATCCAAATTTGTTTAAAAATGGAAAATA-TTTTCTATCCTGTTGAAAG-CAATTCTTAA------------------------ATATAAAGTCACA-----ACACA--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122886079  85 + 180051392 GCTTCATGGTATCCAAATTTGTTTAAAAATGGAAAATG-TTTTCTATCCTGTTGAAAG-CAATTCTTAA------------------------ATATAAAGTcaca-----acaca--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124309705  85 + 181584905 GCTTCATGGTATCCAAATTTGTTTAAAAATGGAAAATG-TTTTCTATCCTGTTGAAAG-CAATTCTTAA------------------------ATATAAAGTcaca-----acaca--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16308377  85 +  18395747 GCTTCATGGTATCCAAATTTGTTTAAAAATGGAAAATG-TTTTCTATCCTGTTGAAAG-CAATTCTTAA------------------------ATATAAAGTcaca-----acaca--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5320812  79 +  26952557 GCTTCATGGTATCCAAATTTGTTTAAAAATGGAAAATG-TTTTCTATCCTGTTGAAAG-CAATTCT------------------------------TAAAGTcaca-----acaca--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28421474  85 +  82825804 GCTTCATGGTATCCAAATTTGTTTAAAAATGGAAAATG-TTTTCTATCCTGTTGAAAA-CAATTCTTAA------------------------ATATAAAGTcaca-----acaca--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4091335  85 -   4237731 GCTTCATGGTATCCAAATTTGTTTAAAAATGGAAAATG-TTTTCTATCCTGTTGAAAG-CAATTCTTAA------------------------ATATAAAGTcaca-----acaca--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      359875  85 -   1175262 GCTTCATGGTATCCAAATTTGTTTAAAAATGGAAAATG-TTTTCTATCCTGTTGAAAG-CAATTCTTAA------------------------ATATAAAGTcaca-----acaca--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123708035  79 - 204313951 GCTTCATGGTATCCAAATTTGTTTAAAAATGGAAAATG-ATTTCTATCCCATTGAAAG-TAATTCT------------------------------TAAAGTCACA-----ACATG--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55752217  85 -  71252344 GCTTCATGGTATCCAAATTTGTTTAAAAATTGAAAATA-TTTTCTATCCCGTTGAAAG-CAATTTTTAA------------------------ATATAAAGTCACA-----ACATG--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       55625  86 -   3089952 GCTTCATGGTATCCAAATTTGTTTAAAAATTGAAAATGTTTTTCTATCCTGTTGAAAG-CAATTCTTAA------------------------ATATAAAGTCACA-----ACATG--
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13255907  85 -  42888418 GCTTCACGGTATCCAAATTTGTTTAAAAATTGAAAATG-TTTTCTATCCCGTTGAAAG-CAATTCTTAA------------------------ATATAAAGCCGCA-----ACACG--
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60593725  85 + 108143057 GCTTCATAATACCTGAATTTGTTTAAAAATAGAAAATG-GTTTCTATCCTGTTGGAAA-TGATTCTCAA------------------------ACATGGAGTcaca-----acaca--
i micMur3.chr12            C 0 I 23
s proCoq1.NW_012155062v1     3629385  85 +  11683526 GCTTCATGATACCTGAATTTGTTTAAAGATTGAAAATG-GTTTCTATCCTGTTGGAAA-CAATTCTCAA------------------------CCATGGAGTcaca-----acaca--
i proCoq1.NW_012155062v1   C 0 I 6
s otoGar3.GL873679           3119305  85 +   4132165 GCTTCATGACATCTGAATTTGTTTGAAAATTGAAAATT-GCTTCTATCCTGTTAGAAG-CAATTCTGAA------------------------ACATGGCGTCACC-----ATACA--
i otoGar3.GL873679         C 0 I 5
s canFam3.chr11             14960552 113 +  74389097 GCTTTGTGATAACCAAATTTGTTTAA-AATATGAAATG-TTTTCTGTCCTGTTGAAAA-TAACTCTTAAACgtgtgtgtgtgtgtgtgtgtgtATATATATacacacacacacaca--
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2684188  87 +   3667625 -GTTTACGATATCCAAATTTATTTAAAAACTGAAAATG-TTTTGTGTCCTGTTGAAAATCAACTCTCAA------------------------ACATGGAGTTcat-----acacaca
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55551214 6394 +  90702639 I

a score=173572.000000
s hg38.chr5_KI270796v1_alt    135011 17 +    172708 CATATATGCATATACAA
s panTro5.chr5             125238707 17 + 181907262 CATATATGCATATACAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126575417 17 + 183735486 CATATATGCATATACAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1767202 17 +   8933513 catatatgcatacacaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139901467 17 + 163208435 CATGTATACATACACAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122886164 17 + 180051392 catatatacatacacaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124309790 17 + 181584905 catatatacatacacaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16308462 17 +  18395747 catatatacatacacaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5320891 17 +  26952557 catatatacatacacaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28421559 17 +  82825804 catatatacatacacaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4091420 17 -   4237731 catatatacatacacaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      359960 17 -   1175262 cagatatacatacacaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123708114 17 - 204313951 CATATATACATACACAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55752302 17 -  71252344 CGTATTTACATGCACAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       55711 17 -   3089952 CATATATACATACACAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13255992 17 -  42888418 CTTATATACATACATAA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3629476 15 +  11683526 cacatacacatacac--
i proCoq1.NW_012155062v1   I 6 C 0
s otoGar3.GL873679           3119395  1 +   4132165 C----------------
i otoGar3.GL873679         I 5 C 0
s canFam3.chr11             14960665 17 +  74389097 cacatatgcaaacacac
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2684275 11 +   3667625 cacatacacat------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60593810 23 + 108143057 I
e mm10.chr18                55551214 6394 +  90702639 I

a score=121623.000000
s hg38.chr5_KI270796v1_alt    135028 7 +    172708 ACACACA
s panTro5.chr5             125238724 7 + 181907262 ACACACA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126575434 7 + 183735486 ACACACA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1767219 7 +   8933513 acacaca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139901484 7 + 163208435 AAATAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122886181 7 + 180051392 acacaca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124309807 7 + 181584905 acacaca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16308479 7 +  18395747 acacaca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5320908 7 +  26952557 acacaca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28421576 7 +  82825804 acacaca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4091437 7 -   4237731 acacaca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      359977 7 -   1175262 acacaca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123708131 7 - 204313951 ACACACA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55752319 7 -  71252344 ACACACA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       55728 7 -   3089952 ACACACA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13256009 7 -  42888418 ACACACA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60593833 7 + 108143057 acacaca
i micMur3.chr12            I 23 C 0
s proCoq1.NW_012155062v1     3629491 7 +  11683526 acacaga
i proCoq1.NW_012155062v1   C 0 I 15
s otoGar3.GL873679           3119396 7 +   4132165 ACACACA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14960682 7 +  74389097 acataca
i canFam3.chr11            C 0 I 7
s dasNov3.JH567306           2684286 7 +   3667625 acacaca
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55551214 6394 +  90702639 I

a score=47684.000000
s hg38.chr5_KI270796v1_alt    135035 8 +    172708 ATGTGAAT
s panTro5.chr5             125238731 8 + 181907262 ATGTGAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126575441 8 + 183735486 ATGTGAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1767226 8 +   8933513 ATGTGAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139901491 8 + 163208435 ATGTGAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122886188 8 + 180051392 acaTGAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124309814 8 + 181584905 acaTGAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16308486 8 +  18395747 ACGTGAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5320915 8 +  26952557 ACGTGAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28421583 8 +  82825804 ACGTGAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4091444 8 -   4237731 ACGTGAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      359984 8 -   1175262 AAGTGAGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123708138 8 - 204313951 ATGTGAAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55752326 8 -  71252344 GTGTGAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       55735 8 -   3089952 ATGTGAAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13256016 8 -  42888418 ATGTGAAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60593840 3 + 108143057 ATA-----
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3119403 3 +   4132165 ACA-----
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14960696 8 +  74389097 GCATGACA
i canFam3.chr11            I 7 C 0
s dasNov3.JH567306           2684293 1 +   3667625 ----G---
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3629498 15 +  11683526 I
e mm10.chr18                55551214 6394 +  90702639 I

a score=1907131.000000
s hg38.chr5_KI270796v1_alt    135043 136 +    172708 TGAATTGTAAAATGTGTATTCTACTACTGATATTTAAAGTGTTCCCTGTAATTATACTTCTCACCCTTCTGCATTTTCATACGGTTCC----AAGGAGAGAAAGAAGTAGAATTACAGAGGTAATTACTTGTGAACAACC
s panTro5.chr5             125238739 136 + 181907262 TGAATAGTAAAATGTGTATTCTACTACTGATATTTAAAGTGTTCCGTGTAATTATACTTCTCACCCTTCTGCATTTTCATACGGTTCC----AAGGAGAGAAAGAAGTAGAATTACAGAGGTAATTACTTGTGAACAACC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126575449 136 + 183735486 TGAATTGTAAAATGTGTATTCTACTACTGATATTTAAAGTGTTCCGTGTAATTATACTTCTCACCCTTCTGCATTTTCATACGGTTCC----AAGGAGAGAAAGAAGTAGAATTACAGAGGTAATTACTTGTGAACAACC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1767234 136 +   8933513 TGAATTGTAAAATGTGTATTCCACTACTGATATTTAAAGTGTTCCCTGTAATTATACTTCTCACCCTTCTGCATTTTCATACGGTTCC----AAGGAGAGAAAGAAGTAGAATTACAGAGGTAATTACTTGTGAACAACC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139901499 139 + 163208435 TGAATTGTAAAATGTGTATTCTACTACTGATATTTAAAGTGTTCCCTGTAATTATACTTCTCACCCTTCTGCATTTTCATACGGTTCC-AAGAAGGAGAGAAAGAAGTAAAATTACAGAGGTAATTACTTGTGAACAACC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122886196 140 + 180051392 TGAATTGTAAAATGTGTATTCTACTACTGATATTTAAAGTGTTCCGTGTAATTATAGTTCTCACCCTTCTGCATTTTCATAAGGTTCCCAAGAAGGAAAGAATGAAGTAGAATTACAGAGGTAATTACTTGCGAACAATC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124309822 140 + 181584905 TGAATTGTAAAATGTGTATTCTACTACTGATATTTAAAGTGTTCCGTGTAATTATAGTTCTCACCCTTCTGCATTTTCATAAGGTTCCCGAGAAGGAAAGAATGAAGTAGAATTACAGAGGTAATTACTTGCGAACAATC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16308494 140 +  18395747 TGAATTGTAAAATGTGTATTCTACTACTGATATTTAAAGTGTTCCGTGTAATTATAGTTCTCACCCTTCTGCATTTTCATAAGGTTCCCGAGAAGGAAAGAATGAAGTAGAATTACAGAGGTAATTACTTGCGAACAATC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5320923 140 +  26952557 TGAATTGTAAAATGTGTATTCTACTACTGATATTTAAAGTGTTCCGTGTAATTATAGTTCTCACCCTTCTGCATTTTCATAGGGTTCCCGAGAAGGAAAGAATGAAGTAGAATTACAGAGGTAATTACTTGCGAACAATC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28421591 140 +  82825804 TAAATTGTAAAATGTGTATTCTACTACTGATATTTAAAGTGTTCCGTGTAATTATAGTTCTCACCCTTCTGCATTTTCATAAGGTTCCCGAGAAGGAAAGAATGAAGTAGAATTACAGAGGTAATTACTTGCGAACAATC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4091452 140 -   4237731 TGAATTGTAAAATGTGTATTCTACTACTGATATTTAAAGTGTTCCGTGTAATTATAGTTCTCACCCTTCTGCATTTTCATAAGGTTCCCGAGAAGGAAAGAATGAAGTAGAATTACAGAGGTAATTACTTGCGAACAATC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      359992 140 -   1175262 TGAATTGTAAAATGTGTATTCTACTACTGATATTTAAAGTGTTCCGTGTAATTATAGTTCTCACCCTTCTGCATTTTCTTAAGGTTCCTGAGAAGGAGAGAATGAAGTAGAATTACAGAGGTAATTACTTGCGAACAATC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123708146 136 - 204313951 TGAATTGTAAAATGTGTATTTTACTACTGATATTTAAAGTGTTCCCTATAATTATACTTCTCACCCTTCTGCATTTTGATAAGTTTCCT---GAGGAGAGAAAGAAGTAGAATTATAGAGGTAATTAC-TGTGAAACCCC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55752334 136 -  71252344 TGAATTGTAAAATGTGTATTCTACTACTGATATTTAAAGTGTTCCCTGTAATTATACTTCTCACCCTTCTGCATTTTGATAAGTTTCCT---GAGGAGAGAAAGAAGTAGAATTATAGAGGTAATTAC-TGTGAACACCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       55743 135 -   3089952 TGAATTGTAAAATGTGTATTCTACTACTG-TATTTAAAGTGTTCCCTGTAATTATACTTCTCACCCTTCTGCATTTTGATAAGTTTCCT---GAGGAGAGAAAGAAGTAGAATTACAGAGGTAATTAC-TGTGAACACCC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13256024 136 -  42888418 TGAATTGTAAAATGTGTATTCTACTACTGATACTTAAAGTGTTACCTGTAATTATACTTCTCACCCTTCTGCATTTTGATAAGTTTCCT---GAGGAGAGAAAGAAGTAGAATTACAGAGGTAATTAC-TGTGAACACCC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60593843 140 + 108143057 TGAATTATAAAATGTGTATTTTACCCTTGATGTTTAAAGTGTTCCCAGTAACTATTCTTCTCACCTTTCTGCATTTTGATAAGGCTCCTGAGAAAGACAGAAAGAAGTAGAATTACACAGGTAACTACTTGTGAACAAGC
i micMur3.chr12            C 0 I 66
s proCoq1.NW_012155062v1     3629513 139 +  11683526 GGAACTGTAAAATGTGTGTTTTACCCTTGATatttaaagtgttccctataattattcttctcacccttctgcatcttgataaggttcctgagaaagacagaaagaagtagaattacagaggc-actacttgtgaacaacc
i proCoq1.NW_012155062v1   I 15 C 0
s otoGar3.GL873679           3119406 140 +   4132165 TGAATCGCAAAATGTGTATTATACTGTCCATACTTAAAGTGATCCCTACACTTACTCTTCCTACCCTTCTGCATCTTGATAAGGTTCCCAAAAAGGACAGAAAGAAGTAGAATTACAAAGGTAACTACCCGTGAAACTGT
i otoGar3.GL873679         C 0 I 1
s canFam3.chr11             14960704  81 +  74389097 TAATTTGTAAAATGTATATTTTACTGATGATGCT----------------------------------------------------------AAGTAGCAGAGAAAGTAGAATTGCAGAGGTGGCTGCTTGTAAACAAC-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2684294 128 +   3667625 -GAATTGTAAAATGTGCACTTTACTGCTGATATCAAAAGTGTTCC-TATAATTCTATTTCTTGCCTTTTTGCATTTTTATAAGGTTCCT----------GGTAGAAGTAGAATTACAGAGGTAAAAAATTTTGAACAACC
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55551214 6394 +  90702639 I

a score=715293.000000
s hg38.chr5_KI270796v1_alt    135179 71 +    172708 T-----CTCCTCCCCCCAGTCATATGCTGCC-ATCACTATGAAGGTTTTCCATGGGTGTCAGGGAAGGAGGCTGTCT
s panTro5.chr5             125238875 71 + 181907262 T-----CTCCTCCCCCCAGTCATATGCTGCC-ATCACTATGAAGGTTTTCCATGGGTGTCAGGGAAGGAGGCTGTCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126575585 71 + 183735486 T-----CTCCTCCCCCCAGTCATATGCTGCC-ATCACTATGAAGGTTTTCCATGGGTGTCAGGGAAGGAGGCTGTCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1767370 71 +   8933513 T-----CTCCTCCCCCCAGTCATATGCTGCC-ATCACTATGAAGGTTTTCCATGGGTGTCAGGGAAGGAGGCTGTCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139901638 71 + 163208435 T-----CCCCTCCCCCCAGTCATATGCTGCC-ATCACTATGAAAGTTTTCCATGGGTGTCAGGGAAGGAGGCTCTCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122886336 76 + 180051392 CCCCCTCCCCTCCCCCAAGTCATATGCTGCC-ATCACTATGAAGGTTTTCCACGGGTGTCATGGCAGGAGGCTGTCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124309962 76 + 181584905 CCCCCTCCCCTCCCCCAAGTCATATGCTGCC-ATCACTATGAAGGTTTTCCACGGGTGTCATGGCAGGAGGCTGTCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16308634 71 +  18395747 C-----CCCCTCCCCCAAGTCATATGCTGCC-ATCACTATGAAGGTTTTCCACGGGTGTCATGGCAGGAGGCTGTCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5321063 71 +  26952557 C-----CCCCTCCCCCAAGTCATATGCTGCC-ATCACTATGAAGGTTTTCCACGGGTGTCATGGCAGGAGGCTGTCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28421731 71 +  82825804 C-----CCCCTCCCCCAAGTCATATGCTGCC-ATCACTATGAAGGTTTTCCACGGGTGTCATGGAAGGAGGCTGTCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4091592 71 -   4237731 C-----CCCCTCCCCCAAGTCATATGCTGCC-ATCACTATGAAGGTTTTCCACGGGTGTCATGGCAGGAGGCTGTCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      360132 71 -   1175262 C-----CCCCTCCCCCAAGTCATATGCTGCC-ATCACTATGAGGGTTTTCCACGGGTGTCATGGAAGGAGGCTGTCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123708282 70 - 204313951 T----CCCTTCCCCCCCAGTCCCATGCTGCC-ATCACGTTA--GGTTTTCCTTGGGTGTCAGGGAAGGAGGCTGGCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55752470 70 -  71252344 C----TCCCCTCCCTCCAGTCCTATGCTGCC-ATCTCGTTG--GGTTTTCCTTGGGTGTCATGGAAGGAGGCTGGCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       55878 70 -   3089952 C----TCCACTCCCCCGAGTCCTATGCTGCC-ATCACGTTG--GGTTTTCCTTGGGTGTCAGGGAAGGAGGCTGGCT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13256160 70 -  42888418 C----TCCCCTCCCCGCAGTCCTATGCTGCC-ATCGCGTTG--GGTTTTCCTTGGGCGTCAGGGAAGGAGGCTGGCT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3629652 69 +  11683526 ------cCCCAACCCCCAGTGGTGTGCTGCC-AACCCTATGAAGGCTTTCCAT-GGTTCCAGGGCAGGAGAATGTCG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3119547 69 +   4132165 -----CCCCCATCTCCCCTTGACATATGGCC-AACCCTATGAAGGCTCCCCATGGGTGCCAGTGCAGAAAAGTCT--
i otoGar3.GL873679         I 1 C 0
s canFam3.chr11             14960785 70 +  74389097 -----TTTCAGCCCACAAATGGTATGTTATC-ACTCCTATGAAGG-TTTCCATGGGTGTCAGGAGGGGAGAAAGTCT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2684422 54 +   3667625 ------CCAGGCCCACCAATGGTAGGCTGTCAACCCCAATGGAGGCTTTGCATGGATATC-----------------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60593983 66 + 108143057 I
e mm10.chr18                55551214 6394 +  90702639 I

a score=2112244.000000
s hg38.chr5_KI270796v1_alt    135250 155 +    172708 TTTTCTACACCAGAGATGGTCCAGCTAAATTTGGAAGAATAAGAACTAGTTTATAT--AATAGCTAAAAATGAGCTAGATC-TTTAGATCAGGTGCTGTaaataccaatggtgccacgagaattacataaatgtgtgaggtcggttggatgtgagaaa
s panTro5.chr5             125238946 155 + 181907262 TTTTCTACACCAGAGATTGTCCAGCTAAATTTGGAAGAATAAGAACTAGTTTATAT--AATAGCTAAAAATGAGCTAGATC-TTTAGATCAGGTGCTGTaaataccaatggtgccacgagaattacataaatgtgtgaggtgggttggatgtgagaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126575656 155 + 183735486 TTTTCTACACCAGAGATTGTCCAGCTAAATTTGGAAGAATAAGAACTAGTTTATAT--AATAGCTAAAAATGAGCTAGATC-TTTAGATCAGGTGCTGTaaataccaatggtgccacgagaattacataaatgtgtgaggtgggttggatgtgagaaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1767441 155 +   8933513 TTTTCTACACCAGAGATTGTCCAGCTAAATTTGGAAGAATAAGAACTAGTTTATAT--AATAGCTAAAAATGAGCTAGATC-TTTAGATCAGGTGCTGTAAATACCAGTggtgccacgagagttacataaacgtgtgaggtgggttggatgtgagaaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139901709 154 + 163208435 TTTTCTACACCAGAGATTGTCCAGCTAAATTGGGAAGAATAAGAACTAGTTTATAT--AATAGCTAAAAATGAGCTAGATC-TTTAGATGAGGTGCTGTaaataccaatggtgccactagagttacataaatgtg-gaggtgggttgggtgtgagaaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122886412 157 + 180051392 TTTTCTACACCAGAGATTGTCCAGCTAAATTTGGAAGAATAAGAACTAGTTTATATAAAATAGCCAAAAATGAGCTAGATC-TTTAGATCAGCTGCTATAAATACCAGTGGTGCCATGAGAGTTACATAAATGTGTGAAGTGGGTTGGATGTGAGAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124310038 157 + 181584905 TTTTCTACACCAGAGATTGTCCAGCTAAATTTGGAAGAATAAGAACTAGTTTATATAAAATAGCCAAAAATGAGCTAGATC-TTTAGATCAGCTGCTATAAATACCAGTggtgccatgagagttacataaatgtgtgaagtgggttggatgtgagaaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16308705 157 +  18395747 TTTTCTACACCAGAGATTGTCCAGCTAAATTTGGAAGAATAAGAACTAGTTTATATAAAATAGCCAAAAATGAGCTAGATC-TTTAGATCAGCTGCTATAAATACCAGTGGTGCCATGAGAGTTACATAAATGTGTGAGGTGGGTTGGATGTGAGAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5321134 155 +  26952557 TTTTCTACACCAGAGATTGTCCAGCTAAATTTGGAAGAATAAGAACTAGTTTATAT--AATAACCAAAAATGAGCTAGATC-TTTAAATCAGCTGCTATAAATACCAGTGGTGCCACGAGAGTTACATAAATGTGTGAGGTGGGTTGGATGTGAGAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28421802 155 +  82825804 TTTTCTACACCAGAGATTGTCCAGCTAAATTTGGAAGAATAAGAACTAGTTTATAT--AATAGCCAAAAATGAGCTAGATC-TTTAGATCAGCTGCTATAAATACCAGTggtgccacgagagttacataaatgtgtgaggtgggttggatgtcagaaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4091663 155 -   4237731 TTTTCTACACCAGAGATTGTCCAGCTAAATTTGGAAGGATAAGAACTAGTTTATAT--AATAGCCAAAAATGAGCTAGATC-TTTACATCAGCTGCTATAAATACCAGTGGTGCCACGAGAGTTACATAAATGTGTGAGATGGGTTGGATGTGAGAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      360203 155 -   1175262 TTTTCTACACCAGAGATTGTCCAGCTAAATTTGGAAGAATAAGAACTAGTTTATAT--AATAGCCAAAAATGAGCTAGATC-TTTAGATCAGCTGTTATAAATACCAATGGTGCCACGAGAGTTACATAAGTGTGTGAGGTGGGTTGGATGTGAGAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123708352 155 - 204313951 TTTTCTACACCAGGGATTGTCCAGCTAAATTTGGAAGAATAAGAACTAGTATATAT--AATAACCAAAAATGAGCTAGATC-TTTAGATCAGGTGCTATAAATACCAATGGTGCCACAAGAGTTACATAAATGTGTGAGGTGGGTTGGATGTGAGCAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55752540 128 -  71252344 TTTTCTACACCAGGGATTGTCCAGCTAAATGTGGAAGAATAAGAGCTAGTGTATAT--AATAACCAAAAATGAGCTAGCTC-TTTAGATCAGGTGTTGCAAATACC------------------ACAGAGATGTGTGA---------gatgtgagaaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       55948 154 -   3089952 TTTTCTACACCAGAGATT-TTCAACTAAATGTGGAAGAATAAGAACTAGTATATAT--AATAACCAAAAATGAGCTAGATC-TTTAGATCAGGTGCTGTaaataccaatggtgccagaagagctacgtaaatgtgtgaggtgggttggatgtgagaaa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13256230 155 -  42888418 TTTTCTACACCAGGGATTGTCCAGCTAAATTTGGAAGAATAAGAACTAGTGTAGAT--AATAACCAAAAATGAGCTAGATC-TTTAGATCAGTTGCTGTAAATACCAGTggtgccacaagagttacataaatgtgtgaggtgggttggatgtgagaaa
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60594049 155 + 108143057 TTTTCTACACCAAGGATTGGCCAGCTAAATTTGGGAGAACAAGATCCAGTATAAAT--AATCACCAAAAATGAGCCACATC-TTCAGATCAGGTGCTGTaaataccaatggggccaggagaggtacataaatgtgtgaagtgaattggaggtgagaaa
i micMur3.chr12            I 66 I 420
s proCoq1.NW_012155062v1     3629721 153 +  11683526 TCTTCTACACCAAGGATTGGCCAGCTAAATTTGGAAGAACAGGATCCAGTATAAAT--AATCACCAAAAGTGAGCTACACC-TTCAGATCAGGTGCTGTAAATACCAGTggagccag--gaggtacataaatgtgtgaagtggattggaggtgagaaa
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3119616 150 +   4132165 TTGTTTAAATCAAAAATTGCCCAGCTAAATTTGGAAAAATATGATTTAGCATAAAT--GATCGCCAAAAATGAGCTAGACC-TTCAGATCTG-----GTAAATATCAATGAGGTTGGCTGAGTTACATGAATGTGTTGAGTGGATGAAAAGTGAAAAG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14960855 131 +  74389097 TTTTTTACCCTACAGATTACCTAAATAAATTTGGAAGAACATGATATAATATAAAT--AATCACCAAATATGAACTAGGCC-TTTAGATCAGATTCCATAAATACCGACAGAGCC-----------------------GGTGCATTGGGAGTAGAAA-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2684476 131 +   3667625 -------TATTGGGGATTGTTT------GTTTGGAAGCATAA------------AT--GGTCACCAAATTTAAGCTAAACCTTTTAGACCACATGCCACAAACACTCAaggggccaggtaagttacataaatgtaagatattaattggacatgagaaa
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55551214 6394 +  90702639 I

a score=764051.000000
s hg38.chr5_KI270796v1_alt    135405 58 +    172708 atggaagatggtgggcttgtca----tccactggataatctattccttctttaaaggggaca
s panTro5.chr5             125239101 58 + 181907262 atggaagatggtgggcttgtca----tccactggataatctattccttctttaaaggggaca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126575811 58 + 183735486 atggaagatggtgggcttgtca----tccactggataatctattccttctttaaaggggaca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1767596 58 +   8933513 atggaagatggtgggcttgtca----tccactggataatctattccttctttaaaggggaca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139901863 58 + 163208435 atggaagatggtggccttgtca----tccactggataatctattccttctttaaaggggaca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122886569 58 + 180051392 ATGGAAGATGGTGGCCTTGTCA----TCCACTGGATAATCTATTCCTTCTTTAAAGGGGACA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124310195 58 + 181584905 atggaagatggtggccttgtca----tccactggataatctattccttctttaaaggggaca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16308862 58 +  18395747 ATGGAAGATGGTGGCCTTGTCA----TCCACTGGATAATCTATTCCTTCTTTAAAGGGGACA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5321289 58 +  26952557 ATGGAAGATGGTGGCCTTGTCA----TCCACTGGATAATCTATTCCTTCTTTAAAGGGGACA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28421957 58 +  82825804 atggaagatggtggccttgtca----tccactggataatctattccttctttaaaggggaca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4091818 58 -   4237731 ATGGAAGATGGTGGCCTTGTCA----TCCACTGGATAATCTATTCCTTCTTTAAAGGGGACA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      360358 53 -   1175262 ATGGAAGATGGTGGCCTTGTCA----TCC-----ATAATCTATTCCTTCTTTAAAGGGGACA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123708507 57 - 204313951 ATGGAAGATGGTGGCTTTGTCA----TCCATTGGATAATCTG-TTCTTCTTTAAAGGGGTCA
i calJac3.chr2             C 0 M 290
s saiBol1.JH378106          55752668 58 -  71252344 atggaagatggtggctttgtca----ccaattggataatatattttttctttaaaggggtca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       56102 58 -   3089952 atggaagatggtggctttgtca----tcaattggataatctatttcttctttaaaggggtca
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13256385 58 -  42888418 atgggagatggtggctttgtca----tcaattggataatctatttcttctttaaaggggtca
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3629874 56 +  11683526 atggg-aatgatggccctgtgg----tcacctggataatccagtccttctctaaagg-gaca
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3119766 62 +   4132165 ATGGGAAATGGTAGCCCTGTGGTCACTCACCTAGACAATCCCTTTCCTCTCTAAAGATGACT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14960986 58 +  74389097 ATGAAagatggtgacattgtgg----tcaactggataatccagttcctctctaaagataaca
i canFam3.chr11            C 0 I 4
s dasNov3.JH567306           2684607 57 +   3667625 atggaa-atggtggccatgtgg----tcaactggagaattcattccctctctgaaggggaca
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60594204 420 + 108143057 I
e mm10.chr18                55551214 6394 +  90702639 I

a score=368044.000000
s hg38.chr5_KI270796v1_alt    135463 37 +    172708 gtattatttaactgccatctactctttccatgtagct
s panTro5.chr5             125239159 37 + 181907262 gtattatttaactgccatctactctttccatgtagct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126575869 37 + 183735486 gtattatttaactgccatctactctttccatgtagct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1767654 37 +   8933513 gtattatttaactgccatctactctttccatgtagct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139901921 37 + 163208435 gtattatttaactgccatcttctctttccatgtagct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122886627 33 + 180051392 GTATTATTTAACTGCCATATACTCTTTCCATGT----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124310253 33 + 181584905 gtattatttaactgccatatactctttccatgt----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16308920 33 +  18395747 GTATTATTTAACTGCCATATACTCTTTCCATGT----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5321347 33 +  26952557 GTATTATTTAACTGCCATATACTCTTTCCATGT----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28422015 33 +  82825804 gtattatttaactgccatatactctttccatgt----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4091876 33 -   4237731 GTATTATTTAACTGCCGTATACTCTTTCCATGT----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      360411 33 -   1175262 GTATTATTTAACTGCCATGTACTCTTTCCATGT----
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55752726 37 -  71252344 gtattatctaactgccatctactctttccatgtagca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       56160 37 -   3089952 gtattatttaactgccatctactctttccatgtagca
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13256443 37 -  42888418 gtattatttaactgccgtctactctttccacgtagca
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3629930 37 +  11683526 gtactatttaactgccatccttggtttccatgtagct
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3119828 37 +   4132165 GTATTATTGAATTCCCATCTGTGGTTCCCATGTACCT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14961048 37 +  74389097 tcattactcaactgtcttccattatttccatgtagct
i canFam3.chr11            I 4 C 0
s dasNov3.JH567306           2684664 36 +   3667625 gcattatggagtggcc-tctactgtttctttttggct
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60594204 420 + 108143057 I
e mm10.chr18                55551214 6394 +  90702639 I
e calJac3.chr2             123708564 290 - 204313951 M

a score=37779.000000
s hg38.chr5_KI270796v1_alt    135500 10 +    172708 aaggag-agtc
s panTro5.chr5             125239196 10 + 181907262 aaggag-agtc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126575906 10 + 183735486 aaggag-agtc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1767691 10 +   8933513 aaggag-agtc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139901958 10 + 163208435 aaggag-catc
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123708856 11 - 204313951 AAGGAGAAGTC
i calJac3.chr2             M 290 C 0
s saiBol1.JH378106          55752763 10 -  71252344 aaggag-agtc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       56197 10 -   3089952 aaggag-agtc
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13256480 10 -  42888418 aaagag-agtc
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3629967 10 +  11683526 aagagg-agtc
i proCoq1.NW_012155062v1   C 0 I 129
s otoGar3.GL873679           3119865  9 +   4132165 AAGGGG-ACT-
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14961085 10 +  74389097 gaggca-agtt
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2684700 10 +   3667625 tgaggg-agtc
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60594204 420 + 108143057 I
e manLeu1.NW_012103321v1     4091909  0 -   4237731 C
e chlSab2.chr23             28422048  0 +  82825804 C
e cerAty1.NW_012002512v1     5321380  0 +  26952557 C
e macNem1.NW_012012355v1    16308953  0 +  18395747 C
e macFas5.chr6             124310286  0 + 181584905 C
e rheMac8.chr6             122886660  0 + 180051392 C
e mm10.chr18                55551214 6394 +  90702639 I
e colAng1.NW_012119644v1      360444  0 -   1175262 C

a score=322469.000000
s hg38.chr5_KI270796v1_alt    135510 34 +    172708 tcct-gtcatcacatctcccgacttt--tcaagagag
s panTro5.chr5             125239206 34 + 181907262 tcct-gtcatcacatctcctgacttt--tcaagagag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126575916 34 + 183735486 tcct-gtcatcacatctcctgacttt--tcaagagag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1767701 34 +   8933513 tcct-gtcatcacatctcctgacttt--tcaagagag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139901968 34 + 163208435 tcct-gtcatcacatctcttgactct--tcaagagaG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122886660 32 + 180051392 --CT-GTCATCACATCTCTTGACTTT--TCAAGAGAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124310286 32 + 181584905 --ct-gtcatcacatctcttgacttt--tcaagagag
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16308953 32 +  18395747 --CT-GTCATCACATCTCTTGACTTT--TCAAGAGAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5321380 32 +  26952557 --CT-GTCATCATATCTCTTGACTAT--TCAAGAGAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28422048 32 +  82825804 --ct-gtcatcacatctctcaacttt--tcaagagag
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4091909 32 -   4237731 --CT-GTCATCACATCTCTTGACTTT--TCAAGAGAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      360444 32 -   1175262 --CT-GTCATCACATCTCTTGACTTT--TCAAGAGAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123708867 33 - 204313951 TCCCTATTATCACATCTTTTGACTTT--TCAAGAA--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55752773 32 -  71252344 tccc-attatcacatcttttgatttt--tcaagaa--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       56207 32 -   3089952 tcct-gttatcacatcttttgacttt--tcaagaa--
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13256490 30 -  42888418 tcct-gt--tcacatcttttgacttt--tcaagaa--
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3119874 32 +   4132165 --CT-GTCCTTAGAGCTCTTAACTTT--TCAAGAGAG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14961098 30 +  74389097 tgct-gtca--aaatatttcgact-t--tcaagaaa-
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2684710 36 +   3667625 cact-gtgatcaaatcccttgactttactcaaatgag
i dasNov3.JH567306         C 0 I 32
e micMur3.chr12             60594204 420 + 108143057 I
e proCoq1.NW_012155062v1     3629977 129 +  11683526 I
e mm10.chr18                55551214 6394 +  90702639 I

a score=1699105.000000
s hg38.chr5_KI270796v1_alt    135544 181 +    172708 tcagCCCCAGATAAAAACTT----------------------GAATCGAATtatattagtttgctggagcagcaataacaaa-gtattaaaa--ctgagtagcttaaaccagtggtctccaacttttttagca-ccaaggactggttttgtggaagataatattttcatggccaaggtgggggctggcaggtggttttggaatgaaa
s panTro5.chr5             125239240 181 + 181907262 tcagCCCCAGATGAAAACTT----------------------GAATCGAATtatattagtttgctagagcagcaataacaaa-gtattacaa--ctgagtagcttaaaccagtggtctccaacttttttagca-ccaaggactggttttgtggaagacaatattttcatggccaaggtgggggctggcaagtggttttggaatgaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126575950 181 + 183735486 tcagCCCCAGATGAAAACTT----------------------GAATCGAATtatattagtttgctagagcagcaataacaaa-gtattacaa--ctgagtagcttaaaccagtggtctccaacttttttagca-ccaaggactggttttgtggaagacaatattttcatggccaaggtgggggctggcaagtggttttggaatgaaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1767735 181 +   8933513 tcagCCCCAGATAAAAACTT----------------------GAATCGAATtatattagtttgctggagcagcaataacaaa-gtattacaa--ctgagtagcttaaaccagtggtctccaacttttttagca-ccaaggactggttttgtggaagacaatattttcatggccaaggtgggggctggcaggtggttttggaatgaaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139902002 181 + 163208435 TAAGCCCCAGATAAAAACTT----------------------GAATCGAATtatattagtttgctggagcagcaataacaaa-gtattacaa--ctgagtagcttaaaccagtggtctccaaattttttagca-ccaaggactggttttctggaagacaatattttcatggccaaggtgggggctggcaggtggttttggaatgaaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122886692 181 + 180051392 CCAGCCCCAGACAAAAACTT----------------------GAATCGAATtatattagtttgctggagcagccataacaaa-gtattacaa--ctgagtagcttaaaccagtggtccccaacctttttagca-ccaaggactggttctgaggaagacaatattttcatggccaaggtgggggctggcaggtggttttggaatgaaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124310318 181 + 181584905 ccagCCCCAGACAAAAACTT----------------------GAATCGAATtatattagtttgctggagcagccataacaaa-gtattacaa--ctgagtagcttaaaccagtggtccccaacctttttagca-ccaaggactggttctgaggaagacaatattttcatggccaaggtgggggctggcaggtggttttggaatgaaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16308985 181 +  18395747 CCAGCCCCAGACAAAAACTT----------------------GAATCGAATtatattagtttgctggagcagccataacaaa-gtattacaa--ctgagtagcttaaaccagtggtccccaacctttttagca-ccaaggactggttctgaggaagacaatattttcatggccaaggtgggggctggcaggtggttttggaatgaaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5321412 181 +  26952557 CCAGCCCCAGACAAAAACTT----------------------GAATCGAATtatattagtttgctggagcagccataacaaa-gtattacaa--ctgagtagcttaaaccagtggtcctcaacttttttagca-ccaaggactggttctgaggaagacaatattttcatggccaaggtgggggctggcaggtggctttggaatgaaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28422080 181 +  82825804 ccagCCTCAGACAAAAACTT----------------------GAATCAAATtatattagtttgctggagcagccataacaaa-gtattacaa--ctgagtagcttaaaccagtggtccccaacttttttagca-ccaaggactggttctgaggaagacaatattttcatggccaaggtgggggctggcaggtggttttggaatgaaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4091941 181 -   4237731 CCAGCCCCAGACAAAAACTT----------------------GAATCGAATtatattagtttgctggagcagccataacaaa-gtattacaa--ctgagtagcttaaaccagtggtccccaacttttttagca-ccaaggactggttctgatgaagacaatattttcatggccaaggtgggggctggcaggtggttttggaatgaaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      360476 180 -   1175262 CCAGCC-CAGACAAAAACTT----------------------GAATCGAATtatgttagtttgctggagcagccgtaacaaa-gtattacaa--ctgagtagcttaaaccagtggtccccagcttttttagca-ccaaggactggttctgaggaagacaatattttcatggccaaggtaggggctggcaggtggttttggaatgaaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123708900 162 - 204313951 --AGCCCCAGACAAGAACTT----------------------GAATCCAATtgtatcagtttgctggagcagccataacaaa--------------------ctcacatcagcagtccccaatcttttggttgcccaagaactgg-tttgtggaatacaatattttcatggccaaggtgggggccagcagatggttttggaatgaaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55752805 178 -  71252344 --agccCCAGACAAAAACTT----------------------GAATCCAATtatattagtttgctggagcagccataacaaa-gtgttacaa--ctgagtagcacacaccagcggtccccaatctttttggtg-ccaagaactggttttgtggaatacaatattttcaaggccaaggt-ggggccaacaggtggttttggaatgaaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       56239 180 -   3089952 --agccCCAGACAAAAACTT----------------------GAATCCAATTATATTAGTTGGCTGGAGCAGCCATAACGAAAGTGTTACAA--CTGAGTAGCTCACACcagcggtccccaatctttttggag-ccaagaactggttttgtggaatacaatattttcatggccaaggtgggggtcagcaggtggttttggaatgaaa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13256520 179 -  42888418 --agccCCAGACAAAAACTT----------------------GAATCCAATtatattagtttgctggagcagccataacaaa-gtgttacga--ctgagtagctcacaccagcggtccccaatctttttggcg-ccaagaactggttttgtggaatacaatattttcatggccaaggtgggggccagcaggtggttttggaatgaaa
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3119906  86 +   4132165 -----CCCAAACAAAAACTT----------------------TTATTAGACATTTTCAGTTT--TTGATATCCAATGACATA----------------------------------------------TATCA-T--------------------AACGATATTTTCA-------------------------GTTTTGATATCCAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14961128 149 +  74389097 --atcctcaattataagttttattagaacattcctatttttgaaATCTAACtgtattagtttgctaggactgccatgacaaa-ggaccatagacttgggta------------------------------ta-ctaaaa--------tacagaaatctattttttca---caattctgaaggctagaag-----tttg--------
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60594204 420 + 108143057 I
e proCoq1.NW_012155062v1     3629977 129 +  11683526 I
e dasNov3.JH567306           2684746  32 +   3667625 I
e mm10.chr18                55551214 6394 +  90702639 I

a score=902073.000000
s hg38.chr5_KI270796v1_alt    135725 105 +    172708 gtgctccacctcagatcatcaggt----attagattcccacaaggagcacacaacttagatccctcgcatgcacagttcacagtgagaatttaatgcccctgctgatct
s panTro5.chr5             125239421 105 + 181907262 gtgttccacctcagaccatcaggt----attagattcccacaaggagcacacaacttagatccctcgcatgcacagttcacagtgagaatttaatgcccctgctgatct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126576131 105 + 183735486 gtgttccacctcagaccatcaggt----attagattcccacaaggagcacacaacttagatccctcgcatgcacagttcacagtgagaatttaatgcccctgctgatct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1767916  98 +   8933513 gtgttccacctcagatcatcaggt----attagattcccacaaggagcacacaacttagatccctcccatg-------cacagtgagaatttaatgcccctgctgatct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139902183 105 + 163208435 gtgttccacctcagatcatcaggt----attagattcccataaggagcacgcaatttagattcctcgcatgcaccgttcacagtgagaatttaatgccccggctgatct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122886873 104 + 180051392 gtgttccacctcagatcatcaggt----gtcagattcccatgaggagcacacaacttaaatccctta-atgcacagttcacagtgagaatttaatgcccctgctgatct
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124310499 104 + 181584905 gtgttccacctcagatcatcaggt----gtcagattcccatgaggagcacacaacttaaatccctta-atgcacagttcacagtgagaatttaatgcccctgctgatct
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16309166 104 +  18395747 gtgttccacctcagatcatcaggt----gtcagattcccatgaggagcacacaacttagatccctta-atgcacagttcacagtgagaatttaatgcccctgctgatct
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5321593 104 +  26952557 gtattccacctcagatcatcaggt----gtcagattcccatgaggagcacacaacttagatccctta-atgcacagttcacagtgagaatttaatgcccccgctgatct
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28422261 104 +  82825804 gtgttccacctcagatcatcaggt----gtcagattcccataaggagcacacaactgagatccctta-atgcacagttcacagtgagaatttaatgcccccactgatct
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4092122 104 -   4237731 gtgttccacctcagatcatcaggt----gtcagattcccatgaggagcacacaacttagatccctta-atgcacagttcacagtgagaatttaatgcccccgctgatct
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      360656 104 -   1175262 gtgttccacctcagatcatcaggt----atcacattcccataaggagcacacaacttagatccctta-atgcacagttcacagtgagaatttcatgcccccgctgatct
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123709062 109 - 204313951 ctcttccatctcagatcatcaggcattagttagattcctacaaggagcatgaaatatagatccctctcatgcacagctcacaatgagaatttaatgcccccactgatct
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55752983 109 -  71252344 ctgttctatctcagatcagcaagcgttagttagattcccacaaggagcacacaacttagatccctcttatgcacagctcacaacgagaattgaatgcccccattgatct
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       56419 109 -   3089952 ctgttatatctcagatcatcaagcattagttagattcccacaaggagcacacaacttagatccctctcatgcacagctcacgatgagaatttaatgcccccactgatct
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13256699 109 -  42888418 ctgttctatctcagatcatcaggtgttagttagatttccacaaggaacaggcaacttagatccctctcatgcacagctcacaatgagaattaaatacatccactgatct
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14961277  27 +  74389097 ------------agatca--aggt----atcag----------------------------------------------------------------cactgctgattt
i canFam3.chr11            C 0 I 22
e micMur3.chr12             60594204 420 + 108143057 I
e proCoq1.NW_012155062v1     3629977 129 +  11683526 I
e otoGar3.GL873679           3119992   0 +   4132165 C
e dasNov3.JH567306           2684746  32 +   3667625 I
e mm10.chr18                55551214 6394 +  90702639 I

a score=1168663.000000
s hg38.chr5_KI270796v1_alt    135830 124 +    172708 gacaggagacagagctcaggt---ggtaatgcttgct-cccctgccgctcacctcttgctgtgcagccagttcctaacaggtcatggggactggttcaggtccacggcccggaagtggggacccctgc
s panTro5.chr5             125239526 124 + 181907262 cacaggagacggagctcaggt---ggtaatgcttgct-cccctgccgctcacctcttgctgtgcagccagttcctaacaggtcatggggactggttcaggtccacggcccggaggtgaggacccctgc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126576236 124 + 183735486 gacaggagacggagctcaggt---ggtaatgcttgct-cccctgccgctcacctcttgctgtgcagccagttcctaacaggtcatggggactggttcaggtccacggcccggaggtgaggacccctgc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1768014 124 +   8933513 gacaggagacggagctcaggt---ggtaatgcttgct-cccctgctgctcacctcttgctgtgcagccagttcctaacaggtcatggggactggttcaggtccatggcccggaggtggggacccctgc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139902288 125 + 163208435 gacaggagacggagctcgggt---ggtaatgcttgctccccctgccgctcacctcttgctgtgcagccacttcctaacaggtcatggggactggttcaggtgaacggcccggagttggggacccctgc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122886977 125 + 180051392 gacaggagatggagctccggt---ggtaatgcttgctccccctgccgctcacctcttgctgtgcagccagttcctaagaggctatggggactggttcaggtccacggcccagggttggggacccccag
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124310603 125 + 181584905 gacaggagatggagctccggt---ggtaatgcttgctccccctgccgctcacctcttgctgtgcagccagttcctaagaggctatggggactggttcaggtccacggcccagggttggggacccccag
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16309270 125 +  18395747 gacaggagatggagctccggt---ggtaatgcttgctccccctgccgctcacctcttgctgtgcagccagttcctaagaggctatggggactggttcaggtccacggcccagggttggggacccccag
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5321697 125 +  26952557 gacaggagatggagctccggt---ggtaatgcttgctccccctgccactcacctcttgctgtgcagccagttcctaagaggctatggggactggttcaggtccacggcccggggttggggacccccag
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28422365 125 +  82825804 gacaggagatggagctcaggt---ggtaatgcttgctccccctgccgctcacctcttgctgtgcagccagttcctaagaggctatggggactggttcaggtccacggcccggggttggggacccccag
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4092226 125 -   4237731 gacaggagatggagctccggt---ggtaatgcttgctccccctgccactcacctcttgctgtgcagccagttcctaagaggctatggggactggttcaggtccacggcccggggttggggacccccag
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      360760 125 -   1175262 gacaggagatggagctcaggt---ggtaatgcttgctccccctgccgctcacctcttgctgtgcagccagttcctaagaggctatggggactggttcaggtccacggcccggggttggggacccccag
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123709171 124 - 204313951 tgcaggagatggagctcaggt---gataatgcttgct-cccctgccactcacctcttgctgtgcagccagtttctaacaggccacagggactggttcaggtccacagcccagggttggggacccctgg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55753092 124 -  71252344 tataggagatggagctcaggt---ggtaacgcttgct-cccccgccactcacctcttgctgtgcagccagttcctaacaggccatgaggactggttcaggtccacggcccagggttggggacccctgg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       56528 127 -   3089952 tacaggagatggagctcaggttacggtaacgtttgct-cccccgccactcacctcttgctgtgcagccagttgctaacaggccatgggtactggttcaggtccacggcccagggttggggacccctgg
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13256808 124 -  42888418 tgcaggagatggagctcaggt---ggtaatgcttgct-cccctgccactcacttcttgctgtgcagccagttcctaacaggtcatggggactggttcaggtccacggcccagggctggggactcctgg
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3119992  36 +   4132165 ---------------------------------------------------------------TGACATGATcataacaaactactacaactga----------------------gtgga-------
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60594204 420 + 108143057 I
e canFam3.chr11             14961304  22 +  74389097 I
e proCoq1.NW_012155062v1     3629977 129 +  11683526 I
e dasNov3.JH567306           2684746  32 +   3667625 I
e mm10.chr18                55551214 6394 +  90702639 I

a score=1207177.000000
s hg38.chr5_KI270796v1_alt    135954  99 +    172708 cttaaacaacagaaatttattttctca-caat-tttggaccctggaagttcgacatcaaggtgtcagctgggttggtttcttctgaggc--ctctccctggcg
s panTro5.chr5             125239650 101 + 181907262 cttaaacaacagaaatttattttctca-caat-tttggaccctggaagttcgaaatcaaggtgtcagctgggttggtttcttctgaggcctctctccctggtg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126576360 101 + 183735486 cttaaacaacagaaatttattttctca-caat-tttggaccctggaagttcgaaatcaaggtgtcagctgggttggtttcttctgaggcctctctccctggtg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1768138 101 +   8933513 cttaaacaacagaaatttattttctca-caat-tttggaccctggaagttcaacatcaaggtgtcagctgggttggtttcttctgaggcctctctccctggtg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139902413 101 + 163208435 cttaaacaacagaaatttattttctca-caat-tttggaccctggaagttcgagatcaaggtgtcagctgggttggtttcttctgaggcctctcaacctggcg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122887102 101 + 180051392 cttaaacaacagaaatttattttctca-caat-tctggactctggaagttcgagatcaaggtgtcagctgggttggtttcttctgaggcctccctccctggcg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124310728 101 + 181584905 cttaaacaacagaaatttattttctca-caat-tctggactctggaagttcgagatcaaggtgtcagctgggttggtttcttctgaggcctccctccctggcg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16309395 101 +  18395747 cttaaacaacagaaatttattttctca-caat-tctggactctggaagttcgagatcaaggtgtcagctgggttggtttcttctgaggcctccctccctggcg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5321822 101 +  26952557 tttaaacaacagaaatttattttctca-cagt-tctggactctggaagttcgagatcaaggtgtcagctgggttagtttcttctgaggcctctctccctggtg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28422490 101 +  82825804 cttaaacaacagaaatttattttctca-caat-tctggactctggaagttcgagatcaaggtgtcagctgggttggtttcttctgaggcctctctccctggcg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4092351 101 -   4237731 cttaaacagcagaaatttattttctca-caat-tctggactctggaagttcgagatcaaggtgtcagctgggttagtttcttctgaggcctctctccctggcg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      360885 101 -   1175262 cttaaacaacagatatttattttctca-caat-tctggactctggaaattcgagatcaaggtgtcagctgggttggtttcttctgaggcctgtctccctggcg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123709295 101 - 204313951 cttaaacaacagaaatttattttctca-caat-attggactctggaagtccgagatcaaggtttcagctgggttggttccttctgaggcctctctccctggcg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55753216 101 -  71252344 cttaaacaacagaaatttattttctca-caat-attggactctggaagtccgagatcaaggcttcagctgggttggtttcttctgaggcctctctccctggcg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       56655 101 -   3089952 cctaaacaacagaaatttattttctca-caat-attggactctggaagtccgagatcaaggtttcagctgggttggttttgtctgaggcctctctccctggcg
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13256932 102 -  42888418 cttaaacagcagaaatttattttctcaccaat-attggactctggaagtccgagatcaaggtttcagcggaattggtttcttctgaggcctctctccctggcg
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3630106 101 +  11683526 cttaagcaacagaaatttattttttca-taag-tctggaggccagaagtctgagaccgaggtgtcagccaggttggtttcttctgaggtctccctccctggct
i proCoq1.NW_012155062v1   I 129 C 0
s otoGar3.GL873679           3120028  96 +   4132165 -ttaagtaacagaaatttatttttttc-taagttttggaggccggaagtctgagatcaaggtgtcag---ggt--atttctcctcagttctctctccctgact
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60594204 420 + 108143057 I
e canFam3.chr11             14961304  22 +  74389097 I
e dasNov3.JH567306           2684746  32 +   3667625 I
e mm10.chr18                55551214 6394 +  90702639 I

a score=1231134.000000
s hg38.chr5_KI270796v1_alt    136053 103 +    172708 tgcagacg----tcttctctctgtgttttcacatgggtttccttctgtgtcttttccctgatctcctcttataaa---a--acaccaggcattttggattagagcccaccgt
s panTro5.chr5             125239751 103 + 181907262 tgcagacg----tcttctctctgtgtttttgtgtgggtttccttctgtgtcttttccctgatctcctcttataaa---a--acaccaggcattttggattagagcccaccct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126576461 103 + 183735486 tgcagacg----tcttctctctgtgtttttgtgtgggtttccttctgtgtcttttccctgatctcctcttataaa---a--acaccaggcattttggattagagcccaccct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1768239 103 +   8933513 tgcagacg----tcttctctctgtgttttcacatgggtttccttctgtgtcttttccctgatctcctcttataaa---a--acaccaggcattttggattagagcccaccct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139902514 103 + 163208435 tgcagatg----tcttctctctgtgttttcacatgagtttccttctgtgtcttttgcctgatgtcctcttataaa---a--acaccaggcgttttggattagagcccaccct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122887203 103 + 180051392 tacagatg----tcttctctctgtgttttcacatgtgtttccttctgtgtcttttccctgatctcctcttttaaa---a--acaccaggcacttgggattagagcatactct
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124310829 103 + 181584905 tacagatg----tcttctctctgtgttttcacatgtgtttccttctgtgtcttttccctgatctcctcttttaaa---a--acaccaggcacttgggattagagcatactct
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16309496 103 +  18395747 tacagatg----tcttctctctgtgtgttcacatgtgtttccttctgtgtcttttccctgatctcctcttttaaa---a--acaccaggcacttgggattagagcatactct
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5321923 103 +  26952557 tgcagatg----tcttctctctgtgttttcacatgtgtttccttctatgtcttttccctgatctcctcttttaaa---a--acaccaggcacttgggattagagcatactct
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28422591 103 +  82825804 tgcagatg----tcttctctctgtgttttcacatgtatttccttctgtgtcttttccctgatctcctcttttaaa---a--acaccaggcacttgggattagagcatactct
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4092452 103 -   4237731 tgcagatg----tcttctctctgtgttttcacatgtgtttccttctgtgtcttttccctgatctcctcttttaaa---a--acaccaggcacttgggattagagcatactct
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      360986 103 -   1175262 tgcagatg----tcttctctctgtgttttcacatgggtttccttctgtgtcttttccctgatctcctcttttaaa---a--acaccaggcatttgggattagagcatactct
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123709396 102 - 204313951 tgcagatg----tcttctttctgtgttttcacatgggtttccttctgtgtcttttttctaatctgttc-tgtaaa---a--acaccaggcatgttggattagagcccacctt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55753317 103 -  71252344 tgcggatg----tcttctctctgtgttttcacatgggtttccttctgtgtcttttttctgatctcctcttgtaaa---a--gcaccaggcgtgttggattagagcccaccct
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       56756 103 -   3089952 tgcagatg----tcttctctctgtgttttcacatgggtttccttctgtgtcttttttctgctctcctcttgtaaa---a--acaccaggcatgttggattagagcccactct
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13257034 103 -  42888418 tgcagatg----tcttctctctgtgttttcacatgggtttccttctgtgtcttttttctgatctcctcttgtaaa---a--acaccaggcatgttggattagagcccaccct
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3630207 107 +  11683526 cgaagatgtctgtcttctccctgtgctttcacatggacttccttctgtgtctgtgtcctaatcgcctcttctaac---a--acaccaggccttttgaattagggccaatcct
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3120124 110 +   4132165 ggcaggtgtctttcttctccctgtgttttcacatgggcttctttctgggtctgtgtcctaatctattcttcttatgagg--acaccaggcattttggattagggccaatcct
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14961326 104 +  74389097 tgcaaatg-----cttctccctgtgttttcttcacagagtcactcagtgtctgtgtactcatgttctcttctcaa---aggatgccagtcacattggattaaggcccaccat
i canFam3.chr11            I 22 C 0
e micMur3.chr12             60594204 420 + 108143057 I
e dasNov3.JH567306           2684746  32 +   3667625 I
e mm10.chr18                55551214 6394 +  90702639 I

a score=1787418.000000
s hg38.chr5_KI270796v1_alt    136156 125 +    172708 aatgacctcattttaacttaattaattctttaaagaccctatctccaaatacaataatgttctgaggtaccgaaggttagaacttc-ctata-aattttaggagaa---cacacaattcaacccataaca
s panTro5.chr5             125239854 125 + 181907262 aatgacctcattttaacttaattaattctttaaagaccctatctccaaatacaataatgttctgaggtaccgaaggttagaacttc-ctata-aattttaggagaa---cacacaattcaacccataaca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126576564 125 + 183735486 aatgacctcattttaacttaattaattctttaaagaccctatctccaaatacaataatgttctgaggtaccgaaggttagaacttc-ctata-aattttaggagaa---cacacaattcaacccataaca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1768342 125 +   8933513 aatgacctcattttaacttaattaattctttaaagaccctatctccaaatacaataatgttctgaggtaccgaaggttagaacttc-ctata-aattttaggagaa---cacacaattcaacccataaca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139902617 125 + 163208435 aatgacctcattttaacttaattaattctttaaagaccctatctccaaatataataatgttctgaggtactgaaggttataacttc-ctata-aattttaggagaa---cacacaattcaacccataaca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122887306 125 + 180051392 aatgacctcattttaacttaatttattctttaaagaccctatctccaaatacaataatgttctgaggtactgaaggttagaacttc-ctgta-aattttagaagga---cacacaattcatcccataaca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124310932 125 + 181584905 aatgacctcattttaacttaatttattctttaaagaccctatctccaaatacaataatgttctgaggtactgaaggttagaacttc-ctgta-aattttagaagga---cacacaattcatcccataaca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16309599 125 +  18395747 aatgacctcattttaacttaatttattctttaaagaccctatctccaaatacaataatgttctgaggtactgaaggttagaacttc-ctgta-aattttagaagga---cacacaattcatcccataaca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5322026 125 +  26952557 aatgacatcattttaacttaattaattctttaaagaccctatctccaaatacaataatgttctgaggtactgaaggttagaacttc-ctgta-aattttagaagga---cacacaattcatcccataaca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28422694 125 +  82825804 aatgacctcattttaacttaattaattctttaaagaccttatctcaaaatacaataatgttctgaggtactgaaggttagaacttc-ctgta-aattttagaagga---cacacaattcatcccataaca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4092555 125 -   4237731 aatgacctcattttaacttaattaattctttaaagaccctatctccaaatacactaatgttctgaggtactgaaggttagaacttc-ctgta-aattttagaagga---cacacaattcatcccataaca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      361089 125 -   1175262 aatgacctctttttaacttaattaattctttaaagaccctatctccaaatacaataatgttctgaggtactgaaggttagaacttc-gtgta-aattttaggagga---cacacaattcatcccataaca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123709498 124 - 204313951 aatgacctcattttaattcgattagttctttaaagaccctatctcc-aatacaataatgttctgaggcactaaaggttagtacttc-atata-cattttgggagga---cacacaatttatcccataaca
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55753420 125 -  71252344 aatgacttcatttcaattcaattagttctttaaagaccctatctccaaatacaataatgttctgaggtactaaaggttagaacttc-gtata-cattttgggagca---cacgcaattcatcccatgaca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       56859 125 -   3089952 aatgacctcattttaattcaattagttctttaaagaccctatctccaaatacaataatgttctgaggtactaaaggttagaacttc-atata-cattttggaagga---cacacaattcatcccataacG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13257137 125 -  42888418 aatgacctcattttaattcaattagttctttaaagaccctatctccaaatacaataatgttctgaggtactaaaggttagaacttc-atata-cattttgggagga---cacacaattcatcccataacG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60594624 125 + 108143057 aatgacctcattttaacttaatcatctctttaaagaccctatttccaaatacaatcacattctgaagtactgagggctaggacttc-atatg-aattttgggagga---ctgacagttcatcccgtaaca
i micMur3.chr12            I 420 C 0
s proCoq1.NW_012155062v1     3630314 126 +  11683526 aatgacctcattttaacttaattacctctttaaagaccctctctccaaatacaatcacgttctgcagcactgagggttaggacttc-atatg-aattttgggaggac--ccaaaaattcatcctgtaaTG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3120234 128 +   4132165 aatcacttcattttaacttagttatctctttaaagaccctatctccaaatatagtctcattctgaaatactgagggttaggactgc-atatg-aattttaggaggacaacacacaattcaccctataaca
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14961430 127 +  74389097 aatgacttcattttaacttaattatctctttgaagaccctatctccaaatacagtcacattctgaggttcagagggttaggccttcaatatatgattttcgtggag---gacacaattcagcctaaaaca
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2684746  32 +   3667625 I
e mm10.chr18                55551214 6394 +  90702639 I

a score=4684195.000000
s hg38.chr5_KI270796v1_alt    136281 342 +    172708 TCAGTGTAGG-CCAGGCAAAACTTTGTTCCAAGGTAAATCTTGG--CAATGATAATAATTACACagtgcttacagtgtgaaag--gcatggttgtggg-ccttttaaaggtattaacttactgaattctcacagcatccttatgaggtaggaaatattattattcctatttta--t-ggtgatacattaaggcacagggagattaaataattcactcatgcagcatctggtgatgctgggattgaagtccaagcagta---------tctagtttgtagtttgtgttttAGCTGGGTCAGAGCTTTCATGGTGAC-AAATGACCTACTATGACCTTGAGGCTGTAGAGTAG-A-GGCACTTAA
s panTro5.chr5             125239979 343 + 181907262 TCAGTGTAGG-CCAGGCAAAACTTTGTTCCAAGGTAAATCTTGG--CAATGATAATAATTACACagtgcttacaatgtgaaag--gcatggttgtgggcccttttaaatgtattaacttactgaattctcacagcatccttatgaggtaggaaatattattattcctatttta--t-ggtgatacattaaggcacagggagattaaataattcactcatgcagcatctggtgatgctgggattgaagtccaagcagta---------tctagtttgtagtttgtgttttAGCTGGGTCAGAGCTTTCATGGTGAC-AAATGACCTACTATGACCTTGAGGCTGTACAGTAG-A-GGCACTTAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126576689 343 + 183735486 TCAGTGTAGG-CCAGGCAAAACTTTGTTCCAAGGTAAATCTTGG--CAATGATAATAATTACACagtgcttacaatgtgaaag--gcatggttgtgggcccttttaaatgtattaacttactgaattctcacagcatccttatgaggtaggaaatattattattcctatttta--t-ggtgatacattaaggcacagggagattaaataattcactcatgcagcatctggtgatgctgggattgaagtccaagcagta---------tctagtttgtagtttgtgttttAGCTGGGTCAGAGCTTTCATGGTGAC-AAATGACCTACTATGACCTTGAGGCTGTACAGTAG-A-GGCACTTAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1768467 342 +   8933513 TCAGTGTAGG-CCAGGCAAAACTTTGTTCCAAGGTAAATCTTGG--CAATGATAATAATTACACagtgctgacaatgtgaaag--gcatggttgtggg-ccttttaaaggtattaacttactgaattctcacagcaaccttatcaggtaggaaatattattattcctatttta--t-ggtgatacattaaggcacagggagattaaataattcactcatgcagcatctggtgatgctgggattgaagtccaagcagta---------cctagtttgtagtttgtgttttAGCTGGGTCAGAGCTTTCATGGTGAC-AAATGACCTACTATGACCTTGAGGCTGTACAGTAG-A-GGCACTTAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139902742 342 + 163208435 TCAGTGTAGG-CCAGGCGAAACTTTGTTCCAAGGTAAATCTTGG--CAATGATaataattatacagtgctcacaatgtgaaag--gcatggttgtggg-ccttttaaatgtattaacttactgaattctcacagcatcctaatgaggtaggaaatattattattcctatttta--t-ggtgatacgttaaggcacagggagattaaataattcactcatgcagcatctggtgacgctgggattgaagtccaagcagta---------tctagtttgtagtttgtcttttagcTGGGTCAGAGCTTTCATGGTGAC-AAATGACCTACTATGACCTTGAGGCTGTACAGTAG-A-GGCACTTAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122887431 337 + 180051392 TCAGTG------CAGGCAAAACTTTGTTCCAAGGTAAATCTTGG--CAATGATAATAATTACACaatgcttacagtgtgaaag--gcatggttgtggg-ccttttaaatgtattaacttactgaattctcacagcatccttacgaggtgggaaatattattattcctatttta--t-ggtgatacattaaggcacagggagattaaatagctcacgcatgcagcatctggtgatgctgggattgaagtccaaccagta---------tctagtttgcagtttctgtTTTAGCTGGGTCAGAGCTTTCATGGTGAC-AAATGACCTACTATGACCTTGAGGCTGTAGAGTAG-A-GGCACTTAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124311057 337 + 181584905 TCAGTG------CAGGCAAAACTTTGTTCCAAGGTAAATCTTGG--CAATGATAATAATTACACaatgcttacagtgtgaaag--gcatggttgtggg-ccttttaaatgtattaacttactgaattctcacagcatccttacgaggtgggaaatattattattcctatttta--t-ggtgatacattaaggcacagggagattaaatagctcacgcatgcaggctctggtgatgctgggattgaagtccaaccagta---------tctagtttgcagtttctgtTTTAGCTGGGTCAGAGCTTTCATGGTGAC-AAATGACCTACTATGACCTTGAGGCTGTAGAGTAG-A-GGCACTTAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16309724 337 +  18395747 TCAGTG------CAGGCAAAACTTTGTTCCAAGGTAAATCTTGG--CAATGATAATAATTACACaatgcttacagtgtgaaag--gcatggttgtggg-ccttttaaatgtattaacttactgaattctcacagcatccttacgaggtgggaaatattattattcctatttta--t-ggtgatacattaaggcacagggagattaaatagctcacgcatgcagcatctggtgatgctgggattgaagtccaaccagta---------tctagtttgcagtttctgtTTTAGCTGGGTCAGAGCTTTCATGGTGAC-AAATGACCTACTATGACCTTGAGGCTGTAGAGTAG-A-GGCACTTAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5322151 337 +  26952557 TCAGTG------CAGGCAAAACTTTGTTCCAAGGTAAATCTTGG--CAATGATAATAATTACACaatgcttacagtgtgaaag--gcatggttgtggg-ccttttaaatgtattaacttactgaattctcacagcatccttacgaggtgggaaatattattattcctatttta--t-ggtgatacattaaggcacagggagattaaatagctcacacatgcagcatctggtgatgctgggattgaagtccaaccagta---------tctagtttgcagtttctgtTTTAGCTGGGTCAGAGCTTTCATGGTGAC-AAATGACCTACTATGACCTTGAGGCTGTAGAGTAG-A-GGCACTTAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28422819 337 +  82825804 TCAGTG------CAGGCAAAACTTTGTTCCAAGGTAAATCTTGG--CAATGATaataattatacaatgcttacaatgtgaaag--gcatggttgtagg-ccttttaaatgtattaacttactgaattctcacagcatccttacgaggtgggaaatattattattcctattata--t-ggtgatacattaaggcacagggagattaaatagctcactcatgcagcatctggtgatgctgggattgaagtccaaccagtA---------TCTAGTTTGTAGTTTCTGTTTTAGCTGGGTCAGAGCTTTCATGGTGAC-AAATGACCTACTATGACCTTGAGGCTGTAGAGTAG-A-GGCACTTAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4092680 337 -   4237731 TCAGTG------CAGGCAAAACTTTGTTCCAAGGTAAATCTTGG--CAATGATAATAATTACACaatgcttacagtgtgaaag--gcatggttgtggg-ccttttaaatgtattaacttactgaattctcacagcatccttacgaggtgggaaatattattattcctatttta--t-ggtgatacattaaggcacagggagattaaatagctcacgcatgcagcatctggtgatgctgggattgaagtccaaccagta---------tctagtttgcagtttctgtTTTAGCTGGGTCAGAGCTTTCATGGTGAC-AAATGACCTACTATGACCTTGAGACTGTAGAGTAG-A-GGCACTTAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      361214 337 -   1175262 TCAGTG------CAGGCAAAACTTTGTTCCAAGGTAAATCTTGG--CAATGATaataattatacaatgcttacaatgtgaaag--gcatggttgtggg-ccttttaaatgtattaacttactgatttctgacagcatccttatgaggtgggaaatattattattcctatttta--t-ggtgatacattaaggcacagggagattaaatagctcactcatgcagcatctggtgatgctgggattgaagtccaaccagtA---------TCTAGTTTGTAGTTTCTATTTTAGCTGGGTAAGAGCTTTCATGGTGAC-AAATGACCTACTATGACCTTGAGGCTGTAGAGTAG-A-GGCACTTAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123709622 341 - 204313951 TCAGTGTAGG-CCAGGCAAAACTTTGTTCAAAGATAAATCTTGG--CAACTATAATAATGGTACaatgtttacaatgtg-aag--gtatggttgtggg-ccttttaaatgtactaacttactgaattctcacagcatccttatgaggtaggaaatactattattcctatttta--t-ggtgataggtgaaggcatagggaaattaaatagtttgctcctgcagcatctattgatgctgggattgaagtccaagcagtA---------TCTAGTTTGTAGTTTCTGTTTTAGCTGCGTCAGAGCTTTCATGGAGAG-AAATGACCTACTATGACTTTGGACCTGTCGAGTAG-A-GGCACTTAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55753545 325 -  71252344 TCAGTGTAGG-CCAGGCAAAACTTTGTTCCAAGGTAAATCTTGG--CAATGATAATAATGGTGCACTgtttacaatgtgaaag--gtatggttgtggg-ccttttaaatgtactaacttactgaattctcacagcatccttatgagg-----------------cctatttta--t-ggtgatacatgaaggcacaggaaaattaaatagcttactcatgcagcatctgttgatgctgggattgaagtccaagcagta---------tctagtttatagtttctgtcttagcTGGGTCAGAGCTTTCATGGTGAG-AAATGACCTACTATGACTTTGAACCTGTAGAGTAG-A-GGCACTTAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       56984 342 -   3089952 TCAGTGTAGA-GCAGGCAAAACTGTGTTCCAAGGTCAATCTTGG--CAATGGTAATAATGGTGCATTgtttacaatgtgaaag--gtatggtcgtggg-ccttttaaatgtgctaacttactgaattctcatagcatccttatgaggtaggaaatatgattattccaatttta--t-ggtgatacatgaaggcacagggaaattaaatagtttacttatgcagcatctggtgatgctgggattgaagtccaagcagta---------tctagctcGTAGTTTCTGTTTTAGCTGGGTCGGAGCTTTCATGGTGAG-AAATGACCTACTATGACTTTGAACCTGTAGAGTGG-A-GGCACTTAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13257262 342 -  42888418 TCAGTGTAGG-CCAGGCAAAACTTTGTTCCAAGATAAATCTTGG--CAATGACAATAATGGTACaatgtttacaatgtgaaag--gtatggttgtggg-ccttttaaatgtactaacttactgaattctcacagcatccttatgaggtaggaaatattatcattcctatttta--t-ggtgatacatgaaggcacagggaaattaaatagcttactcatacagtatctggtgatgctgggattgaagtccaagcagtA---------TCTAGTTTGTAGTTTCTGTTTTAGCTGGGTCAGAGCTTTCACAGTGAG-AAATGACCTACTGTGACTTTGAACCTGTAGAGTAG-A-GGCACTTAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60594749 344 + 108143057 CCAATGTAAG-GCAAACAGAACTTTGTTCCAAGGGAAATGTTGG--CAATGATTATAATTATGCCTTgcttacaatgtgaaag--gcatgtttgtaag-ccttttcaatttattaacttattgaatcctcacagcttccttatgagggaggaaacattattattcctattcga-ca-gatggtacctgaaggcagagcgaggttaaataactcacccatgcagtatctggtgaagctaggactgaaattcaaaaagtc---------tCCAGTTTGCAGTATCTATTTTAGTTGGTTCAGAGCGTTCATGGCGAG-AAATGCAGTACTATGACCTTGAGCCTGTAGAGTAGAA-GGCACTTAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3630440 344 +  11683526 CCAACATATG-CCAAACAGAACTTTGTTCCAAGGAAAATTTTGT--CAATGATTATAAttatgcaaagcttacgatgtgaaag--gcatgtttgtggg-ccctttcaatttattaacttatagaatcctcacagcttccttatgaggtgggaaatattattattcctatttga-ca-gatggtacctgaaggcagagtgaggttaaataactcacccatgcaggatctggtgaagctaggattgaaattcagaaagtc---------tctagttcatagtatctattttagctggttcagAGCATTCATGGCAAG-AAATGCAGTACTATGACCTTGAGCCTATAGAGTAGAA-GACACTTAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3120362 322 +   4132165 CCAATGGATA-CCAAATAAA---------TAAAATAAACTTTGGATAAATAATTATAATTATACCATgcttacaatgtgaaag--gcatgtttggggg-ccttttcaactgactaacttattgaattctcacagcatccttatgagttacaaaatgtta----------------a-gatgttacatgaaggcagagtgaggttaaacaactcagccacgcactagctggtgaagcgaggaatgaaattcaagcagca---------tctggttTGTAGTGTCAATTTTAGCTGGTTCAGAACTTTCCTGGTGAG-AAATGCAATATTATGACTTTGAGGCTATAGAGTAGAA-GGGACTTAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14961557 326 +  74389097 CCAGTGGAGGTCCAGACACAAGTTTACTGTAAGATGAATCctga--c---------aattatacaatgcttacaatgtaaaagcaacttatttatggg-ccattttaacttcttaacttactgaaatctcacagtaaccccataaggtagacaatactatgatctctctttta--tagatgagacatgaagggagagag------actaattcactcatgcagtatctggtagagatagaattaaaattcaagcagtA---------TCTGAT-----GTTTCTG-CTTGGACAGGACAGATCTGTCCTCATGAGAAAATTCCCTACTTGGACCCAGGAACTGTAAAGGAG-A-AGCACCTAA
i canFam3.chr11            C 0 I 193
s dasNov3.JH567306           2684778 316 +   3667625 ttaatgtaga-ccaaacaaaacttatttgCAAGATGACTTTTGA--AAATGATAATAATAA---------tactgtgagaaag--acacag-aatggt-tattttcaatgtatgaacttattgaattcttacagcatccctatgaagtagagaatagtaccatctccatttttaca-gatggaacatgaagaca------gattaaaaaactcacccatgtggtaagtagtttagctgtgactaaaatccaagcagtactggaggcctccagTTTGTAATTTCTCTTTTAGATAGCTCAGCAATTTCATGACCAG-----------------CCTTG------TGGAGTAG-ATGACATGTAA
i dasNov3.JH567306         I 32 C 0
e mm10.chr18                55551214 6394 +  90702639 I

a score=112620.000000
s hg38.chr5_KI270796v1_alt    136623 10 +    172708 GAGCT-AAAAG
s panTro5.chr5             125240322 10 + 181907262 GAGCT-AAAAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126577032 10 + 183735486 GAGCT-AAAAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1768809 10 +   8933513 GAGCT-AAAAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139903084 10 + 163208435 GAGCT-AAAAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122887768 10 + 180051392 AAGCT-AAAAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124311394 10 + 181584905 AAGCT-AAAAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16310061 10 +  18395747 AAGCT-AAAAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5322488 10 +  26952557 AAGCT-AAAAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28423156 10 +  82825804 AAGCT-GAAAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4093017 10 -   4237731 AAGCT-AAAAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      361551  8 -   1175262 GAGCT-AAA--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123709963 10 - 204313951 GAGCG-AAAAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55753870 10 -  71252344 GAGCT-AAAAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       57326 10 -   3089952 GAGCT-AAAAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13257604 11 -  42888418 GAGTGAAAAAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60595093 10 + 108143057 GAGTT-GACAG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3630784 10 +  11683526 GAGTT-GACAG
i proCoq1.NW_012155062v1   C 0 I 109
s otoGar3.GL873679           3120684 10 +   4132165 GAATT-AAAAG
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2685094 10 +   3667625 GAGAT-AAAAG
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14961883 193 +  74389097 I
e mm10.chr18                55551214 6394 +  90702639 I

a score=25293.000000
s hg38.chr5_KI270796v1_alt    136633 2 +    172708 TT
s panTro5.chr5             125240332 2 + 181907262 TT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126577042 2 + 183735486 TT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1768819 2 +   8933513 TT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139903094 2 + 163208435 TT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122887778 2 + 180051392 TT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124311404 2 + 181584905 TT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16310071 2 +  18395747 TT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5322498 2 +  26952557 TT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28423166 2 +  82825804 TT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4093027 2 -   4237731 TT
i manLeu1.NW_012103321v1   C 0 C 0
s calJac3.chr2             123709973 2 - 204313951 TT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55753880 2 -  71252344 TT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       57336 2 -   3089952 TT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13257615 2 -  42888418 TT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60595103 2 + 108143057 TC
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3120694 2 +   4132165 TT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55557608 2 +  90702639 TC
i mm10.chr18               I 6394 C 0
s dasNov3.JH567306           2685104 2 +   3667625 TC
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14961883 193 +  74389097 I
e proCoq1.NW_012155062v1     3630794 109 +  11683526 I
e colAng1.NW_012119644v1      361559 0 -   1175262 C

a score=359731.000000
s hg38.chr5_KI270796v1_alt    136635 25 +    172708 AGAGTTTTGTAATTGCCA--GAAATGC
s panTro5.chr5             125240334 25 + 181907262 AGAGTTTTGTAATTGCCA--GAAATGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126577044 25 + 183735486 AGAGTTTTGTAATTGCCA--GAAATGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1768821 25 +   8933513 AGAGTTTTGTAATTGCCA--GAAATGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139903096 25 + 163208435 AGAGTTTTGTGATTGCCA--GAAATGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122887780 25 + 180051392 AGAGTTTTGTCATTGCCA--GAAATGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124311406 25 + 181584905 AGAGTTTTGTCATTGCCA--GAAATGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16310073 25 +  18395747 AGAGTTTTGTCATTGCCA--GAAATGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5322500 25 +  26952557 AGAGTTTTGTAATTGCCA--GAAATGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28423168 25 +  82825804 AGAATTTTGTAATAGCCA--GAAATGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4093029 25 -   4237731 AGAGTTTTGTAATTGCCA--GAAATGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      361559 25 -   1175262 AGAGTTTTGTTATTGCCA--GAAATGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123709975 25 - 204313951 AGAGTTTTGTAATTGCTA--GAAATGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55753882 25 -  71252344 AGAGTTTTGTAATTGCTA--GAAATGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       57338 25 -   3089952 AGAGTTTTGTAATTGCTA--GAAATGC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13257617 25 -  42888418 AGAGTTTTGTAATTGCTA--GAAATGC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60595105 24 + 108143057 AGAGTTTT-TAATCTCCA--GAAATGC
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3120696 25 +   4132165 AGAGTTTTGTAATCTCCA--TAACTGC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55557610 25 +  90702639 AGGGGTTTGTGATTTCTA--GAAGTGT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14962076 25 +  74389097 AGAGTCTTGTAACCCCTA--Gaaacac
i canFam3.chr11            I 193 I 116
s dasNov3.JH567306           2685106 27 +   3667625 AGAGTCTTATAATTTCTATTTCCATGC
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3630794 109 +  11683526 I

a score=1061721.000000
s hg38.chr5_KI270796v1_alt    136660 95 +    172708 AGATAATCCTTATCAAATCAGGTTTACATAAGGGTTCTGTGGATG------------CACACCTATTCTCACA-GAATG-GGTTTGGCCATTCTGATGAATCAACTGGA
s panTro5.chr5             125240359 95 + 181907262 AAATAATCCTTATCAAATCAGGTTTACATAAGGGTTCTGTGGATG------------CACACCTATTCTCACA-GAATG-GGTTTGGCCATTCTGATGAATCAACTGGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126577069 95 + 183735486 AAATAATCCTTATCAAATCAGGTTTACATAAGGGTTCTGTGGATG------------CACACCTATTCTCACA-GAATG-GGTTTGGCCATTCTGATGAATCAACTGGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1768846 95 +   8933513 AAATAATCCTTATCAAATCAGGTTTACATAAGGGTTCTGTGGATG------------CACACCTATTCTCACA-GAATG-GGTTTGGCCATTCTGATGAATCAACTGGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139903121 95 + 163208435 AAATAATCCTTATCAAATCAGGTTTACATAAAGGTTCTGTGGATG------------CACACCTATTCTCACA-CAATG-GGTTTGGCCATTCTGATGAATCAACTGGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122887805 94 + 180051392 AAATCATCCTTATCAAA-CAGGTTTACATAAAGGTTCTGTGGATG------------CACACCTATTCTCACA-CAATG-GGTGTGGCCATTCTGTTGAATCAACTGGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124311431 94 + 181584905 AAATCATCCGTATCAAA-CAGGTTTACATAAAGGTTCTGTGGATG------------CACACCTATTCTCACA-CAATG-GGTGTGGCCATTCTGTTGAATCAACTGGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16310098 94 +  18395747 AAATCATCCTTATCAAA-CAGGTTTACATAAAGGTTCTGTGGATG------------CACACCTATTCTCACA-CAATG-GGTGTGGCCATTCTGTTGAATCAACTGGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5322525 95 +  26952557 AAATCATCCTTATCAAATCAGGTTTACATAAAGGTTCTGTGGATG------------CACACCTATTCTCACA-CAATG-GGTGTGGCCATTCTGTTGAATCAACTGGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28423193 95 +  82825804 AAATCATCCTTATCAAATCAGGTTTACATAAAGGTTCTGTGGATG------------CACACCTATTCTCACA-CAATG-GGTGTGGCCATTCTGTTGAATCAACTGGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4093054 95 -   4237731 AAATCATCCTTATCAAATCAGGTTTACATAAAGGTTCTGTGGATG------------CACACCTATTCTCACA-CAATG-GGTGTGGCCATTCTGTTGAATCAACTGGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      361584 95 -   1175262 GAATCATCCTTATCAAATCAGGTTTACATAAAGGTTCTGTGGATG------------CACACCTATTCTCACA-CAATG-GGTGTGGCCATTCTGTTGAATCAACTGGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123710000 76 - 204313951 AAATCATCCTTATCAAATCAGGTTTACAAAAAGGTTCAGTGGATG------------CACACCTATTCTAACA-CAATG-AGTTTGGCCA-------------------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55753907 95 -  71252344 AAATCATCCTTATCAAATCAGGTTTACAAAAAGGTTCTGTGGATG------------CAAATCTATTCTAACA-CAAAG-GGTTTGGCCATTCTGCTGAATCAACTGGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       57363 95 -   3089952 AAATCATCCTTATCAAATCAGGTTTACAAAAAGGTTCTGTGGATG------------CACATCTATTCTAACA-CAATG-GGTTTGGCCATTCTGCTGAATCAACAGGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13257642 95 -  42888418 AAATCATCCTTATCAAATCAAGTTTACAAAAAGGTTCTGTGGATG------------CACACCTATTCTAACA-CAATG-GGTTTGGCCATTCTGCTGAGTCAACTGGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60595129 80 + 108143057 AAATCATCCTTACAAAATCAGGCTTATAAGAAGGGTCTATGCATG------------CACAATTATTCTCATA-CCATG-TGACTGGTTAGGCC---------------
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3120721 79 +   4132165 AAATCATCCTCATAAAATCAGGCTAATAA-AAGGTTCTATGCATG------------TACAGTTGTTCTCATA-CAATG-GATTTGGTTAGGCC---------------
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55557635 83 +  90702639 TCAAAATTCTGAAAAGACTGTGGTTAACTAAAGGCTCTGTGAGTGTATAGTGCAGGCCACTCCCCTCTTCAT-----TG-GGTCAGAGC--------------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14962217 81 +  74389097 AAATCATCCTCCTAAGAACTGGCTTCTATAAATGTCATATGGATG------------CGTACCTATTTTTATACCAATG-GGTCTTGCCCGGTC---------------
i canFam3.chr11            I 116 C 0
s dasNov3.JH567306           2685133 82 +   3667625 AAATCATTTTCATAAAACCAGGTTTATCTAAGTGCTTTATGGGTA------------CACATCTATTCTTATACCAATGTGGTCTTGTCAGCCT---------------
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3630794 109 +  11683526 I

a score=4068293.000000
s hg38.chr5_KI270796v1_alt    136755 281 +    172708 TTTCTGCT-GAATCAACTGGAT-----TTGAAGTAACAAAGTACTCTTTATCGTCTAGAGAAGGTTCAGAGACTGAAAGAAAGCAAAGTTCC-TTAAATTAATGCTTTGGAGC---------CAAAG-----ATATCAACAAGAGTCTC-TGAGTATCTGAGATAATTACTAGGACAAAGTTTGGAAATTTCGGGAAATGCTGTAATTTG--TG---------TTTGTTTTGGTAA-GTGTTGTTGCTACTTATCTTTTCAGCCACCATTAGT-ATAAAAATTAAAACTG-AAAAA-------AGGTT-----T----TAATCTATTTTCCAG
s panTro5.chr5             125240454 281 + 181907262 TTTCTGCT-GAATCAACTGGAT-----TTGAAGTAACAAAGTACTCTTTATCGTCTAGAGAAGGTTCAGAGACTGAAAGAAAGCAAAGTTCC-TTAAATTAATGCTTTGGAGC---------CAAAG-----ATATCAACAAGAGTCTC-TGAGTATCTGAGATAATTACTAGGACAAAGTTTGGAAATTTCTGGAAATGCTGTAATTTG--TG---------TTTGTTTTGGTAA-GTGTTGTTGCTACTTATCTTTTCAGCCACCATTAGT-ATAAAAATTAAAACTG-AAAAA-------AGGTT-----T----TAATCTATTTTCCAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126577164 281 + 183735486 TTTCTGCT-GAATCAACTGGAT-----TTGAAGTAACAAAGTACTCTTTATCGTCTAGAGAAGGTTCAGAGACTGAAAGAAAGCAAAGTTCC-TTAAATGAATGCTTTGGAGC---------CAAAG-----ATATCAACAGGAGTCTC-TGAGTATCTGAGATAATTACTAGGACAAAGTTTGGAAATTTCTGGAAATGCTGTAATTTG--TG---------TTTGTTTTGGTAA-GTGTTGTTGCTACTTATCTTTTCAGCCACCATTAGT-ATAAAAATTAAAACTG-AAAAA-------AGGTT-----T----TAATCTATTTTCCAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1768941 281 +   8933513 TTTCTGCT-GAATCAACTGGAT-----TTGAAGTAACAAAGTACTCTTTATCTTCTAGAGAAGGTTCAGAGACTGAAAGAAAGCAAAGTTCC-TTAAATTAATGCTTTGAAGC---------CAAAG-----ATATCAACAAGAGTCTC-TGAGTATCTGAGATAATTACTAGGACAAAGTTTGGAAATTTCTGGAAATGCTGTAATTTG--TG---------TTTGTTTTGGTAA-GTGTTGTTGCTACTTATCTTTTCAGCCACCATTAGT-ATAAAAATTAAAACTG-AAAAA-------AGGTT-----T----TAATCTATTTTCCAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139903216 277 + 163208435 TTTCTGTT-GAATCAACTGGATTTCTGTTGAATCAACTGGA-----TTTGAAGTCTAGAGAAGGTTCAGAGACTGAAAGAAAGCAAAGTTCC-TTAAATTAATGCTTTGGAAC---------CAAAG-----ATATCAACAAGAGTCTC-TGAGTATCTGAGATAATTACTAGGACAAAGTTTGGAAATTTCTGGAAATGCTGTAATTTG--TG---------TTTCTTTTGGTAA-GTGTTATTGCTA-----CTTTTCAGCCACCGTTAGT-ATAAAAATTAAAACTGAAAAAA-------AGGTT-----T----TCATCTATTTTCGAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122887899 284 + 180051392 TTTCTGCT-GAACCAATTGGAT-----TTGAAGTAACAAAGTACTCTTTATCATCTAGAGAAGGTTCAGAGACTGAAAGAAAGCAAAGTTCC-TTAAATTAATGCTTTGGAGC---------CAAAG-----ATATCAACAAGAGTCTC-TGAGTATCTGAGATAATTACGAGGACAAAGTTTGGAAATTTCTGGAAATGCTGTAATTTG--TG---------TTTGTTGTGGTAA-GCGTTGTTGCTACTTATCTTTTCAGCCACCATTAGC-ATAAAAATTAAAACTG-AAAAAA----AGAAGTT-----T----TCATCTGTTTTCCAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124311525 280 + 181584905 TTTCTGCT-GAACCAATTGGAT-----TTGAAGTAACAAAGTACTCTTTATCATCTAGAGAAGGTTCAGAGACTGAAAGAAAGCAAAGTTCC-TTAAATTAATGCTTTGGAGC---------CAAAG-----ATATCAACAAGAGTCTC-TGAGTATCTGAGATAATTACGAGGACAAAGTTTGGAAATTTCTGGAAATGCTGTAATTTG--TG---------TTTGTTGTGGTAA-GTGTTGTTGCTACTTATCTTTTCAGCCACCATTAGC-ATAAAAATTAAAACTG-AAAA--------AAGTT-----T----TCATCTGTTTTCCAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16310192 280 +  18395747 TTTCTGCT-GAACCAATTGGAT-----TTGAAGTAACAAAGTACTCTTTATCATCTAGAGAAGGTTCAGAGACTGAAAGAAAGCAAAGTTCC-TTAAATTAATGCTTTGGAGC---------CAAAG-----ATATCAACAAGAGTCTC-TGAGTATCTGAGATAATTACGAGGACAAAGTTTGGAAATTTCTGGAAATGCTGTAATTTG--TG---------TTTGTTGTGGTAA-GTGTTGTTGCTACTTATCTTTTCAGCCACCATTAGC-ATAAAAATTAAAACTG-AAAA--------AAGTT-----T----TCATCTGTTTTCCAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5322620 284 +  26952557 TTTCTGCT-GAACCAATTGGAT-----TTGAAGTAACAAAGTACTCTTTATCATCTAGAGAAGGTTCAGAGACTGAAAGAAAGCAAAGTTCC-TTAAATTAATGCTTTGGAAC---------CAAAG-----ATATCAACAAGAGTCTC-TGAGTATCTGAGATAATTACGAGGACAAAGTTTGGAAATTTCTGGAAATGCTGTAATTTG--TG---------TTTGTTGTGGTAA-GTGTTGTTGCTACTTATCTTTTCAGCCACCATTAGC-ATAAAAATTAAAACTG-AAAAAA----AGAAGTT-----T----TCATCTGTTTTCCAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28423288 281 +  82825804 TTTCTGCT-GAACCAACTGGAT-----TTGAAGTAACAAAGTACTCTTTATCATCTAGAGAAGGTTCAGAGACTGAAAGAAAGCAAAGTTCC-TTAAATTAATGCTTTGGAGC---------CAAAG-----ATATCAACAAGAGTCTC-TGAGTATCTGAGATAATTATGAAGACAAAGTTTGGAAATTTCTGGAAATGCTGTAATTTG--TG---------TTTGTTGTGGTAA-GTGTTGTTGCTACTTATCTTTTCAGCCACCATTAGC-ATAAAAATTAAAACTG-AAAAA-------AAGTT-----T----TCATCTGTTTTCCAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4093149 284 -   4237731 TTTCTGCT-GAACCAATTGGAT-----TTGAAGTAACAAAGTACTCTTTATCATCTAGAGAAGGTTCAGAGACTGAAAGAAAGCAAAGTTCC-TTAAATTAATGCTTTGGAGC---------CAAAG-----ATATCAACAAGAGTCTC-TGAGTATCTGAGATAATTACGAGGACAAAGTTTGGAAATTTCTGGAAATGCTGTAATTTG--TG---------TTTGTTGTGGTAA-GTGTTGTTGCTACTTATCTTTTCAGCCACCATTAGC-ATAAAAATTAAAACTG-AAAAAA----AGAAGTT-----T----TCATCTGTTTTCCAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      361679 284 -   1175262 TTTCTGCT-GAACCAACTGGAT-----TTGAAGTAACAAAATACTCTTTATCATCTAGAGAAGGTTCAGAGACCGAAAGAAAGCAAAGTTCC-TTAAATTAATGCTTTGGAGC---------CAAAT-----ATATCAACAAGAGTCTC-TGAGTATCTGAGATAATTACGAGGACAAAGTTTGGAAATTTCTGGAAATACTGTCATTTG--TG---------TTTGTTGTGGTAA-GTGTTGTTGCTACTTATCTTTTCAGCCACCATTAGC-ACAAAAATTAAAACTG-AAAAAA----GGAAGTT-----T----TCATCTGTTTTCCAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123710076 284 - 204313951 -TTCTGCT-GAATCAACTGGAT-----TTGAAATAACAAAGTACTCCTTATCATCTAGAGAAGGTTCAGAGACTGAAAGAAAGCAAAATTCC-TTAAATTAATAATTTGTAGC---------CAAAG-----ATATCAGCAAAAGTCTC-TGGGTATCTGAGATAATTACTAGGACAAAGTTTGGAAATTTCTGGAAATGCTGTAATTTG--TG---------TTTGTTTTGGTAA-GTGTTGTTGCTACTTATCTCTTCAGCCACCGTTAGT-ATAAACATTAAAACTG-AAAAAAG---AAAAGAT-----T----TCATCTATTTTTCAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55754002 285 -  71252344 TTTCTGCT-GAATCAACTGGAT-----TTGAAATAACAAAATACTCCTTATCATCTAGAGAAGTTTCGGAGACTGAAATAAAGCAAAATTCC-TTAACTTTATAATTTGGAGC---------CAAAG-----ATATCAGCAAGAGTCTC-TGAGTAGATGAGATAATTACTAGGACAAAGTTTGGAAATTTCTGGAAATGCTGTAATGTG--TA---------TTTGTTTTGGTAA-GTGTTGTTGCTACTTATCTCTTCAGCCTCCATTAGT-ATAAACATTAAAACTG-AAAAAAG---AAAAGAT-----T----TCATCTATTTTTCAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       57458 286 -   3089952 TTTCTGCT-GAATCCACTGGAT-----TTGAAATAACAAAGTACTCCTTATCATCTAGAGAAGCTTCAGAGACTGAAAGACAGCAAAATTCC-TTAAATTAATAATTTGGAGC---------CAAAG-----ATATCAGCAAGAGTCTCTTGAGTATCTGAGATAATTACTAGGACAAAGTCTGGAAATTTCTGGAAATGCTGTAATTTG--TG---------TTTGTTTTGGTAA-GTGTTGTTGCTACTTATCTCTTCAGCCACCATTAGT-ATAAACATTAAAACTG-AAAAAAG---AAAAGAT-----T----TCATCTGTTTTTCAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13257737 285 -  42888418 TTTCTGCT-GAATCAACTGGAT-----TTGAAATAACAAAGTACTCCTTATCATCTAGAGAAGGTTCAGAGACTGAAAGAAAGCAAAATTCC-TTAAATTAATAATTTGGAGC---------CAAAG-----ATATCAGCAAGAGTCTC-TGAGTGTCTGAGATAATTACTAGGACAAAGTTTGGAAATTTCTGGAAATGCTGTAATTTG--TG---------TTTGTTTTGGTAA-GTGTTATTGCTACTTATCTCTTCAGCCACCATTAGT-ATAAACATTAAAACTG-CAAAAAG---AGAAGAT-----T----TCATCTATTTTTCAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60595209 272 + 108143057 TCTCTGTT-GAATCAATTAGAT-----TTGAAATAACAAAGTACCCTTTATCATCTAGAGAAGATCTGGAGACTGAAGGAAAGCAAAATTTCATTAAATTAATGCT-----------------AAAGATATCATATCGGCAAGA---------GTATCTGAGGTAATTACCAGGACAAAGTTGGGAAATTTCTGGAAACAC--TAATTTA--TG---------TTTGTTTGGGGCA-GTGTTATTGCTACTTTTCTCTCCAGCCACCATTAGC-ATAACAACTGAAACTA-AAAAAAGG----AAGTT-----T----CAATCTATTTTCCAG
i micMur3.chr12            C 0 I 361
s proCoq1.NW_012155062v1     3630903 279 +  11683526 CTTCTGTT-GAAGCAATTAGAT-----TTGAAATAACATAGTACTCTTTAACATCTAGAGAAGATTTGGAGACTGAAGAAAAGGAAAATTTCATTAAATTAATTCT-----------------AAAG-----ATATTGGCAAGAGTCTC-TGGGTATCTGAGATAATTACCAGGACCAAGTTGGGAAATTTCTGGAAACACTGTAATTTA--TG---------TTTGTTTTGGTCA-GTGTCATTGCTACTTCTCTCTCTGGCCACCGTTAGC-ATAAAAACTGAAACTG-AAAAAAAG--AAAAGTT-----T----CAGTCTATTTTCCAG
i proCoq1.NW_012155062v1   I 109 C 0
s otoGar3.GL873679           3120800 275 +   4132165 CTTCTGTT-GAATCAACTAAAT-----TTGAAATAACAAAGTACTCTTTATCATCTAAAGAAGGTCCGGTGACTGAAGGAAAGATTAATTTCCTTAAATTAATGCT-----------------AAAA-----ATAGCAGCAACAGTCTT-TGGGTATCTGAGATGATTACCA-GACAAGGTTGAGAAACTTCCAGAAACACTGTATTTTA--TG---------TTTGCTCTGGTTA-----CAGTGCTGCTTCTCCCTCCAACCACCAATAGC-ATAA-AACTGAAAATG-AAAAAATATTAAAAGTT-----T----CAATCTATTTTGCAG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55557718 251 +  90702639 TCTCTGCT-CAATCCACTGGAC-----TTGAAAATGCATAGCACTC--TATCAGCCTGAGAGGGTCCAGAG-CTGAAGGAAAAGAAAGCTTGAAGAAAGCTATGTCCTGGGGT--------AAAAAA-----ATATCAGTAAAGATTTC-TGGAT--------------------------------------GAAAATGCTAAAATGTG--TGCATTCATTCTTCATTTGGGCAATGTGGTGGTGTG------CCCTTCAGCCGTCATTAAC-AGGAAAAC--AAACTG-AAAAA-----GAAAATTGTCAGT----GCATTCCTTTTCTGG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14962298 282 +  74389097 TTTCTGTT-GCACCAACTGGAT-----TTGAAGTAACAAAGCAGTCTTTATCATCTAGAGAAGGTCCAGAGACTGAAGGAAAGCAATGTTTGATTAACTTAGCACTCTAGTGC---------AAAAT-----AGATCAGCATGAGTCTC-TGGGGATCTGGGATAATCACCAAGACAAAGTTGGAAAACTTCTGGAAGCACTATAATTTG--TG---------TTTGTTTTGGCTA----TTGTTGCTGCTTACCCCTTCAGCCACCATTAGT-GTGAAAAGTGAAACTG-AAAA--------AAGTC-----TCGGCCTATTTATTTTCCAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2685215 301 +   3667625 TTTCTGCCAAAATCCACCAGAT-----TTGAAATGACAAAGTATTCTTTATCATCTAGAGAAGGTCCAGGGTCTGAAGGATAATGCAATTTGCTTTAATTCGTGATCTGGTCCTGGGTAGATCAGGA-----CTATCAGCAATAGTCTC-TGAGTAGGTGGGATAATTTCAATGACCAAGTTGGAAAATTCCTGGTAATGCTGGAGTGTGTCTG---------CTTGTTTTAGTTG-TTG-AGTTGCTGCTCAACCCTTTAGTCATCATTATCAATGGAAACTACAACTG-GAAAATAG--AAAAGTC-----T--GTCTATTTATTTTTCAG
i dasNov3.JH567306         C 0 C 0

a score=208658.000000
s hg38.chr5_KI270796v1_alt    137036 17 +    172708 ATCTATAAACTAAGAAT
s panTro5.chr5             125240735 17 + 181907262 ATATATAAACTAAGAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126577445 17 + 183735486 ATATATAAACTAAGAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1769222 17 +   8933513 ATCTATAAACTAAGAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139903493 17 + 163208435 ATCTATAAACTAAGAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122888183 17 + 180051392 ATCTATAAACTAAGAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124311805 17 + 181584905 ATCTATAAACTAAGAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16310472 17 +  18395747 ATCTATAAACTAAGAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5322904 17 +  26952557 ATCTATAAACTAAGAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28423569 17 +  82825804 ATCTATAAACTAAGAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4093433 17 -   4237731 ATCTATAAACTAAGAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      361963 17 -   1175262 ATCTATAAACTAAGAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123710360 17 - 204313951 ATCTGTAAAGGAAGAGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55754287 17 -  71252344 ATCTTTAAAGGAAGAGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       57744 17 -   3089952 ATCTATAAAGGAAGAGT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13258022 17 -  42888418 ATCTATAAAGGAAGAGT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3631182 17 +  11683526 ATCTCTAAAGAAAGAAT
i proCoq1.NW_012155062v1   C 0 I 129
s otoGar3.GL873679           3121075 17 +   4132165 CTCACTAAAGAAAGAAT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55557969 17 +  90702639 ATTTCTAAATAAACAAT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14962580 17 +  74389097 ATTTCTAAAGAAGGAAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2685516 17 +   3667625 ATTCCTAAAGAAATGAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60595481 361 + 108143057 I

a score=1324605.000000
s hg38.chr5_KI270796v1_alt    137053 129 +    172708 AATCTGGAGAGGTCAATTCCTAATTAGAACCTAGT-ATGGAAGACTAGGATCCTAAAACTCAGTGGTAACTCCGAAGAGTAAAAATCTACCCCAGAGCTATAC-GTGAAAGATTGGAAT-TTTACAAGGAGG--
s panTro5.chr5             125240752 129 + 181907262 AATCTGGAGAGGTCAATTCCTAATTAGAACCTAGT-TTGGGAGACCAGGATCCTAAAACTCAGTGGTAACTCCAAAGAGTAAAAATCTACCCCAGAGCTATAC-ATGAAAGATTGGAAT-TTTACAAGGAGG--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126577462 129 + 183735486 AATCTGGAGAGGTCAATTCCTAATTAGAACCTAGT-TTGGGAGACCAGGATCCTAAAACTCAGTGGTAACTCCAAAGAGTAAAAATCTACCCCAGAGCTATAC-ATGAAAGATTGGAAT-TTTACAAGGAGG--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1769239 129 +   8933513 AATCTGGAGAGGTCAATTCCTAATTAGAACCTAGT-TTGGGAGACGAGGATCCTAAAACTCAGTGGTAACTCCAAAGAGTAAAAATCTACCCCAGAGCTATAC-ATGAAAGATTGGAAT-TTTACAAGGAGG--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139903510 129 + 163208435 AATCTAGAGAGGTCAATTCCTAATTAGAACCTAGT-TTGGGAGACCAGGATCCTAAAACTCAGTGGTAACTCTAAAGAGTAAAAATCTACCCCAGAGCTATAC-ATGAAAGATTGGAAT-TTTACAAGGAGG--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122888200 127 + 180051392 AATCTGGAGAGGTCAATTCCTAATTAGAATCTAGT-TTGGGAGACCAGGATCCTAAAAC-CGGTGGTAACTCCAAAGAGTAAAGATCTACCCC-GAGCTATAC-ATACAAGATTGGAAT-TTTACAAGGAGG--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124311822 127 + 181584905 AATCTGGAGAGGTCAATTCCTAATTAGAATCTAGT-TTGGGAGACCAGGATCCTAAAAC-CGGTGGTAACTCCAAAGAGTAAAGATCTACCCC-GAGCTATAC-ATACAAGATTGGAAT-TTTACAAGGAGG--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16310489 127 +  18395747 AATCTGGAGAGGTCAATTCCTAATTAGAATCTAGT-TCGGGAGACCAGGATCCTAAAAC-CGGTGGTAACTCCAAAGAGTAAATATCTACCCC-GAGCTATAC-ATACAAGATTGGAAT-TTTACAAGGAGG--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5322921 127 +  26952557 AATCTGGAGAGGTCAATTCCTAATTAGAATCTAGT-TTGGGAGACCAGGATCCTAAAAC-CAGTGGTAACTCCAAAGAGTAAAAATCTACCCC-GAGCTATAC-ATACAAGATTGGAAT-TTTACAAGGAGG--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28423586 127 +  82825804 AATCTGGAGAGGTCAGTTCCTAATTAGAATCTAGT-TTGAGAGACCAGGATCCTAAAAG-CGGTGGTAACTCCAAAGAGTAAAAATCTACCCC-GAGCTATAC-ATACAAGATTGGAAT-TTTACAAGGAGG--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4093450 127 -   4237731 AATCTGGAGAGGTCAATTCCTAATTAGAATCTAGT-TTGGGAGACCAGGATCCTAAAAC-CGGTGGTAATTCCAAAGAGTAAAAATCTACCCC-GAGCTATAC-ATACAAGATCGGAAT-TTTACAAGGAGG--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      361980 127 -   1175262 AATCTGGAGAGGTCAATTCCTAATTAGAACCTAGT-TTGGGAGACCAGGATCCTAAAAC-TAGTGGTAACTCCAAAGAGTAAAAATCTACCCC-GAGCTATAT-ATAAAAGATTGGAAT-TTTACAAGGAGG--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123710377 117 - 204313951 AATCTGGAGAGGTCAGTTTCTAATTA-GGGCTAGT-TTGGGAGACCAGGACCCTAAAACTCGATGGTAATTCCAAAGAGTAAAAGTCTACCCAGGAGCTAAAC-ATAAAAGATTG------------GGAGG--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55754304 117 -  71252344 GATCTGGAGAGGTCAGTTCCTAATTA-GGGCTAGT-CTGGGAGACCAGGACCCTGAAACTCGGTGATAACACCAAAGAGTAAAAATCCACCCAGGAGCTAAAC-ATAAAAGATTG------------GGAGG--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       57761 117 -   3089952 AATCTGGAGAGGTCAGTTCCTAATTA-GGGCTAGT-TTGGGAGACCAGGACCCTGAAACTCAGTGGTAACTCCAAAGAGTAAAAATCTACCCAGGAGCTAAAC-ATGAAAGATTG------------GGAGG--
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13258039 118 -  42888418 AATCTGGAGAGGTCAGTTCCTAATTAGGGGCTAGT-TTGGGAGACCAGGACCCTAAAGCTCGGTGGTAACTCCAGAGAGTAAAAATCTACCTAGGAGCTAAAC-ATAAAAGATTG------------AGAGG--
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3121092 127 +   4132165 ----TGAAGACATGATATCTTACTTAGGAGCTAGTCTTGGGAGACTGGTACCCTTAAACTTGATGCTAGCTCCAAAGAGTAAAAATCTGCCCAAGAATTACATAAAAAAAGATCAGAAC-TTTGTGAGGTGG--
i otoGar3.GL873679         C 0 I 3
s mm10.chr18                55557986 107 +  90702639 --------------AGATCCT------AAGCTAGTCTCAGGACAACGGGAGCCTAAGATGCAGTAATAGCC---AAGAAGGAATCTTTTCCCAGGAGTTGTAT-ATGAAAAATCAGAAT-CCTGGGAAAAAA--
i mm10.chr18               C 0 I 5
s canFam3.chr11             14962597 127 +  74389097 AACTTGGAGA--TCACATCGTATTTGGAAGTTACTCTTAGGAGACCAGGACCATAAGACTCATAGGTAGCCCTAAGGAGTAAAACTCTGCCCAGGAGCTTTAC-ATAAAA-CTCAGAAT-TCTGTAAGAAAG--
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2685533 131 +   3667625 AACCTGGAGA--TCACATTCTATTTAGAAGCTAGTCTTGGGAAACCAGTGCACTACGATGTGGCAATAGCCCTAAAGAATAAAAATCTGCCCACGCACTGTCC-ATAAATGATCAGAACACCTGTGAAGAGGAG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60595481 361 + 108143057 I
e proCoq1.NW_012155062v1     3631199 129 +  11683526 I

a score=753918.000000
s hg38.chr5_KI270796v1_alt    137182 51 +    172708 TTTGCATTTTAAAACTGGTTGCTGAGATTTCACCAGGTGAGGACATCTCTG
s panTro5.chr5             125240881 51 + 181907262 TTTGCATTTTAAAACTGGTAGCTGAGATTTCACCAGGTGAGGACATCTCTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126577591 51 + 183735486 TTTGCATTTTAAAACTGGTAGCTGAGATTTCACCAGGTGAGGACATCTCTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1769368 51 +   8933513 TTTGCATTTTAAAACTGGTAGCTGAGATTTCACCAGGTGAGGACATCTCTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139903639 51 + 163208435 TTTGCATTTTAAAACTGGTAGCTGAGATTTCACCAGGTGAGGACACCTCTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122888327 51 + 180051392 TTTGCATTTTAAAACTGGTAGCTGAGATTTAACCAGGTGAGGACACCTCTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124311949 51 + 181584905 TTTGCATTTTAAAACTGGTAGCTGAGATTTAACCAGGTGAGGACACCTCTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16310616 51 +  18395747 TTTGCATTTTAAAACTGGTAGCTGAGATTTAACCAGGTGAGGACACCTCTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5323048 51 +  26952557 TTTGCATTTTAAAACTGGTAGCTGAGATTTAACCAGGTGAGGACACCTCTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28423713 51 +  82825804 TTTGCATTTTAAAACTGGTAGCTGAGATTTAACCAGGTGAGGACACCTCTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4093577 51 -   4237731 TTTGCATTTTAAAACTGGTAGCTGAGATTTAACCAGGTGAGGACACCTCTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      362107 51 -   1175262 TTTGCGTTTTAAAACTGGTAGCTGAGATTTAACCAGGTGAGGACACCTCTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123710494 51 - 204313951 TTTGCATTTTAAAACTGGTAGCTGAGGTTTAATCAGGTGAGGACACCTTTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55754421 51 -  71252344 TTTGCATTTTAAAACTGGTAGCTGAGGTTTAATCAGGTGAGGACACCTCTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       57878 51 -   3089952 TTTGCATTTTAAAACTGGTAGCTGAGGTTTAATCAGGTGAGGACACCTCTG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13258157 51 -  42888418 TTTGCATTTTAAAACTGGTAGCTGAGGTTTAATCAGGTGAGGACACCTCTG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3631328 51 +  11683526 TTTGCATTTCAAAACTGGTATCTGAGGCTTAACCAGGTGGAGAGACCTGTG
i proCoq1.NW_012155062v1   I 129 C 0
s otoGar3.GL873679           3121222 51 +   4132165 TGTGGATTTCAAAACTGGTATCTGAGACTTAAGCAGGTGGAGACATCTTTG
i otoGar3.GL873679         I 3 I 788
s mm10.chr18                55558098 50 +  90702639 CTGGCATTTCAAAG-TGGCAGCGTAGGCTTCAGCAGGTAGAAATCCCATGG
i mm10.chr18               I 5 C 0
s canFam3.chr11             14962727 51 +  74389097 TTGGGGTTTTAGTATTGGTAGCTGAGGCTCAACCAGATGAAGAAAACTTTG
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2685664 45 +   3667625 TTGGGATTTCAGAACTGGTAGACCAGGTTTAAACAGGTGGAGACA------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60595481 361 + 108143057 I

a score=53320.000000
s hg38.chr5_KI270796v1_alt    137233 5 +    172708 TGCAT
s panTro5.chr5             125240932 5 + 181907262 TGCAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126577642 5 + 183735486 TGCAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1769419 5 +   8933513 TGCAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139903690 5 + 163208435 TGCAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122888378 5 + 180051392 TGCAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124312000 5 + 181584905 TGCAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16310667 5 +  18395747 TGCAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5323099 5 +  26952557 TGCAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28423764 5 +  82825804 TGCAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4093628 5 -   4237731 TGCAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      362158 5 -   1175262 TGCAt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123710545 5 - 204313951 TGCAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55754472 5 -  71252344 TGCAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       57929 5 -   3089952 TGCAC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13258208 5 -  42888418 TACAT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3631379 5 +  11683526 GGCAT
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55558148 3 +  90702639 --GAT
i mm10.chr18               C 0 I 2
e micMur3.chr12             60595481 361 + 108143057 I
e canFam3.chr11             14962778 0 +  74389097 C
e otoGar3.GL873679           3121273 788 +   4132165 I
e dasNov3.JH567306           2685709 0 +   3667625 C

a score=304936.000000
s hg38.chr5_KI270796v1_alt    137238 58 +    172708 CTTTCCGACAtctttctatttatttttcctctatcac---ctttttctct-------ctccttttttt
s panTro5.chr5             125240937 58 + 181907262 CTTTCCGACAtctttctatttatttttcctctatcac---ctttttctct-------ctccttttttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126577647 57 + 183735486 CTTTCCCACATCTTTCTATTTATTTTTCCTCTATCAC---CTTTTTCTCT-------CTCCTTTTTT-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1769424 57 +   8933513 CTTTCCAACAtctttctatttatttttcctctatcac---ctttttctct-------ctcctttttt-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139903695 58 + 163208435 CTTTCCGACAtctttctatttatttttcctctttctatcgctctttctct-------ctcctttt---
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122888383 57 + 180051392 CTTTCCAACA----tctattcatttttactctttctgcctctctttctcc-------ttttttttttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124312005 54 + 181584905 CTTTCCAACA----TCTATTCATTTTTActctttctgcctctctttctcc----------tttttttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16310672 59 +  18395747 CTTTCCAACA----tctattcatttttactctttctgcctctctttttcc-----ttttttttttttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5323104 64 +  26952557 CTTTCCAACA----tctattcatttttactctttctgcctctctttctcctttttttttttttttttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28423769 57 +  82825804 CTTTCCAACA----TCTATTCATTTTTACTCTTTCTGCCGCTCTTTCTCC-------TTTTTTTTTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4093633 57 -   4237731 CTTTCCAACA----TCTATTCATTTTTActctttctgcctctgtttctcc-------ttttttttttt
i manLeu1.NW_012103321v1   C 0 I 2
s colAng1.NW_012119644v1      362163 53 -   1175262 ctttctgaca----tctattcatttttcctctttctgccactctttctcc-----------ttttttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123710550 56 - 204313951 CTTTCAGATATTT-TCTCATTATTTGTCCTCTTTTTGTCACT-TTTCTCT-------CTCCTTTT---
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55754477 56 -  71252344 CTTTCAGACATCT-TCCCATTATTTTCCCTCTTTTTGTCACT-TTTCTCT-------CCCCTTTT---
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       57934 56 -   3089952 CTTTCAGACATCT-TCTCATTATTTTTCCTCTTTTTGTCACT-TTTCTCT-------CTCCTTTT---
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13258213 56 -  42888418 CTTTCAGACATCT-TCCTATTATTTTTCctctttgtatcact-tttctct-------ctcctttt---
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3631384 49 +  11683526 CTTTCAGACATCTTCCTATTTATTTTTtct----------gtctttctct-------ctctctctc--
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3122061 48 +   4132165 CTTTCAGGTAtcttcctgtttgtttttcct----------ctctttctct-------ttcccttt---
i otoGar3.GL873679         I 788 C 0
s mm10.chr18                55558153 59 +  90702639 CTTCCCAGTATCCTCCCACCCATCTTCTCTGTCTCTGTCTTTTCCTCTGT-------TCCCCACCT--
i mm10.chr18               I 2 C 0
s canFam3.chr11             14962778 37 +  74389097 ------GGCACCTTCCTATTTGTtctctctctct------ctctctctc-------------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2685709 27 +   3667625 CTTTAGGGCATCTTCTGATTTATTTTT-----------------------------------------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60595481 361 + 108143057 I

a score=4939534.000000
s hg38.chr5_KI270796v1_alt    137296 309 +    172708 tctctc-tctctctctctcATAGTTACGTGGAAGGGT-AAAGCAATAAG-AAAAAAATGGATTTATTCACA-TTTTCTCTTCCTCTTCCAATGAAATGAAGTAATTTCTCCACAGGGCCGATTATGCC-CAGTTAATTGATTTTCTTAATCAGATATTTTGGAAAAACAATTGAGCTTTGTGAACTTCTGGATGTTTTTCTCACTGGAGATTTGAGAGGCACACACCCACTG-TTCTTTGTATTTCTAGACTACGTAATTGGAGCATATATCAAGGCAATTTTT-TCATACCTTCTATTTTCATGTAATTTTCCTC
s panTro5.chr5             125240995 307 + 181907262 --tctc-tctctctctctcATAGTTACGTGGAAGGGT-AAAGCAATAAG-AAAAAAATGGATTTATTCACA-TTTTCTCTTCCTCTTCCAATGAAATGAAGTAATTTCTCCACAGGGCCGATTATGCC-CAGTTAATTGATTTTCTTAATCAGATATTTTGGAAAAACAATTGAGCTTTGTGAACTTCTGGATGTTTTTCTCACTGGAGATTTGAGAGGCACACACCCACTG-TTCTTTGTATTTCTAGACTACGTAATTGGAGCATATATCAAGGCAATTTTT-TCATACCTTCTATTTTCATGTAATTTTCCTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126577704 307 + 183735486 --TTTT-TCTCTATCTCTCATAGTTACGTGGAAGGGT-AAAGCAATAAG-AAAAAAATGGATTTATTCACA-TTTTCTCTTCCTCTTCCAATGAAATGAAGTAATTTCTCCACAGGGCCGATTATGCC-CAGTTAATTGATTTTCTTAATCAGATATTTTGGAAAAACAATTGAACTTTGTGAACTTCTGGATGTTTTTCTCACTGGAGATTTGAGAGGCACACACCCACTG-TTCTTTGTATTTCTAGACTACGTAATTGGAGCATATATCAAGGCAATTTTT-TCATACCTTCTATTTTCATGTAATTTTCCTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1769481 307 +   8933513 --cttc-tctctctctctcATAGTTACGTGGAAGGGT-AAAGCAATAAG-AAAAAAATGGATTTATTCACA-TTTTCTCTTCCTCTTCCAATGAAATGAAGTAATTTCTCCACAGGGCCGATTATGCC-CAGTTAATTGATTTTCTTAATCAGATATTTTGGAAAAACAATTGAGCTTTGTGAACTTCTGGATGTTTTTCTCACTGGAGATTTGAGAGGCACACACCCACTG-TTCTTTGTATTTCTAGACTACGTAATTGGAGCATATATCAAGGCAATTTTT-TCATACCTTCTATTTTCATGTGATTTTCCTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139903753 307 + 163208435 --tttc-cctctctctctcATAGTTATGTGGAAGAGT-AAAGCAATAAG-AAAAAAATGGGTTTATTCACA-TTTTCTCTTCCTCTTCAAATGAAATGAAGTAATTTCTCCACAGGGCCGATTATGCC-TAGTTAATTGATTTTCTTAATCAGATATTTTGGAAAAACAACTGAGCTTTGTGAACTTCTGGATGTTTTTCTCACTGGAGATTTGAGAAGCACATACGCACTG-TTCTTTGTATTTCTAGACTACGTAATTGGAGCATATATCAAGGCAATTTTT-TCATACCTTCTATTTGCATGTAATTTTCCTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122888440 307 + 180051392 --tctc-tctctctctctcATAGCTATGTGGAAGGGT-AAAGCAATACG-AAAAAAATGGGTTTATTCACA-GTGTCTCTTCCTCTTCCAATGAAATGAAGTAATTTCTCCACAGGGCCGATTATGCC-TAGTTAATTGATTTTCTTAATCAGATATTTTGGAAAAACAATTGAGTTTTATGAACTTCTGAATGTTTTTCTCACTGGAAATTTGAGAGGCACACACCCACTG-TTCTTTGTACTTCTAGACTACATAATTGGAGCATGTATCAAGGCAATTTTT-TCATACCTTCTATTTGCATGTAATTTTCCTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124312059 307 + 181584905 --tttc-tctctctctctcATAGCTATGTGGAAGGGT-AAAGCAATAAG-AAAAAAATGGGTTTATTCACA-GTGTCTCTTCCTCTTCCAATGAAATGAAGTAATTTCTCCACAGGGCCGATTATGCC-TAGTTAATTGATTTTCTTAATCAGATATTTTGGAAAAACAATTGAGTTTTATGAACTTCTGAATGTTTTTCTCACTGGAAATTTGAGAGGCACACACCCACTG-TTCTTTGTACTTCTAGACTACATAATTGGAGCATATATCAAGGCAATTTTT-TCATACCTTCTATTTGCATGTAATTTTCCTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16310731 307 +  18395747 --tttc-tctctctctctcATAGCTATGTGGAAGGGT-AAAGCAATAAG-AAAAAAATGGGTTTATTCACA-GTGTCTCTTCCTCTTCCAATGAAATGAAGTAATTTCTCCACAGGGCCGATTATGCC-TAGTTAATTGATTTTCTTAATCAGATATTTTGGAAAAACAATTGAGTTTTATGAACTTCTGAATGTTTTTCTCACTGGAAATTTGAGAGGCACACACCCACTG-TTCTTTGTACTTCTAGACTACATAATTGGAGCATGTATCAAGGCAATTTTT-TCATACCTTCTATTTGCATGTAATTTTCCTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5323168 307 +  26952557 --tctc-tctctctctctCATAGCTATGTGGAAGGGT-AAAGCAATAAG-AAAAAAATGGGTTTATTCACA-TTGTCTCTTCCTCTTCCAATGAAATGAAGTAATTTCTCCACAGGGCCGATTATGCC-TAGTTAATTGATTATCTTAATCAGATATTTTGGAAAAACAATTGAGTTTTATGAACTTCTGAATGTTTTTCTCACTGGAAATTTGAGAGGCATACACCCACTG-TTCTTTGTACTTCTAGACTACATAATTGGAGCATGTATCAAGGCAATTTTT-TCATACCTTCTATTTGCATGTAATTTTCTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28423826 305 +  82825804 ----TT-CCTCTCTCTCTCATGGCTATGTGGAAGGGT-AAAGCAATAAG-AAAAAAATGGGTTTATTCACA-TTGTCTCTTCCTCTTCCAATGAAATGAAGTAATTTCTCCACAGGGCCAATTATGCC-TAGTTAATTGATTTTCTTAATCAGATATTTTGGAAAAACAATTGAGTTTTATAAACTTCTGAATGTTTTTCTCACTGGAAATTTGAGAGGCACACACCCACTG-TTCTTTGTACTTCTAGACTACATAATTGGAGCATGTATCAAGGCAATTTTT-TCATACCTTCTATTTGCATGTAATTTTCCTC
i chlSab2.chr23            C 0 I 11
s manLeu1.NW_012103321v1     4093692 306 -   4237731 tctctc-tctctctctctcATAGCTATGTGGAAGGGT-AAAGCAATAAG-AAAAAAATGGGTTTATTCACA-TTGTCTCTTCCTCTTCCAATGAAATGAAGTAATTTCTCCACAGGGCCGATTATGCC-TAGTTAATTGATTATCTTAATCAGATATTTTGGAAAAACAATTGAGTTTTATGAACTTCTGAATGTTTTTCTCACTGGAAATTTGAGAGGCATACACCCACTG-TTCTTTGCACTTCTAGACTACATAATTGGAGCATGTATCAAGGCAATTTTT-TCATACCTTCTATTTGCATGTAATTTTC---
i manLeu1.NW_012103321v1   I 2 C 0
s colAng1.NW_012119644v1      362216 307 -   1175262 --tttc-tctgtctctctcatAGTTATGTGGAAGGGT-AAAGCAATAAG-AAAAAAATGGGTTTATTCACA-TTGTCTCTTCCTCTTCCAATGAAATGAAGTAATTTCTCCACAGGGCCGATTATGCC-TAGTTAATTGATTTTCTTAATCAGATATTTTGGAAAAACAATTGAGTTTTGTGAACTTCCTAATGTTTTTCTCACTGGGGATTTGAGAGGCACACGCCCACTG-TTCTTTGTACTTCTAGACTACAGAATTGGAGCATATATCAAGGCAATTTTT-TCATACCTTCTATTTGCATGTAATTTTCCTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123710606 307 - 204313951 --TTCC-TCTCTCTCTTCCATAGTTATTTGGAAGGGT-AAAGCAATAAG-AAAAAATTGGGTTTATTCACA-TTTTCTCTTCCTGATCCAATGAAATGAAGTAATTTCTCCACGGGGCCCATTATACC-TAGTTAATTGATTCTCTTAATCAGACATTTTGAAAAAACAATTGAGCTTTGTGAACTTCTGGATGTTTTTCTCACTGGAGATTTGAGAAGCACACACCCACTG-TTCTTCGTATTTCTAGACTATGTAATTGGAGCATATATCAAGACAGGTTTT-TCATACCTTTTATTTGCATGTAATTGTCCTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55754533 307 -  71252344 --TTTC--CTCTCTCTTTCATAGTTACGTGGAAGGGT-AAAGCAATAAGAAAAAAAATGGGTTTATTCACA-TTTTCTCTTCCTTTTCCAATGAAATGAAGTAATTTCTCCACAGGGCCCATTATACC-TAGTTAATTGATTTTCTTAATCAGACATTCTGGAAAAACAATTGAGCTTTGTGAACTTCTGGATGTTTTTCTCATTGGAGATTTGAGAGGCACACACCCACTG-TTCTTTGTATTTCTAGACCATGTAATTGGAGTATATATCAAGACAGATTTT-TCTTACCTTTTATTTGCATGTAATTTTCCTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       57990 308 -   3089952 --TTTCCTCTCTCTCTTTCATAGTTATGTGGAAGGGT-AAAGC-ATAAG-AAAAAAATGGGTTTATTCACATTTTTCTCTTCCTGTTCCAATGAAATGAAGTAATTTCTCCACAAGGCCCATTATACC-TAGTTAATTGATTTTCTTAATCAGACATTTTGGAAAAACAATTGAGCTTTGTGAACTTCTGGATGTTTTTCTCACTGGAGATTTGAGAGGCACACACCCACTG-TTCTTTGTATTTCTAGACTATGTAATTGGAGCATATATCGAGACAGATTTT-TCATACCTTTTATTTGCATGTAATTTTCCTC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13258269 308 -  42888418 --tttc-tctctctctttcACAGTTATGTGGAAGCGT-AAAGCAATAAGAAAAAAAATGGGTTTATTCACA-TTTTCTCTTCCTGTTCCAATGAAATGAAGTAATTTCTCCACAGGGCCCATTATACC-TAGTTAATTGATTTCCTTAATCAGACATTTTGGAAAAACAATTGAGCTTTGTGAACTTCTGGACGTTTTTCTCGCTGGAGATTTGAGAGGCACACACCCACTG-CTCTTTGTATTTCTAGACTGTGTAATTGGAGCATATATCAAGACACGTTTT-TCATACCTTTTATTTGCATGTAATTTTCCTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60595842 306 + 108143057 tctctc-tctctctctcttAGAGTTA--TAGAAGGGTAAAAACAATAGG--AAAAAATGGGTTTATCA-CA-TTTTCTCCTCCTGTTCTGATGAAATGAAGTAATTTCTCCACCAGGCCCATT-TGCC-TATTTAATTGATTTTCTTAATCAGACATTTTGGCAAAACAATTGACCTTTGTGAACTTCTGGACGTTTTTCTCACTAGAGACTTGAGAAGCACACACCCACTGTTTTTTTGTATTTCTAGACTATGTCATTGCAGGACATATTAAGGCAATTTTT-TCATGCCTTCTATTTGCATGTAATTTTCTTT
i micMur3.chr12            I 361 C 0
s proCoq1.NW_012155062v1     3631433 307 +  11683526 tctccc-ttcctgtctctTAGAGTTATGTGGAAGGGT-AAAGCAATAGG-AAAAAAATGGGTTTATTACCA-TTTTCTCCTCCTGTTCCAATGAAATGAAGTAATTTCTCCACCGGGCCCATT-TGCA-TATTTAATTGATTTTCTTAATCAGACATTTTGGGAAAACAATTGAGCTTTGTGAACTTTTGGATG-TTTTCTCACTGGAGACTTGAGAGGCACACACCCACTG-TTCTTTGTATTTCTAGACTATGTCATTGCAGCACATATTAAGGCAATTTTT-TCATGCCTTCTATTTGCATGTAATTTTCTTC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3122109 287 +   4132165 ---ccc-tccctctttctTATTGTCATGTGGAAGGGT-AAAGCAATAGG-GAAAAAATAAGCTTATTCACA-TTTTCTCTTCCTGTTTCAATGAAATGAAGTAATTTC------------------CC-TATTTAATTGATTTTCCTGATCAGGCATTTTGGAAAAACAATCAAGC-TTGTGAAGTTTTGGATGTTTTTCTCATTGCAGACTTGTGAGGCACACACTCACTG-TTCTTTATATTTCTAGACGATGTCATTGCAGCACAAATTAAAGCATTTTTT-TCATACCTTCTATTTGCATGTAATTTTCTTC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55558212 266 +  90702639 -CCCTT-TGTGCTCCTTTCATATTTC---------GT-A-----------GGGAAAATGGATTTATTCACA-CTTTCTCATTCTGTTCCACTGAGATGCAGCAATGTCTCCGTAGGGCCCATTATGCT-GAGTTAATTGATTTTCCTCATCAGACATTTTAGAAAAACAATTGAGCTTTGTGAACTTCTGGATGCCTTTCTTAGTAGAGACTTGAGAGGCTCATT----CTG-TTCTTTGTATTTCTAGACT--TTTATTGCCACGCATAT-AAAGCAGGTGTC------Ctgtttgtttgtttg-----------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14962815 296 +  74389097 tctctc-tctctGTATCTTAT-----------AGGGT-AAAGCAAT----ATAAAAATTTTTTTTTTCACA-TTTTCTCTTCCTGTTACAATGAAATGAAGCAGTTTCTCCACAGGACTCATTATGCC-TAGTTAACTGATTTTCCTAACCGGGCATTTTGGAAAAACAATTGAGCTCTGTGAACTTTTGGATGTTTTTCTCACTGCAGACTTGAGAGGCACACACCCACTG-ATTTTTGTATTTTTAGGCTATGTTATTTGAACACTGATTAAAGCAATTTTTTTCATGCCTTCTATTGACATATAATTTTCTTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2685736 295 +   3667625 ----TC-TCTCTCTTTCTCA-ATATATGTGGAAGGGG-AAAGCAATAGG---GAAAATGGATTTGTTCACA-TTTCCTCT---TGTTCCAATGAAGTGAACAAGTTTCTCCACAGGGCCCAATATGCCTTGGTTGGTTGAGTTTCCTAATCAGACATTTGGGAGAAACCATTGAGCTTTGTGAACTTTTAGATATTTTTCTCACTGGAGATTTAAAAGGCACA--CCCACTG-TTCTTT----TTTTAGACTATAGCATTAGAACACAGATTAAGGCAGTTTTTTTCATACCTTCTATTTATATATGATTTTCCTT
i dasNov3.JH567306         C 0 C 0

a score=61985.000000
s hg38.chr5_KI270796v1_alt    137605 9 +    172708 CTTGAGTGA
s panTro5.chr5             125241302 9 + 181907262 CTTGAGTGA
i panTro5.chr5             C 0 I 2
s panPan2.chr5             126578011 9 + 183735486 CTTGAGTGA
i panPan2.chr5             C 0 I 2
s gorGor5.CYUI01015135v1     1769788 9 +   8933513 CTTGAGTGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139904060 9 + 163208435 CTTGACTGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122888747 6 + 180051392 ---GAATGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124312366 6 + 181584905 ---GAATGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16311038 6 +  18395747 ---GAATGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5323475 6 +  26952557 ---GAATGA
i cerAty1.NW_012002512v1   C 0 C 0
s manLeu1.NW_012103321v1     4093998 9 -   4237731 TTTGAATGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      362523 6 -   1175262 ---GAATGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123710913 9 - 204313951 CTTGAGTGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55754840 7 -  71252344 C--GAGTGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       58298 6 -   3089952 ---GAGTGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13258577 9 -  42888418 CTTGAGTGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60596148 9 + 108143057 CGTGGGTGA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3631740 9 +  11683526 CATGAGTGA
i proCoq1.NW_012155062v1   C 0 I 1
s otoGar3.GL873679           3122396 9 +   4132165 CCTGAGTTT
i otoGar3.GL873679         C 0 I 4
s mm10.chr18                55558478 4 +  90702639 tttg-----
i mm10.chr18               C 0 C 0
s canFam3.chr11             14963111 9 +  74389097 CCTGAGTCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2686031 9 +   3667625 CCTGACTTT
i dasNov3.JH567306         C 0 C 0
e chlSab2.chr23             28424131 11 +  82825804 I

a score=4878378.000000
s hg38.chr5_KI270796v1_alt    137614 306 +    172708 -----------TTTTTTTTTTCTCACTTCTCGTGTGCTTACACTAAGGCATTACAG---GGAATGACAATTCTGCTTGGAGCCTGTGAAACACAGCAATTTGAGGCTGTAATGCCTAAAACT-----GTTATTGCAGGTCCAAATGGGACTATATTATATAATTGTGATGTCTACCAACTTAGAGCAAACTCTCTTTTTCTTAATGT-AAAAAAAGACATTTGA-----TTTGCTAACCAATTATGCGATCATCATA-ATCAGCATTTATTTTAACTT-GGCTGAAA-TCATGTCCAAAACTGAAGAGAAGCAAGTATGAAGAGAGTGGGGATA
s panTro5.chr5             125241313 306 + 181907262 -----------TTTTTTTTTTCTCACTTCTCGTGTGCTTACACTAAGGCATTACAG---GGAATGACAATTCTGCTTGGAGCCTGTGAAACATAGCAATTTGAGGCTGTAATGCCTAAAACT-----GTTATTGCAGGTCCAAATGGGACTATATTATATAATTGTGATGTGTACCAACTTAGAGCAAACTCTCTTTTTCTTAATGT-AAAAAAAGACATTTGA-----TTTGCTAACCAATTATGCGATCATCATA-ATCAGCATTTATTTTAACTT-GGCTGAAA-TCATGTCCAAAACTGAAGAGAAGCAAGTATGAAGAGAGTGGGGATA
i panTro5.chr5             I 2 C 0
s panPan2.chr5             126578022 306 + 183735486 -----------TTTTTTTTTTCTCACTTCTCGTGTGCTTACACTAAGGCATTACAG---GGAATGACAATTCTGCTTGGAGCCTGTGAAACATAGCAATTTGAGGCTGTAATGCCTAAAACT-----GTTATTGCAGGTCCAAATGGGACTATATTATATAATTGTGATGTGTACCAACTTAGAGCAAACTCTCTTTTTCTTAATGT-AAAAAAAGACATTTGA-----TTTGCTAACCAATTATGCGATCATCATA-ATCAGCATTTATTTTAACTT-GGCTGAAA-TCATGTCCAAAACTGAAGAGAAGCAAGTATGAAGAGAGTGGGGATA
i panPan2.chr5             I 2 C 0
s gorGor5.CYUI01015135v1     1769797 305 +   8933513 ------------TTTTTTTTTCTCACTTCTCGTGTGCTTACACTAAGGCATTACAG---GGAATGACAATTCTGCTTGGAGCCTGTGAAACATAGCAATTTGAGGCTGTAATGCCTAAAACT-----GTTATTGCAGGTCCAAATGGGACTATATTACATAATTGTGATGTGTACCAACTTAGAGCAAACTCTCTTTTTCTTAATGT-AAAAAAAGACATTTGA-----TTTGCTAACCAATTATGCGATCATCATA-ATCAGCATTTATTTTAACTT-GGCTGAAA-TCATGTCCAAAACTGAAGAGAAGCAAGTATGAAGAGAGTGGGGATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139904069 305 + 163208435 -----------TTTTTTTTTTCTCACTTCTTGTGTGCTTACACTAAGGCATTACAG---GGAATGACAATTCTGTTTGGAGCCTGTGAAACATAGCAATTTGAGGCTGTAATGCCTAAAACT-----GTTATCGCAGGTCCAAATGGGACTATATTATATAATTGTGATGTGTACCAACTTAGAGCAAA--CTCTTTTTCTTAATGTAAAAAAAAGACATTTGA-----TTTGCTAACCAATTATGCGATCATCATA-ATCAGCATTTATTTTCACTT-GGCTGAAA-TCGTGTCCAAAACTGAAGAGGAGCAAGTATGAAGAGAGTGGGGATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122888753 306 + 180051392 -----------TTTTTTTTTTCTCACTTCTTGTGTGCTTACACTAAGGCATTACAG---AGAATGACAATTCTGTTTGGAGCCTGTGAAATGTAGCAATTTGAGGCTGTAATGCCTAAAACT-----GTTATCGCAGGTCCAAATGGGACTATATTATACAATTGTGATGTGTACCAACTTAGAGCAAACTCTCTTTTTCTTAATGT-AAAAAAAGACATTTGA-----TTTGCTAACCAATTATGTGATCATCATA-ATCAGCATTTATTTTAACTT-GGCTGAAA-TCATGTCCAAAACCCAAGAGAAGCAAGTATGAAGAGAGTGGGGATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124312372 306 + 181584905 -----------TTTTTTTTTTCTCACTTCTTGTGTGCTTACACTAAGGCATTACAG---AGAATGACAATTCTGTTTGGAGCCTGTGAAATGTAGCAATTTGAGGCTGTAATGCCTAAAACT-----GTTATTGCAGGTCCAAATGGGACTATATTATACAATTGTGATGTGTACCAACTTAGAGCAAACTCTCTTTTTCTTAATGT-AAAAAAAGACATTTGA-----TTTGCTAACCAATTATGCGATCATCATA-ATCAGCATTTATTTTAACTT-GGCTGAAA-TCATGTCCAAAACCCAAGAGAAGCAAGTATGAAGAGAGTGGGGATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16311044 306 +  18395747 -----------TTTTTTTTTTCTCACTTCTTGTGTGCTTACACTAAGGCATTACAG---AGAATGACAATTCTGTTTGGAGCCTGTGAAATGTGGCAATTTGAGGCTGTAATGCCTAAAACT-----GTTATCGCAGGTCCAAATGGGACTATATTATACAATTGTGATGTGTACCAACTTAGAGCAAACTCTCTTTTTCTTAATGT-AAAAAAAGACATTTGA-----TTTGCTAACCAATTATGCGATCATCATA-ATCAGCATTTATTTTAACTT-GGCTGAAA-TCATGTCCAAAACCCAAGAGAAGCAAGTATGAAGAGAGTGGGGATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5323481 306 +  26952557 -----------TTTTTTTTTTTTTTTCACTTGTGTGCTTACACTAAGGCATTACAG---AGAATGACAATTCTGTTTGGAGCCTGTGAAACGTAGCAATTTGAGGCTGTAATGCCTAAAACT-----GTTATCGCAGGTCCAAATGGGACTATATTATACAATTGTGATGTGTACCAACTTAGAGCAAACTCTCTTTTTCTTAATAT-AAAAAAAGACATTTGA-----TTTGCTAACCAATTATGCGATCATCATA-ATCAGCATTTATTTTAACTT-GGCTGAAA-TCATGTCCAAAACCGAAGAGAAGCAAGTATGAAGAGAGTGGGGATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28424142 306 +  82825804 -----------TTTTTTTTTTCTCACTTCTTGTGTGCTTACACTAAGGCATTACAG---AGAATGACAATTCGGTTTGGAGCCTGTGAAACGTAGCAATTTGAGGCTGTAATGCCTAAAACT-----GTTATCGCAGGTCCAAATGGGACTATATTATACAATTGTGATGTGTACCAACTTAGAGCAAACTCTCTTTTTCTTAATGT-AAAAAAAGACATTTGA-----TTTGCTAACCAATTATGCAATCATCATA-ATCAGCATTTATTTTAACTT-GGCTGAAA-TCATGTCCAAAACCGAAGAGAAGCAAGTATGAAGAGAGTAGGGATA
i chlSab2.chr23            I 11 C 0
s manLeu1.NW_012103321v1     4094007 306 -   4237731 -----------TTTTTTTTTTCTCACTTCTTGTGTGCTTACACTAAGGCATTACAG---AGAATGACAATTCTGTTTGGAGCCTGTGAAACGTAGCAATTTGAGGCTGTAATGCCTAAAACT-----GTTATCGCAGGTCCAAATGGGACTATATTATACAATTGTGATGTGTACCAACTTAGAGCAAACTCTCTTTTTCTTAATAT-AAAAAAAGACATTTGA-----TTTGCTAACCAATTATGCGATCATCATA-ATCAGCATTTATTTTAACTT-GGCTGAAA-TCATGTCCAAAACCGAAGAGAAGCAAGTATGAAGAGAGTGGGGATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      362529 307 -   1175262 -----------TTTTTTTTTTCTCACTTCTTGTGTGCTTACACTAAGGCATTACAG---GGAATGACAATTCTGTTTGGAGCCTGTGAAATGTAGCAATTTGAGGCTGTAATGCCTAAAACT-----GTTATCGCAGGTCCAAATGGGACTATATTATACAATTGTGATGTGTACCAACTTAGAGCAAACTCTCTTTTTCTTAATGTAAAAAAAAGACATTTGA-----TTTGCTAACCAATTATGCGATCATCATA-ATCAGCATTTATTTTAACTT-GGCTGAAA-TCATGTCCAAAACCAAAGAGAAGCAAGTATGAAGAGAGTGGGGATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123710922 303 - 204313951 -------------TTTTTTTTCTCACTTTTTGTGTGCTTACACT-AGGCATTACAG---GGAATGACAATTCTGTTTGGAGCCTGTCAAACATAGCAATTTGAGGCTGTAATGCCTAAAACT-----GTTATCACAGGTCCAAATGGAACTATATTATATAATTGTGATGTGTACCAACTTAGAGCAAGCTCTCTTTTTCTTAATGT-AAAAAAAGACATTTGA-----TTTGCTAACCAATTATGTGATCATCATA-ATCAGCATTTGTTTTAACTT-GGCTGAAA-TCATGTCCAAAACCAAAGAGAAGCAAGTATGAAGAGAGTGGGGATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55754847 305 -  71252344 -----------TTTTTTTTTTCTCACTTTTTGTGTGCTTACGCT-AGGCATTACAG---GGAATGACAATTCTGTTTGGAGCCTGTCAAACGTAGCAATTTGAGACTGTAATGCCTAAAACT-----GTTATCACAGGTCCAAATGGAACTATATTATATAATTGTGATGTGTACCAACTTAGAGCAAGCTCTCTTTTTCTTAATGT-AAAAAAAGACATTTGA-----TTTGCTAACCAATTTTGTGATCATCGTA-ACCAGCATTTGTTTTAACTT-GGCTGAAA-TCATGTCCAAAACCAAAGAGAAGCAATTATGAAGAGAGTGGGGATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       58304 300 -   3089952 -------------TTTTTTTTCTTACTTTTTGTGTGCTTACGCT-AGGCATTACAG---GGAATG---ATTCTGTTTGGAGACTGTCAAACATAGCAATTTGAGGCTGTAATGCCTAAAACT-----GTTATCACAGGTCCAAATGAAACTATATTATATAATTGTGATGTGTACCAACTTAGAGCAAGCTCTCTTTTTCTTAATGT-AAAAAAAGACATTTGA-----TTTGCTAACCAATTATGTGATCATCATA-ATCAGCATTTGTTTTAACTT-GGCTGAAA-TCATGTCCAAAACCAAAGAGAAGCAAGTATGAAGAGAGTGGGGATA
i cebCap1.NW_016107590v1   C 0 I 6104
s aotNan1.NW_018505940v1    13258586 303 -  42888418 -------------TTTTTTTTCTCACATTTTGTGTGCTTACGCT-AGACATTACAG---GGAATGACAATTCTGTTTGGAGCCTGTCAAACGTAGCAATTTGAGGCTGCAATGCCTAAAACT-----GTTATCACAGGTCCAAATGGAACTATATTATCTAATTGTGATGTGTACCAACTTAGAGCAAGCTCTCTTTTTCTTAATGT-AAAAAAAGACATTTGA-----TTTGCTAACCAATTATGTGATCATCATA-ATCAGCATTTGTTTTAACTT-GGCTGAAA-TCATGTCCAAAACCAAAGAGAAGCAAGTATGAAGAGAGTGGGGATA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60596157 291 + 108143057 ---------------TATTTTTTCACTTCTCCTGTGCTTACACAAAGGCATAACAG---GGAATGGCAATTCCGTTTTGAGTCTCTGAAACTTAGTAATTTGAGGCTGTAATGCCTAAAACT-----GTTATTGCAGGTCCAAATGAGACTAT----CATAATTGTGATGTGTACCAACTTAGAGCAAGCTCTCTTTTCCTTAATGT-AAGAGAAGAC-TTTGA-----TTTGCCAAACAATTATGTGATCATCATA-ATAAGCATTTGTTTTAATTT-GGCTGAAA-TCATGTCCAAAACTAAAGAGAAGCAAGCATGAGGAGAGTG------
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3631750 295 +  11683526 -----------TTTTTTTTTTTTCACTTCTTGTGTGCTTACACGAAGGCATAACAG---GGAATGGTAATTCTGTTTCAAGCCTCTGAAACTTAGCAATTTGAGGCTGTAATGCCTAAAACT-----GTTATCACAGGTCCAAATGAGACTAT----CATAATTGTGATGTGTACCAACTCAGAGCAAGCTCTCCTTTACTTAATAT-AAGAAAAGAC-TTTGA-----TTTGCTGAACAATTATGTGATCATCATA-ATAAGCATTTGTTTTAATTT-GGCTGAAA-TCATGTCCGAAACTGAAGAGAAGCAAGCATGAAGAGAGTG------
i proCoq1.NW_012155062v1   I 1 C 0
s otoGar3.GL873679           3122409 288 +   4132165 -----------TTTTTTTTTTTCCACTTCTTATGTGCTTACATGAAGGCGTTACAG---GAAATGGCAATTGTGTTTGGAGCCTCTGA----TAGCAATTTGAGACTGTAATGCCTAAAACT-----ATTATCACAGGTCCAAATGAGACCAT----CATAATTGTGATGTGTACCAACTTCGAGAAAGCTCTGTT----TTAATGT-AAGAAAAGAT-TTTGA-----TTTGCTGAACAATTATGTGATCATCATAGGTAAGCATTTATTTTAATCT-AGCTGGAA-TTATGTCTAAATCTAAAGAGAAGCAAGCATGAAGTGAGTG------
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55558482 291 +  90702639 -------------tttgttGTTTCACTTCT--TATGCTTGTCCTAGGGCATTCCTT---GCAATGGTCATTCTGCTAGGAACCTCAGAAGCTAATCAATTCAGGACTTTAATGTCTGAAACA-----ATTATCGTAAGTCGAAATGGAGCAAT----TTTAATTGTGTTGCATATGAACTTAAAGCAAGTTCTTCCTTCCTTAATGT-AAGAAGAGATATTTGA-----TTTGTTGATC-ATTATGAGAGTATCATA-ATCAGCACTTGCAGTGACTTAGGCTGAAAGTTATGGCCAAGCCTGAAATGGAAA----ACCAGGAGAGTGAG----
i mm10.chr18               C 0 C 0
s canFam3.chr11             14963120 304 +  74389097 ---------------TTTTTCTTCACTTCTCCTATACTTGCATTGAGACCTAACAGGTTGAAACTGCAATTCTATGTGGAGCATCTGAAACTTAGCAGTGTGAGGCT---ATATGTAAAAATCATTCATTATCACAGGTCCAAACTGGAGCAC----CCTAATGGTGATGCCTAGCAACTTAGAGCAAGCTTTCTTCTCCTTAATGT-GAGAAAAGACATTCAGTCTTTTCTGCCAAACAGTTATTTGATCATCCAA-ATCAGCATTTGCTCTAACTT-GGCTGAAA-TCATGTCAGAGACTGAAGAGGAAGAAGCCTGAGGAAGGTGGG----
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2686040 306 +   3667625 TTTTTCTCTCTTTTTTTTTCCTTCATTTCTTGTGTGCTTGCACTAAGGTATTACAG---TGAATGGTAATTCCATTCTGAGCCTCCAAAACTTAGCAATCTGTGACTCTAATGTCTAAAAAT-----ATTATC-TACATTTGAATGGGACTAC----CATAATTGTGATGTGTACCAACTCA-AGCGAGCTCTTTGTTCCTTAATGT-AAGA-AAGATGTTACA-----CTTGCCAAGAAATGACTTGATCATTGTA-ATCACCATTTATGTTAACTT-GTCTGAAA-CCATATCCAACACTAAAGAGGTGAGAGCATAAAGAGGGTAGA----
i dasNov3.JH567306         C 0 C 0

a score=10920.000000
s hg38.chr5_KI270796v1_alt    137920 1 +    172708 A
s panTro5.chr5             125241619 1 + 181907262 A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126578328 1 + 183735486 A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1770102 1 +   8933513 A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139904374 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122889059 1 + 180051392 A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124312678 1 + 181584905 A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16311350 1 +  18395747 A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5323787 1 +  26952557 A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28424448 1 +  82825804 A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4094313 1 -   4237731 A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      362836 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123711225 1 - 204313951 A
i calJac3.chr2             C 0 I 6300
s saiBol1.JH378106          55755152 1 -  71252344 A
i saiBol1.JH378106         C 0 I 5991
s aotNan1.NW_018505940v1    13258889 1 -  42888418 A
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2686346 1 +   3667625 A
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60596448 0 + 108143057 C
e canFam3.chr11             14963424 0 +  74389097 C
e proCoq1.NW_012155062v1     3632045 0 +  11683526 C
e otoGar3.GL873679           3122697 0 +   4132165 C
e cebCap1.NW_016107590v1       58604 6104 -   3089952 I
e mm10.chr18                55558773 0 +  90702639 C

a score=143242.000000
s hg38.chr5_KI270796v1_alt    137921 10 +    172708 TGAAGGGAAT
s panTro5.chr5             125241620 10 + 181907262 TGAAGGGAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126578329 10 + 183735486 TGAAGGGAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1770103 10 +   8933513 TGAAGGGAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139904375 10 + 163208435 TGAAGGGAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122889060 10 + 180051392 AGAAGGGAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124312679 10 + 181584905 AGAAGGGAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16311351 10 +  18395747 AGAAGGGAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5323788 10 +  26952557 AGAAGGGAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28424449 10 +  82825804 AGAAGGGAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4094314 10 -   4237731 GGAAGGGAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      362837 10 -   1175262 AGAAGGGAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123717526 10 - 204313951 TGAAGGGATC
i calJac3.chr2             I 6300 C 0
s saiBol1.JH378106          55761144 10 -  71252344 TGAAGGGATC
i saiBol1.JH378106         I 5991 C 0
s cebCap1.NW_016107590v1       64708 10 -   3089952 TGAAGGGATC
i cebCap1.NW_016107590v1   I 6104 C 0
s aotNan1.NW_018505940v1    13258890 10 -  42888418 AGAAGGCAAT
i aotNan1.NW_018505940v1   C 0 I 6027
s micMur3.chr12             60596448  9 + 108143057 -GAAGGGAAT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3632045  9 +  11683526 -GAAGGGAAT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3122697  9 +   4132165 -GAAGGGAAT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55558773  7 +  90702639 ---AGGTAAT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14963424  7 +  74389097 ---AGGGAAC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2686347 10 +   3667625 GGAAGGAAGT
i dasNov3.JH567306         C 0 C 0

a score=36353.000000
s hg38.chr5_KI270796v1_alt    137931 4 +    172708 AAAT
s panTro5.chr5             125241630 4 + 181907262 AAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126578339 4 + 183735486 AAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1770113 4 +   8933513 AAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139904385 4 + 163208435 AAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122889070 4 + 180051392 AAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124312689 4 + 181584905 AAAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16311361 4 +  18395747 AAAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5323798 4 +  26952557 AAAG
i cerAty1.NW_012002512v1   C 0 I 327
s chlSab2.chr23             28424459 4 +  82825804 AAAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4094324 4 -   4237731 AAAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      362847 4 -   1175262 AAAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123717536 4 - 204313951 AAAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55761154 4 -  71252344 AAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       64718 4 -   3089952 AAAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13264927 4 -  42888418 AAAT
i aotNan1.NW_018505940v1   I 6027 C 0
s micMur3.chr12             60596457 4 + 108143057 AAGT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3632054 4 +  11683526 AAGT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3122706 4 +   4132165 AAGT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55558780 4 +  90702639 AAGC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14963431 4 +  74389097 AAGT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2686357 3 +   3667625 GGG-
i dasNov3.JH567306         C 0 C 0

a score=4254355.000000
s hg38.chr5_KI270796v1_alt    137935 293 +    172708 AAAACAATTTTGATATGATGTATTAACCTA-------AGAAATACAGAGATG-TTTTTGAA----------------------------------------TTACA---------TTTTTC----C---TTCAAATTCTCTTTGAATCATGATGTGATTTA----------------------AAAAA------------------AC------TATCTACTAGCACTTAACATATTTAAATTTTCAAGAGTATTCTCCTAGTCTAT-TCTTTTTCCTCCTAG-----------------TTACTATTACTACAATTTGGTGGCAATTACAAGGTGACAAATTAACTCTAGTGCTTTGGAACAATGGTGATGCTAAAACATCTCAGCTTCCCTCTTACCAATTTTCAAAATAAAA--TAGTTA
s panTro5.chr5             125241634 293 + 181907262 AAAACAATTTTGATATGATGTATTAACCTA-------AGAAATACAGAGATG-TTTTTGAA----------------------------------------TTACA---------TTTTTC----C---TTCAAATTCTCTTTGAATCATGATGTGATTTA----------------------AAAAA------------------AC------TATCTACTAGCACTTAATATATTTAAATTTTCAAGAGTATTCTCCTAGTCTAT-TCTTTTTCCTCCTAG-----------------TTACTATTACTACAATTTGGTGGCAATTACAAGGTGACAAATTAACTCTAGTGCTTTGGAACAATGGTGATGCTAAAACATCTCAGCTTCCCTCTTACCAATTTTCAAAATAAAA--TAGTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126578343 293 + 183735486 AAAACAATTTTGATATGATGTATTAACCTA-------AGAAATACAGAGATG-TTTTTGAA----------------------------------------TTACA---------TTTTTC----C---TTCAAATTCTCTTTGAATCATGATGTGATTTA----------------------AAAAA------------------AC------TATCTACTAGCACTTAATATATTTAAATTTTCAAGAGTATTCTCCTAGTCTAT-TCTTTTTCCTCCTAG-----------------TTACTATTACTACAATTTGGTGGCAATTACAAGGTGACAAATTAACTCTAGTGCTTTGGAACAATGGTGATGCTAAAACATCTCAGCTTCCCTCTTACCAATTTTCAAAATAAAA--TAGTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1770117 294 +   8933513 AGAACAATTTTGATATGATGTATTAACCTA-------AGAAATACAAAGATGTTTTTTGAA----------------------------------------TTACA---------TTTTTC----C---TTCAAATTCTCTTTGAATCAAGATGTAATTTT----------------------AAAAA------------------AC------TATGTACTAGCACTTAATATATTTAAATTTTCAAGAGTATTCTCCTAGTCTAT-TCTTTTTCCTCCTAG-----------------TTACTATTACTACAATTTGGTGGCAATTACAAGGTGACAAATTAACTCTAGTGCTTTGGAACAATGGTGATGCTAAAACATCTCAGCTTCCCTCTTACCAATTTTCAAAATAAAA--TAGTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139904389 294 + 163208435 AAAACAATTTTGATATGATGTATTAACCTA-------AGAAATACAGAGATG-TTTTTGAA----------------------------------------TTACA--------TTTTTTC----C---TTCAAATTCTCTTTGAATCAAGATGGGATTTT----------------------AAAAA------------------TC------TATTTACCAGCACTTAATATATTTAAATTTCCAAGAGTATTCTCCTAGTCTAT-TATTTTTCCTCCTAG-----------------TTACTATTACTACAATTTGGTGGCAATTATAAGGTGACAAATTAACTCTAGTGCTTTGGAACAATGGTGATGCTAAAACTTCTCAGCTTCCCTCTTACCAGTTTTCAAAATAAAA--TAGTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122889074 294 + 180051392 AAAACAATTTTGATATGATGTATTAACCTA-------CGAAATACAGAGATG-TTTTTGAA----------------------------------------TTACA--------TTTTTTC----C---TTCAAATTCTCTTTGAATCAAGATATGATATT----------------------AAAAA------------------AC------TATTTACTAGCACTTAATACATTTAAATTTCCAAGAGTATTCTCCTACTCTAT-TCTTTTTCCTCCTAG-----------------TTACTATTACTACAATTTGGTGGCAATTATAAGGTGACGAATTAACTCTAGTGCTTGGAAACAATGGTGATGCTGAAACATCTCAGCTTCCCTCTTACCAGTTTTCAAAATAAAA--TAGTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124312693 294 + 181584905 AAAACAATTTTGATATGATGTATTAACCTA-------CGAAATACAGAGATG-TTTTTGAA----------------------------------------TTACA--------TTTTTTC----C---TTCAAATTCTCTTTGAATCAAGATATGATATT----------------------AAAAA------------------AC------TATTTACTAGCACTTAATACATTTAAATTTCCAAGAGTATTCTCCTACTCTAT-TCTTTTTCCTCCTAG-----------------TTACTATTACTACAATTTGGCGGCAATTATAAGGTGACGAATTAACTCTAGTGCTTGGAAACAATGGTGATGCTGAAACATCTCAGCTTCCCTCTTACCAGTTTTCAAAATAAAA--TAGTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16311365 294 +  18395747 AAAACAATTTTGATATGATGTATTAACCTA-------TGAAATACAGAGATG-TTTTTGAA----------------------------------------TTACA--------TTTTTTC----C---TTCAAATTCTCTTTGAATCAAGATATGATATT----------------------AAAAA------------------AC------TATTTACTAGCACTTAATACATTTAAATTTCCAAGAGTATTCTCCTACTCTAT-TCTTTTTCCTTCTAG-----------------TTACTATTACTACAATTTGGTGGCAATTATAAGGTGACGAATTAACTCTAGTGCTTGGAAACAATGGTGATGCTGAAACATCTCAGCTTCCCTCTTACCAGTTTTCAAAATAAAA--TAGTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5324129 291 +  26952557 aaaaCAATTTTGATATGATGTATTAACCTA-------CGAAATACAGAGATG-TTTTTGAA----------------------------------------TTACA--------TTTTTTC----C---TTCAAATTCTCTTTGAATCAAGATATGATATT-------------------------AA------------------AC------TATTTACTAGCACTTAATACATTTAAATTTCCAAGAGTATTCTCTTACTCTAT-TCTTTTTCCTCCTAG-----------------TTACTATTACTACAATTTGGTGGCAATTATAAGGTGATGAATTAACTCTAGTGCTTTGGAACAATGGTGATGCTGAAACATCTCAGCTTCCCTCTTACTAGTTTTCAAAATAAAA--TAGTTA
i cerAty1.NW_012002512v1   I 327 C 0
s chlSab2.chr23             28424463 294 +  82825804 AAAACAATTTTGATATGATGTATTAACCTA-------CGAAATACAGAGATG-TTTTTGAA----------------------------------------TTACA--------TTTTTTC----C---TTCAAATTCTCTTTGAATCAAGATATGATATT----------------------AAAAA------------------AC------TATTTACTAGCACTTAATACATTTAAATTTCCAAGAGTATTCTCTTACTCTAT-TCTTTTTCCTCCTAG-----------------TTACTATTACTACAATTTGGTGGCAATTATAAGGTGACGAATTAACTCTAGTGCTTCAGAACAATGGTGATGCTGAAACATCTCAGCTTCCCTCTTACCAGTTTTCAAAATAAAA--TAGTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4094328 294 -   4237731 AAAACAATTTTGATATGATGTATTAACCTA-------CGAAATACAGAGATG-TTTTTGAA----------------------------------------TTACA--------TTTTTTC----C---TTCAAATTCTCTTTGAATCAAGATATGATATT----------------------AAAAA------------------AC------TATTTACTAGCACTTAATACATTTAAATTTCCAAGAGTATTCTCTTACTGTAT-TCTTTTTCCTCCTAG-----------------TTACTATTACTACAATTTGGTGGCAATTATAAGGTGATGAATTAACTCTAGTGCTTTGGAACAATGGTGATGCTGAAACATCTCAGCTTCCCTCTTACTAGTTTTCAAAATAAAA--TAGTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      362851 294 -   1175262 AAAACAATTTTGATATGCTGTATTAACCTA-------GGAAATACAGAAATG-TTTTTGAA----------------------------------------TTACA--------TTTTTTC----C---TTCAAATTCTCTTTGAATCAAGATGTGATATT----------------------AAAAA------------------AC------TATTTACTAGCACTTAATATATTTAAATTTCCAAGAGTATTCTCCTAGTCTAT-TCTTTTTCCTCCTAG-----------------TTACTATTACTGCAATTTGGTGGCAATTATAAGGTGACGAATTAACTCTAGTGCTTCGGAACAATGGTGATGCTGAAATATCTCAGCTTCCCTCTTACCAGTTTTCAAAATAAAA--TAGTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123717540 298 - 204313951 AAAACAAATTTGATATGATATATTAATCTA-------AGAAATACAGAGACA-TTATTCAA----------------------------------------TTACA--------TTGTTTT----CTCTCTCAAATTGTCTTTGAATCAAGATGTGATTAA----------------------GAAAA------------------AC-----TTATTTACTAGCACTTAATATATTTAAATTTTCAAGAGTATTCTCCTAGTCTGT-TCTTTTTCCTCCTAG-----------------TTACTCTTACTGCAATTTGGTGGCAATTAGAAGGTGACAAATTAACTCTAGTGCTTTGGAACAATGGTGATGCTAAAACATCTCAGCTTCTCTCTCACAAGTTTTCTAAATGAAA--TAATTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55761158 296 -  71252344 AAAACAATTTTGATATGATGTATTAATCTA-------AGAAATACAGAGATG-TTATTGAA----------------------------------------TTACA--------TTTTTCT----C---CTCAAATTTTCTTTGAATCAAGATGTGATTTA----------------------AACAA------------------AC------TATTTACTAGCACTTAATATATTTAAATTTCTAAGAGTATTTGCCTAGTCCAT-TCTTTTTCTTCCTAGTAAGAGTAATCAGTAAATTACTCTTACTGCAATTTGGTGGCAATTAGAAGGTG--------ACTCTAGTGCTTTGGAACAATGGTGATGCTAAAACATCTCGGCTTCTCTGTCAC-------CAAAACAAAA--TAGTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       64722 294 -   3089952 AAAACAATTTTGATATGATGTATTAATCTA-------AGAAATACAGAGATG-TTATTGAA----------------------------------------TTACT--------TTTTTTC----C---CTCAGATTCTCTTTGAATCAAGATGTGATTTA----------------------AAAAA------------------AC------TATTTACTAGCACTTAATATATTTAAATTTCCAAGATTATTCTCCTAGTCTAT-TCTTTTTCCTCCTAG-----------------TTACTCTTACTGCAATTTGGTGGCAATTAGAAGGTGACAAATTAACTCTAGTACTTTGGAATAATGGTGATGCTAAAACATCTCAGCTTCTCTGTCACCAGTTTTCAAAACAAAA--TAGTTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13264931 294 -  42888418 AAAACAATTTTGATATGATGTATTAATCTA-------AAAAATACAGAGATG-TTATTGAA----------------------------------------TTACA--------TTTTTTC----C---TTCAAATTCTCTTTGAATCGAGATGTGATTTA----------------------AAAAA------------------AC------TATTTACTAGCACTTAATATATTTAAATTTCCAAGAGTATTCTCCTAGTCTAT-TCTTTTTCCTCCTAG-----------------TTACTCTTACTGCAATTTGGTGGCAATTAGAAGGTGACAAATTAACTCTAGTGTTTTGGAACAATGGCGATGCTAAAACATCTCAGCTTTTCTCTCACCAGTTTTCAAAACAAAA--TAGTTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60596461 288 + 108143057 AGGACAATTTTGATTTGATGTATTAACCTA-------AGAAATATAGAGATG-TTTCTGAA----------------------------------------TTACA---------TTTTTC----C---ATCAAATTCTCTTTAATTCAGGGTGTTAT-TA----------------------AAATC------------------CC------TATTTACTAGCACTT-ATATATTTAAATTTGTAAGGATATTCTCCCAGTCTATATATGTTTCCTCCTAG-----------------GTACTATTACTACTGTTTGATGGCAATCACAAGGTGACAAAT----TCTAGTGCTTTGGAACAATGTCAATGCTAAAACAACTTAGGTGTTCTCTCACCAGTTTCCAAAACAAAA--TAGTTA
i micMur3.chr12            C 0 I 246
s proCoq1.NW_012155062v1     3632058 289 +  11683526 AGGACAATTTTGATGTGATGTATTAACCTA-------AGAAATACAGAGATG-TTTCTGAA----------------------------------------TTACA--------TTTTTTC----C---ATCAAATTCTCTTTAATTCAGGATGTTAT-TA----------------------AAAAC------------------CC------TATTTACTAGCACTT-ATGTATTTAAATTTGTAAGGATATTTTCCTGGTCTATATATGTTCCCTCCTAG-----------------GTGCTATTACTGCAATTTGATGGCAATCACAAGGTGACAAAC----TCTAGTGCTTTGGAACAATGTCAACACTAAAACAACTTAGGTGTCCTCTTACCAGTTTCCAAAACAAAA--TAGTTA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3122710 296 +   4132165 AGAACAATTTTGATTTGATGTATTAACCCA-------AGATGTAC-GGGCTG-TTTCTGAA----------------------------------------CTACA---------TTTTTCTTTGC---ATCTTATTCTCTTTAATTCAAGATGGGAT-TA----------------------AAAAC------------------TC------TACTTACTGGCCCTTAATCTATTGAAATTTGTAAGGATATTCTCCCAGTCTATCTATTTTCCCTCCTAG-----------------GTAATATTGCTGCAATTTGAGGGCAGTCATAAGGCAACAAATAAAATCTAGTGCGTTGGAACAATGTGGATCCTAAAACAACTTAGCAGTTCTCTTACCAGTTTTCAGAACAAAA--TAGTTA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55558784 334 +  90702639 TACACTGTATTAGGTTGATGTGTGAAGTGAAGTGTACAGAAATACAGAGATA-GCTCTGAAGGGgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtTTTG---------TTTTGT----T---TTCAAATGCCCTTTGAATCAGGG-ATGGT-AA----------------------AGAAA------------------AC----------TGCTATCATTTAAAATATTTGAGTTTGCAAAAATAATCTACCCATCTGT-TCTTGTTCTTCCAAG-----------------TTTGCATTACTA-AATTTGGAGGCAGTCACCAGCTGATGAATTAACTCTAGTACTTGGGGAGACTGATGATGCTAAAATGTCTTAGCT-CCTACTCACAAGCTTTCAAAGAGAAAACTAGTTA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14963435 302 +  74389097 GAGACAGTTTTGATTTGGCATAGTAACCTA-------AGA--TACAGAGGGG-TTTTCTAA----------------------------------------CTGCA-------TTTCTTCC----C---CTCAAATGCTCTTTGAAACAAAGTGCCCTAaaaaataaaaacaaaaacaaaaacaaaaa------------------ACAAGCTGTGTTTACTAGCTCTTAATATATTGCAATCTGCATGGGTGTTCTCCTAGTCTGT-TATTTGTC-----AG------------------------TACCACAATTTGG------TCACAAGGTAACAAATTATCTCTAGGG-TTTGGAACAAGGTTGATGTTGAAACATCTCAGCTACCTGCTTACAAGTTTTCAAAACAGAA--TAGCTA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2686360 317 +   3667625 --GGCGGTTTTGATTTATTGCATTAACCTA-------AGAAATTTAGAGCTG-GTTCTGAA----------------------------------------TTGCCTTTTTTTTTTTTTTG----C---CTCGAATCCTTTTTGGAACAAGGTGCACTATA----------------------AAGAAAAAGCTATCACTGATAGTAC------TATTGACTAGCACTTAATATACTTAAATTTGCAAGTATATTCTCC-AGTCTGT-TCCTTTTCCTCCTAG-----------------TTACTATTCTTGTGAACTGGTGGTAACCACATCCTGACAGATCAACTCTAGTGCTGTGCAACACTGTTTATGCTAAAACATCTTAGCTGCCTGCTGATGATAGGTCAGAACAAAG--TAGATA
i dasNov3.JH567306         C 0 C 0

a score=1440894.000000
s hg38.chr5_KI270796v1_alt    138228 121 +    172708 TGCTATGCAAGGAA-------GTG-----GCTGAAAGAGCACATT-----------------------------------------TATG-------TATGTATTTGTGTATGATAAAAAGATTGGGGCATG---TG------------------------------------TTATAT----------TATTCGATTAGTTATGGGTAGCAGGATCCTGGGTAATTTTT
s panTro5.chr5             125241927 121 + 181907262 TGCTATGCAAGGAA-------GTG-----GCTGAAAGAGCACATT-----------------------------------------TATG-------TATGTATTTGTGTATGATAAAAAGATTGGGGCATG---TG------------------------------------TTATAT----------TATTCGATTAGTTGTGGGTAGCAGGATCCTGGGTAATTTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126578636 121 + 183735486 TGCTATGCAAGGAA-------GTG-----GCTGAAAGAGCACATT-----------------------------------------TATG-------TATGTATTTGTGTATGATAAAAAGATTGGGGCATG---TG------------------------------------TTATAT----------TATTCGATTAGTTGTGGGTAGCAGGATCCTGGGTAATTTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1770411 121 +   8933513 TGCTATGCAAGGAA-------GTG-----GCTGAAAGAGCACATT-----------------------------------------TATG-------TATGTATTTGTGTATGATAAAAAGATTGGGGCATG---TG------------------------------------TTATAT----------TATTCGATTAGTTATGGGTAGCAGGATCCTGGGTAATTTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139904683 121 + 163208435 TGCTATGCAAGGAA-------GTG-----GCTGAAAGAGCACATT-----------------------------------------TATG-------TATGTATTTGTATATGATAAAAAGATTGGGGCATG---TG------------------------------------TTATAT----------TACTCGATTAGTTATGGGTAGCAGGATCCTGGGTAATTTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122889368 121 + 180051392 TGCTATGCGAGGAA-------GTG-----GCTGAAAGAACACATT-----------------------------------------CCTG-------TATGTATTTGTGTATGGTAAAAAGATTGGGGCATG---TG------------------------------------TTATGT----------TATTCGATTAGTTCTGGGTAGCAAGATCCTGGGTAATTTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124312987 121 + 181584905 TGCTATGCGAGGAA-------GTG-----GCTGAAAGAACACATT-----------------------------------------CCTG-------TATGTATTTGTGTATGGTAAAAAGATTGGGGCATG---TG------------------------------------TTATGT----------TATTCGATTAGTTCTGGGTAGCAGGATCCTGGGTAATTTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16311659 121 +  18395747 TGCTATGCGAGGAA-------GTG-----GCTGAAAGAACACATT-----------------------------------------CCTG-------TATGTATTTGTGTATGGTAAAAAGATTGGGGCATG---TG------------------------------------TTATGT----------TATTCGATTAGTTCTGGGTAGCAGGATCCTGGGTAATTTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5324420 121 +  26952557 TGCTATGCGAGGAA-------GTG-----GCTGAAAGAACACATT-----------------------------------------CCTG-------TATGTATTTGTGTATGGTAAAAAGATTGGGGCATG---TG------------------------------------TTATGT----------TATTCGATTAGTTCTGGGTAGCAGGATCCTGGGTAATTTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28424757 121 +  82825804 TGCTATGCGAGGAA-------GTG-----GCTGAAAGAACACATT-----------------------------------------CCTG-------TATGTGTTTGTGTATGGCAAAAAGATTGGGGCATG---TG------------------------------------TTATGT----------TATTCGATTAGTTCTGGGTAGCAAGATCCTGGGTAATTTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4094622 121 -   4237731 TGCTATGCGAGGAA-------GTG-----GCTGAAAGAACACATT-----------------------------------------CCTG-------TATGTATTTGTGTATGGTAACAAGATTGGGGCATG---TG------------------------------------TTATGT----------TATTCGATTAGTTCTGGGTAGCAGGATCCTGGGTAATTTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      363145 121 -   1175262 TGCTATGCGAGGAA-------GTG-----GCTGAAAGAACACATT-----------------------------------------CCTA-------TATATATTTTTGTATAGTAAAAAGATTGGGGCATG---TG------------------------------------TTACAT----------TATTCGATTAGTTCTGAGTAGCAGGATCCTGGGTAATTTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123717838 120 - 204313951 TGAT-TGCAAGGGA-------GTG-----ACTGAACGAACACATT-----------------------------------------CATG-------TATGTATGTGTGTATGGTAAAATTATTGGGGCATG---TG------------------------------------TTATAT----------TATTTGATTAGTTCTGGGTAGCAGGAATCTGGGTAATTTTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55761454 120 -  71252344 TGAT-TGCAAGGGA-------GTG-----ACTGAAAGAACACATT-----------------------------------------CATG-------TATGTATATGTGTATGGTAAAAGTATTGGGGCATG---TG------------------------------------TTATAT----------TATTTGATTAGTTCTGGGTAGCAGGAATCTGGGTAATTTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65016 120 -   3089952 TGAT-TGCAAGGGA-------GTG-----ACTGAAAGAACACATT-----------------------------------------CATG-------TATGTATGTGTGTATGGTAAAAGTATTGGGGCATG---TG------------------------------------TTATAT----------TATTTGATTAGTTCTGGGTAGCAGGAATCTGGGTAATTTTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13265225 120 -  42888418 TGAT-TGCAAGGGA-------GTG-----ACTGAAAGAACACATT-----------------------------------------CATG-------TATGTATGTGTGTATGGTAAAAGTATTGGGGCATG---CG------------------------------------TTATAT----------TATTTGATTAGTTCTGGGTAGCAGAAATCTGGGTAATTTTT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3632347 125 +  11683526 CGCA-TGCAAGTCA-------GTGCTATTACTGAAAGAGCATATT-----------------------------------------CATG-------TATGTCTGTGTTTATAGTAAAAAGATTGAAAAATG---TA------------------------------------TTATAT----------TATTTGATTATTTCTGGGTAGCAGGATTCTGGGTAATTTTT
i proCoq1.NW_012155062v1   C 0 I 95
s otoGar3.GL873679           3123006 134 +   4132165 TGCA-TGCAAGTAA-------GTG-----GCTGAAAGAGCACATTTGGtatatatatgtgtatatatatgtatacacacacacatatata-------tatgcatgtatatataGAAAAAGGATTGAAAAATG-----------------------------------------TTGTAT----------TAGTTGA-------------------------GTAATTTTT
i otoGar3.GL873679         C 0 I 4
s mm10.chr18                55559118 121 +  90702639 TACA-TTCGTGAAAAATGGTTATA-----GCTTAAAAAGGACATT-----------------------------------------TATGAATGTCTTATGTATCTAGGTACAGGAAATAAA---------------------------------------------------CAATAT----------TGTTTGCTTATTTATTGGTAGAATAATTGTGGCTAACTTT-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14963737 126 +  74389097 TGCA-CCCAAGTAA-------GTA-----GCTGAAA-AGCAGATT-----------------------------------------CATG-------GATGTATATGTGTGT-----AAAGACTAGAA-ATGtatta------------------------------------ttatattattataatatatttGGTCACTTCTGGGTAGCAGGATTATAAGTAATTTTT
i canFam3.chr11            C 0 I 3
s dasNov3.JH567306           2686677 151 +   3667625 -----TGTTATTGT-------GTA-----GCTAAAAAAGCACATA-----------------------------------------CACG-------TACGTATA-GTATATAGTAAAAGAACTGAATAATG---TGCATtattatattatattgtattatattaatgttatattatat----------tatGTAGTTATTTCTAGATAGCAGGATAGTGGGTAACTTTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60596749 246 + 108143057 I

a score=846734.000000
s hg38.chr5_KI270796v1_alt    138349 75 +    172708 ---TAAAACTCTGTTTA-----TTTGTTATTTTCAATCACTAGAT-ATAGA--------------CACATATATAGATGACTACTCCATCTCTGTCTC
s panTro5.chr5             125242048 75 + 181907262 ---TAAAACTCTGTTTA-----TTTGTTATTTTCAATCACTAGAT-ATAGA--------------CATATATATAGATGACTACTCCATCTCTGTCTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126578757 75 + 183735486 ---TAAAACTCTGTTTA-----TTTGTTATTTTCAATCACTAGAT-ATAGA--------------CATATATATAGATGACTACTCCATCTCTGTCTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1770532 75 +   8933513 ---TAAAACTCTGTTTA-----TTTGTTATTTTCAATCACTAGAT-ATAGA--------------CATACATATAGATGACTACTCCATCTCTGTCTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139904804 67 + 163208435 ---AAAAACTC-------------TGTTATTTTCAATCACTAGAT-ATAGA--------------CATATATATAGATGACTACTCCATCTCCGTCTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122889489 75 + 180051392 ---AAAAACTCTGTTTA-----TTTGTTATTTACAATCACTAGAT-ATAGA--------------CATAAATGTAGATGACTACTCCATCTCTATCTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313108 75 + 181584905 ---AAAAACTCTGTTTA-----TTTGTTATTTACAATCACTAGAT-ATAGA--------------CATAAATGTAGATGACTACTCCATCTCTATCTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16311780 75 +  18395747 ---AAAAACTCTGTTTA-----TTTGTTATTTACAATCACTAGAT-ATAGA--------------CATAAATGTAGATGACTACTCCATCTCTATCTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5324541 75 +  26952557 ---AAAAACTCTGTTTA-----TTTGTTATTTTCAATCACTAGAT-ATAGA--------------CATAAATGTAGATGACTACTCCATCTCTATCTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28424878 75 +  82825804 ---AAAAACTCTGTTTA-----TTTGTTATTTTCAATCACTAGAT-ATAGA--------------CATAAATGTAGATGACTACTCCATCTCTATCTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4094743 75 -   4237731 ---AAAAACTCTGTTTA-----TTTGTTATTTTCAATCACTAGAT-ATAGA--------------CATAAATGTAGATGACTACTCCATCTCTATCTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      363266 75 -   1175262 ---AAAAACTCTGTTTA-----TTTGTTATTTTCAATCACTAGAT-ATAGA--------------CATAAATGTAGATGACTACTCCATCTCTATCTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123717958 71 - 204313951 ---AAAAACTC----TA-----TTTCTTATTTTCAATCACTAGAT-ACAAA--------------CATAAATATAGATGACTACTTCATCTCTATCTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55761574 75 -  71252344 ---AAAAACTCTGTTTA-----TTTTTTATTTTCAATCACTAGAT-ATAAA--------------CATAAATATAGATGACTACTTAATCTCTATGTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65136 75 -   3089952 ---AAAAACTCTGTTTA-----TTTCTTATTTTCAATCACTAGAT-ATAAA--------------CATAAATATAgatgactacttcatctctatctc
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13265345 75 -  42888418 ---AAAAACTCTGTTTA-----TTTCTTATTTTCAATCACTAGAT-ATAAA--------------CATAAACATAGATGACTACTTCATCTCCATCTC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3123144 89 +   4132165 ---TTCTTCTATGTTTA-----TTTCTTATTGTCAATCACTAGAT-GTATATACATGTGGTTGACTATACACATGGTTGACTTCCTTATCTGTATCCC
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55559239 60 +  90702639 ------AACTCAGGTT----------TTATTTCCAACCCCTACAT-GCAGA--------------TATGAATAGAGATAA-------GCCTATGTCTC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14963866 76 +  74389097 ---TTAATCTATGTTCA-----TTTCTTATTCTCAAGCAGTAGATAACAGA--------------TGTGAatgtagatgacgtccacatctatatttc
i canFam3.chr11            I 3 C 0
s dasNov3.JH567306           2686828 89 +   3667625 CATTTATTCTTTGTACATTGCTTTTCTAATTTTCAATCACTAAAT-ATAGATACAGG--------TATGACTATAGTTGATTCCTGAATCTGTATCTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60596749 246 + 108143057 I
e proCoq1.NW_012155062v1     3632472 95 +  11683526 I

a score=75663.000000
s hg38.chr5_KI270796v1_alt    138424 5 +    172708 CAGCT
s panTro5.chr5             125242123 5 + 181907262 CAACT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126578832 5 + 183735486 CAACT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1770607 5 +   8933513 CAGCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139904871 5 + 163208435 CAGCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122889564 5 + 180051392 TAGCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313183 5 + 181584905 TAGCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16311855 5 +  18395747 TAGCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5324616 5 +  26952557 CAGCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28424953 5 +  82825804 CAGCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4094818 5 -   4237731 CAGCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      363341 5 -   1175262 CAGCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718029 5 - 204313951 CAGCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55761649 5 -  71252344 CAGCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65211 5 -   3089952 cagct
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13265420 5 -  42888418 CAGCT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3632567 5 +  11683526 cagct
i proCoq1.NW_012155062v1   I 95 C 0
s otoGar3.GL873679           3123233 5 +   4132165 TAGCT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55559299 5 +  90702639 TAGCA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14963942 5 +  74389097 cagcc
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2686917 5 +   3667625 TAGCC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60596749 246 + 108143057 I

a score=628184.000000
s hg38.chr5_KI270796v1_alt    138429 43 +    172708 TCAACAT--CTTGAAGCCATCAGCTCTTACCATCTCTCATCTAGA
s panTro5.chr5             125242128 43 + 181907262 TCAACAT--CTTGAAGCCATCAGCTCTTACCATCTCTCATCTAGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126578837 43 + 183735486 TCAACAT--CTTGAAGCCATCAGCTCTTACCATCTCTCATCTAGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1770612 43 +   8933513 TCAACAT--CTTGAAGTCATCAGCTCTTACCATCTCTCGTCTAGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139904876 43 + 163208435 TCAACAT--CTTGAAGCCATCAGCTCTTACCATCTCTCATCTAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122889569 43 + 180051392 TCAACAT--CTTGAAGCCATTAACTCTTACCATCTCTCATCTAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313188 43 + 181584905 TCAACAT--CTTGAAGCCATTAACTCTTACCATCTCTCATCTAGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16311860 43 +  18395747 TCAACAT--CTTGAAGCCATTAACTCTTACCATCTCTCATCTAGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5324621 43 +  26952557 TCAACAT--CTTGAAGCCATTAACTCTTACCATTTCTCATCTAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28424958 43 +  82825804 TCAACAT--CTTGAAGCCATTAACTCTTACCATCTCTCATCTAGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4094823 43 -   4237731 TCAACAT--CTTGAAGCCATTAACTCTTACCATCTCTCATCTAGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      363346 43 -   1175262 TCAACAT--CTTGAAGCCATTAACTCTTACCATCTCTCATCTAGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718034 43 - 204313951 TCAACAT--CTTGAAGCGATTAGCTCTTATCATCTCTAATCTACA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55761654 43 -  71252344 TCAACAT--CTTGAAGAAATCAGCTCTTATCATCTCTAATCTACA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65216 43 -   3089952 tcaacat--cttgaagcgaccagctcttatcatctctaatctaca
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13265425 43 -  42888418 TCAACAT--CTTGAAGCGATCAGCTCTTATCATCTCTAATCTACA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60596995 43 + 108143057 TCAACAT--CTTTAAGCCATCAGCTCTTTCCACCTCTCATCTAGA
i micMur3.chr12            I 246 I 154
s proCoq1.NW_012155062v1     3632572 43 +  11683526 tcaacat--ctttaagccatcagctctttccacctctcatgtaga
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3123238 42 +   4132165 TCTTCAT--CTTTAAGCCATCAGCTCTTTCTA-ATCTGATCTGGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55559304 39 +  90702639 ACAACAT--CTTTAAGCTGATAGCGCGTTTCA----TCATCCACG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14963947 42 +  74389097 tcaacat--cttt-agctcttagctgtttccttctctcatctagc
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2686922 44 +   3667625 TCAGTTTCACTCTAAGCTGTCAGATATTTTCATCT-TCATCTAGA
i dasNov3.JH567306         C 0 C 0

a score=113600.000000
s hg38.chr5_KI270796v1_alt    138472 10 +    172708 TATTCTTAAA
s panTro5.chr5             125242171 10 + 181907262 TATTCTTAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126578880 10 + 183735486 TATTCTTAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1770655 10 +   8933513 TATTCTTAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139904919 10 + 163208435 TATTCTTAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122889612 10 + 180051392 TATTCTTACA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313231 10 + 181584905 TATTCTTACA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16311903 10 +  18395747 TATTCTTACA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5324664 10 +  26952557 TATTCTTACA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425001 10 +  82825804 TATTCTTACA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4094866 10 -   4237731 TATTCTTACA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      363389 10 -   1175262 TATTCTTACA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718077 10 - 204313951 TAGTCTTACA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55761697 10 -  71252344 TAGTCTTCCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65259 10 -   3089952 tattcttaca
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13265468 10 -  42888418 TAGTCTTACA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3632615 10 +  11683526 catttttact
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3123280 10 +   4132165 TATTTTTACT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55559343 10 +  90702639 AATCCTTATG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14963989 10 +  74389097 tatcctaacc
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2686966  9 +   3667625 -TATCTTACC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60597038 154 + 108143057 I

a score=1183643.000000
s hg38.chr5_KI270796v1_alt    138482  99 +    172708 TGGGAGTTTAGGTAAACT-AAAAGATTCCAATCTGAACTGATTATAATATCCCCAG---ATTCTTCT-AGT-TCCCATATTTCTACTCACATAATTATTTTCCTT
s panTro5.chr5             125242181  99 + 181907262 TGGGAGTTTAGGTAAACT-AAAAGATTCCAATCTGAACTGATTATAATATCCCCAG---AGTCCTCT-AGT-TCCCATATTTCTACTCACATAATTATTTTCCTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126578890  99 + 183735486 TGGGAGTTTAGGTAAACT-AAAAGATTCCAATCTGAACTGATTATAATATCCCCAG---AGTCCTCT-AGT-TCCCATATTTCTACTCACATAATTATTTTCCTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1770665  98 +   8933513 TGGGAGTTTAGGTAAACT-AAAAGATTCCAATCTGAACTGATTATAATAT-CCCAG---ATTCCTCT-AGT-TCCCATATTTCTACTCACATAATTATTTTCCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139904929  99 + 163208435 TGGGAGTTTAGGTAAACT-AAAAGATTCCAAGCTGAACTGATTATAATATCCCCAG---ATTCCTCT-ATT-TCCCATGTTTCTACTCACATAATTATTTTCCTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122889622  99 + 180051392 TGGGAGTTTAGGTAAACT-AAAAGATTCCAAGCTGAATTGATTATAATATCCCCAG---ATTCCTCT-AGT-TCCTGTATTTCTACTCACATAATTATTTTCCTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313241  99 + 181584905 TGGGAGTTTAGGTAAACT-AAAAGATTCCAAGCTGAATTGATTATAATATCCCCAG---ATTCCTCT-AGT-TCCTGTATTTCTACTCACATAATTATTTTCCTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16311913  99 +  18395747 TGGGAGTTTAGGTAAACT-AAAAGATTCCAAGCTGAATTGATTATAATATCCCCAG---ATTCCTCT-AGT-TCCTGTATTTCTACTCACATAATTATTTTCCTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5324674  99 +  26952557 TGGGAGTTTAGGTAAACT-AAAAGATTCCAAGCTGAATTGATTATAATATCCCCAG---ATTCCTCT-AGT-TCCTGTATTTCTACTCACATAATTATTTTCCTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425011  99 +  82825804 TGGGAGTTTAGGTAAACT-AAAAGATTCCAAGCTGAATTGATTATAATATCCCCAG---ATTCCTCT-AGT-TCCTGTATTTCTACTCACATAATTATTTTCCTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4094876  99 -   4237731 TGGGAGTTTAGGTAAACT-AAAAGATTCCAAGCTGAATTGATTATAATATCCCCAG---ATTCCTCT-AGT-TCCTGTATTTCTACTCACATAATTATTTTCCTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      363399  99 -   1175262 TGGGAGTTTAGGTAAACT-AAAAGATTCCAAGCTGAATTGATTATAATATCCCCAG---ATTCCTCT-AGT-TCCTGTATTTCTAATCACATAATTATTTTCTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718087  99 - 204313951 TGGAAGTTTAGGTAAACT-CAAAGATTCCAAGCTGAACTGATTATAATATCCCCAG---ATTCCTCT-GGT-TCCCATATTTCTACTTATGTAGTTATTTTCCTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55761707  99 -  71252344 TGGGATTTTAGGTACACT-CAAAGATTCCAAGCTCAACTGATTATAATATCCCCAG---ATTCCTCT-AGT-TACCATATTTCTACTTACATAGTTATTTTCCTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65269  99 -   3089952 tgggagtttaggtaaact-caaagatcccaagctgaactggttataatgtccccag---atttctct-agt-tcccatgtttctacttatatagttattttcctt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13265478  95 -  42888418 TGGGAGTTTAGGTAAACT-CAAAGATTCCAAGCCAAACTGATTATAATATCCCCAG---ATTCCTC----T-TCCCATATTTCTACTTATATAGTTA-TTTCCTT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3632625 102 +  11683526 tggaagttcagatgaactaaaaagattccaagctgaactcattataatatccaaaaattatttctct-ggt-tcccctatttctgttcata-agccatttttccc
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55559353  81 +  90702639 TGGATGTTTAG-TAGACA-----------------AGCTCATCACAATATGCAAAC---ATTCTTCT-GATCTCCTCTCTTTCTTTACACATCATT--TTTTTTT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14963999  89 +  74389097 --------tggaaaactc-aaaagattctaagctgaactctttataggatccaaag---attcctgt---t-tcccttatttctgttcatataaccatattcctt
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2686975  98 +   3667625 TAGGCATTGACGTGAATT-CAA--ATCCAAAGTGGAACTCATTACAGTATCCCCAA---AATCCTTTGATT-TCCCCTATATCTATTCATATAACCATTTTCCTC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60597038 154 + 108143057 I
e otoGar3.GL873679           3123290   0 +   4132165 C

a score=454248.000000
s hg38.chr5_KI270796v1_alt    138581 41 +    172708 TCAGCTACCCAAATCTAAAGCCTGGCAAATCTAA-----CTCTCGG
s panTro5.chr5             125242280 41 + 181907262 TCAGCTACCCAAATCTAAAGCCTGGCAAATCTAA-----CTCTCTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126578989 41 + 183735486 TCAGCTACCCAAATCTAAAGCCTGGCAAATCTAA-----CTCTCGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1770763 41 +   8933513 TCAGCTACCCAAATCTAAAGCCTGGCAAATCTAA-----CTCTCGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905028 41 + 163208435 TCAGCTACCGAAATCTAAAACCTGGCAAATCTAA-----CTCTGGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122889721 41 + 180051392 TCAGCTACCCAACTCTAAGGCCTGGCAAATCTAA-----CTCTGCG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313340 41 + 181584905 TCAGCTACCCAACTCTAAGGCCTGGCAAATCTAA-----CTCTGCG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312012 41 +  18395747 TCAGCTACCCAACTCTAAGGCCTGGCAAATCTAA-----CTCTGCG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5324773 41 +  26952557 TCAGCTACCCAACTCTAAGGCCTGGCAAATCTAA-----CTCTGGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425110 41 +  82825804 TCAGCTACCCAACTCTAAGGCCTGGCGAATCTAA-----CTCTGGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4094975 41 -   4237731 TCAGCTACCCAACTCTAAGGCCTGGCAAATCTAA-----CTCTGGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      363498 41 -   1175262 TCAGCTACCCAACTCTAAAGCCTGGCAAATCTAA-----CTCTGGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718186 41 - 204313951 TCAGCTATCCAAATCTAAAGGCTGGCAAATCTCA-----CTCTCGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55761806 41 -  71252344 TCAGCTATCCAAATCTGAAGGCTGGCAAATCTCA-----CTCTCGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65368 41 -   3089952 tcagctgttcaaatccaaaggctggcaaatctca-----ctctcgc
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13265573 41 -  42888418 TCAGCTATCCAAATCTAAAGACTGGCAAATCTCA-----CTCTCGC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3632727 46 +  11683526 tcagctacccaaatctaaaTGCCAGCAAGTCCAAGGGTGGTCTTGG
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55559434 46 +  90702639 TCAGTTACTCAAATGTAAAGGGTGACCAATCTAAGGCCACTCTTGG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14964088 46 +  74389097 tcagctactcagatctataggctggtgaatctgaagtcactgttgg
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60597038 154 + 108143057 I
e otoGar3.GL873679           3123290  0 +   4132165 C
e dasNov3.JH567306           2687073  0 +   3667625 C

a score=1148742.000000
s hg38.chr5_KI270796v1_alt    138622 81 +    172708 TTTCTGGTCTCTTGTTTCTCACAAGTAATCAGTCAACTCTAATG-GGTACCATCACCTCACAGTCTATAGATCACAGACTTC
s panTro5.chr5             125242321 81 + 181907262 TTTCTGGTCTCTTGCTTCTCACAAGTAATCAGTCAACTCTCATG-GGTACCATCACCTCACAGTCTATAGATCACAGACTTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579030 81 + 183735486 TTTCTGGTCTCTTGCTTCTCACAAGTAATCAGTCAACTCTAATG-GGTACCATCACCTCACAGTCTATAGATCACAGACTTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1770804 81 +   8933513 TTTCTGGTCTCTTGTTTCTCACAAGTAATCAGTCAACTCTAATG-GGTACCATCACCTCACAGTCTATAGCTCACAGACTTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905069 81 + 163208435 TTTCTGGTCTCTTGTTTCTCACAAGTAATCAGTCAATTCTAATG-GGTACCATCACCTCACAGTCTATAGATCACAGACTTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122889762 81 + 180051392 TTTCTGGTCTCTTGTTTCTCACAAGTAATCAGTCAAGTCTAATG-GGTACCATCACCTGACAGTCTATAGATCACAGACTTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313381 81 + 181584905 TTTCTGGTCTCTTGTTTCTCACAAGTAATCAGTCAAGTCTAATG-GGTACCATCACCTCACAGTCTATAGATCACAGACTTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312053 81 +  18395747 TTTCTGGTCTCTTGTTTCTCACAAGTAATCAGTCAAGTCTAATG-GGTACCATCACCTCACAGTCTATAGATCACAGACTTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5324814 81 +  26952557 TTTCTGGTCTCTTGTTTCTCACAAGTAATCAGTCAAGTCTAATG-GGTACCATCACCTCACAGTCTATAGATCACAGACTTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425151 81 +  82825804 TTTCTGGTCTCTTGTTTCTCACAAGTAATCAGTCAAGTCTAATG-GGTACCATCACCTCACAGTCTATAGATCACAGACTTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095016 81 -   4237731 TTTCTGGTCTCTTGTTTCTCACAAGTAATCAGTCAAGTCTAATG-GGTACCATCACCTCACAGTCTATAGATCACAGACTTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      363539 81 -   1175262 TTTCTGGTCTCTTGTTTCTCACAAGTCATCAGTCAAGTCGAATG-GGTACCATCACCTCACAGTCTATAGATCACAGGCTTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718227 81 - 204313951 TTTCTGGTCTCTTGCTTCTCACAAGTAATCAGTCAAGTCTAATG-GGTACCATCACCTCACAGTCCATAGCTCACAGACTTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55761847 80 -  71252344 TTTCTGGTCTCTTGCTTCTCATAAGTAATCAGTCAAGTCTAATG-GGTACCATCACCTCACAGTCC-CCTCTCACAGACTTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65409 81 -   3089952 tttctggtctcttgcttctcacaAGTAATGAGTCAAGTCTAATG-GGTACCATCACCTCATAGTCCATAGCTCACAGACTTC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13265614 81 -  42888418 TTTCTGGTCTCTTGCTTCTCACAAATAATCAGTCAAGTCTAATG-GGTACCATCACCTCACAGTCCGTAGCTCACAGACTTC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60597192 81 + 108143057 TTTCTGGTCTCTTACTTCTGGCAAGTGACCAGTCAAGTCCAGTG-GGTGCCGTCACCCCACGGTCTGTAGATCCCAGGCTTC
i micMur3.chr12            I 154 I 40
s proCoq1.NW_012155062v1     3632773 81 +  11683526 TTTCTGGTCTCTAACTTCTCACAAGTGACCAGTCAAGTCCAGTG-GGTGCTGTCACCCCACAGGCTGTAGATCCCAGGCTTC
i proCoq1.NW_012155062v1   C 0 C 0
s mm10.chr18                55559480 78 +  90702639 TTCCTAGTCTCTTGCTTCTCAGAGGTGATTAATCAATTCTAGGGAGGTACTGTAACTTCTGAGACTATAAATCC---ACCT-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14964134 81 +  74389097 tttctggtctcttgcctctcataAGTGATCAGTCAAGTCTAGGG-GGTAGTGTCACTGCAGGATCTATACATTACAGTCTTT
i canFam3.chr11            C 0 C 0
e otoGar3.GL873679           3123290  0 +   4132165 C
e dasNov3.JH567306           2687073  0 +   3667625 C

a score=75800.000000
s hg38.chr5_KI270796v1_alt    138703 6 +    172708 CCCTCT-
s panTro5.chr5             125242402 6 + 181907262 CCCTCT-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579111 6 + 183735486 CCCTCT-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1770885 6 +   8933513 CCCTCT-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905150 6 + 163208435 CCCTCT-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122889843 6 + 180051392 CCCTCT-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313462 6 + 181584905 CCCTCT-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312134 6 +  18395747 CCCTCT-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5324895 6 +  26952557 CCCTCT-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425232 6 +  82825804 CCCTCT-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095097 6 -   4237731 CCCTCT-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      363620 6 -   1175262 CCCTCT-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718308 6 - 204313951 CCCTCT-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55761927 6 -  71252344 CCCTCT-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65490 6 -   3089952 CCCTCT-
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13265695 6 -  42888418 CCCTCT-
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3632854 6 +  11683526 TCCCCT-
i proCoq1.NW_012155062v1   C 0 I 17
s mm10.chr18                55559558 6 +  90702639 TCCTCA-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14964215 6 +  74389097 -CCTCGT
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60597273 40 + 108143057 I
e otoGar3.GL873679           3123290 0 +   4132165 C
e dasNov3.JH567306           2687073 0 +   3667625 C

a score=1635516.000000
s hg38.chr5_KI270796v1_alt    138709 122 +    172708 GTTATCTGTAGGACTAATACCCA-GTTCTCTGTTATTTCTTATGCTAA--------------------CTGTCACAATAAGCAATCAATTAATCAGTCAGCTAGCTC-------TTAAAACATATTTTCCCTCTCAAGTTAAGACATTTG
s panTro5.chr5             125242408 122 + 181907262 GTTATCTGTAGGACTAATACCCA-GTTCTCTGTTATTTCTTATGCTAA--------------------CTGTCACAATAAGCAATCAATTAATTAGTCAGCTAGCTC-------TTAAAACATATTTTCCCTCTCAAGTTAAGACATTTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579117 122 + 183735486 GTTATCTGTAGGACTAATACCCA-GTTCTCTGTTATTTCTTATGCTAA--------------------CTGTCACAATAAGCAATCAATTAATTAGTCAGCTAGCTC-------TTAAAACATATTTTCCCTCTCAAGTTAAGACATTTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1770891 122 +   8933513 GTTATCTGTAGGACTAATACCCA-GTTCTCTGTTATTTCTTATGCTAA--------------------CTGTCACAATAAGCAATCAATTAATTAGTCGGCTAGCTC-------TTAAAACATATTTTCCCTCTCAAGTTAAGACATTTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905156 122 + 163208435 GTTATCTGTAGGACTAATACCCA-GTTCTCTGTTATTTCTTATGCTAA--------------------CTGTCACAATAAGCAATCAATTAATTAGTCAGCTAGCTC-------TTAAAACATATTTTCCCTCTCAAGTTAAGACATTTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122889849 122 + 180051392 GTTATCTGTAGGACTAATACCCA-GTTCTCTGTTATTTCTTATGCTAA--------------------CTGTCACAATCAGCAATCAATTAATTAGACAGCTAGCTC-------TTAAAACATATTTTCCCTCTCAAGTTAAGACATTTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313468 122 + 181584905 GTTATCTGTAGGACTAATACCCA-GTTCTCTGTTATTTCTTATGCTAA--------------------CTGTCACAATCAGCAATCAATTAATTAGTCAGCTAGCTC-------TTAAAACATATTTTCCCTCTCAAGTTAAGACATTTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312140 122 +  18395747 GTTATCTGTAGGACTAATACCCA-GTTCTCTGTTATTTCTTATGCTAA--------------------CTGTCACAATCAGCAATCAATTAATTAGTCAGCTAGCCC-------TTAAAACATATTTTCCCTCTCAAGTTAAGACATTTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5324901 122 +  26952557 GTTATCTGTAGGACTAATACCCA-GTTCACTGTTATTTCTTATGCTAA--------------------CTGTCACAATCAGCAATCAATTAATTAGTCAGCTAGCTC-------TTAAAACATATTTTCCCTCTCAAGTTAAGACATTTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425238 122 +  82825804 GTTATCTGTAGGACTAATACCCA-GTTCTCTGTTATTTCTTATGCTAA--------------------CCGTCACAATCAGCAATCAATTAATTAGTCAGCTAGCTC-------TTAAAACATATTTTCCCTCTCAAGTTAAGACATTTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095103 122 -   4237731 GTTATCTGTAGGACTAATACCCA-GTTCTCTGTTATTTCTTATGCTAA--------------------CTGTCACAATCAGCAATCAATTAATTAGTCAGCTAGCTC-------TTAAAACATATTTTCCCTCTCAAGTTAAGACATTTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      363626 118 -   1175262 GTTATCTGTAGGACTAATACCCA-GTTCTCTGTTATTTCTTATGCTAA--------------------CTGTCACAATCAGCAATCAATTAATT----AGCTAGCTC-------TTAAAACATATTTTCCCTCTCAAGTTAAGACATTTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718314 122 - 204313951 GTTATCTGTAGGACTAATACCAA-GTTTTCTGTTATTTCTTATGCTAA--------------------CTCTCACAATAAGCAATCAATTAATCAGTCAGCTAGCTC-------TTAAAACTTATTTTTCCTCTCAAGTTAAGACATTTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55761933 118 -  71252344 GTTATCTGTAGGACTAATACCAA-GTTCTCTGTTATTTTTTATGCTAA--------------------CTCTCACAATAAGCAATCAGTTAATTAGTC----AGCTC-------TTAAAACTTATTTTTCCTCTCAAGTTAAGACATTTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65496 122 -   3089952 GTTATCTGTAGGACTAATACCAA-GTCCTCTGTCATTTCTTATGCTAA--------------------CTCTCACAATAAGCAATCAATTAATTAATCAGCTAGCTC-------TTAAAACTTATTTTTCCTCTCAGGTTAAGACATTTG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13265701 122 -  42888418 GTTATCTGTAGGACTAATACCAA-GTTCTCTGTTATTTCTTATGCTAA--------------------CTCTCACAATAAACAATCAATTAATTAGTCAGCTAGCTC-------TTAAAACTTACTTTTCCTCTCAAGTTAAGACATTTG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60597313 113 + 108143057 GTTATCTGTAGGACTAATACCCA-GTTCCCTGGTATTTCTCATGGTTA--------------------CTCCCACAATAAGCAGTCA--------GTCCACTGGCTC-------TTAAAACATACTTGCCC-CTCAAGTCAAGGTGTGTG
i micMur3.chr12            I 40 I 1
s proCoq1.NW_012155062v1     3632877 112 +  11683526 GTTACCTGTAGAACTAATACCCA-GTTCCC-GTTATTTCTCATGTTTA--------------------TTCTCACAATAAGCAATCA--------GTCCACTGGCTC-------TTAAAACATATTTCCCC-CTCAAGTTAAATTATTTG
i proCoq1.NW_012155062v1   I 17 I 1
s mm10.chr18                55559564 139 +  90702639 ATAATCTCTGGGAC-AATACCCA-ATTTTCTGTTTTGCTTTATGCTAATAAAGCAATAAGCAATCTGTTTGCCATAATGAGCAATCTGTTTGTCAACT--TTGTCTC-------TTCAGACATGTTTTTCCTCTCAAGTTGACAGATTTA
i mm10.chr18               C 0 I 1
s canFam3.chr11             14964221 124 +  74389097 ATTATCTGCAGGACTAATACCCCTATTCTTTGTCATTTCTTAC-CTAA--------------------CTCCCAT-GTGAGAGATCAATTA----GCCAACTGGCTCtatatttttaaaatatattttCCCTCTCAAGTTATGATATCTG
i canFam3.chr11            C 0 C 0
e otoGar3.GL873679           3123290   0 +   4132165 C
e dasNov3.JH567306           2687073   0 +   3667625 C

a score=1442.000000
s hg38.chr5_KI270796v1_alt    138831 1 +    172708 --T
s panTro5.chr5             125242530 1 + 181907262 --T
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579239 1 + 183735486 --T
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771013 1 +   8933513 --T
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905278 1 + 163208435 --T
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122889971 1 + 180051392 --T
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313590 1 + 181584905 --T
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312262 1 +  18395747 --T
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325023 1 +  26952557 --T
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425360 1 +  82825804 --C
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095225 1 -   4237731 --T
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      363744 1 -   1175262 --T
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718436 1 - 204313951 --T
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762051 1 -  71252344 --T
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65618 1 -   3089952 --T
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13265823 1 -  42888418 --T
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60597427 1 + 108143057 --A
i micMur3.chr12            I 1 C 0
s proCoq1.NW_012155062v1     3632990 1 +  11683526 --A
i proCoq1.NW_012155062v1   I 1 C 0
s otoGar3.GL873679           3123290 1 +   4132165 --T
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55559704 1 +  90702639 --A
i mm10.chr18               I 1 C 0
s canFam3.chr11             14964345 3 +  74389097 TAA
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2687073 0 +   3667625 C

a score=1820477.000000
s hg38.chr5_KI270796v1_alt    138832 122 +    172708 AAAGTTTTAGACACAGTTCTGTCACAACCT-CAATTGAGGG----TAAACATATTATCAGATAGAGGATTTTTC-TTAGATGTGCTAACTAATGGTAAATAATTC-TC-CAATCTGTAAATTATTTTTGT
s panTro5.chr5             125242531 122 + 181907262 AAAGTTTTAGACACAGTTCCGTCACAACCT-CAATTGAGGG----TAAACATATTATCAGATAGAGGATTTTTC-TTAGATGTGCTAACTAATGGTAAATAATTC-TC-CAATCTGTAAATTATTTTTGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579240 122 + 183735486 AAAGTTTTAGACACAGTTCCGTCACAACCT-CAATTGAGGG----TAAACATATTATCAGATAGAGGATTTTTC-TTAGATGTGCTAACTAATGGTAAATAATTC-TC-CAATCTGTAAATTATTTTTGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771014 122 +   8933513 AAAGTTTTAGACACAGTTCTGTCACAACCT-CAATTGAGGG----TAAACATACTATCAGATAGAGGATTTTTC-TTAGATGTGCTAACTAATGGTAAATAATTC-TC-CAATCTGTAAATTATTTTTGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905279 122 + 163208435 AAAGTTTTAGACACAGTTCTGTCACAACTT-CAATTGAGGG----TAAACATATTATCCGATAGAGGATTTTTC-TTAGATGTGCTAACTAATGGTAAATAATTC-TC-CAATCTGTAAATTATTTTTGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122889972 122 + 180051392 AAAGTTTTAGACACAGTTCTGTTACAACCT-CAATTGAGGG----TAAACATGTTATCAGATAGAGGATTTTTC-TTAGATGTCGTAACTAATGGTAAATACTTC-TC-CGATCTGTAAATTATTTTTGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313591 122 + 181584905 AAAGTTTTAGACACAGTTCTGTTACAACCT-CAATTGAGGG----TAAACATGTTATCAGATAGAGGATTTTTC-TTAGATGTCGTAACTAATGGTAAATACTTC-TC-CGATCTGTAAATTATTTTTGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312263 122 +  18395747 AAAGTTTTAGACACAGTTCTGTTACAACCT-CAATTGAGGG----TAAACATGTTATCAGATAGAGGATTTTTC-TTAGATGTCGTAACTAATGGTAAATACTTC-TC-CGATCTGTAAATTATTTTTGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325024 122 +  26952557 AAAGTTTTAGACACAGTTCTGTCACAACCT-CAATTGAGGG----TAAACACGTTATCAGATAGAGGATTTTTC-TTAGATGTCGTAACTAATGGTAAATACTTC-TC-CAATCTGTAAATTATTTTTGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425361 122 +  82825804 AAAGTTTTAGACACAGTTCTGTCACAACCT-CAATTGAGGG----TAAACATGTTATCAGATAGAGGATTTTTC-TTAGATGTCGTAACTAATGGTAAATACTTC-TC-CGATCTGTAAATTATTTTTGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095226 122 -   4237731 AAAGTTTTAGACACAGTTCTGTCACAACCT-CAATTGAGGG----TAAACACGTTATCAGATAGAGGATTTTTC-TTAGATGTCGTAACTAATGGTAAATACTTC-TC-CAATCTGTAAATTATTTTTGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      363745 122 -   1175262 AAAGTTTTAGACACAGTTCTGTCACAACCT-CAATTGCGGG----TAAACATGTTATCAGATAGAGGATTTTTC-TTAGATGTCGTAACTAATGGTAAATACTTC-TC-CAATCTGTAAATTATTTTTGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718437 122 - 204313951 AAAGTTTTAGACACAGTTCTGTCACAACCT-CAAATGAGGG----TAAACATATTATCAGATAGAGGATTTTTC-TTAGATGTGCTAACTAACGGTAAATAATTC-TC-CAATCTGTAAATTATTTTTGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762052 122 -  71252344 AAAGTTTTAGACACAGTTCTGTCACAACCT-CAATTGAAGG----TAAACATATTATCAGATAGAGAATTTTTC-TTAGATGTGCTAACTAATGGTAAACAATTC-TC-CAATCTGTGAATTATTTTTGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65619 123 -   3089952 AAAGTTTTAGACACAGTTCGGTCACAACCTCCAATTGAGGG----TAAACATATTATCAGATAGAGGATTTTTC-TTAGATGTGCTAACTAATAGTAAATAATTT-TC-CAATCTGTGAATTATTTTTGT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13265824 122 -  42888418 AAAGTTTTAGACACAGTTCTGTCACGACCT-CAATTGAGGG----TAAACATATTATCAGATAGAGGATTTTTC-TTAGATGTGCTAACTAATGGTAAATAATTC-TC-CAATCTGTGAATTATTCTTGT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60597428 123 + 108143057 AAGGTCATAGACACAGTTCTATTATAACCT-CAATCAGGAG----TAAATGCATTGTCATATAAAGGACTTTTC-TTAGGTGTGCTAAATAATGGTAAACAATGC-TCTCAATCTGTAAATGATTTTTGT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3632991 122 +  11683526 AAGGTCATAGACACAGTTCTGATACAACCT-CAATC-GGGG----TAAACACATGGTCATATACAGGATTTTTC-TCACCTGTGCTAAATAATGGTAAACAATGC-TCTCAATCTGTAAATGACTTTTGT
i proCoq1.NW_012155062v1   C 0 I 142
s otoGar3.GL873679           3123291 123 +   4132165 AAGGTCTTAGGCACAGTTCTGCTACAACCT-CAATCAGAGG----TAAAGATATTGTTATATAAAGGATTGTCC-TTAGATGTGCTAAATAATGGTAAATACTGC-TCTCAATCTGTAAATGGTTTTTAT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55559705 109 +  90702639 AAGGGTTTA-------------TGCTACCT-CAATTGGGGATAATTAAACATACTATCA-----ATGACCTATCATTAGATGTGTTAAGTAATAGTAAGTAATGCTTC-CTATATAGAACTTATTTTAT-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14964348 123 +  74389097 AGAGTTTTATAAATAGCTCTGTCATAACCT-CAGTAGGGGGTAATTAAACATATTAT---ATAAAGTATTTTTC-TTAGATGTGCTAAATAATGATGAGTAGTGC-TCCCAATCTGTAATTTTTTTTTT-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687073  94 +   3667625 AGAATTTTACAAGCAATTCTGTCACTTCCT-CAATTG-GAG----TAAACA--TTATCATATAAAGAATTTTTC-TTAGCTGTGCTAAGTAATGATAAATAAT---------------------------
i dasNov3.JH567306         C 0 C 0

a score=18380.000000
s hg38.chr5_KI270796v1_alt    138954 1 +    172708 G
s panTro5.chr5             125242653 1 + 181907262 G
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579362 1 + 183735486 G
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771136 1 +   8933513 G
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905401 1 + 163208435 G
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890094 1 + 180051392 G
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313713 1 + 181584905 G
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312385 1 +  18395747 G
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325146 1 +  26952557 G
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425483 1 +  82825804 G
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095348 1 -   4237731 G
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      363867 1 -   1175262 G
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718559 1 - 204313951 G
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762174 1 -  71252344 G
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65742 1 -   3089952 G
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13265946 1 -  42888418 G
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60597551 1 + 108143057 G
i micMur3.chr12            C 0 I 144
s otoGar3.GL873679           3123414 1 +   4132165 G
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55559814 1 +  90702639 G
i mm10.chr18               C 0 C 0
s canFam3.chr11             14964471 1 +  74389097 G
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687167 1 +   3667625 A
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3633113 142 +  11683526 I

a score=330234.000000
s hg38.chr5_KI270796v1_alt    138955 24 +    172708 GGAACTATAGGCATTTTGAGCCAT
s panTro5.chr5             125242654 24 + 181907262 GGAACTATAGGCATTTTGAGCCAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579363 24 + 183735486 GGAACTATAGGCATTTTGAGCCAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771137 24 +   8933513 GGAACTATAGGCATTTTGAGCCAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905402 24 + 163208435 GGAACTATAGGCATTTTGAGCCAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890095 24 + 180051392 GGAACTATAGGCATTTTGAGCCAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313714 24 + 181584905 GGAACTATAGGCATTTTGAGCCAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312386 24 +  18395747 GGAACTATAGGCATTTTGAGCCAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325147 24 +  26952557 GGAACTATAGGCATTTTGAGCCAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425484 24 +  82825804 GGAACTATAGGCATTTTGAGCCAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095349 24 -   4237731 GGAACTATAGGCATTTTGAGCCAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      363868 24 -   1175262 GGAACTATAGGCATTTTGAGCCAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718560 24 - 204313951 AAAACTATAGGCATTTTGAGCCAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762175 24 -  71252344 GAAACTATAGGCATTTTGAGCCAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65743 24 -   3089952 GAAACTATAGTCATTTTGAGCCAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13265947 24 -  42888418 GAAACTATAGGCATTTTGAGCCAT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3123415 24 +   4132165 AGAAGTACAGGTACTTTGAACTAT
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55559815 24 +  90702639 CTCAGTATAGTTGTGTCAAGTTGT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14964472 24 +  74389097 AAAATTATAGACATTTTGAGCAGT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687168 24 +   3667625 AGAAGTGTAGGCATTTTCAGCTAC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60597552 144 + 108143057 I
e proCoq1.NW_012155062v1     3633113 142 +  11683526 I

a score=7111.000000
s hg38.chr5_KI270796v1_alt    138979 1 +    172708 G
s panTro5.chr5             125242678 1 + 181907262 G
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579387 1 + 183735486 G
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771161 1 +   8933513 G
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905426 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890119 1 + 180051392 A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313738 1 + 181584905 A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312410 1 +  18395747 A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325171 1 +  26952557 A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425508 1 +  82825804 A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095373 1 -   4237731 A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      363892 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718584 1 - 204313951 A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762199 1 -  71252344 A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65767 1 -   3089952 A
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13265971 1 -  42888418 A
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55559839 1 +  90702639 G
i mm10.chr18               C 0 C 0
s canFam3.chr11             14964496 1 +  74389097 A
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687192 1 +   3667625 A
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60597552 144 + 108143057 I
e proCoq1.NW_012155062v1     3633113 142 +  11683526 I
e otoGar3.GL873679           3123439 1 +   4132165 I

a score=932725.000000
s hg38.chr5_KI270796v1_alt    138980  88 +    172708 ATCTTCATCCATGATGATTAAGCCTGCATAAA----AATTCCAAGTAGTGCCAATTTGC--CGTACCTGGTACTCTAAACAAGC-----------------TTT--TTTTTTT
s panTro5.chr5             125242679  85 + 181907262 ATCTTCATCCATGATGATTAAGCCTGCATAAA----AATTCCAAGTAGTGCCAATTTGC--CGTACCTGGTACTCTAAACAAGC----------------------TTTTTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579388  84 + 183735486 ATCTTCATCCATGATGATTAAGCCTGCATAAA----AATTCCAAGTAGTGCCAATTTGC--CGTACCTGGTACTCTAAACAAGC-----------------------TTTTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771162  83 +   8933513 ATCTTCATCCATGATGATTAAGCCTGCATAAA----AATTCCAAGTAGTGCCAATCTGC--CGTACCTGGTACTCTAAATAAGC------------------------TTTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905427 105 + 163208435 ATCTTCATCCAGGATGATGAAGCCTGCATAAA----AATTCCAAGTAGTGCCAATTTGC--CATACCTGGTATTCTAAACAAGCttttttttctttcttttttt--tttttct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890120  88 + 180051392 ATCTTCATTCAGGATGATTAAGCCTGCATAAA----AACTCCAAGTAGTGCCAATTTGC--CATACCCGGTATTCTAAACAAGC-----------------TTT--TATTTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313739  88 + 181584905 ATCTTCATTCAGGATGATTAAGCCTGCATAAA----AACTCCAAGTAGTGCCAATTTGC--CATACCCGGTATTCTAAACAAGC-----------------TTT--TATTTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312411  88 +  18395747 ATCTTCATTCAGGATGATTAAGCCTGCATAAA----AACTCCAAGTAGTGCCAATTTGC--CATACCCGGTATTCTAAACAAGC-----------------TTT--TATTTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325172  86 +  26952557 ATCTTCATCCAGGATGATTAAGCCCGCATAAA----AACTCCAAGTAGTGCCAATTTGC--CATACCCGGTATTGTAAACAAGC-----------------CTT----TTTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425509  88 +  82825804 ATCTTCATCCAGGATGATTAAGCCTGAATAAA----AACTCCAAGTAGTGCCAATTTGC--CATACCCGGTATTCTAAATAAGC-----------------TTT--TATTTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095374  88 -   4237731 ATCTTCATCCAGGATGATTAAGCCCGCATAAA----AACTCCAAGTAGTGCCAATTTGC--CATACCCGGTATTGTAAACAAGC-----------------TTT--TTTTTTT
i manLeu1.NW_012103321v1   C 0 I 17
s colAng1.NW_012119644v1      363893  86 -   1175262 ATCTTCATCCAGGATGATTAAGTCTGCATAAA----AACTCCAAGTAGTGCCAATTTGC--CATACCTGGTATTCTAAACAAGC-----------------TTT----TTTTG
i colAng1.NW_012119644v1   C 0 I 2
s calJac3.chr2             123718585  78 - 204313951 ATCTTTATACAGGATGATTAAGCCTGCATAAA----AATTCCAAGTAGTGCCAATTTGC--CATACTTGGTATTATAAACATGC-----------------------------
i calJac3.chr2             C 0 I 2
s saiBol1.JH378106          55762200  90 -  71252344 ATCTTCATAAAGGATGATTAAGCCTACATAAA----AATTCCAAATAGTGCCAATTTGC--CATACCTGGTATTATAAACATAC-----------------TTTGGTTTTTTG
i saiBol1.JH378106         C 0 I 7
s cebCap1.NW_016107590v1       65768  88 -   3089952 ATCTTCATACAGGATGATTAAGTCTGCATAAA----AATTCCAAGTAGTGCCAATTTGC--CATACCTGGTATTATAAACATGC-----------------ttt--ttttttt
i cebCap1.NW_016107590v1   C 0 I 7
s aotNan1.NW_018505940v1    13265972  88 -  42888418 ATCTTCATACAGGATGATTAAACCTGCATAAA----AATTCCAAGTAGTGCCAATTTGC--CATGCCTGGCATTATAAACACGC-----------------TTT--TTTTTTT
i aotNan1.NW_018505940v1   C 0 I 2
s otoGar3.GL873679           3123440  85 +   4132165 ATCTTCCTCCAGCAAGATTAAGTCTACATAAAACTTAATTCTAGGTA-TGTTAATTTTC--TGAATCTGGTATTCTAAACACGC-----------------TCT--T------
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55559840  86 +  90702639 GTTTTCATTCAAGAAGTCGAAGCCCAAATAAAATTCAGCTCCACACAACATGGGTTTGA--TACCCTTAGGATTCTCAGCATGT-----------------TCT--T------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14964497  92 +  74389097 ATCTTCATCCAGGATAATTAATTCTATATAAAATTTAATTCCAATTAGTTCTAGTGCGC--TGTATCTGGCATTCTAAGATTTT-----------------TTT--TTTTATT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687193  88 +   3667625 ATCTTGATCCAGAATTACTAATTCTACATAAAATTTAATTCCAGGTAGTGATGATTTGCTGTATACCTGGTATTCCAAATATGT-----------------TCT--T------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60597552 144 + 108143057 I
e proCoq1.NW_012155062v1     3633113 142 +  11683526 I

a score=-48810.000000
s hg38.chr5_KI270796v1_alt    139068  7 +    172708 TTTT---------------GGT
s panTro5.chr5             125242764  7 + 181907262 TTTT---------------GGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579472  7 + 183735486 TTTT---------------GGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771245  7 +   8933513 TTTT---------------GGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905532  7 + 163208435 tttt---------------ggt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890208 20 + 180051392 --TTGGCGGGGGGGGGGGGGGT
i rheMac8.chr6             C 0 I 2
s macFas5.chr6             124313827 17 + 181584905 --TT---GGGGGGGGGGGGGGT
i macFas5.chr6             C 0 I 2
s macNem1.NW_012012355v1    16312499 13 +  18395747 --TT-------GGCGGGGGGGT
i macNem1.NW_012012355v1   C 0 I 2
s cerAty1.NW_012002512v1     5325258 15 +  26952557 --TT-----GGGGGGGGGGGGT
i cerAty1.NW_012002512v1   C 0 I 2
s chlSab2.chr23             28425597 17 +  82825804 --TT---TGGGGGGGGGGGAGT
i chlSab2.chr23            C 0 I 2
s colAng1.NW_012119644v1      363981 13 -   1175262 --------GGGGGGGGGAGGG-
i colAng1.NW_012119644v1   I 2 C 0
s calJac3.chr2             123718665  4 - 204313951 TTTT------------------
i calJac3.chr2             I 2 C 0
s saiBol1.JH378106          55762297  4 -  71252344 TTTT------------------
i saiBol1.JH378106         I 7 C 0
s cebCap1.NW_016107590v1       65863  4 -   3089952 tttg------------------
i cebCap1.NW_016107590v1   I 7 C 0
s aotNan1.NW_018505940v1    13266062  4 -  42888418 TGGT------------------
i aotNan1.NW_018505940v1   I 2 C 0
s otoGar3.GL873679           3123525  7 +   4132165 TTCT---------------GGT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55559926  7 +  90702639 TACT---------------GGT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14964589  7 +  74389097 ---------------TTACAGT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687281  7 +   3667625 TTCT---------------GAT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60597552 144 + 108143057 I
e proCoq1.NW_012155062v1     3633113 142 +  11683526 I
e manLeu1.NW_012103321v1     4095462 17 -   4237731 I

a score=364213.000000
s hg38.chr5_KI270796v1_alt    139075 38 +    172708 TTTCATACCATTCACTAAAAT------GTAAGATAATTGAGTGA
s panTro5.chr5             125242771 38 + 181907262 TTTCATACCATTCACTAAAAT------GTAAGATAATTGAGTGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579479 38 + 183735486 TTTCATACCATTCACTAAAAT------GTAAGATAATTGAGTGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771252 38 +   8933513 TTTCATACCATTCACTAAAAT------GTAAGATAATTGAGTGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905539 34 + 163208435 tttCGTACCATTCACTAAAAT------GTAAGATAAT----TGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890230 38 + 180051392 TTTCACACCGTTCATGAAAAT------GTAAGCTAATTGAATGA
i rheMac8.chr6             I 2 C 0
s macFas5.chr6             124313846 38 + 181584905 TTTCACACCGTTCACGAAAAT------GTAAGCTAATTGAATGA
i macFas5.chr6             I 2 C 0
s macNem1.NW_012012355v1    16312514 38 +  18395747 TTTCACACCGTTCACGAAAAT------GTAAGCTAATTGAATGA
i macNem1.NW_012012355v1   I 2 C 0
s cerAty1.NW_012002512v1     5325275 38 +  26952557 TTTCACACCGTTCACGAAAAT------GTAAGCTAATTGAATGA
i cerAty1.NW_012002512v1   I 2 C 0
s chlSab2.chr23             28425616 38 +  82825804 TTTCACACCATTCACGAAAAT------GTAAGCTAATTGAATGA
i chlSab2.chr23            I 2 C 0
s manLeu1.NW_012103321v1     4095479 38 -   4237731 TTTCACACTGTTCACGAAAAT------GTAAGCTAATTGAATGA
i manLeu1.NW_012103321v1   I 17 C 0
s colAng1.NW_012119644v1      363994 38 -   1175262 TTTCACACCATTCACGAAAAT------GTAAGCTAATTGAATGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718669 38 - 204313951 TTTCACTCTTTTCACTAAAAT------TTAAGATAATTGAATGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762301 38 -  71252344 TTTCACACTTTTCACTAAAAT------TTAAAATAATTGAATGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65867 38 -   3089952 ttttCCACTTTTCACTATAAT------TTAAGATAATTGAATGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266066 38 -  42888418 TTTCACGCTTTTCACTAAAAT------TTAAGATAATTGAATGA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3123532 37 +   4132165 TTGCATACTGCTTGCTAGTAC------TTATGATAGTT-AATGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55559933 38 +  90702639 TTTTAAACTCCTTTCTTGAAC------TTAAGAAAATTGAAGGG
i mm10.chr18               C 0 I 8
s canFam3.chr11             14964596 35 +  74389097 --------TTTTTACTAAAAC-TTCCATTAAGATAGTTGAACAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687288 40 +   3667625 TTTCACATTGTT---TAGAACTTTCTATTAAGCTAATCGAAGT-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60597552 144 + 108143057 I
e proCoq1.NW_012155062v1     3633113 142 +  11683526 I

a score=46101.000000
s hg38.chr5_KI270796v1_alt    139113 3 +    172708 AAG
s panTro5.chr5             125242809 3 + 181907262 AAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579517 3 + 183735486 AAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771290 3 +   8933513 AAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905573 3 + 163208435 AAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890268 3 + 180051392 AAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313884 3 + 181584905 AAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312552 3 +  18395747 AAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325313 3 +  26952557 AAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425654 3 +  82825804 AAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095517 3 -   4237731 AAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364032 3 -   1175262 AAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718707 3 - 204313951 AAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762339 3 -  71252344 AAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65905 3 -   3089952 AAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266104 3 -  42888418 ATG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60597696 3 + 108143057 AAG
i micMur3.chr12            I 144 C 0
s otoGar3.GL873679           3123569 3 +   4132165 AAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55559979 3 +  90702639 AAA
i mm10.chr18               I 8 C 0
s canFam3.chr11             14964631 3 +  74389097 AAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687328 3 +   3667625 ATG
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3633113 142 +  11683526 I

a score=1591319.000000
s hg38.chr5_KI270796v1_alt    139116 111 +    172708 ATTAAAAGAATTATTTT----AT-AAAGCCTATCA-ATA-CAGCCAGATCTAGTA--A--GTATTGTAATGGAAATCATTTTGATGTTCAATGGGCTTGATAAAGGAAGATGAATTTGTTGA
s panTro5.chr5             125242812 111 + 181907262 ATTAAAAGAATTATTTT----AT-AAAGCCTATCA-ATA-CAGCCAAATCTAGTA--A--GTATTGTAATGGAAATCATTTTGATGTTCAGTGGGCTTGATAAAGGAAGATGAATTTGTTGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579520 111 + 183735486 ATTAAAAGAATTATTTT----AT-AAAGCCTATCA-ATA-CAGCCAAATCTAGTA--A--GTATTGTAATGGAAATCATTTTGATGTTCAGTGGGCTTGATAAAGGAAGATGAATTTGTTGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771293 111 +   8933513 ATTAAAAGAATTATTTT----AT-AAAGCATATCA-ATA-CAGCCAAATCTAGTA--A--GTATTGTAATGGAAATCATTTTGATGTTCAATGGGCTTGATAAAGGAAGATGAATTTGTTGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905576 111 + 163208435 ATTAAAAGAATTATTTT----AT-AAAGCTTATCA-ATA-TAGCCAAATCTAGTA--A--GAATTGTAATGGAAATCGTTTTGATGTTCAATGGGCTTGATAAAGGAAGATGAATTTGTTGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890271 109 + 180051392 ATTAAA--AATTATTTT----AT-AAAGCTTATCA-ACA-CAGCCATATCTAGTA--A--GCATTGTAACTGAAATCATTTTGATGTTCAATGGGCTTGATAAAGGAAGATGAATTTGTTGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313887 109 + 181584905 ATTAAA--AATTATTTT----AT-AAAGCTTATCA-ACA-CAGCCATATCTAGTA--A--GCATTGTAACTGAAATCATTTTGATGTTCAATGGGCTTGATAAAGGAAGATGAATTTGTTGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312555 109 +  18395747 ATTAAA--AATTATTTT----AT-AAAGCTTATCA-ACA-CAGCCATATCTAGTA--A--GCATTGCAACTGAAATCATTTTGATGTTCAATGGGCTTGATAAAGGAAGATGAATTTGTTGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325316 111 +  26952557 ATTAAAAGAATTATTTT----AT-ACAGCTTATCA-ACA-CAGCCATATCTAGTA--A--GCATTGTAACTGAAATCATTTTGATGTTCAATGGGCTTGATAAAGGAAGATGAATTTGTTGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425657 111 +  82825804 ATTAAAAGAATTATTTT----AT-AAAGCTTATCA-ACA-CAGCCATATCTAGTA--A--GCATTGTAACTGAAATAATTTTGATGTTCAATGGGCTTGATAAAGGAAGATGAATTTGTTGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095520 111 -   4237731 ATTAAAAGAATTATTTT----AT-ACAGCTTATCA-ACA-CAGCCATATCTAGTA--A--GCATTGTAACTGAAATCATTTTGATGTTCAATGGGCTTGATAAAGGAAGATGAATTTGTTGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364035 111 -   1175262 ATTAAAAGAATTATTTT----AT-AAAGCTTATCA-ACA-CAGCCAAATCTAGTA--A--GCATTGTAACTGAAATCATTTTGATGTTCAATGGGCTTGATAAAGGAAGATGAATTTGTTGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718710 111 - 204313951 ATTGAAGGAATTATTTT----AT-AAAGCTTATCA-ATA-CAGCCAAACCTAGTA--A--GCATTGTAACTGAAATCATGTTGATATTCAATGGGTTTCATAAAGGAAGATGGATTTGTTGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762342 111 -  71252344 ATTGAAGAAATTATTTT----AT-AAAGCTTATCA-ATA-CAGCCAAATCTAGTA--A--GCATTGTAACTGAAATCATGTTGATGTTCAATGGGCTTGATAAAGGAAGATGAATTTGTTGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       65908 111 -   3089952 ATTGAAGGAATTATTTT----AT-AAAACTTATCA-ATA-CAGCCAAACCTAGTA--A--GCATTGTAACTGAAACCATGTTGATGTTCAATGGGCTTGATAAAGGAAGATGAATTTGTTGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266107 111 -  42888418 ATTGAAGGAATTATTTT----AT-AAAGTTTATCA-ATA-CAGCCAAACCTAGTA--A--GCATTGTAACTGAAATCATGTTGATGTTCAATGGGCTTGATAAAGGAAGATGAATTTGTCGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60597699 112 + 108143057 ATTAAAGGAATTATTTC----ATAAAAATGTATCA-ACA-CAGCCAAACCTAGTA--A--GCATTGTAATTGAAATCATTTTGGTGTTCAGTGGACTTGGCAAAGGAAGGTGAATTTATTGA
i micMur3.chr12            C 0 I 101
s proCoq1.NW_012155062v1     3633255 112 +  11683526 ATTAAAGGAATTATTTC----ATAAAAGTATATCA-ACC-CAGCCAAACCTAGTA--A--GCATTGTAATTAAAATCATTTTGGTGTCCAGTGGACTTGGTAAAGGAAGATGAATTTATTGA
i proCoq1.NW_012155062v1   I 142 C 0
s otoGar3.GL873679           3123572 112 +   4132165 ATTAAAAGAATTATTTT----ATAAAAGCATACCA-ATA-CTGCCTAACCTAGTA--A--ACATCGTAACTGAAAACCTTTTGATGGTCAGTGGGCTTCTTAAAGGAAGTTGAATTTAATAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55559982  92 +  90702639 ACCTAAAGAAC--TTCT----AT------TTATCACATC-CTATCAGAAGTAGCA--A--TGCTAAAAACTGAAAACATTTCAGTGTCCACTGGGTTTGCTGAGGCAGG-------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14964634  97 +  74389097 ATTAAAG-----------------GAAGTTCATCC-ATA-----CAAAGTTAGTAATA--GTAAAGTAATTGAAATTACTTTAATTTTCAGTGGGTTTGATAAAGGAAGATGAATTTATTGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687331 115 +   3667625 -CTATAAAAGTTTATCTACTGAT-GAATCTAGTAA-CCATCAGTCAAACTTAGTA--ACCACATCTTAAGGGAAAT-ATTTTAATTTTCAGTGGATTTGGTAAAGGAAGACAGA-TTATTGA
i dasNov3.JH567306         C 0 C 0

a score=793589.000000
s hg38.chr5_KI270796v1_alt    139227 58 +    172708 AACTCAACCATGGAT-----GAAAAATGAATTGTGACATGGCAAACATTGCCCACATGAATTT
s panTro5.chr5             125242923 58 + 181907262 AACTCAACCATGGAT-----GAAAAATGAATTGTGACATGGCAAACATTGCCCACATGAATTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579631 58 + 183735486 AACTCAACCATGGAT-----GAAAAATGAATTGTGACATGGCAAACATTGCCCACATGAATTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771404 58 +   8933513 AACTCAACCATGGAT-----GAAAAATGAATTGTGACATGGCAAACATTGCCCACATGAATTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905687 58 + 163208435 AACTCAACCATGAAT-----GAAAAATGAATTGTGACATGGCAAACATTACCCACATGAATTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890380 58 + 180051392 AACTCAACCATGGAT-----GAAAAATGAATTGTGACATGGCAAACATTGCCCACGTGAATTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124313996 58 + 181584905 AACTCAACCATGGAT-----GAAAAATGAATTGTGACATGGCAAACATTGCCCACGTGAATTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312664 58 +  18395747 AACTCAACCATGGAT-----GAAAAATGAATTGTGACATGGCAAACATTGCCCACGTGAATTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325427 58 +  26952557 AACTCAACCATGGAT-----GAAAAATGAATTGTGACATGGCAAACATTGCCCACGTGAATTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425768 58 +  82825804 AACTCAACCATGGAT-----GAAAAATGAATTGTGACATGGCAAACATTGCCCACGTGAATTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095631 58 -   4237731 AACTCAACCATGGAT-----GAAAAATGAATTGTGACATGGCAAACATTGCCCGCGTGAATTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364146 58 -   1175262 AACTCAACCATGTAT-----GAACAATGAATTGTGACATGGCAAACATTGCCCACCTCAATGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718821 58 - 204313951 AACTCAACCGTGAAT-----GAAAAATGAATTGTAACATGGCAAACATTCCCCACATGAATTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762453 58 -  71252344 AAGTCGACCGTGAAT-----GAAAAATGAATTGTGACATGGCAAACATTCCCCACATGAATTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66019 58 -   3089952 AACTTAACCGTGAAT-----GAAAAATGAATTGTGACATGGCAAACATTCCCCACATAAATTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266218 58 -  42888418 AACTCAACCGTGAAT-----GAAAAATGAATTGTGACATGGCAAACATTCCCCACATGAATTT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3633367 58 +  11683526 CAATCAGCTGTGGAC-----AAAAAGTAGATTGTAACATGGTAAATGTGGCCCGTATGAATTT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3123684 59 +   4132165 GAGTCAATGGTGGAC----AAAAAAATAGGCTGTCACATGGCAAACATGGCCCATGGGAATTT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55560074 62 +  90702639 -AATCAACTGTGGATTTTAAAAAAATTGAGTTGAGACACAGCATACATGGCCTATGTGGGTTT
i mm10.chr18               C 0 I 1029
s canFam3.chr11             14964731 58 +  74389097 GAATCAACGACAGAC-----ATAAAATGGATTATGACATGGCAAACACAGTCCACATGAATTG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687446 46 +   3667625 GAATCAGCCCTGGAT----------------CACAACATGGCAAACATGGG-TACTTGAGTTG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60597811 101 + 108143057 I

a score=156122.000000
s hg38.chr5_KI270796v1_alt    139285 10 +    172708 CTAGGGTCAG
s panTro5.chr5             125242981 10 + 181907262 CTAGGGTCAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579689 10 + 183735486 CTAGGGTCAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771462 10 +   8933513 CTAGGGTCAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905745 10 + 163208435 CTAGGGTCAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890438 10 + 180051392 CTAGGGTCAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124314054 10 + 181584905 CTAGGGTCAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312722 10 +  18395747 CTAGGGTCAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325485 10 +  26952557 CTAGGGTCAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425826 10 +  82825804 CTAGGGTCAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095689 10 -   4237731 CTAGGGTCAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364204 10 -   1175262 CTAGGGTCAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718879 10 - 204313951 CTAGGGTCAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762511 10 -  71252344 CTAGGGTCAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66077 10 -   3089952 CTAGGGTCAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266276 10 -  42888418 CTAGGGTCAG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3633425 10 +  11683526 CTAGGGCCAG
i proCoq1.NW_012155062v1   C 0 I 35
s otoGar3.GL873679           3123743 10 +   4132165 CCAGGGCCAG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14964789 10 +  74389097 TTACAGCCAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687492 10 +   3667625 CTAGGGCCAT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60597811 101 + 108143057 I
e mm10.chr18                55560136 1029 +  90702639 I

a score=751601.000000
s hg38.chr5_KI270796v1_alt    139295 65 +    172708 CTTTGTAGCTGACTACCTGATCAATGAAAGTTTTA-CTGTAAAGAGCCAAATGGATCGAGTCATGG
s panTro5.chr5             125242991 65 + 181907262 CTTTGTAGCTGACTACCTGATCAATGAAAGTTTTA-CTGTAAAGAGCCAAATGGATCGAGTCATGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579699 65 + 183735486 CTTTGTAGCTGACTACCTGATCAATGAAAGTTTTA-CTGTAAAGAGCCAAATGGATCGAGTCATGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771472 65 +   8933513 CTTTGTAGCTGAGTACCTGATCAATGAAAGTTTTA-CTGTAAAGAGCCAAATGGATCAAATCATGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905755 65 + 163208435 CTTTGTAGCTGAGTACCTGATCAATGAAAGTTTTA-CTGTAAAGAGCCAAATGGATCAAGTCATGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890448 65 + 180051392 CTTTGTAGCTGAGTACCTGATCAATGAAACTTTTA-CTGTAAAGAGCCAAATGGATCAAGTCATGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124314064 65 + 181584905 CTTTGTAGCTGAGTACCTGATCAATGAAACTTTTA-CTGTAAAGAGCCAAATGGATCAAGTCATGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312732 65 +  18395747 CTTTGTAGCTGAGTACCTGATCAATGAAACTTTTA-CTGTAAAGAGCCAAATGGATCAAGTCATGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325495 65 +  26952557 CTTTGTAGCTGAGTACCTGATCAATGAAACTTTTA-CTGTAAAGAGCCAAATGGATCAAGTCATGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425836 65 +  82825804 CTTTGTAGCTGAGTACCTGATCAATGAAACTTTTA-CTGTAAAGAGCCAAATGGATCAAGTCATGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095699 65 -   4237731 CTTTGTAGCTGAGTACCTGATCAATGAAACTTTTA-CTGTAAAGAGCCAAATGGATCAAGTCATGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364214 65 -   1175262 CTTTGTAGCTGAGTACCTGATCAATGGAACTCTTA-CTGTAAAGAGCCAAATGGATCAAGTCATGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718889 65 - 204313951 CTTTGTAGCTGAGTACCTGATCAATGCAAGTTTTA-CTTTAAAGAGCCAAATGTATCCAGGCATGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762521 65 -  71252344 CTTTGTAGCTGAGTACCTGATCAATGCAAGTTTTA-CTGTAAAGAGCCAAATGGATCCAGTCATGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66087 65 -   3089952 CTTTGTAACTGAGTACCTGATCAATGCAAGTTTTA-CTTTAAAGAGCCAAATGGATCCAGTCATGC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266286 65 -  42888418 CTTTGTAGCTGAGTACCTGATCAATGCAACTTTTA-CTTTAAAGAGCCAAATGGATCCAGTCATGG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3123753 60 +   4132165 TGTGGTAGCAAAGCACCTGATCAGGGTAGAT-----CTGTAAAGAGGAAAGTGG-TCAAGCTGTGG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14964799 62 +  74389097 CTTGGTAGAAGAGTATCTGATCCATATAAGTTTTA-TTTATGAAAATC---TGAGTCAAGTCATAC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687502 66 +   3667625 TTTGATGGAGGAGGGTCTAATTAGTGTAAGTATTATCTATAAAGAGTGAAATAGTTGGGTTCATGG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60597811 101 + 108143057 I
e proCoq1.NW_012155062v1     3633435 35 +  11683526 I
e mm10.chr18                55560136 1029 +  90702639 I

a score=17290.000000
s hg38.chr5_KI270796v1_alt    139360 1 +    172708 A
s panTro5.chr5             125243056 1 + 181907262 A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579764 1 + 183735486 A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771537 1 +   8933513 A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905820 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890513 1 + 180051392 A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124314129 1 + 181584905 A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312797 1 +  18395747 A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325560 1 +  26952557 A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425901 1 +  82825804 A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095764 1 -   4237731 A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364279 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718954 1 - 204313951 A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762586 1 -  71252344 A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66152 1 -   3089952 A
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266351 1 -  42888418 A
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3633470 1 +  11683526 A
i proCoq1.NW_012155062v1   I 35 C 0
s otoGar3.GL873679           3123813 1 +   4132165 A
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14964861 1 +  74389097 A
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687568 1 +   3667625 A
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60597811 101 + 108143057 I
e mm10.chr18                55560136 1029 +  90702639 I

a score=351650.000000
s hg38.chr5_KI270796v1_alt    139361 22 +    172708 TAGCTTTCTTCACCTCTAAGCA
s panTro5.chr5             125243057 22 + 181907262 TAGCTTTCTTCACCTCTAAGCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579765 22 + 183735486 TAGCTTTCTTCACCTCTAAGCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771538 22 +   8933513 TAGCTTTCTTCACCTCTAAGCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905821 22 + 163208435 TAGCTTTCTTCACCTCTAAGCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890514 22 + 180051392 TAGCTTTCTTCACCTCTAAGCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124314130 22 + 181584905 TAGCTTTCTTCACCTCTAAGCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312798 22 +  18395747 TAGCTTTCTTCACCTCTAAGCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325561 22 +  26952557 TAGCTTTCTTCACCTCTAAGCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425902 22 +  82825804 TAGCTTTCTTCACCTCTAAGCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095765 22 -   4237731 TAGCTTTCTTCACCTCTAAGCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364280 22 -   1175262 TAGCTTTCTTCACCTCTAAGCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718955 22 - 204313951 TAGCTTTCCTCATCGCTAAGCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762587 22 -  71252344 TATCTTTCTTCATCTCTAAGCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66153 22 -   3089952 TAGCTTTCTTCATCTCTAAGCA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266352 22 -  42888418 TAGCTTTCTTCATCTCTAAGCA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60597912 22 + 108143057 TAGCTTTCTTCACCTCTAAGCA
i micMur3.chr12            I 101 I 69
s proCoq1.NW_012155062v1     3633471 22 +  11683526 TAGCTTTCTTCACCTCTAAGCA
i proCoq1.NW_012155062v1   C 0 I 64
s otoGar3.GL873679           3123814 22 +   4132165 TAACTTTCATCCCTGCTGAGCA
i otoGar3.GL873679         C 0 I 4
s canFam3.chr11             14964862 21 +  74389097 TTGCCTTTTCTATC-CTAAGGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687569 22 +   3667625 TTGTTTACTTCACCTTTAAACA
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55560136 1029 +  90702639 I

a score=170289.000000
s hg38.chr5_KI270796v1_alt    139383 21 +    172708 -GTTGCACGACAAGGTA-TTTTT
s panTro5.chr5             125243079 21 + 181907262 -GGTGCACGACAAGGTA-TTTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579787 21 + 183735486 -GTTGCACGACAAGGTA-TTTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771560 21 +   8933513 -GTTTCACGACGAGGTA-TTTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905843 20 + 163208435 -GTT-CACGACAAAGTA-TTTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890536 20 + 180051392 -GTT-CATGACAAGGTA-TTTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124314152 20 + 181584905 -GTT-CATGACAAGGTA-TTTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312820 20 +  18395747 -GTT-CATGACAAGGTA-TTTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325583 21 +  26952557 -GTT-CATGACAAGGTATTTTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425924 20 +  82825804 -GTT-CATGACAAGGTA-TTTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095787 20 -   4237731 -GTT-CATGACAAGGTA-TTTTT
i manLeu1.NW_012103321v1   C 0 I 48
s colAng1.NW_012119644v1      364302 20 -   1175262 -GTT-CATGACAAGGTA-TTTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718977 20 - 204313951 -GTT-CACAACAAGGTA-TTTTT
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55762609 20 -  71252344 -GTT-CATAACAAAGGT-ATTTT
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107590v1       66175 20 -   3089952 -GTT-CACAATAAGGTA-TTTTT
i cebCap1.NW_016107590v1   C 0 I 45
s aotNan1.NW_018505940v1    13266374 20 -  42888418 -GTT-CACAACAAGGTA-TTTTT
i aotNan1.NW_018505940v1   C 0 I 51
s otoGar3.GL873679           3123840 20 +   4132165 -GTG-AATGACAGAGTT-GTTTT
i otoGar3.GL873679         I 4 I 4
s canFam3.chr11             14964883 20 +  74389097 -ACT-AATAACAAGGGA-TTTTT
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2687591 13 +   3667625 ATCT-AGTGACAGG---------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60597934 69 + 108143057 I
e proCoq1.NW_012155062v1     3633493 64 +  11683526 I
e mm10.chr18                55560136 1029 +  90702639 I

a score=239506.000000
s hg38.chr5_KI270796v1_alt    139404 43 +    172708 AAAAAAATTTATTTTATATGAAAGACGC----AATCTTTCT-ATTAAG
s panTro5.chr5             125243100 43 + 181907262 TAAAAAATTTATTTTATATGAACGACCC----AATCTTTCT-ATTAAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579808 43 + 183735486 TTAAAAATTTATTTTATATGAACGACCC----AATCTTTCT-ATTAAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771581 43 +   8933513 TTAAAAATTTATTTTATATGAATGACAC----AATCTTTCT-ATTAAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905863 43 + 163208435 TAAAAAATTTATTTTATATGAATGACGC----AATCTTTCT-ATTAAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890556 43 + 180051392 --TAAAATTTATTTTATATGAATGACACTT--AATCTTTCT-ATTAAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124314172 43 + 181584905 --TAAAATTTATTTTATATGAATGACACTT--AATCTTTCT-ATTAAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312840 43 +  18395747 --TAAAATTTATTTTATATGAATGACACTT--AATCTTTCT-ATTAAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325604 43 +  26952557 --TAAAATTTATTTTATATGAGTGACACTT--AATCTTTCT-ATTAAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28425944 44 +  82825804 -TTAAAATTTATTTTATATGAATGACACTT--AATCTTTCT-ATTAAG
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      364322 44 -   1175262 -TAAAAATTTATTTTATATAAATGACACTT--AATCTTTCT-ATTAAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123718998 47 - 204313951 TAAAAAGTGTATTTTATATGGACCACACTTACAATCTTTTT-GTTAAG
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55762630 47 -  71252344 TAAAAAGTGTATTTTATATGGACCACACTTAAAATCTTTTT-GTTAAG
i saiBol1.JH378106         I 1 C 0
s otoGar3.GL873679           3123864 45 +   4132165 TTTAAA--TTATTTTCTGTGAGTCATGTTTATAATCTTTAT-AGTAAG
i otoGar3.GL873679         I 4 C 0
s canFam3.chr11             14964904 45 +  74389097 TTTAAG---TATTTTATATTTGTCACACTGAAAACCTTCTTAATTAAG
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2687604 20 +   3667625 ----aaatttaat-------------------tattttttt-at----
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60597934 69 + 108143057 I
e proCoq1.NW_012155062v1     3633493 64 +  11683526 I
e manLeu1.NW_012103321v1     4095807 48 -   4237731 I
e aotNan1.NW_018505940v1    13266394 51 -  42888418 I
e cebCap1.NW_016107590v1       66195 45 -   3089952 I
e mm10.chr18                55560136 1029 +  90702639 I

a score=23959.000000
s hg38.chr5_KI270796v1_alt    139447 3 +    172708 AAG
s panTro5.chr5             125243143 3 + 181907262 AAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579851 3 + 183735486 AAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771624 3 +   8933513 AAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905906 3 + 163208435 AAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890599 3 + 180051392 AAG
i rheMac8.chr6             C 0 I 1
s macFas5.chr6             124314215 3 + 181584905 AAG
i macFas5.chr6             C 0 I 1
s macNem1.NW_012012355v1    16312883 3 +  18395747 AAG
i macNem1.NW_012012355v1   C 0 I 1
s cerAty1.NW_012002512v1     5325647 3 +  26952557 AAG
i cerAty1.NW_012002512v1   C 0 I 1
s chlSab2.chr23             28425988 3 +  82825804 AAG
i chlSab2.chr23            C 0 I 1
s colAng1.NW_012119644v1      364366 3 -   1175262 AAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719045 3 - 204313951 AAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762677 3 -  71252344 AAG
i saiBol1.JH378106         C 0 C 0
s canFam3.chr11             14964949 3 +  74389097 AAA
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60597934 69 + 108143057 I
e proCoq1.NW_012155062v1     3633493 64 +  11683526 I
e manLeu1.NW_012103321v1     4095807 48 -   4237731 I
e otoGar3.GL873679           3123909 0 +   4132165 C
e aotNan1.NW_018505940v1    13266394 51 -  42888418 I
e cebCap1.NW_016107590v1       66195 45 -   3089952 I
e dasNov3.JH567306           2687624 0 +   3667625 C
e mm10.chr18                55560136 1029 +  90702639 I

a score=301.000000
s hg38.chr5_KI270796v1_alt    139450 7 +    172708 AAAATTG
s canFam3.chr11             14964952 7 +  74389097 AAATTTA
i canFam3.chr11            C 0 I 111
e micMur3.chr12             60597934 69 + 108143057 I
e proCoq1.NW_012155062v1     3633493 64 +  11683526 I
e gorGor5.CYUI01015135v1     1771627 0 +   8933513 C
e manLeu1.NW_012103321v1     4095807 48 -   4237731 I
e chlSab2.chr23             28425991 1 +  82825804 I
e cerAty1.NW_012002512v1     5325650 1 +  26952557 I
e macNem1.NW_012012355v1    16312886 1 +  18395747 I
e macFas5.chr6             124314218 1 + 181584905 I
e rheMac8.chr6             122890602 1 + 180051392 I
e otoGar3.GL873679           3123909 0 +   4132165 C
e aotNan1.NW_018505940v1    13266394 51 -  42888418 I
e cebCap1.NW_016107590v1       66195 45 -   3089952 I
e dasNov3.JH567306           2687624 0 +   3667625 C
e mm10.chr18                55560136 1029 +  90702639 I
e saiBol1.JH378106          55762680 0 -  71252344 C
e calJac3.chr2             123719048 0 - 204313951 C
e colAng1.NW_012119644v1      364369 0 -   1175262 C
e nomLeu3.chr2             139905909 0 + 163208435 C
e panPan2.chr5             126579854 0 + 183735486 C
e panTro5.chr5             125243146 0 + 181907262 C

a score=-6586.000000
s hg38.chr5_KI270796v1_alt    139457 306 +    172708 GGggccgggcgcggtggctcacgcctgtaatcccagcactttgggaggccgaggcgggtggatcatgaggtcaggagatcgagaccatcctggctaacaaggtgaaaccccgtctctactaaaaatacaaaaaattagccgggcgcggtggcgggcgcctgtagtcccagctactcgggaggctgaggcaggagaatggcgtgaacccgggaagcggagcttgcagtgagccgagattgcgccactgcagtccgcagtccggcctgggcgacagagcgagactccgtctcaaaaaaaaaaaaaaaa
s dasNov3.JH567306           2687624  49 +   3667625 -------------ataGGCCACACTTATAA--------------------------------------------------------------------------------CTTATCTATTAAAAA-----------------------------------------------------------------GAAGAAT-------------------------------------------------------------------------------------------TCaaataaaa--------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60597934  69 + 108143057 I
e canFam3.chr11             14964959 111 +  74389097 I
e proCoq1.NW_012155062v1     3633493  64 +  11683526 I
e gorGor5.CYUI01015135v1     1771627   0 +   8933513 C
e manLeu1.NW_012103321v1     4095807  48 -   4237731 I
e chlSab2.chr23             28425991   1 +  82825804 I
e cerAty1.NW_012002512v1     5325650   1 +  26952557 I
e macNem1.NW_012012355v1    16312886   1 +  18395747 I
e macFas5.chr6             124314218   1 + 181584905 I
e rheMac8.chr6             122890602   1 + 180051392 I
e otoGar3.GL873679           3123909   0 +   4132165 C
e aotNan1.NW_018505940v1    13266394  51 -  42888418 I
e cebCap1.NW_016107590v1       66195  45 -   3089952 I
e mm10.chr18                55560136 1029 +  90702639 I
e saiBol1.JH378106          55762680   0 -  71252344 C
e calJac3.chr2             123719048   0 - 204313951 C
e colAng1.NW_012119644v1      364369   0 -   1175262 C
e nomLeu3.chr2             139905909   0 + 163208435 C
e panPan2.chr5             126579854   0 + 183735486 C
e panTro5.chr5             125243146   0 + 181907262 C

a score=91.000000
s hg38.chr5_KI270796v1_alt    139763 1 +    172708 a
s mm10.chr18                55561165 1 +  90702639 A
i mm10.chr18               I 1029 C 0
e micMur3.chr12             60597934 69 + 108143057 I
e canFam3.chr11             14964959 111 +  74389097 I
e proCoq1.NW_012155062v1     3633493 64 +  11683526 I
e gorGor5.CYUI01015135v1     1771627 0 +   8933513 C
e manLeu1.NW_012103321v1     4095807 48 -   4237731 I
e chlSab2.chr23             28425991 1 +  82825804 I
e cerAty1.NW_012002512v1     5325650 1 +  26952557 I
e macNem1.NW_012012355v1    16312886 1 +  18395747 I
e macFas5.chr6             124314218 1 + 181584905 I
e rheMac8.chr6             122890602 1 + 180051392 I
e otoGar3.GL873679           3123909 0 +   4132165 C
e aotNan1.NW_018505940v1    13266394 51 -  42888418 I
e cebCap1.NW_016107590v1       66195 45 -   3089952 I
e dasNov3.JH567306           2687673 0 +   3667625 C
e saiBol1.JH378106          55762680 0 -  71252344 C
e calJac3.chr2             123719048 0 - 204313951 C
e colAng1.NW_012119644v1      364369 0 -   1175262 C
e nomLeu3.chr2             139905909 0 + 163208435 C
e panPan2.chr5             126579854 0 + 183735486 C
e panTro5.chr5             125243146 0 + 181907262 C

a score=575.000000
s hg38.chr5_KI270796v1_alt    139764 3 +    172708 aaa
s cebCap1.NW_016107590v1       66240 3 -   3089952 AAA
i cebCap1.NW_016107590v1   I 45 C 0
s mm10.chr18                55561166 3 +  90702639 AAG
i mm10.chr18               C 0 C 0
e micMur3.chr12             60597934 69 + 108143057 I
e canFam3.chr11             14964959 111 +  74389097 I
e proCoq1.NW_012155062v1     3633493 64 +  11683526 I
e gorGor5.CYUI01015135v1     1771627 0 +   8933513 C
e manLeu1.NW_012103321v1     4095807 48 -   4237731 I
e chlSab2.chr23             28425991 1 +  82825804 I
e cerAty1.NW_012002512v1     5325650 1 +  26952557 I
e macNem1.NW_012012355v1    16312886 1 +  18395747 I
e macFas5.chr6             124314218 1 + 181584905 I
e rheMac8.chr6             122890602 1 + 180051392 I
e otoGar3.GL873679           3123909 0 +   4132165 C
e aotNan1.NW_018505940v1    13266394 51 -  42888418 I
e dasNov3.JH567306           2687673 0 +   3667625 C
e saiBol1.JH378106          55762680 0 -  71252344 C
e calJac3.chr2             123719048 0 - 204313951 C
e colAng1.NW_012119644v1      364369 0 -   1175262 C
e nomLeu3.chr2             139905909 0 + 163208435 C
e panPan2.chr5             126579854 0 + 183735486 C
e panTro5.chr5             125243146 0 + 181907262 C

a score=3485.000000
s hg38.chr5_KI270796v1_alt    139767 3 +    172708 aaa
s cebCap1.NW_016107590v1       66243 3 -   3089952 AAG
i cebCap1.NW_016107590v1   C 0 C 0
s micMur3.chr12             60598003 3 + 108143057 AAA
i micMur3.chr12            I 69 C 0
s proCoq1.NW_012155062v1     3633557 3 +  11683526 AAA
i proCoq1.NW_012155062v1   I 64 C 0
s otoGar3.GL873679           3123909 3 +   4132165 AAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55561169 3 +  90702639 AAA
i mm10.chr18               C 0 C 0
e canFam3.chr11             14964959 111 +  74389097 I
e gorGor5.CYUI01015135v1     1771627 0 +   8933513 C
e manLeu1.NW_012103321v1     4095807 48 -   4237731 I
e chlSab2.chr23             28425991 1 +  82825804 I
e cerAty1.NW_012002512v1     5325650 1 +  26952557 I
e macNem1.NW_012012355v1    16312886 1 +  18395747 I
e macFas5.chr6             124314218 1 + 181584905 I
e rheMac8.chr6             122890602 1 + 180051392 I
e aotNan1.NW_018505940v1    13266394 51 -  42888418 I
e dasNov3.JH567306           2687673 0 +   3667625 C
e saiBol1.JH378106          55762680 0 -  71252344 C
e calJac3.chr2             123719048 0 - 204313951 C
e colAng1.NW_012119644v1      364369 0 -   1175262 C
e nomLeu3.chr2             139905909 0 + 163208435 C
e panPan2.chr5             126579854 0 + 183735486 C
e panTro5.chr5             125243146 0 + 181907262 C

a score=8281.000000
s hg38.chr5_KI270796v1_alt    139770 1 +    172708 a
s panTro5.chr5             125243146 1 + 181907262 A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579854 1 + 183735486 A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771627 1 +   8933513 A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905909 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s colAng1.NW_012119644v1      364369 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719048 1 - 204313951 A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762680 1 -  71252344 A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66246 1 -   3089952 A
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266445 1 -  42888418 A
i aotNan1.NW_018505940v1   I 51 C 0
s micMur3.chr12             60598006 1 + 108143057 A
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3633560 1 +  11683526 A
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3123912 1 +   4132165 A
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55561172 1 +  90702639 A
i mm10.chr18               C 0 C 0
e canFam3.chr11             14964959 111 +  74389097 I
e manLeu1.NW_012103321v1     4095807 48 -   4237731 I
e chlSab2.chr23             28425991 1 +  82825804 I
e cerAty1.NW_012002512v1     5325650 1 +  26952557 I
e macNem1.NW_012012355v1    16312886 1 +  18395747 I
e macFas5.chr6             124314218 1 + 181584905 I
e rheMac8.chr6             122890602 1 + 180051392 I
e dasNov3.JH567306           2687673 0 +   3667625 C

a score=1024569.000000
s hg38.chr5_KI270796v1_alt    139771 71 +    172708 aaaTTGGGTCATTGAATTATTCAGAAACTGAATGGTTATATAA--TAATCAATCAAATGTAGATATTCTGGTC
s panTro5.chr5             125243147 67 + 181907262 AAATTGGATCATTGAATTATTCAGAAACTGAATGGTTATATAA--TAATCAA----ATGTAGATATTCTGGTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579855 67 + 183735486 AAATTGGATCATTGAATTATTCAGAAACTGAATGGTTATATAA--TAATCAA----ATGTAGATATTCTGGTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771628 67 +   8933513 AAATTAGGTCATTGAATTATTCAGAAACTGAATGGTTATATAA--TAATCAA----ATGTAGATATTCTGGTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905910 67 + 163208435 AAATTAGGTCATTGAATTATTCAGAAACTGAATGGTTATATAA--TAATCAA----ATGTAGATATTCTGGTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890603 67 + 180051392 AAATTAGGTCATTGAATTATTCAGAAACTGAATGGTTATATAA--TAATCAA----ATGTAGATATTCTGGTC
i rheMac8.chr6             I 1 C 0
s macFas5.chr6             124314219 67 + 181584905 AAATTAGGTCATTGAATTATTCAGAAACTGAATGGTTATATAA--TAATCAA----ATGTAGATATTCTGGTC
i macFas5.chr6             I 1 C 0
s macNem1.NW_012012355v1    16312887 67 +  18395747 AAATTAGGTCATTGAATTATTCAGAAACTGAATGGTTATATAA--TAATCAA----ATGTAGATATTCTGGTC
i macNem1.NW_012012355v1   I 1 C 0
s cerAty1.NW_012002512v1     5325651 67 +  26952557 AAATTAGGTCATTGAATTATTCAGAAACTGAATGGTTATATAA--TAATCAA----ATGTAGATATTCTGGTC
i cerAty1.NW_012002512v1   I 1 C 0
s chlSab2.chr23             28425992 67 +  82825804 AAATTAGGTCATTGAATTATTCAGAAACTGAATGGTTATATAA--TAATCAA----ATGTAGATATTCTGGTC
i chlSab2.chr23            I 1 C 0
s manLeu1.NW_012103321v1     4095855 67 -   4237731 AAATTAGGTCATTGAATTATTCAGAAACTGAATGGTTATATAA--TAATCAA----ATGTAGATATTCTGGTC
i manLeu1.NW_012103321v1   I 48 C 0
s colAng1.NW_012119644v1      364370 67 -   1175262 AAATTAGGTCATTGAATTACTCAGAAACTGAATGGTTATATAA--TAATCAA----ATGTAGAGATTCTAGTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719049 67 - 204313951 AGATTAGGTCATTGAAACATTCAGAAACTGAATTGTTATATAA--TAATCAA----ATGTAGATATTCTAGGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762681 67 -  71252344 AAATTAGGTCATTGAAATATTCAGAAACTGAATTGTTATGTAA--TAATCAA----ATGTAGATATTCTAGGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66247 67 -   3089952 AAATTAGGTCATTGAAATATTCAGAAACTGAATTGTTATGTAA--TAATCAA----ATGTAGATATTCTAGGC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266446 67 -  42888418 AAATTAGGTCATTGAAATATTCAGAAACTGAATTGTTATGTAA--TAATCAA----ATGTAGATATTCTAGGC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60598007 67 + 108143057 AAATTAAATCGTTGAATTATTCAGAAACTGATTAGTTATATAA--CAATCAA----ATGCAGATATTCTGGTC
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3633561 67 +  11683526 AAATTAAATCATTGAATTATTCAGAAATTGATTGGTTATATAA--CAATCAA----ATGTAGATATTCTGGTC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3123913 67 +   4132165 AAATTAAATCATTGAATTATTCAGAAACTAAACGGTTATATAA--TAATCAA----ATATAGATACTCTGGTC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55561173 62 +  90702639 AGATTAAATAATTCA-----CTAAAGACTG--TGGCAATACAAATTTATCAG----CTATACATTTCCTGAAT
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2687673 59 +   3667625 --------taattgaattattcagaaattaaatgattatataa--taatcaa----atatagatatattGGTT
i dasNov3.JH567306         C 0 C 0
e canFam3.chr11             14964959 111 +  74389097 I

a score=661726.000000
s hg38.chr5_KI270796v1_alt    139842 47 +    172708 ACTTCCTGTGTCTCTAGTGG-CTATTAAGAAGGCAAGGA------GAAACTTAT
s panTro5.chr5             125243214 47 + 181907262 ACTTCCTGTGTCTCTAGTGG-CTATTAAGAAGGCAAGGA------GAAACTTAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579922 47 + 183735486 ACTTCCTGTGTCTCTAGTGG-CTATTAAGAAGGCAAGGA------GAAACTTAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771695 47 +   8933513 ACTTCCTGTGTCTCTAGTGG-CTATTAAGAAGGCAAGAA------GAAACTTAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139905977 47 + 163208435 ACTTCCTGTGTCTCAAACGG-CTATTAAGAAGGCAAGGA------GAAACTTAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890670 47 + 180051392 ATTTCCTGTGTCTCTAGTGG-CTATTAAGAAGGCAAGGA------GAAACTTAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124314286 47 + 181584905 ATTTCCTGTGTCTCTAGTGG-CTATTAAGAAGGCAAGGA------GAAACTTAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16312954 47 +  18395747 ATTTCCTGTGTCTCTAGTGG-CTATTAAGAAGGCAAGGA------GAAACTTAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325718 47 +  26952557 ATTTCCTGTGTCTCTAGTGG-CTATTAAGAAGGCAAGGA------GAAACTTAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426059 47 +  82825804 ATTACCTGTGTCTCTAGTGG-CTATTAAGAAGGCAAGGA------GAAACTTAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095922 47 -   4237731 ATTTCCTGTGTCTCTAGTGG-CTATTAAGAAGGCAAGGA------GAAACTTAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364437 47 -   1175262 ACTTCTTGTGTCTCTAGTGG-CTATTAAGAAGGCAAGGA------GAAACTTAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719116 47 - 204313951 ACTTCCTGTGTCTCTAGGGG-CTATTAAGAAAGCAATAA------GAAATTTAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762748 47 -  71252344 ACTTCCTGTGTCTCTAGGGG-CTATTAAGAAGGCAAAAA------GAAATTTAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66314 47 -   3089952 ACTTCCTGTGTCTCTAGGGG-CTATTAAGAAGGCAAAAA------GAAATTTAC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266513 47 -  42888418 ACTTTCTGTGTCTCTAGGGG-CTATTAAGAAGGCAAAAA------GAAATTTAT
i aotNan1.NW_018505940v1   C 0 I 2
s micMur3.chr12             60598074 53 + 108143057 ACTTCCCGTGTCTCTAGGGG-CTATTAAGCAGGCAAGGAGAAGTTGAAATGTGT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3633628 47 +  11683526 ACTTACTGTGTCTCTAGGGG-CTATTAAGCAGGCAAGGA------GAAATGTGT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3123980 47 +   4132165 CCTTCCTGTGTCCATAGGGG-CTATTAAGCACACAAGGA------GAAATGTGT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55561235 48 +  90702639 AGCTCTTATGTCTTCAAAGATCTATTAAGCAGGCAAAGA------GAAATATAT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14965070  9 +  74389097 CCTTCCTGT---------------------------------------------
i canFam3.chr11            I 111 C 0
s dasNov3.JH567306           2687732 47 +   3667625 ACTTCCTAGCTCTCTAGGGA-CTATTTGAAGGGTTAGGA------GAAGTGTAT
i dasNov3.JH567306         C 0 C 0

a score=290933.000000
s hg38.chr5_KI270796v1_alt    139889 34 +    172708 TTTTCCTATGGGAT--GCACTTCCAACTTTCTTAAG
s panTro5.chr5             125243261 34 + 181907262 TCTTCCTATGGGAT--GCACTTCCAACTTTCTTAAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126579969 34 + 183735486 TCTTCCTATGGGAT--GCACTTCCAACTTTCTTAAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771742 34 +   8933513 TCTTCCTATGGGAT--GCACTTCCAACTTTCTTAAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906024 34 + 163208435 TCTTCCTATGGGAT--GCACTTCCAACTTTCTTAAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890717 34 + 180051392 TCTTCCTATGGGAT--GCACTTCCAACTTTCTTAAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124314333 34 + 181584905 TCTTCCTATGGGAT--GCACTTCCAACTTTCTTAAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16313001 34 +  18395747 TCTTCCTATGGGAT--GCACTTCCAACTTTCTTAAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325765 34 +  26952557 TCTTCCTATGGGAT--GCACTTCCAACTTTCTTAAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426106 34 +  82825804 TCTTCCTATGGGAT--GCACTTCCAGCTTTCTTAAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4095969 34 -   4237731 TCTTCCTATGGGAT--GCACTTCCAACTTTCTTAAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364484 34 -   1175262 TCTTCCTATGGGAT--GCACTTCCAACTTTCTTAAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719163  4 - 204313951 ------------ATAA--------------------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762795  2 -  71252344 ------------AT----------------------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66361  2 -   3089952 ------------AT----------------------
i cebCap1.NW_016107590v1   C 0 C 0
s micMur3.chr12             60598127 34 + 108143057 CCTGCCTTTGAGAG--GCACTGCCAACTTTCTTAAG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3633675 34 +  11683526 CCTGCCTGTGAGAC--GCACTTCCAACTTTCTTAAA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3124027 34 +   4132165 CCTGCCTGTGAGAT--GCACTTCCAACTTTCTTAAG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55561283 34 +  90702639 TCTCTGAGAGGAAT--ATACTTTTCATTTTCCCAAG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14965079 25 +  74389097 ---------GGGAT--ACACTTCCAACTTTCTCAAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687779 33 +   3667625 GCTTTCTGTGGAAT--GCACTGCCAACTTTTCAAA-
i dasNov3.JH567306         C 0 C 0
e aotNan1.NW_018505940v1    13266560  2 -  42888418 I

a score=2713489.000000
s hg38.chr5_KI270796v1_alt    139923 182 +    172708 AAAAACATCAAAGAAACATATACCTATTTTTCTGCTTCAGAATCCACCAACATCATCTGAACTCAGCAAAGCCACAAAGCATAG--GATCTTC---CACA--CTGATTAAAACTTAGCT--AAGGAGG--TTATCACTACTGAATTCCA-TTCTACC--TGAAATTCTCTACATTTTGCATTCA-AATTTAAACATA
s panTro5.chr5             125243295 182 + 181907262 AAAAACATCAAAGAAACATATACCTATTTTTCTGCTTCAGAATCCACCAACATCATCTGAACTCAGCAAAGCCACAAAGCATAG--GATCTTC---CACA--CTGATTAAAACTTAGCT--AAGGAGG--TTATCACTACTGAATTCCA-TTCTACC--TGAAATTCTCTACATTTTGCATTCA-AATTTAAACATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580003 182 + 183735486 AAAAACATCAAAGAAACATATACCTATTTTTCTGCTTCAGAATCCACCAACATCATCTGAACTCAGCAAAGCCACAAAGCATAG--GATCTTC---CACA--CTGATTAAAACTTAGCT--AAGGAGG--TTATCACTACTGAATTCCA-TTCTACC--TGAAATTCTCTACATTTTGCATTCA-AATTTAAACATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771776 183 +   8933513 AAAAACATTAAAGAAACATATAACTATTTTTCTGCTTCAGAATCCACCAACATCATCTGAACTCAGCAAAGCCACAAAGCATAGGAGATCTTC---CACA--CTGATTAAAACTTAGCT--AAGGAGG--TTATCACTA-TGAATTCCA-TTCTACC--TGAAATTCTCTACATTTTGCATTCA-AATTTAAACATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906058 184 + 163208435 AAAAACATCAGAGAAACATATACCTATTTTTCTGCTTCAGAATCCACCAACATCATCTGAACTCAGCAAAGCCACAAAGCATAGGAGATCTTC---CACA--CTGATTAAAACTTAGCT--AAGGAGG--TTATTACTACTGAATTCCA-TTCTACC--TGAAATTCTCTACATTTTGCGTTCA-AGTTTAAACATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890751 184 + 180051392 AAAAATGTCAAAGAAACATATACCTATTTTCCTGCTTCAGAATCCAGCAACATCATCTGAACTCAGCAAAGCCACAAAGCGTAGGAGATCTTC---CACA--CTGATTAAAACTTAGCC--AAGGAGG--CTATTACTACTGAATTCCA-TTCTACC--TGAAATTCTCTATATTTTGCATTCA-AATGTAAACATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124314367 184 + 181584905 AAAAATGTCAAAGAAACATATACCTATTTTCCTGTTTCAGAATCCAGCAACATCATCTGAACTCAGCAAAGCCACAAAGCGTAGGAGATCTTC---CACA--CTGATTAAAACTTAGCC--AAGGAGG--CTATTACTACTGAATTCCA-TTCTACC--TGAAATTCTCTATATTTTGCATTCA-AATGTAAACATA
i macFas5.chr6             C 0 I 362
s macNem1.NW_012012355v1    16313035 184 +  18395747 AAAAATGTCAAAGAAACATATACCTATTTTCCTGCTTCAGAATCCAGCAACATCATCTGAACTCAGCAAAGCCACAAAGCATAGGAGATCTTC---CACA--CTGATTAAAACTTAGCC--AAGGAGG--CTATTACTACTGAATTCCA-TTCTACC--TGAAATTCTCTATATTTTGCATTCA-AATGTAAACATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5325799 184 +  26952557 AAAAACATCAAAGAAACATATACCTACTTTCCTGCTTCAGAATCCAGCAACATCATCTGAACTCAGCAAAGCCACAAAGCGTAGGAGATCTTC---CACA--CTGATTAAAACTTAGCC--AAGGAGG--CTATTACTACTGAATTCCA-TTCTACC--AGAAATTCTCTATATTTTGCATTCA-AATGTAAACATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426140 184 +  82825804 AAAAACATCAAAGAAACATATATCTATTTTCCTGCTTCAGAATCCAGCAACGTCATCTGAACTCAGCAAAGCCACAAAGCATAGGAGATCTCC---CACA--CTGACTAAAACTTAGCC--AAGGAGG--CTATTACTACTGAATTCCA-TTCTACC--TGAAATTCTCTATATTTTGCATTCA-AATGTAAACATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4096003 184 -   4237731 AAAAACATCAAAGAAACATATACCTACTTTTCTGCTTCAGAATCCAGCAACATCATCTGAACTCAGCAAAGCCACAAAGCGTAGGAGATCTTC---CACA--CTGATTAAAACTTAGCC--AAGGAGG--CTATTACTACTGAATTCCA-TTCTACC--AGAAATTCTCTATATTTTGCATTCA-AATGTAAACATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364518 183 -   1175262 AAAAACATCAAAGAAACATATACCTATTTTCCTGCTTCAGAATCCACCAACATCATCTGAACTCAGCAAA-CCACAAAGCGTAAGAGATCTTC---CACA--CTGATTAAAACTTAGCC--AAGGAGG--CTATTACTACTGAATTCCA-TTCTACC--TGAAATTCTCTATATTTTGCCTTCA-AATTTAAACATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719167 184 - 204313951 AAAAAAATCAAAGAAACATATACTGCCTTTCCTGCTTCAGAGTCCACCAACATCATCTGAACTCAGCAAAGCCACAAAAGATAGCAGATCTTC---CATA--CTGATTAAAACTTAGCT--AAGGAGA--CTATTGTCAGTGAATTCTA-TTCTACC--TGAAATTCTCTACATTTTGCAGTCa-aatttaaacata
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762797 184 -  71252344 TAAAAAATCAAAGAAACATATGCTGACTTTCCTGCTTCAGAGTCCACCAACATCATCTGAACTCAGCAAAGCCACAAAAGATAGGAGATCTTC---TACA--CTGATTAAAACTTACCT--AAGGAGA--CTACTGTTAGTGAATTCTA-TTCTACC--TGAAATTCTCTACATTTTGCATTCA-AATTTAAACATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66363 181 -   3089952 AAAAACATCAAAGAAACATATACTGACTTTCCTGCTTCAGAGTCCACCAA---CATCTGAACTGAGCAAAGCCATAAAAGATAGGAGAACTTC---CACA--CTGATTAAAACTTAGCT--AAGGAGA--CTATTGTTTGTGAATTCCA-TTCTACC--TGAAATTCTCTACATTTTGCATTCA-AATTTAAACATA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266562 184 -  42888418 AAAAACATCAAAGAAACATATACTGACTTTCCTGCTTCAGAGTCCACCAACATCATCTGAACTCAGCAAAGCCACAAAAGATAGGAGATCTTC---CACA--CTGATTAAAACTTAGCT--AAGGAGA--CTATTGTTAGTGAATTCTA-TTCTACC--TGAAATTCTCTACATTTTGCATTCA-AATTTAAACATA
i aotNan1.NW_018505940v1   I 2 C 0
s micMur3.chr12             60598161 188 + 108143057 AAAAACATCAAAGGAACATGTATCTCCTTTCCTGCTTTAGAATCTGCTGACA-CATCTGAATGCAATGAAGCCACAAAGCACAGAAGATCTTCTTTCACA--CTGATTAAAACTTAACT--AAGGAGACTCTGTAATTACTGAATTCCA-TTCTACT--TTAAATTCTCTTCACTTTGCATTCA-AATTTCAACATA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3633709 189 +  11683526 AAAAACATCAAAGGAACATGTATCTACTTTCCTGCTTTAGAATCTGCTGACATCATCTGAATGCAATGAAGCCACAAAGCATAGAAGATCTTCTTTCACA--CCGATTAAAACTTAACT--AAGGAGACTCTATAATTACTGAAATCCA-TTCTACT--TTAAATTCTCTTCACTTTGCATTCA-AATTTCAACATA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3124061 188 +   4132165 AAAAAATGTCAAGGAACATATATTTACTTTCCTACTTCAGAATCTGCTGATGTCAT-TGAGAGCATTGGGACCCCAGAGCCTCAGAGATCTTCTTCCACA--CTCTTTAAAACTT-ACT--AAGAAGACTCTATGATTCCTGAATTCCATTTTTACC--TTAAACTCTCTTCACTTTGCATTCA-AATTTCTACATA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55561317 180 +  90702639 AAAAACTTTCAAGATATCTATGGCACTGTATCTGCCTTTTACTCTGTGGACATCATCTGAATGCAGCAAAGCCACAAAGAACAC---ATCTGC---CACATGCAGGTTCAGA-----CC--AAAGAGACCCTGTAATTGCTGAGTTCCA-TTCAAGCTTTTACACTCTATACACTTTGCATTCA-AATTTAAACA--
i mm10.chr18               C 0 C 0
s canFam3.chr11             14965104 186 +  74389097 GAAAATATCAAAGGAACATGTATCTATTTTCCTGC-GCAGAATCTGCTGACATCATCTGAATACAATGAAACCACAAAAGGCAGATCTTTTTC---CACA--CTGATTAAAACTTAGCTAAAAGGAGA--CGGTAATTACTGAATTCCA-TCCTACC--TTAAATTTCCCACACTTTGCATTCAGAATTTAAACATA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687812 174 +   3667625 AAAAACATCAAAGGAACTTCTATCTTATTTGCTGCCTCAGAATCTGCTAACATCATCTGAGAGCAATGAAGCCACAAAAGGCAA-ATTTCTTC---CA-A--TGGAT----------CT--AAGGAGAAGCAATGACTACTGAATTCCA-TTCTCCA--TTAAATTCTATACACTTTACTTTCA-AATTTAAACATA
i dasNov3.JH567306         C 0 C 0

a score=21021.000000
s hg38.chr5_KI270796v1_alt    140105 1 +    172708 A
s panTro5.chr5             125243477 1 + 181907262 A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580185 1 + 183735486 A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771959 1 +   8933513 A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906242 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122890935 1 + 180051392 A
i rheMac8.chr6             C 0 I 370
s macFas5.chr6             124314913 1 + 181584905 A
i macFas5.chr6             I 362 I 2
s macNem1.NW_012012355v1    16313219 1 +  18395747 A
i macNem1.NW_012012355v1   C 0 I 370
s cerAty1.NW_012002512v1     5325983 1 +  26952557 A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426324 1 +  82825804 A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4096187 1 -   4237731 A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364701 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719351 1 - 204313951 a
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762981 1 -  71252344 A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66544 1 -   3089952 A
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266746 1 -  42888418 A
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60598349 1 + 108143057 A
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3633898 1 +  11683526 A
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3124249 1 +   4132165 A
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55561497 1 +  90702639 A
i mm10.chr18               C 0 C 0
s canFam3.chr11             14965290 1 +  74389097 A
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687986 1 +   3667625 A
i dasNov3.JH567306         C 0 C 0

a score=47407.000000
s hg38.chr5_KI270796v1_alt    140106 5 +    172708 ATATT
s panTro5.chr5             125243478 5 + 181907262 ATATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580186 5 + 183735486 ATATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771960 5 +   8933513 ATATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906243 5 + 163208435 ATATT
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124314916 5 + 181584905 AAACT
i macFas5.chr6             I 2 I 1
s cerAty1.NW_012002512v1     5325984 5 +  26952557 GTATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426325 5 +  82825804 GTATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4096188 5 -   4237731 GTATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364702 5 -   1175262 GTATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719352 5 - 204313951 atata
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762982 5 -  71252344 ATATG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66545 5 -   3089952 ATATG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266747 5 -  42888418 ATATG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60598350 5 + 108143057 ATATT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3633899 5 +  11683526 ATATT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3124250 5 +   4132165 ATTTT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55561498 5 +  90702639 AGATT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14965291 5 +  74389097 ATATT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687987 5 +   3667625 ATTTT
i dasNov3.JH567306         C 0 C 0
e macNem1.NW_012012355v1    16313220 370 +  18395747 I
e rheMac8.chr6             122890936 370 + 180051392 I

a score=445995.000000
s hg38.chr5_KI270796v1_alt    140111 28 +    172708 ATTTACAAAGCCATTAAAATATTCAAAT
s panTro5.chr5             125243483 28 + 181907262 ATTTACAAAGCCATTAAAATATTCAAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580191 28 + 183735486 ATTTACAAAGCCATTAAAATATTCAAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771965 28 +   8933513 ATTTACAAAGCCATTAAAATATTCAAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906248 28 + 163208435 ATTTACAAAGCCATTAAAATATTCAAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891306 28 + 180051392 ATTTACAAAGCCATTAAAATATTCAAAT
i rheMac8.chr6             I 370 C 0
s macFas5.chr6             124314922 28 + 181584905 ATTTACAAAGCCATTAAAATATTCAAAT
i macFas5.chr6             I 1 C 0
s macNem1.NW_012012355v1    16313590 28 +  18395747 ATTTACAAAGCCATTAAAATATTCAAAT
i macNem1.NW_012012355v1   I 370 C 0
s cerAty1.NW_012002512v1     5325989 28 +  26952557 ATTTACAAAGCCATTAAAATATTCAAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426330 28 +  82825804 ATTTACAAAGCCATTAAAATATTCAAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4096193 28 -   4237731 ATTTACAAAGCCATTAAAATATTCAAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364707 28 -   1175262 ATTTACAAAGCCATTAAAGTATTCAAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719357 28 - 204313951 atttacaaaactattaaaatattCAAAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55762987 28 -  71252344 ATTTACAAAACCATTAAAATATTCAAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66550 28 -   3089952 ATTTACAAAACAATTAAAATATTCAAAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266752 28 -  42888418 ATTTACAAAACTATTAAAATATTCAAAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60598355 28 + 108143057 ATTTACAAAAACATTGAAATATTCAAAT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3633904 28 +  11683526 ATTTACAAAAACATTGAAATATTCAAAT
i proCoq1.NW_012155062v1   C 0 I 110
s otoGar3.GL873679           3124255 27 +   4132165 ATTTATGCAAACACTGACATATGCAAA-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55561503 16 +  90702639 ATTTA-AGAGCCACTTA-----------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14965296 28 +  74389097 ATTTACAAAACCAGTGAACTGTTCAAAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2687992 28 +   3667625 ATTTGCAAAATCACTAAAATATTCAAAT
i dasNov3.JH567306         C 0 C 0

a score=1184496.000000
s hg38.chr5_KI270796v1_alt    140139 114 +    172708 GCTATTTATGT---------TCTCTTTTTCTCCTTCTAACATAGAAAC----AAAAATATTTAAAGTT-TTTGAAATTCAATCCAGTGGTGATTATTGAATTAAAACCATATTTAGAA----CTTTT-----A-AAAA
s panTro5.chr5             125243511 113 + 181907262 GCTATTTATGT---------TCTCTTTTTCTCCTTCTAACATAGAAAC----AAAAATATTTAAATTT-TTTGAAATTCAATCCAGTGATGATTATTGAATTAAAACC-TATTTAGAA----CTTTT-----T-AAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580219 113 + 183735486 GCTATTTATGT---------TCTCTTTTTCTCCTTCTAACATAGAAAC----AAAAATATTTAAATTT-TTTGAAATTCAATCCAGTGATGATTATTGAATTAAAACC-TATTTAGAA----CTTTT-----T-AAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1771993 114 +   8933513 GCTATTTATGT---------TCTCTTTTTCTCCTTCTAACATAGAAAC----AAAAATATTTAAATTT-TTTGAAATTCAATCCAGTGATGATTATTGGATTAAAACCATATTTAGAA----CTTTT-----T-AAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906276 111 + 163208435 GCTATCTATGT---------TCTCTTTTTCTCCTTCTAACATAGAAAC----AAAAATATTTAAATTT-TTTGAACTTCAATCCAG---TGATTATTGAATTAAAACCATATTTAGAA----CTTTT-----T-AAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891334 108 + 180051392 GCTATTTATGT---------TCTCTTTTTCTC---CTAACATAGAAAC----AAAAATATTTAATTTT-TTTGAAATTCAATCCAG---TGATTATTGAATTAAAACCATATTTAGAA----CTTTT-----T-AAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124314950 108 + 181584905 GCTATTTATGT---------TCTCTTTTTCTC---CTAACATAGAAAC----AAAAATATTTAATTTT-TTTGAAATTCAATCCAG---TGATTATTGAATTAAAACCATATTTAGAA----CTTTT-----T-AAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16313618 108 +  18395747 GCTATTTATGT---------TCTCTTTTTCTC---CTAACATAGAAAC----AAAAATATTTAATTTT-TTTGAAATTCAATCCAG---TGATTATTGAATTAAAACCATATTTAGAA----CTTTT-----T-AAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326017 108 +  26952557 GCTATTTATGT---------TCTCTTTTTCTC---CTAACATAGAAAC----AAAAATATTTAATTTT-TTTGAAATTCAATCCAG---TGATTATTGAATTAAAACCATATTTAGAA----CTTTT-----T-AAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426358 108 +  82825804 GCTATTTATGT---------TCTCTTTTTCTC---CTAACATAGAAAC----AAAAATGTTTAATTTT-TTTGAAATTCAATCCAG---TGATTATTAAATTAAAACCATATTTAGAA----CTTTT-----T-AAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4096221 108 -   4237731 GCTATTTATGT---------TCTCTTTTTCTC---CTAACATAGAAAC----AAAAATATTTAATTTT-TTTGAAATTCAATCCAG---TGATTATTGAATTAAAACCATATTTAGAA----CTTTT-----T-AAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364735 111 -   1175262 GCTATTGATGT---------TCTCTTTTTCTCCTTCTATCATAGAAAC----AAAAATATTTACTTTT-TTTGAAATTCAATCCAG---TGATTATTGAATTAAAACCATATTTAGAA----CCTTT-----T-CAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719385 115 - 204313951 ACAATGTATGT---------TCTCTTTTTCTCCTTCTAGCATAGAAAC----AAAAATCTTTAAAATT-TTTGAAATTCAATCTGGTGATGATTATTGAATTAAAACCGTATTTAGAA----CGTTT-----TAAAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763015 115 -  71252344 GCAACGTATGT---------TCTCTTTTTCTCCTTCTAACATAGAAAC----AAAAATCTTTAAAATT-TTTGAAATTCAGTCTGGTGATGATTATTGAATTAAGACCGTATTTAGAA----CATTT-----TTTAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66578 114 -   3089952 GCAATGTATGT---------TCTCTTTTTCTCCTTCTAACATAGAAAC----AAAAGTCTTTAAAATT-TTTGAAATTCAGTCTGGTGATGATTATTGAATTAAGACCGTATTTAGAA----CGTTT-----T-TAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266780 115 -  42888418 GCAATTTATGT---------TCTCTTTTTCTCCTTCTAACATAGAACC----AAAAATCTTTAAAATT-TTTGAAATTCAGTCTGGTGATGATTATTGAATTAAGACTGTATTTAGAA----CGTTT-----TTTAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60598383 113 + 108143057 ATAATTTATTT---------TC-ATTTTTCTCTTTCTAACATTGAAAC----AAAAATCTTTAAAATT-AAAAAAATTCAACCTGGTAATGATTATTGTATTAAAGCCACACTGAGAA----CAATTTTTCA------
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3124282 105 +   4132165 ----TATGTAT---------TC-ATTTTTC----TCCAACATCAAAACAAAAAAAAATCTCTAAAATTGAAAAAAATTAAACCTGGGAATGGTTGTTGGATTAAAGCCATACTTAGAA----CAATT-----------
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55561519  83 +  90702639 -----TTACTT---------CCACATCTTCCTCT-CTAACATGGCAAT-----------------------------TCAGTGTAATGACTGTAATTGGGAGAAACTCATACTTAAAA----TATTT-----T-CTC-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14965324 123 +  74389097 GCAACTTATTTCTCCTTCTCTCTCTCTCTCTCCCTCAAACATAAAAAC----AAAAATCTTTAGAATTCTTCAAAATTCAATCTGGTAATGATAATTGGGTTAAGATCACATTTAGAACAATCTTTT-----------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2688020 112 +   3667625 GCAATTTATGT---------TCCCTTTCTCTAGCTCTAACCATGAAAA----AAATCTTGACAACTTT-TTTGAAATTCTTTCTGGCAATGATTATTGGGTTAAAACCACACCTAGAA----CAATT-----T-TC--
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3633932 110 +  11683526 I

a score=870637.000000
s hg38.chr5_KI270796v1_alt    140253 55 +    172708 ATTTAGTAACA-TTTTCTATTTCTGTTTTACAATCAAGAAGTCCAGAATGGGAAAA
s panTro5.chr5             125243624 55 + 181907262 ATTTAGTAACA-TTTTCTATTTCTGTTTTACAATCAAGAAGTCCAGAACGGGAAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580332 55 + 183735486 ATTTAGTAACA-TTTTCTATTTCTGTTTTACAATCAAGAAGTCCAGAACGGGAAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772107 55 +   8933513 ATTTAGTAACA-TTTTCTATTTCTGTTTTACAATCAAGAAGTCCAGAATGGGAAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906387 55 + 163208435 ATTTAGTAACA-TTTTCTATTTCTGTTTTACAATCAAGAAGTCCAGAATGGGAAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891442 55 + 180051392 ATTTAGTAACA-TTTTCTATTTCTGTTTTACAATCAAGAAGTCCAGAATGGGAAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315058 55 + 181584905 ATTTAGTAACA-TTTTCTATTTCTGTTTTACAATCAAGAAGTCCAGAATGGGAAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16313726 55 +  18395747 ATTTAGTAACA-TTTTCTATTTCTGTTTTACAATCAAGAAGTCCAGAATGGGAAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326125 55 +  26952557 ATTTAGTAACA-TTTTCTATTTCTGTTTTACAATCAAGAAGTCCAGAATGGGAAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426466 55 +  82825804 ATGTAGTAACA-TTTTCTATTTCTGTTTTACAATCAAGAAGTCCGGAATGGGAAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4096329 55 -   4237731 ATTTAGTAACA-TTTTCTATTTCTGTTTTACAATCAAGAAGTCCAGAATGGGAAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364846 55 -   1175262 ATTTAGTAACA-TTTTCTATTTCTGTTTTACAATCAAGAAATCCAGAATGGGAAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719500 55 - 204313951 ATTTAGTAACA-TTTTCTATTTCTGTTTTACAATCAAGATGCTCAGAATGGGAAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763130 55 -  71252344 ATTTAGGAACG-TTTTCTATTTTTGTTTTACTATCAAGATGTTCAGAATGGGAAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66692 54 -   3089952 ATTTAGTAACA-TTTTCTATTTCTGTTTTACAATC-AGATGTTCAGAATGGGAAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266895 55 -  42888418 ATTTAGTAACA-TTTTCTATTTCTGTTTTACAATCAAGATGTTCAGAATGGGAAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60598496 54 + 108143057 -TTTAGAAATA-TTTCCCATTTCTGTTTAACAATCCAGAAGTCCAAAATGGGAAAA
i micMur3.chr12            C 0 I 40
s proCoq1.NW_012155062v1     3634042 55 +  11683526 ATTTAGAAATA-TTTCCCATTTCTGTTTAACAATCTAGGAGTCCAAAATGGGAAAA
i proCoq1.NW_012155062v1   I 110 I 59
s otoGar3.GL873679           3124387 53 +   4132165 ATTTAGAAACATTTTTCCATTTCTCTTTAACAATCCAAAAGACCAGAATGGGA---
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55561602 55 +  90702639 ACTTAGGCCTA-GTTCTTGGTTTTGTTTGATTGCCCCAAAACCCACAATGAGAAGT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14965447 55 +  74389097 ATTGAGAAATG-TTTCCTATTTCTCTTTGACAGTGCAGAAGTCCAAAATGGATAAA
i canFam3.chr11            C 0 I 5
s dasNov3.JH567306           2688132 54 +   3667625 ATTTAGAAACA-TTTTCTATTTCTGCTTGACAA-CTACAAGTCCAGAATGGAGGAA
i dasNov3.JH567306         C 0 C 0

a score=155155.000000
s hg38.chr5_KI270796v1_alt    140308 55 +    172708 TAAGt-----tttttttttttttttttttttcttAAAGAAAAAAA-----------CCAA--------CAAAGCATATA-----
s panTro5.chr5             125243679 50 + 181907262 TAAGT-----TGTTTTTTTTTTTTTT-----CTTAAAGAAAAAAA-----------CCAA--------CAAAGCATATA-----
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580387 47 + 183735486 TAAGT-----TGTTTTTTTTTTT--------CTTAAAGAAAAAAA-----------CCAA--------CAAAGCATATA-----
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772162 49 +   8933513 TAAGT-----TGTTGTTTTTTTTT-------CTTAAAGAAAAAAAG----------CCAA--------CAAAGCATATA-----
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906442 46 + 163208435 TAAGT-----TGGTTTTTTTTT---------CTTAAAGAAAAAAA-----------CCAA--------CAAAACATATA-----
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891497 39 + 180051392 TAAG---------TTTTTTTTT---------CTTAAAGAAAAAAA------------CAA--------CAAAAC--ATA-----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315113 40 + 181584905 TAAGT--------TTTTTTTTT---------CTTAAAGAAAAAAA------------CAA--------CAAAAC--ATA-----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16313781 40 +  18395747 TAAGT--------TTTTTTTTT---------CTTAAAGAAAAAAA------------CAA--------CAAAAC--ATA-----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326180 39 +  26952557 TAAG---------TTTTTTTTT---------CTTAAAGAAAAAAA------------CAA--------CAAAAC--ATA-----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426521 39 +  82825804 TAAG---------TTTTTTTTT---------CTTAAAGAAAACAA------------CAA--------CAAAAC--ATA-----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4096384 39 -   4237731 TAAG---------TTTCTTTTT---------CTTAAAGAAAAAAA------------CAA--------CAAAGC--ATA-----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364901 40 -   1175262 TAAGT--------TTTTTTTTT---------CTTAAAGAAAAAAA------------CAA--------CAAAAC--ATA-----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719555 44 - 204313951 TAAAG------TTTTTTTCTTC---------TCAAAAAAACAAAA------------CAA--------CAAAACACATA-----
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763185 50 -  71252344 TGAAGTGTTTTTTTTTTTTTTC---------CTCAAAAAACAAAA------------CAA--------CAAAACACATA-----
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66746 49 -   3089952 TAAAG-TTTTGTGTTTTTTTTC---------CTCAAAAAACAAAA------------CAA--------CAAAACACATA-----
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266950 44 -  42888418 TGAAG------TTTTTTTTTTT---------CTCAAAAAACAAAA------------CAA--------CAAAACACATA-----
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3124440 35 +   4132165 --------------------------------TTGAAAAGAAAAA------------CAAAAGCAAACCAAGGAATATA-----
i otoGar3.GL873679         C 0 I 2
s mm10.chr18                55561657 26 +  90702639 ---------------------------------TGGAAATAAAAA------------CAA--------CTGATAATATA-----
i mm10.chr18               C 0 I 2
s canFam3.chr11             14965507 41 +  74389097 ----------------------------CAAGTTGGAGAAAAAGAAAAAAAGCAACTCCA--------CAAAAC--ATG-----
i canFam3.chr11            I 5 I 2
s dasNov3.JH567306           2688186 30 +   3667625 ----------------------------------GGAGTTGAAAA------------AAA--------AAAAACCTACAGTATT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60598550 40 + 108143057 I
e proCoq1.NW_012155062v1     3634097 59 +  11683526 I

a score=270497.000000
s hg38.chr5_KI270796v1_alt    140363 19 +    172708 TGGGCCTTCGGAGAAAACA
s panTro5.chr5             125243729 19 + 181907262 TGGGCCTTCTGAGAAAACA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580434 19 + 183735486 TGGGCCTTCTGAGAAAACA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772211 19 +   8933513 TGGGCCTTCTGAGAAAATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906488 19 + 163208435 TGGGCCTTCTGAGAAAATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891536 19 + 180051392 TGGGCCTTCTGAGAAAACA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315153 19 + 181584905 TGGGCCTTCTGAGAAAACA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16313821 19 +  18395747 TGGGCCTTCTGAGAAAACA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326219 19 +  26952557 TGGGCCTTCTGAGAAAACA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426560 19 +  82825804 TGGGCCTTCTGAGAAAACA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4096423 19 -   4237731 TGGGCCTTCTGAGAAAACA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364941 19 -   1175262 TGGGCCTTCTGAGAAAACA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719599 19 - 204313951 TGGGTCTTCTGGGAAGATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763235 19 -  71252344 TGGGTCTTCTGGGAAGATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66795 19 -   3089952 TGGGTCTTCTGGGAAGATA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13266994 19 -  42888418 TGGGTCTTCTGGGAAGATA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60598590 19 + 108143057 TGGGCCTTTTGGGAAAATT
i micMur3.chr12            I 40 C 0
s otoGar3.GL873679           3124477 19 +   4132165 TGGCCTTTTTGATAAAATT
i otoGar3.GL873679         I 2 C 0
s mm10.chr18                55561685 19 +  90702639 TGGGCATTTTGAGAACATT
i mm10.chr18               I 2 C 0
s canFam3.chr11             14965550 19 +  74389097 TGCGGCTTTTGAGAAAATT
i canFam3.chr11            I 2 C 0
s dasNov3.JH567306           2688216 19 +   3667625 GGAGTCTTTTGAGAAAATC
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3634097 59 +  11683526 I

a score=1553549.000000
s hg38.chr5_KI270796v1_alt    140382 104 +    172708 GCCTTAGTGTCCTTATTTATGAAGAATTTTTTTGAAAGAAAATGGTAGGAAACCCTAA--------ATGATAATTTGATCTTCAGGCTGTCAACTAACTCTGCCCAGACTAT
s panTro5.chr5             125243748 104 + 181907262 GCCTTAGTGTCCTTATTTATGAAGAATTTTTTTGAAAGAAAATGGTAGGAAACCCTAA--------ATGATAATTTGATCTTCAGGCTGTCAACTAACTCTGCCCAGACTAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580453 104 + 183735486 GCCTTAGTGTCCTTATTTATGAAGAATTTTTTTGAAAGAAAATGGTAGGAAACCCTAA--------ATGATAATTTGATCTTCAGGCTGTCAACTAACTCTGCCCAGACTAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772230 104 +   8933513 GCCTTAGTATCCTTATTTATGAAGAATTTTTTTGAAAGAAAATGGTAGGAAACCCTAA--------ATGATAATTTGATCTTCAGGCTGTCAACTAACTCTGCCCAGACTAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906507 104 + 163208435 GCCTTAGTATCCTTATTTATGAAGAATTTTTTTGAAAGAAAATGGTAGGAAACCCTAG--------ATGATAATTTGATTTTCAGGCTGTCAACTAACTCTGCCCAGACTAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891555 112 + 180051392 GCCTTAGTATCCTTATTTATGAAGAATTTTTTTGGAAGAAAATGGTAGGAAACCCTAAATGATAATATGATAATTTGATCTTCAGGCTGTCAACTAACTCTGCCTAGACTCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315172 112 + 181584905 GCCTTAGTATCCTTATTTATGAAGAATTTTTTTGGAAGAAAACGGTAGGAAACCCTAAATGATAATATGATAATTTGATCTTCAGGCTGTCAACTAACTCTGCCTAGACTCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16313840 112 +  18395747 GCCTTAGTATCCTTATTTATGAAGAATTTTTTTGGAAGAAAACGGTAGGAAACCCTAAATGATAATATGATAATTTGATCTTCAGGCTGTCAACTAACTCTGCCTAGACTCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326238 112 +  26952557 GCCTTAGTATCCTTATTTATGAAGAATTTTTTTGGAAGAAAACGGTAGGAAACCCTAAATGATAATATGATAATTTGATCTTCAGGCTGTCAACTAACTCTGCCTAGACTAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426579 112 +  82825804 GCCTTAGTATCCTTATTTATGAAGAATTTTTTTGGAAGAAAACGGTAGGAAACCCTAAATGATAATATGATAATTTGATCTTCAGGCTGTCAACTAACTCTGCCTAGACTAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4096442 112 -   4237731 GCCTTAGTATCCTTATTTATGAAGAATTTTTTTGGAAGAAAACGGTAGGAAACCCTAAATGATAATATGATAATTTGATCTTCAGGCTGTCAACTAACTCTGCCTAGACTAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      364960 112 -   1175262 GCCTTAGTATCCTTATTTATGAAGAATTTTTTTGGAAGAAAACGGTAGGAAACCCTAAATGATAATATGATAATTTGATCTTCAGGCTGTCAACTAACTCTGCCCAGACTAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719618 104 - 204313951 GCCTTACTATCCTTATTTATGAATAATTTTTTTGAAAGAAAACAGTAGCAAACTCTAA--------ATGATAATTTGATCTTCAGGCTGTCAACTAACTCTGTCCAGACTAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763254 103 -  71252344 GCCTTACTATCCTTATTTATGAATAATTTTTTTG-AAGGAAACAGTAGCAAACTCTAA--------ATGATAATTTGATCTTCAGGCTATCAACTAACTCTGCCCAGACTAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66814 104 -   3089952 GCCTTACTATCCTTATTTATGAATAATTTTTTTGAAGGAAAACAGTAGCAAACTCTAA--------ATGATAATTTGATCTTCAGGCTGTGAACTAACTCTGCCCAGACTAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13267013 103 -  42888418 GCCTTACTATCCTTATTTATGAAT-TTTTTTTTGAAAGAAAACAATAGCAAACTCTAA--------ATGATAATTTGATCTTCAGGCTATTAGCTAACTCTGCCCAGACTAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60598609 104 + 108143057 GCTTTAATATCCTTATTTATGAAGCAGTTTTTTGAAAGAAAAGGGTAGGAAACCCTAA--------ATGATAATTTGCTTTTGGGGCTATCAATTAACTCTGCCCAGACTAT
i micMur3.chr12            C 0 I 80
s proCoq1.NW_012155062v1     3634156 104 +  11683526 GCCTTAATATCCTTATTTATGAAGAAGTTTTTTGAAAGAAAAGGATAGGAAACTCTAA--------ATGATAATTTGCTTTGGAGGCTATCAATTAACTCTGCCCAGATTAT
i proCoq1.NW_012155062v1   I 59 I 81
s otoGar3.GL873679           3124496 101 +   4132165 GCCTTAATATCCTTATTTAGGAAGATGATTTTT--AAAGAAAGGGTA-GAAACCCTAA--------ATGGTAATTGGCTTTTGAGACTATCAATTAACTCTGCCCAGATTAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55561704  92 +  90702639 GCCTGGGTATCCATATTTGT--------TTTTAAAACATCAAAACCAAGATACCTACA----------GGTAATATTCTCTTCAGGCAATCAGCTAA--CTACTCAAACTAA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14965569 101 +  74389097 GCCTTGGGGTTCttatttatttattaagattt---aaaaaaatGGTAGGAAACTCTAA--------TTGATGATTTGCTTTTCAGGATATGAGTGAATTCTGACCAGACTAC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2688235 103 +   3667625 ATCTTGGTTGGCTTATTTCTTAAGAA-TTTTTTGAAAGAAAAATGTAGTAAACAATAA--------ATGATAATTTGCTTTACAGACTGTTAGCTAACTCTGCTCAGGCTAT
i dasNov3.JH567306         C 0 C 0

a score=25534.000000
s hg38.chr5_KI270796v1_alt    140486 2 +    172708 CT
s panTro5.chr5             125243852 2 + 181907262 CT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580557 2 + 183735486 CT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772334 2 +   8933513 CT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906611 2 + 163208435 CT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891667 2 + 180051392 CT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315284 2 + 181584905 CT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16313952 2 +  18395747 CT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326350 2 +  26952557 CT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426691 2 +  82825804 CT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4096554 2 -   4237731 CT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365072 2 -   1175262 CT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719722 2 - 204313951 CT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763357 2 -  71252344 CC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66918 2 -   3089952 CT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13267116 2 -  42888418 CT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3124597 2 +   4132165 TT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55561796 2 +  90702639 TT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14965670 2 +  74389097 TT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2688338 2 +   3667625 TT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60598713 80 + 108143057 I
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I

a score=23856.000000
s hg38.chr5_KI270796v1_alt    140488 2 +    172708 TT
s panTro5.chr5             125243854 2 + 181907262 TT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580559 2 + 183735486 TT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772336 2 +   8933513 TT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906613 2 + 163208435 TT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891669 2 + 180051392 TT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315286 2 + 181584905 TT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16313954 2 +  18395747 TT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326352 2 +  26952557 TT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426693 2 +  82825804 TT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4096556 2 -   4237731 TT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365074 2 -   1175262 TT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719724 2 - 204313951 TC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763359 2 -  71252344 TC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66920 2 -   3089952 TC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13267118 2 -  42888418 TC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3124599 2 +   4132165 TT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55561798 2 +  90702639 TT
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2688340 2 +   3667625 TT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60598713 80 + 108143057 I
e canFam3.chr11             14965672 0 +  74389097 C
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I

a score=12000.000000
s hg38.chr5_KI270796v1_alt    140490 1 +    172708 C
s panTro5.chr5             125243856 1 + 181907262 C
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580561 1 + 183735486 C
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772338 1 +   8933513 C
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906615 1 + 163208435 C
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891671 1 + 180051392 C
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315288 1 + 181584905 C
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16313956 1 +  18395747 C
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326354 1 +  26952557 C
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426695 1 +  82825804 C
i chlSab2.chr23            C 0 I 46
s manLeu1.NW_012103321v1     4096558 1 -   4237731 C
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365076 1 -   1175262 C
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719726 1 - 204313951 C
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763361 1 -  71252344 C
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66922 1 -   3089952 C
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13267120 1 -  42888418 C
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60598713 80 + 108143057 I
e canFam3.chr11             14965672 0 +  74389097 C
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I
e otoGar3.GL873679           3124601 0 +   4132165 C
e dasNov3.JH567306           2688342 0 +   3667625 C
e mm10.chr18                55561800 0 +  90702639 C

a score=9555.000000
s hg38.chr5_KI270796v1_alt    140491 1 +    172708 a
s panTro5.chr5             125243857 1 + 181907262 a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580562 1 + 183735486 A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772339 1 +   8933513 a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906616 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891672 1 + 180051392 A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315289 1 + 181584905 A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16313957 1 +  18395747 A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326355 1 +  26952557 A
i cerAty1.NW_012002512v1   C 0 C 0
s manLeu1.NW_012103321v1     4096559 1 -   4237731 A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365077 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719727 1 - 204313951 A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763362 1 -  71252344 A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66923 1 -   3089952 A
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13267121 1 -  42888418 A
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60598713 80 + 108143057 I
e canFam3.chr11             14965672 0 +  74389097 C
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I
e chlSab2.chr23             28426696 46 +  82825804 I
e otoGar3.GL873679           3124601 0 +   4132165 C
e dasNov3.JH567306           2688342 0 +   3667625 C
e mm10.chr18                55561800 0 +  90702639 C

a score=4267.000000
s hg38.chr5_KI270796v1_alt    140492 2 +    172708 tt
s panTro5.chr5             125243858 2 + 181907262 tt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580563 2 + 183735486 GT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772340 2 +   8933513 tt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906617 2 + 163208435 TT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891673 2 + 180051392 TA
i rheMac8.chr6             C 0 C 0
s macNem1.NW_012012355v1    16313958 2 +  18395747 TA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326356 2 +  26952557 TA
i cerAty1.NW_012002512v1   C 0 C 0
s manLeu1.NW_012103321v1     4096560 2 -   4237731 TA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365078 2 -   1175262 TA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719728 2 - 204313951 TT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763363 2 -  71252344 TT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       66924 2 -   3089952 TT
i cebCap1.NW_016107590v1   C 0 I 88
s aotNan1.NW_018505940v1    13267122 2 -  42888418 TT
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60598713 80 + 108143057 I
e canFam3.chr11             14965672 0 +  74389097 C
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I
e chlSab2.chr23             28426696 46 +  82825804 I
e macFas5.chr6             124315290 0 + 181584905 C
e otoGar3.GL873679           3124601 0 +   4132165 C
e dasNov3.JH567306           2688342 0 +   3667625 C
e mm10.chr18                55561800 0 +  90702639 C

a score=18185.000000
s hg38.chr5_KI270796v1_alt    140494 4 +    172708 tata
s panTro5.chr5             125243860 4 + 181907262 tata
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580565 4 + 183735486 tata
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772342 4 +   8933513 tata
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906619 4 + 163208435 TATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891675 4 + 180051392 TATA
i rheMac8.chr6             C 0 C 0
s macNem1.NW_012012355v1    16313960 4 +  18395747 TATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326358 4 +  26952557 TATA
i cerAty1.NW_012002512v1   C 0 C 0
s manLeu1.NW_012103321v1     4096562 4 -   4237731 TATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365080 4 -   1175262 TATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719730 4 - 204313951 AACa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763365 4 -  71252344 AACa
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13267124 4 -  42888418 GACa
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60598713 80 + 108143057 I
e canFam3.chr11             14965672 0 +  74389097 C
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I
e chlSab2.chr23             28426696 46 +  82825804 I
e macFas5.chr6             124315290 0 + 181584905 C
e otoGar3.GL873679           3124601 0 +   4132165 C
e cebCap1.NW_016107590v1       66926 88 -   3089952 I
e dasNov3.JH567306           2688342 0 +   3667625 C
e mm10.chr18                55561800 0 +  90702639 C

a score=15587.000000
s hg38.chr5_KI270796v1_alt    140498 3 +    172708 tat
s panTro5.chr5             125243864 3 + 181907262 tat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580569 3 + 183735486 tat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772346 3 +   8933513 tat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906623 3 + 163208435 tgt
i nomLeu3.chr2             C 0 C 0
s macNem1.NW_012012355v1    16313964 3 +  18395747 tgt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326362 3 +  26952557 TAt
i cerAty1.NW_012002512v1   C 0 C 0
s manLeu1.NW_012103321v1     4096566 3 -   4237731 TAt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365084 3 -   1175262 TAT
i colAng1.NW_012119644v1   C 0 I 50
s calJac3.chr2             123719734 3 - 204313951 tat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763369 3 -  71252344 tat
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13267128 3 -  42888418 tat
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60598713 80 + 108143057 I
e canFam3.chr11             14965672 0 +  74389097 C
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I
e chlSab2.chr23             28426696 46 +  82825804 I
e macFas5.chr6             124315290 0 + 181584905 C
e rheMac8.chr6             122891679 0 + 180051392 C
e otoGar3.GL873679           3124601 0 +   4132165 C
e cebCap1.NW_016107590v1       66926 88 -   3089952 I
e dasNov3.JH567306           2688342 0 +   3667625 C
e mm10.chr18                55561800 0 +  90702639 C

a score=-298.000000
s hg38.chr5_KI270796v1_alt    140501  6 +    172708 gtg-------------------------------------------------------------tgt
s panTro5.chr5             125243867  6 + 181907262 gtg-------------------------------------------------------------tgt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580572  6 + 183735486 gtg-------------------------------------------------------------tgt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772349  6 +   8933513 gtg-------------------------------------------------------------tgt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906626 67 + 163208435 gtgtgtgtgtgtgtgtgtgtgtgtgtgtgtatatatatgtgtatatatgaagtgtatatatatatgt
i nomLeu3.chr2             C 0 C 0
s macNem1.NW_012012355v1    16313967  6 +  18395747 gtg-------------------------------------------------------------tgt
i macNem1.NW_012012355v1   C 0 I 24
s cerAty1.NW_012002512v1     5326365  6 +  26952557 gtg-------------------------------------------------------------tgt
i cerAty1.NW_012002512v1   C 0 I 38
s manLeu1.NW_012103321v1     4096569  6 -   4237731 gtg-------------------------------------------------------------tgt
i manLeu1.NW_012103321v1   C 0 I 26
s calJac3.chr2             123719737  6 - 204313951 ata-------------------------------------------------------------tat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763372  6 -  71252344 ata-------------------------------------------------------------tat
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13267131  6 -  42888418 ata-------------------------------------------------------------tat
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60598713 80 + 108143057 I
e canFam3.chr11             14965672  0 +  74389097 C
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I
e chlSab2.chr23             28426696 46 +  82825804 I
e macFas5.chr6             124315290  0 + 181584905 C
e rheMac8.chr6             122891679  0 + 180051392 C
e otoGar3.GL873679           3124601  0 +   4132165 C
e cebCap1.NW_016107590v1       66926 88 -   3089952 I
e dasNov3.JH567306           2688342  0 +   3667625 C
e mm10.chr18                55561800  0 +  90702639 C
e colAng1.NW_012119644v1      365087 50 -   1175262 I

a score=18676.000000
s hg38.chr5_KI270796v1_alt    140507 8 +    172708 atatatat
s panTro5.chr5             125243873 8 + 181907262 atatatat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580578 8 + 183735486 atatatat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772355 8 +   8933513 atatatat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906693 8 + 163208435 atatatat
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123719743 8 - 204313951 atatatat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763378 8 -  71252344 atatacac
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13267137 8 -  42888418 atatatat
i aotNan1.NW_018505940v1   C 0 I 106
e micMur3.chr12             60598713 80 + 108143057 I
e canFam3.chr11             14965672 0 +  74389097 C
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I
e manLeu1.NW_012103321v1     4096575 26 -   4237731 I
e chlSab2.chr23             28426696 46 +  82825804 I
e cerAty1.NW_012002512v1     5326371 38 +  26952557 I
e macNem1.NW_012012355v1    16313973 24 +  18395747 I
e macFas5.chr6             124315290 0 + 181584905 C
e rheMac8.chr6             122891679 0 + 180051392 C
e otoGar3.GL873679           3124601 0 +   4132165 C
e cebCap1.NW_016107590v1       66926 88 -   3089952 I
e dasNov3.JH567306           2688342 0 +   3667625 C
e mm10.chr18                55561800 0 +  90702639 C
e colAng1.NW_012119644v1      365087 50 -   1175262 I

a score=15136.000000
s hg38.chr5_KI270796v1_alt    140515 13 +    172708 gaaatgtatatat
s panTro5.chr5             125243881 13 + 181907262 gaaatgtatatat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580586 13 + 183735486 gaaatgtatatat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772363 13 +   8933513 gaaatgtatatat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906701 13 + 163208435 gaagtgtatatat
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123719751 10 - 204313951 ---atatattttt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763386 10 -  71252344 ---acacatatat
i saiBol1.JH378106         C 0 I 70
e micMur3.chr12             60598713 80 + 108143057 I
e canFam3.chr11             14965672  0 +  74389097 C
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I
e manLeu1.NW_012103321v1     4096575 26 -   4237731 I
e chlSab2.chr23             28426696 46 +  82825804 I
e cerAty1.NW_012002512v1     5326371 38 +  26952557 I
e macNem1.NW_012012355v1    16313973 24 +  18395747 I
e macFas5.chr6             124315290  0 + 181584905 C
e rheMac8.chr6             122891679  0 + 180051392 C
e otoGar3.GL873679           3124601  0 +   4132165 C
e aotNan1.NW_018505940v1    13267145 106 -  42888418 I
e cebCap1.NW_016107590v1       66926 88 -   3089952 I
e dasNov3.JH567306           2688342  0 +   3667625 C
e mm10.chr18                55561800  0 +  90702639 C
e colAng1.NW_012119644v1      365087 50 -   1175262 I

a score=8225.000000
s hg38.chr5_KI270796v1_alt    140528 13 +    172708 gtata--tatgaa----at
s panTro5.chr5             125243894 13 + 181907262 gtata--tatgaa----at
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580599 13 + 183735486 gtata--tatgaa----at
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772376 13 +   8933513 gtata--tatgaa----at
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906714 19 + 163208435 gtatatctatgaaatgtat
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123719761 13 - 204313951 ttttt--tttgag----at
i calJac3.chr2             C 0 I 77
e micMur3.chr12             60598713 80 + 108143057 I
e canFam3.chr11             14965672  0 +  74389097 C
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I
e manLeu1.NW_012103321v1     4096575 26 -   4237731 I
e chlSab2.chr23             28426696 46 +  82825804 I
e cerAty1.NW_012002512v1     5326371 38 +  26952557 I
e macNem1.NW_012012355v1    16313973 24 +  18395747 I
e macFas5.chr6             124315290  0 + 181584905 C
e rheMac8.chr6             122891679  0 + 180051392 C
e otoGar3.GL873679           3124601  0 +   4132165 C
e aotNan1.NW_018505940v1    13267145 106 -  42888418 I
e cebCap1.NW_016107590v1       66926 88 -   3089952 I
e dasNov3.JH567306           2688342  0 +   3667625 C
e mm10.chr18                55561800  0 +  90702639 C
e saiBol1.JH378106          55763396 70 -  71252344 I
e colAng1.NW_012119644v1      365087 50 -   1175262 I

a score=31184.000000
s hg38.chr5_KI270796v1_alt    140541 90 +    172708 atatatgtgtatatatgaaatatatatgtgtatatatgaaatatatatgtgtatatatgcatatatgaaatacatatgtgtatatataag
s panTro5.chr5             125243907 50 + 181907262 atatatgtgtatatatg--------------------------------------tat--atatatgaaatatatatgtgtatatataag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580612 50 + 183735486 atatatgtgtatatatg--------------------------------------tat--acatatgaaatatatatgtgtatatataag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772389 50 +   8933513 atatatgtgtatatatg--------------------------------------tat--atatattaaatatatatgtgtatatataag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906733 86 + 163208435 atatatgtatatatatgaaatgtatatacgtatatactatatatgtgtatatatgtat--atttatgaaatatata--tgtatatataag
i nomLeu3.chr2             C 0 C 0
e micMur3.chr12             60598713 80 + 108143057 I
e canFam3.chr11             14965672  0 +  74389097 C
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I
e manLeu1.NW_012103321v1     4096575 26 -   4237731 I
e chlSab2.chr23             28426696 46 +  82825804 I
e cerAty1.NW_012002512v1     5326371 38 +  26952557 I
e macNem1.NW_012012355v1    16313973 24 +  18395747 I
e macFas5.chr6             124315290  0 + 181584905 C
e rheMac8.chr6             122891679  0 + 180051392 C
e otoGar3.GL873679           3124601  0 +   4132165 C
e aotNan1.NW_018505940v1    13267145 106 -  42888418 I
e cebCap1.NW_016107590v1       66926 88 -   3089952 I
e dasNov3.JH567306           2688342  0 +   3667625 C
e mm10.chr18                55561800  0 +  90702639 C
e saiBol1.JH378106          55763396 70 -  71252344 I
e calJac3.chr2             123719774 77 - 204313951 I
e colAng1.NW_012119644v1      365087 50 -   1175262 I

a score=11340.000000
s hg38.chr5_KI270796v1_alt    140631 30 +    172708 tgtatatatgtgtgtatatgtgtg------------------tgtgtg
s panTro5.chr5             125243957 16 + 181907262 tgtatatatgtgtgt--------------------------------g
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580662 48 + 183735486 tgtatatatgtgtgtatatatgtgtatatataagtgtatatatgtgtg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772439 15 +   8933513 tatatatatgtgcat---------------------------------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906819 30 + 163208435 tatatatatgtgtatatatacctg------------------tgtgtg
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124315290 30 + 181584905 TATATATAtgtgtgtgtgtgtgtg------------------tgtgtg
i macFas5.chr6             C 0 C 0
e micMur3.chr12             60598713 80 + 108143057 I
e canFam3.chr11             14965672  0 +  74389097 C
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I
e manLeu1.NW_012103321v1     4096575 26 -   4237731 I
e chlSab2.chr23             28426696 46 +  82825804 I
e cerAty1.NW_012002512v1     5326371 38 +  26952557 I
e macNem1.NW_012012355v1    16313973 24 +  18395747 I
e rheMac8.chr6             122891679  0 + 180051392 C
e otoGar3.GL873679           3124601  0 +   4132165 C
e aotNan1.NW_018505940v1    13267145 106 -  42888418 I
e cebCap1.NW_016107590v1       66926 88 -   3089952 I
e dasNov3.JH567306           2688342  0 +   3667625 C
e mm10.chr18                55561800  0 +  90702639 C
e saiBol1.JH378106          55763396 70 -  71252344 I
e calJac3.chr2             123719774 77 - 204313951 I
e colAng1.NW_012119644v1      365087 50 -   1175262 I

a score=40001.000000
s hg38.chr5_KI270796v1_alt    140661 55 +    172708 --------------tatgtgtgtgtgtgtgtgtgtgtgtgtatatatatatatatatatatatatataC
s panTro5.chr5             125243973 42 + 181907262 --------------tatatgtgtgtgtgtgtgtgtgtgtgtatatatatatatata-------------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580710 42 + 183735486 --------------tatatatgtgtgtgcgtgtgtatgtgtgtgtatatatatata-------------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772454 37 +   8933513 -------------------atatatgtgtgtgtgtgtgtataaatatatatatata-------------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906849 38 + 163208435 --------------tatatatgtgtgtgtgtgtgtgtgtgtgtgtATATATA-----------------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891679 55 + 180051392 TAtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtttgtgtAT--------------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315320 32 + 181584905 --------------tgtgtgtgtgtgtgtgtgtgtgtgtgtgtATA-----------------------
i macFas5.chr6             C 0 C 0
e micMur3.chr12             60598713 80 + 108143057 I
e canFam3.chr11             14965672  0 +  74389097 C
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I
e manLeu1.NW_012103321v1     4096575 26 -   4237731 I
e chlSab2.chr23             28426696 46 +  82825804 I
e cerAty1.NW_012002512v1     5326371 38 +  26952557 I
e macNem1.NW_012012355v1    16313973 24 +  18395747 I
e otoGar3.GL873679           3124601  0 +   4132165 C
e aotNan1.NW_018505940v1    13267145 106 -  42888418 I
e cebCap1.NW_016107590v1       66926 88 -   3089952 I
e dasNov3.JH567306           2688342  0 +   3667625 C
e mm10.chr18                55561800  0 +  90702639 C
e saiBol1.JH378106          55763396 70 -  71252344 I
e calJac3.chr2             123719774 77 - 204313951 I
e colAng1.NW_012119644v1      365087 50 -   1175262 I

a score=13467.000000
s hg38.chr5_KI270796v1_alt    140716 3 +    172708 ACA
s panTro5.chr5             125244015 2 + 181907262 -CA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580752 2 + 183735486 -CA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772491 2 +   8933513 -CA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906887 2 + 163208435 -CA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891734 3 + 180051392 ACA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315352 2 + 181584905 -CA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16313997 3 +  18395747 ACA
i macNem1.NW_012012355v1   I 24 C 0
s cerAty1.NW_012002512v1     5326409 3 +  26952557 ACA
i cerAty1.NW_012002512v1   I 38 C 0
s chlSab2.chr23             28426742 3 +  82825804 ACA
i chlSab2.chr23            I 46 C 0
s manLeu1.NW_012103321v1     4096601 3 -   4237731 ACA
i manLeu1.NW_012103321v1   I 26 C 0
s colAng1.NW_012119644v1      365137 3 -   1175262 ACA
i colAng1.NW_012119644v1   I 50 C 0
e micMur3.chr12             60598713 80 + 108143057 I
e canFam3.chr11             14965672 0 +  74389097 C
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I
e otoGar3.GL873679           3124601 0 +   4132165 C
e aotNan1.NW_018505940v1    13267145 106 -  42888418 I
e cebCap1.NW_016107590v1       66926 88 -   3089952 I
e dasNov3.JH567306           2688342 0 +   3667625 C
e mm10.chr18                55561800 0 +  90702639 C
e saiBol1.JH378106          55763396 70 -  71252344 I
e calJac3.chr2             123719774 77 - 204313951 I

a score=30555.000000
s hg38.chr5_KI270796v1_alt    140719 3 +    172708 ctc
s panTro5.chr5             125244017 3 + 181907262 ctc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580754 3 + 183735486 ctc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772493 3 +   8933513 ctc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906889 3 + 163208435 ctc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891737 3 + 180051392 ctc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315354 3 + 181584905 ctc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16314000 3 +  18395747 ctc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326412 3 +  26952557 ctc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426745 3 +  82825804 ctc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4096604 3 -   4237731 ctc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365140 3 -   1175262 ctc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719851 3 - 204313951 ctc
i calJac3.chr2             I 77 C 0
s saiBol1.JH378106          55763466 3 -  71252344 ctc
i saiBol1.JH378106         I 70 C 0
s aotNan1.NW_018505940v1    13267251 3 -  42888418 ctc
i aotNan1.NW_018505940v1   I 106 C 0
e micMur3.chr12             60598713 80 + 108143057 I
e canFam3.chr11             14965672 0 +  74389097 C
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I
e otoGar3.GL873679           3124601 0 +   4132165 C
e cebCap1.NW_016107590v1       66926 88 -   3089952 I
e dasNov3.JH567306           2688342 0 +   3667625 C
e mm10.chr18                55561800 0 +  90702639 C

a score=1690753.000000
s hg38.chr5_KI270796v1_alt    140722 181 +    172708 agcctcctgagtagctgggactacaggcacgtgccaccacgcccggctaatttttgaatttttagtagagatggggtttcaccatgttggccaagatggtctcaatctcttgaactcatgatccacctgcctcagcctcccaaaatg---ttgggattacaggcatgagccaccgcgcctggcc
s panTro5.chr5             125244020 181 + 181907262 agcctcctgagtagctgggactacaggcacgtgccaccatgcccagctaatttttgaatttttagtagagatggggtttcaccatgttggccaagatggtctcaatctcttgaactcatgatccacctgcctcagcctccaaaaatg---ttgggattacaggcatgggccaccacgcctggcc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580757 181 + 183735486 agcctcctgagtagctgggactacaggcatgtgccaccatgcccagctaatttttgaatttttagtagagatggggtttcaccatgttggccaagatggtctcaatctcttgaactcatgatccacctgcctcagcctccaaaaatg---ttgggattacaggcatgggccaccacgcctggcc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772496 181 +   8933513 agcctcctgagtagctgggactacaggcacgtgccaccacgcccagctaatttttgaatttttagtagagatggggtttcaccatgttggccaagatggtctcaatctcttgaactcgtgatccacctgcctcagcctcccaaaatg---ttgggattacaggcatgagccacagcgcctggcc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139906892 181 + 163208435 agcctcctgagtagctgggactacagtcacgtgccaccacacccagctaatttttgaatttttagtagagatggggtttcaccatgttggccaagatggtctcattctcttgaactcgtgatccacctccctcagcctcccaaaatg---ttgggattacaggcatgagccaccgtgcctggcc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891740 181 + 180051392 aacctccagagtagctgggacaacaggcatgtgccaccatgcccagctaatttttgaattttcggtagagatggggtttcaccatgttggccaggatggtctcaatctcttgacctcatgatccacctacctcagcctcccaaaatg---ttgggattacaggcatgagccaccacaccttgcc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315357 181 + 181584905 aacctccagagtagctgggacaacaggcatgtgccaccatgcccagctaatttttgaattttcggtagagatggggtttcaccatgttggccaggatggtctcaatctcttgacctcatgatccacctacctcagcctcccaaaatg---ttgggattacaggcatgagccaccacaccttgcc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16314003 181 +  18395747 aacctccagagtagctgggacaacaggcatgtgccaccatgcccagctaatttttgaattttcggtagagatggggtttcaccatgttggccaggatggtctcaatctcttgacctcatgatccacctacctcagcctcccaaaatg---ttgggattacaggcatgagccaccacaccttgcc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326415 181 +  26952557 aacctccagagtagctgggacaacaggcatgtgccaccatgcccagctaatttttgaattttcggtagagatggggtttcaccatgttggccaggatggtctcaatctcttgacctcgtgatccacctacttcagcctcccaaaatg---ttgggattacaggcatgagccaccacaccttgcc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426748 181 +  82825804 aacctccagagtagctgggacaacaggcatgtgccaccatgcccagctaatttttgaattttcagtagagatggggtttcaccatgttggccaggatggtctcaatctcttgacctcgtgatccgcctacctcagcctcccaaaatg---ttgggattacaggcatgagccaccacaccttgcc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4096607 181 -   4237731 aacctccagagtagctgggacaacaggcatgtgccaccatgcccagctaatttttgaattttcggtagagatggggtttcaccatgttggccaggatggtctcaatctcttgacctcgtgatccacctacttcagcctcccaaaatg---ttgggattacaggcatgagccaccacaccttgcc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365143 181 -   1175262 aaccttctgagcagctgggacgacaggcatgtgccaccatgcccagctaatttttgaattttcggtagagatggggtttccccatgttggccaggatggtctcaatctcttgacctcgtgatccgcctacctcggcctcccaaagtg---ttgggattacaggcatgagccaccacatcttgcc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123719854 184 - 204313951 agcctcctgagtagttgggactgcaggtgcatgccaccatgcccagctaatgtttgtatttttaatagagacgtggtttcaccatgttgactaggatggtcttgatgtcttgacctcttgatttgcccaccttggcctcccaatgtgctgctgggattacaggcatgagccactgtggctggcc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763469 184 -  71252344 agcctcctgagtagttgggactacaggtgcatgccaccatgcccagctaatgtttatatttttaatagagatgtggtttcaccatgttgactaggatggtctcaatctcttgacctcctgatacgcccaccttggcctcccaaagtgctgctggaattacaggcatgagccaccgtggctggcc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       67014 184 -   3089952 agcctactgagtagttgggactacaggtgcatgccaccacgcccagctaatgtttgtatttttaatagagacatggtttcaccatgttgactaggatggtctcgatctcttgacctcctgattcacctacctcagcctaccaaagtgctactgggattacaggcataagccaccgtggctggtc
i cebCap1.NW_016107590v1   I 88 C 0
s aotNan1.NW_018505940v1    13267254 184 -  42888418 agcctcctgagtagttgggactacaggtgcatgccgccacgcccagttaatgtttgtatttgtaatggagacgtggtttcaccacgttgactaggatggtctcaatctctagacctcctgattcgcccgcctcggccttccaaagtgctgctgggattactggcatgagccactgtggctggcc
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60598713  80 + 108143057 I
e canFam3.chr11             14965672   0 +  74389097 C
e proCoq1.NW_012155062v1     3634260  81 +  11683526 I
e otoGar3.GL873679           3124601   0 +   4132165 C
e dasNov3.JH567306           2688342   0 +   3667625 C
e mm10.chr18                55561800   0 +  90702639 C

a score=25976.000000
s hg38.chr5_KI270796v1_alt    140903 2 +    172708 TC
s panTro5.chr5             125244201 2 + 181907262 TC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580938 2 + 183735486 TC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772677 2 +   8933513 TC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139907073 2 + 163208435 TC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891921 2 + 180051392 TC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315538 2 + 181584905 TC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16314184 2 +  18395747 TC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326596 2 +  26952557 TC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426929 2 +  82825804 TC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4096788 2 -   4237731 TC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365324 2 -   1175262 TC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123720038 2 - 204313951 TC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763653 2 -  71252344 TC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       67198 2 -   3089952 TC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13267438 2 -  42888418 TC
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14965672 2 +  74389097 TC
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60598713 80 + 108143057 I
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I
e otoGar3.GL873679           3124601 0 +   4132165 C
e dasNov3.JH567306           2688342 0 +   3667625 C
e mm10.chr18                55561800 0 +  90702639 C

a score=1009948.000000
s hg38.chr5_KI270796v1_alt    140905 84 +    172708 CATTAACATATATTGTTAAGTTTACATTGTAAGGATGCTGACAACAAAG--CTTTTTATCTTGAAATATAATGTTCTCTCATAGAA-
s panTro5.chr5             125244203 84 + 181907262 CATTAACATATATTTTTAATTTTACATTGTAAGGATGCTGACAACAAAG--CTTTTTATCTTGAAATATAATGTTCTCTCATAGAA-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126580940 84 + 183735486 CATTAACATATATTTTTAATTTTACATTGTAAGGATGCTGACAACAAAG--CTTTTTATCTTGAAATATAATGTTCTCTCATAGAA-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772679 84 +   8933513 CATTAACATATATTTTTAATTTTACATTGTAAGGATGCTGACAACAAAG--CTTTTTATCTTGAAATATAATGTTCTCTCATAGAA-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139907075 84 + 163208435 CATTAACATATATTTTTAATTTTACATTGTAAGGATGCTGACAACAAAG--CTTTTTATCTTGAAATATAATATTCTCTCATAGAA-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122891923 84 + 180051392 CAAATACATATATTTTTAATTTTACATTGTAAGGATGCTGACAACAAAG--CTTTTGATCTTGAAATATAATGTTCTCTCATAGAA-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315540 84 + 181584905 CAAATACATATATTTTTAATTTTACATTGTAAGGATGCTGACAACAAAG--CTTTTGATCTTGAAATATAATGTTCTCTCATAGAA-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16314186 84 +  18395747 CAAATACATATATTTTTAATTTTACATTGTAAGGATGCTGACAACAAAG--CTTTTGATCTTGAAATATAATGTTCTCTCATAGAA-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326598 84 +  26952557 CAAATACATATATTTTTAATTTTACATTGTAAGGATGCTGACAACAAAG--CTTTTGATCTTGAAATATAATGTTCTCTCATAGAA-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28426931 84 +  82825804 CAAATACATATATTTTTAATTTTACATTGTAAGGATGCTGACAACAAAG--CTTTTGATCTTGAAATATAATGTTCTCTTATAGAA-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4096790 84 -   4237731 CAAATACATATATTTTTAATTTTACATTGTAAGGATGCTGACAACAAAG--CTTTTGATCTTGAAATATAATGTTCTCTCATAGAA-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365326 84 -   1175262 CAAATACATATATTTTTCATTTTACATTGTAAGGATGCTGACAACAAAG--CTTTTGATCTTGAAATACAATATTCTCTCATAGAA-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123720040 84 - 204313951 CATTAACATATATTTTTAATTTCACATTGTAAGGATGGTGACAACAAAG--CTTTTTATCTTGAAATATAATGTTCTTTCATAGTA-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763655 84 -  71252344 CATTCACATACATCTTTAATTTCACATTGTAAGGATGGTGACAACAAAG--CTTTTTATCTTGAAATATAATGTTCTTTCATAGTA-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       67200 84 -   3089952 CATTAACATATATTTTTAATTTCACATTGTAAGGATGGTGACAACAAAG--CTTTTTATCTTGAAATATAATGTTCTATCATAGTA-
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13267440 84 -  42888418 CATTAACATATATTTTTAATTTCACATTGTAAGGATGGTGACAACAAAG--CTTTTTATCTTGAAATATAATGTTCTTTCATAGTA-
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3124601 76 +   4132165 CATTGACATATATTTTTAATTTTACATCTTGAGGAAGCTGATAACAAAA--CTTCTTATTTTAAAATGTA--------CAACAACA-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55561800 81 +  90702639 TATTAATATGGTTATTTAACTTC-TATCTCAGGATTCCTTATAGCAAA---CCTTTTGTTTTGGGAAATAATATT-TCCCATAACA-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14965674 81 +  74389097 CATTAACTGATATTTCAAGTTTCACTTCTAAGGGATGCTGATAACCAAG--CTTTCTATTTTCAGA---AATGTTTTCTCACAGCA-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2688342 87 +   3667625 CATCAACTTATATTTTTAATTTCCCATCTCAGTGACACTGATAAAAAAGTTTTTTTTATTTTCAGAAATAATGCTATCTTGCAAATA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60598713 80 + 108143057 I
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I

a score=16670.000000
s hg38.chr5_KI270796v1_alt    140989 1 +    172708 A
s panTro5.chr5             125244287 1 + 181907262 A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126581024 1 + 183735486 A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772763 1 +   8933513 A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139907159 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122892007 1 + 180051392 A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315624 1 + 181584905 A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16314270 1 +  18395747 A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326682 1 +  26952557 A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28427015 1 +  82825804 A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4096874 1 -   4237731 A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365410 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123720124 1 - 204313951 A
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763739 1 -  71252344 A
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       67284 1 -   3089952 A
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13267524 1 -  42888418 A
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60598793 1 + 108143057 A
i micMur3.chr12            I 80 C 0
s otoGar3.GL873679           3124677 1 +   4132165 G
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55561881 1 +  90702639 A
i mm10.chr18               C 0 C 0
s canFam3.chr11             14965755 1 +  74389097 A
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2688429 1 +   3667625 A
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3634260 81 +  11683526 I

a score=2836117.000000
s hg38.chr5_KI270796v1_alt    140990 193 +    172708 CCTAACTTGAAAATTTATGGAGACTTTGGCTGTGTTCAAGTGGTTCTTTCTCTGTGTTAGCTTTTGAAAATATTGGTTGGCAGCTATA--TTTTTACAGTCTTATTTATATGTAATAGAGCAAGTAGAAGGTCATAGAAATCTAAGCTTGGAG----CCATCTCTACC----TGTATGGAGGTAT------------CTCATATAT------CCCTTGAAT
s panTro5.chr5             125244288 193 + 181907262 CCTAACTTGAAAATTTATGGAGACTTTGGCTGTGTTCAAGTGGTTCTTTCTCTGTGTTAGCTTTTGAAAATATTGGTTGGCAGCTATA--TTTTTACAGTCTTATTTATATGTAATAGAGCAAGTAGAAGGTCATAGAAATCTAAGCTTGGAG----CCATCTCTACT----TGTATGGAGGTAT------------CTCATATAT------CCCTTGAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126581025 193 + 183735486 CCTAACTTGAAAATTTATGGAGACTTTGGCTGTGTTCAAGTGGTTCTTTCTCTGTGTTAGCTTTTGAAAATATTGGTTGGCAGCTATA--TTTTTACAGTCTTATTTATATGTAATAGAGCAAGTAGAAGGTCATAGAAATCTAAGCTTGGAG----CCATCTCTACT----TGTATGGAGGTAT------------CTCATATAT------CCCTTGAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772764 193 +   8933513 CCTAACTTGAAAATTTATGGAGACTTTGGCTGTGTTCAAGTGGTTCTTTCTCTGTGTTAGCTTTGGAAAATATTGGTTGGCAGCTACA--TTTTTACAGTCTTATTTATATGTAATAGAGCAAGTAGAAGGTCATAGAAATCTAAGCTTGGAG----CCATCTCTACC----TGTATGGAGGTAT------------CTCATATAT------CCCTTGAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139907160 193 + 163208435 CCTAACTTGAAAATTTATGGAGACTTTGGCTGTGTTCAAGTAGTTCTTTCTCTGTGTTAGCTTCGGAAAATATTGGTTGGCATCTATA--TTTTTACAGTCTTATTTATATGTAATAGAGCAAGTAGAAGGTCATAGAAATCTAAGCTTGGAG----CCATCTCTACC----TGTATGGAGGTAT------------CTCATATAT------CCCTTGAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122892008 193 + 180051392 CCTAACTTGAACATTTATGGAGACTTTGGCTGTGTTCAAGTAGTTCTTTCTCTGTGTTAGCTTTGGAAAATATTGGTTGGCAGCTATA--TTTTTACAGTCTTATTTATATGTAATAGAGCAAGTAGAAAGTCATAGAAATCTAAGCTTGGAG----CCATCTCTACC----TGTGTGGAGGTAT------------CTCATATAT------CCCTTGAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315625 193 + 181584905 CCTAACTTGAACATTTATGGAGACTTTGGCTGTGTTCAAGTAGTTCTTTCTCTGTGTTAGCTTTGGAAAATATTGGTTGGCAGCTATA--TTTTTACAGTCTTATTTATATGTAATAGAGCAAGTAGAAAGTCATAGAAATCTAAGCTTGGAG----CCATCTCTACC----TGTGTGGAGGTAT------------CTCATATAT------CCCTTGAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16314271 193 +  18395747 CCTAACTTGAACATTTATGGAGACTTTGGCTGTGTTCAAGTAGTTCTTTCTCTGTGTTAGCTTTGGAAAATATTGGTTGGCAGCTATA--TTTTTACAGTCTTATTTATATGTAATAGAGCAAGTAGAAAGTCATAGAAATCTAAGCTTGGAG----CCATCTCTACC----TGTGTGGAGGTAT------------CTCATATAT------CCCTTGAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326683 193 +  26952557 CCTAACTTGAACATTTATGGAGACTTTGGCTGTGTTCAAGTAGTTCTTTCTCTGTGTTAGCTTTGGAAAATATTGGTTGGCAGCTATA--TTTTTACAGTCTTATTTATATGTAATAGAGCAAGTAGAAAGTCATAGAAATCTAAGCTTGGAG----CCATCTCTACC----TGTGTGGAGATAT------------CTCATATAT------CCCTTGAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28427016 193 +  82825804 CCTAACTTGAAAATTTATGGAGACTTTGGCTGTGCTCAAGTAGTTCTTTCTCTGTGTTAGCTTTGGAAAATATTGGTTGGCAGCTATA--TTTTTACAGTCTTATTTATATGTAATAGAGCAAGTAGAAAGTCATAGAAATCTAAGCTTGGAG----CCATCTCTACC----TGTGTGGAGGTAT------------CTCATATAT------CCCTTGAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4096875 193 -   4237731 CCTAACTTGAACATTTATGGAGACTTTGGCTGTGTTCAAGTAGTTCTTTCTCTGTGTTAGCTTTGGAAAATATTGGTTGGCAGCTATA--TTTTTACAGTCTTATTTATATGTAATAGAGCAAGTAGAAAGTCATAGAAATCTAAGCTTGGAG----CCATCTCTACC----TGTGTGGAGATAT------------CTCATATAT------CCCTTGAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365411 193 -   1175262 CCTAACTTGAAAATTTATGGAGACTTTGGCTATGTTCAAGTAGTTCTTTCTCTGTGTTAGCTTTGGAAAATATTGGTTGGCAGCTATA--TTTTTACAGTCTTATTTATATGTAATAGAGCAAGTAGAAAATCATAGAAATCTAAGCTTGGAG----CCATCTCTACC----TGTGTGAAGGTAT------------CTCATATAT------CCCTTGAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123720125 190 - 204313951 CCTAACTTGAAAATTAGTGGAGACTTTTGCTGTGTTCAAGTAGTTCTTTGTCTGTGTTAGCTTTGGAAAATATTGGTTG---GCTATA--TTTTTACAGTCTTATTTATAGGTAATAGAGCAAGTAGAAGTTCATAGAAATCTGAGCTTGAAG----CCATTTCTACC----TGTATGAAGACAT------------CTCATATAT------CCCTTGAAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763740 193 -  71252344 CCTAACTTGAAAATCAGTGGAGACTTTTGCTGTGTTCAAGTAGTTCTTTCTCTGTGTTAGCTTTGGAAAATATTGGTTGGCAGCTATA--TTTTTACAGTCTTATTTATATGTAATAGAGCAAGTAGAAGATCATAGAAATCTAAGCTTGGAA----CCATTTCTACC----TGTATGAAGCTAT------------CTCACATAT------TCCTTGAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       67285 189 -   3089952 CCTAACTTGAAAATTAGTGGAGACTTTTGCTGTGTTCAAGTAGTTCTT----TGTGTTAGCTTTGGAAAATGTTGGTTGGCAGCTATA--TTTTTGCAGTCTTATTTATATATAATAGAGCAAGTAGAAGATCATAGAAATCTAAGCTAGGAG----CCATTTCTACC----TGTATGAAGATAT------------CTCATATAT------TCCTTGAAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13267525 191 -  42888418 CCTAACTCGAAAATTAGTGGAGACTTTTGTTGTGTTCAAGTAGTTCTTTCTCTGTGTTAGCTTTGGAAAATATTGCTTGGCAGCTATA--TTTTT--AGTCTTATTTATATGTAGTAGAGCAAGTAGAAGATCATAGAAATCTAAGCTTGGAG----CCATTTCTACC----TGTATGAAGATAT------------CTCATATAT------CCCTTGAAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60598794 192 + 108143057 CCTAACTTTAAAATTTATGGAGACCATGGCTGTGTCTAAGGTGTTCTTTCTCTTTGTGACCTTTGGAAAATCTTGGTTGGGGGGTATA--TTTTTATCATCTTATTTATTTCTAATAATGGAAGTAG-AGGCCATGGAAATCTAATCTTGGGC----CTATCTCTCTC----TATATGGAGGTAC------------CTCAGATAT------CCCTTGAAT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3634341 196 +  11683526 CCTAACTTTAAAATTTGTGGAGACCATGGCTGTGTCCAAAGAGTTCTTTCTCCTTGTTACCTTTGGAAAATCTTGGTTGGAGGATGTA--TTTTTACCATCTTATTTATTTCTAATAATGGAAGTAG-AAGCCATGGAAATTTAAGCTTGGGG----CTATCTCTGCCTATATATATGGAGGTAC------------CTCAGATAT------CCCTTGAAT
i proCoq1.NW_012155062v1   I 81 I 33
s otoGar3.GL873679           3124678 199 +   4132165 CCTAACTTTAAAATTTATGGCGATCATGACTGTGTCCAAATAGGT-TTCCCCCATCTTAGCTTTGGAAAATTCTG-----------TA--TTTTTACTGTTTGATTTATTTCTAATAAAGGAAGCAG-AGGCCATGGAGGTCTAAGCTCGGGGTTCTTTACCTATGTGTGTATATATGTACATACATATAGGAGCTGTTCAGATA-------CCCTTGAAT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55561882 165 +  90702639 TCTAACTTCAAAA--------------AATTGTGTCTAAACAAATATTTCTCTGTCAGAGATTTGGAAAACA----------------------TACCGATTTTTGTGCATGTAGTTGAGAAAGTGGGAGACTGTGGGAATCCAAGGTTGGAA----ACATTTCGATC----TCTATGAAGATAT------------CTCACATATGAGGTATCCATGAAT
i mm10.chr18               C 0 I 3
s canFam3.chr11             14965756 193 +  74389097 CCCACCTTTAAAATTTATGGAGATCTTGGCTGTGTGCAAATAGTTCTTTCTACGTGTTAACTCTGCAAATTACTGCTTGGCAGCTATGTTTTTTTACTGTCATACTTACATGTAATAG---AAGTAGAAGTCCATGGACATCTAGGATTAGAG----GTATCTCAACC----TATGTGGAGGCAT------------CTCACTTGTT-----CCCTCATAT
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2688430 176 +   3667625 TCTAATTTTAAAGTTTATGTAGACT----CTGTGTGCAAATAGCTCCTTTTCTGTGTTAGCTTTGGAAAATGTTGATTAGGAGCTAAA--TTTTTATTG---TAGTGATATGTGATAGAGGAAGTGGAACTACAAGAAAAGCTATCCTTTGAA----GTATCTCTGCC----TATATAGAAGTAT------------CTCAT---T------CC-------
i dasNov3.JH567306         C 0 C 0

a score=132036.000000
s hg38.chr5_KI270796v1_alt    141183 15 +    172708 TAAGGTAAGTATTAT
s panTro5.chr5             125244481 15 + 181907262 TAAGGTAAGTATTAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126581218 15 + 183735486 TAAGGTAAGTATTAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772957 15 +   8933513 TAAGGTAAGTATTAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139907353 15 + 163208435 TAAGGTAAGTATTAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122892201 15 + 180051392 TACAGTAAGTATTAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315818 15 + 181584905 TACAGTAAGTATTAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16314464 15 +  18395747 TACAGTAAGTATTAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326876 15 +  26952557 TATAGTAAGTATTAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28427209 15 +  82825804 TACAGTAAGTATTAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4097068 15 -   4237731 TACAGTAAGTATTAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365604 15 -   1175262 TACAGTAAGTATTAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123720315 15 - 204313951 TTAGATAAGTATTAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763933 15 -  71252344 TTAGATAAGTAGTAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       67474 15 -   3089952 TTAGATAAGTAGTAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13267716 15 -  42888418 TTAGATAAGTAGTAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60598986 15 + 108143057 TAGAGTAACTATTAC
i micMur3.chr12            C 0 I 9
s otoGar3.GL873679           3124877 15 +   4132165 TAAGGTAACAAGTGC
i otoGar3.GL873679         C 0 I 7
s mm10.chr18                55562050 12 +  90702639 TATGACAGCTAT---
i mm10.chr18               I 3 I 51
s canFam3.chr11             14965951 15 +  74389097 AAGGGTAACTGGTAT
i canFam3.chr11            I 2 C 0
s dasNov3.JH567306           2688606 10 +   3667625 -AAGGTAACTT----
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3634537 33 +  11683526 I

a score=-9108.000000
s hg38.chr5_KI270796v1_alt    141198 19 +    172708 -------GTATTCTATATGTGTTAGT--
s panTro5.chr5             125244496 19 + 181907262 -------GTATTCTATATGTGTTAGT--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126581233 19 + 183735486 -------GTATTCTATATGTGTTAGT--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772972 19 +   8933513 -------GTATTCTATATGTGTTAGT--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139907368  4 + 163208435 -------GTA---------------T--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122892216  4 + 180051392 -------ATA---------------T--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315833  4 + 181584905 -------ATA---------------T--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16314479  4 +  18395747 -------ATA---------------T--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326891  4 +  26952557 -------ATA---------------T--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28427224  4 +  82825804 -------ATA---------------T--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4097083  4 -   4237731 -------ATA---------------T--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365619  4 -   1175262 -------ATA---------------T--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123720330  4 - 204313951 -------GTA---------------T--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763948  4 -  71252344 -------ATA---------------G--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       67489  4 -   3089952 -------GTA---------------T--
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13267731  4 -  42888418 -------GTA---------------T--
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3124899  4 +   4132165 -------ATA---------------T--
i otoGar3.GL873679         I 7 I 2
s mm10.chr18                55562113  4 +  90702639 -------ATA---------------T--
i mm10.chr18               I 51 I 21
s canFam3.chr11             14965966  4 +  74389097 -------GGA---------------T--
i canFam3.chr11            C 0 I 9
s dasNov3.JH567306           2688616 13 +   3667625 GGAATTTATA---------------TGC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60599001  9 + 108143057 I
e proCoq1.NW_012155062v1     3634537 33 +  11683526 I

a score=95730.000000
s hg38.chr5_KI270796v1_alt    141217 11 +    172708 TCTATATGTGT
s panTro5.chr5             125244515 11 + 181907262 TCTATATGTGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126581252 11 + 183735486 TCTATATGTGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1772991 11 +   8933513 TCTATATGTGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139907372 11 + 163208435 TCTATATGTGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122892220 11 + 180051392 TCTATATGTGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315837 11 + 181584905 TCTATATGTGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16314483 11 +  18395747 TCTATATGTGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326895 11 +  26952557 TCTATATGTGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28427228 11 +  82825804 TCTATATGTGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4097087 11 -   4237731 TCTATATGTGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365623 11 -   1175262 TCTATATGTGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123720334  9 - 204313951 TCTATA--TGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763952  9 -  71252344 TCTATG--TGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       67493  9 -   3089952 TCTATA--TGT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13267735  9 -  42888418 TCTATA--TGT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60599010  9 + 108143057 TCTATATGC--
i micMur3.chr12            I 9 C 0
s mm10.chr18                55562138 11 +  90702639 TCTACCCATGT
i mm10.chr18               I 21 I 17
e canFam3.chr11             14965970  9 +  74389097 I
e proCoq1.NW_012155062v1     3634537 33 +  11683526 I
e otoGar3.GL873679           3124903  2 +   4132165 I
e dasNov3.JH567306           2688629  0 +   3667625 C

a score=1677410.000000
s hg38.chr5_KI270796v1_alt    141228 116 +    172708 TAGTAAAGCAATTAAAAACATCA----------------TTTTTCTACTTTTGACTTTTTATTTAAAAAGATGGTTAAGGAAATAATCAATAGCAAGATCACAGAAGG-AAAAAAG------TCAA--TAAAGC----------CTCTAAT
s panTro5.chr5             125244526 116 + 181907262 TAGTAAAGCAATTAAAAACATCA----------------TTTTTCTACTTTTGACTTTTTATTTAAAAAGATGGTTAAGGAAATAATCAATAGCAAGATCACAGAAGG-AAAAAAG------TCAA--TAAAGC----------CTCTAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126581263 116 + 183735486 TAGTAAAGCAATTAAAAACATCA----------------TTTTTCTACTTTTGACTTTTTATTTAAAAAGATGGTTAAGGAAATAATCAATAGCAAGATCACAGAAGG-AAAAAAG------TCAA--TAAAGC----------CTCTAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1773002 116 +   8933513 TAGTAAAGCAATTAAAAACATCA----------------TTTTTCTACTTTTGACTTTTTATTTAAAAAGATGGTTAAGGAAATAATCAATATCAAGATCACAGAAGG-AAAAAAG------TCAA--TAAAGC----------CTCTAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139907383 116 + 163208435 TAGTAAAGCAATTAAAAACATCA----------------TTTTTCTACTTTTGACTTTTTATTTAAAAAGATGGTTAAGGAAATAATCAATAACAAGATCACAGAAGG-AAAAAGG------CCAA--TAAAGC----------CTCTAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122892231 116 + 180051392 TATTAAAGCAATTAAAAGCATCA----------------TTTTTCTACTTTTGACTTTTTATTTAAAAAGATGGTTAAGGAAATAATCAATAGCAAGATCACAGAAGG-AAAAAAG------TCAA--TAAAGC----------CTCTAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315848 116 + 181584905 TATTAAAGCAATTAAAAGCATCA----------------TTTTTCTACTTTTGACTTTTTATTTAAAAAGATGGTTAAGGAAATAATCAATAGCAAGATCACAGAAGG-AAAAAAG------TCAA--TAAAGC----------CTCTAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16314494 116 +  18395747 TATTAAAGCAATTAAAAGCATCA----------------TTTTTCTACTTTTGACTTTTTATTTAAAAAGATGGTTAAGGAAATAATCAATAGCAAGATCACAGAAGG-AAAAAAG------TCAA--TAAAGC----------CTCTAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5326906 116 +  26952557 TATTAAAGCAATTAAAAGCATCA----------------TTTTTCTACTTTTGACTTTTTATTTAAAAAGATGGTTAAGGAAATAATCAATAGCAAGATCACAGAAGG-AAAAAAG------TCAA--TAAAGC----------CTCTAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28427239 116 +  82825804 TATTAAAGCAATTAAAAGCATCA----------------TTTTTCTACTTTTGACTTTCTATTTAAAAAGGTGGTTAAGGAAATAATCAATAGCAAGATCACAGAAGG-AAAAAAG------TCAA--TAAAGC----------CTCTAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4097098 116 -   4237731 TATTAAAGCAATTAAAAGCATCA----------------TTTTTCTACTTTTGACTTTTTATTTAAAAAGATGGTTAAGGAAATAATCAATAGCAAGATCACAGAAGG-AAAAAAG------TCAA--TAAAGC----------CTCTAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365634 116 -   1175262 TATTAAAGCAATTAAAAGCATCA----------------TTTTTCTACTTTTGACTTTTTATTTAAAAAGATGGTTAAGGAAATAATCAATAGCAAGATCCCAGAAGG-AAAAAAG------TCAA--TAAAGC----------CTCTAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123720343 114 - 204313951 TAGTAAAACAATTAAAAACATCA----------------TCTTTCTA-TTTTGACTTTTTGTTTAAAAATGTGCCT-AGGAAATAATCAATAGCAAGATCACAGAAGG-AAAAAAG------TCAA--TAAAGC----------CTCTAAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55763961 115 -  71252344 TAGTAAAGCAATTAAAAACATCA----------------TTTTTCTACTTTTGACTTTTTATTTTAAAATATCCTG-AGGAAATAATCAATGGCAAGATCACAGAAGG-AAAAAAG------TCAA--TAAAGC----------CGCTAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       67502 115 -   3089952 TAGTAAAGCAATTAAAAACAACA----------------TTTTTCTGCTTTTGACTTTTTATTTAAAAATATGCTT-AGGAAATAATCAATAGCAAGATCACAGAAGG-AAAAAAG------TCAA--TAAAGC----------CGCTAAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13267744 114 -  42888418 TAGTAAAGCAATTAAAAACATCA----------------TTTTTCTACTTTTGACTTTTTATTTAAAAATATGCTT-TGGAAATAATCAATAGCAGGATCACAGAAGG-AAAAAAG------TCAA--TAAA-C----------TGCTAAC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60599019 113 + 108143057 TAGTAAAGGACTTATAAATATTA----------------CTTTTCTACTTTTGACTTTTTATTTGAAAAAGTGCT---GGAAATAATCAGTAGCAATATTGTACAAGG-AAAAAAA------TCAA--TAAAGC----------CTCTAAT
i micMur3.chr12            C 0 I 15
s proCoq1.NW_012155062v1     3634570 113 +  11683526 TAGTAAAACACTTATAAATATTA----------------CTTTTCTACTTTTGACTTTTTATTTGAAAAAGTGCT---AGAAATAATCGGTAGCAATATCATACAAGG-AAAAAAA------TCAA--TAAAGC----------CTCTAAG
i proCoq1.NW_012155062v1   I 33 C 0
s otoGar3.GL873679           3124905 113 +   4132165 TAATAAAGCACTCACAAACATCA----------------CTTTTCTGCTTTTCACTTTTTATTTGAACAGGTACT---AAAAATAATCAGCAGCAACATTATAGAAGG-AAAAAGG------TCAA--TAAATC----------CTCTAAT
i otoGar3.GL873679         I 2 I 3
s mm10.chr18                55562166 135 +  90702639 AAGAGAAGCAAATCAAAAAAGTAAAATCTTTGAGAAATTCCTTTTTGACTTTGACATTTTATTAGAAAAGTTAATG---------------AATGAGGACACAGGAAG-AAGAAAATGCCTCTCAGCTTAGGGCGCTGCAGTTACCCTAAT
i mm10.chr18               I 17 I 24
s canFam3.chr11             14965979 111 +  74389097 TAGTAAAGCAGCT-TAAACATTA----------------TTTTTCTACTTTAG-CTACTTATTCGAAAAGGTGCT---AGAAATAATCAGGAGCAAGATCTTAGAAGG-AAAAAGG------ATAA--TAAAGC----------CTCTAAT
i canFam3.chr11            I 9 C 0
s dasNov3.JH567306           2688629 107 +   3667625 TAACAAAGCAATT-AAAATGCTA----------------TTTTTATAACCCTGCCTTTTTATTTGAAAAAGGTCT---GGAAATAAC------CATGATCACAAAAGGAAAAAAAG------TCAA--TAAAAC----------TATTCGT
i dasNov3.JH567306         C 0 C 0

a score=108900.000000
s hg38.chr5_KI270796v1_alt    141344 9 +    172708 GATTTGCAA
s panTro5.chr5             125244642 9 + 181907262 GATTTGCAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126581379 9 + 183735486 GATTTGCAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1773118 9 +   8933513 GATTTGCAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139907499 9 + 163208435 GATTTTCAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122892347 9 + 180051392 GATTTTCAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315964 9 + 181584905 GATTTTCAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16314610 9 +  18395747 GATTTTCAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5327022 9 +  26952557 GATTTTCAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28427355 9 +  82825804 GATTTTCAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4097214 9 -   4237731 GATTTTCAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365750 9 -   1175262 GATTTTCAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123720457 9 - 204313951 GATTTTAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55764076 9 -  71252344 GATTTAAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       67617 9 -   3089952 GATTTTAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13267858 9 -  42888418 GATTTTAAA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3634683 8 +  11683526 -CTTTTAAA
i proCoq1.NW_012155062v1   C 0 I 2
s otoGar3.GL873679           3125021 9 +   4132165 AGTTTTAAA
i otoGar3.GL873679         I 3 I 2
s mm10.chr18                55562325 9 +  90702639 AGTTTGCAT
i mm10.chr18               I 24 I 10
s canFam3.chr11             14966090 9 +  74389097 GGTTTCAAA
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2688736 9 +   3667625 GGTTTTAAA
i dasNov3.JH567306         C 0 I 2
e micMur3.chr12             60599132 15 + 108143057 I

a score=3100968.000000
s hg38.chr5_KI270796v1_alt    141353 207 +    172708 TAAGTGGTG-TAATTTTGAGT--GTAAATACAAAA----TACATTTTAAAATCACATACTTGGAAAAGTGTCCATATTTCATATTTACTATACTGTGTTAATTTATAGTTGTGTTTT-CATTCTAGGAATGAAAGTACATACAAAGCCTCAGGCTGAAAA---GTTCTGATTATTAGCAATGATAGTAAGGATTGTTCATAATATACAGTATTGAACA
s panTro5.chr5             125244651 207 + 181907262 TAAGTGGTG-TAATTTTGAGT--GTAAATACAAAA----TACATTTTAAAATCACATACTTGGAAAAGTGTCCATATTTCATATTTACTATACTGTGTTAATTTATATTTGTGTTTT-CATTCTAGGAATGAAAGTACACACAAAGCCTCAGGCTGAAAA---GTTCTGATTATTAGCAATGATAGTAAGGATTGTTCATAATATACAATATTGAACA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126581388 207 + 183735486 TAAGTGGTG-TAATTTTGAGT--GTAAATACAAAA----TACATTTTAAAATCACATACTTGGAAAAGTGTCCATATTTCATATTTACTATACTGTGTTAATTTATATTTGTGTTTT-CATTCTAGGAATGAAAGTACATACAAAGCCTCAGGCTGAAAA---GTTCTGATTATTAGCAATGATAGTAAGGATTGTTCATAATATACAATATTGAACA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1773127 207 +   8933513 TAAGTGGTG-TAATTTTGAGT--GTAAATACAAAA----TACATTTTAAAATCACATACTTGGAAAAGTGTCCATATTTCATATTTACTATACTGTGTTAATTTATATTTGTGTTTT-CATTCTAGGAATGAAAGTACATACAAAGCCTCAGGCTGAAAA---GTTCTGATTATTAGCAATGATAGTAAGGATTGTTCATAATATACAATATTGAACA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139907508 205 + 163208435 TAAGTGGTA-TAATTTTGAGT--GTAAATACAAAA----TACATTTTAAAATCACATACATGGAAAAGTGTCCATATTTCATATTTACTATACTGTGTTAATTTGTATT--TGTTTT-CATTCTAGGAATGAAAGCACATACAAAGCCTCAGGCTGAAAA---GTTCTGATTATTAGCAATGATAGTAAGGATTGTTCATAATATACAATATTGAACA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122892356 207 + 180051392 TAAGTGGTA-TAATTTTGAGT--GTAAATACAAAA----TACATTTTAAAATCACATACATGGAAAAGTGTCCATATTTCATATTTACTATACTGTGTTAATTTAGATTTGTGTTTT-CATTCTAGAAACGAAAGTACATACAAAGCTGCAGGCTGAAAA---GTTCTGATTATTAACAATGATAGTAAGGGTTGTTCCTAATATTCAATACTGAACA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124315973 207 + 181584905 TAAGTGGTA-TAATTTTGAGT--GTAAATACAAAA----TACATTTTAAAATCACATACATGGAAAAGTGTCCATATTTCATATTTACTATACTGTGTTAATTTAGATTTGTGTTTT-CATTCTAGAAACGAAAGTACATACAAAGCTGCAGGCTGAAAA---GTTCTGATTATTAACAATGATAGTAAGGGTTGTTCCTAATATTCAATACTGAACA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16314619 207 +  18395747 TAAGTGGTA-TAATTTTGAGT--GTAAATACAAAA----TACATTTTAAAATCACATACATGGAAAAGTGTCCATATTTCATATTTACTATACTGTGTTAATTTAGATTTGTGTTTT-CATTCTAGAAACGAAAGTACATACAAAGCTGCAGGCTGAAAA---GTTCTGATTATTAACAATGATAGTAAGGGTTGTTCCTAATATTCAATACTGAACA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5327031 207 +  26952557 TAAGTGGTA-TAATTTTGAGT--GTAAATACAAAA----TACATTTTAAAATCACATACATGGAAAAGTGTCCATATTTCATATTTACTATACTGTGTTAATTTAGATTTGTGTTTT-CATTCTAGAAACGAAAGTACATACAAAGCTGCAGGCTGAAAA---GTTCTGATTATTAACAATGATAGTAAGGGTTGTTCCTAATATTCAATACTGAACA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28427364 202 +  82825804 TAAGTGGTA-TAATTTTGAGT--GTAAATACAAAA----TACATTTTAAAATCACATACATGGAAAAGTGTCCATATTTCATATTTACTATACTGTGTTAATTTAGATTTGTGTTTT-CATTCTA-----GAAAGTACATACAAAGCTGCAGGCTGAAAA---GTTCTGATTATTAACAATGATAGTAAGGGTTGTTCCTAATATTCAATACTGAACA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4097223 207 -   4237731 TAAGTGGTA-TAATTTTGAGT--GTAAATACAAAA----TACATTTTAAAATCACATACATGGAAAAGTGTCCATATTTCATATTTACTATACTGTGTTAATTTAGATTTGTGTTTT-CATTCTAGAAACGAAAGTACATACAAAGCTGCAGGCTGAAAA---GTTCTGATTATTAACAATGATAGTAAGGGTTGTTCCTAATATTCAATACTGAACA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365759 207 -   1175262 TAAGTGGTA-TAATCTTGAGT--GTAAATACAAAA----TACATTTTAAAATCACATACATGGAAAAGTGTCCATATTTCGTATTTACTATACTGTGTTAATTTAGATTTGTGTTTT-CATTCTAGAAATGAAAGTACATACAAAGCTGCAGGCTGAAAA---GTTCTGATTGTTAACAATGATAGTAAGGGTTGTTCCTAATATTCGATACTGAACA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123720466 206 - 204313951 TAAGTGGTA-TAATTTTGAGT--GTAAATACAAAA----TACATTTTAAAATCACATACATGGAAAAGTATCCATATTTCATA-TGACCATATTGTGTTAATTTATATTTGTGTTTT-CATTCTAGAAATGAAAGTACATACAAAGTCTTAGGCTGAAAA---GTTCTGATTATTAGCAATGATAGTAAGGATTGTTCTTAATATTCAATATTGAACA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55764085 202 -  71252344 TAAGTGGTG-TAATTTTGAGT--GTAAATACAAAA----TACATTTTAAAATC----ACAGGTGAAAGTGTTCATATTTCATATTTATCATGCTGTGTTAATTTATATTTGTGTTTT-CATTCTAGAAATGGAAGTAC-TACAAAGCCTTAGGCTGAAAA---GTTCTGATTATTAGCAATGATAGTAAGGATTGTTCATAATATTCAATATTGAACA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       67626 207 -   3089952 TAAGTGGTA-TAATTTTGAGT--GTAAATACAAAA----TACATTTTTAAATCACATACATGGAAAAGTGTCCATATTTCATATTTACCATACTGTGTTAATTTATATTTGTGTTTT-CAATCTAGAAATGAAAGTGCATACAAAGCCTTAGGCTGAAAA---GTTCTCATTATTAGCAATGATAGTAAGGATTGTTCATAGTATTCAATATTGAACA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13267867 207 -  42888418 TAAGTGGTA-TAATTTTGAGT--GTAAATACAAAA----TACGTTTTAAAATCACATATGTGGAAAAGTGTCCATATTTCATACTTACCATACTGTGTTAATTTATATTTGTGTTTT-CATTCTAGAAATGAAAATACATACAAAGCCTTAGGCTGAAAA---GTTCTGATTATTAGCAATGATAGTAAGGATTGTTCATAATATTCAATATTGAACA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60599147 216 + 108143057 TAAGTGGTGCTAATTTTGAGT--GTGAATATGAAATATTTATATTTTAAAAGCATATACATGAGAAAGTGTCCATATTTTAAATTCACCATACTGTATTAATTTATATGTGTGTTTTGCATTCTAGAAACTAAAGTACATACAATGCCTCAGGCTAAAGAAGGGTTCTAATTATTAGTGATGATTCAAAGGATTGTTCATAATAGTCAGTATTGAACA
i micMur3.chr12            I 15 C 0
s proCoq1.NW_012155062v1     3634693 215 +  11683526 TAAGTGGTGCTAATTTTGAGT--GTGAATACAAAATATTTATA-TTAAATAGCATATACATGAGAAAGTGTCCATATTTTAAATTCACCATACTGTATTAATTTATATGTGTGTTTTGCATTCTAGAAACTAAAGTACATACAATGCCTCAGGCTAAAGAGTGGTTCTAATTATTAGTGATGATTCAAAGCATTGTTCATAATAGTCAATATTGAACA
i proCoq1.NW_012155062v1   I 2 C 0
s otoGar3.GL873679           3125032 208 +   4132165 TAAATGAAGTTAATTTTGATT--ATGAGTAAAAAGGGTTTATATTTTAAAAGTATACAGATAAAAAAGTCTCCATATTTTAAATTCACTATACTGTATTAATTTATATTCATGTTTTGCAGTCTAGAA--------ACATACAATGCCTCAGGCTAAAAAAGGGTTCTGATTATTAATGAAGATTCTAAGAATTGTTCCTAACAGTCAATATTAAACA
i otoGar3.GL873679         I 2 C 0
s mm10.chr18                55562344 210 +  90702639 TAAGCTCTGTTAATTCTGAGT--GTGTACACAAAAGATTCATGATTT-ACATCATTGCCATAGAAAAGTGTCTCTAATTTCTTTCTGCATT--TGTATTAATTTATATTTGTGTTTTGCAATTTAGAAGCCAAGGTGAATACAACACCTTAAGCTAAAAA-GAGTTTTGGTTATTGCTGATAATTTCGAATAGGGCTCATAATATT--GTTTTGAACA
i mm10.chr18               I 10 I 24
s canFam3.chr11             14966101 212 +  74389097 TAAGTAGTGCCAATATTGTGT--GTGTGTACAGAAAATTTATATTTTAAAATCATGCATATGGAAAAGCATCCATATTCTTTATTCACTATATGGTGTTAATTTATATTTGTATTATGCATTTGAGAAACTAAAGTACATACAGTGCTTCGGGCTCAAAA-GAATTCTGATTATTAG---TGATTCTAAGGGTTGTTCATAATAGTCAACACTGAATG
i canFam3.chr11            I 2 I 4
s dasNov3.JH567306           2688747 215 +   3667625 TACATGGCACTAATTTTGTATGAGTGTGTACAAATTACTCATATTTTAAAATCATGCACATGGAAGAAAGTCTATATTTCATATTGACTATACAGTATTCATTTGTTTGTGTGCTTTGCATTTTAGAAAATAAAGAATATGCAATGCCTCAGGCTCAAAG---ATATCTCTTATTATTAGTGATTCTAAGGATAGTTTATAGAATTCAACATTGAACA
i dasNov3.JH567306         I 2 C 0

a score=177954.000000
s hg38.chr5_KI270796v1_alt    141560 19 +    172708 G-AG-AAAAAG---ATCTTAGA-----TT
s panTro5.chr5             125244858 19 + 181907262 G-AG-AAAAAG---ATCTTAGA-----TT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126581595 19 + 183735486 G-AG-AAAAAG---ATCTTAGA-----TT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1773334 19 +   8933513 G-AG-AAAAAG---ATCTTAGA-----TT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139907713 19 + 163208435 G-AG-AAAAAA---ATCTTAGA-----TT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122892563 19 + 180051392 G-AG-AAAAAA---ATCTTAGA-----CT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124316180 19 + 181584905 G-AG-AAAAAA---ATCTTAGA-----CT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16314826 19 +  18395747 G-AG-AAAAAA---ATCTTAGA-----CT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5327238 20 +  26952557 G-AGAAAAAAA---ATCTTAGA-----CT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28427566 19 +  82825804 G-AG-AAAAAA---ATCTTAGA-----CT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4097430 20 -   4237731 G-AGAAAAAAA---ATCTTAGA-----CT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365966 19 -   1175262 G-AG-AAAAAA---ATCTTAGA-----CT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123720672 17 - 204313951 G----GAAAAT---GTCTTTGA-----TT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55764287 17 -  71252344 G----AAAAAT---ATCTTAGA-----TT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       67833 17 -   3089952 G----AAAAAT---ATCTTAGA-----TT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13268074 17 -  42888418 G----AAAAAT---ATCTTAGA-----TT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60599363 20 + 108143057 GAAA-AAAAAA---ATCTTAGA-----TT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3634908 19 +  11683526 G-AA-AAAAAA---ATCTTGGA-----TT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3125240 27 +   4132165 A-GA-AAAGAATCTATCTCAGATTTTCTT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14966317 18 +  74389097 G-AA-AAAGAA---ACCTTATT-----T-
i canFam3.chr11            I 4 C 0
s dasNov3.JH567306           2688962 19 +   3667625 G-AA-AAAAGT---AAGTCATG-----TT
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55562554 24 +  90702639 I

a score=6593994.000000
s hg38.chr5_KI270796v1_alt    141579 375 +    172708 TTTATTGGCTCTGCTGTTT-TGC-----------AATACAAATGCAAACTCCCTAAAGAAATGAGATGTGTCAAGTAGTGCTTGAAACACGGCCTCTTACAAA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCTGCAAGTTTCAGTTTGCAGCAGCACCATATGCAGTGGCAGCTGAGCACTGGGAGCTTGGAGA-CCAGGGATCTTTTGGAACCCAATAAAGAAATTGTGACTTGCATGCAAAGTGCTAAAGAATCACTTTTCCGTAGTTCTAAATTATGCTGAGACTTCAAGGGGATAAAAAAGAACAAAGAAACATATTGCATTTCCAACCTGATGATCTTTAACAGAGAGCTAAGCAAATTAAGATGAAATTAATTATATG-TAAAATAT-CCCCCC
s panTro5.chr5             125244877 374 + 181907262 TTTATTGGCTCTGCTGTTT-TGC-----------AATACAAATGCAAACTCCCTAAAGAAATGAGATGTGTCAAGTAGTGCTTGAAACACGGCCTCTTACAAA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCTGCAAGTTTCAGTTTGCAGCAGCACCATATGCAGTGGCAGCTGAGCACTGG-AGCTTGGAGA-CCAGGGATCTTTTGGAACCCAATAAAGAAATTGTGACTTGCATGCAAAGTGCTAAAGAATCACTTTTCCGTAGTTCTAAATTATGCTGAGACTTCAAGGGGATAAAAAAGAACAAAGAAACATACTACATTTCCAACCTGATGATCTTTAACAGAGAGCTAAGCAAATTAAGATGAAATTAATTATATG-TAAAATAT-CCCCCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126581614 374 + 183735486 TTTATTGGCTCTGCTGTTT-TGC-----------AATACAAATGCAAACTCCCTAAAGAAATGAGATGTGTCAAGTAGTGCTTGAAACACGGCCTCTTACAAA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCTGCAAGTTTCAGTTTGCAGCAGCACCATATACAGTGGCAGCTGAGCACTGG-AGCTTGGAGA-CCAGGGATCTTTTGGAACCCAATAAAGAAATTGTGACTTGCATGCAAAGTGCTAAAGAATCACTTTTCCGTAGTTCTAAATTATGCTGAGACTTCAAGGGGATAAAAAAGAACAAAGAAACATACTACATTTCCAACCTGATGATCTTTAACAGAGAGCTAAGCAAATTAAGATGAAATTAATTATATG-TAAAATAT-CCCCCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1773353 374 +   8933513 TTTATTGGCTCTGCTGTTT-TGC-----------AATACAAATGCAAACTCCCTAAAGAAATGAGATGTGTCAAGTAGTGCTTGAAACACGGCCTCTTACAAA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCTGCAAGTTTCAGTTTGCAGCAGCACCATATGCAGTGGCAGCTGAGCACTGG-AGCTTGGAGA-CCAGGGATCTTTTGGAACCCAATAAAGAAATTGTGACTTGCATGCAAAGTGCTAAAGAATCACTTTTCTCTAGTTCTAAATTATGCTGAGACTTCAAGGGGATAAAAAAGAACAAAGAAACATATTGCATTTCCAACCTGATGATCTTTAACAGAGAGCTAAGCAAATTAAGATGAAATTAATTATATG-TAAAATAT-CCCCCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139907732 375 + 163208435 TTTATTGGCTCTGCTGTTT-TGC-----------AGTACAAATGCAGACTCCCTAAAGAAATGAGATGTGTCAAGTAGTGCTTTAAATACGGCCTCTTACAAA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCTGGAAGTTTCAGTTTGCAGCAGCACCATATGCAGTGGCAGCTGAGCACTGG-AGCTTGGAGACCCAGGGATCTTTTCGAACCCAAAAAAGAAATTGTGACTTGCATGCAAAGTGCTAAAGAATCACTTTTCCCTAGTTCTAAATTATGCTGAGACTTCAAGGGGATAAAAAAG-ACAAAGAAACATACTGTATTTCCCACCTGATGATCTTTAACAGAGAACTAAGCAAATTAAGATGAAATTAATTATATG-TAAAATATCCCCCCC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122892582 373 + 180051392 TTTGTTGGCTCTGCTGTTT-TGC-----------AATACAAATGCAAACTCCCTAAAGAAATGAGATGTGTCAAGTACTGCTTTAAACACGGCCTCTTACAAA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCTGCAAGTTTCAGTTTGCAGCAGCACCATATGCAGTGGCAGCTGAGCACTGG-AGCTTGGAGA-CCAGGGATCTTTTGGAACCCAATAAAGAAATTGTGACTTGCATGCAAAGTGCTAAAGAATCACTTTTCCCTGGTTCTAAATTATGCTGAGACTTCAAGAGGATAAAAAAG-ACAAAGAAACATATTGCATTTCCAACCTGATGATCTTTAACAGAGAGCTAAGCAAATTAAGATGAAATTAATTATATG-TAAAAGAT-CCCCCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124316199 373 + 181584905 TTTGTTGGCTCTGCTGTTT-TGC-----------AATACAAATGCAAACTCCCTAAAGAAATGAGATGTGTCAAGTACTGCTTTAAACACGGCCTCTTACAAA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCTGCAAGTTTCAGTTTGCAGCAGCACCATATGCAGTGGCAGCTGAGCACTGG-AGCTTGGAGA-CCAGGGATCTTTTGGAACCCAATAAAGAAATTGTGACTTGCATGCAAAGTGCTAAAGAATCACTTTTCCCTGGTTCTAAATTATGCTGAGACTTCAAGAGGATAAAAAAG-ACAAAGAAACATATTGCATTTCCAACCTGATGATCTTTAACAGAGAGCTAAGCAAATTAAGATGAAATTAATTATATG-TAAAAGAT-CCCCCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16314845 373 +  18395747 TTTGTTGGCTCTGCTGTTT-TGC-----------AATACAAATGCAAACCCCCTAAAGAAATGAGATGTGTCAAGTACTGCTTTAAACACGGCCTCTTACAAA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCTGCAAGTTTCAGTTTGCAGCAGCACCATATGCAGTGGCAGCTGAGCACTGG-AGCTTGGAGA-CCAGGGCTCTTTTGGAACCCAATAAAGAAATTGTGACTTGCATGCAAAGTGCTAAAGAATCACTTTTCCCTGGTTCTAAATTATGCTGAGACTTCAAGAGGATAAAAAAG-ACAAAGAAACATATTGCATTTCCAACCTGATGATCTTTAACAGAGAGCTAAGCAAATTAAGATGAAATTAATTATATG-TAAAAGAT-CCCCCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5327258 373 +  26952557 TTTATTGGCTCTGCTGTTT-TGC-----------AATACAAATGCAAACTCCCTAAAGAAATGAGATGTGTCAAGTACTGCTTTAAACACGGCCTCTTACAGA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCTGCAAGTTTCAGTTTGCAGCAGCACCATATGCAGTGGCAGCTGAGCACTGG-AGCTTGGAGA-CCAGGGATCTTTTGGAACCCATTAAAGAAATTGTGACTTGCATGCAAAGTGCTAAAGAATCACTTTTCCCTGGTTCTAAATTATGCTGAGACTTCAAGAGGATAAAAAAG-ACAAAGAAACATATTGCATTTCCAACCTGATGATCTTTAACAGAGAGCTAAGCAAATTAAGATGAAATTAATTATATG-TAAAAGAT-CCCCCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28427585 373 +  82825804 TTTATTGGCTCTACTGTTT-TGC-----------AATACAAATGCAAACTCCCTAAAGAAATGAGATGTGTCAAGTACTGCTTTAAACATGGCCTCTTACAAA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCTGCAAGTTTCAGTTTGCAGCAGCACCATATGCAGTGGCAGCTGAGCACTGG-AGCTTGGAGA-CCAGGGATCTTTTGGAACCCAATAAAGAAATTGTGACTTGCATGCAAAGTGCTAAAGAATCACTTTTCCCTGGTTCTAAATTATGCTGAGACTTCAAGAGGATAAAAAAG-ACAAAGAAACATATTGCATTTCCAACCTGATGATCTTTAACAGAGAGCTGAGCAAATTAAGATGAAATTAATTATATG-TAAAAGAT-CCCCCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4097450 373 -   4237731 TTTATTGGCTCTGCTGTTT-TGC-----------AATACAAATGCAAACTCCCTAAAGAAATGAGATGTGTCAAGTACTGCTTTAAACACGGCCTCTTACAGA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCTGTAAGTTTCAGTTTGCAGCAGCACCATATGCAGTGGCAGCTGAGCACTGG-AGCTTGGAGA-CCAGGGATCTTTTGGAACCCATTAAAGAAATTGTGACTTGCATGCAAAGTGCTAAAGAATCACTTTTCCCTGGTTCTAAATTATGCTGAGACTTCAAGAGGATAAAAAAG-ACAAAGAAACATATTGCATTTCCAACCTGATGATCTTTAACAGAGAGCTAAGCAAATTAAGATGAAATTAATTATATG-TAAAAGAT-CCCCCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      365985 373 -   1175262 TTTATTGGCTCTGCTGTTT-TGC-----------AGTACAAATGCAAATTCCCTAAAGAAATGAGATGTGTCAAGTACTGCTTTAAACACGGCCTCTTGCAAA-----------------------------------------------------------CATTGGGAATGAT---------------------------------------------TATTTCTGCAAGTTTCAGTTTGCAGCAGCACCATATGCAGTGGCAGCTGAGCACTGG-AGCTTGGAGA-CCAGGGATCTTTTGGAACCCAATAAAGAAATTGTGACTTGCATGCAAAGTGCTAAAGAATCACTTTTCCCTGGTTCTAAATTATGCTGAGACTTCAAGAGGATAAAAAAG-ACAAAGAAACATATTGCATTTCCAACCTGATGATCTTTAACAGAGAGCTGAGCAAATTAAGATGAAATTAATTATATG-TAAAAGAT-CCCCCC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123720689 370 - 204313951 TTTATTGGCTCTGCTGTTTTTGC-----------AATACAAATGCAAGCTTCCTAAAGAAATGAGATGTGTCAAACAGTGCTTTAAACATGGCCTCTTGAAAA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCTGCAAGTTTCAGTTT-CAGCAGCGACATATGCAGTGGCAGCTGAGCACTGG-AGCTTGGAGA-CCAGGGATCTTTTGGAACCCAACAAAGAAACTGTGACTTGCATGCAAAGTGCTAAAGAATCACTTTTCCCTACTTATAAATTATGCTGAGACTTCAAGGGGATAAAAAAG-ACAAAGAAATATATTGTATTCCCAACCTGATGATCTTTTACAGAAAGCTAAGCAAATTCAGATGAAATTAATTAAATG-AAAAACA--CCCC--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55764304 365 -  71252344 TTTATTGGCTCTGCTGTTTTTGT-----------AGTACAAATGCAAGCTACCTAAAGAAATGAGATGTGTCAAGTAGTGCATTAAACATGGCCTCTTGAAAA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCTGCAAGTTTCAGTTTGCAGCGGCAACATATGCAGTGGCAGCTGAGCACTGG-AGCTTGGAGA-CCAGGGATCTTTAGGAACCCA--AATGAAACTGTGACTTGCATGCAAAGTGCTAAAGAATCACTTTTCCCTAGTTCTAAATTATGCTGAGACTTCTAGGGGATAAAAAAG-ACAAAGAAACATATTGTATTCCCAACCTGATGATCTTTAACAGAAAGCTAAGCAAATTAAGATGAAATTAATTATATG-AAAAATA--------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       67850 372 -   3089952 TTTATTGTCTCTGCTGTTTCTGC-----------AACACAAATGCAAGCTACCTAAAGAAATGAGATGTGTCAAGTAGTGCTTTAAACACAGCCTCTTGAAAA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCTGCAAGTTTCAGTTTGCAGCAGCAACATATGCAGTGGCAGCTGAGCACTGG-AGCTTGGAGA-CCAGGGATCTTTTGGAACCCAATAAAGAAACTGTGACTTGCATGCAAAGTGCTGAAGAGTCACTTTTCCCTGGTTCTAAATTATGCTGAGACTTCAAGGGGATAAAAAAG-ACAAAGAAATATATTGTATTCCCAACCTGATGATCTTTAACAGAAAGCTAAGCAAATTAAGATGAAATTAATTATATG-AAAAATAT-CCCC--
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13268091 372 -  42888418 TTTATTGGCTCTGCTGTTTTTGC-----------AATACAAATGCAAGCTACCTAAAGAAATGAGATGTGTCAAGTAGCGCTTTAAACACGGCCTCTTGAAAA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCTGCAAGTTTCGGTTTTCAGCAGCAACACATGCAGTGGCAGCTGAGCACTGG-AGCTTGGAGA-CCGGGGATCTTTTGGAACCCAATAAAGAAACTGTGACTTGAATGCAAAGTGCTAAAGAATCACTCTTCCTTAGTTCTAAATTATGCTGAGACTTCATGGGGATAAAAAAG-ACAAAGAAATATATTGTATTCCCAACCTGATGATCTTTAACAGAAAGCTAAGCAAATTAAGATGAAATTAATTATATG-AAAAATAT-CCCC--
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60599383 373 + 108143057 TTTATTGGCTCAGCTGTTT-TGC-----------AATACAAATTCAAGCTCCCTAAAGAGATGAGATGTGTCAAGTAGTGCTTTAAACACAGACTCTTAAAAA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCTGCAAGTTTTGGTTTGCAGCAGCAACATATGCAGTGGCAGCTGAGTACCGG-AGGTTGGAGA-CCAGGGATCTCTTGGAACCCAATAAGGAAATTGTGACTTGCATGCAAAATGCAAAAGAATCACTTTTCCCTAGTTCTAAATTATGCTGAGACATCAGGGAGATAAAAAAG-ACAAAGAAACATATTGCATTTTCAATCTGATGATCTTCGACACAAAGCTAAGCAAATTAAGATGAAATTAATTATATG-AAAAATAT-CCCCCC
i micMur3.chr12            C 0 I 36
s proCoq1.NW_012155062v1     3634927 373 +  11683526 TTTATTGGCTCTGCTGTTT-TAC-----------AATACAAATTCAAGCTCCCTAAAGAGATGAGACGTGTCAAGTAGTGCTTTAAACACAGACTCTTAAAAA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCTGCAAGTTTTAGTTTGCAGCAGCAACATATGCAGTGGCAGCTGAGTACCGG-AGGTTGGAGA-CCAGGGATCTCTTGGAACCCAATAAGGAAATTGTGACTTGCATGCAAAATGCAAAAGAATCACTTTTCCCTAGTTCTAAATTATGCTGAGACTTCAGGGAGATAAAAAAG-ACAAAGAAACATATTGCATTTTCTATCTGATGATCTTCAACAGAAAGCTAAGCAAATTAAGATGAAATTAATTGTATG-AAAAACAT-CCCCCC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3125267 374 +   4132165 TTTATTGGCTCTTCTGTTT-TGC-----------AATACAAATTTGAGCTCCCTAAAGAGAGGAGATTTGTCAAGTAGTGCTTTAAACACAGCCTCTTAAAAA-----------------------------------------------------------CATAGGGAATAAT---------------------------------------------TATTTCTGCAAATTTTAGTTTGCAGTAGCAACATATGTAGTGGCAGCTGAGTACCGG-AGGTTGGAGA-CCAGGAATCTTTTGGAACCCAAGAAGGAAATTGTGACTTGCATGCAAAGTGTACAAAAATCACTTTTCCCTCGTTCTAAATTATGCTGAGACTTCAGGGAGATTAAAAAG-ACAAAGAAACATATTGCATTTTCAATCTGATCATCTTCAACAGAAAGCTAAGCAAATTAAGATGAAATTAATGATATGAAAAAATAC-CCTCCC
i otoGar3.GL873679         C 0 I 6
s mm10.chr18                55562578 359 +  90702639 TCCCCTGGCTTTGTTGGCT-TTC-----------AGTACAATTTAAATCTCCCCAAAGAAACACGATATGTCAAGTAGTGCTTTAAATACAGCCTCTTTAGAA-----------------------------------------------------------CCCAGGGAATGAT---------------------------------------------TATTTCAGCCAGTTTTACATTTCAGCAGAAACATATGCAGCAGCAGCTGAACACTGG-AGCTTGGAGA-CCACGGATCTTCTGGAACCCAGCAAGGAGACTGTGACTTGCATGCAAAATACCAGAGAATCACTTTCCCTCATTTGTGAATTAAGCTGAGACTTCAGGAGGATAAAGAAG-ACAAAGAAACATATTGCGTTTTCAATCTGATGATCTTCAACAGAACTCAAAGCAAATTCTGATGAAATTAATTACATA----------------
i mm10.chr18               I 24 C 0
s canFam3.chr11             14966335 379 +  74389097 CTTATTGGCTCTTCTGTTT-TACATTTGCTTTTGAATTCGAATTCCAGTTCCCTAAAGAAATGAGATGTGTCAAGTAGTACTTTAAACACAGCCTCTTAAAAA-----------------------------------------------------------CATAGGGAATGAT---------------------------------------------TATTTCAGCAAGTTTTACTTTTCAGCAGCAACATATGCAGTGGCAGCTGTGTATCGG-AGCTTGGAGA-CCAGGGATCCTTTGGAACCCAATAAGGAAACTGTGACTTGCATGCAAAGTGCAAAGGAATCGCTTTTGCCTCATTCTGAATTATGCTGAGACTTCAGGGGGATAAAAGAG-AC----AAACATATTGCAGTTTCAATCTGATGATCTTCTACAGAAAGCTAAGCAAATTAAGATGAAATTAATTATATG--AAACTAT-CCCCCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2688981 471 +   3667625 TTTCTTGGCTCTGTTGTTT-TGC-----------CATATGAATTCAAGCTCCCTAAAGAAATGAGATGTGTCAAGTAGTGCTTTAAACACAGCCTCTTAAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAATCCAAGCTCCCTAAGAAATGAGATGTGTCAAGTAGTGCTTAACACAGCTCTTTAAACATTTGTAATATATTTCAGCAAGTTT-AGTTT-CAGCAGCAACATATGCAGT-GCAGCTGTGTACTGC-AGCTTGGAGA-CCAGGGATCCTGCGGAACCCA-TAAAGAAACTGTGACTTGCATGCAAAGCGCAAAAGAATCACTTTTCCCTAGTTCTAAATTATGCTGAGACTTCAGGGGAATAAAAAAG-ACAAAGAAACATATTGCAATTTCAATCTGATGATCTCT-ACAGAAAGCTAAGCAAATTAAGATGAAATTAATTATGTG-AAAAATCC-CACCC-
i dasNov3.JH567306         C 0 C 0

a score=331060.000000
s hg38.chr5_KI270796v1_alt    141954 32 +    172708 --ACCCCAAATTTTTCAAATAATATTGAAAAATC
s panTro5.chr5             125245251 32 + 181907262 --ACCCTAAATTTTTCAAATAATATTGAAAAATC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126581988 32 + 183735486 --ACCCTAAATTTTTCAAATAATATTGAAAAATC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1773727 32 +   8933513 --ACCCCAAATTTTTCAAATAATATTGAAAAATC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139908107 32 + 163208435 --ACCCTACATTTTTCAAATAATATTGAAAAATC
i nomLeu3.chr2             C 0 I 3
s rheMac8.chr6             122892955 32 + 180051392 --ACCCTCAATTTTTCAAATAATATTGAAAAATC
i rheMac8.chr6             C 0 I 3
s macFas5.chr6             124316572 32 + 181584905 --ACCCTCAATTTTTCAAATAATATTGAAAAATC
i macFas5.chr6             C 0 I 3
s macNem1.NW_012012355v1    16315218 32 +  18395747 --ACCCTCAATTTTTCAAATAATATTGAAAAATC
i macNem1.NW_012012355v1   C 0 I 3
s cerAty1.NW_012002512v1     5327631 32 +  26952557 --ACCCTCAATTTTTCAAATAATATTGAAAAATC
i cerAty1.NW_012002512v1   C 0 I 3
s chlSab2.chr23             28427958 32 +  82825804 --ACCCTCAATTTTTCAAATAATATTGAAAAATC
i chlSab2.chr23            C 0 I 3
s manLeu1.NW_012103321v1     4097823 32 -   4237731 --ACCCTCAATTTTTCAAATAATATTGAAAAATC
i manLeu1.NW_012103321v1   C 0 I 3
s colAng1.NW_012119644v1      366358 32 -   1175262 --ACCCTCAATTTTTCAAATAATATTGAAAAATC
i colAng1.NW_012119644v1   C 0 I 3
s calJac3.chr2             123721059 31 - 204313951 ---ACCTAAATTTTTCAAATAACATTGAAAAATT
i calJac3.chr2             C 0 I 3
s saiBol1.JH378106          55764669 20 -  71252344 --------------TCAAATAGTATTGAAAAATT
i saiBol1.JH378106         C 0 I 3
s cebCap1.NW_016107590v1       68222 31 -   3089952 ---ACCTAATTTTTTCAAATAACATTGAAAAATT
i cebCap1.NW_016107590v1   C 0 I 3
s aotNan1.NW_018505940v1    13268463 31 -  42888418 ---ACCTAAATTTTTCAAATAACATTGAAAAATT
i aotNan1.NW_018505940v1   C 0 I 3
s proCoq1.NW_012155062v1     3635300 32 +  11683526 --CACCCCAATCCATCAAGTCATACTGAAAAATC
i proCoq1.NW_012155062v1   C 0 I 3
s otoGar3.GL873679           3125647 32 +   4132165 --AAACCCAATCCCTCAAATTATATTGAAAAATC
i otoGar3.GL873679         I 6 I 3
s mm10.chr18                55562937 28 +  90702639 -----CCAAATCCTTTAA-TAATACTGACAAGGC
i mm10.chr18               C 0 I 5
s canFam3.chr11             14966714 19 +  74389097 --CCCCCACTTCCTGTGAGTA-------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2689452 34 +   3667625 ACCACCAAAATCCTCCAAGTAATATGGAAAAATC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60599756 36 + 108143057 I

a score=11107068.000000
s hg38.chr5_KI270796v1_alt    141986 657 +    172708 ----CTTTTCTGCAGCAGGCAG--TGTAGTGTC-AGCTACATGTCTTTGCTCATT------------------AAAAATAATATCATTTTTATTGTG------------TCTTCTCAACA-------------TTA-TCAAAAGATTCAAAACCATGGTG-AAAGATCAAGGAGAAAATTTATTCCTCAGG-------TGTTGACTCTGTTCCCAAGTCACTCAAGCATTGCTCCATTGCTCTGTGTCAGCCTCAGAACACTCAATTCAATTATAAGCTGCAGCCATGAGGGATCATGTTTTAATCTGTGTATAAACAAAGGAATAAAATAAAAACATCACATTTACAAATTC-TAAAGATGCTG---CTTTTT-ATAATCTGAAACCAGGAATTATTGCAATCATATTACTTGATTCCCATAATGGGAAGAAATA-GGGCACATCTGCATGTAAAGC---CAGGCATCC-CTACTACAAATGACATACAATTAATGTGAAAATCATCACCCACTAGAAGCAA---AAGGAAGACATCTAAGAATGCCATACAGTCGTGTATTTAACAATAGCTGTCATGTATTAAAAGACGCACATTTTCACATTATTGCTTTTCTAAAGAACCTGATTCATTTAGTTTCCCGAAAATAGGAAAA--GAATCAGAAAAAGTAAGCTCAGTTTTCTAGCCATGGTCTAGCCCC-TTTTAGGTAGGTTTCTGGAATCTAAATG
s panTro5.chr5             125245283 657 + 181907262 ----CTTTTCTGCAGCAGGCAG--TGTAGTGTC-AGCTACATGTCTTTGCTCATT------------------AAAAATAATATCATTTTTATTGTG------------TCTTCTCAACA-------------TTA-TCAAAAGATTCAAAACCATGGTG-AAAGATCAAGGAGAGAATTTATTCCTCAGG-------TGTTGACTCTGTTCCCAAGTCACTCAAGCATTGCTCCATTGCTCTGTGTCAGCCTCAGAACACTCAATTCAATTATAAGCTGCAGCCATGAGGGATCATGTTTTAATCTGTGTATAAACAAAGGAATAAAATAAAAACATCACATTTACAAATTC-TAAAGATGCTG---CTTTTT-ATAATCTGAAACCAGGAATTATTGCAATCATATTACTTGATTCCCATAATGGAAAGAAATA-GGGCACATCTGCATGTAAAGC---CAGGCATCC-CTACTACAAATGACATACAATTAATGTGAAAATCATCACCCACTAGAAGCAA---AAGGAAGACATCTAAGAATGCCATACAGCCGTGTATTTAACAATAGCTGTCATGTATTAAAAGATGCACGTTTTCACATTATTGCTTTTCTAAAGAACCTGATTCATTTAGTTTCCCGAAAATAGGAAAA--GAATCAGAAAAAGTAAGCTCAGTTTTCTAGCCATGGTCCAGCCCC-TTTTAGGTAGGTTTCTGGAATCTAAATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126582020 657 + 183735486 ----CTTTTCTGCAGCAGGCAG--TGTAGTGTC-AGCTACATGTCTTTGCTCATT------------------AAAAATAATATCATTTTTATTGTG------------TCTTCTCAACA-------------TTA-TCAAAAGATTCAAAACCATGGTG-AAAGATCAAGGAGAGAATTTATTCCTCAGG-------TGTTGACTCTGTTCCCAAGTCACTCAAGCATTGCTCCATTGCTCTGTGTCAGCCTCAGAACACTCAATTCAATTATAAGCTGCAGCCATGAGGGATCATGTTTTAATCTGTGTATAAACAAAGGAATAAAATAAAAACATCACATTTACAAATTC-TAAAGATGCTG---CTTTTT-ATAATCTGAAACCAGGAATTATTGCAATCATATTACTTGATTCCCATAATGGAAAGAAATA-GGGCACATCTGCATGTAAAGC---CAGGCATCC-CTACTACAAATGACATACAATTAATGTGAAAATCATCACCCACTAGAAGCAA---AAGGAAGACATCTAAGAATGCCATACAGTCGTGTATTTAACAATAGCTGTCATGTATTAAAAGATGCACGTTTTCACATTATTGCTTTTCTAAAGAACCTGATTCATTTAGTTTCCCGAAAATAGGAAAA--GAATCAGAAAAAGTAAGCTCAGTTTTCTAGCCATGGTCCAGCCCC-TTTTAGGTAGGTTTCTGGAATCTAAATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1773759 657 +   8933513 ----CTTTTCTGCAGCAGGCAG--TGTAGTGTC-AGCTACATGTCTTTGCTCACT------------------AAAAAAAATATCATTTTTATTGCG------------TCTTCTCAACA-------------TTA-TCAAAAGATTCAAAACCATGGTG-AAAGATCAAGGAGAAAATTTATTCCTCAGG-------TGTTGACTCTGTTCCCAAGTCACTCAAGCATTGCTCCATTGCTCTGTGTCAGCCTCAGAACACTCAATTCAATTATAAGCTGCAGCCATGAGGGATCATGTTTTAATCTGTGTATAAACAAAGGAATAAAATAAAAACATCACATTTACAAATTC-TAAAGATGCTG---CTTTTT-ATAACCTGAAACCAGGAATTATTGCAATCATATTACTTGATTCCCATAATGGGAAGAAATA-GGGCACATCTGCATGTAAAGC---CAGGCATCC-CTACTACAAATGACATACAATTAATGTGAAAATCATTACCCACTGGAAGCAA---AAGGAAGACATCTAAGAATGCCATGCAGTCGTGTATTTAACAATAGCTGTCATGTATTAAAAGACGCACATTTTCACATTATTGCTTTTCTAAAGAACCTGATTCATTTAGTTTCCCGAAAATAGGAAAA--GAATCAGAAAAAGTAAGCTCAGTTTTCTAGCCATGGTCCAATCCA-TTTTAGGTAGGTTTCTGGAATCTAAATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139908142 657 + 163208435 ----CTTTTCTGCAGCAGGCAG--TGTAGTGTC-AGCTACACGTCTTTGCTCATT------------------AAAAAAAATATCATTTTTGTTGTG------------TCTTCTCAACA-------------TTA-TCAAAAGATTCAAAATCATGGTG-AAAGATCAAGGAGAAAATGTATTCCTCAGG-------TGTTGACCCTGTTCCCAAGTCACTCAAGCATTGCTCCATTGCTCTGTGGCAGCCTGAGAACACTCAATTCAATTATAAGCTGCAGCCATGAGGGATCATGTTTTAATCTGTGTATAAACAAAGGAATAAAATAAAAACATCACATTTACAAATTC-TAAAGATGCTG---CTTTTT-ATAATCTGAAACCAGGAATTATTGCAATCATATTACTTGATTCCCATAATGGGAAGAAATA-GGGCGCATCTGCATGTAAAGC---CAGGCATCC-CTACTACAAATGACATACAATTAATGTGAAAATCACCACCCACTAGAAGCAA---AAGGAAGACATCTAAGAATGCCATACAGTCGTGTATTTAACAATAGCTGTCATGTATTAAAAGACGCACATTTTCACATTATTGCTTTTCTGAAGAACCTGATTCGTTTAGTTTCCCGAAAATGGGAAAA--TAATCAGAAAAAGTGAGCTCAGTTTTCTAGCCATGGTCTAGCCCC-TTTTAGGTAGGTTTCTGGAATCTAAATG
i nomLeu3.chr2             I 3 C 0
s rheMac8.chr6             122892990 663 + 180051392 ----CTTTTCTGCAGCAGGCAG--TGTAGTGTC-AGCTACATGTCTTTGCTCATT-------------------AAAAAAATACCATTTTTATTGTG------------TCTTCTCAACA-------------TTA-TCAAAAGATTCAAGACCATGGTG-AAAGATCAAGGAGAAAATTTATTCCTCAGGTGTTGACTGTTGACTGTGTTCCCAAGTCACTCAAGCATTGCTCCATTGCTCTGTGGCAGCCTCAGAACACTCAATTCAATTATAAGCTGCAGCCATGAGGGATCATGTTTTAATCTGTGTATAAACAAAGGAATAAAATAAAAACATCACATTTACAAATTC-TAAAGATGCTG---GTTTTT-ATAATCTGAAACCAGGAATTATTGCAATCATATTACTTGATTCCCATAATGGGAAGAAATA-GGGCACATCTGCATGTAAAGC---CAGGCATCC-CTACTACAAATGACGTACAATTAATGTGAAAATCACCACCCACTAGAAGCAA---AAGGAAGACATCTAAGAATGCCATACAGTCGTGTATTTAACAATAGCTGTCATGTATTAAAAGACGCACATTTTCCCGTTATTGCTTTTCTAAAGAACCTGATTCATTTAGTTTCCCCAAAATAGGAAAA--GAATCAGAAAAAGTGAGCTGAGTTTTCTAGCCATGGTCTAGCCCC-TTTTAGGTAGGTTTCTGGGATCTAAATG
i rheMac8.chr6             I 3 C 0
s macFas5.chr6             124316607 663 + 181584905 ----CTTTTCTGCAGCAGGCAG--TGTAGTGTC-AGCTACATGTCTTTGCTCATT-------------------AAAAAAATACCATTTTTATTGTG------------TCTTCTCAACA-------------TTA-TCAAAAGATTCAAGACCATGGTG-AAAGATCAAGGAGAAAATTTATTCCTCAGGTGTTGACTGTTGACTGTGTTCCCAAGTCACTCAAGCATTGCTCCATTGCTCTGTGGCAGCCTCAGAACACTCAATTCAATTATAAGCTGCAGCCATGAGGGATCATATTTTAATCTGTGTATAAACAAAGGAATAAAATAAAAACATCACATTTACAAATTC-TAAAGATGCTG---GTTTTT-ATAATCTGAAACCAGGAATTATTGCAATCATATTACTTGATTCCCATAATGGGAAGAAATA-GGGCACATCTGCATGTAAAGC---CAGGCATCC-CTACTACAAATGACGTACAATTAATGTGAAAATCACCACCCACTAGAAGCAA---AAGGAAGACATCTAAGAATGCCATACAGTCGTGTATTTAACAATAGCTGTCATGTATTAAAAGACGCACATTTTCCCGTTATTGCTTTTCTAAAGAACCTGATTCATTTAGTTTCCCCAAAATAGGAAAA--GAATCAGAAAAAGTGAGCTGAGTTTTCTAGCCATGGTCTAGCCCC-TTTTAGGTAGGTTTCTGGGATCTAAATG
i macFas5.chr6             I 3 C 0
s macNem1.NW_012012355v1    16315253 663 +  18395747 ----CTTTTCTGCAGCAGGCAG--TGTAGTGTC-AGCTACATGTCTTTGCTCATT-------------------AAAAAAATACCATTTTTATTGTG------------TCTTCTCAACA-------------TTA-TCAAAAGATTCAAGACCATGGTG-AAAGATCAAGGAGAAAATTTATTCCTCAGGTGTTGACTGTTGACTGTGTTCCCAAGTCACTCAAGCATTGCTCCATTGCTCTGTGGCAGCCTCAGAACACTCAATTCAATTATAAGCTGCAGCCATGAGGGATCATGTTTTAATCTGTGTATAAACAAAGGAATAAAATAAAAACATCACATTTACAAATTC-TAAAGATGCTG---GTTTTT-ATAATCTGAAACCAGGAATTATTGCAATCATATTACTTGATTCCCATAATGGGAAGAAATA-GGGCACATCTGCATGTAAAGC---CAGGTATCC-CTACTACAAATGACGTACAATTAATGTGAAAATCACCACCCACTAGAAGCAA---AAGGAAGACATCTAAGAATGCCATACAGTCGTGTATTTAACAATAGCTGTCATGTATTAAAAGACGCACATTTTCCCGTTATTGCTTTTCTAAAGAACCTGATTCATTTAGTTTCCCCAAAATAGGAAAA--GAATCAGAAAAAGTGAGCTGAGTTTTCTAGCCATGGTCTAGCCCC-TTTTAGGTAGGTTTCTGGGATCTAAATG
i macNem1.NW_012012355v1   I 3 C 0
s cerAty1.NW_012002512v1     5327666 663 +  26952557 ----CTTTTCTGCAGCAGGCAG--TGTAGTGTC-AGCTACATGTCTTTGCTCATT-------------------AAAAAAATACCATTTTTATTGTG------------TCTTCTCAACA-------------TTA-TCAAAAGATTCAAGACCATGGTG-AAAGATCAAGGAGAAAATTTATTCCTCAGGTGTTGACTGTTGACTGTGTTCCCAAGTCACTCAAGCATTGCTCCATTGCTCTGTGGCAGCCTCAGAACACTCAATTCAATTATAAGCTGCAGCCATGAGGGATCATGTTTTAATCTGTGTATAAACAAAGGAATAAAATAAAAACATCACATTTACAAATTC-TAAAGATGCTG---GTTTTT-ATAATCTGAAACCAGGAATTATTGCAATCATATTACTTGATTCCCATAATGGGAAGAAATA-GGGCACATCTGCATGTAAAGC---CAGGCATCC-CTACTACAAATGACGTACAATTAATGTGAAAATCACCACCCACTAGAAGCAA---AAGGAAGACATCTAAGAATGCCATACAGTCGTGTATTTAACAATAGCTGCCATGTATTAAAAGACGCACATTTTCACGTTATTGCTTTTCTAAAGAACCTGATTCATTTAGTTTCCCCAAAATAGGAAAA--GAATCAGAAAAAGTGAGCTGAGTTTTCTAGCCATGGTCTAGCCCC-TTTTAGGTAGGTTTCTGGGATCTAAATG
i cerAty1.NW_012002512v1   I 3 C 0
s chlSab2.chr23             28427993 663 +  82825804 ----CTTTTCTGCAGCAGGCAG--TGTAGTGCC-AGCTACATGTCTTTGCTCATT------------------AAAAAAAATACCCTTTTTATTGTG------------TCTTCTCAACA-------------TTA-TCAAAAGATTCAAGACCATGGTG-AAAGATCAAGGAGAAAATTTATTCCTCAGGTGTTGACTGTTGACTGTGTTCCCAAGTCACTCAAGCATTGCTCCATTGCTCTGCGGCAGCCTCAGAACACTCAATTCAATTATAAGCTGCAGCCATGAGGGATCATGTTTTAATCTGTGTATAAACAAAGGAATAAAATAAAAACATCACATTTACAAATTC-TAAAGATGCTG---CTTTTT-ATAATCTGAAACCAGGAATTATTGCAATCATATTACTTGATTCCCATAATGGGAAGAAATA-GGGCACATCTGCATGTAAAGC---CA-GCATCC-CTACTACAAATGACATACAATTAACGTGAAAATCACCACCCACTAGAAGCAA---AAGGAAGACATCTAAGAATGCCATACAGTCGTGTATTTAACAATAGCTGTCATGTATTAAAAGACGCACATTTTCACGTTATTGCTTTTCTAAAGAACCTGATTCATTTAGTTTCCCCAAAATAGGAAAA--GAATCAGAAAAAGTGAGCTGAGTTTTCTAGCCATGGTCTAGTCCC-TTTTAGGTAGGTTTCTGGGATCTAAATG
i chlSab2.chr23            I 3 C 0
s manLeu1.NW_012103321v1     4097858 663 -   4237731 ----CTTTTCTGCAGCAGGCAG--TGTAGTGTC-AGCTACATGTCTTTGCTCATT-------------------AAAAAAATACCATTTTTATTGTG------------TCTTCTCAACA-------------TTA-TCAAAAGATTCAAGACCATGGTG-AAAGATCAAGGAGAAAATTTATTCCTCAGGTGTTGACTGTTGACTGTGTTCCCAAGTCACTCAAGCATTGCTCCATTGCTCTGTGGCAGCCTCAGAACACTCAATTCAATTATAAGCTGCAGCCATGAGGGATCATGTTTTAATCTGTGTATAAACAAAGGAATAAAATAAAAACATCACATTTACAAATTC-TAAAGATGCTG---GTTTTT-ATAATCTGAAACCAGGAATTATTGCAATCATATTACTTGATTCCCATAATGGGAAGAAATA-GGGCACATCTGCATGTAAAGC---CAGGCATCC-CTACTACAAATGACGTACAATTAATGTGAAAATCACCACCCACTAGAAGCAA---AAGGAAGACATCTAAGAATGCCATACAGTCGTGTATTTAACAATAGCTGCCATGTATTAAAAGACGCACATTTTCACGTTATTGCTTTTCTAAGGAACCTGATTCATTTAGTTTCCCCAAAATAGGAAAA--GAATCAGAAAAAGTGAGCTGAGTTTTCTAGCCATGGTCTAGCCCC-TTTTAGGTAGGTTTCTGGGATCTAAATG
i manLeu1.NW_012103321v1   I 3 C 0
s colAng1.NW_012119644v1      366393 663 -   1175262 ----CTTTTCTGCAGCAGGCAG--TGTAGTGTC-AGCTACATGTCTTTGCTCATT-------------------AAAAAAATACCATTTTTATTGTG------------TCTTCTCAACA-------------TTA-TCAAAAGATTCAAGACCATGGTG-AAAGATCAAGGAGAAAATGTATTCTTCAGGTGTTGACTGTTGACTGTGTTCCCAAGTCACTCAAGCATTGCTCCATTGCTCTGTGGCAGCCTCAGAACACTCAATTCAATTATAAGCTGCAGCCATGAGGGATCATGTTTTAATCTGTGTATAAACAAAGGAATAAAATGAAAACATCACATTTACAAATTC-TAAAGATGCTG---CTTTTT-ATAATCTGAAACCAGGAATTATTGCAATCATATTACTTGATTCCCATAATGGGAAGAAATA-GGGCACATCTGCATGTAAAGC---CAGGCATCC-CTACTACAAATGACATACAATTAATGTGAAAATCACCACCCACTAGAAGCAA---AAGGAAGACATCTAAGAATGCCATACAGTCGTGTATTTAACAATAGCTGTCATGTATTAAAAGACGCACATTTTCACGTTATTGCTTTTCTAAAGAACCTGATTCATTTAGTTTCCCCAAAAAAGGAAAA--GAATCAGAAAAAGTGAGCTGAGTTTTCTAGCTATGGTCTAGCCCC-TTTTAGGTAGGTTTCTGGGATCTAAATG
i colAng1.NW_012119644v1   I 3 C 0
s calJac3.chr2             123721093 658 - 204313951 ----CTTTTCTGCAGCAGGCAG--TGTAATGTC-AGCTACATTTCTTTGCTCATT--------------------AAAAAATATCATTTTTATTGTG------------TCTTCTCGACA-------------TTA-TCAAAAGATTCAACACCATGGTG-AAAGATCAAGGAGAAAATTTATTTCTCAGG-------TGTTGACTCTGTTCCCAAGTCACTCGAGCATTGCTGCATTGCTCTGTGGCAGCCTCAGAACACTCAATTCAATTATAAGCTGCAGCCATGAGGGATCATGTTTTAATCTGTGTATAAACAAAGGAATAAAATAAAAACATCACATTTACAAATTC-TAAAGATGCTT---GTTTTT-ATCATCGGAAACCAGGAATTATTGCAATCAT-TTACTTGATTCCCATAATGGGAAGAAATA-GGGCACATCTGCATGTAAAGC---CAGGCATAC-TCACTACAAATGATATACAATTAATGTGAAAATCACCACCCACTAGAAGCAAAGGAAGAAAGACATCTAAAAATGCCATACGGCCGTGTATTTAACAATAGCTGTCATGTATTAAAAGATGCACGTTTTCACATTATTGCCTTTCCAAAGAACCTGATTGATTTGGTTTCCTGAAAATAAGAAGA--GAATCAGAAAAAGTGAGCTCAGCTTTCTAGCCATGGTCTAGCCCCATTTTAGGTAGGCTTCTGGAATCTAAATG
i calJac3.chr2             I 3 C 0
s saiBol1.JH378106          55764692 654 -  71252344 ----CTTTTCTGCAGCAGGCAG--TGTAGTGTC-AGCTACATTTCTTTGCTCATT--------------------AAAAAATATCATTTTTATTGTG------------TCTTCTCAACA-------------TTA-TCAAAAGATTCAACACCATAGTG-AAAGATCAAGGAGAAAATTTATTCCTCAGG-------TGTTGACTCTGTTCCCAAGTCACTCAAGCATTGCTGCATTCCTCTGTGGCAGCCTCAGAACACTCAATTCAATTATAAGCTGCAGCCATGAGGGATCATGTTTTAATCTGTGTATAAACAAAGGAATAAAATAAAAACATCACATTTACAAATTC-TAAAGATGCTG---TTTTTTAATAATCTGAAACCAGGAATTATTGCAATCAT-TTACTTGATTCCCATAATGGGAAGAAATA---GCACATCTGCATGTAAAGC---CAGGCATCC-TCCCTACAAATGACATACAATTAATGTGAAAATCACCACCCACTAGAAGCAA---AAGGAAGACATCTAAAAATGCCATACGGTTGTGTATTTAACAATAGCTGTCATGTATTAAAAGACGCACGTTTTCACAGTATTGCTTTTCCAAAGAACCTGATTCATTTTGTTTCCTGAAAATAAGAAGA--GAATCAGAAAAAGTGAGCTCAGCTTTCTGGCCATGGTCTAGCCCCATTTTAGGTAGGTTTCTGGAATCTAAATG
i saiBol1.JH378106         I 3 C 0
s cebCap1.NW_016107590v1       68256 658 -   3089952 ----CTTTTCTGCAGCAGGCAG--TGTAGTGTC-AGCTACATTTATTTTCTCATT--------------------AAAAAATATCATTTTTATTGTG------------TCTTGTCGGCA-------------TTA-TCAAAAGATTCAACACTATGATG-AAAGATCAAGGAGAAAATTTATTCCTCAGG-------TGTTGACTCTGTTCCCAAGTCACTCAAGCATTGCTGCATTGCTCTGTGGCAGCCTCAGAACACTCAATTCAATTATAAGCTGCAGCCATGAGGGATCATGTTTTAATCTGTGTATAAACAAAGGAATAAAATAAAAACATCACATTTACAAATTC-TAAAGGTGCTGTATTTTTTT-ATAATCTGAAACCAGGAATTATTGCAATCAT-TTACTTGATTCCCATAACGGGAAGAAATA-GGGCACATCTGCATGTAAAGC---CAGGCATTC-TCACTACAAATGACATACAATTAATGTGAAAATCACCACCCACTAGAAGCAA---AAGGAAGACATCTAAAAATGCCATACGGTCGTGTATTTAACAATAGCTGTCATGTATTAAAAGACACACGTTTTCACATTATTGCTTTTCCAAAGAACATGATTCATTTTGTTTCCTGAAAATAAGAAGA--GAATCAGAAAAAGTGTGCTGAGCTTTCTAGCCATGGTCTAGCCCCATTTTTGGTAGGTTTCTGGAATCTAAATG
i cebCap1.NW_016107590v1   I 3 C 0
s aotNan1.NW_018505940v1    13268497 657 -  42888418 ----CTTTTCTGCAGCAGGCAG--TGTAGTGTC-AGCTACATTTCTTTGCTCATT--------------------AAAAAATATCATTTTTATTGTG------------TCTTCTCAACA-------------TTA-TCAAAAGATTCAACACCATGGTG-AAAGATCAAGGAGAAAATTTATTCCTCAGG-------TGTTGACTCTGTTCCCAAGTCACTCAAGCATTGCTGCATTGCTCTGTGGCAGCCTCAGAACACTCAATTCAATTATAAGCTGCAGCCATGAGGGATCATGTTTTAATCTGTGTATAAGCAAAGGAATAAAATAAAAACATCACATTCACAAATTC-TAAAGATGCTT-TTTTTTTT-ATAATCTGAAACCAGGAATTACTGCAATCAT-TTACTTGATTCCCATAATGGGAAGAAATA-GGGCACATCTGCATGTAAAGC---CAGGCATCC-TCACTCCAAATGACATACAATTAATGTGAAAATCACCACCCACTAGAAGCAA---AAGGAAGACATCTAAAAATGCCATACAGTCGTGTATTTAACAATAGCTGTCATGTATTAAAAGACGCACGTTTTCACATTATTGCTTTTCCAAAGAACCTGATTCAATTTGCTTCCTGAAAATAAGAAAA--GAATCAGAAAAAGTGAGCTCAGCTTTCTAGCCATGGTCTAGCCCCATTTTAGGTAGGTTTCTGGAATCTAAATG
i aotNan1.NW_018505940v1   I 3 C 0
s micMur3.chr12             60599792 644 + 108143057 ----CTTTTCTGCAGCAGGTAT--TATAGTGTT-GGCTACATTTCTTTGCTCATT--------------------AAAAAATACAGTTTTTATTGTG------------TCTTCTCAATA--------------TA-TCAGAAAATTCAAGGCCACGGTG-AAAGGTCAAGGAGAAAATTTATTCCTCAGG-------TGTTGACTCTGTTCCCAAGTCATTCAAGCATGGCTTCATCTCCCTGTGGCAGCCTCAGTACACTCTATTCAATTATAGGCT-CAGCCATGAGGGATCATGTTTTAATCTACGTATAAACAAAGGGATAAAATAAAAACATCACATTTACAAATTC-TAAAGATGCTG---CTTTTT-ATAATCTGGTACCAGGAATTATTGCAATCATATTACTTGCTTTCCATAATGGCAAGGAATA-GGGCACATCTGCATGTAAAGC---CAGGCATCC-TCATCACAAATGATATACAATTAATGTGAAAATCACCACCCTCT-------------GGAAGACATCTAAGAATGCCATACAGGCATATATTTAATGATAGCTTTCATGTATTAAAAGATGCACATTTGCACATTATTGCCTTTCTAAAGAACCTGATTCATTTTGATGCCTGGAAATACGAAAA--GAATCAGAAAAGGTGAGCTCAGCTTTCTAGCCATGGTCTAGTCTCATTTTAGGTAGGCTTCTGGAATCTAAATG
i micMur3.chr12            I 36 I 8
s proCoq1.NW_012155062v1     3635335 642 +  11683526 ----CTTTTCTGTGGCAGGTA----ACAGTGTT-GGCTACATTTCTTTGCTCATT--------------------AAAAAATACCATTTTTATTGTG------------TCTTCTCAATA--------------TA-TCAGAAAATTCAAGGCCACGGTG-AAAGATCAAGGAGAGAATTTATTCCTCAGG-------TGTCGACTGTGTTCCCAAGTCATTCAAGCATTGCTTCATCTCTCTATGGCAGCCTCCGTACACTCTATTCAATTATAGGCTGCAGCCATGAGGGATCATGTTTTAATCTGTGTATAAACAAAGGGATAAAATAAAAACATCACATTTACAAATTC-TAAAGATGCTG---C-TTTT-ATAATCTGGTACCAGGAATTATTGCAGTTGTATTACTTGCTTTCCATAATGGGAAGGAGTA-GGGCACGTCTGCATGTAAAGC---CAGGCGTCC-TCATTATAAATGATATACAATTAATGTGAAAATCACCACCCTCT-------------GGAAGACATCTAAGACTGCTATACAGGCACATATTTAATGATAGCTTTCTTGTATTAAAAGATGCACATTTGCACATTATTGCCTTTCTAAAGAACCTGATTCATTTTGTTGCCTGGAAATAGGAAAA--GAATCAGAAAAGGTGAGCTCAGCTTTCTAGCCATGGTCTAGTCCCATTTTAGGTAGGCTTCTGGAATCTAAATG
i proCoq1.NW_012155062v1   I 3 C 0
s otoGar3.GL873679           3125682 660 +   4132165 ----CTCTTCCG-AGCAGGCAA--TGTAGTGTT-GGCTACATTTCTTTGCTCATTACaaaaaaaaaaaaaaaaaaaaaaaaaaaCATTTTTATTGTG------------TCTTCTCAATA-------------TTA-TTGGAACATTCAAGGCCATGGTG-AAAGATCAAGGAGAAAATTTATTCTTCAGG-------TGTTGACTCTGTTCCCAAATCACTCAAGCATCTCTCCATCTCTCTGTGGCAGCCCCAGTACACTCTATTCAATTATAGGCTACAGCCACGAGGGATCATGTCTTAATCTATGTATAAACAAAGGGATAAAATAAAAACATCACATTTACAAATTC-TAAAGATGCTG---CTTTTT-ATAATCTGGTACCAGGAATTGTTGCAATCATATTACTTGCTGTCCGTAATGGGAAGCAATA-GGGCAGATCTGCATGTAAAGC---CAGGCATCC-TC-----CAAGGGCAGACAATTAATGTGGAAATCACCACCCTCT-------------GGAAGACATCTAAGAATGCCATACAGTCATCTATTTAGTGATAGTGTTCATGTCTTAAAAGTTGCACATTTGCACATTATTGCCTTTCCAAAGAACCTGATTTGTTTTGTTGCCTGGAAATAGGAAAA--GAATCAGGAAAGGTGAGCTCAGCTTTCTAGCTGTGGTCTAGTCCTATTTTAGGTAGGCTTCTGGAATCTAAATG
i otoGar3.GL873679         I 3 C 0
s mm10.chr18                55562970 635 +  90702639 ----TTTTTCTCC-----------TGTAGTACC-CAAATCGCGTCTTT------C-----------------------AAAAGTCATTTTCTATGTGTCTTAACATGATTCTTCTTAACATTTTCTACGTGTCTTA-TTTACAAATTGAAAGCCTTGATGAAAAAATGAAGCAGAAAATAGATTCCTCAGG-------TGTTGACTC--TTCCCAAGTCACCCAAGCGTTACTCCTGTGCTCTGTGGCAGGCTCAGAACACT--GCTCAATTATCATCTCTTGCCATGAGGGATCGCGGTTTGATCCATATATAAACAAAGTGATAAAATAAAAACATCACATTTACAAAGTCAAAAAGATGCTG---TGTTTT-ATAAGCGGATGCCAGCAATTACTGCAGTCAGGTCAGTTGTTTGCCATAATGGTAGAGAATG-GGATGCATCTGTGTGTAATGC---CAGACAACC-CCATCAGGAGTGCCT--CGAGTAATGTGAAAATCACTGCCCTCTCCTAGCAG---AGTGGAGAAACCTAAGAATGCTGTACAGCCAGGTAGATAACAATCGCTTCCATGTGAC-AAAGAGGCACATTTGCCCATCACTGCATTTGTGGGGAACCTGATTCGTTCTCTTGTCTGTAATAAGTAAAACTGAATCAGGGGAGGTGAGCTCAGCTTCCTA-----------------T--------GGGATCTGGAATCTAAATG
i mm10.chr18               I 5 C 0
s canFam3.chr11             14966733 637 +  74389097 -------TATTGCAGCAGGCAGTATGTAGTATCTAGTTATGTTTC-TTGCTCATT--------------------AAATAGTATCATTTTCATTGTG------------TCTTCTCAACA-------------TTA-TCAAAAAAGTCAAGGCCACGGTG-AAAGATCAAGGGGAAAATTTATTCTTCAGG-------TGTTGACTGTGTTCTGAAGTCACTCAAGCATTGCTCCATAGCTCTGTGGCAGCCTCAGAACATTCTATTCAATTACAGGCTGCAGCCATGGGGGATCATGTTTTAATCTGTGTATAAACAAAGGGATAAAATAAAAACAGCACACTTACAAATTC-TAAAGATGCTG---C-TTTT-ATAGTCTGATATCAGGAATTATTGCAATCATATTACTTGCTT------ATGGGGAGGAATA-GGGCAAACATGCATGTAAGGCCCTCAGGCATCCTCCTTTAGAAATGACATACAATTAACATGAAAATAACCACCCTGTAGTAGCAA---AAGGAAGAAATCTATGAATATCATATAGTCATGTAGTTAATGTTAACTTTCATGTATTAAAAGATGCACATTTGCATATTATTGcctttct---------------tcctgttgcctgaaaagagaaaag--gaatcagaaaaggtgagttccacTTTTAACGCACGGTCTAATCCCATTTTAGGTAGGCTTCTGGAATCTGAAAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2689486 647 +   3667625 TTTCTCTTCCTGCAGTAGGCGG--TGCAGTGTCCAGCTACATTTCTCTGCTTATT--------------------AAGAAATACCATTTTCATTGTG------------TCTTCTCAACA-------------TTATTTTAAAAATGCATGGCCATGGTG-AGAGATCAGGGAGTAAATTTATTCCTCAGG-------TGTTGACTTTGTTCCCAAGCCACTCAAGCATTTCTCCATCACTCTGTGGCAGCCTCAAAACATTCTATTCAATTACAGGCTGCAGCCATGAGGGATCATGTTTTAATCTGTCTATAAACAAAGGGATAAAATGAAAACATCAGATTTACAAATTC-TGGAGATGCTG---CTTTTT-ACAATCTGATATCAGGAATTATTACAATCATATGACTTGCCTCCCAAAATAGGAAGGAGTAAGAGTGCAACTGCCTGTAAAGC---CAGACATTC-CCCTTACTGGTGACGTACAATTAATGGG--AATCACCATACTCTAGTAGCAA---AGGTAAGAAGTCTCAGAATGCCACACAGTCATGTATTTAAC--------CCATGTATTAAAAGATGTGCATTTGCACATTGTTACCTTGCAAAAGAACCTGAT---TTTTGTTGCCTGGAAATAGGGAAA--GAATCAGAAAAGTTGAGTTCAGCTC---AGACAGGGTCTAGTCCCATCCTACATGGGTTTCTGGAATTCAAATG
i dasNov3.JH567306         C 0 C 0

a score=37771.000000
s hg38.chr5_KI270796v1_alt    142643 30 +    172708 CAGGACCATAATTCTGCATGA---TT----------------------TTTTTTT
s panTro5.chr5             125245940 30 + 181907262 CAGGACCATAATTCTGCATGA---TT----------------------TTTTTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126582677 26 + 183735486 CAGGACCATAATTCTGCATGA-----------------------------TTTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1774416 26 +   8933513 TAGGACCATAATTCTGCATGA-----------------------------TTTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139908799 28 + 163208435 TGGGAACATAATTCTGCATGT---------------------------TTTTTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122893653 37 + 180051392 CAGGACCATAATTCTGCTGGA------ttgttgtt------------gttgttgt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124317270 40 + 181584905 CAGGACCATAATTCTGCTGGA---ttgttgttgtt------------gttgttgt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16315916 43 +  18395747 CAGGACCATAATTCTGCTGGAttgttgttgttgtt------------gttgttgt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5328329 40 +  26952557 CAGGACCGTAATTCTGCTGGA---ttgttgttgtt------------gttgttgt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28428656 39 +  82825804 CAGGACCATAATTCTGCTGGA---ttgtttttttt------------gtt-ttgt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4098521 40 -   4237731 CAGGACCGTAATTCTGCTGGA---ttgttgttgtt------------gttgttgt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      367056 40 -   1175262 CAGGACCATAATTCTGCTGGA---ttgttgttgtt------------gttttttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123721751 32 - 204313951 CAGGACCATAATTCTACATGT---Cattttttttt--------------------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55765346 52 -  71252344 CAGTACCATAATTCTGCATGT---CATGTTTTTTTGTGTGTTTTTTTTTGTTTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       68914 48 -   3089952 CAGGACCATAATTCTGCATGT---CATGTCATGtt----tttttttttttttttt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13269154 36 -  42888418 CAGGACCATAACTCTGCATGT---CAttttttttt----------------tttt
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3635977  7 +  11683526 ---------AGATTGG---------------------------------------
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3126342  9 +   4132165 ---------AGATTGGTT-------------------------------------
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55563605 20 +  90702639 AGGGACCATGATCCTGCAAG-----------------------------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14967370 30 +  74389097 AGATCCCATAATTCTGCATGG---CTGGTTTTT----------------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2690133 25 +   3667625 AGGGGCTATAATTCTTCATGG---TTTG---------------------------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60600436  8 + 108143057 I

a score=321636.000000
s hg38.chr5_KI270796v1_alt    142673 23 +    172708 TTTTTTT-----GAAAATAAAAACTGCT
s panTro5.chr5             125245970 23 + 181907262 TTTTTTT-----GAAAATAAAAATTGCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126582703 23 + 183735486 TTTTTTT-----GAAAATAAAAATTGCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1774442 23 +   8933513 TTTTTTT-----GAAACTAAAAATTGCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139908827 23 + 163208435 TTTTTTT-----GAAAATAAAAATTGCT
i nomLeu3.chr2             C 0 M 100
s rheMac8.chr6             122893690 23 + 180051392 tgttttt-----gAAAATAAAAATTGCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124317310 23 + 181584905 tgttttt-----gAAAATAAAAATTGCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16315959 23 +  18395747 tgttTTT-----GAAAATAAAAATTGCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5328369 25 +  26952557 tgtttttTG---GAAAATAAAAATTGCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28428695 28 +  82825804 tttgttttgtttGAAAATAAAAATTGCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4098561 25 -   4237731 tttttttTG---GAAAATAAAAATTGCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      367096 26 -   1175262 tttttttttt--GAAAATAAAAATTGCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123721783 14 - 204313951 --------------aaataaaaattGCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55765398 23 -  71252344 TGTTTTT-----GGAAAATAAAATTGCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       68962 23 -   3089952 ttttttG-----GAACGTAAAAATTGCT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13269190 23 -  42888418 ttttttG-----GAAAATGAAAATTGCT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60600444 23 + 108143057 TTTTTTT-----GAAAATGAAAATTGCT
i micMur3.chr12            I 8 C 0
s proCoq1.NW_012155062v1     3635984 23 +  11683526 TTTTTTT-----GAAAATGAAAATTGCT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3126351 23 +   4132165 TTTTTAT-----GAAAATGAAAATTGCT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55563625 23 +  90702639 TTTTTTA-----AAAAATGACAATTGGT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14967400 19 +  74389097 ----TTC-----AAAAATGAAAATTGCT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2690158 23 +   3667625 GTTTTTT-----GAAAATGAAAATTGCT
i dasNov3.JH567306         C 0 C 0

a score=479366.000000
s hg38.chr5_KI270796v1_alt    142696 36 +    172708 TTGGGGAAGAGTGGTTACCACCGTC---AGTGTGCTAGT
s panTro5.chr5             125245993 36 + 181907262 TTGGGGAAGAATGGTAGCCACCGTC---AGTGTGCTAGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126582726 36 + 183735486 TTGGGGAAGAATGGTAGCCACCGTC---AGTGTGCTAGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1774465 36 +   8933513 TTGGGGAAGAATGGTTGCCACCGTC---AGTGTGCTAGT
i gorGor5.CYUI01015135v1   C 0 C 0
s rheMac8.chr6             122893713 33 + 180051392 TTGGGAAAGAATGGTTGCCA--GTC---AGTGTGCTAG-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124317333 33 + 181584905 TTGGGAAAGAATGGTTGCCA--GTC---AGTGTGCTAG-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16315982 33 +  18395747 TTGGGAAAGAATGGTTGCCA--GTC---AGTGTGCTAG-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5328394 33 +  26952557 TTGGGAAAGAATGGTTGCCA--GTC---AGTGTGCTAG-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28428723 33 +  82825804 TTGGGAAAGAATGGTTGCCA--GTC---AGTGTGCTAG-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4098586 33 -   4237731 TTGGGAAAGAATGGTTGCCA--GTC---AGTGTGCTAG-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      367122 33 -   1175262 TTGGGAAAGAATGGTTGCCA--GTC---AGTGTGCTAG-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123721797 35 - 204313951 TTGGGGAAGAATGGTTGCCACAGTC---AGTGTGCTAG-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55765421 35 -  71252344 TTGGGGAAGAATGGTTGCCACAGTC---AGTGTGCTAG-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       68985 35 -   3089952 TTGGGGAAGAATGGTTGCCACAGTC---AGTGTGCTAG-
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13269213 35 -  42888418 TTGGGGAAGAATGGTTGCCACAGTC---AGTGTGCTAG-
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60600467 35 + 108143057 TTGGGGAAGAATGGTTGCCACAGTC---AGTGTGCTGG-
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3636007 35 +  11683526 TTGGGGAAGAATGGTTGCCACAGTC---AGTGTGCTGG-
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3126374 35 +   4132165 TTGGGGAAGAATGGTTGCCACTGTC---AGTGCGCTGG-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55563648 38 +  90702639 TTGGGAGAGAGAGGTTGCCACAGTTAGAAGAATCCCAG-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14967419 31 +  74389097 TTGGGGAGAGAAGTTTGCCA----C---AGTGTGCTAG-
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2690181 35 +   3667625 GTGGGGAAGAATGGTTGCCATCGTC---AGTTTGCTCT-
i dasNov3.JH567306         C 0 C 0
e nomLeu3.chr2             139908850 100 + 163208435 M

a score=3644995.000000
s hg38.chr5_KI270796v1_alt    142732 220 +    172708 TATCTAGATGTAAACAAGAACCCAT-AAAATCCTCTCACAA-TCTAATGACTTGTTGTAACCCACCTGCCAC--CTACCTGAATCATTTAGTATACCTCAATAAAAACTGTATTACTTTAACACTAAATGTGATGAAGACTTTATGCTGGCACTTAATTATAGCTCTCTGCACT------TTGTTTTTGTTG----------CATTTCCTTTGAGCATCAGTTTTGCATA--TTTTGAAAAA
s panTro5.chr5             125246029 220 + 181907262 TATCTAGATGTAAATAAGAACCCAT-AAAATCCTCTCACAA-TCTAATGACTTGTTGTAACCCACCTGCCAG--CCACCTGAATCATTTAGTATATCTCAATAAAAACTGTATTACTTTAACACTAAATGTGATGAAGACTTTATGCTGGCACTTAATTATAGCTCTCTGCACT------TTGTTTTTGTTG----------CATTTCCTTTGAGCATCAGTTTTGCATA--TTTTGAAAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126582762 220 + 183735486 TATCTAGATGTAAATAAGAACCCAT-AAAATCCTCTCACAA-TCTAATGACTTGTTGTAACCCACCTGCCAG--CTACCTGAATCATTTAGTATATCTCAATAAAAACTGTATTACTTTAACACTAAATGTGATGAAGACTTTATGCTGGCACTTAATTATAGCTCTCTGCACT------TTGTTTTTGTTG----------CATTTCCTTTGAGCATCAGTTTTGCATA--TTTTGAAAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1774501 220 +   8933513 TATCTAGATGTAAATAAGAACCCAT-AAAATCCTCTCACGA-TCTAATGACTTGTTGTAACCCGCCTGCCAG--CTACCTGAATCATTTAGTATACCTCAATAAAAACTGTATTACTTTAACACTAAATGTGATGAAGACTTTATGCTGGCACTTAATTATAGCTCTCTGCACT------TTGTTTTTGTTG----------CATTTCCTTTGAGCATCAGTTTTGCATA--TTTTGAAAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139908952 219 + 163208435 TATCTAGATGT-AATAAGAACCCAT-AAAATCCTCTCACAA-TCTAATGACTTGTTGTAACCCACCCGCCAG--CTACCTGAATCATTTAGCATACCTCAATAAAAACTGTATTACTTTAACACTAAATGTGATTAAGACTTTATGCTGGCACTTAATTATAGCTCTCTGCACT------TTGTTTTTGTTG----------CATTTCCTTTGAGCATCAGTTTTGCATA--TTTTGAAAAA
i nomLeu3.chr2             M 100 C 0
s rheMac8.chr6             122893746 219 + 180051392 TATCTAGATGTAAACAAGAACCCAT-AAAATCCTCTCACAA-TCTAATGACTTGTTGTAACCCACCTGCCAGCTCTAGCTGAATCATTTAGTATACCTCAATAAAAACTGTATTAGTTTAACACTAAATGTGATCAAGGCTTTATGCTGGCACTTAATTATAGCTCTCTGTACT------TTG---TTGTTG----------CATTTCCTTTGAGCATCAGTTTTGCATA--TTTTGAAAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124317366 219 + 181584905 TATCTAGATGTAAACAAGAACCCAT-AAAATCCTCTCACAA-TCTAATGACTTGTTGTAACCCACCTGCCAGCTCTAGCTGAATCATTTAGTATACCTCAATAAAAACTGTATTAGTTTAACACTAAATGTGATCAAGGCTTTATGCTGGCACTTAATTATAGCTCTCTGTACT------TTG---TTGTTG----------CATTTCCTTTGAGCATCAGTTTTGCATA--TTTTGAAAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16316015 219 +  18395747 TATCTAGATGTAAACAAGAACCCAT-AAAATCCTCTCACAA-TCTAATGACTTGTTGTAACCCACCTGCCAGCTCTAGCTGAATCATTTAGTATACCTCAATAAAAACTGTATTAGTTTAACACTAAATGTGATCAAGGCTTTATGCTGGCACTTAATTATAGCTCTCTGTACT------TTG---TTGTTG----------CATTTCCTTTGAGCATCAGTTTTGCATA--TTTTGAAAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5328427 219 +  26952557 TATCTAGATGTAAACAAGAACCCAT-AAAATCCTCTCACAA-TCTAATGACTTGTTGTAACCCACCTGCCAGCTCTAGCTGAATCATTTAGTATACCTCAATAAAAACTGTATTACTTTAACACTAAATGTGATCAAGGCTTTATGCTGGCACTTAATTATAGCTCTCTGCACT------TTG---TTGTTG----------CATTTCCTTTGAGCATCAGTTTTGCATA--TTTTGAAAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28428756 218 +  82825804 TATCTAGATGTAAACAAGAACCCAT-AAAATCCTCTCACAA-TCTAATGACTTGTTGTAACCCACCTGCCAGCTCTACCTGAATCATTTAGTATACCTCAATAAAAACTGTATTACTTTAACACTAAATGTGATCAAGGCTTTATGCTGGCACTTAATTATAGCTCTCTGTACT------TTG---TTGTTG----------CATTTCCTTTGAGCATCAGTTTTGCATA---TTTGGAAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4098619 219 -   4237731 TATCTAGATGTAAACAAGAACCCAT-AAAATCCTCTCACAA-TCTAATGACTTGTTGTAACCCACCTGCCAGCTCTAGCTGAATCATTTAGTATACCTCAATAAAAACTGTATTACTTTAACACTAAATGTGATCAAGGCTTTATGCTGGCACTTAATTATAGCTCTCTGTACT------TTG---TTGTTG----------CATTTCCTTTGAGCATCAGTTTTGCATA--TTTTGAAAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      367155 222 -   1175262 CATCTAGATGTAAACAAGAACCCAT-AAAATCCTCTCACAA-TCTAATGACTTGTTGTAACCCACCTGCCAGCTCTACCGGAATCATTTAGTATACCTCAATAAAAACTGTATTACTTTAACACTAAATGTGATTAAGGCTTTATGCTGGCACTTAATTATAGCTCTCTGTACTTTG---TTG---TTGTTG----------CATTTCCTTTGAGCATCAGTTTTGCATA--TTTTGAAAAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123721832 217 - 204313951 TATCTAGATGTAAACAGTAACCCAT-AAAATCCTCTCACAA-TCTAATGAC---TTGTAACCCACCTGCCAG--CTACCTGAATCATTCAGTATACCTCAATAAAAACTGTATTACTTTAACACTAAATGTGATTAAAGTTTTATGCTGGCACTTAATTATAGCTCTCTGCATT------TTGTTGTTGTTG----------TGTTTCCTTTGAGCATCAGTTTTGCATA--TTTTGAAAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55765456 217 -  71252344 TATCTAGATGTAAACAATAACCCAT-AAAATCCTCTCACAA-TCTAATGAC---TTGTAACCCACCTGCCAG--CTACCTGAATCATTTAGTATACCTCAATAAAAACTGTATTACTTTAACACTAAATGTGATTAAGGTTTTATGCTGGCACTCAATTATAGCTCTCTGCATT------TTGTTGTTGTTG----------CATTTCCTTTGAGCATCAGTTTTGCATA--TTTTGAAAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       69020 217 -   3089952 TATCTAGATGTAAACAATAACCCAT-AAAATCCTCTCACAA-TCTAATGAC---TTGTAACCCACCTGCCAG--CTACCTGAATCATTTAGTATACCTCAATAAAAACTGTATTACTTTAACACTAAATGTGATTAAGGTTTTATGCTGGTACTTAATTATAGCTCTCTGCATT------TTGTTGTTGTTG----------TGTTTCCTATGAGTATCAGTTTTGCATA--TTTTGAAAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13269248 217 -  42888418 TATCTAGATGTAAACAATAACCCAT-AAAATCCTCTCACAA-TCTAATGAC---TTGTAACCCACCTGCCAG--CTACCTGAATCATTTAGTATACCTCAATAAAAACTGTATTACTTTAACACTAAATGTGATTAAGGTTTTATGCTGGCACTTAATTATAGCTTTCTTCATT------TTGTTTTTGTTG----------CGTTTCCTTTGAGCATCAGTTTTGCATA--TTGTGAAAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60600502 222 + 108143057 TATCTAGATGCAAACAAGAGCCCAT-AAAATCCTCTCACAA-TCTAATGACTTGTTGTAACCCACCCGCCAG--CTACCTGAATCATTTAGTATACCTCAATAAAAACTGCATTACTCTATCACTAAATGTGATTAAGGCTTTATGCTAGCACTTAATTAAAGCTCTCTACATTTT----TTGTTGTTGTTG----------CATTTACTTTGAGCATCAATTTTGCATG--TTTTTAAAAA
i micMur3.chr12            C 0 I 78
s proCoq1.NW_012155062v1     3636042 226 +  11683526 TATCTAGATGCAAACAAGAGCCTAT-AAAATCCTTTTACAA-TCTAATGACTTGTTGTGACCCACCTGCCAG--CTACCTGAATCATTTAGTATACCTCAATAAAAACTGAACTACTTTAACACTAAATGTGATTAAGGCTTTATGCTAGCACTTAATTAAAGCTCTCTGCATTTTTTTGTTGTTGTTTTTG----------CATTTCCTTTGAGCATCAATTTTGCATG--TTTTTTGAAA
i proCoq1.NW_012155062v1   C 0 I 2
s otoGar3.GL873679           3126409 223 +   4132165 TATCTAGATGCAAAGAAGAGCCCAT-AAAATCCTTTCACAA-TCTAATGACTTGTTGTAACCCACCTGCCAG--CTACCTGAATCATTTAGTATACCTCAATAAAAACTGTGTTACTTTAACACTAAATGTGATTAAGGCTTTATGCAGGCACTTAATTAGAGCTTTCTAAATGTTT---GTGTTATTGTTG----------CATTTCCTTTGATCATCAAGTTTGCACA--TTAAAAAAAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55563686 202 +  90702639 AATTTAGATGCAAACAAGATTCCAT-AAAATTCCCCCTCTG-TCTAATGACTTGTGGCTTCCTACCTTCCAG--CTACCCGAATTATCCGTAGCACCTCAATAAAAGCCCTATTACTTTGACATGGAGTGTGATTACAGTTTTATATTGCTACTTAATTAAAGCTTTTTGGGTT------T----------------------------TTTGAGCATTAGATGTGTATA--TTTTGAAAAA
i mm10.chr18               C 0 I 3
s canFam3.chr11             14967451 187 +  74389097 -ATCTAGACACAAACAAGAGCCCATAAAAATCCCCTCACAATTCTAATGACTTGTGGTAACCCACCTGCCAG--CCACCTGAACCATTTAGCACACCTCAATAAAAACTGTATTACTTTAACATTAAATGTGATTAAGGCTTTATGCTGGCATTTAATTAAAGCTCTCTGCATT------TTGTTGCCATTG----------CATC------------------------------------
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2690216 236 +   3667625 TATCTAGATGCAAAAAGGAGCTCAT-AAAATCTCCTCACAG-TCTAATGACTTGTGGTAACCCACCAGCCAG--CTACCTGAATCATTTAGCACACCTCAATAAAAACTCTATTACTTTCACATTAAATGTGTTTAAGGC-TTATGCTGGTACTTAATTAAAGCCCTATGTTTTGTTTGTTTGTTTTTGTTTTTGCTACTACCATTTCCTTT-ACCACCAGTTTTGCATGCTTTTTTAAAAA
i dasNov3.JH567306         C 0 C 0

a score=87747.000000
s hg38.chr5_KI270796v1_alt    142952 11 +    172708 -------CAACAAGCTAA
s panTro5.chr5             125246249 11 + 181907262 -------CAACAAGCTAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126582982 11 + 183735486 -------CAACAAGCTAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1774721 11 +   8933513 -------CAACAAGCTAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139909171 11 + 163208435 -------CAACAAGCTAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122893965 11 + 180051392 -------CAACAGGCTAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124317585 11 + 181584905 -------CAACAGGCTAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16316234 11 +  18395747 -------CAACAGGCTAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5328646 11 +  26952557 -------CAACAGGCTAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28428974 11 +  82825804 -------CAACAGGCTAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4098838 11 -   4237731 -------CAACAGGCTAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      367377 11 -   1175262 -------CAACAGGCTAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123722049 11 - 204313951 -------CAGCAAGCTAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55765673  4 -  71252344 -------CAGC-------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       69237 11 -   3089952 -------CAGCAAGCTAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13269465 11 -  42888418 -------CAGCAAGCTAA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3636270 11 +  11683526 -------CAGCAAGCTAA
i proCoq1.NW_012155062v1   I 2 I 103
s otoGar3.GL873679           3126632  6 +   4132165 ------------AGCTAA
i otoGar3.GL873679         C 0 I 7
s mm10.chr18                55563891  8 +  90702639 -------CAACATGG---
i mm10.chr18               I 3 I 10
s dasNov3.JH567306           2690452 13 +   3667625 CAGACATTCACAA-----
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60600724 78 + 108143057 I
e canFam3.chr11             14967638  0 +  74389097 C

a score=372351.000000
s hg38.chr5_KI270796v1_alt    142963 30 +    172708 CATCCAGGAAGAGATATTA-GAAATATTATA
s panTro5.chr5             125246260 30 + 181907262 CATCCAGGAAGAGATATTA-GAAATAGTATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126582993 30 + 183735486 CATCCAGGAAGAGATATTA-GAAATAGTATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1774732 30 +   8933513 CATCCAGGAAGAGATATTA-GAAATAGTATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139909182 30 + 163208435 CATCCGGGAAGAGATATTA-GAAATAGTATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122893976 30 + 180051392 CATCCAGGAAGAGATAATA-GAAATAGTATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124317596 30 + 181584905 CATCCAGGAAGAGATAATA-GAAATAGTATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16316245 30 +  18395747 CATCCAGGAAGAGATAATA-GAAATAGTATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5328657 30 +  26952557 CCTCCAGGAAGAGATATTA-GAAATAGTATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28428985 30 +  82825804 CATCCAGGAAGAGATATTG-GAAATAGTATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4098849 30 -   4237731 CCTCCAGGAAGAGATATTA-GAAATAGTATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      367388 30 -   1175262 CATCCAGGAAGAGATATTA-GAAATAGTATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123722060 30 - 204313951 AATCCAGGAAGATATATTA-GAAATGGTATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55765677 22 -  71252344 --------AAGAGATATTA-GAAATTGTATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       69248 30 -   3089952 TATCCAGGAAGAGATATTA-GAAATTGTATA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13269476 30 -  42888418 CATCCAGGAAGAGATATTA-GAAATTGTATA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3126645 31 +   4132165 CATTCAGGAAGAGATACTAGGAAATAGTATA
i otoGar3.GL873679         I 7 C 0
s mm10.chr18                55563909 30 +  90702639 TATTCAGGAAGAGACACTA-GACATAGTATA
i mm10.chr18               I 10 C 0
s dasNov3.JH567306           2690465 30 +   3667625 CATATAGGGACAGATACAA-GAAATATTATA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60600724 78 + 108143057 I
e canFam3.chr11             14967638  0 +  74389097 C
e proCoq1.NW_012155062v1     3636281 103 +  11683526 I

a score=79088.000000
s hg38.chr5_KI270796v1_alt    142993 7 +    172708 ACATAGC
s panTro5.chr5             125246290 7 + 181907262 ACATAGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126583023 7 + 183735486 ACATAGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1774762 7 +   8933513 ACATAGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139909212 7 + 163208435 ACATAGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122894006 7 + 180051392 ACATAGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124317626 7 + 181584905 ACATAGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16316275 7 +  18395747 ACATAGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5328687 7 +  26952557 ACATAGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28429015 7 +  82825804 ACATAGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4098879 7 -   4237731 ACATAGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      367418 7 -   1175262 ATATAGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123722090 7 - 204313951 ACATAGC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55765699 7 -  71252344 ACATAGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       69278 7 -   3089952 ACCTAGC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13269506 7 -  42888418 ACATAGC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3126676 7 +   4132165 TTACAGC
i otoGar3.GL873679         C 0 I 55
s mm10.chr18                55563939 7 +  90702639 AAATGGA
i mm10.chr18               C 0 C 0
e micMur3.chr12             60600724 78 + 108143057 I
e canFam3.chr11             14967638 0 +  74389097 C
e proCoq1.NW_012155062v1     3636281 103 +  11683526 I
e dasNov3.JH567306           2690495 0 +   3667625 C

a score=13600.000000
s hg38.chr5_KI270796v1_alt    143000 1 +    172708 C
s panTro5.chr5             125246297 1 + 181907262 C
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126583030 1 + 183735486 C
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1774769 1 +   8933513 C
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139909219 1 + 163208435 C
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122894013 1 + 180051392 C
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124317633 1 + 181584905 C
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16316282 1 +  18395747 C
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5328694 1 +  26952557 C
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28429022 1 +  82825804 C
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4098886 1 -   4237731 C
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      367425 1 -   1175262 C
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123722097 1 - 204313951 C
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55765706 1 -  71252344 C
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       69285 1 -   3089952 C
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13269513 1 -  42888418 C
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55563946 1 +  90702639 C
i mm10.chr18               C 0 C 0
e micMur3.chr12             60600724 78 + 108143057 I
e canFam3.chr11             14967638 0 +  74389097 C
e proCoq1.NW_012155062v1     3636281 103 +  11683526 I
e otoGar3.GL873679           3126683 55 +   4132165 I
e dasNov3.JH567306           2690495 0 +   3667625 C

a score=3193817.000000
s hg38.chr5_KI270796v1_alt    143001 347 +    172708 CAGGGGTCCccagtcccagtgggctggtaagaaccggggccgcacagcaggaggtgagcagcgggtgagcattactgcctgagcaatgcttcctgtcag-atcaacactggcattagattctcataggagtaccaaacctattgtgagctgtgcacgcaagagttgcctgctccttgtgagaatctaaactaatgcttgatgatctgagtatctgaggtgaaacagtttcatctctaaagtatccaacacccagcccccacctcccacccccacctccctctgccttccatggaaaaaacgtcttctacgaaaccattccctcatgccaaaaaggttggggaccactg
s panTro5.chr5             125246298 346 + 181907262 CAGGGGTCCccagtcccagtgggctggtaagaaccggg-ccgcccagcaggaggtgagcagcgggtgagcattactgcctgagcaacgcttcctgtcag-atcagcactggcattagattctcataggagtaccaaacctattgtgagctgtgcacgcaagagttgcctgctccttgtgagaatctaaactaatgcttgatgatctgagtatctgaggtgaaacagtttcatctctaaagtatccaacccccagcccccacctcccacccccacctccctctgccttccatggaaaaaacgtcttctacgaaaccattccctcacgccaaaaaggttggggaccactg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126583031 346 + 183735486 CAGGGGTCCccagtcccagtgggctggtaagaaccggg-ccgcccagcaggaggtgagcagcgggtgagcattactgcctgagcaacgcttcctgtcag-atcagcactggcattagattctcataggagtaccaaacctattgtgagctgtgcacgcaagagttgcctgctccttgtgagaatctaaactaatgcttgatgatctgagtatctgaggtgaaacagtttcatctctaaagtatccaacccccagcccccacctcccacccccacctccctctgccttccatggaaaaaacgtcttctacgaaaccattccctcacgccaaaaaggttggggaccactg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1774770 346 +   8933513 CAGGGGTCCccagtcccagtgggctggtaagaaccggg-ccgcacagcaggaggtgagcagcaggtgagcattactgcctgagcaacgcttcctgtcag-atcagcactggcattagattctcataggagtaccaaacctattgtgagctatgcacgcaagagttgcctgctccttgtgagaatctaaactaatgcttgatgatctgagtatctgaggtgaaacagtttcatctctaaactatgcaacccccagcccccacctcccacccccacctccctcggccttccatggaaaaaacgtcttctacgaaaccattccctcatgccaaaaaggttggggaccactg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139909220 346 + 163208435 CAGGGGTCCccagtcccagtgggctggtaagaaccgga-ccacacagcaggaggtgagcagcgggtgagcattactgcctgagcaacgcctcctgtcag-atcagcactggcattagagtctcataggagtaccaaacctattgtgagctgtgcatgcaagagttgcctgctccttgtgagaatctaaactaatgcttgatgatctgagtatctgaggtgaaacagtttcatctctaaagtatccaacccccagccctcacctcccacccccacatccctctgccttctgtggaaaaaatgtcttctctgaaaccattccctcatgccaaaaaggttggggaccactg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122894014 346 + 180051392 caggggtccccactcccagtgagctggtaggaaccggg-ccgcacagcaggaggtgagcagcgggtgagcattactgcctaagcaatgcctcctgtcag-atcagcagtggcatgagattctcataggagtaccaaacctatcgtgagctgtgcacgcaagagttgcctgctccttgtgagaatctaaactaatgcttgatgatctgaggatctgaggtgaaactgtttcatctctaaagtatccaacccccagcccccacctcacactcccacctccctctgccttccgtggaaaaaatgtcttctacgaaaccattctctcatgccaaaatgcttggggaccactg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124317634 346 + 181584905 CAGGGGTCCCCACTCCCAgtgagctggtaggaaccggg-ccgcacagcaggaggtgagcagcgggtgagcattactgcctaagcaatgcctcctgtcag-atcagcagtggcatgagattctcataggagtaccaaacctatcgtgagctgtgcacgcaagagttgcctgctccttgtgagaatctaaactaatgcttgatgatctgaggatctgaggtgaaactgtttcatctctaaagtatccaacccccagcccccacctcacactcccacctccctctgccttccgtggaaaaaatgtcttctacgaaaccattctctcatgccaaaatgcttggggaccactg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16316283 346 +  18395747 caggggtccccactcccagtgagctggtaggaaccggg-ccgcacagcaggaggtgagcagcgggtgagcattactgcctaagcaatgcctcctgtcag-atcagcagtggcatgagattctcataggagtaccaaacctatcatgagctgtgcacgcaagagttgcctgctccttgtgagaatctaaactaatgcttgatgatctgaggatctgaggtgaaactgtttcatctctaaagtatccaacccccagcccccacctcacactcccacctccctctgccttccgtggaaaaaatgtcttctacgaaaccattctctcatgccaaaatgcttggggaccactg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5328695 345 +  26952557 caggggtccccactcccagtgagctggtgggaa-cggg-ccgcacagcaggaggtgagcagcgggtgagcattactgcctgagcaattcctcctgtcag-atcagcagtggcatgagattctcataggagtaccgaacctatcgtgagctgtgcacgcaagagttgcctgctccttgtgagaatctaaactaatgcttgatgatctgaggatctgaggtgaaactgtttcatccctaaagtatccaacccccagcccccacctcacactcccacctccctctgccttccgtggaaaaaatgtcttctacgaaaccattctctcatgccaaaatgcttggggaccactg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28429023 345 +  82825804 CA-GGGTCCCCACTCCCAgtgggctggtaggaactggg-ccgcacagcaggaggtgagcagcgggcgagcattactgcctgagcaatgcctcctgtcag-atcagcagtggcatgagattctcataggagtaccaaacctatcgtgagctgtgcacgcaagagttgcctgctccttgtgggaatctaaactaatgcttgacgatctgaggatctgaggtgaaactgtttcatctctaaagtatccaacccccagcccccacctcccactcccacctccctctgccttccctggaaaaaatatcttctacgaaaccattctctcatgccaaaatgcttggggaccactg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4098887 345 -   4237731 caggggtccccactcccagtgagctggtgggaac-ggg-ccgcacagcaggaggtgagcagcgggtgagcattactgcctgagcaattcctcctgtcag-atcagcagtggcatgagattctcataggagtaccgaacctatcgtgagctgtgcccgcaagagttgcctgctccttgtgagaatctaaactaatgcttgatgatctgaggatctgaggtgaaactgtttcatctctaaagtatccaacccccagcccccacctcacactcccacctccctctgccttccatggaaaaaatgtcttctacgaaaccattctctcatgccaaaatgcttggggaccactg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      367426 346 -   1175262 caggggtccccactcccagtgggctggtaggaaccggg-ccgcacagcaggaggtgagcagcgggtgagcgttactgcctgagcaatgcctcctgtcag-atcagcagtggcattcgattctcatacgagtaccaaacctatcgtgagctgtgcgctcaagacttacctgctccttgtgagaatctaaactaatgcttgatgatctgaggatctgaggtgaaactgtttcatctctaaagtatacaacccccagcccccacctcacactcccacctccctctgccttccgtggaaaaaatgtcttctacaaaaccattctctcatgccaaaatgcttggggaccactg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123722098 341 - 204313951 CAGGAGTCCccagtcccagtgggctggtaggaatgggg-ccgcacagcaggaggtgagcagcgggtgagcattactgcctgagcagcgcctcctattag-atcagcaatggcattagattctcacaggagtaccaaacctattgtgaactgtgcatgtgagagttgcccactccttctgagaatctaaactaatgcttgatgatctgagaatctgagatataa--gtttcatctctaaagtaccca-cccgcagacc-cacatccca-ccccacctccctctaccttccatggaaaaaatgtcttcaacgaaaccattcgctcatgccaaaaaagctggggaccactg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55765707 342 -  71252344 CAGGGGTCCccagtcccaatgggctggtatgaataggg-ccacacagcaggaggtgagcagcgggtgagcattactgcctgagcagcgcctcctgttag-atcagcaatggcattagattctcataggagtaccaaacctattgtgaactgtgcatgtgagagttgcctgccccttctgagaatctaagctaatgcttgatgatctgaggatctgagatataa--atttcatctctaaagtacccgccccccagccc-cacatcccacccccacctccctctacctcccatggaaaaaatgtcttcaacaaaaccattccctcatcccaaaaaa-ctggggaccactg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       69286 317 -   3089952 CAGGGGTCCccagtcccagtgggctggtatgaacgggg-ctgcacagcaggagg-------------------------tgagcagcgcctcctgttag-atcagcaatggcattagattctcataggagtaccaaacctattgtgaactgtgcatgtgagagttgcctgctccttctgagaatctaaactaatgcttgatgatctgaggatctgaggtataa--gtttcatctctaaagtacccgccccccagccc-cacatcccacccctacctccctctaccttccatggaaaaaatgtcttcaacgaaaccattccctcatgccaaaaaa-ctggggaccactg
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13269514 342 -  42888418 CAGGGGTCCccagtcccagtgggctgttatgaacgggg-ctgcacagcaggaggtgagcagcaggtgagcattaccgcctgagcagcgcctcctgttag-atcagcaatggcattagattctcataggagtaccaaacctattgtgaactgtgcatgtgggagttgcctgctccttctgacaatctaaactaatgcttgatcatctgaggatctgagatataa--gtttcatctctaaagtacccatccctcagccc-cacatcccacccccacctccctctaccttccatggaaaaaatgtcttcaatgaaaccattccctcatgccaaaaaa-ctggggaccactg
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14967638  84 +  74389097 ------------------------------------------------------------------------------------------TCCCGTGAGCATCAGTTTTG----CATGTTTTTAAAAGAATAACATACTAATT--------------------------------------------------------------------------------------------TAAGATATCCA---------------------------------------------GGAAACA-------------------------ATACTAGAAATGGTA--------TA
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60600724  78 + 108143057 I
e proCoq1.NW_012155062v1     3636281 103 +  11683526 I
e otoGar3.GL873679           3126683  55 +   4132165 I
e dasNov3.JH567306           2690495   0 +   3667625 C
e mm10.chr18                55563947   0 +  90702639 C

a score=132971.000000
s hg38.chr5_KI270796v1_alt    143348 12 +    172708 ACATAGTCTATA
s panTro5.chr5             125246644 12 + 181907262 ACGTAGTCTATA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126583377 12 + 183735486 ACGTAGTCTATA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1775116 12 +   8933513 ACATAGTCTATA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139909566 12 + 163208435 ACATAGTCTATA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122894360 12 + 180051392 ACATAGTCCATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124317980 12 + 181584905 ACATAGTCCATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16316629 12 +  18395747 ACATAGTCCATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5329040 12 +  26952557 ACATAGTCCATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28429368 12 +  82825804 ACATAGTCTATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4099232 12 -   4237731 ACATAGTCCATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      367772 12 -   1175262 ACATAGTCTATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123722439 12 - 204313951 ATATTGTCTATA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55766049 12 -  71252344 ATGTTGTCTATA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       69603 12 -   3089952 ATATTGTCTATA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13269856 12 -  42888418 ATATTGTCTATA
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14967722 12 +  74389097 ACATAGCCTATA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2690495 12 +   3667625 ACAGAGTCTATA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60600724 78 + 108143057 I
e proCoq1.NW_012155062v1     3636281 103 +  11683526 I
e otoGar3.GL873679           3126683 55 +   4132165 I
e mm10.chr18                55563947  0 +  90702639 C

a score=129039.000000
s hg38.chr5_KI270796v1_alt    143360 17 +    172708 -CATAATGAGGATTTTTT
s panTro5.chr5             125246656 17 + 181907262 -AATAATGAGGATTTTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126583389 17 + 183735486 -AATAATGAGGATTTTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1775128 17 +   8933513 -AATAATGAGGATTTTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139909578 17 + 163208435 -AATAATGAGGATTTTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122894372 17 + 180051392 -AATAATGAGGATATATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124317992 17 + 181584905 -AATAATGAGGATATATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16316641 17 +  18395747 -AATAATGAGGATATATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5329052 17 +  26952557 -AATAATGAGGATATATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28429380 17 +  82825804 -AATAATGAGGATATATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4099244 17 -   4237731 -AATAATGAGGATATATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      367784 17 -   1175262 -AATAATGAGGATATATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123722451 17 - 204313951 -AATAATGATGACATTTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55766061 17 -  71252344 -AATAACGATGATATTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       69615 17 -   3089952 -AATAATGATGATATTTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13269868 17 -  42888418 -ATTAATGATGATATTTT
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55563947 14 +  90702639 ----CATAGAAATGTGTT
i mm10.chr18               C 0 I 3
s canFam3.chr11             14967734  8 +  74389097 -------AAAGATTT---
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2690507 15 +   3667625 AATTAATGGTGATAT---
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60600724 78 + 108143057 I
e proCoq1.NW_012155062v1     3636281 103 +  11683526 I
e otoGar3.GL873679           3126683 55 +   4132165 I

a score=343163.000000
s hg38.chr5_KI270796v1_alt    143377 40 +    172708 TTTT-------TCAAATTGTAGGACAAACACAAAACTCTCACTGGCT
s panTro5.chr5             125246673 39 + 181907262 TTTT--------CAAATTGTGGGACAAACACAAAACTCTCACTGGCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126583406 39 + 183735486 TTTT--------CAAATTGTGGGACAAACACAAAACTCTCACTGGCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1775145 38 +   8933513 TTT---------CAAATTGTGGGACAAACACAAAACTCTCACTGGCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139909595 42 + 163208435 TTTTT-----TTCAAATCGTGGGACAAACACAAAACTCTCACTGGCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122894389 38 + 180051392 TTG---------CAAATTGTGGGACAAACACAAAACTCTGACTGGTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124318009 38 + 181584905 TTG---------CAAATTGTGGGACAAACACAAAACTCTGACTGGCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16316658 38 +  18395747 TTG---------CAAATTGTGGGACAAACACAAAACTCTGACTGGCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5329069 38 +  26952557 TCG---------CAAATTGTGGGACAAACACAAAACTCTGACTGGCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28429397 38 +  82825804 TTG---------CAAATTGTGGGACAAACACAAAACTCTGACTGGCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4099261 38 -   4237731 TCA---------CAAATTGTGGGACAAACACAAAACTCTGACTGGCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      367801 38 -   1175262 TTG---------CAAATTATGGGACAAACACGAAACTCGGACTGGCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123722468 37 - 204313951 CC----------AAATTTTTGGGACAAACACAAACCTTTTACTGGCC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55766078 37 -  71252344 TC----------AAATTTGTGGGACAAACACAAACCTCTTACTGGCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       69632 37 -   3089952 TC----------AAATTTGTGGGACAAACACAAACCTCTTACTGACC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13269885 37 -  42888418 TC----------AAATTTGTGGGACAAACACAAACCTCTTACTGGCC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60600802 38 + 108143057 TTC---------AAATTTGTGGGGCAAAGACAAAGCTCTTGCTGGTC
i micMur3.chr12            I 78 C 0
s mm10.chr18                55563964 40 +  90702639 ----CC---CTCAGATTTGTAGGACAAAGAGAAAGCCCCTTCTGGCT
i mm10.chr18               I 3 C 0
s canFam3.chr11             14967742 42 +  74389097 -----TTTTTCACATTTGTTAGGACAAAAACAAATCTTTTACTGGCC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2690522 40 +   3667625 -------TTTTCAAATTTGTTGGTCAAAGAAAAAGCCCCTCATGACA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3636281 103 +  11683526 I
e otoGar3.GL873679           3126683 55 +   4132165 I

a score=752300.000000
s hg38.chr5_KI270796v1_alt    143417 48 +    172708 TCTATTTCCCTGCAACATTCCAAGTGAAGGAGAAT----TCTTCTATCAGAA
s panTro5.chr5             125246712 48 + 181907262 TCTATTTCTCTGCAACATTCCAAGTGAAGGAGAAT----TCTTCTATCACAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126583445 48 + 183735486 TCTATTTCTCTGCAACATTCCAAGTGAAGGAGAAT----TCTTCTATCAGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1775183 48 +   8933513 TCTATTTCCCTGCAACATTCCAAGTGAAGGAGAAT----TCTTCTATCAGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139909637 48 + 163208435 TCTATTTCCCTGCAACATTCCAAGTGAAGGAGAAT----TCTTCTGTCAGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122894427 48 + 180051392 TCTATTTCCCTGCGACATTCCAAGTGAAGGAGAAT----TCTTCTATCAGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124318047 48 + 181584905 TCTATTTCCCTGCGACATTCCAAGTGAAGGAGAAT----TCTTCTATCAGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16316696 48 +  18395747 TCTATTTCCCTGCGACATTCCAAGTGAAGGAGAAT----TCTTCTATCAGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5329107 48 +  26952557 TCTATTTCCCTGCGACATTCCAAGTGAAGGAGAAT----TCTTCTATCAGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28429435 48 +  82825804 TCTATTTCCCTGCGACATTCCAAGTGAAGGAGAAT----TCTTCTATCAGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4099299 48 -   4237731 TCTATTTCCCTGCGACATTCCAAGTGAAGGAGAAT----TCTTCTATCAGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      367839 48 -   1175262 TCTAGTTCCCTGCGACATTCCAAGTGAAGGAGAAT----TCTTCTATCAGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123722505 48 - 204313951 TCTATTTCATTGCAACATTCCAAGAGAAAGAGAAT----TCTTCCATCAGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55766115 48 -  71252344 TCTATTTCCTTGCAACATTCCAAGAGAAGGAGAAT----TCTCCCATCAGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       69669 48 -   3089952 TCTATGTCCTTGCAACATTCCAAGAGAAGGAGAAT----TCTTCTACCAGAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13269922 48 -  42888418 TCTATTTCCTTGCAACATTCCAAGAGAAGGAGAAT----TCTTCCATCAGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60600840 48 + 108143057 TCTATTTCCCTGCACCATTCCAAATGAAAGAGCAT----TCTTCTATCAGAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3636384 48 +  11683526 TCTACTTCCCTGCAACATTCCAAATGAAAGAGAAT----TCTTCTATCAGAA
i proCoq1.NW_012155062v1   I 103 I 231
s mm10.chr18                55564004 52 +  90702639 TCAGTGATCTTGCAGCATTCTGAGTAATGGAGATTGATCTCTTTCGCCCGAA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14967784 47 +  74389097 TCTATTTCCTTGCACTGTACCAAATGAAGGAGAAT----TCT-CCATCAGAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2690562 48 +   3667625 TCTATTTCCCTGCAACTTTCTCAGTGAAGGAAAAT----TCTTCCATCAGGA
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3126683 55 +   4132165 I

a score=332826.000000
s hg38.chr5_KI270796v1_alt    143465 25 +    172708 ---AATGAT-CAGTCTGCAGTGTTGGCAT
s panTro5.chr5             125246760 25 + 181907262 ---AATGAT-CAGTCTGCAGTGTTGGCAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126583493 25 + 183735486 ---AATGAT-CAGTCTGCAGTGTTGGCAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1775231 25 +   8933513 ---AATGAT-CAGTCTGCAGTGTTGGCAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139909685 25 + 163208435 ---AATGAT-CAGTCTGCAGTGTTGGCAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122894475 25 + 180051392 ---AAAGAT-CAGTCTGCAGTGTTGGCAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124318095 25 + 181584905 ---AAAGAT-CAGTCTGCAGTGTTGGCAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16316744 25 +  18395747 ---AAAGAT-CAGTCTGCAGTGTTGGCAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5329155 25 +  26952557 ---AAAGAT-CAGTCTGCAGTGTTGGCAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28429483 25 +  82825804 ---AATGGT-CAGTCTGCAGTGTTGGCAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4099347 25 -   4237731 ---AAAGAT-CAGTCTGCAGTGTTGGCAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      367887 25 -   1175262 ---AATGAT-CAGTCTGCAGTGTTGGCAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123722553 25 - 204313951 ---AATGAT-CAGTCTGCAGTGTTGACAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55766163 25 -  71252344 ---AATGAT-CAGTCTGCATTATTGACAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       69717 25 -   3089952 ---AATGAT-CAGCCTGCAGTGTTGACAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13269970 25 -  42888418 ---AATGAT-CAGTCTGCAGTGTTGACAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60600888 25 + 108143057 ---GATTAT-AAATTTTCAGTGTTGGCAT
i micMur3.chr12            C 0 I 209
s mm10.chr18                55564056 25 +  90702639 ---CATTAC-CAGTCTGTGGTGTTAGCTT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14967831 26 +  74389097 ---GATGATCCAGTCTGCAGTGCTGGCAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2690610 28 +   3667625 AAGATATAT-AAATCTACAAGGTTGGCAA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3636432 231 +  11683526 I
e otoGar3.GL873679           3126683 55 +   4132165 I

a score=837357.000000
s hg38.chr5_KI270796v1_alt    143490 80 +    172708 --ACTGGTAT----TTGACCATAGAGGACTGAGGAGTCTCATTTTTACATGA-----CCTTTATTT-------CCAGGAGGGGTATATTTATTTAATT
s panTro5.chr5             125246785 80 + 181907262 --ACTGGTAT----TTGACCATAGAGGACTGAGGAGTCTCATTTTTACATGA-----CCTTTATTT-------CCAGGAGGGGTATATTTATTTAATT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126583518 80 + 183735486 --ACTGGTAT----TTGACCATAGAGGACTGAGTCGTCTCATTTTTACATGA-----CCTTTATTT-------CCAGGAGGGGTATATTTATTTAATT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1775256 80 +   8933513 --ACTGGTAT----TTGACCATAGAGGACTGAGGAGTCTCATTTTTACATGA-----CCTTTATTT-------CCAGGAGGGGTATATTTATTTAATT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139909710 80 + 163208435 --ACTGGTAT----TTGACCATAGAGGACTGAGGAGTCTCATTTGTACATGA-----CTTTTATTT-------CCAGGAGGAGTTCATTTATTTAACT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122894500 80 + 180051392 --ACTGGTAT----TTGACCATAGAGGACTGAGGAGTCTCATTTTTACATGA-----CCTTTATTT-------CCAGGAGGGGTATATTTATTTAATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124318120 80 + 181584905 --ACTGGTAT----TTGACCATAGAGGACTGAGGAGTCTCATTTTTACATGA-----CCTTTATTT-------CCAGGAGGGGTATATTTATTTAATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16316769 80 +  18395747 --ACTGGTAT----TTGACCATAGAGGACTGAGGAGTCTCATTTTTACATGA-----CCTTTATTT-------CCAGGAGGGGTATATTTATTTAATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5329180 80 +  26952557 --ACTGGTAT----TTGACCATAGAGGACTGAGGAGTCTCATTTTTGCATGA-----CCTTTATTT-------CCAGGAGGGGTATATTTATTTAATT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28429508 80 +  82825804 --ACTGGTAT----TTCACCATAGAGGACTGAGGAGTCTCATTTTTACATGA-----CCTTGATTT-------CCAGGAGGGGTATATTTATTTAATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4099372 80 -   4237731 --ACTGGTAT----TTGACCATAGAGGACTGAGGAGTCTCATTTTTGCATGA-----CCTTTATTT-------CCAGGAGGGGTATATTTATTTAATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      367912 84 -   1175262 --ACTGGTATTTGATTGACCATAGAGGACTGAGGAGTCTCATTTTTACATGA-----CCTTTATTT-------CCAGGAGGGGTGTATTTATTTAATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123722578 80 - 204313951 --ACTGTTAT----TTGACCATAGGGGACTGAGGAGTCTAATTTTTATATGA-----CCTTTCTTT-------CCAGGGCGGGTATATTTAGTTAATT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55766188 45 -  71252344 --GCTGGTAT----TTGTCCATAGGGGATGGAG-----------------------------------------------GGGTATATTTAGTTAATT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       69742 80 -   3089952 --ACTGGTAT----TTGTCCATAGGGGACTGAGGAGTCTAATTTTTATATGA-----CCTTTCTTT-------CCAGGAGGGGTATATTTAGTTAATT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13269995 80 -  42888418 --ACTGGTAT----TTGTCCATAGGGGACTGAGGAGTCTCATTTTTATATGA-----CCTTTCTTT-------CCAGGAGGGGTATATTTAGTTAATT
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55564081 83 +  90702639 --GCAGGTAT----TTGACCACAGA--CCTTTAGAGTCTGAATTTTATGTAAGTGCTTTCCTCTCT-------CTGGAAGTGCTATGTTAATTTAAAT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14967857 86 +  74389097 --ACTCGTGT----TTGACCGTGGACGATTGAG-AGGCTGATTTTTGCATGA-----CTTTTTTATCCCTCCACCAGGAATGCTATATTAATTTAAAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2690638 86 +   3667625 ATAGGTGTGT----TTGACCAGAAAGGATTGAGGAATTCCATTTTTACATAA-TAATTTTTCCTTG-------CTAATAGTAGCATAATAACTTAAGT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60600913 209 + 108143057 I
e proCoq1.NW_012155062v1     3636432 231 +  11683526 I
e otoGar3.GL873679           3126683 55 +   4132165 I

a score=1498767.000000
s hg38.chr5_KI270796v1_alt    143570 146 +    172708 TCTCAT-----A-GAAA-AAAGTCTATA-----------TAACCAGATAGCTGCATAGCCAGATGAC---CTT----TTATTG---CTCCTTCAAATAGGTCAAAATGAGC-AGTGATTCCTGTTATTGGGA------AATAATCAATCAGT---Gttttttttctttttttt-tttAAGAATAG
s panTro5.chr5             125246865 146 + 181907262 TCTCAT-----A-GAAA-AAAGTCTATA-----------TAACCAGATAGCTGCATAGCCAGATGAC---CTT----TTATTG---CTCCTTCAAATAGGTCAAAATGAGC-AGTGATTCCTGTTATTGGGA------AATAATCAATCAGt---tttttttttctttttttt-tttAAGAATAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126583598 142 + 183735486 TCTCAT-----A-GAAA-AAAGTCTATA-----------TAACCAGATAGCTGCATAGCCAGATGAC---CTT----TTATTG---CTCCTTCAAATAGGTCAAAATGAGC-AGTGATTCCTGTTATTGGGA------AATAATCAATCAGT---TTTTTT----TCTTTTTT-TTTAAGAATAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1775336 146 +   8933513 TCTCAT-----A-GAAG-AAAGTCTGTA-----------TAACCAGATAGTTGCATAGCCAGATGAC---CTT----TTATTG---CTCCTTCAAATAGATCAAAATGAGC-AGTGATTCCTGTTATTGGGA------AATAATCAATCAGT---Gtttttttttcttttttt-tttAAGAATAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139909790 144 + 163208435 TCTCAT-----A-GAAA-AAAGTCTATA-----------TAACCAGATAGCTGCATAGCCAGATGAC---CTT----TTATTG---CTCCTTCAAATAGGTCAAAATGAGC-AGTGATTCCTGTTATTGGGA------AATAATCAGT--Gt---ttttttttttcttttttc-tttAAGAATAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122894580 147 + 180051392 TCTCAT-----C-AAGA-AAAGTCTATA-----------TAACCAGATGGCTGCATAGCCAGATGAC---CTT----TGGCTG---CTCCTTCAAATAGGTCAAAATGAGC-GGTGATTCCTGTTATTGGGA------AATAATCAATCAGT---GTTTTTCTTTTTTCTTTTATTTTAGAATAG
i rheMac8.chr6             C 0 I 4
s macFas5.chr6             124318200 147 + 181584905 TCTCAT-----C-AAGA-AAAGTCTATA-----------TAACCAGATGGCTGCATAGCCAGATGAC---CTT----TGGCTG---CTCCTTCAAATAGGTCAAAATGAGC-GGTGATTCCTGTTATTGGGA------AATAATCAATCAGT---GTTTTTCTTTTTTCTTTTATTTTAGAATAG
i macFas5.chr6             C 0 I 4
s macNem1.NW_012012355v1    16316849 147 +  18395747 TCTCAT-----C-AAGA-AAAGTCTATA-----------TAACCAGATGGCTGCATAGCCAGATGAC---CTT----TGGCTG---CTCCTTCAAATAGGTCAAAATGAGC-GGTGATTCCTGTTATTGGGA------AATAATCAATCAGT---GTTTTTCTTTTTTCTTTTATTTTAGAATAG
i macNem1.NW_012012355v1   C 0 I 4
s cerAty1.NW_012002512v1     5329260 147 +  26952557 TCTCAT-----C-GAGA-AAAGTCTATA-----------TAACCAGATGGCTGCATAGCCAGATGAC---CTT----TGACTG---CTCCTTCAAATAGGTCAAAATGAGC-AGTGATTCCTGTTATTGGGA------AATAATCAATCAGT---GTTTTTCTTTTTTCTTTTATTTTAGAATAG
i cerAty1.NW_012002512v1   C 0 I 4
s chlSab2.chr23             28429588 150 +  82825804 TCTCAT-----A-GAGA-AAAGTCTATA-----------TAACCAGATAGCTGCATAGCCAGATGAC---CTT----TGACTG---CTCCTTCAAATAGGTCAAAATGAGC-AGTGATTCCTGTTATTGGGA------AATAATCAGTGtttttcttttttcttttttcttttattttAGAATAG
i chlSab2.chr23            C 0 I 4
s manLeu1.NW_012103321v1     4099452 147 -   4237731 TCTCAT-----C-GAGA-AAAGTCTATA-----------TAACCAGATGGCTGCATAGCCAGATGAC---CTT----TGACTG---CTCCTTCAAATAGGTCAAAATGAGC-AGTGATTCCTGTTATTGGGA------AATAATCAATCAGT---GTTTTTCTTTTTTCTTTTATTTTAGAATAG
i manLeu1.NW_012103321v1   C 0 I 4
s colAng1.NW_012119644v1      367996 147 -   1175262 TCTCAT-----A-GAGA-AAAGTCTATA-----------TAACCAGATAGCTGCATAGCCAGATGAC---CTT----TGATTG---CTCCTTCAAATAGGTCAAAATGAGC-AGTGATTCCTGTTATTGGGA------AATAATCAATCAGT---GTTTTTCTTTTTTCTTTTATTTTAGAATAG
i colAng1.NW_012119644v1   C 0 I 4
s calJac3.chr2             123722658 136 - 204313951 TATCAT-----A-GAAC-AAAGTCTATA-----------CAACCAGATAGATGCATAGCCAGATGAC---CTT----TTATTG----TCCTTCAAACAGGCAAAAATGAGC-AGTGATTCCTGTTACTAGGA------AATAATCAATC-TT---TTTTTTTTTT---------TTTAAGAATAG
i calJac3.chr2             C 0 I 4
s saiBol1.JH378106          55766233 135 -  71252344 AATCAT-----AGGAAA-AAAGTCTGTA-----------GAACCAGATAGATGCATAGCCAGATGAC---CTT----TTATTG----TCCTTCAAACAGGTAAAAATGAGC-AGTGATTCCTGTTACTAGGA------AATAATCAATC------TTTTTTTTTT---------TTTAAGAATAG
i saiBol1.JH378106         C 0 I 4
s cebCap1.NW_016107590v1       69822 137 -   3089952 TATCAT-----A-GAAA-AAAGTCTATA-----------GAACCAGATAGATGCATAGCCAGATGAC---CTT----TTATTG----TCCTTCAAACAGGTAAAAATGGGC-AGTAATTCCTGTTACTAGGA------AATAATCAATCTTT---TTTTTTTTTT---------TTTAAGAATAG
i cebCap1.NW_016107590v1   C 0 I 4
s aotNan1.NW_018505940v1    13270075 135 -  42888418 TATCAT-----A-GAAA-AAAGTCTATA-----------GAACCAGATAGATGCATAGCCAGATGAC---CTT----TTATTG----TCCTTCAAACAGGTAAAAATGAGC-AGTGATTCCTGTTACTAGGA------AATAATCAATC--T---TTTTTTTTTT---------TTTTAGAATAG
i aotNan1.NW_018505940v1   C 0 I 4
s otoGar3.GL873679           3126738 128 +   4132165 TCTCTT-----A-CCCA-CAGGTTCATA-----------TAATAAGATAGATGCATAACCAGGTGAC---CTT----TTATTG---TTCTCTTAA----GTCAAAAACATC-AGTCATTCCTGTTAATGGGA------AATAATCACTTAGA---GTTT---------------TTTAAGAAGAG
i otoGar3.GL873679         I 55 I 4
s mm10.chr18                55564164 130 +  90702639 TCTCAC-----A-AAAG-TATAGCCACA-----------TAACCAGGTAGGTATATAACCAGATGACCATCAT----TTACTG---GTTCCCCAGATAGACCAAAGCCAGCTAGTCATTCGTATTATATTGATGAACTAATCACCAATCAGA---TAG---------------------------
i mm10.chr18               C 0 I 4
s canFam3.chr11             14967943 142 +  74389097 TCTCATGAGAAA-AAAA-AAAGTCTATA-----------TAACAAGATAGATGCATGATTGGATGAC---CTTCCTCTCACTG----CCCCCTGGACAGGTCAAAAGTGGT-AGTAATTCCTGTTACTGTGA------AACAATCAATCAAC---CAGTTC-------------CTTTAGAATAG
i canFam3.chr11            C 0 I 4
s dasNov3.JH567306           2690724 144 +   3667625 ACTCAT-----A-AAAATGAAGTCCATGCCACAGAACTCTGACAAGATGGATGTATAACTGAAGACC---ATT----TTTCTGTAGCTCCCTTGGATGAGTTCAAAGTAGC-ACTAATTGCTAATATTGGGA------AAGAATCAACCATT---C------------------TTTTAGAATAG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60600913 209 + 108143057 I
e proCoq1.NW_012155062v1     3636432 231 +  11683526 I

a score=2198924.000000
s hg38.chr5_KI270796v1_alt    143716 134 +    172708 -AATGTTATTGTGAACTTTTGTGTGTAACAGAGAAGTGATAATTTGTTCATGTTTGAAAGATATTCCCTCAATGTTTAAATCAATAATCAGCCAAATGGGAAGATTGCAGCCGTGCTTGGTGCAGACTTCCTAC----C
s panTro5.chr5             125247011 134 + 181907262 -AATGTTACTGTGAACTTTTGTCTGTAACAGGGAAGTGATAATTTGTTCATGTTTGAAAGATATTCCCTCAATGTTTAAATCAATAATCAGCCAAATGGGAAGATTGCAGCCGTGCTTGATGCAGACTTCGTAC----C
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126583740 134 + 183735486 -AATGTTACTGTGAACTTTTGTCTGTAACAGAGAAGTGATAATTTGTTCATGTTTGAAAGATATTCCCTCAATGTTTAAATCAATAATCAGCCAAATGGGAAGATTGCAGCCGTGCTTGATGCAGACTTCCTAC----C
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1775482 134 +   8933513 -AATGTTATTGTGAACTTTTGTCTGTAACAGAGAAGTGATAATTTGTTCATGTTTGAAAGATATTCCCTCAATGTTTAAATCAATAATCAGCCAAATGGGAAGATTGCAGCTGTGCTTGGTGCAGACTTCCTAC----C
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139909934 134 + 163208435 -AATGTTATTGTGAACTTTTGTCTGTAACAGAGAAGTGATAATTCGTTCATGTTTGAAAGATACTCCCTCAATGTTTAAATCAATAATCAGCCAAATGGGAAGATTGCAGCCATGCTTGGTGCAGACTTCCTAC----C
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122894731 134 + 180051392 -AATGTTATTGTGAACTTTTGTCTGTAACAGAGAAGTGATAATTCGTTCATGTTTGAAAGATATTCCCTCAATGTTTAAATCAATAATCAGCCAAATAGGAAGATTGCAGTCATGCTTGGTGCAGACTTCCTAC----C
i rheMac8.chr6             I 4 C 0
s macFas5.chr6             124318351 134 + 181584905 -AATGTTATTGTGAACTTTTGTCTGTAACAGAGAAGTGATAATTCGTTCATGTTTGAAAGATATTCCCTCAATGTTTAAATCAATAATCAGCCAAATAGGAAGATTGCAGTCATGCTTGGTGCAGACTTCCTAC----C
i macFas5.chr6             I 4 C 0
s macNem1.NW_012012355v1    16317000 134 +  18395747 -AATGTTATTGTGAACTTTTGTCTGTAACAGAGAAGTGATAATTCGTTCATGTTTGAAAGATATTCCCTCAATGTTTAAATCAATAATCAGCCAAATAGGAAGATTGCAGTCATGCTTGGTGCAGACTTCCTAC----C
i macNem1.NW_012012355v1   I 4 C 0
s cerAty1.NW_012002512v1     5329411 134 +  26952557 -AATGTTATTGTGAACTTTTGTCTGTAACAGAGAAGTGATAATTCGTTCATGTTTGAAAGATATTCCCTCAATGTTTAAATCAATAATCAGCCAAATAGGAAGATTGCAGTCATGCTTGGTGCAGACTTCCTAC----C
i cerAty1.NW_012002512v1   I 4 C 0
s chlSab2.chr23             28429742 134 +  82825804 -AATGTTATTGTGAACTTTTGTCTGTAACAGAGAAGTGATAATTCGTTCATGTTTGAAAGATATTCCCTCAATGTTTAAATCAATAATCAGCCAAATAGGAAGATTGCAGTCATGCTTGGTGCAGACTTCCTAC----C
i chlSab2.chr23            I 4 C 0
s manLeu1.NW_012103321v1     4099603 134 -   4237731 -AATGTTATTGTGAACTTTTGTCTGTAACAGAGAAGTGATAATTCGTTCATGTTTGAAAGATATTCCCTCAATGTTTAAATCAATAATCAGCCAAATAGGAAGATTGCAGTCATGCTTGGTGCAGACTTCCTAC----C
i manLeu1.NW_012103321v1   I 4 C 0
s colAng1.NW_012119644v1      368147 134 -   1175262 -AATGTTGTTGTGAACTTTTGTCTGTAACAGAGAAGTGATAATTCGTTCATGTTTGAAAGATATTCCCTCAATGTTTAAATCAATAATCAGCCAAATAGGAAGATTGCAGTCATGCTTGGTGCAGACTTCCTAC----C
i colAng1.NW_012119644v1   I 4 C 0
s calJac3.chr2             123722798 134 - 204313951 -AATGTTATTGTGAGCTTTCATCTGTAACAGAGAAGTGATAATTTGTCCATGTTTGAAAGATACTCCCCCAATGTTTAAATCAATAATCAGCCAAATGGGAAGATTGCAGCCATGTTTGGTGCAGACTTACTAC----C
i calJac3.chr2             I 4 C 0
s saiBol1.JH378106          55766372 134 -  71252344 -AATATTATTGTGAGCTTTCATCTGTAACAGAGAAGTGATAATTCGTTCATGTTTGAAAGATACTCCCTCAGTGTTTAAGTCAATAATCAGCCAAATGGGAAGATTGCAGCCATGCTTGGTGCAGACTTACTAC----C
i saiBol1.JH378106         I 4 C 0
s cebCap1.NW_016107590v1       69963 134 -   3089952 -AATGTTATTGTGAGCTTTCATCTGTAACAGAGAAGCGATAATTCATTCATGTTTGAAAGATACTCCCTCAATGTTTAAATCAATAATCAGCCAAATGGGAAGATTGCAGCCATGCTTGGTGCAGACTTACTAC----C
i cebCap1.NW_016107590v1   I 4 C 0
s aotNan1.NW_018505940v1    13270214 134 -  42888418 -AATGTTATTGTGAGCTTTCATCTGTAACAGAGAAGTGATAATTCGTTCATGTTTGAAAGATGCTCTCTCAATGTTTAAATCAATAATCAGCCAAATGGGAAGATTGCAGCCATGCTTGATGTAGACTTACTAC----C
i aotNan1.NW_018505940v1   I 4 C 0
s micMur3.chr12             60601122 134 + 108143057 -AATGTTATTGTGAACTTCCATCTGTAACAGATAAGTGACAATTCCTTCATGTTTGAAAGATATTCTCTCAATGTTTAAATCAATAACCAGCCAGTCTGGAAGACTGCAGTCATGTTTAGTGCAGACTTCCTAC----C
i micMur3.chr12            I 209 C 0
s proCoq1.NW_012155062v1     3636663 138 +  11683526 -AATGTTATTGTGAACTTCCGTCTGTAACAGAGAAGTGACAATTCATTCACGTTCGAAAGCTACTCCCTCAATGTTTAAATCGATAGCCAGCCAGATCGGAAGACTGCAGTCATGCTTGGTGCAGACTTCCTACCTTTC
i proCoq1.NW_012155062v1   I 231 C 0
s otoGar3.GL873679           3126870 130 +   4132165 -AGGGTTATTGTGAACTTCCATTTGTATCAGAAAAGTGAAAATTCATTCATGTTGGAAAG---CTTCCTCAATGTTTAAATCAATAACCAGCCACATTGGAAAAGTGCAGT-AGGTTTGGTGCAGGCTTCCTAC----C
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55564298 130 +  90702639 -AGCATTGCT-CCAGCCTTTGTCTT--ACAGAGAAGGGGGAAGTCTTCAGTGCTTGAATGCTGCTCCACTGTTGGTTAGATTAGCAATCAGCCAGGTAGAAAGGGTG-GGCCTTAATTGATGCAGTTTTTCTGT----C
i mm10.chr18               I 4 I 1086
s canFam3.chr11             14968089 134 +  74389097 -ACTGTGACTGTGAACTTCTATCTCTAGCAGAGAAGTGAGAATGCCCTCATGTTTGGCAGACACCTCATCAATGCTGAAATCAACAACTAGACAGATTGGGAGACATCAGCCATGCTGGGTGCAACCTTCCTAC----C
i canFam3.chr11            I 4 C 0
s dasNov3.JH567306           2690868 135 +   3667625 GACCAATATTGTAAACTTCTATCTGTAATAGGGAAGCTAGAATTCACTCTTGTCTGAGCTATACTCTGTCAATGCTTAGATCGATAACTGCTCAGATTGGAAGGCTGCAGCTATGCTTGGTGCAATCTTCCTTC----C
i dasNov3.JH567306         C 0 C 0

a score=194144.000000
s hg38.chr5_KI270796v1_alt    143850 12 +    172708 ATTAGTGCCTAT
s panTro5.chr5             125247145 12 + 181907262 ATTAGTGCCTAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126583874 12 + 183735486 ATTAGTGCCTAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1775616 12 +   8933513 ATTAGTGCCTAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139910068 12 + 163208435 ATTAGTACCCAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122894865 12 + 180051392 ATTAGTGCCTAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124318485 12 + 181584905 ATTAGTGCCTAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16317134 12 +  18395747 ATTAGTGCCTAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5329545 12 +  26952557 ATTAGTGCCTAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28429876 12 +  82825804 ATTAGTGCCTAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4099737 12 -   4237731 ATTAGTGCCTAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      368281 12 -   1175262 ATTAGTGCCTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123722932 12 - 204313951 ATTAGTGCCTAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55766506 12 -  71252344 ATTAGTGCCTAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       70097 12 -   3089952 ATTAGTGCTTAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13270348 12 -  42888418 ATTAGTGCCTAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60601256 12 + 108143057 TTTAGTGCCTAT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3636801 12 +  11683526 TTTAGTGCCTAT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3127000 12 +   4132165 TTTAGTGTCTGT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14968223 12 +  74389097 TTTAGTACCCAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2691003 12 +   3667625 ATCAGTGTCCAT
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55564428 1086 +  90702639 I

a score=1333895.000000
s hg38.chr5_KI270796v1_alt    143862 89 +    172708 CTTTTTGGACCCGAAGAACTTAACTGTGTTGGTCATGGGTTTTACTTAGGGTTGGTCAAACCATTTAGC-TGGGCTGTATTTACTAAAGT
s panTro5.chr5             125247157 89 + 181907262 CTTTTTGGACCCGAAGAACTTAACTGTGTTGGTCATGGGTCTTACTTGGGGTTGGTCAAACCATTTAGC-TGGGCTGTATTTACTAAAGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126583886 89 + 183735486 CTTTTTGGACCCGAAGAACTTAACTGTGTTGGTTATGGGTCTTACTTGGGGTTGGTCAAACCATTTAGC-TGGGCTGTATTTACTAAAGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1775628 89 +   8933513 CTTTTTGGACCCGAAGAACTTAACTGTGTTGGTCATGGGTCTTACTTAGGGTTGGTCAAACCATTTAGC-TGGGCTGTATTTACTAAAGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139910080 89 + 163208435 CTTTTTGGACCAGGGGAACCTAACTGTGTTGGTCATGGGTCTTACTTAGGGTTGGTCAAACCATTTAGC-TGGGCTGTATTTACTAAAGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122894877 89 + 180051392 CATTTTGGACCAGAAGAACTTAACTGTGTCGGTCATGGATCTTACTTAGGGTTGGTCAGACCAGTTAGC-TGGACTGTATTTACTAAAGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124318497 89 + 181584905 CATTTTGGACCAGAAGAACTTAACTGTGTCGGTCATGGATCTTACTTAGGGTTGGTCAGACCAGTTAGC-TGGACTGTATTTACTAAAGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16317146 89 +  18395747 CATTTTGGACCAGAAGAACTTAACTGTGTCAGTCATGGATCTTACTTAGGGTTGGTCAGACCAGTTAGC-TGGACTGTATTTACTAAAGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5329557 89 +  26952557 CATTTTGGACCAGAAGAACTTAACTGTGTCGGTCATGGATCTTACTTAGGGTTGGTCAGACCAGTTAGC-TGGACTGTATTTACTAAAGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28429888 89 +  82825804 CATTTTGGACCAGAAGAACTTAACTGTGTCGGTCATGGATCTTACTTAGGGTTGGTCAGACCAGTTAGC-TGGACTGTATTTACTAAAGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4099749 89 -   4237731 CATTTTGGACCAGAAGAACTTAACTGTGTCGGTCATGGATCTTACTTAGGGTTGGTCAGACCAGTTAGC-TGGACTGTATTTACTAAAGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      368293 89 -   1175262 CTTTTTGGACCAGAAGAACTTAACTGTGTCGGTCATGGATCTTACTTAGGGTTGGTCAGACCAGTTAGC-TGGGCTGTATTTACTAAAGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123722944 76 - 204313951 CTTTTTGGACCGGAAGAAC-------------TCATGGGTCTTACTTAGGGTTAGTCAAACCATTTAGA-TGGGCTATATTTACTAAAGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55766518 89 -  71252344 CTTTTTGGACCCGAAGAACTTAACTGTGTTGGTCATGGGTCTTACTTAGGGTTGGTAAAACCATTTAGC-TGGGCTATATTTACTAAAGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       70109 89 -   3089952 CTTTTTGGACCAGAAGAACTTAGCTGTGTTGGTCATGGGTCTTACTTAGGGTTAGTCAAACCATTTAGC-TGGGCTATATTTACTAAAGT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13270360 89 -  42888418 CTTTTTGGACCAGAAGAACTTAACTGTGTTGGTCATGGGTCTTACTTAGGGTTAGTCAAACCATTTAGC-TGGGCTATATTTACTAAAGT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60601268 89 + 108143057 CTTTTTTGACCAGAAGAAC-TAAGTGTGCTAGTCTTGGGTCCCACATAGGGTTGGTCAGACCAATTAGCATTGGCTATGTTAGCCAAAGT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3636813 89 +  11683526 CTTTTTTGACCAGAAGAATGTAAGTGTGCTAGTCTTGGGTCTCATCTAGGGTTGGTCAGACCAATTAGC-TGGGCTGTATTTGCCAAAGT
i proCoq1.NW_012155062v1   C 0 I 55
s otoGar3.GL873679           3127012 89 +   4132165 CTTTTTTGACCAGAAGAAAATGAGCGAGCTGATCTTGGGCCTCACCTAGGGTTGGTCAGACTGGTTAGC-TGGGCTATATCTGCCAACGT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55565514 79 +  90702639 cctttcacaccc--agaacacaa------taGTCTTGGATC--ACTTAGGGCTGGTCAGACCAGCTGAC-AAGGTTATTTTTGCTTGACT
i mm10.chr18               I 1086 C 0
s canFam3.chr11             14968235 88 +  74389097 -CATCTTGACTAGAAGAACACAGGTGTGCTGGGCTTGGGTCTCACCTCGGGTCTGTCAGACCAATTAGC-TGGACGATGTTTGTGGAAGT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2691015 89 +   3667625 CCTTTTTGACTAGAAGAACAAATGTCTGCTGGTCTTGGGTCTCACCTAAGGTCAGGCAGGCCGATTAGT-CAGGCAGTATTTGCTAAAGT
i dasNov3.JH567306         C 0 C 0

a score=799391.000000
s hg38.chr5_KI270796v1_alt    143951 55 +    172708 CTAATAGGCAATAGAACGAGACCAATACATGTCAAAAATTCACATTTGAAGTGAA
s panTro5.chr5             125247246 55 + 181907262 CTGATAGGCAATAGAACGAGACCAATACATGTCAAAAATTCACATTTGAAGTGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126583975 55 + 183735486 CTGATAGGCAATAGAACGAGACCAATACATGTCAAAAATTCACATTTGAAGTGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1775717 55 +   8933513 CTGATAGGCAATAGAACGAGACCAATACATGTCAAAAATTCACATCTGAAGTGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139910169 55 + 163208435 CTGATAGGCAATAGAACGAGACCAATACATGTCAAAAATTCACATTTGAAGTGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122894966 55 + 180051392 TTGATAGGCAATAGAATGAGACCAATACATGTCAAAAATTCACATTTGAAGTGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124318586 55 + 181584905 TTGATAGGCAATAGAATGAGACCAATACATGTCAAAAATTCACATTTGAAGTGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16317235 55 +  18395747 TTGATAGGCAATAGAATGAGACCAATACATGTCAAAAATTCACATTTGAAGTGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5329646 55 +  26952557 TTGATAGGCAATAGAATGAGACCAATACATGTCAAAAATTCACATTTGAAGTGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28429977 55 +  82825804 TTGATAGGCAATAGAATGAGACCAATACATGTCAAAAATTCACATTTGAAGTGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4099838 55 -   4237731 TTGATAGGCAATAGAATGAGACCAATACATGTCAAAAATTCACATTTGAAGTGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      368382 55 -   1175262 TTGATAGGCAATGGAACGAGACCAATACATGTCAAAAATTCACATTTGAAGTGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123723020 55 - 204313951 GTAATAGGCAACAGAATGAGACCAATACATGTCAAAAATTCACATTTGAAGTGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55766607 55 -  71252344 CTGATAGGCAACAGAATGAGACCAATTCATGTCAAAAATTCACATTTAAAGTGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       70198 55 -   3089952 CTGATAGGCAACAGAATGAGACCAATACATGTCAAAAATTCACATTTGAAGTGAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13270449 55 -  42888418 CTGATAGGCAACAGAATGAGAACAATACATGTCAAAAATTCACATTTCAAGTGAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60601357 55 + 108143057 TCAATAGGCAACAGAATGAGACCAACGCGTGGCAACAGTTCACATGTGAAAGGAA
i micMur3.chr12            C 0 I 1
s otoGar3.GL873679           3127101 55 +   4132165 CTGACAGGCAACAGAATGAGACCAATGCATGTCAGTAGTTCACGTGTGAAAGGAA
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55565593 55 +  90702639 TTGATAGACAGGAAAATGAGGCTAATATGCAGCAATAATCTACACATAAAATTCT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14968323 53 +  74389097 CTAACAGGCAAGAAAATGAGATCAATGCATGTCAATAATTCAT-TGTGAAATGA-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2691104 46 +   3667625 CCAACAGGCAACAGAAAGAGACCAATGT---------ATTCAAATGTGGAATTAA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3636902 55 +  11683526 I

a score=782863.000000
s hg38.chr5_KI270796v1_alt    144006 49 +    172708 TCTCAACCACGGCTGAGGCTTACATTTGGTTTCTTCTCAACTGTAAAGA
s panTro5.chr5             125247301 49 + 181907262 TCTCAACCATGGCTGAGGCTTACATTTGGTTTCTTCTCAACTGTAAAGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126584030 45 + 183735486 TCTCAACCATGGCTGAGG----CATTTGGTTTCTTCTCAACTGTAAAGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1775772 48 +   8933513 TCTCAACCACGGCTGAGG-TTACATTTGGTTTCTTCTCAACTGTAAAGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139910224 49 + 163208435 TCTCAGCCATGGCTGAGGCTTACATTTGGTTTCTTCCCAACTGTAAAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122895021 49 + 180051392 TCTCAACCATGGCTGAGGCTTACATTTGGTTTCTTCCCAACTGTAAAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124318641 49 + 181584905 TCTCAACCATGGCTGAGGCTTACATTTGGTTTCTTCCCAACTGTAAAGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16317290 49 +  18395747 TCTCAACCATGGCTGAGGCTTACATTGGGTTTCTTCCCAACTGTAAAGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5329701 49 +  26952557 TCTCAACCATGGCTGAGGCTTACATTTGGTTTCTTCCCAACTGTAAAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28430032 49 +  82825804 TCTCAACCATGGCTGAGGCTTACATTTGGTTTCTTCCCAACTGTAAAGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4099893 49 -   4237731 TCTCAACCATGGCTGAGGCTTACATTTGGTTTCTTCCCAACTGTAAAGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      368437 49 -   1175262 TCTCAACCATGGCTGAGGCTTACATTTGGTTTCTTCCCAACTGTAAAGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123723075 49 - 204313951 TCTCAACCATGGCTGAGGCTTACATTTGGTTCCTTCTCAACTGTAAAGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55766662 49 -  71252344 ACTCAACCATGGCTGAGTCTTACATTTGGTTCCTTCTCAACTGTAAAGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       70253 49 -   3089952 TCTCAACCATGGCTGAGGCTTACATTTGGTTCCTTCTCAACTGTAAAGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13270504 49 -  42888418 TCTCAACCATGGCTGAGGCTTACATTTGATTCCTTCTCAACTGTAAAGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60601413 49 + 108143057 TCTCAACCTTGGCTGAGGCTTACATTTGGTTTCTTCCCAGTTGTGGAGA
i micMur3.chr12            I 1 C 0
s proCoq1.NW_012155062v1     3636957 49 +  11683526 TCTCAACCCTGGCTGAGGCTTACATTTGGTTTCTTCCCAACCGCAGAGA
i proCoq1.NW_012155062v1   I 55 I 51
s otoGar3.GL873679           3127157 46 +   4132165 TCGCAACCTTGG-TGAGGCTT--ATTTAATTTCTTCCCAACTGTAGAAA
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55565648 49 +  90702639 TGTCAAGTGTCCCTGAAGCTGGTACTTGATTCCATCCCAGATGCTGGGA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14968376 49 +  74389097 TCTCAGCCCTCACCGAGGCTTGCATTTGGTCCCTTCCAAACTGTAGGGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2691150 47 +   3667625 TCTTAACCCTCACTGCAGCTTGTGTTTGCTGCCTTCCC--CTGTAGAAA
i dasNov3.JH567306         C 0 C 0

a score=816768.000000
s hg38.chr5_KI270796v1_alt    144055 80 +    172708 AATGG---AACATCTG-GGGAGATTATTCAGATACACATTTTGA-----TATTCCACCGCAACGTAAGGTATTAAAGGAATGCACTTTA
s panTro5.chr5             125247350 80 + 181907262 AATGG---AACATCTG-GGGAGATTATTCAGATACACATTTTGA-----TATTCCACTGCAACGTAAGGTATTAAAGGAATGCACTTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126584075 80 + 183735486 AATGG---AACATCTG-GGGAGATTATTCAGATACACATTTTGA-----TATTCCACTGCAACGTAAGGTATTAAAGGAATGCACTTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1775820 80 +   8933513 AATGG---AACATCTG-GGGAGATTATTCAGATACACATTTTGA-----TATTCCACTGCAACGTAAGGTATTAAAGGAATGCACTTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139910273 80 + 163208435 AATGG---AACATCTG-GGGAGATTATCCAGATACACATTTTGA-----TATTCCACTGCAACGTAAGGTATTAAAGGAATGCACTTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122895070 83 + 180051392 AATGGAACAACATCTG-GGGAGTTTATCCAGATACACATTTTGA-----TATTCCACTGCAACGTACGGTATTAAAGGAATGCACTTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124318690 83 + 181584905 AATGGAACAACATCTG-GGGAGTTTATCCAGATACACATTTTGA-----TATTCCACTGCAACGTACGGTATTAAAGGAATGCACTTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16317339 83 +  18395747 AATGGAACAACATCTG-GGGAGTTTATCCAGATACACATTTTGA-----TATTCCACTGCAACGTACGGTATTAAAGGAATGCACTTTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5329750 83 +  26952557 AATGGAACAACATCTG-GGGAGTTTATCCAGATACACATTTTGA-----TATTCCACTGCAACGTACGATATTAAAGGAATGCACTTTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28430081 83 +  82825804 AATGAGACAACATCTG-GGGAGTTTATCCAGATACACATTTTGA-----TATTCCACTGCAGCGTACGGTATTAAAGGAATGCACTTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4099942 83 -   4237731 AATGGAACAACATCTG-GGGAGTTTATCCAGATACACATTTTGA-----TATTCCACTGCAACGTACGGTATTAAAGGAATGCACTTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      368486 83 -   1175262 AATGGAACAACATCTG-GGGAGAGTATCCAGATACACATTTTGA-----TATTCCACTGCAACGTATGGTATTAAAGGAATGCACTTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123723124 73 - 204313951 AATGGAACAACATCTG-GGAAGATTATCCAA----------TGA-----TTTCCCACTGTAAAGTATGGTATTAAAGGAATGCACTTTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55766711 47 -  71252344 AATGGAACAACATCTA-GGGAGATTATCC-----------------------------------------ATTAAAGGAATGCACTTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       70302 73 -   3089952 AATGGAACAACATCTG-GGGAGATTATCCAG----------TGA-----TATCCCACTGTAAATTATTGTATTAAAGGAATGCACATTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13270553 73 -  42888418 AATGGAACAACATCTG-GGGAGATTATCCAG----------TGA-----TATCCCACTGTAAAGTATGGTATTAAAGGAATGCACTTTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60601462 75 + 108143057 AATGG---AACACCCG-GGAAGATTATCCAGATATACATTTTGG-----TAGCCTACTGCAG-----AGCATTAAGAGGACGTACTTTA
i micMur3.chr12            C 0 C 0
s otoGar3.GL873679           3127203 74 +   4132165 AGTGA---AACAGCTG-GGAAAATCATCC------ACATTTGAGTACCCTACCCTACTGCAG-----AATATCAAGAGGATGTATTTTA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55565697 71 +  90702639 CATGG---CTTATCTG----AGATTCTATAGGCAGACATTTGGA-----TCTCTCAGTGCAA-----AGTACTCCAGGACT-TACTTGG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14968425 75 +  74389097 -ATGG---AACACGTGGGGGAGATTGTCCAGAGATACGTTTTGA-----TATTCTGAGGCTA-----AGAACTTAGGGGATGTACTTCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2691197 72 +   3667625 AGTGG---GACACCTG-AGGAGATTG-ACAGAGGTACATTTTGA-----T------CTTAGAGCCAGAGTACT-AAGGAATGTACTTCA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3637006 51 +  11683526 I

a score=1051500.000000
s hg38.chr5_KI270796v1_alt    144135 72 +    172708 AACAACTGTGTTTAAAA--G--GGGG---GACAATTCAGTTCTATTCAC--TCTG-TAGAAACGGAAAATATTTCATCTCAG
s panTro5.chr5             125247430 72 + 181907262 AACAACTGTGTTTAAAA--G--GGGG---GACAATTCAGTTCTCTTCAG--TCTG-TAGAAATGGAAAATATTTCATCTCAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126584155 72 + 183735486 AACAACTGTGTTTAAAA--C--GGGG---GACAATTCAGTTCTCTTCAG--TCTG-TAGAAATGGAAAATATTTCATCTCAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1775900 72 +   8933513 AACAACTGTGTTTAAAA--G--GGGG---GACAATTCAGTTCTCTTCAC--TCTG-TAGAAATGGAAAATATTTCATCTCAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139910353 74 + 163208435 AACAACTGTGTTTAAAAGGG--GGGG---GACAATTCAGTTCTCTTCAC--TGTG-TGGAAATGGAAAATATTTCACCTCAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122895153 72 + 180051392 AACAACTGTGTTTAAAA--G--GGGG---GACAATTCAGTTCTCTTCAC--TGTG-TAGAAATGGAAAATGTTTCACCTCAG
i rheMac8.chr6             C 0 I 4
s macFas5.chr6             124318773 72 + 181584905 AACAACTGTGTTTAAAA--G--GGGG---GACAATTCAGTTCTCTTCAC--TGTG-TAGAAATGGAAAATGTTTCACCTCAG
i macFas5.chr6             C 0 I 4
s macNem1.NW_012012355v1    16317422 72 +  18395747 AACAACTGTGTTTAAAA--G--GGGG---GACAATTCAGTTCTCTTCAC--TGTG-TAGAAATGGAAAATGTTTCACCTCAG
i macNem1.NW_012012355v1   C 0 I 4
s cerAty1.NW_012002512v1     5329833 72 +  26952557 AACAACTGTGTTTAAAA--G--GGGG---GACAATTCAGTTCTCTTCAC--TGTG-TAGAAATGGAAAATGTTTCACCTCAG
i cerAty1.NW_012002512v1   C 0 I 4
s chlSab2.chr23             28430164 72 +  82825804 AATAACTGTGTTTAAAA--G--GCGG---GACAATTCGGTTCTCTTCAC--TGTG-TAGAAATGGAAAATGTTTCACCTCAG
i chlSab2.chr23            C 0 I 4
s manLeu1.NW_012103321v1     4100025 72 -   4237731 AACAACTGTGTTTAAAA--G--GGGG---GACAGTTCAGTTCTCTTCAC--TGTG-TAGAAATGGAAAATGTTTCACCTCAG
i manLeu1.NW_012103321v1   C 0 I 4
s colAng1.NW_012119644v1      368569 72 -   1175262 AACAACTGTATTTAAAA--G--GGGG---GACAATTCAGTTCTCTTCAG--TGTG-TAGAAATGGAAAATGTTTCACCTCAG
i colAng1.NW_012119644v1   C 0 I 4
s calJac3.chr2             123723197 72 - 204313951 AACAACTGTATTTAAAA--G--GGAT---TAAAATTCAGTTATCTTCAC--TGTG-TAGAAATAGAAAATATTTCAACTTAG
i calJac3.chr2             C 0 I 4
s saiBol1.JH378106          55766758 66 -  71252344 AACAACTGTATTTAAAA--G--GGG----AAAAATTCAG-----TTCAC--TGTG-TAGAAATGGAAAATATTTCACTTCAG
i saiBol1.JH378106         C 0 I 4
s cebCap1.NW_016107590v1       70375 72 -   3089952 AACAACTGTATTTAAAA--G--GGGG---GAAAATTCAGTTCTCTTCAC--TGTG-TAGAAATGGAAAATATTTCACCTCAG
i cebCap1.NW_016107590v1   C 0 I 4
s aotNan1.NW_018505940v1    13270626 72 -  42888418 AACAACTGTATTTAAAA--G--GGGG---GAAAATTCAGTTCTCTTCAC--TGTG-TAGAAATGGAAAATATTTCACCTCAG
i aotNan1.NW_018505940v1   C 0 I 4
s micMur3.chr12             60601537 72 + 108143057 AACAATTGTGTTTAAGG--G--TGGGG--GGCAATTCAG-TCTGTCCAC--TGTG-TAGAAATGGAAAACATTTCACCTCAG
i micMur3.chr12            C 0 I 2
s proCoq1.NW_012155062v1     3637057 75 +  11683526 AACAATTGTGTTTAAAG--G--GGGGGGTGGCAATTTAGTTCTGTTCAC--TGTG-TAGAAATGGAAAACATTTCACCTCAG
i proCoq1.NW_012155062v1   I 51 I 2
s otoGar3.GL873679           3127277 71 +   4132165 AACAATTGTGTTTCAAA--G--GGG----AACGATTCAGTTCTGTTCAT--AGTG-TAGAAATGCAACACGTTCCACCTCAA
i otoGar3.GL873679         C 0 I 4
s mm10.chr18                55565768 69 +  90702639 -AAAAGTCTGTTTCAAA--GTAGAGG---GTAGATTTGGGTCTTT---C--TGTG--AGAGTTGGACAGCATTTTGCTTCTG
i mm10.chr18               C 0 I 372
s canFam3.chr11             14968500 75 +  74389097 AATGACTGTATGGAAAA--A--AAGGA--GACTATTCAATTCTGTTCGCGGTATA-TATAATTGGAAAACATTTCATCTCAG
i canFam3.chr11            C 0 I 4
s dasNov3.JH567306           2691269 74 +   3667625 AACAATTGTGTTTAAAA--G--GGGAC--AACAATTCAGTTCAGGTCAC--TGTAAGAGAAAAGGAAAACATTTCTCCTCAG
i dasNov3.JH567306         C 0 C 0

a score=8998128.000000
s hg38.chr5_KI270796v1_alt    144207 540 +    172708 ----TATTTCT--CT----TATATGTGTATGAGATAAT-----------GCTAATACTT-ATACTCAAT-------AAATAATATGAGTGACATAAATTAATATGGGCATAAATGAATACTAATGCCTA----------GACAAAATGAGTGATTTGCCTTGCTTT--ATTGATTGGTTTACAAATTATGTTTACTGTCATATAGAAATTGTAGCTGCCTTG--AACATGGCTAGTTAATTTGCTACATTAATCTGATGGTAACAGAGCTTAATTTCTCTGAGTCTTATCCAAAATAAACACGCCTGAATTT--CACCATGGTGGTAGTTCTGAAATGTTCCCACTTCAGCAAAACTATTAATATCTACTGCCCAAAAA---CATAATTGTAGCAATAACTCTC-CACTAAGAAATTGAATTAGTACTTCTAGGTAGAGGAGAGTACAATTTTAAGCATAACTTAA-AC-TTTCAGCATGGCT--CAAAAATGTC-A-----------------AAAATCACTGCTTAAAGAAAACCATA---TAACTCAAAAGCACTCATTCATGATATTGCTATAA----------ATAAGTGC-------------------TCTATATCTGCCTTATCACCAA-----------ATAGAG
s panTro5.chr5             125247502 540 + 181907262 ----TATTTCT--CT----TATATGTGTATGAGATAAT-----------GCTAATACTT-ATACTCAAT-------AAATAATATGAGTGACATAAATTAATATGGGCATAAATGAATACTAATGCCTA----------GACAAAATGAGTGATTTGCCTTGCTTT--ATTGATTGGTTTACAAATTATGTTTACTGTCATATAGAAATTGTAGCTGCCTTG--AACATGGCTAGTTAATTTGCTACATTAATCTGATGGTAACAGAGCTTAATTTCTCTGAGTCTTATCCAAAATAAACACGCCTGAATTT--CACCATGGTGGTAGTTCTGAAATGTTCCCACTTCGGCAAAACTATTAATATCTACTGCCCAAAAA---CATAATTATAGCAATAACTCTC-CACTAAGAAATTTAATTAGTACTTCTAGGTAGAGGAGAGTACAATTTTAAGCATAACTTAA-AC-TTTCAACATGGCT--CAAAAATGTC-A-----------------AAAATCACTGCTTAAAGAAAACCACA---TAACTCAAAAGCACTCATTCATGATATTGCTATAA----------ATAAGTGC-------------------TCTATATCTGCCTTATCACCAA-----------ATAGAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126584227 540 + 183735486 ----TATTTCT--CT----TATATGTGTGTGAGATAAT-----------GCTAATACTT-ATACTCAAT-------AAATAATATGAGTGACATAAATTAATATGGGCATAAATGAATACTAATGCCTA----------GACAAAATGAGTGATTTGCCTTGCTTT--ATTGATTGGTTTACAAATTATGTTTACTGTCATATAGAAATTGTAGCTGCCTTG--AACATGGCTAGTTAATTTGCTACATTAATCTGATGGTAACAGAGCTTAATTTCTCTGAGTCTTATCCAAAATAAACACGCCTGAATTT--CACCATGGTGGTAGTTCTGAAATGTTCCCACTTCGGCAAAACTATTAATATCTACTGCCCAAAAA---CATAATTATAGCAATAACTCTC-CACTAAGAAATTTAATTAGTACTTCTAGGTAGAGGAGAGTACAATTTTAAGCATAACTTAA-AC-TTTCAACATGGCT--CAAAAATGTC-A-----------------AAAATCACTGCTTAAAGAAAACCATA---TAACTCAAAAGCACTCATTCATGATATTGCTATAA----------ATAAGTGC-------------------TCTATATCTGCCTTATCACCAA-----------ATAGAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1775972 540 +   8933513 ----TATTTCT--CT----TATATGTGTATGAGATAAT-----------GCTAATACTT-ATACTCAAT-------AAATAATATGAGTGACATAAATTAATATGGGCATAAATGAATACTAATGCCTA----------GACAAAATGAGTGATTTGCCTTGCTTT--ATTGATTGGTTTACAAATTATGTTTACTGTCATATAGAAATTGTAGCTGCCTTG--AACATGGCTAGTTAATTTGCTACATTAATCTGCTGGTAACAGAGCTTAATTTCTCTGAGTCTTATCCAAAATAAACATGCCTGAATTT--CACCATGGTGGTAGTTCTGAAATGTTCCCACTTCAGCAAAACTATTAATATCTACTGCCCAAAAA---CATAATTATAGCAATAACTCTC-CACTAAGAAATTTAATTAGTACTTCTAGGTAGAGGAGAGTACAATTTTAAGCATAACTTAA-AC-TTTCAACATGGCT--CAAAAATGTC-A-----------------AAAATCACTGCTTAAAGAAAACCATA---TAACTCAAAAGCACTCATTTATGATATTGCTATAA----------ATAAGTGC-------------------TCTATATCTGCCTTATCACCAA-----------ATAGAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139910427 538 + 163208435 ----TATTTCT--CT----TATATGTGTATGAGATAAT-----------GCTAATACTT-ATACTCAAT-------AAATAATTTGACTGACATAAATTAATATGGGCATAAATGAATACTAATGCCTA----------GAGAAAATGAGTGATTTGCCTTGCTTT--ATTGATTGGTTTACAAATGATGTTTACTGTCATATAGAAATTGTGGCTGCCTTG--AACATGGCTAGTTAATTTGCTACATTAATCTGATGGTAACAGAGCTTAATTTCTCTGAGTC--ATCCAAAATAAACACGCCTGAATTT--CACCATGGTGGTAGTTCTGAAATGTTCCCACTTCAGCAAAACTATTAATATCTACTGCCCAAAAA---CATAATTATAGCAATAACTCTC-CACTAAGAAATTTAATTAGTACTTCTAGGTAGAGGAGAGTACAACTTTAAGCATAACTTAA-AC-TTTCACCATGGCT--CAAAAATGTC-A-----------------AAAATCACTGCTTAAAGAAAACCATA---TAACTGAAAAGCACCCATTCAACATATTGCTATAA----------ATAAGTGT-------------------TCTTTATCTGCCTTATCACCAA-----------ACAGAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122895229 536 + 180051392 ----TATTTCT--CT----TATATGTGTATGAGATAAT-----------GCTAATATTT-ATACTCaat-------aaataatatgagtgacataaattaatataggcataaatgaataCTAATGCCGA----------GAGAAAATGAGTGATTTGCCTTGCTTT--ATTGATTGGTTTACAAATTATGTTTACTGTCATATAGATATTGTGGCTGCCTTG--AACACGGCTAGTTAATTTGCTACATTAATCTGATGGTAACAGAGCTTAATTTCTCTGAGTCTTATCCAAAATAAACACGCCTGAATTTTCCACCACGGTGGTAGTTCTGAAATGTTCCCACTTCAGCAAAACTATTAATATCTACTGCCCAAAAA---TATAATTATAGCAATAACTCTC-CACTAAGAAATTTAATTAGTACTTCTAGGTAGAGGAGAGTACAACCTGAAGCATAACTTAA-AC-TTTCAACATGGCT--GAAAAATGTC-A-----------------AAAATCACTGCTTAAAGAAAACCATA---TAACTCAAAAGCACCTATTCAAGATCTTGCTATAA----------ATAAGTGC-------------------TGTATGTCTGCCTTATCACC-----------------GG
i rheMac8.chr6             I 4 C 0
s macFas5.chr6             124318849 536 + 181584905 ----TATTTCT--CT----TATATGTGTATGAGATAAT-----------GCTAATATTT-ATACTCaat-------aaataatatgagtgacataaattaatataggcataaatgaataCTAATGCCGA----------GAGAAAATGAGTGATTTGCCTTGCTTT--ATTGATTGGTTTACAAATTATGTTTACTGTCATATAGATATTGTGGCTGCCTTG--AACACGGCTAGTTAATTTGCTACATTAATCTGATGGTAACAGAGCTTAATTTCTCTGAGTCTTATCCAAAATAAACACGCCTGAATTTTCCACCACGGTGGTAGTTCTGAAATGTTCCCACTTCAGCAAAACTATTAATATCTACTGCCCAAAAA---TATAATTATAGCAATAACTCTC-CACTAAGAAATTTAATTGGTACTTCTAGGTAGAGGAGAGTACAACCTGAAGCATAACTTAA-AC-TTTCAACATGGCT--GAAAAATGTC-A-----------------AAAATCACTGCTTAAAGAAAACCATA---TAACTCAAAAGCACCTATTCAAGATCTTGCTATAA----------ATAAGTGC-------------------TGTATGTCTGCCTTATCACC-----------------GG
i macFas5.chr6             I 4 C 0
s macNem1.NW_012012355v1    16317498 536 +  18395747 ----TATTTCT--CT----TATATGTGTATGAGATAAT-----------GCTAATATTT-ATACTCaat-------aaataatatgagtgacataaattaatataggcataaatgaataCTAATGCTGA----------GAGAAAATGAGTGATTTGCCTTGCTTT--ATTGATTGGTTTACAAATTATGTTTACTGTCATATAGATATTGTGGCTGCCTTG--AACACGGCTAGTTAATTTGCTACATTAATCTGATGGTAACAGAGCTTAATTTCTCTGAGTCTTATCCAAAATAAACACGCCTGAATTTTCCACCACGGTGGTAGTTCTGAAATGTTCCCACTTCAGCAAAACTATTAATATCTACTGCCCAAAAA---TATAATTATAGCAATAACTCTC-CACTAAGAAATTTAATTGGTACTTCTAGGTAGAGGAGAGTACAACCTGAAGCATAACTTAA-AC-TTTCAACATGGCT--GAAAAATGTC-A-----------------AAAATCACTGCTTAAAGAAAACCATA---TAACTCAAAAGCACCTATTCAAGATCTTGCTATAA----------ATAAGTGC-------------------TGTATGTCTGCCTTATCACC-----------------GG
i macNem1.NW_012012355v1   I 4 C 0
s cerAty1.NW_012002512v1     5329909 536 +  26952557 ----TATTTCT--CT----TATATGTGTATGAGAtaat-----------gctaatactt-atactcaat-------aaataatatgagtgacataaattaatataggcataaatgaataCTAATGCCGA----------GAGAAAATGAGTGATTTGCCTTGCTTT--ATTGATTGGTTTACAAATTATGTTTACTGTCATATAGATATTGTGGCTGCCTTG--AACACGGCTAGTTAATTTGCTACATTAATCTGATGGTAACAGAGCTTAATTTCTCTGAGTCTTATCCAAAATAAACATGCCTGAATTTTCCACCACGGTGGTAGTTCTGAAATGTTCCCACTTCAGCAAAACTATTAATATCTACTGCCCAAAAA---TATAATTATAGCAATAACTCTC-CATTAAGAAATTTAATTAGTACTTCTAGGTAGAGGAGAGTACAACCTGAAGCATAACTTAA-AC-TTTCAACATGGCT--CAAAAATGTC-A-----------------AAAATCACTGCTTAAAGAAAACCATA---TAACTCAAAAGCACCTATTCAAGATCTTGCTATAA----------ATAAGTGC-------------------TGTATGTCTGCCTTATCACC-----------------GG
i cerAty1.NW_012002512v1   I 4 C 0
s chlSab2.chr23             28430240 533 +  82825804 ----TATTTCT--CT----TATATGTGTATGAGAtaat-----------gctaatactt-atactcaat-------aaataatatgagtgacataaattaatataggcataaatgaataCTAATGCCGA----------GAGAAAATGAGTGATTTGCCTTGCTTT--ATTGATTGGTTTACAAATTATGTTTATTGTCATATAGATATTGTGGCTGCCTTG--AACACGGCTAGTTAATTTGCTACATTAATCTGATGGTAACAGAGCTTAATTTCTCTGAGTCTTATCCAAAATAAACACGCCTGAATTTTCCACCACGGTGGTAGTTCTGAAATGTTCCCACTTCAGCAAAACTATTAATATCTACTGCCCAAAAA---TATAATTATAGCAATAACTCTC-CACTAAGAAATTTAATTAGTACTTCTAGGTA---GAGAGTACTACTTGAAGCATAACTTAA-AC-TTTCAACATGGCT--CAAAAATGTC-A-----------------AAAATCACTGCTTAAAGAAAACCGTA---TAACTCAAAAGCACCTATTCAAGATCTTGCTATAA----------ATAAGTGC-------------------TGTATATCTGCCTTATCACC-----------------GG
i chlSab2.chr23            I 4 C 0
s manLeu1.NW_012103321v1     4100101 536 -   4237731 ----TATTTCT--CT----TATATGTGTATGAGAtaat-----------gctaatactt-atactcaat-------aaataatatgagtgacataaattaatataggcataaatgaataCTAATGCCGA----------GAGAAAATGAGTGATTTACCTTGCTTT--ATTGATTGGTTTACAAATTATGTTTACTGTCATATAGATATTGTGGCTGCCTTG--AACACGGCTAGTTAATTTGCTACATTAATCTGATGGTAACAGAGCTTAATTTCTCTGAGTCTTATCCAAAATAAACACGCCTGAATTTTCCACCACGGTGGTAGTTCTGAAATGTTCCCACTTCAGCAAAACTATTAATATCTACTGCCCAAAAA---TATAATTATAGCAATAACTCTC-CATTAAGAAATTTAATTAGTACTTCTAGGTAGAGGAGAGTACAACCTGAAGCATAACTTAA-AC-TTTCAACATGGCT--CAAAAATGTC-A-----------------AAAATCACTGCTTAAAGAAAACCATA---TAACTCAAAAGCACCTATTCAAGATCTTGCTATAA----------ATAAGTGC-------------------TGTATGTCTGCCTTATCACC-----------------GG
i manLeu1.NW_012103321v1   I 4 C 0
s colAng1.NW_012119644v1      368645 547 -   1175262 ----TATTTCT--CT----TATATGTGTATGAGAtaatgctaatacttagctaatactt-atactcaat-------aaataatatgagtgacataaattaataTAGGCGTAGATGAATACTAATGCCGA----------GAGAAAACGAGTGATTTGCCTTGCTTT--ATTGATTGGTTTACAAATTATGTTTACTGTCATATAGATATTGTGGCTGCCTTG--AACATGGCTAGTTAATTTGCTACATTAATCTGATGGTAACAGAGCTTAATTTCTCTGAGTCTTATCCAAAATAAACACGCCTGAATTTTCCACCACGGTGGTAGTTCTGAAATGTTCCCACTTCAGCAAAACTATTAATATCTACTGCCCAAAAA---TATAATTATAGCAATAACTCTT-CACTAAGAAATTTAATTAGTACTTCTAGGTAGAGGAGAGTACAACTTTAAGCACAACTTAA-AC-TTTCAACATGGCT--CAAAAATGTC-A-----------------AAAATCACTGCTTAAAGAAAACCATA---TAACTCAAAAGCACCTATTCAAGATCTTGCTATAA----------ATAAGTGC-------------------TGTATATCTGCCTTATCACT-----------------GG
i colAng1.NW_012119644v1   I 4 C 0
s calJac3.chr2             123723273 541 - 204313951 ----TATTTCT--TT----TATATGTACATGAGATAAT-----------GTTAATACTTAATGCTCAAT-------AAATAATATGAGTGACATAAATTAATATAGGCATAAATGAATACTAATGCCTA----------GAGAAAATGAGTGATTTGACTTGCTTT--ATTGATTGGTTTACAAATTATGTTTACTGTCATATAGAAATTGTGGCTGCCTTG--AACACGGCCAGTTAATTTGCTACATTAATCTGATGGTAACAGAGCTTAATTTCTCTGAGTCTTATCCAAAGTAAACACGCCTGAATTTTCCACTACGGTGGTAGTTCTGAAATGTTCCTACTTCAGCAAAACTATTAATATCTACTGCCAAAAAA---CATAATTATAGCAATAATTCTC-CACTAAGAAATTTAATTGCTACTTCCAGGTA--CTAGAGCACAACTTTAAATATAATTTAA-AC-TTTCAGCATGGCT--CAAGAATTTC-A-----------------AAAATCACTGCTTAAAGAATACCATG---TAACTCAAAAGTACCTATTCAAGATTTTGCTATAA----------ATAAGTGC-------------------TCTATATCTGTCTTATCACCAG-----------ATAGAG
i calJac3.chr2             I 4 C 0
s saiBol1.JH378106          55766828 536 -  71252344 ----TATTTCT--CT----TATATGTGTATGAGATAAT-----------GCTAAT-----ATGCTTAAT-------AAATAATATGAATGACATAAATTAATATAGGCATAAATGAATACTAATGCCTA----------GAGAAAATGAGTGATTTGACTTGCTTT--ATTGATTGCTTTACAAATTATATTTACTGTCATATAGAAATTGTGGCTGCTTTG--AACACGGCCAGTTAATTTGCTACATTAATCTGATGATAACAGAGCTTACTTTCTCCGAATCTTATCCAAAGTAAACACGCCTGAATTTTCCACTACGGTGGTAGTACTGAAATGTTCCCACTTCAGCAAAACTATTAATATCTACTGACCAAAAA---CATAATTGTAGCAATAATTCTC-CACTAAGAAATTTAATTACTACTTCCAGGTA--CGAGAGCACAACTTTAAGTATAACTTAA-AC-TTTCAACATGGCT--CAAAAATTTC-A-----------------AAAATCACTGCTTAAAGAAAACCATA---TAACTCAAAAGTACCTATTCAAGATCTTGCTGTAA----------ATAAGTGC-------------------TCTATATCTGTCTTATCACCAA-----------GTAGAG
i saiBol1.JH378106         I 4 C 0
s cebCap1.NW_016107590v1       70451 540 -   3089952 ----TATTTCT--CT----TATATGTGTATGAGATAAT-----------GCTAATACTT-ATGCTCAAT-------AAATTATATGAATGACATAAATTAATATAGGCATAAATGAATACTAATGCCTA----------GAGAAAATGAGTGATTTGACTTGCTTT--ATTGATTGGTTTACAAATTATGTTTACTGCCATATAGCAATTGTGGCTGCTTTG--AACATGGCCAGTTAATTTGCTACATTAATCTGATGGTAACAGAGCTTAATTTCTCTGAGTCTTATCCAAAGTAAACACATCTGAATTTTCCACTACAGTGGTAGTTCTGAAATGTTCCCACTTCAGCAAAACTATTAATATCTACTGCCCAAAAA---CATAATTATAGCAATAATTCTC-CACTAAGAAATTTAATTACTACTTTCAGGTA--CTAGAGCACAACTTTAAGTACAACTTAA-AC-TTTCAACATGGCT--CAAAAATTTC-A-----------------AAAATCACTGCTTAAAGAAAACCATA---TAACTCAAAAGTAGCTATTCAAGATCTTGCTATAA----------ATAAGTGC-------------------TCTATGTCTGTCTTATCACCAC-----------ATAGAG
i cebCap1.NW_016107590v1   I 4 C 0
s aotNan1.NW_018505940v1    13270702 540 -  42888418 ----TATTTCT--CT----TATATGTGTATGAGATAAT-----------GCTAATACTT-ATGCTTaat-------aaataatatgaatgacataaattaatataggcatacatgaataCTAATGCCTA----------GAGAAAATGAGTGATTTGACTTGCTTT--ATTGATTGGTTTACAAATTATGTTTACTGTCATATAGAAATTGTGGCTGCCTTG--AACACGGCCAGTTAATTTGCTACATTAATCTGATGGTAACAGAGCTTAATTTCTCTGAGTCTTATCCAAAGTAAACACGCCTGAATTTTCCACTACGGTGGTAGTTCTGAAATGTTCCCACTTCAGCAAAACTATTAATATCTACTGCCCAAAAA---CATAATTATAGCAATAATTCTC-CACTAAGAAATTTAATTACTACTTCCAGGTA--CTAGAGCAAAACTTTAAGTATAACTTAA-AC-TTTCAACATGGCT--CAAAAATTTC-A-----------------AAAATCACTGCTTAAAGAAAACCATA---TAACTCAAAAGTACCTATTCAACATCTTGCTATAA----------GTAAGTGC-------------------TCTGTATCTGTCTTATCACCAA-----------ATAGAG
i aotNan1.NW_018505940v1   I 4 C 0
s micMur3.chr12             60601611 547 + 108143057 ------TTTCT--TT----TATATGTGTATAAGATAAC-----------GCTAATACCT-ACATTTGAT-------AAATAATATGAATAACATAAATTAGTATCGGCATCAATGAATACTAATGCCTATACTGGATA-GAGAAAC--AGTGATTTGACCTGCTTTAAATTGATTGATTTACAAATTATGTTTACTGTCATATAGAAATTGTGGTTGTCTTGTATACAAGGCTAGTAGATTTGCCACATTAATCTGATAGTAACAGAGCTTAGTTTCTCTGAATCCTCTCTAAAGTAAATATGCCCGGATTTTCCACCACTGTGGTTGTTCTGAAATGTTTCCACTTCAGCAAAACTATTAATATCTATTGCCCGAAAA---CATAATTATTGCAATAACTCCC-CACTACAAAATTTGATTAGTATTTCCAGGTAGAAGAGAATACAACTTTAAGTATAACTTAA-AC-TTTCAGCATGGCT--CAAAAATGTC-A-----------------AAAATCACTGATTAAAGATAACAGTA---TAAGTCAAAAGAATCTATTCAAGATCTTGCTATAA----------ATAAG-----------------------CTGTCTCTATCTTATCACCAA-----------ATAAAG
i micMur3.chr12            I 2 I 45
s proCoq1.NW_012155062v1     3637134 548 +  11683526 ------TTTCT--TT----TATATGTGTAT-AGATAAT-----------GCTAATACCT-ACATTTGAG-------AAATAATATGAATGACAGAAATTTGTATAGGCATAAATGAATGCTAATGCCTATACTGGATA-GAGAAAATGAGTGATTTGACTTGCTTT--ATTGATTGGTTTACAAATTATGTTTATGGTTATATAGAAATTGTGGTTGTCTTG--TACATGGCTAGTTAATTTGCCACATTAATCTGATAGTAACAGAGCTTAATTTCTCTGAATCCTCTCCAAAGTAAATATGCCTGGATTTTCCACCAGTATGGTTGTTCTGAAATGTTTCCATTTCAGCACAACTATTAATATCTATTGGCCAAAAA---CATAATTATTGCAATAACTCCC-CACTACGAAATTTAATTAGTATTTCCAGGTAGAAGAGAGTACAACTTAAAGTATAACTTAA-AC-TTTCAACATGGCT--CAAAAATGTC-A-----------------AAAATCACTGATTAAAGACAACTATG---TAATTGAAAAGAATCTATTCAAGATCTTGCTATAA----------ATAAGCTC-------------------TCTGTATCTATCTTATCACCAA-----------ATAAAG
i proCoq1.NW_012155062v1   I 2 C 0
s otoGar3.GL873679           3127352 547 +   4132165 ----TTTTTCT--TT----TATATGTGCATGAGATAAT-----------GCTAATACCT-ATATTTGAT-------AAATAATGTGAATGAGATAAATTAGTACCAGCATAAATAAATCCTAATGCCCAGGCTGGATG-AAGAAAATGAGTGATTTGACTTGCTCT--ATTGATTGGTTTATAAATTATGTTTACTGTCATATAGAAATTGAGGCTGTCTTG--TACACGGCTAGTTAATTTGCCACATTAATCTAATCGTAGCAGAGCTTAATTTCTCTGAATCCTCTCCAAAGTAAATTTGCCTGGATTTTCCCCCACTGTCGTTGTTCTGAAAGGTTTCCACTTCAGCAAAACTATTAATATCTACTGCCCCCAAA---CATAATTGTAGCAATAACTCCC-CACTAGAAAATTTAATTGGTATTTCCAGGTAGAAGAGAGTATAACTTTAAGCACAACTTAA-GC-TTTCAACATGGCT--CAAAGATGTCAA-----------------AAAATGCCTGATTAAAGACAGCCATA---TAATTCAAAAGAATCTATTCAAGATATTGCTATTA----------ATAAGTGC-------------------TCTATAT-----TTATCACCAA-----------ATGAAG
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55566209 616 +  90702639 ----TATATCG--CC----TATAGCTATATGAAAT-AT-----------GCTAA------ATATTCAATATGACTCATATCAAATGAATGATATGAATTAATATAGGCACACATGAGTATTAATGTCTATATTGGATAGAAAAAAATGAGTTATTCAGCTTGTTTT--ATTGATTGGCTTAGAGTTTATGTTTACTGTCATAAAGAAATTGTGACTATCTTG--AACATGGCCGGTTAATTTGCTACATTAGTCTAAGTGTAA-GGATCTTGATTTCTCAGAGTTGTATTCAAAAGAAAGATGCCCAAGTTATGTCTTACTGTTGTCACTCTGAGATGCTTCTATTTCAATAAAACTGCTAATACCTAGTACCTTCAAT---CCTAATTATAACAGTAATTTTCACACTAGGAAATGTAATTAGCATTTTCAGGGACAGGTCAGTAAAACCTTAGAGATAAATTAAGAC-TTTCAAAATGTCTACCTAAAATCTC-ATAAAACAAAATGAAAACAAACTCATAATATACAGAAAATCCTACTCTAACCAGAAAGTACATATTTGATATCTTGGTAGGATCAtgtatgtatatgtgtgtgtgtgtgtgtgtgtgtgtgtgtATTTTGTGTCTTACCCATTTTGTGTCTTGCATGG
i mm10.chr18               I 372 I 2
s canFam3.chr11             14968579 556 +  74389097 ----TATTTCT--CTTATATATATGTGTATGAGATAAT-----------GCTAATATCT-ATAGTTGAT-------ACATAATATGAATGACATAAATTAGTATAGGCATAAATGAATACTAATGCCTAGGCTGGATA-GAGAAAATGAGTGATTTGACTTGCTTT--ATTGATTGGTTTACAAATTATGTTTACTGTCATATAGAAATTGTGGCTGCCTTG--AACACAGCTAGTTAATTTGCTACATTAATCTGATAGCAACAGAGCTTAATTTCGCTGAGCCCTATCCAAAGTAAATATGCCTGGATTCTCCACCAC--TGGTAGTTCTAAAATGTTTCCACTTCAGCAAAACTATTAACATCTACTGCCCTAAAACATCATAATTATTGCAATCACCCCC-AACCAGGACATTTAATTAGTATTTCCAGGTAGAGGAGGGTATAACTTTAAGTATAACTTAA-ACTTTTCAGCATGGCT--TCAGAATCTC-A-----------------AAAATCGCTGCTTAAAGAAAACT-TG---TAATTCAAAAGTACCTATTCAAGATCTTGCTATAA----------ATAAATTT-------------------TCTATATCTGTCTTATCAGCAG-----------ATGGAG
i canFam3.chr11            I 4 C 0
s dasNov3.JH567306           2691343 557 +   3667625 TATCTATTTCTCCCT----TATTCGTGTATGAGATAAT-----------GCTAATGCCT-ATACTCAAT-------ACATAATGGGAATGACATAAATTAGTATAGGCATAAATGAATACTAATGCCTATACTGGATA-GAGAAAATGAGTGATTTGACTTGCTTT--ATTGATTGGTTTACAAATTATGTTTACTGTCATATAGAAATTGTGGCTGCCTTG--AACACGGCTAGTTAATTTGCTACATTAATCTGATAGCAACAGAGCTTAATTTCTTTGAGTCCTATCCAAAGTAAACATGCTTGGATTCTCCTCAACGGTGGTAGTTCTAAAATGTTTCCACTTCAGCAAAACTATTAATATCTACTGTCT-AAAA---TGTCATTATAGCCATAACCCCC-CACCAGATAATATAATTAGTATTTCGGAATAGAGGAGAGTATAACTTTAAGTATAACTTAA-ACCTTTCAACATGGCT--CAAAACTCTC-A-----------------AACATGTCTGCTTAAAGTAAACCATG---TAATTGAAAAACACATAATCAAGATCTTGCTATGA----------ACAATTAT-------------------TCTATATCTGTGTTATCACTAA-----------ATGGAT
i dasNov3.JH567306         C 0 C 0

a score=473871.000000
s hg38.chr5_KI270796v1_alt    144747 37 +    172708 TTAGGATAGAGGTGTGTTG-TTGTTGAAGTGTGGTATC
s panTro5.chr5             125248042 37 + 181907262 TTAGGATAGAGGTGTGTTG-TTGTTGAAGTGTGGTATC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126584767 37 + 183735486 TTAGGATAGAGGTGTGTTG-TTGTTGAAGTGTGGTATC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1776512 37 +   8933513 TTAGGATAGAGGTGTGTTG-TTGTTGAAGTGTGGTATG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139910965 37 + 163208435 TTAGGATAGAGGTGTGTTG-TTGTTGAAGTGTGGTGTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122895765 37 + 180051392 TTAGGATAGAGGTGTGTAG-TTGGTGAAGTGTGGTGTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124319385 37 + 181584905 TTAGGATAGAGGTGTGTAG-TTGGTGAAGTGTGGTGTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16318034 37 +  18395747 TTAGGATAGAGGTGTGTAG-TTGGTGAAGTATGGTGTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5330445 37 +  26952557 TTAGGATAGAGGTGTGTAG-TTGGTGAAGTGTGGTGTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28430773 37 +  82825804 TTAGGATAGAGGTGTGTAG-TTGGTGAAGTGTGGTGTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4100637 37 -   4237731 TTAGGATAGAGGTGTGTAG-TTGGTGAAGTGTGGTGTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      369192 38 -   1175262 TTAGGATAGAGGTGTGTTGTTTGGTGAAGTGTGGTGTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123723814 37 - 204313951 TTAGGATAGAGGTGTGTTG-CTGGTGAAGTGTGGTGTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55767364 37 -  71252344 TTAGGATAGAGGTGCGTTG-CTGGTGAAGTGTGGTGTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       70991 37 -   3089952 TTAGGATAGAGGTGTGTTG-CTGGTGAAGTGTGGTGTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13271242 37 -  42888418 TTAGGATAGAGGTGTGTTG-CTGGTGAAGTGTGGTATA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3637682 32 +  11683526 -----ACGGAGGCGTGTTG-CTGGTGAAGTGTGGTGTA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3127899 30 +   4132165 TCGGAGCACAAGCAAGTTG-TTGGTGGGATA-------
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55566827 36 +  90702639 TTAGAATTTCGGCATGTTG-C-AATGAAAGCTGATGTG
i mm10.chr18               I 2 C 0
s canFam3.chr11             14969135 37 +  74389097 TTAGGGGAGAGGCATGTGG-CTGGGGAAGGATGGTATA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2691900 37 +   3667625 CTGGGACAGAGGTCCGCTG-CTGGTGAAGTGTGGTGTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60602158 45 + 108143057 I

a score=23274955.000000
s hg38.chr5_KI270796v1_alt    144784 1339 +    172708 AAATTGACTCTAGTATTTGAAAGGCAACTTTTATTGAAAATTGAAGATAACCTCTGAAAA-TCTTGAGTTATAAACAATCTGAGACCTCTGCCC-TTTTTGTTGAAAACTTCTGTATTATATGCACCACAAGAG----ACATATTTACATCAAAAAT-----------------------------GGAAACCCTTGAGCCTTGCTCAGTTAGTACGGAAAATGCAATCTAACTTCCTTTGGTTGATGTTTTATTAATAAAAATTGAAAAG-AAACCTTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTTGACAAAAGCTCAAGTTCAGCACTCTGG--ATTTCCCCCATGCTTGGCTGAATGAGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCAATTTCCGAGCAGGGGACACTGCTGCATGACGGATGAATGTTAG-AAATGTGGGATGCTGTGCTCTTTCATCTCTGTCACTGGATATTTATTCTGACTCGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAGGTCCTTGCCTAATTAATTCCCGACAC----TTTTTTCCCTATGACTGTGATTAGCAGCTGCAATCAGGTTGAGCAATTAGCTGCCTCCTTGCACTGTGATTTGCTCAGTACAGCCCCCAAGATGAGGCTCCATTCGGTCATTCAGTCTTTACTCTTAAAAAGTAGCTTGAGTAGGGAGGATTGATTTTTCACTTCGAGGTTTACAAATTTGCAGATAATTACAGAGGAGATTATTAAACCCATCTGCCAGCTGCTTTAGTCATCTCCCTGTTTAAGGTCCTCAAATCCTGAGCACCTtgggaa-g-agcacagcttgctggtgttct-ggaaccagaaaggttggggttgcaatccaggcctccctacttacaagctctttgaccttg----ggcaagttatttactatctctgtcaat----------------taaaagaagccctccctca-gggtttgtagtgaata-ttaaatgatgctaaA-TTCACAAATGGATTCAACAAATGTTTATTAAGAACTAGAA-AGTTCTGGGTACAGGCTGTTTTGTAGAAACATGGTATGATGGTGGt--aga--gaaagagaatgaat---atgtaagcaaacaagtatatccataaattgtgactaaccttgtgaaggaaaagaactgaatgcta---------tgag-agagagaatgtaactttagattgggtggttcaggaaagccttgctgaggaataacattaagttgTATGTG--TTCCAGG
s panTro5.chr5             125248079 1339 + 181907262 AAATTGACTTCAGTATTTGAAAGGCAACTTTTATTGAAAATTGAAGATAACCTCTGAAAA-TCTTGAGTTATAAACAATCTGAGACCTCTGCCC-TTTTTGTTGAAAACTTCTGTATTATATGCACCACAAGAG----ACATATTTACATCAAAAAT-----------------------------GGAAACCCTTGAGCCTTGCTCAGTTAGTACAGAAAATGCAATCTAACTTCCTTTGGTTGATGTTTAATTAATAAAAATTGAAAAG-AAACCTTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTTAACAAAAGCTCAAGTTCAGCACTCTGG--ATTTCCCCCATGCTTGGCTGAATGAGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCAATTTCCGAGCAGGGGACACTGCTGCATGACGGATGAATGTTAG-AAATGTGGGATGCTGTGCTCTTTCATCTCTGTCACTGGATATTTATAATGACTCGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAAGTCCTTACCTAATTAATTCCCGACAC----TTTTTTCCCTATGACTGTGATTAGCAGTTGCAATCAGGTTGAGCAATTAGCTGCCTCCTTGCACTGTGATTTGCTCAGTACGGCCCCCAAGATGAGGCTCCATTCGGTCATTCAGTCTTTACTCTTAAAAAGTAGCTTGAGTAGGGAGGATTTATTTTTCACTTCAAGGTTTACAAATTTGCAGATAATTACAGAGGAGATTATTAAACCCATCTGCCAGCTGCTTTAGTCATCTCCCTGTTTAAGGTCCTCAAATCCTGAGCACCTtgggaa-g-agcacagcttgctggtgttct-ggaaccagaaaggttggggttgcaatccaggcctccctacttacaagctctttgaccttg----ggcaagttatttactatctctgtcaat----------------taaaagaagccctccctca-gggtttgtagtgaata-ttaaatgatgctaaA-TTCACAAATGGATTCAACAAATGTTTATTAAGAACCAGAA-AGTTCTGGGTACAGGCTGTTTTGTAGAAACATGGTATGATGGTGGt--aga--gaaagagaatgaat---atgtaagcaaacaagtatatccataaattgtgactaaccttgtgaaggaaaagaactgaatgcta---------tgag-agagagaatgtaactttagattgggtggttcaggaaagccttgctgaggaataacattaagttgTATGTG--TTCCAGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126584804 1339 + 183735486 AAATTGACTTCAGTATTTGAAAGGCAACTTTTATTGAAAATTGAAGATAACCTCTGAAAA-TCTTGAGTTATAAACAATCTGAGACCTCTGCCC-TTTTTGTTGAAAACTTCTGTATTATATGCACCACAAGAG----ACATATTTACATCAAAAAT-----------------------------GGAAACCCTTGAGCCTTGCTCAGTTAGTACAGAAAATGCAATCTAACTTCCTTTGGTTGATGTTTTATTAATAAAAATTGAAAAG-AAACCTTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTTAACAAAAGCTCAAGTTCAGCACTCTGG--ATTTCCCCCATGCTTGGCTGAATGAGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCAATTTCCGAGCAGGGGACACTGCTGCATGACGGATGAATGTTAG-AAATGTGGGATGCTGTGCTCTTTCATCTCTGTCACTGGATATTTATTCTGACTCGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAAGTCCTTACCTAATTAATTCCCGACAC----TTTTTTCCCTATGACTGTGATTAGCAGTTGCAATCAGGTTGAGCAATTAGCTGCCTCCTTGCACTGTGATTTGCTCAGTACGGCCCCCAAGATGAGGCTCCATTCGGTCATTCAGTCTTTACTCTTAAAAAGTAGCTTGAGTAGGGAGGATTTATTTTTCACTTCAAGGTTTACAAATTTGCAGATAATTACAGAGGAGATTATTAAACCCATCTGCCAGCTGCTTTAGTCATCTCCCTGTTTAAGGTCCTCAAATCCTGAGCACCTtgggaa-g-agcacagcttgctggtgttct-ggaaccagaaaggttggggttgcaatccaggcctccctacttacaagctctttgaccttg----ggcaagttatttactatctctgtcaat----------------taaaagaagccctccctca-gggtttgtagtgaata-ttaaatgatgctaaA-TTCACAAATGGATTCAACAAATGTTTATTAAGAACCAGAA-AGTTCTGGGTACAGGCTGTTTTGTAGAAACATGGTATGATGGTGGt--aga--gaaagagaatgaat---atgtaagcaaacaagtatatccataaattgtgactaaccttgtgaaggaaaagaactgaatgcta---------tgag-agagagaatgtaactttagattgggtggttcaggaaagccttgctgaggaataacattaagttgTATGTG--TTCCAGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1776549 1340 +   8933513 AAATTGACTCCAGTATTTGAAAGGCAACTTTTATTGAAAATTGAAGATAACCTCTGAAAA-TCTTGAGTTATAAACAATCTGAGACCTCTGCCC-TTTTTGTTGAAAACTTCTGTATTATATGCACCACAAGAG----ACATGTTTACATCAAAAAT-----------------------------GGAAACCCTTGAGCCTTGCTCAGTTAGTACAGAAAATGCAATCTAACTGCCTTTGGTTGATGTTTTATTAATAAAAATTGAAAAG-AAACCTTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTTGACAAAAGCTCAAGTTCAGCACTCTGG--ATTTCCCCCATGCTTGGCTGAATGAGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCAATTTCCGAGCAGGGGACACTGCTGCATGACGGATGAATGTTAG-AAATGTGGGATGCTGTGCTCTTTCATCTCTGTCACTGGATATTTATTCTGACTCGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAGGTCCTTGCCTAATTAATTCCCGACAC----TTTTTTCCCTATGACTGTGATTAGCAGTTGCAATCAGGTTGAGCAATTAGCTGCCTCCTTGCACTGTGATTTGCTCAGTACGGCCCCCAAGATGAGGCTCCATTCGGTCATTCAGTCTTTACTCTTAAAAAGTAGCTTGAGTAGGGAGGATTTATTTTTCACTTCGAGGTTTACAAATTTGCAGATAATTACAGAGGAGATTATTAAACCCATCTGCCAGCTGCTTTAGTCATCTCCCTGTTTAAGGTCCTCAAATCCTGAGCACCTtgggaa-g-agcacagcttgctggtgttct-ggaaccagaaaggttggggttgcaatccaggcctccctacttacaagctctttgaccttg----ggcaagttatttactatctctgtcaat----------------taaaagaagccctccctcaggggtttgtagtgaata-ttaaatgatgctaaA-TTCACAAATGGATTCAACAAATGTTAATTAAGAACCAGAA-AGTTCTGGGTACAGGCTGTTTTGTAGAAACATGGTATGATGGTGGT--AGA--GAAAGAGAATGAAT---ATGTAAGCAAACAAGTATATCCATAAATTGTGACTAACCTTGTGAAGGAAAAGAACCGAATGCTC---------TGAG-AGACAGAATGTAACTTTAGATTCGGTGGTTCAGGAAAGCCTTGCTGAGGAATAACATTAAGTTGTATGTG--TTCCAGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139911002 1327 + 163208435 AAATTTACTCCAGTATTTGAAAGGCAACTTTTATTGAAAATTGAGGATAACCTCTGAAAA-TCTTGAGTTATAAACAATCTGAGACCTCTGCCC-TTTTTGTTGAAAACTTCTGTTTTATATGCCCCACAAGAG----ACATATTTACATCAAAAAT-----------------------------GGAAACACTTGAGCCTTGCTCAGTTAGTACAGAAAATGCAATCCAACTTCCTTTGGTTGATGTTTTATTAATAAAAATTGAAAAG-AAACCTTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTTGACAAAAGCTGGAGTTCAACACTCTGG--ATTTCCCCCATGCTTGGCTGAATGAGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCAATTTCCGAGCAGGGGACACTGCTGCATGACGGATGAATGTTAG-AAATGTGGGATGCTGTGCTCTTTCATCTCTGTCACTGGATATTTATTCTGACTCGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGGAGGTCCTTGCCTAATTAATTCCCGACAC----TTTTTTCCCTATGACTGTGATTAGCAGTTGCAATCAGGTTGAGCAATTAGCTGCCTCCTTGCACTGTGATTTGCTCAGTACGGCCCCCAAGATGAGGCTCCGTTTGGTCATTCAGTCTTTACTC-TAAAAAGTAGCTTGAGTAGGGAGGATTTATTTTTCACTTCAAGGTTTACAAATTTGCAGATAATTATAGAGGAGATTATTAAACCCATCTGCCAGCTGCTTTAGTCATCTCCCTGTTTAGGGTCCTCAAATCCTGAGCACCTtgggaa-g-agtgcagcttgctgatgttct-ggaacgagaaagggtggggttgcaatcccggcctctccacttacaagctctttgaccttg----g-----------acTATCTCTGCCAAT----------------TAAAAGAAGCCCTCCTTCA-GGGTTTGTAGTGAATA-TTAAATGTTGCTAAA-TTTACAAATGGATTCAACAAATGTTTATTAAGAACCAGAA-AGTTCTGGGTATGGGCTGTTTTGTAGAAACATGGTATGATGGTAGt--aga--gaaagagaatgagt---atgtaagcaaacaagtatatccataaattgtgactaaccttgtgaaggaaaagaactgaatgcta---------tgag-agagagcatgtaactttagattgggtggtgcaggaaagccttgctgaggaagaacattaagttgTATGTG--TTCTAGG
i nomLeu3.chr2             C 0 I 1
s rheMac8.chr6             122895802 1329 + 180051392 AGATTGACTCCAGTATTTGAAAGGCAACTTGGATTGAAAATTGGAGATAACCTCTGAAAA-TCTTGAGTTATAAACAATCTGGGACCTCTGCCC-TTTT--TTGAAAACTTGTGTAATATATGCACCACAAGAG----ACATATTGACATCAAAAAT-----------------------------AGAAACCCTTGAGCCTTGCTCAGTTAGTACAGAAAATGCAATGCAACTTCCTTTGGTTGATGTTTTATTAATAAAAATTGAAAAG-AAACCTTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTTGACAAAAGCTCGAGTTCAACACTCTGG--ATTTCCCCCATGCTTGGCTGAATGAGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCAATTTCCAAGCAGGGGACACTGCTGCATGACGGATGAATGTTAG-AAATGTGGGATGCTGTGCTCTTTCATCTCTGTCACTGGATATTTATTCTGACTCGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAGGTCCTTGCCTAATTAATTCCTGACAC----TTTTTTCCCTATGACTGTGATTAGCAGTTGCAATCAGGTTGAGCAATTAGCTGCCTCCTTGCACTGTGATTTGCTCAGTGCGGCCCCCAAGATGAGGCTCCATTCGGTCATTCAGTCTTTACTC-CAAAAAGAAGCTTGAGTAGAGAGGATTTATTTTTCACTTCAAGGTTTACAAATTTGCAGATAATTATAGAGGAGATTATGAAGCCCATCTGCCAGCTGCTTTAGTCATCTCCCTGTTTAGGGTCCTCAAATCCGGAGCACCTtgggaa-g-agcgcagcttgccggtgttct-ggaaccagaaaggttggggtttcaatccaggcctccccacttacaagctctttgaccttg----ggcaagttatttactatctctgtcaat----------------taaaagaagtcctccctca-gggtttgtaatgaata-ttaaatgatgctaaA-TTCACAAATGGATTCAACACATGTTTATTAAGAACCAGAA-GGTTCTGGGTATAGGCTGTTTTGAAGAAACACAGTATGATGGTGGT--GGA--GAAAGAGAATGACT---ACGTAAGCAAACCAGTAAATCTGTAAATTGTGACTGACCTTGTGAAGGAAAAGAATTGAATGCTA---------TGAG-AGAGTGAATGTAAC-------TGGGTGGTTCAGGAAAGCCTTGCTGAGGAAGAACATTAAGTTGTGTGCG--TTCCAGG
i rheMac8.chr6             C 0 I 1
s macFas5.chr6             124319422 1329 + 181584905 AGATTGACTCCAGTATTTGAAAGGCAACTTGGATTGAAAATTGGAGATAACCTCTGAAAA-TCTTGAGTTATAAACAATCTGGGACCTCTGCCC-TTTT--TTGAAAACTTGTGTAATATATGCACCACAAGAG----ATATATTGACATCAAAAAT-----------------------------GGAAACCCTTGAGCCTTGCTCAGTTAGTACAGAAAATGCAATGCAACTTCCTTTGGTTGATGTTTTATTAATAAAAATTGAAAAG-AAACCTTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTTGACAAAAGCTCGAGTTCAACACTCTGG--ATTTCCCCCATGCTTGGCTGAATGAGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCAATTTCCAAGCAGGGGACACTGCTGCATGACGGATGAATGTTAG-AAATGTGGGATGCTGTGCTCTTTCATCTCTGTCACTGGATATTTATTCTGACTCGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAGGTCCTTGCCTAATTAATTCCCGACAC----TTTTTTCCCTATGACTGTGATTAGCAGTTGCAATCAGGTTGAGCAATTAGCTGCCTCCTTGCACTGTGATTTGCTCAGTGCGGCCCCCAAGATGAGGCTCCATTCGGTCATTCAGTCTTTACTC-CAAAAAGAAGCTTGAGTAGGGAGGATTTATTTTTCACTTCAAGGTTTACAAATTTGCAGATAATTATAGAGGAGATTATGAAGCCCATCTGCCAGCTGCTTTAGTCATCTCCCTGTTTAGGGTCCTCAAATCCGGAGCACCTtgggaa-g-agcgcagcttgccggtgttct-ggaaccagaaaggttggggttgcaatccaggcctccccacttacaagctctttgaccttg----ggcaagttatttactatctctgtCAAT----------------TAAAAGAAGTCCTCCCTCA-GGGTATGTAATGAATA-TTAAATGATGCTAAA-TTCACAAATGGATTCAACACATGTTTATTAAGAACCAGAA-GGTTCTGGGTATAGGCTGTTTTGAAGAAACACGGTATGATGGTGGT--GGA--GAAAGAGAATGACT---ACGTAAGCAAACCAGTAAATCTGTAAATTGTGACTGACCTTGTGAAGGAAAAGAATTGAATGCTA---------TGAG-AGAGTGAATGTAAC-------TGGGTGGTTCAGGAAAGCCTTGCTGAGGAAGATCATTAAGTTGTGTGCG--TTCCAGG
i macFas5.chr6             C 0 I 1
s macNem1.NW_012012355v1    16318071 1329 +  18395747 AGATTGACTCCAGTATTTGAAAGGCAACTTGGATTGAAAATTGGAGATAACCTCTGAAAA-TCTTGAGTTATAAACAATCTGGGACCTCTGCCC-TTTT--TTGAAAACTTGTGTAATATATGCACCACAAGAG----ATATATTGACATCAAAAAT-----------------------------GGAAACCCTTGAGCCTTGCTCAGTTAGTACAGAAAATGCAATGCAACTTCCTTTGGTTGATGTTTTATTAATAAAAATTGAAAAG-AAACCTTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTTGACAAAAGCTCGAGTTCAACACTCTGG--ATTTCCCCCATGCTTGGCTGAATGAGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCAATTTCCAAGCAGGGGACACTGCTGCATGACGGATGAATGTTAG-AAATGTGGGATGCTGTGCTCTTTCATCTCTGTCACTGGATATTTATTCTGACTCGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAGGTCCTTGCCTAATTAATTCCCGACAC----TTTTTTCCCTATGACTGTGATTAGCAGTTGCAATCAGGTTGAGCAATTAGCTGCCTCCTTGCACTGTGATTTGCTCAGTGCGGCCCCCAAGATGAGGCTCCATTCGGTCATTCAGTCTTTACTC-CAAAAAGAAGCTTGAGTAGGGAGGATTTATTTTTCACTTCAAGGTTTACAAATTTGCAGATAATTATAGAGGAGATTATGAAGCCCATCTGCCAGCTGCTTTAGTCATCTCCCTGTTTAGGGTCCTCAAATCCGGAGCACCTtgggaa-g-agcgcagcttgccggtgttct-ggaaccagaaaggttggggttgcaatccaggcctccccacttacaagctctttgaccttg----ggcaagttatttactatctctgtcaat----------------taaaagaagtcctccctca-gggtttgtaatgaata-ttaaatgatgctaaA-TTCACAAATGGATTCAACACATGTTTATTAAGAACCAGAA-GGTTCTGGGTATAGGCTGTTTTGAAGAAACACGGTATGATGGTGGT--GGA--GAAAGAGAATGACT---ACGTAAGCAAACCAGTAAATCTGTAAATTGTGACTGACCTTGTGAAGGAAAAGAATTGAATGCTA---------TGAG-AGAGTGAATGTAAC-------TGGGTGGTTCAGGAAAGCCTTGCTGAGGAAGAACATTAAGTTGTGTGCG--TTCCAGG
i macNem1.NW_012012355v1   C 0 I 1
s cerAty1.NW_012002512v1     5330482 1329 +  26952557 AGATTGACTCCAGTATTTGAAAGGCAACTTGGATTGAAAATTGGAGATAACCTCTGAAAA-TCTTGAGTTATAAACAATCTGGGACCTCTGCCC-TTTT--TTGAAAACTTCTGTAATATATGCACCACAAGAG----ATATATTGACATCAAAAAT-----------------------------GGAAACCCTTGAGCCTTGCTCAGTTAGTACAGAAAATGCAATGCAACTTCCTTTGGTTGATGTTTTATTAATAAAAATTGAAAAG-AAACCTTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTTGACAAAAGCTCGAGTTCAACACTCTGG--ATTTCCCCCATGCTTGGCTGAATGAGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCAATTTCCAAGCAGGGGACACTGCTGCATGACGGATGAATGTTAG-AAATGTGGGATGCTGTGCTCTTTCATCTCTGTCACTGGATATTTATTCTGACTCGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAGGTCCTTGCCTAATTAATTCCCGACAC----TTTTTTCCCTATGACTGTGATTAGCAGTTGCAATCAGGTTGAGCAATTAGCTGCCTCCTTGCACTGTGATTTGCTCAGTGCGGCCCCCAAGATGAGGCTCCATTCGGTCATTCAGTCTTTACTC-CAAAAAGAAGCTTGAGTAGGGAGGATTTATTTTTCACTTCAAGGTTTACAAATTTGCAGATAATTATAGAGGAGATTATGAAGCCCATCTGCCAGCTGCTTTAGTCATCTCCCTGTTTAGGGTCCTCAAATCTGGAGCACCTtgggaa-g-agcgcagcttgccggtgttct-ggaaccagaaaggttggggttgcaatccaggcctccccacttacaagctctttgaccttg----ggcaagttatttactatctctgtcaat----------------taaaagaagtcctccctca-gggtttgtaatgaata-ttaaatgatgctaaA-TTCACAAATGGATTCAACACATGTTTATTAAGAACCAGAA-GGTTCTGGGTATAGGCTGTTTTGAAGAAACATGGTATGATGGTGGT--GGA--GAAAGAGAATGACT---ATGTAAGCAAACCAGTAAATCTGTAAATTGTGACTAACCTTGTGAAGGAAAAGAATTGAATGCTA---------TGAG-AGAGTGAATGTAAC-------TGGGTGGTTCAGGAAAGCCTTGCTGAGGAAGAACATTAAGTTGTGTGCG--TTCCAGG
i cerAty1.NW_012002512v1   C 0 I 1
s chlSab2.chr23             28430810 1329 +  82825804 AGATTGACTCCAGTATTTGAAAGGCAACTTGTATTGAAAATTGGAGATAACCTCTGAAAA-TCTTGAGTTATAAACAATCTGGGACCTCTGCCC-TTTT--TTGAAAACTTCTGTAATATATGCACCACAAGAG----ATATATTGACATCAAAAAT-----------------------------GGAAACCCTTGAGCCCTGCTCAGTTAGTACAGAAAATGCAATGCAACTTCCTTTGGTTGATGTTTTATTAATAAAAATAGAAAAG-AAACCTTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTTGACAAAAGCTCGAGTTCAACACTCTGG--ATTTCCCCTATGCTTGGCTGAATGAGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCAATTTCCAAGCAGGGGACACTGCTGCATGACGGATGAATGTTAG-AAATGTGGGATGCTGTGCTCTTTCATCTCTGTCACTGGATATTTATTCTGACTCGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAGGTCCTTGCCTAATTAATTCCCGACAC----TTTTTTCCCTATGACTGTGATTAGCAGTTGCAATCAGGTTGAGCAATTAGCTGCCTCCTTGCACTGTGATTTGCTCAGTGCGGCCCCCAAGATGAGGCTCCATTCGGTCATTCAGTCTTTACTC-CAAAAAGAAGCTTGAGTAGGGAGGATTTATTTTTCACTTCAAGGTTTACAAATTTGCAGATAATTATAGAGGAGATTATGAAGCCCATCTGGCAGCTGCTTTAGTCATCTCCCTGTTTAGGGTCCTCAAATCCGGAGCACCTtgggaa-g-agcgcagcttgccggtgttct-ggaaccagaaaggttggggttgcaatccaggcttccccacttacaagctctttgaccttg----ggcaaattatttactatctctgtCAAT----------------TAAAAGAAGTCCTCCCTCA-GGGTTTGTAGTGAATA-TTAAATGATGCTAAA-TTCACAAATGGATTCAACACATGTTTATTAAGAACCAGAA-GGTTCTGGGTATAGGCTGTTTTGAAGAAACATGGTATGATGGTGGT--GGA--GAAAGAGAATGACT---ACGTAAGCAAACAAGTAAATCTGTAAATTGTGACTAACCTTGTGAAGGAAAAGAATTGAATGCTA---------TGAG-AGAGTGAATGTAAC-------TGGGTGGTTCAGGAAAACCTTGCTGAGGAAGAACATTAAGTTGTGTGTG--TTCCAGG
i chlSab2.chr23            C 0 I 1
s manLeu1.NW_012103321v1     4100674 1329 -   4237731 AGATTGACTCCAGTATTTGAAAGGCAACTTGGATTGAAAATTGGAGATAACCTCTGAAAA-TCTTGAGTTATAAACAATCTGGGACCTCTGCCC-TTTT--TTGAAAACTTCTGTAATATATGCACCACAAGAG----ATATATTGACATCAAAAAT-----------------------------GGAAACCCTTGAGCCTTGCTCAGTTAGTACAGAAAATGCAATGCAACTTCCTTTGGTTGATGTTTTATTAATAAAAATTGAAAAG-AAACCTTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTTGACAAAAGCTCGAGTTCAACACTCTGG--ATTTCCCCCATGCTTGGCTGAATGAGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCAATTTCCAAGCAGGGGACACTGCTGCATGACGGATGAATGTTAG-AAATGTGGGATGCTGTGCTCTTTCATCTCTGTCACTGGATATTTATTCTGACTCGGTTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAGGTCCTTGCCTAATTAATTCCCGACAC----TTTTTTCCCTGTGACTGTGATTAGCAGTTGCAATCAGGTTGAGCAATTAACTGCCTCCTTGCACTGTGATTTGCTCAGTGCGGCCCCCAAGATGAGGCTCCATTCGGTCATTCAGTCTTTACTC-CAAAAAGAAGCTTGAGTAGGGAGGATTTATTTTTCACTTCAAGGTTTACAAATTTGCAGATAATTATAGAGGAGATTATGAAGCCCATCTGCCAGCTGCTTTAGTCATCTCCCTGTTTAGGGTCCTCAAATCTGGAGCACCTtgggaa-g-agcgcagcttgccggtgttct-ggaaccagaaaggtcggggttgcaatccaggcctccccacttacaagctctttgaccttg----ggcaagttatttactatctctgtcaat----------------taaaagaagtcctccctca-gggtttgtaatgaata-ttaaatgatgctaaA-TTCACAAATGGATTCAACACATGTTTATTAAGAACCAGAA-GGTTCTGGGTATAGGCTGTTTTGAAGAAACATGGTATGATGGTGGT--GGA--GAAAGAGAATGACT---ACGTAAGCAAACCAGTAAATCTGTAAATTGTGACTAACCTTGTGAAGGAAAAGAATTGAATGCTA---------TGAG-AGAGTGAATATAAC-------TGGGTGGTTCAGGAAAGCCTTGCTGAGGAAGAACATTAAGTTGTGTGCG--TTCCAGG
i manLeu1.NW_012103321v1   C 0 I 1
s colAng1.NW_012119644v1      369230 1330 -   1175262 AGATTGACTCCAGTATTTGAAAGGCAACGTGTATTGAAAATTGGAGATAACCTCTGAAAA-TCTTGAGTTATAAACAATCTGGGACCTCTGCCCTTTTT--TTGAAAACTTCTGTATTATATGCACCACAAGAG----ATATATTGACATCAAAAAT-----------------------------GGAAACCCTTGAGCCTTGCTCGGTTAGTACAGAAAATGCAATGCAACTTCCTTTGGTTGATGTTTTATTAATAAAAATTGAAAAG-AAACCTTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTTGACAAAAGCTCGAGTTCAGCACTCTGG--ATTTCCCCCATGCTTGGCTGAATGAGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCAATTTCCAAGCAGGGGACACTGCTGCATGACGGATGAATGTTAG-AAATGTGGAATGCTGTGCTCTTTCATCTCTGTCACTGGATATTTATTCTGACTTGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAGGTCCTTGCCTAATTAATTCCTGACAC----TTTTTTCCCTATGACTGTGATTAGCAGTTGCAATCAGGTTGAGCAATTAGCTGCCTCCTTGCACTGTGATTTGCTCAGTGCGGTCCCCAAGATGAGGCTCCATTCGGTCATTCAGTCTTTACTC-CGAAAAGAAGCTTGAGTAGGGAGGATTTATTTTTCACTTCAAGGTTTACAAATTTGCAGATAATTATAGAGGAGATTATTAAGCCCATCTGCCAGCTGCTTTAGTCATCTCCCGGTTTAGGGTCCTCAAATCCTGAGCACCTtgggaa-g-agcgcagcttgccggtgttct-ggaaccagaaaggttggggttgcaatccaggcctccccacttacaagctctttgaccttg----ggcgagttatttactatctctgtcaat----------------taaaagaagtcctccctca-gggtttgtagtgaata-ttaaatgatgctaaA-TTCACAAATGGATTCAACACATGTTTATTAAGAACCAGAA-AGTTCTGGGTATAGGCTGTTTTGAAGAAACATGGTATGATGGTGGT--GGA--GAAAGAGAATGACT---ACATAAGCAAACAAGTAAATCTGTAAATTGTGACCAACCTTGTGAAGGAAAAGAATTGAATGCTG---------TGAG-AGAGTGAATGTAAC-------TGGGTGGTTCAGGAAAGCCTTGCTGAGGAAGAACATTAAGTTGTGTATG--TTCCAGG
i colAng1.NW_012119644v1   C 0 I 1
s calJac3.chr2             123723851 1321 - 204313951 AAATTGACTCCAGAATATGAAAGGCAACTTTTATTGAAAATTGGAGATAACCTCTGAAAA-TCTTTAGTTATAAACAATCTGAGACCTCTGCCC-TTTTTGTTGAAAACTTCTGTATTATATACACAACAGGAG------ATATTGACATCAAAAAT-----------------------------GGAAATCC-TGGGCCTTGCTCAGTTAGTACAGAAAATGCAATCCAACTTCCTTTAGTTGATGTTTCATTAATAAAAATGGAAAAG-GAACCTTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTTGAC-AAAGCTCGAGTTCAACACTCTGG--ATTTCCCCCATGCTTGGCTGAATGAGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCAATTTCTGAGCAGGGGACACTGCGGCATGACGGATGAATGTTAG-AAATGCGGGATGCCGTGCTGTTTCATCTCTGTCACTGGATATTTATTCTGACTCGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCTGGGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAGGTCCTTGCCTAATTAATTCCCGACAC----TTTTTTCCCTACGACTGTGATTAGCAGTTGCAATCAGGTTGAGCAATTAGCTGCCTCCTTGCACTGTGATTTGCTCAGTGCGGCCCCCAAGATGAGGCTCCATTCGGTCATTCAGTCTTTACTC-TAGAAAGAAGCTTGAGTAGGGAGGGTTTATTTTTCACTTCAAGGTTTACAAATTTGCAGATAATTATAGAGGAGATTATTAAGCCCATCTGCCAGCTGCTTTAGTCATCTCCCTGTTTAGGGTCCTCAAATCCTGAGCACCTTGGGGA-G-AGCGCAGCTTGCTGGTGTtct-ggaactagaaaggttggggttgcaatccaggcctccccttttacaagctctttgaccttg----ggcaagttatttacta--tctgtCAAT----------------TAAGAGAAGTCTTCCCTCA-GGGTTTATAGTGAATA-TTAAATGATGCTAAATTTCACAAATGGATTCAACCAATGTTTATTAAGAATCGGAA-AGTTCCAGGTATAGGCTGTTTTGAAGAAAATAGGTATGACGGTGGT--AGA--GAAGGAGAATGAAT---ATGTAAGCGAACAAGTAAATCCATAACTTGTGACTAACCATGTGAAGGAAAA----------------------TGAG-AAAGAGAATCTAACTTTAAATGGGGTGGTTCAGGAAAGCCTTGCTGAGGAAGATCATTAAGTTTTATGTA--TTCCAGG
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55767401 1331 -  71252344 AAATTGACTCCAGTATATGAAAGGCAACTTTTATTGAAAATTGGAGATAACCTCTGAAAA-TCTTTAGTTATAAACAATCTGAGACCTCTGCCG-TTTTTGTTGAAAACTTCTGTGTTATATGCACCACGGGAGGGAGATATATTGACATC-AAAAT-----------------------------GGAAATCCTTGAGCCTTGCTCAGTTAGTACAGAAAATGCAATCCAACTTTCTTTAGTTGATGTTTCATTAATAAAAATGGAAAAG-AAACCTTCCATGAACTTGTAATTAGTTTACCATGCCAAGTGTTGACAAAAGCTCGAGTTCAACACTCTGG--ATTTCCCCTATGCTTGGCTGAATGAGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAACTTAATTGTGCTTTGTGAGGGTGAAAATTCTCCATTTCTGAGCAGGGAACACTGCTGCATGACGGATGAATGTTAG-AAATGCGGGATGCCGTGCTGTTTCATCTCTGTCACTGGATATTTATTCTGACTCGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACCGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAGGTCCTTGCCTAATTAATTCCCGACAC---TTTTTTTCCCTATGACTGTGATTAGCAGTTGCAATCAGGTTGAGCAATTAGCTGCCTCCTTGCACTGTGATTTGCTCAGTGCGGCCCCCAAGATGAGGCTCCATTCGGTCATTCAGTCTTTACTC-TAAAAAGAAGCTTGAGTAGGGAGGGTTTATTTTTCACTTCAAGGTTTACAAATTTGCAGATAATTATAGAGGAGATTATTAAGGCCATCTGCCAGCTGCTTTAGTCATCTCCCTGTCTAGGGTCCTCAAATCCTGAGCACCTTGGGGA-G-AGTGCAGCTTGCCGGTGTtct-ggaactagaaaagttgcggttgcaatccaggcctccccttttacaagctctttgaccatg----ggcaagttatttactgtctctgtCAAT----------------TAAGAGAAGTCTTCCCTCA-GGGTTTATAGTGAACA-TTAAATGATGCTAAATTTCACAAATGGATTCAACCAATGTTTATTAAGAATCAGAA-AGTTCCAGGTGTAGGCTGTTTTGAAGAACATAGGTATGATGGTGGT--AGA--GAAAGAGAATGAGT---ATGTAAGCAAACAAGTAAATCCGTAACTTGTGACTAACCATGTGaaggaaaa----------------------tgag-agagagaatgtaactttagatggggtggttcaggaaagccttgctgaggaagATCATTAAGTTTTATGTA--TTCCAGG
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107590v1       71028 1324 -   3089952 AAATTGACTCCAGTATATGAAAGGCAACTTTTATTGAAAATTGGAGATAACCTCTGAAAA-TCTTTAGTTACAAACAATCTGAGACCTCTGCCC-ATTTTGTTGAAAGCTTCTGTATTATATGCACCACAGGAG----ATATATTGACATCAAAAAT-----------------------------GGAAATCCTTGAGCCTTGCTCAGTTAGTACAGAAAATGCAATCCAACTTTCTTTAGTTGATGTTTCATTAATAAAAATGGAAAAG-AAAGCTTCCATGAACTTGTAATTAGTTTACTATGCAAAGTGTTGACAAAAACTCAAGTTCAACACTCTGG--ATTTCCCCCATGCTTGGCTGAATGAGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGCGAGGGTGAAAATTCTCAATTTCTGAGCAGGGGACACTGCTGCATGATGGATGAATGTTAG-AAATGCGGGATGCCGTGCTGTTTCATCTCTGCCACTGGATATTTATTCTGACTCGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAGGTCCTTGCCTAATTAATTCCCGACAC----TTTTTTCCCTATGACTGTGATTAGCAGTTGCAATCAGGTTGAGCAATTAGCTGCCTCCTTGCACTGTGATTTGCTCAGTACGGCCCCCAAGATGAGGCTCCATTCGGTCATTCAGTCTTTACTC-TAAAAAGAAGCTTGAGTAGGGAGAGTTTATTTTTCACTTCAAGGTTTACAAATTTGCAGATAATTATAGAGAAGATTATTAAGCCCATCTGCCAGCTGCTTTAGTCATCTCCCTGTTTAGGGTCCTCAAATCCTGAGCACCTtgggaa-g-agtgcagcttgctggtgttct-ggaactagaaaggttggggttgcaatccaggcctccccttttacaagctctttgaccttg----ggcaagttatttagtatccctgtCAAT----------------TAAGGGAAGTCTTCCCTCA-GGGTTTATAGCGAATA-TTAAATGATGCTAAATTTCACAAATGGATTTAACCAATGTTTATTAAGAATCTGAA-AGTTCCAGGTATAGGCTGTTTTGAAGAAAATAGGTATGATGGTGGT--AGA--GAAAGAGAATGAAT---ATGTAAGCAAACAAGTAAATCCATAAC--GTGACTAACCACGTGaaggaaaa----------------------tgag-agagagaatgtaactttagatggggtggttcaggaaagccttgctgaggaATATAATTAAGTTTTATGTA--TTCCAGG
i cebCap1.NW_016107590v1   C 0 I 1
s aotNan1.NW_018505940v1    13271279 1325 -  42888418 AAATTGACTCCAGTATATGAAAGGCAACTTCTATTGAAAATTGGAGATAACCTCTGAAAA-TCTTTAGTTATAATCAATCTGAGACCTCTGCCC-TTTTTGTTGAAAACTTCTGTATTATATGCACCACAGGAG----ATACATTGACATCAAAAAT-----------------------------GGAAATCCTTGAGCCTTGCTCAGTTAGTACAGAAAATGCAATCCAACTTTCTTTAGTTGATGTTTCATTAATAAAAATGGAAAAG-AAACCTTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTTGACAAAAGCTCGAGTTCAGCACTCTGG--ATTTCCCCCATGCTTGGCTGAATGAGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGCTAGGGTGAAAATTCTCAATTTCTGAGCAGGGGACACTGCTGCATGACGGATGAATGTTAG-AAATGC-GGATGCCGTGCTGTTTCATCTCTGTCACTGGATATTTGTTCTGACTCGGCTTCTAAATTATTCATTTTCTTTAAGCAGTCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAGGTCCTTGCCTAATTAATTCCCAACAC----TTTTTTCCCTATGACTGTGATTAGCAGTTGCAATCAGGTTGAGCAATTAGCTGCCTCCTTGCACTGTGATTTGCTCAGTGCGGCCCCCAAGATGAGGCTCCATTCGGTCATTCAGTCTTTACTC-TAAAAAGAAGCTTGAGTAGGGAGGGTTTATTTTTCACTTCAAGGTTTACAAATTTGCAGATAATTATAGAGGAGATTATTAAGCCCATCTGCCAGCTGCTTTAGTCATCTCCCTGTTTAGGGTCCTCAAATCCTGAGCACCTtgggga-g-agcacagcttactggtgttct-ggaactagaaaggttggagttgcaatccaggcctccccttttacaagctctttgaccttg----ggcaagttatttactatctctgtCAAT----------------TAAGAGAAGTCTTCCCTCA-GGGTTTATAGTGAACA-TTAAATGATGCTAAATTTCACAAATGGATTCAACCAATGTTTATTAAGAATCAGAA-AGTTCCAGGTATAGGCTGTTTTGAAGAAAATAGGTATGATGGTGGT--AGA--GAAAGAGAATGAAT---ATGTAAACAAACAAATAAATCCATAACTTGTGACTAACCATGTGaaggaaaa----------------------tgag-agagagaatgtaactttagatggggtggttcaggaaagccttgctgaggaagATCATTAAGTTTTACATA--TTCCAGG
i aotNan1.NW_018505940v1   C 0 I 1
s micMur3.chr12             60602203 1336 + 108143057 AAACTGACTCCAGTATATGAAAGACAACTTTCATTGGAAGTTGGAGCTAACCTCTGAAAA-TATTTACTAATAAGCAATCTGAAACCTGTATGC-TTTGCATTGAAAAGTTCTGTAGTATACTTACCACAAAAG----ATATATTGTCATCAAAAAA-----------------------------TGCAACACTTGAGCTTTGCTCTGTAAGTACAGAAAATGCAACGTAACCTCTTTTGGTTGATGTTTTATTGATAAAAATTGAAAGG-AGACCTTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTTTACAAAAGCTCTAGTTTAACACCCTGC--ATTTTCCCCATGCTTGGCTGAATGCGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCAATTTCCGAGCAGGGGACACTGCTGCATGACGGATGAATGTTAG-AAATGTGGTATGCTGTGCTCTTTCATCTCTGTCACTGGGTATTTATTCTGACTTGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAGGTCCTTGCCTAATTAATTCCCAACAC----TTTTTTCCCTATGACTGTGATTAGCGGTTGCAATCAGGTTGAGCAATTAGCAGCCTCCTTGCACTGTGATTTGCTCTGTGCAGCCCCCAAGATGAGGCTCCATTCGGTCACTCGGTCTTCCCTC-TAAAAAGAAGCTTGGGTAGGGAGGATTTATTTTTCACTTCAAGGTTTACAAATTTGCAGATAATTATGGAGATGATTATTGAGCCCATCTGCCAGCTGCTTTAGTAATATCCTTGTTTAGGGTCTTCAAGGCCTGAACACCTtgggaa-g-agcataacttgctggtgttct-ggaaccagaaaggttggggttctaatccaggctttatcacttac-agctctttgaccttg----ggcaagttatttgctatctttgtcaac----------------taagagtagcacttcctct-gggtctgtagtgaaga-ttaaatgaCACTAAA-TTCAGAAATAGATTCAATAAATGTTTATGAAAGACCAGCA-AGTTCTGGGTGTAGGCTGTTTTGAAGAAAATAGATATGATAGGAGT--GGG--GAAAGAGAATGACC---ATGTAGACAAGTAAGTAAATTCATAAATTGTGATTAGTCTTATAAAAGAAAAGGACTAGATGCTA---------TGAG-AGAGAGGATTTAACTTTAGATTGTGTGGTT-AGGAAGGCCTTGCTGAGGAAGAGAATTAGGTTTTACATA--TTTCAGG
i micMur3.chr12            I 45 I 83
s proCoq1.NW_012155062v1     3637714 1317 +  11683526 AAACTGACTCCAGTATATGAAAGACAACTTTTATTGGAAGTTGGAGACAACCTCTGAAAA-TATTTACTAATAAGCAATCTGAAACCTCTATGC-TTTGCATTGAAAACTTCTGTAGTATACTTACCACAAAAG----ATATATTGTCATCAAAAAC-----------------------------TGAAACCCTTGAGCTTTGCTCTATAAGTACAGAAAATGCAACATAACCTCTTTTGGTTGATGTTTTATTGATAAAAATTGAAAGG-AGACCTTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTTGACAAAAGCTCTAGTTTAACACCCTGC--ATTTCCCCCACGCTTGGCTGAATGCGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCAATTTCCGAGCAGGGGACACTGCTGCATGACGGATGAATGTTAG-AAATGTGGTATGCTGTGCTCTTTCATCTCTGTCACTGGGTATTTATTCTGACTTGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCTCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAGGTCCTTGCCTAATTAATTCCCAACAC----TTTTTTCCCTATGACTGTGATTAGCAGTTGCAATCAGGTTGAGCAATTAGCTGCCTCCCTGCACTGTGATTTGCTCCGTGCAGCCCCCAAGATGAGGCTCCATTCGGTCATTCAGTCTTCCCTC-TAAAAAGAAGCTTGGGTAGGGAG----------------CAAGGTTTACAAATTTGCAGATAATTATATAGAAGATTATTGAGTCCATCTGCCAGCTGCGTTAGTAATCTCCTTGTTTAGGGTCTTCAAATCCTGAGCACCTTTGGAA-G-AGCATAGCTTGCTGGTGTtct-ggaaccagaaaggttggcattctaatccaggattcaccacttacaagctctttgaccttg----ggcaagttatttgctatctttgtcaat----------------taagagtagtacttcctca-gggtttgtagtgaaga-ttaaatgaCACTAAA-TTCAGGAATAGATTCAGTAAATGTTTATGAAAAACCAGCA-AGTTCTGGGTGTAGGCTGTTTTGAAGAAAATAGACATGATAGTAGT--GGG--GAAAGAGAATGACT---GCATAAAC----AAGTAAATTCATAAATTGTGATTAATCTTATGAAAGAAAAGCACTAGATGCTA---------TGAG-AGAGAGGATTTAACTTTAGATTGTGTGGTT-AGGAAAGCCTTGCTGAGGAAGAGAATTAGGTTTTCTATA--TTTTAGG
i proCoq1.NW_012155062v1   C 0 I 1
s otoGar3.GL873679           3127929 1321 +   4132165 AAACTGACTCCAGAGTACGAAAGGCAACTTTTACTGGAAGTTGGAGCTAATCTCCAAAAA-TTTTTAC---TAGACAGTCTGAAACCTCTGCCC-TTTGCATTGAAAACGTCTGTAGCACA--TAGCACATAAG----ATAAATTGTCACCCCAAAC-----------------------------TGAAACCCTGGAGCTTTGCTCAGTAAGTACAGAGTGTGCAATCTGACCTCTTTCGGTTGATGTTTTATTGATAAAAATTGGAAAG-AGACCGTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTTGACAAAAGCTCTGGTTTAACACCCTGC--ATCTCCCCCATGCTTGGCTGAATGCGAACAGTTCCTGGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCAGTTTCCGAGCA-GGGACACTGCTGCATGAAGGATGAATGTTAG-AAATGTGGGATGCTGTGCTCTTTCATCTCTGTCACTGGATATTTATTCTGACTCGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGGCTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCAGAAGGTCCTTGCCTAATTAATTCCCAACAC----TTTTTTCCCTATGACTGTGATTAGCAGTTGCAATCAGGTTGAGCAATTAGCTGCCTCCTTGCACTGTGATTTGCTCAGTGCAGCCCCCAAGATGAGGCTCCATTCGGTCATTCAGTCTTCCCTT-TAAAAAGAAGCCTGGATAGGGAGGATTTATTTTTCACTTCAAGGTTTACAAATTTGCAGATAATTATAGAGGAGATTATTAAGCCCATCTGCCAGCTGCTTTAGTAATCTCCTTGTTTAGAGTCTTCAAATCCTGAGCACCTTGGGAACA-AGCAGCTTTTGCTGGTGGTGt-gggaccaggaaagttgggcttccaacccatgcttcaccatttac------cttgaccttg----gacaagttatctgctatctttgtCAAT----------------TAAGGGTAGTTCTTCCTCT-GGGTTTGTAGAGAAGATTTAAATGACACTAAA-TTCAGGAATAGATTCAACAAATGTTTGTGAAA-ACCAGCA-AGTTCTAGATGTAGGCTG-TTTGAAGAAAATAGATATGGCAGTAGG--AAG--GAAAGAGAGTGATT---GTGTAAAC----AAGTAAATTCATAAATTGTGATTAATCTTGTGAAGGAAAGGGAATAGATGATG---------TGAG-AAAGGGGATTTAACTTTAGATTGGGTGATG-AAGAGAGCCTTGCTGAGGAAGAGAATTAAGTTTTGTGTG--TTTCAGG
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55566863 1302 +  90702639 AAGCTGACTTCATTATATGAGAGGT--------------------GAGCGCCTCCGATAA--CTCTATTTACAAACAATCGGACACCTCTACCC-TCTTCATTGAAAACATCTGTAGTCAGGGAACCACAAAAT---TGCACACTGTCATCAAAATC-----------------------------GGAAATCCTGGAGCCTCATTCAAGCAGTAGAGAAAATGCAATCCAACTTCTTCTGATTGATGTTTTATTGATAAAAATCAGGAAG-AAACCTTTC-TGAACGTCTAATTAGTTTACCAAGCAAAATGTTGACAAAAACCCTTGCCCAATACCCTGG---------CCA--CTCAGCCAAAGGGGACCA-TTCCTCATGGCAATCATTCTGGGTCAAGAAAG-TAATTGTGCTTTGTGAGGGTGGAACTTCTTGGTTTCTGAGCCGGAAATACCACTGCCTGATAGATAAATGTTCC-AAGTATGGTGTTCTGAGCTCTTTCATCTCTGTCACTGGCTATTTATTCCGACTTAGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTCAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGACTTCCTGCTGCTGTTCAGAAGGTCCTTGCCTAATTAATTCCCAACATATTTTTTTTTCAATGTGACTGTGATTAGCAGTTGCAATCAGGTTGGGCAATTAGCTGTCTCCTTGCACTG-ATTTTGCTCCACACAGCCCTTAAGAGGAGATTTCACTCTGCCATCCAGTCTTCTCTC-TAAAAAGGAACAAGAGTAGGGAGGATTGATTTTTCCCTTCAAGGTTTACAGATTTACAGATAATCATAAAGGACATAATGAAAGCCATCTACCAGCTGCTTCCACAGTCTCCTCACTTA-GGTCTTCAAGTCCTGAGCATCGTGGGTA--------ACCTTGCTG-TGTAATGGGGGGCAGGAAGGTTGGGACTC--ACTCTCTTCTCCCAGCATACAAGCTCTTTGACCTTGTATAAGCAAGTT-TATAAAATTCCTGCCATT----------------GAAGAATAGTATTTCCTTG-AGGTCTGTGGTGGAGA-TTAAATCATGTTAAA-TCCATGAATGGATTTAACAG-----TGTTAAGAAGCAGGT-AGGTATTGGGTCGAGCTACATTGAAGAAAATGGATAGTGTAGTGGT--GGAAGGAAAAAAAATAAATGTCATGGAAACAAGCAAGCAAATCCATGAGTTGTGGCTAACATTGTACAGGAAACTCACTGGCTGC-----------TAGG-AGAGAGGATTTAACATTAGGCCTGAGGGCTCAGGAAAACCCTGCAGAAGAAGGACATTACCTTTTATGTGTTTTCCA--
i mm10.chr18               C 0 C 0
s canFam3.chr11             14969172 1321 +  74389097 AAACTGACTCAAGTATATAAAAGACCACTTTTATGAGAAGTTGGAGATAGCCTCTGAAAAATCTTTACTTATAAGCAATCTGCGACCTTTGCCC-TTCCTGTTGAAAACCTCTGTCGAATATACACCACAAAAG----AAATACTCTCATCAAAAAC-----------------------------CCAAACCCTTGAGCTTTGCTCCGTAAGTACAGAAAATGCAATCCAACTTCTTTTGGTTGACGT---ATTGATAAAAATTGGGAAGTAAACCTTCCGTGAACTTGTAATTAGTTTACCATGCAAAGTGTTGACAAAAGCTTTAGTTCAACACCCTGG--ATTTCCCCCCTGCTTGGCTGAATGAGAACAGTTCCTAGTGGCAATCATGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCCGTTTCCGAGCGGGGGACACTGCTGCATGACGGATGAACGTTAG-AAATGTGGTAAGCTGTGCTCTTTCATCTCTGTCACTGGATATTTATTCTGACTCGGCTTCTAAATTATTCATTTTCTTTAAGCAATCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGCTGTTCGGAAGGTCCTTGCCTAATTAATTCCCAACAC----TTTTTTCCCTATGACTGTGATTAGCAGTTGCAATCAAGTTAGGCAATTAGCTGCCTCCTTGCACTGTGATTTGCTCAGTGCAGCCCCCAAGATGAAGCTCCATTTGGTCATTCCGTCATTACTC-TCAAAAGAAACCTGAGTAGGGAGGATTTATTTTTCACTTCAAGGTTTACAAATTTGCAGATAATTATACAGGAGATTATCAAGCCCATCTGCCAGCTGCTTTAGTAATCTCCTTGGTTAGGGTCCTCAAATCCTGAGTACCTTGGGAG-C-AGCATAACTGGCTGATactct-gcaaccggaaaggttggggttccaatccaggctccctcaccgatgagttcttcgatcttg----agtaagttatttactctcttggtcagt----------------gaagggtagtacttcctca-gggtttgtagtgagga-ttcaaGAACACTAAA-TTCATGAATGGATGCTACAGATGTCTATTAAGAAATGGAAGAGTTCTAGGTGAA--CAGTTTTGAATAAAGTAAATAT----GTGGT--AGG--CAAAAAGAATGgat---atataaacaaacaagcaaatccataaatgttcac----------aagtcaaagaacaggatgcta---------cgag-agagaggctttcactttagattaggtggtccaagagagcctt-cccatgaaggatattacatttCATGTG--TTCCAGG
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2691937 1371 +   3667625 ----------AAATATATGAAAGACAACTTTTATTGAAAATTTGATATAATCTCTGAAAG-TCTTTACTTATAAACAATCTTAAACCTCTGCCT-CTTTGGTTGAAAACGTCTGTAGCTTGTGTACCACAACAG----ATACTCTGTCATCAAAAATTTACTTAGTAAAGTAAGTACATTTACTAAGTAAGTACAGAAAATTTACTAAGTAAGTACAGAAAACACAATCTAACTTCTTTTCG-TGATGTTTTATTGATAAAAATTGGGAAGTAAACCTTCCATGAACTTGTAATTAGTTTACCATGCAAAGTGTCGACAAAAGCTTTAGTTCAACACCCTGGTTAGTTACCCCACGCTTGGTTGAATGTGAGCAGTTCCTACTGGCAATCACGCTGGGTCATGAAAC-TAATTGTGCTTTGTGAGGGTGAAAATTCTCAATTTCCGAGCAGGGGACACTGCTGCATGACAGATGAATGTTAGAAAAAGTGGTATGCTGTGCTCTTTCATCTCTGTCACTGGATATTTATTCTGACTCGACTTCTAAATTATTCATTTTCTTTAAGCAACCAATATTAATAATCTGATTTGCTCCCT-GGCATTTTTAGTCACACTTCTGTTTAACTGACTGTAAATAAAGGTCACTTGGAGGCTTCCTGCTGTTGTTCGGAAGGTCCTTGCCTAATTAATTCCCAACAC----TTTTTTCCCTATGACTGTGATTAGCAGTTGCAATCAGGTTCAGCAATTAGCTGCCTCCTTGCACTGAGATTTGCTCTGTGCATCCCCCAAGACAAGGCTCCATTTGGTCATTCAGGCTTCTCTC-TGGAAGGAATC-TGAGTAGAGACGGTTTATTTTTCTCTTCAAGGTTTACAAATTTGCAGATAATTGTAGAAGCGATTATTAAATCCATCTGTCAGCTGCTTTAGTAATCTCTTTGTTTAAGGTCCTCAAATCCCGAGCACCTTgagaa-gcaggatggcacactagtgcctg-ggaaccaaaaagactgaggtt-------------tcctccttat-agctctttggcctgg----ggcaagttgtttacgctctccgtcaatttgctctcatgtaagataagagtagtacttct----ggatttgtag-gaaga-ttaagtgatactaaa-ttcatgAATGGATTCAACAAATGTTTATTAACAAGTGGAAAAATTATGGGTGTAGGCTGTTTTGAATAAAATAGACATGATAAGGGTCAGGA--AAAAAACAATGAAT---ATGCAAACAAACACGTAAATCTATAAATTTTGACTACTACTGCAAAGGAAAATAACTGGATGCTAGGAAGGAAGTGAGTAGAGAGGATTTAACTTTAGATTGGATGGTCCAGGAAGGTTTTGCTGAAGAAGAACATTAAGTTTTTTGGG--TTCCAGG
i dasNov3.JH567306         C 0 I 1

a score=991590.000000
s hg38.chr5_KI270796v1_alt    146123  88 +    172708 GTAGAAAGAGTG--T--GTATGTCTGCAGTGCAGTGAACTCTAGCTCAGCA-------GGTGGAGGGCACGGTAGGAGA----------------CAGAATTGAGATGGTATCTT
s panTro5.chr5             125249418  88 + 181907262 GTAGAAAGAGTG--T--GTATGTCTGCAGTGCAGTGAACTCTAGCTCAGCA-------GGTGGAGGGCACGGTAGGAGA----------------CAGAATTGAGATGGTATCTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126586143  88 + 183735486 GTAGAAAGAGTG--T--GTATGTCTGCAGTGCAGTGAACTCTAGCTCAGCA-------GGTGGAGGGCACGGTAGGAGA----------------CAGAATTGAGATGGTATCTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1777889  88 +   8933513 GTAGAAAGAGGG--T--GTATGTCTGCAGCGCAGTGAACTCTAGCTCAGCA-------GGTGGAGGGCACGGTAGGAGA----------------CAGAATTGAGATGGTATCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139912330  88 + 163208435 GCAGAAAGAGTG--T--GTATGTCTGCAGTGCAGTGAACTCTAGCTCAGCA-------GGTGGAGGGCACGGTAGGAGA----------------CAGAATTGAGGTGGTATCTT
i nomLeu3.chr2             I 1 C 0
s rheMac8.chr6             122897132  88 + 180051392 GCAGAAAGATTG--T--GTATGTCTGCAGTGTAGTGAACTCTAGCTCAGGA-------GGTGAAGGGCACAGTAGGAGA----------------CAGAATTGAGGTGGTATCTT
i rheMac8.chr6             I 1 C 0
s macFas5.chr6             124320752  88 + 181584905 GCAGAAAGACTG--T--GTATGTCTGCAGTGTAGTGAACTCTAGCTCAGGA-------GGTGGAGGGCACAGTAGGAGA----------------CAGAATTGAGGTGGTATCTT
i macFas5.chr6             I 1 C 0
s macNem1.NW_012012355v1    16319401  88 +  18395747 GCAGAAAGACTG--T--GTATGTCTGCAGTGTAGTGAACTCTAGCTCAGGA-------GGTGGAGGGCACAGTAGGAGA----------------CAGAATTGAGGTGGTATCTT
i macNem1.NW_012012355v1   I 1 C 0
s cerAty1.NW_012002512v1     5331812  88 +  26952557 GCAGAAAGACTG--T--GTATGTCTGCAGTGTAGTGAACTCTAGCTCAGGA-------GGTGGAGGGCACAGTAGGAGA----------------CAGAATTGAGGTGGTATCTT
i cerAty1.NW_012002512v1   I 1 C 0
s chlSab2.chr23             28432140  88 +  82825804 GCAGAAAGACTG--T--GTATGTCTGCAGTGTAGTGAACTCTAGCTCAGGA-------GGTAGAGGGCACAGTAGGAGA----------------CAGAATTGAGGTGGTATCTT
i chlSab2.chr23            I 1 C 0
s manLeu1.NW_012103321v1     4102004  88 -   4237731 GCAGAAAGACTG--T--GTATGTCTGCAGTGTAGTGAACTCTAGCTCAGGA-------GGTGGAGGGCACAGTAGGAGA----------------CAGAATTGAGGTGGTATCTT
i manLeu1.NW_012103321v1   I 1 C 0
s colAng1.NW_012119644v1      370561  88 -   1175262 GCAGAAAGATTG--T--GTATGTCTGCAGTGTAGTGAACTCTAGCTCAGCA-------GGTGGAGGGCACAGTAGGAGA----------------CAGAATTGAGGTGGTATCTT
i colAng1.NW_012119644v1   I 1 C 0
s calJac3.chr2             123725173  88 - 204313951 GCAGACAGAGTG--T--GTACATCTGCAGTGTAGTGAACTCTAGCTCAGCA-------GGTGGAGGGCATGGTAGTAGA----------------TAGAGGTAAGGAGGTATCTT
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55768733  88 -  71252344 GCAGACAGAGTG--T--GTACATCTGCAGTGTAGTGAACTCTAGCTCAGCA-------GGTGGAGGGCATGGTAGTAGA----------------CAGAGGTAAGGTGGTGTCTT
i saiBol1.JH378106         I 1 C 0
s cebCap1.NW_016107590v1       72353  88 -   3089952 GCAGACAGAGTG--T--GTATATCTGCAGTGTAGTGAACTCTAGCTCAGCA-------GGTGGAGGGCATGGTAGTAGA----------------CAGAGGTAAGTTGGTATCTT
i cebCap1.NW_016107590v1   I 1 C 0
s aotNan1.NW_018505940v1    13272605  88 -  42888418 GCAGACAGAGTG--T--GTACATCTGCAGTGTAGTGAACTCTAGCTCAGCA-------GGTGGAGGGCATGGTAGTAGA----------------CAGAGGTAAGGTGGTATCTT
i aotNan1.NW_018505940v1   I 1 C 0
s proCoq1.NW_012155062v1     3639032  77 +  11683526 GCAGAAAGTGA------GTGTGTCTACAGTGCAGTGAACTGCA---------------GGTAGAGGGCATGGCAGGAGG----------------CAG-GTTGGTGCAGTTCCCT
i proCoq1.NW_012155062v1   I 1 C 0
s otoGar3.GL873679           3129251 102 +   4132165 GCAGAAAGAGAA--TACGCATGTCTGCAGCGCAGAGAACTGCAG---GGCG-------GGTGGAGGGCACAGCAGGTGGAGGGCATGCAGGAGCTCAA-GTCCATGCAGTACCCT
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55568165  84 +  90702639 -CAGAAAGTGTGCTT--GTGTGCTTGTAGTGCAGCGAACTAT-GCATGGAA-------GAAGGAGGGCCTGTTAGGACA----------------CTCCATGGAACT----CCTT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14970494  66 +  74389097 GCCGAAAGTGAGCTT--GGATGTCAATAGTACA----------GCTTGGTG-------AGTAGAAGGCATTGTAGGAGA----------------TGAAGT--------------
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2693309  88 +   3667625 GCTGACAGTGTG--T--------CTGTATTGCAGAGAGCAATTGCTCCCTATTGCTCTGGTGAAGGCCATGACAGGAGG-----------------AAAGTTGAGTTGGAACTTC
i dasNov3.JH567306         I 1 C 0
e micMur3.chr12             60603539  83 + 108143057 I

a score=3999302.000000
s hg38.chr5_KI270796v1_alt    146211 269 +    172708 TGGCCAGCTCACTCATTCaggggacagaatggcagagtggt-t--gtgactggattcaaatcccagctctgccatttattaaattcatgacactgag-caaatcatttatcctctttatgtctgcttttcctacctcataggat--tgttgaaggcactaaacaggattat-----atgaaatattcaaacaagc-tttga-aaacagtaagcacct-agtgatgctaaatattatCACTGGATACTGATAAA--A-AGTTTGTATTATGTTGAGTATGATGAGAG
s panTro5.chr5             125249506 269 + 181907262 TGGCCAGCTCACTCATTCaggggacagaatggcagagtggt-t--gtgactggattcaaatcccagctctgccatttattaaattcatgacactgag-caaatcatttatcctctttatgtctgcttttcctacctcataggat--tgttgagggcactaaacaggattat-----atgaaatattgaaacaggc-tttga-aaacagtaagcacct-agtgatgctaaatattatCAATGGATACTGATAAA--A-AGTTTGTATTATGTTGAGTATGATGAGAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126586231 269 + 183735486 TGGCCAGCTCACTCATTCaggggacagaatggcagagtggt-t--gtgactggattcaaatcccagctctgccatttattaaattcatgacactgag-caaatcatttatactctttatgtctgcttttcctacctcataggat--tgttgagggcactaaacaggattat-----atgaaatattgaaacaagc-tttga-aaacagtaagcacct-agtgatgctaaatattatCAATGGATACTGATAAA--A-AGTTTGTATTATGTTGAGTATGATGAGAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1777977 269 +   8933513 TGGCCAGCTCACTCATTCaggggacagaatggcagagtggt-t--gtgactggattcaaatcccagctctgccatttattaaattcatgacactgag-caaatcatttaacctctttatgtctgcttttcctacctcataggat--tgttgaaggcactaaacaggattat-----atgaaatattcaaacaagc-tttga-aaacagtaagcacct-agtgatgctaaatattatCATTGGATACTGATAAA--A-GGTTTGTATTATGTTAAGTATGATGAGAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139912418 269 + 163208435 TGGCCAGCTCACTCATTCAGGGGACAGAATGGTGGAGTGGT-T--Gtgactggattcaaatcccagctctgccattgattaaattcatgacaatgag-caaatcatttaacctctttatgtttgcttttcttacctcataggat--tgttgaaggcactaaacaggattat-----atgaaatattcaaacaagc-tttga-aaacagtaagcacct-agtgatgctgaatattatCATTGGATACTGATAAA--A-AGTTTGTATTATGTTGAGTATGATGAGAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122897220 269 + 180051392 TGGCCAGCTCACTCATTCagggggcagaatggcagagtcat-t--gtgaatggattcaaatctcagctctgccgtttattaaattcatgacactgag-caaatcatttaacctctttgtgtctgcttttcctacctcataggat--tgttgaaggcactaaacagaattat-----atgaaatattcaaacaagc-tttga-aaacagtaagcacct-agtaatgctgaatattatCAATGGATACTGATAAA--A-AGTTTTTATTGTGTTGAGTATGATGAGAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124320840 269 + 181584905 TGGCCAGCTCACTCATTCagggggcagaatggcagagtcat-t--gtgaatggattcaaatctcagctctgccgtttattaaattcatgacactgag-caaatcatttaacctctttgtgtctgcttttcctacctcatgggat--tgttgaaggcactaaacagaattat-----atgaaatattcaaacaagc-tttga-aaacagtaagcacct-agtaatgctgaatattatCAATGGATACTGATAAA--A-AGTTTTTATTGTGTTGAGTATGATGAGAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16319489 269 +  18395747 TGGCCAGCTCACTCATTCagggggcagaatggcagagtcat-t--gtgaatggattcaaatctcagctctgccgtttattaaattcatgacactgag-caaatcatttaacctctttgtgtctgcttttcctacctcataagat--tgttgaaggcactaaacagaattat-----atgaaatattcaaacaagc-tttga-aaacagtaagcacct-agtaatgctgaatattatCAATGGATACTGATAAA--A-AGTTTTTATTGTGTTGAGTATGATGAGAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5331900 269 +  26952557 TGGCCAGCTCACTCATTCaggggacagaatggcagagtcat-t--gtgactggattcaaatctcagctctgccgtttattaaattcatgacactgag-caaatcatttaacctctttgtgtctgcttttcctacctcataggat--tgttgaaggcactaaacagaattat-----atgaaatattcaaacaagc-tttga-aaacattaagcacct-agtaatgctgaatattatCAATGGATACTGATAAA--A-AGTTTGTATTGTGTTGAGTATGACGAGAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28432228 269 +  82825804 TGGCCAGCTCACTCATTCaggggacagaatggcagagtcgt-t--gtgactggattcaaatttcagctctgctgtttattaaattcatgacactgag-caaatcatttaacctctttgtgtctgcttttcctacctcataggat--tgttgaaggcactaaacagaattat-----atgaaatattcaaacaagc-tttga-aaacagtaagcacct-agtaatgctgaatattatCAATGGATACTGATAAA--A-AGTTTGTATTGTGTTGAGTATGATGAGAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4102092 266 -   4237731 TGGCCAGCTCACTCATTCaggggacagaatggcagagtc------gtgactggattcaaatctcagctctgccgtttattaaattcatgacactgag-caaatcatttaacctctttgtgtctgcttttcctacctcataggat--tgttgaaggcactaaacagaattat-----atgaaatattcaaacaagc-tttga-aaacattaagcacct-agtaatgctgaatattatCAATGGATACTGATAAA--A-AGTTTATATTGTGTTGAGTATGATGAGAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      370649 268 -   1175262 TGGCCAGCTCACTCATTCAGGGGACAGAATGGCAGAGTGGT-T--Ttggctggattcaaacctcagctctgccgtttattaaattcatgacactgag-cgaatcatttaacctctttatgtctgcttttcctacctcataggat--tgttgaaggcactaaacaggattat------tgaaatattcaaacaagc-tttga-aaacagtaagcacct-aatgatgctgaatattatCAGTGGATACTGACAAA--A-AGTTTGTACTGTGTTGAGTATGATGAGAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123725261 270 - 204313951 TGGCCAGCTCACTCATTCaggggac-gaattggagagtggt-t--gtgactggattcaaatcccagctcttccattgattaaattcttgacactgag-caaattatttaatctctttatgtctgctttctctacctcagaaatt--tgttgaaggcactaaacaggattat-----ataaaacattcaaataagc-tttga-aaacagtaagcacct-agtgatgctaagtattatCATTGGATACTGATAAAATA-AGTTTGTATTATGTCGAGTATGATGAGAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55768821 269 -  71252344 TGGCCAGCTCACTCATTCAGGGGACAGAATTGCAGAGTGGT-T--Gtgactggattcaaatcccagctcttccatttattaaattcttgacactgag-caaattatttaatctctttatgtctgctttttctACCTCAGAAATT--TGTTGAAGGCACTAAACAGGATTGT-----ATAAAACATTCAAATAAGC-TTTGA-AAACATTAAGCATCT-AATGATGCTAAATATTATCATTGGATACTGATAAA--A-AGATTGTATTACGTTGAGTATGATGAGAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       72441 267 -   3089952 TGGCAAGCTCACTCATTCAGGGGACAGAATTACAGAGTGGT-T--Gtgactggattcaaatccaagctcctctatttattaaattcttgacgctgag-caaattatttaatctctttatgtctgctttttctacctcagaaatt--t-ttgaaggcattaaacaggattat-----AGAAAACATTCAAATAAAC-TTTGA-AAACAGTAAGCACCT-GGTGATGCTAAATATTATCATT-GATACTGATAAA--A-AGTTTGTATTATGTTGAGTATGATGAGAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13272693 268 -  42888418 TGGCCAGCTCACTCATTTAGGGGACAGAATTGCAAAGTGGT-T--Gtgactggattcaaatctcaactcttccatttattaaattcttgacactgag-caaattatttaatctctttatgtctgctttttctACCTCAGAAATT--TGTTGAAGGCACTAAACAGGATTAT-----ATAAAACATTCAAATAA-C-TTTGA-AAACAATAAGCACCT-AGTGATGCTAAATATTATCATTGGATACTGATAAA--A-AGTTTGTATTATGTTGAGTATGATGAGAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60603622 268 + 108143057 TGGCCAGCTCGCTCATGCCGAGGGCAGGATGGCAGAGTGGT-T--GGGGctgggctcaaaccccggctccaccactgatgaaattcacgacactgag-cacatcatttaacttctt-atgtctcctttacccacctcataggat--tattgaggacacggaataggattat-----atgaaacattcaaacaaga-cttga-aaatattaaggaccagacagatggtaaatattatcattGGATACTGATA-A--A-AATTTGTATTTTATTAAGTATGATGAGAG
i micMur3.chr12            I 83 I 294
s proCoq1.NW_012155062v1     3639109 269 +  11683526 TGGCCAGCTCGCTCATTCagaggacaggatggcagagtggt-t--ggggctgggttcaaaccccagcgccaccacttacgaaattcacgacactgag-caaatcatttaacctcttcatgtctccctttcccacctcataggat--tgttgagaacactgaataggattat-----ataaaacattcaaacaagg-cttga-aaatagtaagcacctgacggatggtaaatattatCATTGGATACTGATA-A--A-AATTTGGATTTTATTAAGTACGATGAGAG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3129353 267 +   4132165 TGGCCAGCTCACTCA----GGGGACAGGATGGCACAGTGCT-T--Gtggctagattcaaaccccagatccaccacttatgaaatccgtgacactgag-caaattatttaacgtctttatatctccttgtcctacctcataagataattttgaggatattaaacaggatgac-----ataaaacattcaaataagg-cttga-aaatagtaagcactc-aCAGATGATAAGTAGTATCATTGGATACTGACAGA--A-AATGTGGCTTTTGTTAATTGCAATGAGAG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55568249 255 +  90702639 GGGCCAGCTGGAGCTCACTGAAAAAAGGAGTCTACTGTAGTGT--GGGCCTGGACTCAAATCCTATCCTCTCAGTTTATTAACTTAATGACATGGAGAAAAATCACAATGTCTTCACATGCCCCCTTATGTGACTGCAGAGGAT--TG-GGAGATCCTCAAATATTTATAT-----AGACAACATTCAAACAAGG-ATAAACAGAAACTAAGAATCC-ACTACTGTGAGATACTATTTGTGAATACTGATACA--A-A------ATTCTGCCG----------GAG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14970560 276 +  74389097 TGGCCAGTTTGCTCATGTGGTGAacaggatagcagtgtggt-taagtgactgggttcaaatcccaaatgtgctacttattaaatacatgacactgat-caaaccacttaacctctttatgcct-ttttttctacctcattggat--tgttgaaggcattaaatgtgataattacacataaagcattcaaacaaatgcttga-aaatagtaagtaccc-actaatgttgaatattatCACTGGATGCTGATAAT--G-AGTCTGGATTTTATTAAGTATGGTAAGAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2693397 276 +   3667625 TCTCTAGTTCCCTCATTCAGGggacagaagagcagagtggt-tgagtgcctaagttcaaatagcaactctaccacttac-aaatgcatgactctgag-aaaatcattttatctcttcattcctccttttcttactacacagggt--tgttgggggcattaattatgataattatacataaagcatgcaagcaagg-cttga-aaatgctaagcaacc-aatgaTATAAAATAGTATCACTAGAGACTAATAAA--AGAGTTTGGATTTTGTGAAGTATGGTGAGAG
i dasNov3.JH567306         C 0 C 0

a score=589606.000000
s hg38.chr5_KI270796v1_alt    146480 49 +    172708 GGCTCTGGCGTGTCTTTAAAT-TTTTTTAAAAGTCAGGGTGACTATAGCA
s panTro5.chr5             125249775 49 + 181907262 GGCTCTGGCATGTCTTTAAAT-TTTTTTAAAAGTCAGGGTGACTATAGCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126586500 49 + 183735486 GGCTCTGGCATGTCTTTAAAT-TTTTTTAAAAGTCAGGGTGACTATAGCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1778246 49 +   8933513 GGCTCTGGCGTGTCTTTAAAT-TTTTTTAAAAGTCAGGGTGACTATAGCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139912687 49 + 163208435 GGCTCTGGCGCATCTTTAAAT-TTTTTTAAAGGTCAGGGTGACTATAGCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122897489 49 + 180051392 GGCTCTAGCGTGTCTTTAAAT-TTTTTTAAAATTCAGAGTGACTACAGCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124321109 49 + 181584905 GGCTCTAGCGTGTCTTTAAAT-TTTTTTAAAATTCAGAGTGACTACAGCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16319758 49 +  18395747 GGCTCTAGCGTGTCTTTAAAT-TTTTTTAAAATTCAGAGTGACTACAGCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5332169 49 +  26952557 GGCTCTAGCGTGTCTTTAAAT-TTTTTTAAAATTCAGAGCGACTATAGCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28432497 49 +  82825804 GGCTCTAGCGTGTCTTTAAAT-TTTTTTAAAATTCAGAGTGACTATAGCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4102358 49 -   4237731 GGCTCTAGCGTGTCTTTAAAT-TTTTTTAAAATTCAGAGTGACTATAGCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      370917 49 -   1175262 GGCTCTAGCATGTCTTCAAAT-TTTTTTAAAAGTCAGAGTGACTATAGCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123725531 50 - 204313951 GGCTCCAGAGTGTCTTTAAATATTTTCTTAAAGTCAGGGTGACTATAGCA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55769090 50 -  71252344 GGCTCTGGAGTGCCTTTAAATATTTTTTTAAAGTCAGGGTGACTATAGCA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       72708 50 -   3089952 GGCTCTGGAGTGTCTTTAAATATTTTTTTAAAGTCATGGTGACTATAGCA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13272961 50 -  42888418 GGTTCTGGAGTGTCTTTAAATATTTTTTTAAAGTCAGAGTGACTATAGCA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3639378 49 +  11683526 AAATCTGGAGTGTTTTAAAAT-CCTTTTAAAAGTCAGGGTGACTATAAAA
i proCoq1.NW_012155062v1   C 0 I 10
s otoGar3.GL873679           3129620 45 +   4132165 GAATCTGGATCATTTTGAAAT-CCTTTTAAG----AGGGTGACCGTAGCA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55568504 27 +  90702639 AGCTCTGTAATGT-TCTAAAT-TCCT---------------------GCA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14970836 49 +  74389097 GGCTCAGCGGTGTTTGAAAAT-ACTTTTAAAAGTCAGGAAGACTggggca
i canFam3.chr11            C 0 I 167
s dasNov3.JH567306           2693673 49 +   3667625 GACTCTGGATTATCTTAAAAT-ACTTTAAAAATCCAGGCTGACTATAGTG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60603890 294 + 108143057 I

a score=1873791.000000
s hg38.chr5_KI270796v1_alt    146529 150 +    172708 TGAAAAATTAT--------------------------------ATTGAAAGAGAACAAGGTGAAAATGA-AGATTCTGATT----GGAAGGCTAT-------------ATTCTTGCTCTAAGTTGAC-AAAGTGGAAATGGAAAG--ATGCAAAAAGAGATAACACAGTCGATgtgtccaatatac-----agtaagag-ctcaataaa
s panTro5.chr5             125249824 150 + 181907262 TGAAAAATAAT--------------------------------ATTGAAAGAGAACAAGGTGAAAATGA-AGATTCTGATT----GGAAGGCTAT-------------ATTCTTGCTCTAAGTTGAC-AAAGTGGAAGTGGAAAG--ATGCAAAAAGAGATAACACAGTCGATGTGTCCAATATAC-----AGTAAGAG-CTCAATAAA
i panTro5.chr5             C 0 I 127
s panPan2.chr5             126586549 150 + 183735486 TGAAAAATAAT--------------------------------ATTGAAAGAGAACAAGGTGAAAATGA-AGATTCTGATT----GGAAGGCTAT-------------ATTCTTGCTCTAAGTTGAC-AAAGTGGAAGTGGAAAG--ATGCAAAAAGAGATAACACAGTCGATgtgtccaatatac-----agtaagag-ctcaataaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1778295 150 +   8933513 TGAAAAATAAT--------------------------------ATTGAAAGAGAACAAGGTGAAAATGA-AGATTCTGATT----CGAAGGCTAT-------------ATTCTTGCTCTAAGCTGAC-AAAGTGGAATTGGAAAG--ATGCAAAAAGAGATAACACAGTCGATgtgtccaatatac-----agtaagag-ctcaataaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139912736 150 + 163208435 TGAAAAATAAT--------------------------------ATTGAAAGAGAACAAGGTGAAAATGA-AGATTCAGATT----GGAAGGCTAT-------------ATTCTTGCTCTAAGTTGAC-AAAGTGGAAATGGAAAG--ATGCAAAAAGAGATAACACAGTCGATgtgtccaatatac-----agtaagag-ctcaataaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122897538 148 + 180051392 TGAAAAATAAT--------------------------------ATTGAA--AGAACAAGGTGAAAATGA-AGATTCTGATT----AGATGGCTAT-------------ATTCTTGCTCTAAGTTGAC-AAAGTGGAAATGGAAAG--ATGCAAAAAGAGATAACACAGTCGATgtgtccaatatac-----agtaagag-ctcaataaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124321158 148 + 181584905 TGAAAAATAAT--------------------------------ATTGAA--AGAACAAGGTGAAAATGA-AGATTCTGATT----AGAAGGCTAT-------------ATTCTTGCTCTAAGTTGAC-AAAGTGGAAATGGAAAG--ATGCAAAAAGAGATAACACAGTCGATgtgtccaatatac-----agtaagag-ctcaataaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16319807 148 +  18395747 TGAAAAATAAT--------------------------------ATTGAA--AGAACAAGGTGAAAATGA-AGATTCTGATT----AGAAGGCTAT-------------ATTCTTGCTCTAAGTTGAC-AAAGTGGAAATGGAAAG--ATGCAAAAAGAGATAACACAGTCGATgtgtccaatatac-----agtaagag-ctcaataaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5332218 148 +  26952557 TGAAAAATAAT--------------------------------ATTGAA--AGAACAAGGTGAAAATGA-AGATTCTGATT----AGAAGGCTGT-------------ATTCTTGCTCTAAGTTGAC-AAAGTGGAAATGGAAAG--ATGCAAAAAGAGATAACACAGTCGATgtgtccaatatac-----agtaagag-ctcaataaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28432546 148 +  82825804 TGAAAAACAAT--------------------------------ATTGAA--AGAACAAGGTGAAAATGA-AGATTCTGATT----AGAAGGCTAT-------------ATTCTTGCTCTAAGTTGAC-AAAGTGGAAATGGAAAG--ATGCAAAAAGAGATAACACAGTCGATgtgtccaatatac-----agtaagag-ctcaataaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4102407 148 -   4237731 TGAAAAATAAT--------------------------------ATTGAA--AGAACAAGGTGAAAATGA-AGATTCTGAAT----AGAAGGCTGT-------------ATTCTTGCTCTAAGTTGAC-AAAGTGGAAATGGAAAG--ATGCAAAAAGAGATAACACAGTCGATgtgtccaatatac-----agtaagag-ctcaataaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      370966 148 -   1175262 TGAAAAATAAT--------------------------------ATTGAA--AAAACAAGGTGAAAATGA-AGATTCTGACT----AGAAGGCTAT-------------ATTCTTGCTCTAAGTTGAC-AAAGTGGAAATGGAAAG--ATGCAAAAAGAGATAACGCAGTCAATgtgtccaatgtac-----agtaagag-ctcaataaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123725581 148 - 204313951 TGAAAAATAAT--------------------------------ATTGAAAGAGA--AAGGGGAAAATGA-AGATTCTAATT----GGAAGGCTAT-------------ATTCTTGCTCTAAATTGAC-AAAGTGGACATGAAAAG--ATGTAAAATGAGATAACATAGTCCATGCATCCAAcataa-----agtaagag-ctcaataaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55769140 150 -  71252344 TGAAAAATAAT--------------------------------ATTGAAAGAGAACAAGGGGAAAATGA-AGATTCTGATT----GGAAGGCTAT-------------ATTCTAGCTCTAAGTTGAC-AAAGTGGACACGGAAAG--atgtaaaatgagataacacagtccatgcatccaacatac-----agtaagag-ctccataaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       72758 150 -   3089952 TGAAAAATAAT--------------------------------ATTGAAAGAGAACAAGGGGAAAATGA-AGATTCTGATT----GGAAGGCTAT-------------ATTCTTGCTCTAAGTTGAC-AAAGTGGACATGGAAAG--atgtaaaatgagataacacagtccatgcatccaacatac-----agtaagag-ctccataaa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13273011 150 -  42888418 TGAAAAATAAT--------------------------------ATTGAAAGAGAACAAGGGGAAAATGA-AAATTCTGATT----GGAAGGCTAT-------------GTTCTTGCTCTAAGTTGAC-AAAGTGGACATGGAAAG--ATGTAAAATGAGATAACACAGTCCATgcgtccaacatac-----agtaagag-ctccataaa
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3639437 164 +  11683526 TGGTAAATAGT--------------------------------ATCGAAAGGGAAAATGGTGAAAAGGA-GGATTCTGATT----GGAAGGCTACTTCAGAAATCCAAACCCTTGCTCCAAGTTGATAAAAGCAGACATGGAAAG--GTGCAAAAAGAGAAGAAGCAGACCAagtaccccacgtac-----agtaggag-ctcaataaa
i proCoq1.NW_012155062v1   I 10 C 0
s otoGar3.GL873679           3129665 158 +   4132165 CGAAAAATAGT--------------------------------ATTGGAAGGGAAAAAAGTGAAGACAA-GGATTATGATT----GGATGACTACTTCAGAAATCCAAACTCTTGCTCCAAGTTGACCAACGTTGACTTGGAGAG--GTGCAAAA--ATCAGAagca----aagtgccccacacac-----aacaagag-ctcagtaaa
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55568531 140 +  90702639 --------------------------------------------TCGAGAGAGAAAATGGT----ATGATGGATTATGACTACCAAGAAGTCCAA-------------A--ATTGGTCCAGGTTGATTAAAGTGTTTATGGATGGTAATGGAAAAAAAAATAGAA-AGCAAATGAACAGAATATTT-----ATCAAGCGTCACAGCAAG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14971052 192 +  74389097 taaaaaaTTATAAAAGTCAGGAAGACTACAGTGTGAACACAGGATTGTAAGGGAAAAAAGTAAAAACAA-GGATTCTGATT----GAAACGCTACTACAGAAGTTTAAATTCTTGATCAAAGTCAACAAAAGTGGATATG-------ATTTGAAAAGAGAGAAAGCA----AAGTCTCCAATATACAGTAGAGTAGAAG-CTCAATAAA
i canFam3.chr11            I 167 C 0
s dasNov3.JH567306           2693722 159 +   3667625 TGAATGATAGT--------------------------------TTTGAAGGACAA-AAGGTGAAAA----GGATACTGATT----GAGAGGCTACTTCAGAAATCTAAACTCTTGATCTAACTGGTG-AAAGAGgagatagaaat--acatgaaaagaaataacgcagacaaagtgctcaacatac-----attaagag-ttcaataaa
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60603890 294 + 108143057 I

a score=527999.000000
s hg38.chr5_KI270796v1_alt    146679 46 +    172708 tattagtta---tcatCACTCTGATAATTTACTCACCCACTAATTGCCA
s panPan2.chr5             126586699 46 + 183735486 tattagtta---tcatCACTCTGATAATTTACTCACCCACTAATTGCCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1778445 46 +   8933513 tattagtta---tcatCACTCTGATAATTTACTCACCCACTAATTGCCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139912886 46 + 163208435 tattagtta---tcatCACTCTGATAATTTACTCACCCACTAATTGCCC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122897686 46 + 180051392 tatcagtta---tcatCACTCTGATAATTTACTCGCCCACTAATTGCCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124321306 46 + 181584905 tatcagtta---tcatCACTCTGATAATTTACTCGCCCACTAATTGCCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16319955 46 +  18395747 tatcagtta---tcatCACTCTGATAATTTACTCTCCCACTAATTGCCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5332366 46 +  26952557 tatcagtta---tcatCACTCTGATAATTTACTTGCCCACTAATTGCCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28432694 46 +  82825804 tatcagtta---tcatCACTCTGATAATTTACTCACCCACTAATTGCCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4102555 46 -   4237731 tatcagtta---tcatCACTCTGATAATTTACTCGCCCACTAATTGCCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      371114 46 -   1175262 tatcagtca---tcatCACTCTGATAATTTACTCGCCCGCTAATTGCCC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123725729 41 - 204313951 tattagtta---tcatCACTCTGATAATTT-----CCCACTAATTGCCC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55769290 41 -  71252344 tattagtta---tcatCACTCTGATAATTT-----CCCATTAATTGCCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       72908 41 -   3089952 tattagtta---tcatCACTCTGATAATTT-----CCCATTAATTGCCC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13273161 41 -  42888418 tattaatta---tcatCACTCTGATAATTT-----CCCACGAACTTCCC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3639601 42 +  11683526 t----gttA---TCAACACTCTGGTAATTTACTTGCCCAGTAATTACCC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3129823 46 +   4132165 tgttagttA---TCAGCATGCTGATAATTGACCTGTCCACTAATTACCC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55568671 44 +  90702639 -----GATAACGCCATCTCCCTGGGCAGTTAAGTGCCTAGGAGTTGTTT
i mm10.chr18               C 0 I 5
s canFam3.chr11             14971244 46 +  74389097 TATTACTTA---TCATGACTCTGATCACTTACTAGTCCAATGATTGCCC
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2693881 43 +   3667625 tattagtta------atactCTGATCATTTGCTCACTCACTAATTGCCC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60603890 294 + 108143057 I
e panTro5.chr5             125249974 127 + 181907262 I

a score=224142.000000
s hg38.chr5_KI270796v1_alt    146725 16 +    172708 TTTATGTTCTTGTACC
s panPan2.chr5             126586745 16 + 183735486 TTTATGTTCTTGTACC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1778491 16 +   8933513 TTTATGTTCTTGTACC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139912932 16 + 163208435 TTTATGTTCTTGTACC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122897732 16 + 180051392 TTTATGTTCTTGTACC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124321352 16 + 181584905 TTTATGTTCTTGTACC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16320001 16 +  18395747 TTTATGTTCTTGTACC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5332412 16 +  26952557 TTTATGTTCTTGTACC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28432740 16 +  82825804 TTTATGTTCTTGTACC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4102601 16 -   4237731 TTTATGTTCTTGTACC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      371160 16 -   1175262 TTTATGTTCTTGTACC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123725770 16 - 204313951 TTTATGTATTCGTACC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55769331 16 -  71252344 TTTATGTACTTGTACC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       72949 16 -   3089952 TTTATGTACTTGTACC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13273202 16 -  42888418 TTTATGTACTTGTCCC
i aotNan1.NW_018505940v1   C 0 I 68
s micMur3.chr12             60604184 16 + 108143057 TTTATGTCTTTGCACC
i micMur3.chr12            I 294 C 0
s proCoq1.NW_012155062v1     3639643 16 +  11683526 TTTATGGTCTTGCACC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3129869 16 +   4132165 TTTATGTATTTGCAGC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55568720 16 +  90702639 TGTACACTCTTTCAGT
i mm10.chr18               I 5 C 0
s canFam3.chr11             14971291 16 +  74389097 TTTATGTACCTGCACC
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2693924 16 +   3667625 TTTATGTAATTGCATG
i dasNov3.JH567306         C 0 C 0
e panTro5.chr5             125249974 127 + 181907262 I

a score=162398.000000
s hg38.chr5_KI270796v1_alt    146741 10 +    172708 AGGTGATGAT
s panPan2.chr5             126586761 10 + 183735486 AGGTGATGAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1778507 10 +   8933513 AGGTGATGAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139912948 10 + 163208435 AGGTGATGAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122897748 10 + 180051392 AGGTGATGAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124321368 10 + 181584905 AGGTGATGAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16320017 10 +  18395747 AGGTGATGAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5332428 10 +  26952557 AGGTTATGAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28432756 10 +  82825804 AGGTGATGAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4102617 10 -   4237731 AGGTGATGAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      371176 10 -   1175262 AGGTGATGAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123725786 10 - 204313951 TGGTGATGAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55769347 10 -  71252344 AGGTGATGAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       72965 10 -   3089952 AGGTGATGGT
i cebCap1.NW_016107590v1   C 0 C 0
s micMur3.chr12             60604200 10 + 108143057 AGGTGATGAT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3639659 10 +  11683526 AGGTGATGAT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3129885 10 +   4132165 AGGTGATGAT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55568736 10 +  90702639 AGGCGATGAT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14971307 10 +  74389097 AGGTGATGAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2693940  9 +   3667625 -AGTGATGAT
i dasNov3.JH567306         C 0 C 0
e aotNan1.NW_018505940v1    13273218 68 -  42888418 I
e panTro5.chr5             125249974 127 + 181907262 I

a score=697637.000000
s hg38.chr5_KI270796v1_alt    146751 58 +    172708 AGGTACTTAACTTTTACTTAGATTATA----CATTGCTTAATAT---------ATGAGAAGTGTAATCA-TT
s panPan2.chr5             126586771 58 + 183735486 AGGTACTTAGCTTTTACTTAGATTATA----CATTGCTTAATAT---------ATGAGAAGTGTAATCA-TT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1778517 58 +   8933513 AGGTACTTAGCTTTTACTTAGATTATA----CATTGCTTAATAT---------ATGAGAAGTGTAATCA-TT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139912958 58 + 163208435 AGGTACTTAGCTTTTACTTAGAATATA----CATTGCTTAATAT---------AGGAGAAGTGTAATCA-TT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122897758 58 + 180051392 AGATACTTAGCTTTTACTTAGATTTTA----CATTGCTTAATAT---------ATGAGAAGTGTAATCA-TT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124321378 58 + 181584905 AGATACTTAGCTTTTACTTAGATTTTA----CATTGCTTAATAT---------ATGAGAAGTGTAATCA-TT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16320027 58 +  18395747 AGATACTTAGCTTTTACTTAGATTTTA----CATTGCTTAATAT---------ATGAGAAGTGTAATCA-TT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5332438 58 +  26952557 AGATACTTAGCTTTTACTTAGATTTTA----CATTGCTTAATAT---------ATGAGAAGTGTAATCA-TT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28432766 58 +  82825804 AGATACTTAGCTTTTACTTAGATTTTA----CATTGCTTAATAT---------ATGAGAAGTGTAATCA-TT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4102627 58 -   4237731 AGATACTTAGCTTTTACTTAGATTTTA----CATTGCTTAATAT---------ATGAGAAGTGTAATCA-TT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      371186 58 -   1175262 AGGTACTTAGCTTTTACTTAGATTATA----CATTGCTTAATAT---------ATGAGAAGTGTAATCA-TT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123725796 58 - 204313951 AGGTACTTAGCTTTTACTTAGATTATA----CATTGCTTAATGT---------ATGAGAAATGTAATCA-TT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55769357 58 -  71252344 ATGTACTTAGCTTTTACTTAGATTATA----CATTGCTTAATGT---------ACAAGAAATGTAATTA-TT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       72975 58 -   3089952 AGGTACTTAGCTTTTACTTAGATTATA----CATTGCTTAATGT---------ACAAGAAATGTAATCA-TT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13273286 58 -  42888418 CGGTACTTAGCTTTTACTTAGATTATA----CGTTGCTTAATGT---------ATGAGAAATGTAATCA-TT
i aotNan1.NW_018505940v1   I 68 C 0
s micMur3.chr12             60604210 57 + 108143057 GAGAACTTAGGTTCTACTTAGATTATA----TGCTGCTTAATCT---------GAAAGAAGTGCAGTCA-T-
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3639669 57 +  11683526 GAGCACTTAGGTTCTACTTAGATTATA----CGCTACTTAATAT---------GTGAGAAGTGTAATCA-T-
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3129895 58 +   4132165 GGGTACTTAGCTTCTACTTAGATTATA----TGCTGCTTAATAG---------ATGAGACGGGCAATCATT-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55568746 61 +  90702639 GGGAATTTACCTCCCACTTATATTATGTTCTTACTAGTTAGTAT---------GTGGAATGTGTCACTA-T-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14971317 32 +  74389097 GGGTACTT-----------------------C----CTTAACAC---------ATAAGGA---TAATCA-CT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2693949 67 +   3667625 GGGGGATTGTTTTCTTCTTAGAGTATA----CAGTGCCTAGTTTATAAATATAATGAGAAGCATAATCA-AT
i dasNov3.JH567306         C 0 C 0
e panTro5.chr5             125249974 127 + 181907262 I

a score=1589865.000000
s hg38.chr5_KI270796v1_alt    146809 108 +    172708 CATCTAAATT---------------ATTCATTTTTAGTTATCCTAGTAGTGTCAGAT-ATATGTGAGCAAATGGGTTATATGAGCATTCATTTTGGGCA---------------TGTTTCTAAAAAT---------------------------------------------------------------------ATGAAGAAGCTG
s panTro5.chr5             125250101 108 + 181907262 CATCTAAATT---------------ATTCATTTTTAGTTATCCTAGTAGTGTCAGAT-ATATGTGAGCAAATGGGTTATATGAGCATTCATTTTGGGCA---------------TGTTTCTAAAAAT---------------------------------------------------------------------ATGAAGAAGCTG
i panTro5.chr5             I 127 C 0
s panPan2.chr5             126586829 108 + 183735486 CATCTAAATT---------------ATTCATTTTTAGTTATCCTAGTAGTGTCAGAT-ATATGTGAGCAAATGGGTTATATGAGCATTCATTTTGGGCA---------------TGTTTCTAAAAAT---------------------------------------------------------------------ATGAAGAAGCTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1778575 108 +   8933513 CATCTAAATT---------------ATTCATTTTTAGTTATCCTAGTAGTGTCAGAT-ATATGTGAGCAAATGGGTTATATGAGCATTCATTTTGGGCA---------------TGTTTCTAAAAAT---------------------------------------------------------------------ATGAAGAAGCTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139913016 108 + 163208435 CATCTAAATT---------------ATTCATTTTTAGTTATCCTAGTAGTGTCAGAT-ATATGTGAGCAAATGGGTTATATGAGCATTCATTTTGGGCA---------------TGTTTCTAAAAAT---------------------------------------------------------------------ATGAAGAAGCTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122897816 108 + 180051392 CATCTAAATT---------------ATTCGTTTTTAGTGATGCTAGTAGTGTCAGAT-ATATGTGAGCAAATGGGTTATATGAGCATTCATTTTGGGCA---------------TGTTTCTAAAAAT---------------------------------------------------------------------ATGAAGAAGCTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124321436 108 + 181584905 CATCTAAATT---------------ATTCGTTTTTAGTGATGCTAGTAGTGTCAGAT-ATATGTGAGCAAATGGGTTATATGAGCATTCATTTTGGGCA---------------TGTTTCTAAAAAT---------------------------------------------------------------------ATGAAGAAGCTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16320085 108 +  18395747 CATCTAAATT---------------ATTCGTTTTTAGTGATGCTAGTAGTGTCAGAT-ATATGTGAGCAAATGGGTTATATGAGCATTCATTTTGGGCA---------------TGTTTCTAAAAAT---------------------------------------------------------------------ATGAAGAAGCTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5332496 108 +  26952557 CATCTAAATT---------------ATTCATTTTTAGTGATGCTAGTAGTGTCAGAT-ATATGTGAGCAAATGGGTTATATGAGCATTCATTTTGGGCA---------------TGTTTCTAAAAAT---------------------------------------------------------------------ATGAAGAAGCTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28432824 108 +  82825804 CATCTAAATT---------------ATTCGTTTTTAGTGATGCTAGTAGTGTCAGAT-ATATGTGAGCAAATGGGTTATATGAGCATTCATTTTGGGCA---------------TGTTTCTAAAAAT---------------------------------------------------------------------ATGAAGAAGCTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4102685 108 -   4237731 CATCTAAATT---------------ATTCATTGTTAGTGATGCTAGTAGTGTCAGAT-ATATGTGAGCAAATGGGTTATATGAGCATTCATTTTGGGCA---------------TGTTTCTAAAAAT---------------------------------------------------------------------ATGAAGAAGCTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      371244 108 -   1175262 CATCTAAATT---------------ATTCGTTTTTAGTGATGCTAGTAGTGTCAGAT-ATATGTGAGCAAATGGGTTATATGAGCATTCATTTTGGGCA---------------TGTTTCTAAAAAT---------------------------------------------------------------------ATGAAGAAGCTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123725854 108 - 204313951 CATCTAAATT---------------ATTTGTTTTTAGTGATCCTAGTAGTGTCAGAT-ATATGTGAGCAAACAGATTACGTGAGTATTCGTTTTGGGCA---------------AGTTTCTAAAAAT---------------------------------------------------------------------ATGAAGAAGCTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55769415 108 -  71252344 CATCTAAACT---------------ATTCATTTTTAGTGATCCTAGTAGTGTCAGAT-ATCTGTGAGCAAATAGGTTATGTGAGTATTCGTTTTGGGCA---------------AGTTTTTAAAAAT---------------------------------------------------------------------ATGAAAAAGCTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       73033 108 -   3089952 CATCTAAATT---------------GTTCATTTTTAGTGATCCTAGTAGTGTCAGAT-ATATGTGAGCAAACAGATTATGTGAGTATTCGTTTGGGGCA---------------AGTTTCTAAAAAT---------------------------------------------------------------------ACGAAGAAGCTG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13273344 108 -  42888418 CATTTAAATT---------------ATTCGTTTTTAGTGATCCTAGTAGTGTCACAT-ATATGTGAGCAAACAGATTATGTGAGTATTCATTTTGGGCA---------------AGTTTCTAAAAAT---------------------------------------------------------------------ATGAAGAAGCTG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60604267 107 + 108143057 CATCTAAATT---------------ACTAGTGTTTAGTGGTCCTGGTAGTGTCGGAC-ATGTGTGAGCAAACAGGTTATATGATTATTCATTTGGGGCA---------------GGTTTTTAAAACT----------------------------------------------------------------------CAGAGATGCTG
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3639726 107 +  11683526 CATCTAAACG---------------ACTTGAGTTTAGTGGTCTCAGTAGTGTCAGAT-ATATATGAGCAAACAGGTTACATGATTATTCATTTTGGGCA---------------GGTTTTTAAAATT----------------------------------------------------------------------TTAAGATGCTG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3129953 109 +   4132165 CATCTAAATT---------------ATTAGATTGCAGCAGTCCTTGTCTTGTCAGATAATATGCAGGCAAATAGATTATATGACTATTCATTTGGGGCA---------------GGCTTCGAAAAAT---------------------------------------------------------------------ACAACGATACTG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55568807 106 +  90702639 CATCTAAGTG---------------ACTGATTTGTATTGATTCTAGTAATGTCAGAC-ATACAAGAAGAAATAGA-TATAAAATTAATATTTATGGATA---------------TGTTTATAAAATT---------------------------------------------------------------------ATGA-GTAGCTG
i mm10.chr18               C 0 I 1057
s canFam3.chr11             14971349 206 +  74389097 CATCTAAATTATTAGGTTTAGATGAATTAGTTTTCAGTGATCTTCATAGTGTCAAAT-ATAGAACAGCAAATGGGTTGTAT-AGTATTCATTTTGAACAGCTTTTTTTTTCCtttttttttaaagatttatttatttatttatgatagacatagaaagagagagagagagagagagagaggcagagacacaggaggagggagaagcag
i canFam3.chr11            C 0 I 100
s dasNov3.JH567306           2694016 107 +   3667625 CATCTGAGGA---------------CACTAGGTTTAAT-ATCCTAATAGTGTCAGAT-ATAGTAGAGTGAATAGGCCATATGATTATTTATTTTGGACA---------------GGTTTCTGAAAAT---------------------------------------------------------------------ATGAAGACCCTG
i dasNov3.JH567306         C 0 C 0

a score=739892.000000
s hg38.chr5_KI270796v1_alt    146917 48 +    172708 GGAGGCAGCCTAAAAGGACTATTCCATGTGTTATGCCAAGTTGTGGCT
s panTro5.chr5             125250209 48 + 181907262 GGAGGCAGCCTAAAAGGACTATTCCATGTGTTATGCCAAGTTGTGGCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126586937 48 + 183735486 GGAGGCAGCCTAAAAGGACTATTCCATGTGTTATGCCAAGTTGTGGCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1778683 48 +   8933513 GGAGGCAGCCTAAAAGGACTATTCCATGTGTTATGCCAAGTTGTGGCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139913124 48 + 163208435 GGAGGCAGCCGAAAAGGACTAGTCCATGTGTTATGCCAAGTTGTGGCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122897924 48 + 180051392 GGAGGCAGCCTAAAAGGACTATTCCATGTGTTATGCCAACTTGTGGCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124321544 48 + 181584905 GGAGGCAGCCTAAAAGGACTATTCCATGTGTTATGCCAACTTGTGGCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16320193 48 +  18395747 GGAGGCAGCCTAAAAGGACTATTCCATGTGTTATGCCAACTTGTGGCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5332604 48 +  26952557 GGAGGCAGCCTAAAAGGACTATTCCATGTGTTATGCCAGCTTGTGGCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28432932 48 +  82825804 GGAGGCAGCCTAAAAGGACTATTCCATGTGTTATGCCAACTTGTGGCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4102793 48 -   4237731 GGAGGCAGCCTAAAAGGACTATTCCATGTGTTATGCCAACTTGTGGCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      371352 48 -   1175262 GGAGGCAGCCTAAAAGGACTATTCCATGTGTTATGCCAACTTGTGGCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123725962 48 - 204313951 GGAGGCAGCCTAAAAGAACTATTTCATGTGTTATGCCAGGTTGTGGCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55769523 48 -  71252344 GGAGGCAGCCTAAAAGAACGGTTTCATGTGTTATGTCAGGTTGTGGCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       73141 48 -   3089952 GGAGGCAGCCTGAAAGAACTATTTCATGTGTTATGCCAGGTTGTGGCT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13273452 48 -  42888418 GGAGGCAGCCTAAAAGAACTATTTCATGTGTTATGCCAGCTTGTGGCT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60604374 48 + 108143057 AGAGGCGGCCTAAAAGAAGTATTTCATGTGTTATGCCGGGTTGTGGCT
i micMur3.chr12            C 0 I 369
s proCoq1.NW_012155062v1     3639833 48 +  11683526 GGAGTCAGCCTAAAAGGAGCATTTTATGTGTTATGCCAGGTTGTAGCT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3130062 46 +   4132165 GGAGGTGGCCTAAAAGGAGTATTT--TGTGTTATCCTGGGTTGTGGCT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14971655 48 +  74389097 GGAGGTAGCCTAAGAGGAATATCTTATGTGTTATACCAGCTTCTGGCT
i canFam3.chr11            I 100 C 0
s dasNov3.JH567306           2694123 32 +   3667625 ----------------GGATTTTCTATGTGTTATGCCAGATTGCATCT
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55568913 1057 +  90702639 I

a score=533942.000000
s hg38.chr5_KI270796v1_alt    146965 40 +    172708 GGCAATGTAGTAGCT----CAAAACCGGCAGAACG-------GGAAGTGGG
s panTro5.chr5             125250257 40 + 181907262 GGCAATGTAGTAGCT----CAAAACTGGCAGAACG-------GGAAGTGGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126586985 40 + 183735486 GGCAATGTAGTAGCT----CAAAACTGGCAGAACG-------GGAAGTGGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1778731 40 +   8933513 GGCAATGTGGTAGCT----CAAAACCGGCAGAACG-------GGAAGTGGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139913172 40 + 163208435 GGCAATGTAGTAGCT----CAAAACCGGCAGAACG-------GGAAGTGGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122897972 40 + 180051392 GGCAATGAAGTAGCT----CAAAACTGGCAGAACG-------GGAAGTGGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124321592 40 + 181584905 GGCAATGAAGTAGCT----CAAAACTGGCAGAACG-------GGAAGTGGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16320241 40 +  18395747 GGCAATGAAGTAGCT----CAAAACTGGCAGAACG-------GGAAGTGGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5332652 40 +  26952557 GGCAATGAAGTAGCT----CAAAACTGGCAGAACG-------GGAAGTAGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28432980 40 +  82825804 GGCAATGAAGTAGCT----CAAAACTGGCAGAACG-------GGAAGTGGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4102841 40 -   4237731 GGCAATGAAGTAGCT----CAAAACTGGCAGAACG-------GGAAGTAGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      371400 40 -   1175262 GGCAGTGAAGTAGCT----CAAAACCGGCAGAACG-------GGAAGTGGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123726010 40 - 204313951 GGCAATGAAGTAGCT----CAAAACTGGCAGAATG-------GGAAGTGGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55769571 40 -  71252344 GGCAATGAAGTAACT----CAAAACTGGCAGAATG-------GGAAGTGGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       73189 40 -   3089952 GGCAATGAAGTAGCT----CAAAACTGGCAGAACG-------GGAAGTGGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13273500 40 -  42888418 GGCAATGAAGTAGCT----CAAAACTGGCAGAATG-------GGAAGTGGA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3639881 40 +  11683526 GGCTATGAGGTAGAC----CCAAACTGGCAGAACT-------GGAAGTGGG
i proCoq1.NW_012155062v1   C 0 I 87
s otoGar3.GL873679           3130108 51 +   4132165 GGCTAGGAGGTAGATGAGAGTAAATTGGCAGAACTTGGCCAAGGGAGTGGG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14971703 40 +  74389097 GGCAATGAGGCAGAT----CAACACTAGCAGAGCT-------GGAAGTGGG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2694155 38 +   3667625 GGCGAT-AGGTAGA-----CAGAACAGGCAGAGAT-------GAAAGAAGC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60604422 369 + 108143057 I
e mm10.chr18                55568913 1057 +  90702639 I

a score=62185.000000
s hg38.chr5_KI270796v1_alt    147005 7 +    172708 CGATAAG
s panTro5.chr5             125250297 7 + 181907262 CGATAAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126587025 7 + 183735486 TGATAAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1778771 6 +   8933513 -GGTAAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139913212 7 + 163208435 TAATAAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122898012 7 + 180051392 TGATAAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124321632 7 + 181584905 TGATAAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16320281 7 +  18395747 TGATAAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5332692 7 +  26952557 TGATAAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28433020 7 +  82825804 TGATAAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4102881 7 -   4237731 TGATAAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      371440 7 -   1175262 TGATGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123726050 7 - 204313951 TGATAAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55769611 7 -  71252344 TGATAAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       73229 7 -   3089952 GGATAAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13273540 7 -  42888418 TGATAAG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3130159 7 +   4132165 TGTCAGG
i otoGar3.GL873679         C 0 I 2202
s canFam3.chr11             14971743 7 +  74389097 TGAGAGT
i canFam3.chr11            C 0 I 11
s dasNov3.JH567306           2694193 7 +   3667625 TGAGAAC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60604422 369 + 108143057 I
e proCoq1.NW_012155062v1     3639921 87 +  11683526 I
e mm10.chr18                55568913 1057 +  90702639 I

a score=133361.000000
s hg38.chr5_KI270796v1_alt    147012 14 +    172708 TAGGG----GTGAG------AAGC-------------
s panTro5.chr5             125250304 14 + 181907262 TAGGG----GTGAG------AAGC-------------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126587032 14 + 183735486 TAGGG----GTGAG------AAGC-------------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1778777 14 +   8933513 TAGGG----GTGAG------AAGC-------------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139913219 14 + 163208435 TAGGG----GTGAG------AAGC-------------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122898019 14 + 180051392 TAGGG----GTGAG------AAGC-------------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124321639 14 + 181584905 TAGGG----GTGAG------AAGC-------------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16320288 14 +  18395747 TAGGG----GTGAG------AAGC-------------
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5332699 14 +  26952557 TAGGG----GTGAG------AAGC-------------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28433027 14 +  82825804 TAGGG----GTGAG------AAGC-------------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4102888 14 -   4237731 TAGGG----GTGAG------AAGC-------------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      371447 14 -   1175262 TAGGG----GCGAG------AAGC-------------
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123726057 14 - 204313951 TCGGG----GTGAG------AAGT-------------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55769618 14 -  71252344 TAGTG----GTGAG------AAGT-------------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       73236 14 -   3089952 TAGGG----TTGAG------AAGT-------------
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13273547 14 -  42888418 TAGGG----GTGAG------AAGC-------------
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14971761 20 +  74389097 CAGGG----CTGGACCCATCAAGC-------------
i canFam3.chr11            I 11 C 0
s dasNov3.JH567306           2694200 31 +   3667625 TAGGGAAGTGTCAG------GGCCTGGTCCATCCAGT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60604422 369 + 108143057 I
e proCoq1.NW_012155062v1     3639921 87 +  11683526 I
e otoGar3.GL873679           3130166 2202 +   4132165 I
e mm10.chr18                55568913 1057 +  90702639 I

a score=148783.000000
s hg38.chr5_KI270796v1_alt    147026 11 +    172708 GTGAGGTCTGA
s panTro5.chr5             125250318 11 + 181907262 ATGAGGTCTGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126587046 11 + 183735486 GTGAGGTCTGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1778791 11 +   8933513 GTGAGGTCTGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139913233 11 + 163208435 GTGAGGTCTGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122898033 11 + 180051392 ATGAGGTCTGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124321653 11 + 181584905 ATGAGGTCTGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16320302 11 +  18395747 ATGAGGTCTGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5332713 11 +  26952557 ATGAGGTCTGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28433041 11 +  82825804 ATGAGGTCTGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4102902 11 -   4237731 ATGAGGTCTGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      371461 11 -   1175262 ATGAGGTCTGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123726071 11 - 204313951 GTGAGGTCTAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55769632 11 -  71252344 GTGAGGTCTAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       73250 11 -   3089952 GTGAGGTCTAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13273561 11 -  42888418 ATGAGGTCTAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60604791 11 + 108143057 GTGAGGTCTAG
i micMur3.chr12            I 369 C 0
s canFam3.chr11             14971781 11 +  74389097 ATGAGGTCTCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2694231 11 +   3667625 ATGTGGTCTAA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3639921 87 +  11683526 I
e otoGar3.GL873679           3130166 2202 +   4132165 I
e mm10.chr18                55568913 1057 +  90702639 I

a score=3050806.000000
s hg38.chr5_KI270796v1_alt    147037 237 +    172708 AGCAGTGAAGGACAGTGATCCAGGTTAGGATGGAGGCAGGACACACTATGGTTGGGAGCAGGTAAGATTCAGAAATCAGGAGGAT--GCAA-ATGAGGAGCAACCCGGGTTAAAGCAGTCAAGAAGTAGGATGCACTGATTAATATattcatttatttaacagttatttgttaaatgcttactctatgtctattcacttttctgggacctggggattcag-acacaaaggacaaaaatctg
s panTro5.chr5             125250329 237 + 181907262 AGCAGTGAAGGACAGTGATCCAGGTTAGGATGGAGGCAGGACACACTAGGGTTGGGAGCAGGTAAGATTCAGAAATCAGGAGGAT--GCAA-ATGAGGAGCAACCCAGGTTAAAGCAGTCAAGAAGTAGGATGCACTGATTAATATattcatttatttaacagttatttgttaaatgcttactctatgtctattcacttttctgggacctgaggattcag-acacaaaggacaaaaatctg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126587057 237 + 183735486 AGCAGTGAAGGACAGTGATCCAGGTTAGGATGGAGGCAGGACACACTAGGGTTGGGAGCAGGTAAGATTCAGAAATCAGGAGGAT--GCAA-ATGAGGAGCAACCCAGGTTAAAGCAGTCAAGAAGTAGGATGCACTGATTAATATattcatttatttaacagttatttgttaaatgcttactctatgtctattcacttttctgggacctggggattcag-acacaaaggacaaaaatctg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1778802 237 +   8933513 AGCAGTGAAGGACAGTGATCCAGGTTAGGATGGAGGCAGGACACACTATGGTTGGGAGCAGGTAAGATTCAGAAATCAGGAGGAT--GCAA-ATGAGGAGCAACCCAGGTTAAAGCAGTCAAGAAGTAGGATGCACTGATTAATATattcatttatttaacagttatttgttaaatgcttactctatgtctattcacttttctgggacctggggattcag-acacaaaggacaaaaatctg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139913244 237 + 163208435 AGCAGTGAAGGACAGTGATCCAGGTTAAGATGGAGGCAGGACACACTATGGTTGGGAGCAGGTAAGATTCAGGAATCAGGAGGAT--GCAA-ATGAGGAGCAACCCAGGTTAAAGCAGTCAAGAGGTAGGATTCACTTATTAATATattcattcatttaacagttatttgttaaatgcttactctatgtctgttcacttttctgggacctggggattcag-acacaaaggacaaaaatctg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122898044 232 + 180051392 AGCAGTGAAGGACAGTGATCCAGATTAGGATGGAGGCAGGACACACTATGGTTGGGAGT-GGTAAGATTCAGGAATCAGGAGGAT--GCAA-ATGAGG----ACCCAGGTCAAAGCAGTCAAGAAGTAGGATTCACCTATTAATATattcattcatttaatagttatttgttaaatgcttgctctatgtctatttagttttctgggacctggggattcag-acagaaaggacaaaaatctg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124321664 232 + 181584905 AGCAGTGAAGGACAGTGATCCAGATTAGGATGGAGGCAGGACACACTATGGTTGGGAGT-GGTAAGATTCAGGAATCAGGAGGAT--GCAA-ATGAGG----ACCCAGGTCAAAGCAGTCAAGAAGTAGAATTCACCTATTAATATattcattcatttaatagttatttgttaaatgcttgctctatgtctatttagttttctgggacctggggattcag-acagaaaggacaaaaatctg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16320313 232 +  18395747 AGCAGTGAAGGACAGTGATCCAGATTAGGATGGAGGCAGGACATACTATGGTTGGGAGT-GGTAAGATTCAGGAATCAGGAGGAT--GCAA-ATGAGG----ACCCAGATCAAAGCAGTCAAGAAGTAGGATTCACCTATTAATATattcattcatttaatagttatttgttaaatgcttgctctatgtctatttagttttctgggacctggggattcag-acagaaaggacaaaaatctg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5332724 232 +  26952557 AGCAGTGAAGGACAGTGATCCAGATTAGGATGGAGGCAGGACACACTATGGTTGGGAGT-GGTAAGATTCAGGAATCAGGAGGAT--GCAA-ATGAGG----ACCCAGGTCAAAGCAGTCAAGAAGTAGGATTCACCTATTAATATattcattcatttaatagttatttgttaaatgcttgctctatgtctgtttagttttctgggacctggggattcag-acacaaaggacaaaaatctg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28433052 232 +  82825804 AGCAGTGAAGGACAGTGATCCAGATTAGGATGGAGGCAGGGCACACTATGGTTGGGAGT-GGTAAGATTCAGGAATCAGGAGGAT--GCAA-ATGAGG----ACCCAGGTCAAAGCTGTCAAGAAGTAGGATTCACCTATTAATATattcattcatttaatagttatttgttaaatgcttgctctatgtctatttagttttctgggacccggggattcag-acacaaaggacaaaaatctg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4102913 232 -   4237731 AGCAGTGAAGGACAGTGATCCAGATTAGGATGGAGGCAGGACACACTGTGGTTGGGAGT-GGTAAGATTCAGGAATCAGGAGGAT--GCAA-ATGAGG----ACCCAGGTCAAAGCAGTCAAGAAGTAGGATTCACCTATTAATATattcattcatttaatagttatttgttaaatgcttgctctatgtctgtttagttttctgggacctggggattcag-acacaaaggacaaaaatctg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      371472 232 -   1175262 AGCAGTGAAGGACAGTGATCCAGATTAGGATGGAGGCAGGACACACTATGGTTGCGAGT-GGTAAGATTCAGGAATCAGGAGGAT--GCAA-ATGAGG----ACCCAGGTCAAAGCAGTCAAGAAGTAGGATTCACCTATTAATATAGtcattcatttaatagtgatttgttaaatgcttattctatgtctatttacttttctgggacctggggattcag-acacaaaggacaaaaatcgg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123726082 234 - 204313951 AGTAGTGAAGGACAGTGATCTAGGTTAGGAACAAGGCAGGACACACTGTGGTTGGGAGCAGGTAAGATTCAGGAAGGAGGGGGAT--GCAA-ATGAGGAGCAACCCACGTCAAAGCAGTCAAGAGGCAGGATTCACTTAT---TGTattcattcgtttaacagttatttgttgaatgcttactctatgtctattcactcttctgggacctggggattcag-acacaaaggacaaaaatctg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55769643 234 -  71252344 AGTAGTGAAGGACAGTGATCTAGGTTAGGAACAAGGCAGGACCCACTATGGTTGGGAGCAGGTAAGATTCAGGAATGAGGGGGAT--GCAA-ATGAGGAGCAACCCAGGTCAAAGCAGTCAAGAGATAGGATTCACTTAT---TGTattcattcatttaacagttatttgttgaatgcctactctatgtctattcactcgtccgggaactggggattcgg-atacaaaggacaaaaatctg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       73261 231 -   3089952 AGTAGTGAAGGACAGTGATCTAGGTTAGGAATGAGGCAGGACCCACCATGATTGGGAACAGGTAACATTCAGGAATGAGGGGGAT--GCAA-ATGAGGAGCAACCCAGGTCAAAGCAGTCAAGAGGTAGGATTCACTTA------Tattcattcatttaacagttgtttgttgaatgcttactctatgtctattcactcttctgggaactggggattcag-atacaaaggacaaaaatctg
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13273572 234 -  42888418 AGTAGTGAAGGACAGTGATCTAGGTTAGGAACGAGGCAGGACACACTATAGTTGGGAGCAGGTAAGATTCAGGAATGAGGGGGAT--GCAA-ATGAGGAGCAACCCAGGTCAAAGCAGTCAAGAGGTAGGATTCACTTAT---TATattcattcacttaacagttatttgttgaatgcttactctatgtctattcactcttctgggacctggggattcag-acacaaaggacaaaaatctg
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60604802 237 + 108143057 AGCAGTGAAGGACAGTGGTCCAGGTCAGGAGGGAGGCAGAACACACCATGGTTAGGAG-AGGTTGGACTCAGAAATCAGGAGGAC-AGAAG-ATGAGGAGCAACCAAGGTTAAAGCAGTCCAGGAGTAGGGTTCATTTATTAAGTTattcattcatttaacagttactcattgagtgcttactatatgtctattcactcttctggtacctggagattcag-acacaaaggacagaaatctg
i micMur3.chr12            C 0 I 4551
s proCoq1.NW_012155062v1     3640008 238 +  11683526 AGCAATGAAGGACAGTGATCCCGGTCAGTAGTGAGGCAGAAGGCACCATGGTTAGGAGCAGGTTAGACTCAGAAATCAGGAGGAC-AGCAA-ATGAGGAGCATCCAAAGTTAAAGCAGTCGAAGGGTAGGATTCGCTTATTAATTTattcattcatttaacagtgatttattgaatgcttactatatgtctgttcactcttctggtacctggaaattgag-acacaaaggacagaaatgtg
i proCoq1.NW_012155062v1   I 87 C 0
s canFam3.chr11             14971792 231 +  74389097 AGCAGTGAGGGATAGTGATCCAGGTCACGAATGGGGCAGGACGCATGATGGTTGGG-GCAGGTAAGGCCCAGAAACTAGGAGGAT-AGCAAGATGAGGAGTAACC-AAGTCAAAGCAGTTAAGAGGGAGGACTCATTAATTAATTTatgcatccactcaacaattatatatcaaatgcttgctata----tatttacttttgtaggagctggggcttcaa---aaaagagacaaaaatctg
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2694242 202 +   3667625 CATAGTGAAAAACAATGATCCAGGTCAGAAGCGAGGCAAGGTACACTGTGGTCAGGAGCAAATAAGGCCCAGGGATCAAGAAGAAAAGTAAGGTAAGGAGC-ACCCTGGTCAAAGCCATTAAAACGTAGGAATTGTTCATTA--------ATTAATTTAAcaaat------------------------------actcttgtagttgctgtgaattcaggacaaaagagacaaaaatcca
i dasNov3.JH567306         C 0 C 0
e otoGar3.GL873679           3130166 2202 +   4132165 I
e mm10.chr18                55568913 1057 +  90702639 I

a score=870059.000000
s hg38.chr5_KI270796v1_alt    147274 70 +    172708 tggcctcatgaagcttacattcctgaaagtgaaagcagat-aacaggaggtaaattagtaaattgctatgt
s panTro5.chr5             125250566 70 + 181907262 tggcctcatgaagcttacattcctgaaactgaaagcagat-aacaggtggtaaattagtaaattgttatgt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126587294 70 + 183735486 tggcctcatgaagcttacattcctgaaagtgaaagcagat-aacaggtggtaaattagtaaattgttatgt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1779039 70 +   8933513 tggcctcatgaagcttacattcctgaaagtgaaagcagat-aacaggtggtaaattagtaaattgctatgt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139913481 70 + 163208435 tggcctcatgaagcttacatttctgaaagtgaaagcagat-aacaggtggtaaattagtaaattgctatgt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122898276 70 + 180051392 tggcctcatgaagcttacattcctgaaagtgaaagcagat-aacaggtggtaaattagtaaattgctatgt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124321896 70 + 181584905 tggcctcatgaagcttacattcctgaaagtgaaagcagat-aacaggtggtaaattagtaaattgctatgt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16320545 70 +  18395747 tggcctcatgaagcttacattcctgaaagtgaaagcagat-aacaggtggtaaattagtaaattgctatgt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5332956 70 +  26952557 tggcctcatgaagcttacattcctgaaagtgaaagcagat-aacaggtggtaaattagtaaattgctatgt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28433284 70 +  82825804 tggcctcatgaagcttacattcctgaaagtgaaagcggat-aacagatggtaaattagtaaattgctatgt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4103145 70 -   4237731 tggcctcatgaagcttacattcctgaaagtgaaagcagat-aacaggtggtaaattagtaaattgctatgt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      371704 62 -   1175262 tggcctcatgaagcttacattcctgaaagtgaaagcagat-aacagg--------tagtaaattgctatgt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123726316 70 - 204313951 tggcctcatgaagtttatatttctgagggttaaagcagat-aacaggtggtaaattaataagttgctatgt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55769877 70 -  71252344 tggcctcatgaagcttatatttctgagagttaaagcagat-aacaagtggtaaattaataagttgctatgt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       73492 70 -   3089952 tggcctcacggagcttatatttctgagagttaaagcagat-aacaggtggtaaattaataagttgctatgt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13273806 70 -  42888418 tggcctcatgaagcttatatttctgagagttaaagcagat-aacaggtggtaaattaataagttgctatgt
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3640246 71 +  11683526 tggccttacggagcccacattacaaacagaaaaagcagataaacaggtggtgaatcagtaaattactgtgt
i proCoq1.NW_012155062v1   C 0 C 0
s canFam3.chr11             14972023 71 +  74389097 tggtctctttcagcttacattccagaatgggaaagtagattaatggatgataaatcagtaaagaactatat
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2694444 71 +   3667625 tgaccttatggagcttacattctagagggggaaaacaggcaaacagacaataaatcaataacttactctat
i dasNov3.JH567306         C 0 I 4178
e micMur3.chr12             60605039 4551 + 108143057 I
e otoGar3.GL873679           3130166 2202 +   4132165 I
e mm10.chr18                55568913 1057 +  90702639 I

a score=1352558.000000
s hg38.chr5_KI270796v1_alt    147344 117 +    172708 -aaaaaatgata-------agaaaaatacagtggaaatagacTACTATTTGAtggctttcacatacgctgatgagatagaagctaatggagggttct-------gagaggaggagtgacatgatttatgttt
s panTro5.chr5             125250636 117 + 181907262 -aaaaaatgata-------agaaaaatacagtggaaatagacTACTATTTGAtggctttcacacacgctgatgagatagaagctaatggagggttct-------gagaggaggagtgacatgatttatgttt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126587364 117 + 183735486 -aaaaaatgata-------agaaaaatacagtggaaatagacTACTATTTGAtggctttcacatacgctgatgagatagaagctaatggagggttct-------gagaggaggagtgacatgatttatgttt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1779109 117 +   8933513 -aaaaaatgata-------agaaaaatacagtggaaatagacTACTATTTGAtggctttcacatacgctgatgagatagaagctaatggagggttct-------gagaggaggagtgacaagatttatgttt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139913551 118 + 163208435 caaaaaatgata-------agaaaaatacagtagaaatagactactatttgatggctttcacataggttgatgagatagaagctaatggagggttct-------gagaggaggagtgacatgatttatgttt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122898346 118 + 180051392 caaaaaatgata-------agAAAAATCTAGTAGAAATAGACTACTATTTGAtggttttcacatatgctgatgagatagaagctaatggagggttct-------gagaggaggagtaacattatttatgttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124321966 118 + 181584905 caaaaaatgata-------agAAAAATCTAGTAGAAATAGACTACTATTTGAtggttttcacatatgctgatgagatagaagctaatggagggttct-------gagaggaggagtgacatgatttatgttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16320615 118 +  18395747 caaaaaatgata-------agAAAAATCTAGTAGAAATAGACTACTATTTGAtggttttcacatatgctgatgagatagaagctaatggagggttct-------gagaggaggagtgacatgatttatgttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5333026 118 +  26952557 caaaaaatgata-------agAAAAATCTAGTAGAAATAGACTACTATTTGAtggttttcacatatgctgatgagatagaagctaatggagggttct-------gagaggaggagtgacatgatttatgttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28433354 118 +  82825804 caaaaaatgata-------agAAAAATCTCATAGAAATAGACTACTATTTGAtggttttcacttatgctgatgagatagaagctaatggagggttct-------gagaggaggagtgacatgatttatgttt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4103215 118 -   4237731 caaaaaatgata-------agAAAAATCTAGTAGAAATAGACTACTATTTCAtggttttcacatatgctgatgagatagaagctaatggagggttct-------gagaggaggagtgacatgatttatgttt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      371766 118 -   1175262 caaaatatgata-------agaaaaatatagtagAAATAGACTACTATTTGAtggttttcacatatgctgatgagatagaagctaatggagggttct-------gagaggaggagtgacatgatttatgttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123726386 118 - 204313951 caaaaaatgata-------agAAAAACACAATAGAAATAGAGTACTGTTTCAtggctttcacatatgctgatgagatagaagctaattgagggttct-------gagtggaggagtgacatgatttatgttt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55769947 118 -  71252344 caaaaaatgata-------agAAAAACACAATAGAAATACGGTACTGTTTAAtggctttcacatacgctgatgagatagaagctattggagggttct-------gagtggaggagtgacgtgatttatgttt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       73562 117 -   3089952 c-aaaaatgata-------agAAAAACACAATAGAAATACAGTACCATTTAAtggctttcacatacgctgatgagatagaagctaatggacggttct-------gagtggaggagtgacatgatttatgttt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13273876 118 -  42888418 caaaaaatgata-------agaaaaacacaatagaaatagagtactatTTAAtggctttcacatacgctgatgagatagaagctaatggagggttct-------gagtggaggagtgacataatttatgttt
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3640317 125 +  11683526 taaaagatgata-------agaaaaacaaagctggAATGGAGTACTATCTGAGggcctttacctacctcaatgaggtagaagctactggaaggtactgagcagagagcagagaaatggcattatttatgttt
i proCoq1.NW_012155062v1   C 0 C 0
s canFam3.chr11             14972094 125 +  74389097 tagaagataaggaaaatacagaaaaataaaggaggAATGCAGTACTCGTTGAtagcttttatatcacctggtgaaatagaaggtactagaaggttct-------gagcagaggagtgaggtgatttgtcttt
i canFam3.chr11            C 0 I 213
e micMur3.chr12             60605039 4551 + 108143057 I
e otoGar3.GL873679           3130166 2202 +   4132165 I
e dasNov3.JH567306           2694515 4178 +   3667625 I
e mm10.chr18                55568913 1057 +  90702639 I

a score=3167365.000000
s hg38.chr5_KI270796v1_alt    147461 277 +    172708 taaaatgatccctttggctcagaa----tagactgta-gggtca---a---agatcagttaggaggttgttctaaaact-ctgatgagagaagatagtgacttgaacatgaatggtagcagcagaggggctgagaagtggcaggattctggatatagtttgaagatagagccaattgg----------atttactgctgaatgggatgtaggatgtgagagaaagatgcaagtcTTCGGCAAtgtgctagaaccagctcacaccagttaagaagagctgattgtGCCATCTCTTCTTAA
s panTro5.chr5             125250753 277 + 181907262 taaaatgatccctttggctcagaa----tagactgca-gggtca---a---agatcagttaggaggttgttctaaaact-ctgatgagagaagatagtgacttgaacatgaatggtagcagcagacgggctgagaagtggcaggattctggatatagtttgaagatagagccaattgg----------atttactgctgaatgggatgtaggatgtgagagaaagatgcaagtcTTCGGCAAtgtgctagaaccagctcacaccagttaagaagagctgattgtgccatctcttcttaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126587481 277 + 183735486 taaaatgatccctttggctcagaa----tagactgta-gggtca---a---agatcagttaggaggttgttctaaaact-ctgatgagagaagatagtgacttgaacatgaatggtagcagcagacgggctgagaagtggcaggattctggatatagtttgaagatagagccaattgg----------atttactgctgaatgggatgtaggatgtgagagaaagatgcaagtcTTCGGCAATGTGCTAGAACCAGCTCACACCAGTTAAGAAGAGCTGATTGTGCCATCTCTTCTTAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1779226 276 +   8933513 taaaatgatccctttggctcagaa----tagactgta-gggtca---a---agatcagttaggaggttgttctaaaact-ctgatgagagaagatagtgacttgaacatgaatggtagcagcagaggggctgagaagtggcaggattctggatatagtttgaagatagagccagttgg----------atttactgctgaat-ggatgtaggatgtgagagaaagatgcaagtcTTCGGCAATGTGCTAGAACCAGTTCACACCAGTTAAGAAGAGCTGATTGTGCCATCTCTTCTTAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139913669 277 + 163208435 taaaatgatccctctggctcagaa----aagactgta-gggtca---a---agatcagttaggaggttgttctaaaact-ctgatgagagaagatagtgacttgaacatgaatggtagcagcagaggggctgagaagtggcaggattctggatataattggaagatagagccaattgg----------atttactgctgaatgggatgtaggatgtgagagaaagaTGCAAGTGTTCAGCAATGTGCTAGAACCAGCTCGCACCAGTTAAGAAGAGCTGATTGTGCCATCTCTTCTTAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122898464 277 + 180051392 taaaatgatccctttgcctcagaa----tagactgta-gggtca---a---agatcagttaggatgttattctaaaact-ctgatgagagaagatagtgacttaaacatgaatggtagtagcagaggggctgagaagtggcaggattctggatatagtttgaagatagagccaattga----------atttactcctgaatgggatgtaggatatgagagaaagatgcaagtcTTCAGCAATGCACTAGAACCAGCTCACACTGGCTAAAAAGAGCTGattgtgccagctcttctcaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124322084 277 + 181584905 taaaatgatccctttgcctcagaa----tagactgta-gggtca---a---agatcagttaggatgttattctaaaact-ctgatgagagaagatagtgacttaaacatgaatggtagtagcagaggggctgagaagtggcaggattctggatatagtttgaagatagagccaattga----------atttactcctgaatgggatgtaggatatgagagaaagatgcaagtcTTcagcaatgcactagaaccagctcacactggctaaaaagagctgattgtgccagctcttctcaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16320733 277 +  18395747 taaaatgatccctttgcctcagaa----tagactgta-gggtca---a---agatcagttaggatgttattctaaaact-ctgatgagagaagatagtgacttaaacatgaatggtagtagcagaggggctgagaagtggcaggattctggatatagtttgaagatagagccagttga----------atttactcctgaatgggatgtaggatatgagagaaagatgcaagtcTTcagcaatgcactagaaccagctcacattggctaaaaagagctgattgtgccagctcttctcaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5333144 277 +  26952557 taaaatgatccctttgcctcagaa----tagactgta-gggtca---a---agatcagttaggatgttattctaaaact-ctgatgagagaacatagtgacttaaacatgaatggtagtagcagaggggctgagaagtggcaggattctggatatagtttgaagatagagccaattga----------atttactcctgaatgggatgtaggatatgagagaaagatgcaagtcTTCAGCAATGCGCTAGAACTAGCTCACACTGGCTAAAAAGAGCTGattgtgccatctcttctcaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28433472 276 +  82825804 taaaatgatccctttgcctcagaa----tagactgta-gggtca---a---agatcagttaggatgttattctaaaact-ctgatgagagaagatagtgacttaaacatgagtggtagtagcagaggggctgagaagtggcaggattctggatatagtttgaagatagagccaa-tga----------atttactcctgaatgggatgtaggatatgagagaaagatgcaagtcTTcagcaatgcactagaaccagctcacactggataaaaagagctgattgtgccatctcttctcaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4103333 277 -   4237731 taaaatgatccctttgcctcagaa----tagactgta-gggtca---a---agatcaattaggatgttattctaaaact-ctgatgagagaagatagtgacttaaacatgaatggtagtagcagaggggctgagaagtggcaggattctggatatagtttgaagatagagccaattga----------atttactcctgaatgggatgtaggatatgagagaaagatgcaagtcTTcagcaatgcgctagaactagctcacactggctaaaaagagctgattgtgccatctcttctcaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      371884 274 -   1175262 taaaatgatccctttgcctcagaa----tagactgta-aggtca---a---agatcagttaggatgttattctaaaact-ctgatgagagaagatagtgacttaaacatgaatggtagtagcagaggggctgagaagtggcaggattctggatatagtttgaagatagagccaattga----------atttactcctgaatgggatgtaggat---agagaaagatacaagtcTTCAGCAAGGCActagaaccagctcacactggctaaaaagagctgattgtgccatctcttctcaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123726504 278 - 204313951 taaaatgatccccctgactcacgat---tagactgta-gggtca---a---agatcagttcagaggttattctaaaactcctgatgagagaatatagtgacttgaacatgaatggtagcagaagaggggctgagaagtggcatgattgtggacatagtttgaagatagagccaattgg----------atttactcctgaatgggatgta-gatgtgagagaaagaggcaagtcGTcagcagtgtgctagaactagctcacaccagcttagaagagctaattgtgccatctcttctcaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55770065 278 -  71252344 taaaatgatccctctgactcagaat---tagactgta-gggtca---a---agatcagtttggaggttattctaaaactcctgatgagagaatatagtgacttgaacatgaatggtagcagaagaggggctgagaagtggcatgattctggacataatttgcatatagagccaattgg----------atttactcctgactgggacgta-gatgtgagagaaagaggcaagtcTTcagcagtgtgctagaaccagctcacaccagcttagaagagctgattgtgccatctcttcttaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       73679 278 -   3089952 taaaatgatccctttgactcagaat---tagactgta-gggtca---a---agatcagttcggaggttattctaaaactcctgatgagagaatatagtgacttgaacatgaatggtagcagaagaggggctgagaagtggcatgattctggacatagtttgcagatagagccaattgg----------atttactcctgaatgggatgta-gatgtgagggaatgaggcaagtcTTcagcagtgtgctagaaccagctcacaccagctaagaagagctaattgtgccatctcttcttca
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13273994 278 -  42888418 taaaatgatccctctgactcagaat---tagactgta-gggtca---a---agatcagttcggaggttattctaagactcctgatgagagaatatagcgacttgaacatgaacggtagcagaagaggcgcagagaagtggcatgattctggacatagtttacagatacagccaattgg----------atttactcctgaatgggatgta-gatgagaaagaaagaggcaagtcTTcagcactgtgctagaaccagctcataccagcttagaagagctgattgtgtcatctcttcttaa
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3640442 295 +  11683526 tagaaagatccctctggctcagcacagacagacttca-gagtca---aaggagatcagttaggagatcattgcaaaactcctgatgcgagaagatggtgactggaacacgagtgggcgcagcagaggggctaagaagtggtgggattctgtatatggtttacaggcagagccaaccggatttgttaatatttactcctgaactggatgtgggatgtgagaaaaagaggcaagtTTCTagtggtgagctagaattaactcacaccagctaagaagagctgattgtaccatctcttcttaa
i proCoq1.NW_012155062v1   C 0 I 4154
s canFam3.chr11             14972432 281 +  74389097 taaaaggatccctctggctcacaa----taaaatgtatggggcacagg---agatcagttagggggctactgcaaaacttcagatgagagatgctggtgacttgaacaggaatggca-cagtgcaggagctgagagcaagctggagtctggatacagtttgcaggtaaagccaattgg----------atttagttctgggctaaatgtgatatgtgagagaaggaagcaagtGCCcagtagtgtgctacagccagctcatagcagcctaggagaggtgactgtgcaatcatttcttcc
i canFam3.chr11            I 213 C 0
e micMur3.chr12             60605039 4551 + 108143057 I
e otoGar3.GL873679           3130166 2202 +   4132165 I
e dasNov3.JH567306           2694515 4178 +   3667625 I
e mm10.chr18                55568913 1057 +  90702639 I

a score=695530.000000
s hg38.chr5_KI270796v1_alt    147738 74 +    172708 TGCTACTCACAGTGAAGTCATA---GTTAGCTTAAAAACA--TAAAATGAGAGAACATTTACACTATGGAAATCAGTAA
s panTro5.chr5             125251030 74 + 181907262 ttctactcacagtgaagtcata---gttagcttaaaaaca--taaaatgagagaacatttacactatggaaatcagtaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126587758 74 + 183735486 TTCTACTCACAGTGAAGTCATA---GTTAGCTTAAAAACA--TAAAATGCGAGAACATTTACACTATGGAAATCAGTAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1779502 74 +   8933513 TTTTACTCACAGTGAAGTCATA---GTTAGCTTAAAAACA--TAAAATGAGAGAACATTTACACTATGGAAATCAGTAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139913946 74 + 163208435 TTCTACTCATAGTGAAATCATA---GTTAGCTTAAAAACA--TAAAATGAGAGAACATTTACACTATGGAAATCAGTAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122898741 70 + 180051392 ttctactcacggtgaagtca-------cagcttaaaaaca--taaaatgagagaacatttacactatggaaatcagcaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124322361 70 + 181584905 ttctactcacagtgaagtca-------cagcttaaaaaca--taaaatgagagaacatttacactatggaaatcagcaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16321010 70 +  18395747 ttctactcacagtgaagtca-------cagcttaaaaaca--taaaatgagagaacatttacactatggaaatcagcaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5333421 70 +  26952557 ttctactcacagtgaagtca-------cagcttaaaaaca--taaaatgagagaacatttacactatggaaatcagcaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28433748 70 +  82825804 ttctactcacagtgaagtca-------cagcttaaaaaca--taaaatgagagaacatttacactatgaaaatcagcaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4103610 70 -   4237731 ttctactcacagtgaagtca-------cagcttaaaaaca--taaaatgagagaacatttacactatggaaatcagcaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      372158 70 -   1175262 ttctactcacagtgaagtca-------cagcttaaaaaca--taaaatgagagaatatttacactatggaaatcagcaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123726782 76 - 204313951 ttctactcacagtgaagtcacact-ggtagcttaaaaaca--taaaatgagagaacatttacactatggaaatcagtaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55770343 76 -  71252344 ttatgctcacagtgaagtcacgct-ggtagcttaaaaaca--taaaatgagagaacatttacattatggaaatcagtaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       73957 76 -   3089952 ttctgctcacagtgaagtcacact-ggtagcttaaaaaca--taaaatgagagaaaatttacactatggaaatcagtaa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13274272 76 -  42888418 ttctgctcacagtgaagtcacact-ggtagcttaaaaaca--taaaatgagagaacatttacactacggaaatcagtaa
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14972713 73 +  74389097 ctctgccca----gtggtcacaatggtcacattaaagccagctgcaatgacag--catttacaacatggaactcaagaa
i canFam3.chr11            C 0 I 812
e micMur3.chr12             60605039 4551 + 108143057 I
e proCoq1.NW_012155062v1     3640737 4154 +  11683526 I
e otoGar3.GL873679           3130166 2202 +   4132165 I
e dasNov3.JH567306           2694515 4178 +   3667625 I
e mm10.chr18                55568913 1057 +  90702639 I

a score=2330660.000000
s hg38.chr5_KI270796v1_alt    147812 256 +    172708 GTA--ctctctctctctct----ctctTTTCATATGTGTGTGTATATATATAAATACACATagttgaccctttaataacatggatttgaatcatgcatgtccacttatatgtggatttttttttcagtaaatatattggaacattttttggagatttgcaacaatttgaaacaacttacaaatgaattgtgtatcctagaaatatc-aaaa-attaagaaggtaggtatat-catgagtgcataaaatatatataggcatttttc
s panTro5.chr5             125251104 253 + 181907262 gca--ctCTCTCTCTCTCT----CTCTT--CATATGTGTGTGTATATATATAAATACACATagttgaccctttactaacatggatttgaattatgcctgtccacttatatgtggatttttttt-cagtaaatatattggaacattttttggagatttgcaacaatttgaaacaacttacaaatgaattgtgtatcctagaaatatc-aaaa-attaagaaggtaggtatat-catgagtgcataaaatatatgtaggcatttttc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126587832 248 + 183735486 GCA--ctctctctctctct----ctctT--CATATGTGTGTGTATATATATAAATACACATagttgaccctttactaacatggatttgaattatgcctgtccacttatatgtggatttttttt-cagtaaatatattggaacattttttggagatttgcaacaatttgaaacaacttacaaatgaattgtgtatcccagaaatatc-aaaa-attaagaaggtaggt------atgagtgcataaaatatatgtaggcatttttc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1779576 251 +   8933513 GTA--CTGTCTCTCTCTCT----CTT----CATATGTGTGTGTATATATATAAATATACATagttgaccctttaataacatggatttgaattatgcctgtccacttatatgtggatttttttt-cagtaaatatattggaacattttttggagatttgcaacaatttgaaacaacttacaaatgaattgtgtatcctagaaatacc-aaaa-attaagaaggtaggtatat-catgagtgcataaaatatatgtaggcatttttc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139914020 251 + 163208435 GTA--CTCTCTCTCTCTCT----TTT----CATATGTGTGTGTATATATATAAATACACATagttgacccttcaataacatggatttgaattatgcatgtccacttatacgtggatttttttc-cagtaaatatattggaacatttttgggagatttgcaacaatttgaaaaaactttcaaatgaattgtgtagcctagaaatatc-aaaa-attaagaaggtaggtatat-catgagtgcataaaatatatgtaggcatttttc
i nomLeu3.chr2             C 0 I 5
s rheMac8.chr6             122898811 252 + 180051392 gta--ctCTCTCTCTCTCT----TTT----CATATGTGTGTGTATATATATAAGTACACATagttgacccttcaataacatggatttgaattatgcaagtccacttatatgtggatttttttt-cagtaaatatattggaacattttttggagatttgcaacaatttgaaaaaacttacaaatgaattgtgtagcctagaaatatcaaaaa-attaagaaggtaggtatat-catgagtgcataaaatatatgtaggcatttttc
i rheMac8.chr6             C 0 I 5
s macFas5.chr6             124322431 252 + 181584905 gta--ctCTCTCTCTCTCT----TTT----CATATGTGTGTGTATATATATAAGTACACATagttgacccttcaataacatggatttgaattatgcaagtccacttatatgtggatttttttt-cagtaaatatattggaacattttttggagatttgcaacaatttgaaaaaacttacaaatgaattgtgtagcctagaaatatcaaaaa-attaagaaggtaggtatat-catgagtgcataaaatatatgtaggcatttttc
i macFas5.chr6             C 0 I 5
s macNem1.NW_012012355v1    16321080 252 +  18395747 gta--ctCTCTCTCTCTCT----TTT----CATATGTGTGTGTATATATATAAGTACACATagttgacccttcaataacatggatttgaattatgcaagtccacttatatgtggatttttttt-cagtaaatatattggaacattttttggagatttgcaacaatttgaaaaaacttacaaatgaattgtgtagcctagaaatatcaaaaa-attaagaaggtaggtatat-catgagtgcataaaatatatgtaggcatttttc
i macNem1.NW_012012355v1   C 0 I 5
s cerAty1.NW_012002512v1     5333491 256 +  26952557 gta--ctCTCTCTCTCTCTCTCCTTT----CATATGTGTGTGTATATATATAAGTACACAGagttgacccttcaataacatggatttgaattatgcaagtccacttatatgtggatttttttt-cagtaaatatattggaacattttttggagatttgcaacaatttgaaaaaacttacaaatgaattgtgtagcctagaaatatcaaaaa-attaagaaggtaggtatat-catgagtacataaaatatatgtaggcatttttc
i cerAty1.NW_012002512v1   C 0 I 5
s chlSab2.chr23             28433818 256 +  82825804 gta--ctCTCTCTCTCTCTCTCTTTT----CATGTGTGTGTGTATATATATAAGTACACATagctgacccttcaataacatggatttgaattatgcaagtccacttatatgtggatttttttt-cagtaaatatattggaacactttttggagatttgcaacaatttgaaaaaacttacaaatgaattgtgtagcctagaaatatcaaaaa-attaagaaagtaggtatat-catgagtgcataaaatatatgtaggcatttttc
i chlSab2.chr23            C 0 I 309
s manLeu1.NW_012103321v1     4103680 257 -   4237731 gtactctctctctctctctctctTTT----CATATGTGTGTGTATATATATAAGTACACAAagttgacccttcaataacatggatttgaattatgcaagtccacttatatgtggatttttttt-cagtaaatatattggaac-tttttttgagatttgcaacaatttgaaaaaacttacaaatgaattgtgtagcctagaaatatcaaaaa-attaagaaggtaggtatat-catgagtacataaaatatatgtaggcatttttc
i manLeu1.NW_012103321v1   C 0 I 5
s colAng1.NW_012119644v1      372228 253 -   1175262 gta--ctCTCTCTCTCTCT----TTT----CATATGTGTGTGTATATATACAAGTACACATagttgacccttcaataacatggatttgaattatgcaagtccacttatatgtggatttttttt-cagtaaatatattggaacattttttggaaatttgcaacaatttgaaaaaacttacaaatgaattgtgtagcctagaaatatcaaaaa-aataagaaggtaggtatatccatgagtgcataaaatatatgtaggcatttttc
i colAng1.NW_012119644v1   C 0 I 5
s calJac3.chr2             123726858 248 - 204313951 GTA--ATCTATTTCTCTCT------T----CAAATCTATGTGTATATATATAAATATAC-TTACtgatctttcaataacatggatttgaattatgcaaatctacttatatgtggaa-ttttct-cagtaaatatactggaacattttttggagatttgcagcaattcgaaaaaccttgcaaattaattgtgtagcctagaaatatcagaaa-attaagaaggtaggtatat-catgggtgcataaaatatatgtagacatttttc
i calJac3.chr2             C 0 I 7
s saiBol1.JH378106          55770419 251 -  71252344 GTA--ATCTCTTTCTCTCC------T----CAAATGTATGTGTATGTATATAAATGCACATCAttgacctttcaataacgtggatttgaattatgcaagtccacttatatgtggaattttttt-cagtaaatatactggaacattttttggagatttgcaggaatttgaaaaaccttgcaaattaattgtgtagcctagaaatataaaaaatgttaagaaggtaggtatat-catgggtggataaaatatatgtagacacttttc
i saiBol1.JH378106         C 0 I 5
s cebCap1.NW_016107590v1       74033 247 -   3089952 GTA--AGCTCTTTCTCTCT------T----CAAATGTTTGTGTA--TATACAAATGCACATTAttggcctttcaataacatggatttgaattatgcaagtccacttatatgtggag-tttttt-cagtaaatatactggaacattttttgcagatttgcagcagtttgaaaaaccttgcaaattaattgtgtagcctagaaatatcaaaaa-attaagaaggtagttatat-catgggtggataaaatatatgtagacatttttc
i cebCap1.NW_016107590v1   C 0 I 5
s aotNan1.NW_018505940v1    13274348 249 -  42888418 GTA--ATCTCTTTCTCTCT------T----CAAATGTATGTGTATATATATAAATACACATagttgacctttcaataacatggatttgaattatgcaagtccacttacatgtggaa-ttttct-cagtaaatatactggaacattttttggagatttgcagcaatttgaaaaaccttgcaaattaattgtgtagcctagaaatatcaaaaa-attaagaaggtaggtatac-gatgggtggataaaatatatgtagacatttttt
i aotNan1.NW_018505940v1   C 0 I 6
e micMur3.chr12             60605039 4551 + 108143057 I
e canFam3.chr11             14972786 812 +  74389097 I
e proCoq1.NW_012155062v1     3640737 4154 +  11683526 I
e otoGar3.GL873679           3130166 2202 +   4132165 I
e dasNov3.JH567306           2694515 4178 +   3667625 I
e mm10.chr18                55568913 1057 +  90702639 I

a score=3411538.000000
s hg38.chr5_KI270796v1_alt    148068 341 +    172708 tatcttttactatcataaaatatacacaaatctatttttaaaagttgcattttatcaagaattacacacacacagactttacctggtgctatttagtcaagagaaatgtaaacaaagataaagaggcactactgaattataactgcataaaattaactgtagtacatactgt-----actactgtaataattttgtagctatctcctggtgctattgtggagaactcaagtgttataatatctgcttaaaataccctgtaatgctaataatctccacatgagcagtttgtctctccggtaaattgcttattgcaataaaaagtgattctcgtggttctcacatatt
s panTro5.chr5             125251357 341 + 181907262 tatcttttactatcataaaatatacacaaatctattttaaaaagttgcattttatcaagaattacacacacacagactttacatggtgctatttagtcaagagaaatctaaacaaagataaagaggcactactgaattataactgcataaaattaactgtagtacatactgt-----actactgtaataattttgtagctatctcctggtgctattgtggagaactcaagtgttataatatctgcttaaaataccctgtaatgctaatgatctccacatgagcagtttgtctctctggtaaattgcttattgcaataaaaagtgattctcgtggttctcacatatt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126588080 341 + 183735486 tatcttttactatcataaaatatacacaaatctattttaaaaagttgcattttatcaagaattacacacacccagactttacatggtgctatttagtcaagagaaatctaaacaaagataaagaggcactactgaattataactgcataaaattaactgtagtacatactgt-----actactgtaataattttgtagctatctcctggtgctattgtggagaactcaagtgttataatatctgcttaaaataccctgtaatgctaatgatctccacatgagcagtttgtctctctggtaaattgcttattgcaataaaaagtgattctcgtggttctcacatatt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1779827 341 +   8933513 tatcttttactatcataaaatatacacaaatctattttaaaaagttgcattttatcaagaattacacacacacagactttacatggtgctatttagtcaagagaaatgtaaacaaagataaagaggcactactgaattataactgcataaaattaactgtagtgcatactgt-----actactgtaataattttgtagctatctcctggtgctattgtggagaactcaagtgttataatatctgcttaaaataccctgtaatgctaacgatctccacatgagcagtttgtctctccggaaaattgcttattgcaataaaaagtgattctcgtggttctcacatatt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139914276 341 + 163208435 tatcttttactatcataaaatatacacaaatctatttttaaaagttgcattttatcaagaattacacacacacagactttacatggtgctatttagtcaagggaaatgtaaacaaagataaagaggcactactgaattataactgcataaaattaactgtagtacatactgt-----actactgtaataattttgtagccatctcctggtgctattgcggagacctcaagtgttacaatatctgcttaaaataccttgtaatgctaatgatctccacatgagcagtttgtctctccagtaaattgcttattgcaataaaaagtgattctcgtggttctcacatatt
i nomLeu3.chr2             I 5 C 0
s rheMac8.chr6             122899068 341 + 180051392 tatcttttactatcataaaatacacacaaatctattttaaaaagttgcattttatcaagagttaccctcacaaagactttacatggtgccatttagtcaagagaaatgtaaacaaagataaagaggcagtactgaaatataactgcataaaattaactgtagtacatactgt-----actactgtaataattttgtagccatctcctgatgctattgtggagaactcaagtgttacaatatctacttaaaataccctgtaatgctaatgatctccgcatgagaagtttgtctctccagtaaattgcttattgcaataaaaagtgattcttgtggttctcacatatt
i rheMac8.chr6             I 5 C 0
s macFas5.chr6             124322688 341 + 181584905 tatcttttactatcataaaatacacacaaatctattttaaaaagttgcattttatcaagagttaccctcacaaagactttacatggtgccatttagtcaagagaaatgtaaacaaagataaagaggcagtactgaaatataactgcataaaattaactgtagtacatactgt-----actactgtaataattttgtagccatctcctgatgctattgtggagaactcaagtgttacaatatctacttaaaataccctgtaatgctaatgatctccgcatgagaagtttgtctctccagtaaattgcttattgcaataaaaagtgattcttgtggttctcacatatt
i macFas5.chr6             I 5 C 0
s macNem1.NW_012012355v1    16321337 341 +  18395747 tatcttttactatcataaaatacacacaaatctattttaaaaagttgcattttatcaagagttaccctcacaaagactttacatggtgccatttagtcaagagaaatgtaaacaaagataaagaggcagtactgaaatataactgcataaaattaactgtagtacatactgt-----actactgtaataattttgtagccatctcctgatgctattgtggagaactcaagtgttacaatatctacttaaaataccctgtaatgctaatgatctccgcatgagaagtttgtctctccagtaaattgcttattgcaataaaaagtgattcttgtggttctcacatatt
i macNem1.NW_012012355v1   I 5 C 0
s cerAty1.NW_012002512v1     5333752 341 +  26952557 tatcttttactatcataaaatacacacaaatctattttaaaaagttgcattttatcaagagttaccctcacaaagactttacatggtgccatttagtcaagagaaatgtaaacaaagataaagaggcagtactgaattataactgcataaaattaactgtagtacatactgt-----actactgtaataattttgtagccatctcctgatgctattgtggagaactcaagtgttacaatatctacttaaaataccctgtaatgctaatgatctccgcatgagaagtttgtctctccagtaaattgcttattgcaataaaaagtgattcttgtggttctcacatatt
i cerAty1.NW_012002512v1   I 5 C 0
s chlSab2.chr23             28434383 337 +  82825804 tatcttttactatcataaaatacacacaaatctattttaaaaagttgcattttatcaagagttaccctcacaaagactttacgtggtgccatttagtcaagagaaatgtaaacaaagataaagaggcagtactgaattataactgcataaaattaactgtagtacatactgt-----actactataa----tttgtagccatctcctgatgctattgtggagaactcaagtgttacaatatctacttaaaataccctgtaatgctaatgatctccgcatgagaagtttgtctctccagtaaattgcttattgcaataaaaagtgattcttgtggttctcacatatt
i chlSab2.chr23            I 309 C 0
s manLeu1.NW_012103321v1     4103942 341 -   4237731 tatcttttactatcataaaatacacacaaatctattttaaaaagttgcattttatcaagagttaccctcacaaagactttacatagtgccatttagtcaagagaaatgtaaacaaagataaagaggcagtactgaattataactgcataaaattaactgtagtacatactgt-----actactgtaataattttgtagccatctcctgatgctattgtggagaactcaagtgttacaatatctacttaaaataccctgtaatgctaatgatctccgcatgagaagtttgtctctccagtaaattgcttattgcaataaaaagtgattcttgtggttctcacatatt
i manLeu1.NW_012103321v1   I 5 C 0
s colAng1.NW_012119644v1      372486 341 -   1175262 tatcttttactatcataaaatatacacaaatctattttaaaaagttgcattttatcaagagttacccacacacagactttacatggtgccatttagtcaagagacatgtaaacaaagataaagaggcagtactgaattataactgcataaaattaactgtagtacatactgt-----actacggtaataattttgtagccatctcctgatgctattgtggagaactcaagtgttataatatgtacttaaaataccctataatgctaatgatctccgcatgagcagtttgtctctccagtaaattgcttattgcaataaaaagtgattctcgtggttctcacatatt
i colAng1.NW_012119644v1   I 5 C 0
s calJac3.chr2             123727113 341 - 204313951 tatcttttactaccataaaatatacacaaatctatttttaaaagttgcattttatcaggtattatgcacacacagactttacatggtgtcatttagtcaagagaaatgtaaacaaagataaagaggcaccgttgaattataactgcataaaattaactgtagtacatactgt-----actactgtaataattttgtagctgtctcctgttgctgttgtggagagctcaagtgttgcaatatctgcttaaaatactctgtaatgctaataatctctgcatgagcagtttgtctctccagtaaaatgcttattgcaattagaagtgattctcgtggttctcacatatt
i calJac3.chr2             I 7 C 0
s saiBol1.JH378106          55770675 344 -  71252344 tatcttttactgccataaaatatatacaaatctatttttaaaagttgcattttatcaggtattatgcacacacagactttacatggtgtcatttaggcaagagaaatgtaagcaaagataaagaggcaccactgaattataactgcataaaattaactgtagtacatactgtaactgactactgtaataattttgtagctgtctcctgttgctgttgtggagagctcaggtgttgcaatatctgcttaaaatactc--taatgctaataatctctgcatgagcagtttgtctctccagtaaaatgcttattgcaattagaagtgattctcgtggttctcacatatt
i saiBol1.JH378106         I 5 C 0
s cebCap1.NW_016107590v1       74285 339 -   3089952 tat-ttttactaccataaaatatacacaaatctatttttaaaagttgcattttatcaggtattatgcacacacagactttacatggtgtcatttagtcaggagaaatgtaaacaaagataaagaggcaccattgaattataactgcataaaattaactgtagtacatactgt-----actactgtaataattttgtagctgtctcctgttgctgttgtggagagctcaagtgttgcaatatcttcttaaaatactctgtaatgctagtaatctctgcatgagcag-ttgtctctccagtaaaatgcttcttgcaattagaagtgattctcgtggttcgcacatatt
i cebCap1.NW_016107590v1   I 5 I 2577
s aotNan1.NW_018505940v1    13274603 338 -  42888418 tatcttttactaccataaaatatactcaaatctatttttaaaagttgcattttatcagggattatgcacacacagactttacatggtgtcatttagtcaagagaaatgt---taaagataaagaggcactattgaattataactgcataaaattaactgtagtacatactgt-----actactgtaataattttgtagctgtctcctgttgctgttgtggagagctcaagtgttgtaatatctgcttaaaatactctgtaatgctaataatctctacatgagcagtttgtctctcaagtaaaatgcttattgcaattagaagtgattctcgtggttctcagatatt
i aotNan1.NW_018505940v1   I 6 C 0
e micMur3.chr12             60605039 4551 + 108143057 I
e canFam3.chr11             14972786 812 +  74389097 I
e proCoq1.NW_012155062v1     3640737 4154 +  11683526 I
e otoGar3.GL873679           3130166 2202 +   4132165 I
e dasNov3.JH567306           2694515 4178 +   3667625 I
e mm10.chr18                55568913 1057 +  90702639 I

a score=6399495.000000
s hg38.chr5_KI270796v1_alt    148409 765 +    172708 tttcactgtatttagtgcaatactgtaaaccttaaataacaccataggacccacatggagtgccactagtgttgctgaaagtgctcccaagaagcagagaagagtcatgacattacaataaaaaagttgaattgcttgataatgcaccacagattgagatctatagctgtgattgcccactatttcaagataaatgcacccagcatatgggccactgtaaaaacagaa------aaggaaattcatgaagtcgccattgcatccataccaccatataggaaaacttttgc-accttttgtgaaatatcattttatctcataatgacaatgcagcttttatgtgggtacaggaatgctataagaaaggc--atatatatagactccaatattatgt--g-aaaaaagcaaagtcattatatgacaacttaaagcaaaaggaaggagaagaatctaaagctagagaatttaatgccagcaaaggatggtttg--ataattttagaaagaggtttgtcttaagtaatgttaagataac--aaggaaagaagcttctgccaaccaagaggctgcagacaaatttttagacaccactaggaaaatcattaaggagaaaggatatctgcccgaaca-ggtttttaacacagacaggagtgttctattttg----g-aaagaaagtgccacaaaatacatttatttttaagaaaaaaaa--tcaagcatcaagatttaa-gcaggaagggataggctaactatactcttcggtgtaaatacggttggctttattatc
s panTro5.chr5             125251698 752 + 181907262 tttcactgtatttagtgcaatactgtaaaccttaaataacaccataggacccatatggagtgccactagtgttgctgaaagtgctcccaagaagcagagaagagtcatgacattacaataaaaa-gttgaattgcttgataatgcaccatagattgagatctatagctgtgattgcccactatttca-----------cccagcgtatgggccactgtaaaaacagaa------aaggaaattcatgaagttgccattgcatccataccaccatataggaaaacttt-gc-accttttgtgaaatatcattttatctcataatgacaatgcagcttttatgtgggtacaggaatgctataagaaaggc--atatatatagactccaatatgatgt--g-aaaaaagcaaagtcattatatgacaacttaaagcaaaaggaaggagaagaatctaaagctagagaatttaatgccagcaaaggatggtttg--ataattttagaaagaggtctgtcttaagtaatgttaagataac--aagaaaagaagcttctgccaaccaagaggctgcagacaaatttttagacaccactaggaaaatcattaaggagaaaggatatctgcccgaaca-ggtttttaacacagacaggagtgttctattttg----g-aaagaaagtgccacaaaatacatttatttttaagaaaaaaaa--tcaagcatcaagatttaa-gcaggaagggataggctaactatactcttcggtgtaaacacggttggctttattatc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126588421 751 + 183735486 tttcactgtatttagtgcaatactgtaaaccttaaataacaccataggacccatatggagtgccactagtgttgctgaaagtgctcccaagaagcagagaagagtcatgacattacaataaaaa-gttgaattgcttgataatgcaccatagattgagatctatagctgtgattgcccactatttca-----------cccagcgtatgggccactgtaaaaacagaa------aaggaaattcatgaagttgccattgcatccataccaccatataggaaaacttt-gc-accttttgtgaaatatcattttatctcataatgacaatgcagcttttatgtgggtacaggaatgctataagaaaggc--atatatatagactccaatatgatgt--g-aaaaaagcaaagtcattatatgacaacttaaagcaaaaggaaggagaagaatctaaagctagagaatttaatgccagcaaaggatggtttg--ataattttagaaagaggtctgtcttaagtaatgttaagataac--aagaaaagaagcttctgccaaccaagaggctgcagacaaatttttagacaccactaggaaaatcattaaggagaaaggatatctgcccgaaca-ggtttttaacacagacaggagtgttctattttg----g-aaagaaagtgccacaaaatacatttatttttaag-aaaaaaa--tcaagcatcacgatttaa-gcaggaagggataggctaactatactcttcggtgtaaacacggttggctttattatc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1780168 764 +   8933513 tttcactgtatttagtgcaatactgtaaaccttaaataacaccataggacccatatggagtgccactagtgttgctgaaagtgctcccaagaagcagagaagagtcatgacattacaataaaaaagttgaattgcttgataatgcaccacggattgagatctatagctgtgattgcccactatttcaagataaatgcacccagcatatgggccactgtaaaaacagaa------aaggaaattcatgaagttgccattgcatccataccaccatataggaaaacttt-gc-accttttgcgaaatatcattttatctcataatgacaatgcagcttttatgtgggtacaggaatgctataagaaaggc--atatacatagattccaatatgatgt--g-aaaaaagcaaagtcattatatgacaacttaaagcaaaaggaaggagaagaatctaaagctagagaatttaatgccagcaaaggatggtttg--ataattttagaaagaggtttgtcttaagtaatgttaagataac--aagaaaagaagcttctgccaaccaagaggctgcagacaaatttttagacaccactaggaaaatcattaaggagaaaggatatctgcccgaaca-ggtttttaacacagacaggagtgttctattttg----g-aaagaaagtgccacaaaatacatttatttttaagaaaaaaaa--tcaagcatcaagatttaa-gcaggaagggataggctaactatactcttcggtgtaaatacggtgggctttattatc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139914617 768 + 163208435 tttcattgtatttagtgcaatactataaaccttaaataacaccataggacccatatggagtgccactagtgttgctgaaagtgctcccaagaagcagagaagagtcatgacattaaaagaaaaaagttgaattgcttgac-atgcaccacagattgagatctgtagctgtgattgcccactatttcaagataaatgcacccagcatacgggccactgtaaaaaggaaattcacgatggaaattcatgaagttgccattgcatccataccaccatacaggaaaacttt-gc-accttttgtgaaatatcattttatctcataatgacaatgcagcttttatgtgggtacaagaatgctgtaagaaaggcatatatatatagactctaacatgatgt--gaaaaaaagcaatgtcattatatggcgacttaaagcgaaaggaaggagaagaatctaaagctagagaatttaatgccagcaaagaatggtttg--ataattttagaaagaggtttgtcttaagtaatgtcaagataac--aagaaaagaagcttctg----ccaagaggctgcagacaaatttttagacaccactaggaaaatcagtaaggagaaaggatatctgccctaaca-ggtttttaacacagacaggagtgttctattttg----g-aaaaaaagtgccacaaaatacatttatttttaagaaaaaaaa--tcaagcatcaagatttaa-gcaggaagggataggctaactatactcttcggtgtaaatacagttggctttattatc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122899409 763 + 180051392 tttcactgtatttagtgtaatactgtaaaccttaaataacaccatagtacccatacggagtgccactagtgttgcggaaagtgctcctaagtagcagagaaaagtcatgacattacaagaaaaaagttgaattacttgat-atgcaccacagattgagatctgtagctgtgattgctcactatttcaagataaatgcaaccagcatatcggccactgtaaaaacagaa------aaggaaattcatgaagttgccattgcatccataccaccatacaggaaaacttt-gt-accttttgtgaaatatcattttatctcatagcgaaaatgcagcttttatgtgggtacaggaatcctataagaaaggc--atatatatagactctaat---atgt--g-aaaaaagcaaagtcattatatgacaacttaaagcaaaaggaaggagaagaatctaaagctagagaatttaatgccagcaaaggatagtttg--ataattttagaaagaggtttgtcttaagcaatgtcaagataac--aagaaaagaagcttctgccaaccgagaggctacagacaaatttttagacaccattaggaaaatcattaaggagaaaggatatcttcccgaaca-ggtttttaacacagacaggagtgttctattttg-aaaa-aaaaaaagtgccacaaaatacattccttattaag-aaaaaaa--tcaagcatcaggatttaaggcaggaagggttaggctaattatactctttggtgtaaatacagttggctttattatc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124323029 764 + 181584905 tttcactgtatttagtgtaatactgtaaaccttaaataacaccatagtacccatatggagtgccactagtgttgcggaaagtgctcctaagtagcagagaaaagtcatgacattacaagaaaaaagttgaattacttgat-atgcaccacagattgagatctgtagctgtgattgctcactatttcaagataaatgcaaccagcatatcggccactgtaaaaacagaa------aaggaaattcatgaagttgccattgcatccataccaccatacaggaaaacttt-gt-accttttgtgaaatatcattttatctcatagcgaaaatgcagcttttatgtgggtacaggaatcctataagaaaggc--atatatatagactctaat---atgt--g-aaaaaagcaaagtcattatatgacaacttaaagcaaaaggaaggagaagaatctaaagctagagaatttaatgccagcaaaggatagtttg--ataattttagaaagaggtttgtcttaagcaatgtcaagataac--aagaaaagaagcttctgccaaccgagaggctacagacaaatttttagacaccattaggaaaatcattaaggagaaaggatatcttcccgaaca-ggtttttaacacagacaggagtgttctattttgaaaaa-aaaaaaagtgccacaaaatacattccttattaag-aaaaaaa--tcaagcatcaggatttaaggcaggaagggttaggctaattatactctttggtgtaaatacagttggctttattatc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16321678 762 +  18395747 tttcactgtatttagtgtaatactgtaaaccttaaataacaccatagtacccatatggagtgccactagtgttgcggaaagtgctcctaagtagcagagaaaagtcatgacattacaagaaaaaagttgaattacttgat-atgcaccacagattgagatctgtagctgtgattgctcactatttcaagataaatgcaaccagcatatcggccactgtaaaaacagaa------aaggaaattcatgaagttgccattgcatccataccaccatacaggaaaacttt-gt-accttttgtgaaatatcattttatctcatagcgaaaatgcagcttttatgtgggtacaggaatcctataagaaaggc--atatatatagactctaat---atgt--g-aaaaaagcaaagtcattatatgacaacttaaagcaaaaggaaggagaagaatctaaagctagagaatttaatgccagcaaaggatagtttg--ataattttagaaagaggtttgtcttaagcaatgtcaagataac--aagaaaagaagcttctgccaaccgagaggctacagacaaatttttagacaccattaggaaaatcattaaggagaaaggatatcttcccgaaca-ggtttttaacacagacaggagtgttctattttg--aaa-aaaaaaagtgccacaaaatacattccttattaag-aaaaaaa--tcaagcatcaggatttaaggcaggaagggttaggctaattatactctatggtgtaaatacagttggctttattatc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5334093 763 +  26952557 tttcactgtatttagtgtaatactgtaaaccttaaataacaccatagtacccatatggagtgccactagtgttgcggaaagtgctcctaagtagcagagaaaagtcatgacattacaagaaaaaagttgaattacttgat-atccaccacagattgagatctgtagctgtgattgctcactatttcaagataaatgcaaccagcatatcggccactgtaaaaacagaa------aaggaaattcatgaagttgccattgcatccataccaccatacaggaaaacttt-gt-accttttgtgaaatatcattttatctcatagcgaaaatgcagcttttatgtgagtacaggaatcctataagaaaggc--atatatatagactctaat---atgt--g-aaaaaagcaaagtcattatatgacaacttaaagcaaaaggaaggagaagaatctaaagctagagaatttaatgccagcaaaggatagtttg--ataattttagaaagtggtttgtcttaagcaatgttaagataac--aagaaaagaagcttctgccaacagagaggctacagacaaatttttagacaccattaggaaaatcattaaggagaaaggatatctacccaaaca-ggtttttaacacagacaggagtgttctattttg-aaaa-aaaaaaagtgccacaaaatacattccttattaag-aaaaaaa--tcaagcatcaggatttaaggcaggaagggttaggctaattatactctttggtgtaaatacagttggctttattatc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28434720 762 +  82825804 tttcactgtatttagtgtaatactgtaaaccttaaataacaccatagtacccatatggagtgccactagtgttgcggaaagtgctcctaagtagcagagaaaagtcatgacattacaagaaaaaagttgaattacttgat-atgcaccacagattgagatctgtagctgtgattgctcactatttcaagataaatgcaaccagcatatcggccactgtaaaaacagaa------aaggaaattcatgaagttgccattgcatccataccaccatacaggaaaacttt-gt-accttttgtgaaatatcattttatcttatagcgaaaatgcagcttttatgtgggtacaggaatcctataagaaaggc--atatatatagactctaat---atgt--g-aaaaaagcaaagtcattatatgacaacttaaagcaaaaggaaggagaagaatctaaagctagagaatttaatgccagcaaaggatagtttg--ataattttagaaagaggtttgtcttaagcaatgtcaagataac--aagaaaagaagcttctgccaactgagaggctacagacaaatttttagacaccattaggaaaatcattaaggagaaaggatatctgcccgaaca-ggtttttaacacagacaggagtgttctattttg--aaa-aaaaaaagtgccacaaaatacatttcttattaag-aaaaaaa--tcaagcatcaggatttaaggcaggaagggttaggctaattatactctttggtgtaaatacagttggctttattatc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4104283 764 -   4237731 tttcactgtatttagtgtaatactgtaaaccttaaataacaccatagtacccatatggagtgccactagtgttgcggaaagtgctcctaagtagcagagaaaagtcatgacattacaagaaaaaagttgaattacttgat-atgcaccacagattgagatctgtagctgtgattgctcactatttcaagataaatgcaaccagcatatcggccactgtaaaaacagaa------aaggaaattcatgaagttgccattgcatccataccaccatacaggaaaacttt-gt-accttttgtgaaatatcattttatctcatagcgaaaatgcagcttttatgtgagtacaggaatcctataagaaaggc--atatatatagactctaat---atgt--g-aaaaaagcaaagtcattatatgacaacttaaagcaaaaggaaggagaagaatctaaagctagagaatttaatgccagcaaaggatagtttg--ataattttagaaagaggtttgtcttaagcaatgtcaagataac--aagaaaagaagcttctgccaaccgagaggctacagacaaatttttagacaccattaggaaaatcattaaggagaaaggatatctacccaaaca-gatttttaacacagacaggagtgttctattttgaaaaa-aaaaaaagtgccacaaaatacattccttattaag-aaaaaaa--tcaagcatcaggatttaaggcaggaagggttaggctaattatactctttggtgtaaatacagttggctttattatc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      372827 764 -   1175262 tttcactgtatttagtgtaatactgtaaaccttaaataacaccatagtacccatatggagtgccactagtgttgctgaaagtgctcccaagtagcagagaaaagtcatgacattacaggaaaaaagttgaattacttgat-atgcactacagatcgagatctgtagctgtgattgctcactatttcaagataaatgcaaccagcatatcggccactgtaaaaacagaa------aaggaaattcgtgaagttgccattggatccatatcaccatacaggaaaatttt-gt-accttttgtgaaatatcattttatctcatagcgaaaatgcagcttttatttgggtacaggaatcctataagaaaggc--atatatatagactccaatatgatgt--g-aaaaaagcaaagtcattatatgacaacttaaagcaaaaggaaggagaagaatctaaagctagagaatttaatgccagcaaaggatagtttg--ataattttagaaaaaggtttgtcttaagcaatgtcaagataac--aagaaaagaagcttctgccaaccgagaggctacagacaaagttttagacaccattaggaaaatcattaaggagaaaggatatctgcccgaaca-ggtttttaacacagacaggagtgttctattttg---aa-aaaaaaagtgccacaaaatacatttattattaag-aaaaaac--tcaagcatcaggatttaaggcaggaagggttaggctaactatactctttggtgtaaatacagttggctttattatc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123727454 747 - 204313951 tttcactgtatttagtgcaatactgtaaatcttacataacaccataggacccatatggaatgccactaatgatgctgaaagtgctcccaagaagcagagagaagtcatgacattacgagaaaaaagttgaa----------atgcaccacagattgagatctgtagctgtgattgcccactatttcaagataaatgcatccagcata-gggccattgtaaaaacagag------aagaaaattcataaagttg----------cacaccagaatgcagaaaaacttt-gc-accttttgtgaaatatcatttaatttcatattacaaatgcagcttttatttgggtgcaggaatgctacacaaaaggc--atatgtgtagacgctaacatgatgcaaa-aaaaaagcaaagtaattatatgacaacttaaagcaaaaggaaggtgaagaatctaaagctagagaatttaatgccagcaaaggatggtttgatataattttagaaagaggtttgtcttaagcaatgtcaagataac--caaaaaagaagcttctgccaactaagaggctgcagacaaatttttagacaccattaagaaaatcactgaggagaaaggatatccacctgaacacgtgttttaacacaga----agtgctctattttg----gaaaaaaaagtgccacaaaatccatttattattaag-aaaaaaatctcaagcatcaggatttaaggcaggaagggataggctaactgtactatttggtgtcaacccagttggctttatgatc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55771019 757 -  71252344 tttcactgtatttagtgcagtactgtaaaccttacataacaccataggacccatatggagtgccactagtgatgctgaaagtgctctcaagaagcagagagaagttatggcattatgagaaaaaagttgaattgcttgat-atgcaccacagattgagatctgtagctgtgattgtccactatttcaagataaatgcatccagcatatgggccattgtaaaaacagaa------aagaaaattcatgaagttg----------cacaccagcatgcaggtaaacttc-gc-accgtttgtgaaatatcatttaatttcacattaaaaatgcagcttttatgtgggtgcaggaatgctata-aaaaagc--atatgtatagactctaatatgatgc--a-aaaaaagcaaagtaattgtatgacaacttaaagcaaaaggaaggtgaagaatctaaagttagagaatttaatgccagcaaaggatggtttg--atgattttagaaagaggtttgtcttaagcaatgtcaagatagcaaaaaaaaagaagcttctgccaactaagaggctgcagacaaatttttagacactattaagaaaatcactgaggagaaaggatatctccctgaacaggttgtttaatacagacaggagtgctctattttg----g-aaagaaagtgccacaaaatccatttattattaag-aaaaaaatatcaagcaccaggatttaaggcaggaagggataggctaactgtactatttggtgtcaacccagttggctttattatc
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13274941 757 -  42888418 tttcactgtatttagtgcaatactgtaaaccttacataacaccatacgacccatatggagtgccactagtgatgctgaaagtgctcccaagaagcagagagaagtcatgacattacgagaaaaaagttgaattgcttgat-atgcagcacaggttgagatctgtagctgtgatggcccgctatttcaagataagtgcatccagcatatgggccattgtaaaaacagaa------aagaaaattcatgaagttg----------cacaccaacatgcaggaaaacttt-gcaaccttttgtgaaatatcatttaatttcaaatttaaaatacactttttatgtgggtgcaggaatgctatacaaaaggc--atatgtatagactctaatatgatgt-ga-aaaaaagcaaagtaattatatgacaacttaaagcaaaaggaaggtgaaaaatctaaagctggagaatttaatgccaggaaaggatggtttg--ataattttagaaagagatttgtcttaagcaatgtcaagataac--aagaaaagaagcttctgccaactaagaggctggagacaaatttttagacaccattaagaaaatcactgaggagaaaggatatctgcctgaaca-gttttttaacacagacaggagtgctccattttg----g-aaaaaaagtgccacaaaatcaatttattattaag-aaaaaagtatcaagcaccaggatttaaggcaggaagggataggctaactgtactatttggtgtcaacccagttggctttattata
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60605039 4551 + 108143057 I
e canFam3.chr11             14972786 812 +  74389097 I
e proCoq1.NW_012155062v1     3640737 4154 +  11683526 I
e otoGar3.GL873679           3130166 2202 +   4132165 I
e cebCap1.NW_016107590v1       74624 2577 -   3089952 I
e dasNov3.JH567306           2694515 4178 +   3667625 I
e mm10.chr18                55568913 1057 +  90702639 I

a score=4596536.000000
s hg38.chr5_KI270796v1_alt    149174 508 +    172708 agaactgccctatttacaaagctgctaactcctgagttttgaagggaaagatgaacatcagatgccagtc-tttgattgtacaacaagaagtctgaacaatgagaatac-cttttctggatgggt--tgtg-ttgatgctttgtccctaatgtcaggaagcaccttgccagaaagggtctgtcttttaaagttcttctgata-ttgaacgatggccc--tggccatccagaacaccatgagttcaagac-taaaggtgttgaagtgctctatttacccccaaagacaatatctcaaatttagcccctagatcagggg---ccacggatttttaaggctcgttacacagggtacctatggaaagtattgtcaatgctatggaaaagaaccctgatag-aaaaaaaatcatgaaagtctggaagggttacaccactgaagatgccatcct-------tgttatagaaaaagccgtgaaagccatcaagcctgaaacaataaattcctgctggagaaaactgtatccagat
s panTro5.chr5             125252450 508 + 181907262 agaactgccctatttacaaagctgctaactcctgagttttgaagggaaagatgaacatcagatgccagtc-tttgattgtacaacaagaagtctgaacaatgagaatac-tttttctggatgggt--tgtg-ttgatgctttgtccctaatgtcaggaagcaccttgccagaaagggtctgtcttttaaagttcttctgata-ttgaacgatggccc--tggccatccagaacaccatgagttcaagac-taaaggtgttgaagtgctctatttacccccaaagacaatatctcaaatttagcccctagatcagggg---ccacggatttttaaggctcgttacacagggtacctatggaaagtattgtcaatgctatggaaaagaaccctgatag-aaaaaaaatcatgaaagtctggaaggattacaccattgaagatgccatcat-------tgttatagaaaaagccgtgaaagccatcaagcctgaaacaataaattcctgctggagaaaactgtatccagat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126589172 507 + 183735486 agaactgccctatttacaaagctgctaactcctgagttttgaagggaaagatgaacatcagatgccagtc-tttgattgtacaacaagaagtctgaacaatgagaatac-tttttctggatgggt--tgtg-ttgatgctttgtccctaatgtcaggaagcaccttgccagaaagggtctgtcttttaaagttcttctgata-ttgaacgatggccc--tggccatccagaaccccatgagttcaagac-taaaggtgttgaagggctctatttacccccaaagacaatatctcaaatttagcccctagatcagggg---ccacggatttttaaggctcgttacacagggtacctatggaaagtattgtcaatgctatggaaaagaaccctgatag--aaaaaaatcatgaaagtctggaaggattacaccattgaagatgccatcat-------tgttatagaaaaagccgtgaaagccatcaagcctgaaacaataaattcctgctggagaaaactgtatccagat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1780932 508 +   8933513 agaactgccctatttacaaagctgctaactcctgagttttgaagggaaagatgaacatcagatgccagtc-tttgactgtacaacaagaagtctgaacaatgagaatac-tttttctggatgggt--tgtg-ttgatgctttgtccgtaatgtcaggaagcaccttgccagaaagggtctgtcttttaaagttcttctgata-ttgaacgatggccc--tggccatccagaacaccatgagttcaagac-taaaggtgttgaagtgctctatttacccgcaaagacaatatctcaaatttagcccctagatcagggg---ccatggatttttaaggctcgttacacagggtacctatggaaagtattgtcaatgctatggaaaagaaccctgatag-aaaaaaaatcatgaaagtctggaaggattacaccattgaagatgccatcat-------tgttatagaaaaagccgtgaaagccatcaagcctgaaacaataagttcctgctggagaaaactgtatccagat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139915385 505 + 163208435 agaactgccctatttacaaagctgctaactcctgagttttgaagggaaagatgaacatcagatgccagtc-ttcgattgtacaacaagaaggctgaacaatgagaatac-tttttctggatgggt--tgcg-ttgatgctttgtccctaatgtcaggaagcaccttgccagaaagggtctgtcttttaaagttcttctgatg-ttgaacgatggccc--tggccatccagaacaccatgagttcaagac-taaagg---tgaagtgctctatttacctccagagacaatatctcaaatttagcctctagatcagggg---ccacggatttttaagcctcattacacagggtacctatggaaagtattgtcaatgctatggaaaagaaccctgacag-aaaaaaaatcatgaaaatctggaaggattacaccattgaagatgccatcat-------tgttatagaaaaagccatgaaatccatcaagcctgaaacaataaattcctgctggagaaaactgtatccagat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122900172 506 + 180051392 agaagtgccctatttacaaagtggctaactcctgagttttgaagggaaaggtgaacatcagatgccagt--tttgattgtacaacaagaaggctgaacaatgagaatac-tttttctggactggt--tgtg-ttgatgttttgtccctaatgtcaggaagcaccttgccagaaagggtctattttttaaagttcttctgata-ttgaacgatgcccc--ttgccatccagaacaccacgagttcaagac-taaaggtgctgaagtgctctatttacccccaaagacaatatctcaaatatagcctctagaccagggg---tcacggatttttaagcctcattacacagggtatctatgtaaggaattgtcagtgctatggaaaagagccctgatag-aaaaaaaatcatgaaactctggaaggattacatgattgaagaggccatcat-------tgttatagaaaaa-ccatgaaagccatcaagcctgaaacaataaattcctgctggagaaaactgtatccagat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124323793 506 + 181584905 agaagtgccctatttacaaagtggctaactcctgagttttgaagggaaaggtgaacatcagatgccagt--tttgattgtacaacaagaaggctgaacaatgagaatac-tttttctggactggt--tgtg-ttgatgttttgtccctaatgtcaggaagcaccttgccagaaagggtctattttttaaagttcttctgata-ttgaatgatgcccc--ttgccatccagaacaccacgagttcaagac-taaaggtgctgaagtgctctatttacccccaaagacaatatctcaaatatagcctctagaccagggg---tcacggatttttaagcctcattacacagggtatctatgtaaggaattgtcagtgctatggaaaagagccctgatag-aaaaaaaatcatgaaactctggaaggattacatgattgaagaggccatcat-------tgttatagaaaaa-ccatgaaagccatcaagcctgaaacaataaattcctgctggagaaaactgtatccagat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16322440 506 +  18395747 agaagtgccctatttacaaagtggctaactcctgagttttgaagggaaaggtgaacatcagatgccagt--tttgattgtacaacaagaaggctgaacaatgagaatac-tttttctggactggt--tgtg-ttgatgttttgtccctaatgtcaggaagcaccttgccagaaagggtctattttttaaagttcttctgata-ttgaatgatgcccc--ttgccatccagaacaccacgagttcaagac-taaaggtgctgaagtgctctatttacccccaaagacaatatctcaaatatagcctctagaccagggg---tcacggatttttaagcctcattacacagggtatctatgtaaggaattgtcagtgctatggaaaagagccctgatag-aaaaaaaatcatgaaactctggaaggattacatgattgaagaggccatcat-------tgttatagaaaaa-ccatgaaagccatcaagcctgaaacaataaattcctgctggagaaaactgtatccagat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5334856 507 +  26952557 agaagtgccctatttacaaagtggctaactcctgagttttgaagggaaaggtgaacatcagttgccagt--tttgattgtacaacaagaaggctgaacaatgagaatac-tttttctggactggt--tgtg-ttgatgctttgtccctaatgtcaggaagcaccttgccagaaagggtctattttttaaagttcttctgata-ttgaacgatgcccc--ttgccatccagaacaccacgagttcaagac-taaaggtgctgaagtgctctatttacccccaaagacaatatctcaaatatagcctctagaccagggg---tcatggatttttaagcctcattacacagggtatctatgtaaggaattgtcaatgctatggaaaagagccctgatagaaaaaaaaatcatgaaactctggaaggattacatgattgaagatgccatcat-------tgttatagaaaaa-ccatgaaaaccatcaagcctgaaacaataaattcctgctggagaaaactgtatccagat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28435482 506 +  82825804 agaagtgccctatttacaaagtggctaactcctgagttttgaaggaaaaggtgaacatcagatgccagt--tttgattgtacaacaagaaggctgaacaatgagaatac-tttttctggactggt--tgtg-ttgatgctttgtccctaatgtcaggaagcaccttgccagaaagggtctattttttaaagttcttctgata-ttgaacgatgcccc--ttgccatccagaacaccacgagttcaagac-taaaggtgctgaagtgctctatttacccccaaagacaacatctcaaatatagcctctagatcagggg---tcacggatttttaagcctcattacacagggtatctatgtaaggaattgtcaatgctatggaaaagagccctgatag-aaaaaaaatcatgaaactctggaaggattacatgattgaagatgccatcat-------tgttatagaaaaa-ccatgaaagccatcaagcctgaaacaataaattcctgctggagaaaactgtatccagat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4105047 507 -   4237731 agaagtgccctatttacaaagtggctaactcctgagttttgaagggaaaggtgaacatcagatgccagt--tttgattgtacaacaagaaggctgaacaatgagaatac-tttttctggactggt--tgtg-ttgatgttttgtccctaatgtcaggaagcaccttgccagaaagggtctattttttaaagttcttctgata-ttgaacgatgcccc--ttgccatccagaacaccacgagttcaagac-taaaggtgctgaagtgctctatttacccccaaagacaatatctcaaatatagcctctagaccagggg---tcatggatttttaagcctcattacacagggtatctatgtaaggaattgtcaatgctatggaaaagagccctgatagaaaaaaaaatcatgaaactctggaaggattacatgattgaagatgccatcat-------tgttatagaaaaa-ccatgaaagccatcaagcctgaaacaataaattcctgctagagaaaactgtatccagat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      373591 505 -   1175262 agaagtgccctatttacaaagtggctaactcctgagttttgaagggaaaggtgaacatcagaagccagtc-tttgattgtacaac---aaggctgaacaatgagcatacttttttctggactggt--tgtg-ttgatgctttgtccctaatgtcaggaagcaccttgccagaaagggtctattttttaaagttcttctgata-ttgaacgatgcccc--ttgccatccagaacaccatgagttcaagac-taaaggtgttgaagtgctctatttaccccaaaagacaatatctcaaatttagcctctagatcagggg---tcacggatttttaatgctcattacacagggtatctatggaaagtattgtcaatgctatggaaaagagccctgatag-aaaaaaaatcatgaaagtctggaaggattacacaattaaagatgccatcat-------tgttatagaaaaa-ccatgaaagccatcaagcctgaaacaataaattcctgctggagaaaactgtatccagat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123728201 509 - 204313951 agaactgccctatttataaagctgctaacccctgagttttaaagggaaagatgaacatcagatgccagtc-tttggttgtacaacaagaaggctgaacaatgagaatac-tttttctggactggttatgtg-ttgatgctttgtccctaatgtcaggaagtaccttgccagaaagggactgtcttttaaagttcttttgata-ttgaacaatgccct--tggccatccagaacaccaggagttcaagac-taaa-ctgttgaagtggtctatttccccctaaacacaatatctcaaatttagcctctagagcagggg---ccaatga-ttttaaggctcattacacagggtatctatggaaagtattgtcaatgctatggaaaagagctctgatagaaaaaaaaatcacgaaagcctggaaggattacatcattgaagatgccatcat-------tggtatagaaaaagccttgaaagccatcaagcctgaaacagtaaactccttctggataaaactgtatccagat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55771776 508 -  71252344 agaactgccctatttataaagctgccaacccctgagtttttaagggaaagatgaacatcagatgccagtc-ttaaactgtacaacaagaagactgaacaatgagaatac-tttttctggactggttgtgtg-ttgatgctttgtccctaatgtcaggaagtaccttgccagaaagagactgtcttttaaagttcttctgata-ctgaacaatgcccc--tggccatccagaacaccaggagttcacgac-taaa-ctgttgaagtggtctatttccccccaaacacaatatctcaaattgagcctctagatcagggg---ccactga-atttaaggcctgttacacagggtatctttggaaagtattgtcaatgctatggaaaagagctctgatag-aaaaaacatcacgaaagcccggaaggattataccattgaagatgccatcat-------tgttatagaaaaagccttgaaagccatcaagcctgaaacagcaaattcctgctggataaaactgtatccagat
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13275698 507 -  42888418 aaaactgccctatttataaagctgctaacccctgagtttttaagggaaagatgaacgtcagataccagtc-tttggttgtacaacaagaaggctgaacaatgagaatcc-tttttctggactggttgtgtg-ttgatgctttgtccctaatgtcaggaagtaccttgccagaaagggactgtcttttaaagttcttctgata-ttgaacaatgcccc---ggccatccagaacaccaggagttcaagac-taaa-ctgttcaagtggtctatttccccccaaacacaatacctcaaatttagcctctagatcagggg---ccactga-ttttaaggcttgttgcacagggtatctatggaaagtattatcaacgctatggaaaagagctctgatag-aaaatgaatcacgaaagcctggaaggattacaccattgaagatgccatcat-------tgttatagagaaagccttgaaagccatcaagcctgaaacagtaaatacctgctgaataaaactgtatacagat
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3132368 501 +   4132165 AAACTTGCCTTTTTCCCTCagttgctaa---ctgag-----gggggaaatatacacatcaccttccagtcttttgtttgtaca-----aggcctggacagtcagtaccc-tttttctggattggt--tttgatctatgctttgttccta--------aagtaacttgttcgtaaaggacttccttttaaagttcttttgctatttgaacaatgctcctctggcaacccacagcatcttgaattcaacacagaaaggtactaaggtggtctgcttacccc-aaacacaacatctttgattcagcctcaagatcggggaattataaggaccttt-aggctcatcacacatggaaatggaaaaaaacactgccagtgctatggaagggagtgccagtgg-aaggaacatcatgaaattctggaaatattacaccaaaaaagatactagtgtaccattatgttacagaaagaggcgtgacagccatcaagcctgaaatgataaattcctggtggagaaaactacgtccagaG
i otoGar3.GL873679         I 2202 I 270
e micMur3.chr12             60605039 4551 + 108143057 I
e canFam3.chr11             14972786 812 +  74389097 I
e proCoq1.NW_012155062v1     3640737 4154 +  11683526 I
e cebCap1.NW_016107590v1       74624 2577 -   3089952 I
e dasNov3.JH567306           2694515 4178 +   3667625 I
e mm10.chr18                55568913 1057 +  90702639 I

a score=1346073.000000
s hg38.chr5_KI270796v1_alt    149682 151 +    172708 gtagtgcatgacttcacaggatttatgacagagccagtgaagaaaatcatgaaagagatatggcaaaacaggtgagagatgaagggtttcaggctatggatcttggagaaatttaagatcaaatagacaccacacccaggggaatgaacag
s panTro5.chr5             125252958 151 + 181907262 gtagtgcatgacttcacaggatttatgacagagctagtgaagaaaatcatgaaagagatatggcaaaacaggtgagagatgaagggtttcaggctatggatcttggagaaatttaagatcaaatagacaccacacccaggggaatgaacag
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126589679 151 + 183735486 gtagtgcatgacttcacaggatttatgacagagctagtgaagaaaatcatgaaagagatatggcaaaacaggtgagagatgaagggtttcaggctatggatcttggagaaatttaagatcaaatagacaccacacccaggggaatgaacag
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1781440 151 +   8933513 gtagtgcatgacttcacaggatttatgacagagccagtgaagaaaatcatgaaagagatatggcaaaacaggtgagagatgaagggtttcaggctatggatcttggagaaatttaagatcaaatagacaccacacccaggggaatgaacag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139915890 151 + 163208435 gtagtgcatgacttcacaggatttatgacagggccaatgaagaaaatcatgaaagagatatggcaaaataggtgagagatgaagggttttaggctatggatcttggagaaatttaagatcaaatagacaccacactcaggggaatgaacag
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122900678 151 + 180051392 gtagcgcataacttcacaggatttatgacagagtcaatgaagaaaatcacgaaagagatatggcaaaacaggtgagagatgaatggtttcaagctatggatcttggagaaatttaagatcaaatagacaccatacccaggggaatgaacgg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124324299 151 + 181584905 gtagcgcatgacttcacaggatttatgacagagtcaatgaagaaaatcacgaaagagatatggcaaaacaggtgagagatgaatggtttcaagctatggatcttggagaaatttaagatcaaatagacaccatacccaggggaatgaacgg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16322946 149 +  18395747 gtagcgcatgacttcacaggatttatgac--agtcaatgaagaaaatcacgaaagagatatggcaaaacaggtgagagatgaatggtttcaagctatggatcttggagaaatttaagatcaaatagacaccatacccaggggaatgaacgg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5335363 151 +  26952557 gtagagcatgacttcacaggatttatgacagagtcaatgaagaaaatcacgaaagagatatggcaaaacaggtgagagatgaagggtttcaagctatggatcttggagaaatttaagatcgaatagacaccatacccaggggaatgaacgg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28435988 151 +  82825804 gtagcgcatgacttcacagaatttatgacagaatcaatgaagaaaatcacaaaagagatatggcaaaacaagtgagagatgaagggtttcaagctatggatcttggagaaatttaagatcgaatagacaccatacccaggggaatgaacgg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4105554 151 -   4237731 gtagagcatgacttcacaggatttatgacagagtcaatgaagaaaatcacgaaagagatatggcaaaacaggtgagagatgaagggtttcaagctatggatcttggagaaatttaagatcgaatagacaccatacccaggggaatgaacgg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      374096 151 -   1175262 gtagcgcatgacttcacaggatttatgacagagtcaatgaagaaaatcacgaaagagatatggcaaaacaggtgagagatgaagggtttcaaactatggatcttggagaaatttaagatcgaatagacaccacatccaggagaatgaacgg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123728710 151 - 204313951 gtagtgcatgacttcacaagatttatgacagagccaatgaagacaatcacaaaagagatatggcaaaacaggtgacagatgaagggtttcaagctatggatcttggagaaatttaagattgactagacactacacccagggaaattaacag
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55772284 150 -  71252344 gtagtgcatgacttcacaagatttatgacagagccaatgaagaaaatcacgaaagagatatggcaaaa-aggtgacagatgaagggtttcaagctatggatcttggagaaatttaagattgactagacactacgcccaagggaattaacag
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13276205 151 -  42888418 gtagtacatgacttcacaagatttatgacagagccaatgaagaaaatcatgaaagagatatggcaaaacaggtgacagatgaagggtttcaagctatggatcttggagaaatttaagattgactagacactacacccaggggaattaacag
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60605039 4551 + 108143057 I
e canFam3.chr11             14972786 812 +  74389097 I
e proCoq1.NW_012155062v1     3640737 4154 +  11683526 I
e otoGar3.GL873679           3132869 270 +   4132165 I
e cebCap1.NW_016107590v1       74624 2577 -   3089952 I
e dasNov3.JH567306           2694515 4178 +   3667625 I
e mm10.chr18                55568913 1057 +  90702639 I

a score=125553.000000
s hg38.chr5_KI270796v1_alt    149833 13 +    172708 aaagtggcttgaG
s panTro5.chr5             125253109 13 + 181907262 aaagtggctggaG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126589830 13 + 183735486 aaagtggctggaG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1781591 13 +   8933513 aaagtggcttgaG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139916041 13 + 163208435 aaagtggcttgaG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122900829 13 + 180051392 aaagtggcttgaG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124324450 13 + 181584905 aaagtggcttgaG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16323095 13 +  18395747 aaagtggcttgaG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5335514 13 +  26952557 aaagtggcttgaG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28436139 13 +  82825804 aaagtggcttgaG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4105705 13 -   4237731 aaagtggcttgaG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      374247 13 -   1175262 aaaatggcttgaG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123728861 13 - 204313951 aaagtggcttgag
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55772434 13 -  71252344 aaagtggcttcag
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13276356 13 -  42888418 aaagtggcttgag
i aotNan1.NW_018505940v1   C 0 I 1506
s canFam3.chr11             14973598 13 +  74389097 AAAGTGTTTCAAT
i canFam3.chr11            I 812 C 0
e micMur3.chr12             60605039 4551 + 108143057 I
e proCoq1.NW_012155062v1     3640737 4154 +  11683526 I
e otoGar3.GL873679           3132869 270 +   4132165 I
e cebCap1.NW_016107590v1       74624 2577 -   3089952 I
e dasNov3.JH567306           2694515 4178 +   3667625 I
e mm10.chr18                55568913 1057 +  90702639 I

a score=9406.000000
s hg38.chr5_KI270796v1_alt    149846 2 +    172708 TG-
s panTro5.chr5             125253122 2 + 181907262 TG-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126589843 2 + 183735486 TG-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1781604 2 +   8933513 TG-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139916054 2 + 163208435 TG-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122900842 2 + 180051392 TG-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124324463 2 + 181584905 TG-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16323108 2 +  18395747 TG-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5335527 2 +  26952557 TG-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28436152 2 +  82825804 TG-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4105718 2 -   4237731 TG-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      374260 2 -   1175262 TG-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123728874 1 - 204313951 -g-
i calJac3.chr2             C 0 I 2167
s saiBol1.JH378106          55772447 1 -  71252344 -g-
i saiBol1.JH378106         C 0 I 1517
s canFam3.chr11             14973611 2 +  74389097 -GG
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60605039 4551 + 108143057 I
e proCoq1.NW_012155062v1     3640737 4154 +  11683526 I
e otoGar3.GL873679           3132869 270 +   4132165 I
e aotNan1.NW_018505940v1    13276369 1506 -  42888418 I
e cebCap1.NW_016107590v1       74624 2577 -   3089952 I
e dasNov3.JH567306           2694515 4178 +   3667625 I
e mm10.chr18                55568913 1057 +  90702639 I

a score=10424.000000
s hg38.chr5_KI270796v1_alt    149848 1 +    172708 A
s panTro5.chr5             125253124 1 + 181907262 A
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126589845 1 + 183735486 A
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1781606 1 +   8933513 A
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139916056 1 + 163208435 A
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122900844 1 + 180051392 A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124324465 1 + 181584905 A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16323110 1 +  18395747 A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5335529 1 +  26952557 A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28436154 1 +  82825804 A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4105720 1 -   4237731 A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      374262 1 -   1175262 A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123731042 1 - 204313951 A
i calJac3.chr2             I 2167 C 0
s saiBol1.JH378106          55773965 1 -  71252344 A
i saiBol1.JH378106         I 1517 C 0
s cebCap1.NW_016107590v1       77201 1 -   3089952 A
i cebCap1.NW_016107590v1   I 2577 C 0
s aotNan1.NW_018505940v1    13277875 1 -  42888418 A
i aotNan1.NW_018505940v1   I 1506 C 0
s canFam3.chr11             14973613 1 +  74389097 G
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60605039 4551 + 108143057 I
e proCoq1.NW_012155062v1     3640737 4154 +  11683526 I
e otoGar3.GL873679           3132869 270 +   4132165 I
e dasNov3.JH567306           2694515 4178 +   3667625 I
e mm10.chr18                55568913 1057 +  90702639 I

a score=41010.000000
s hg38.chr5_KI270796v1_alt    149849 3 +    172708 CTT
s panTro5.chr5             125253125 3 + 181907262 CTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126589846 3 + 183735486 CTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1781607 3 +   8933513 CTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139916057 3 + 163208435 CTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122900845 3 + 180051392 CTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124324466 3 + 181584905 CTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16323111 3 +  18395747 CTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5335530 3 +  26952557 CTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28436155 3 +  82825804 CTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4105721 3 -   4237731 CTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      374263 3 -   1175262 CTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123731043 3 - 204313951 CTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55773966 3 -  71252344 CTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       77202 3 -   3089952 CTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13277876 3 -  42888418 CTT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3133139 3 +   4132165 CCT
i otoGar3.GL873679         I 270 C 0
s mm10.chr18                55569970 3 +  90702639 CCC
i mm10.chr18               I 1057 C 0
s canFam3.chr11             14973614 3 +  74389097 CAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2698693 3 +   3667625 CTC
i dasNov3.JH567306         I 4178 C 0
e micMur3.chr12             60605039 4551 + 108143057 I
e proCoq1.NW_012155062v1     3640737 4154 +  11683526 I

a score=13899.000000
s hg38.chr5_KI270796v1_alt    149852 1 +    172708 G
s panTro5.chr5             125253128 1 + 181907262 G
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126589849 1 + 183735486 G
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1781610 1 +   8933513 G
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139916060 1 + 163208435 G
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122900848 1 + 180051392 G
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124324469 1 + 181584905 G
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16323114 1 +  18395747 G
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5335533 1 +  26952557 G
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28436158 1 +  82825804 G
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4105724 1 -   4237731 G
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      374266 1 -   1175262 G
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123731046 1 - 204313951 G
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55773969 1 -  71252344 G
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       77205 1 -   3089952 G
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13277879 1 -  42888418 G
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3644891 1 +  11683526 G
i proCoq1.NW_012155062v1   I 4154 C 0
s otoGar3.GL873679           3133142 1 +   4132165 A
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55569973 1 +  90702639 A
i mm10.chr18               C 0 C 0
s canFam3.chr11             14973617 1 +  74389097 G
i canFam3.chr11            C 0 I 4
s dasNov3.JH567306           2698696 1 +   3667625 A
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60605039 4551 + 108143057 I

a score=1769473.000000
s hg38.chr5_KI270796v1_alt    149853 115 +    172708 AGAAAA-TTGTACTTTTCTAAG-AAAATCTTATCATTAAATGGCTGAAGAAGGAACCCATTTTTACTTATGGCATTGGAGCTTCCT-CTTTTCCTGACAGCTACAAGCCGAAGTATGT
s panTro5.chr5             125253129 115 + 181907262 AGAAAA-TTGTACTTTTCTAAG-AAAATCTTATCATTAAATGGCTGAAGAAGGAACCCATTTTTACTTGTGGCATTGGAGCTTCCT-CTTTTCCTGACAGCTGCAAGCCGAAGTATGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126589850 115 + 183735486 AGAAAA-TTGTACTTTTCTAAG-AAAATCTTATCATTAAATGGCTGAAGAAGGAACCCATTTTTACTTATGGCATTGGAGCTTCCT-CTTTTCCTGACAGCTGCAAGCCGAAGTATGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1781611 115 +   8933513 AGAAAA-TTGTACTTTTCTAAG-AAAATCTTATCATTAAATGGCTGAAGAAGGAACCCATTTTTACTTATGGCATTGGAGCTTCCT-CTTTTCCCGACAGCTGCAAGCCGAAGTGTGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139916061 116 + 163208435 AGAAAATTTGTAGTTTTCTAAG-AAAATCTTATCATTAAATGGCTGAAGAAGGTACCCATTTTTACTTATGGCATTGGAGCTTCCT-CTTTTCCTGACAGCTGCAAGCCGAAGTATGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122900849 112 + 180051392 AGAAAA-TTGTACTTTTCTAAG-AAAATCTT---ATTAAATGGCTGAAGAAGGTACCCATTTTTACTTATGGCATTGGAGGTTCCT-CTTTTCCTGACAGCTGCAAGCCAAAGCATGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124324470 112 + 181584905 AGAAAA-TTGTACTTTTCTAAG-AAAATCTT---ATTAAATGGCTGAAGAAGGTACCCATTTTTACTTATGGCATTGGAGGTTCCT-CTTTTCCTGACAGCTGCAAGCCAAAGCATGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16323115 112 +  18395747 AGAAAA-TTGTACTTTTCTAAG-AAAATCTT---ACTAAATGGCTGAAGAAGGTACCCATTTTTACTTATGGCATTGGAGGTTCCT-CTTTTCCTGACAGCTGCAAGCCAAAGCATGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5335534 112 +  26952557 AGAAAA-TTGTACTTTTCTAAG-AAAATCTT---ATTAAATGGTTGAAGAAGGTACCCATTTTTACTTATGGCATTGGAGGTTCCT-CTTTTCCTGACAGCTGCAAGCCAAAGCATGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28436159 115 +  82825804 AGAAAA-TTGTACTTTTCTAAG-AAAATCTTATCATTAAATGGCTGAAGAAGGTACCCATTTTTACTTATGGCATTGGAGGTTCCT-CTTTTCCTGACAGCTGCAAGCCAAAGCATGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4105725 112 -   4237731 AGAAAA-TTGTACTTTTCTAAG-AAAATCTT---ATTAAATGGCTGAAGAAGGTACCCATTTTTACTTATGGCATTGGAGGTTCCT-CTTTTCCTGACAGCTGCAAGCCAAAGCATGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      374267 114 -   1175262 AGAAAA-TTGTACTTTCCT-AG-AAAATCTTATCATTAAATGGCTGAAGAAGGTACCCATTTTTACTTATGGCATTGGAGGTTCCT-CTTTTCCTGACAGCTGCAAGCCAAAGCATGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123731047 115 - 204313951 AGAAAG-TTGAATTTTTCTAAG-AAAATCTTACCATTAAATGGCTGAAGAAGGTTTCCATTTCTACTTATGGCACTGGAGCTTCCT-CTTTTCCTGACAGCTGCAAGCCAAAGTATGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55773970 115 -  71252344 AGAAAG-TTGTACTTTCCTAAA-AAAATCTTACCATTAAATGGCTGAAGAAGGTGCCCATTTTTACTTATGGCACTGGAGAGTCCT-CTTTTCCTGACAGCTGCAAGCCACAGTATGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       77206 115 -   3089952 AGAAAG-TTGTACTTTTCTAAG-AAAATCTTACCATTAAATGGCTGAATAAGGTGCTCATTTTTACTTACGGCACTGGAGCTTCCT-CTTTTCCTGACAGCTGTAAGCCAAAGTACGT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13277880 115 -  42888418 AGAAAG-TTGTACTTTTCTAAG-AAAATCTTACCATTAAATGGCTGAAGAAGGTACCCATTTTTACTTATGGCACTGGAGCTTCCT-CTTTTCCTGACAGCTGCAAGCCAAAGTATGT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60609590 115 + 108143057 AGAAAA-CTGTTCTTTTCTAAG-AAAATCTTATCATTAAGTGGCTGGATGAGGTGCCCATTTTTACTGCTGGCACCAGAGGGTCCT-GTTTTCCTGACAGGTGCAAGCCAGCGCAGGT
i micMur3.chr12            I 4551 C 0
s proCoq1.NW_012155062v1     3644892 114 +  11683526 AGAAAA-TTTTACTTTTCTAAGAAAAATCTTATCATTAAGTGGCTGGATGAGGTCCCCATTTTTACTGCTGGCACCGGAGCTTCC---TCTTCCTGACAGCTGCAAGCCGAAGCAAGT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3133143 115 +   4132165 AGGAAG-TTGTACTTTTCTAAG-GAAATCTTTCTGTTAAGTGGCTGGATGAAGTGCCCATTTTTGCTGCTGGCACCAGAGCTTTTTCTTTTCCCTGACATCTG-AAGCTGAAGCAGGG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55569974 110 +  90702639 AGGAAC-TGGCCCCTTTCTTAG--AAATCTTATCTCTGCAGAGCTGAAGGAAATAGCCCTTCCCACT---GGTGCTGTAGCTCCC--CTTTTTCTGACAGCTGCAAGCCAAAACAAGA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14973622 107 +  74389097 AGGAAA-CTACACTTTTCTAAG-GAAATCCTATCATTAAGCAGCTGAAGGAGGAGCCCATTTTTACCACTGGC--------TTCCT-CTCTTCCTGACAGCTGCAAGCCAAAGCAAGT
i canFam3.chr11            I 4 C 0
s dasNov3.JH567306           2698697 109 +   3667625 AGAAAA-TTGTACTCTTCTAAA-GAAATCAT---ATTAAGTGGCTGAAGGAG---TCCATCTTTACTGCTGGCATGGAAGTCCCCT-CTTTTCCTGACAGCTGCAAGCCAAAAGAAGT
i dasNov3.JH567306         C 0 I 53

a score=4983927.000000
s hg38.chr5_KI270796v1_alt    149968 321 +    172708 GTCCCTCTGCAAGAGCAGATTTTCTTTTGCCTTTCTGTTCTGTTGAGC-TGTTCGTTTAATCTTGCAGGGGATCT-GACAGCTTTCTCTAGCTCC-ACAGC-----------ACTCACTGAGAAGCACCGAAAGA-GAGAAGAAAGAA-TGCTGATG-GCAGCTCCCATGAAGA-GATCTGTTATG------GGCTATGTGAGCAAAGTCTGCCTGTTTCCCAAGTGTCCAACACTCAGAATTTAGGACTAGAAGTAGCAATTCCAACACTC-TGTCTTTATGACAGTTTAGCTAATGAATGTAAGTGTTCAGCATAACCCA-TTTACTGGACAGTGGATGATTCAT
s panTro5.chr5             125253244 321 + 181907262 GTCCCTCTGCAAGAGCAGATTTTCTTTTGCCTTTCTGTTCTGTTGAGC-TGTTCGTTTAATCTTGCAGGGGATCT-GACAGCTTTCTCTAGCTCC-ACAGC-----------ACTCACTGAGAAGCATCGAAAGA-GAGAAGAAAGAA-TGCTGATG-GCAGCTCCCATGAAGA-GATCTGTTATG------GGCTATGTGAGCAAAGTCTGCCTGTTTCCCAAGTGTCCAACACTCAGAATTTAGGACTAGAAGTAGCAATTCCAACACTC-TGTCTTTATGACAGTTTAGCTAATGAATGTAAGTGTTCAGCATAACCCA-TTTACTGGACAGTGGATGATTCAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126589965 321 + 183735486 GTCCCTCTGCAAGAGCAGATTTTCTTTTGCCTTTCTGTTCTGTTGAGC-TGTTCGTTTAATCTTGCAGGGGATCT-GACAGCTTTCTCTAGCTCC-ACAGC-----------ACTCACTGAGAAGCACCGAAAGA-GAGAAGAAAGAA-TGCTGATG-GCAGCTCCCATGAAGA-GATCTGTTATG------GGCTATGTAAGCAAAGTCTGCCTGTTTCCCAAGTGTCCAACACTCAGAATTTAGGACTAGAAGTAGCAATTCCAACACTC-TGTCTTTATGACAGTTTAGCTAATGAATGTAAGTGTTCAGCATAACCCA-TTTACTGGACAGTGGATGATTCAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1781726 321 +   8933513 GTCCCTCTGCAAGAGCAGATTTTCTTTTGCCTTTCTGTTCTGTTGAGC-TATTCATTTAATCTTGCAGGGGATCT-GACAGCTTTCTCTAGCTCC-ACAGC-----------ACTCACTGAGAAGCACCGAAAGA-GAGAAGAAAGAA-TGCTGATG-GCAGCTCCCATGAAGA-GATCTGTTATG------GGCTATGTGAGCAAAGTCTGCCTGTTTCCCAAGTGTCCAACACTCAGAATTTAGGACTAGAAGTAGCAATTCCAACACTC-TGTCTTTATGGCAGTTTAGCTAATGAATGTAAGTGTTCAGCATAACCCA-TTTACTGGACAGTGGATGATTCAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139916177 322 + 163208435 GTCCCTCTGCAAGAGCATATTTTCTTTTGCCTTTCTGTTCTGTTGACC-TGTTCATTTAATCTTGCAGGGGATCT-GACAGCTTTCTGTAGCTCC-ACAGC-----------ACTCACTGAGAAGCACAGAAAGA-GAGAAGAAAGAA-TGCTGATG-GCAGCTCCCATGAAGA-GATCTGTTATG------GGCTATGTGAGCAAAGTCTGCCTGTTTCCCAAGTGTCCAACACTCAGAATTTAGGACTAGAAGTAGCAATTCCAACACTCTTGTCTTTATGACAGTTTAGCTAATGAATGTAAGTGTTCAGCATAACCCA-TTTACTGGACAGTGGATGATTCAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122900961 321 + 180051392 GTGCCTCTGCAAGAGCAGATTTTCTTTTGCCTTTCTGTTCTTTTGAGC-TGTTCATTTAATCTTGCAGGGGATCT-GACAGCTTTCTCTAGCTCC-ACAGC-----------ACTCACTGAGAAGCACAGAAAGA-GAGAAGAAAGAA-TGCTGATG-GCAGCTCCCATGAAGA-GATCTGTTATG------GGCTATGTGAGCAAAGTCTGCCTGTTTCCCAAGTGTCCAACGCTCAGAATTTAGGAATAGAAGTAGCAATTCCAACACTC-TGTCTTTATGACAGTTTAGCTAATGAATGTAAGTGTTCAGCATAACCCA-TTTACTGGACAGTGGATGATTCAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124324582 321 + 181584905 GTGCCTCTGCAAGAGCAGATTTTCTTTTGCCTTTCTGTTCTTTTGAGC-TGTTCATTTAATCTTGCAGGGGATCT-GACAGCTTTCTCTAGCTCC-ACAGC-----------ACTCACTGAGAAGCACAGAAAGA-GAGAAGAAAGAA-TGCTGATG-GCAGCTCCCATGAAGA-GATCTGTTATG------GGCTATGTGAGCAAAGTCTGCCTGTTTCCCAAGTGTCCAACGCTCAGAATTTAGGAATAGAAGTAGCAATTCCAACACTC-TGTCTTTATGACAGTTTAGCTAATGAATGTAAGTGTTCAGCATAACCCA-TTTACTGGACAGTGGATGATTCAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16323227 321 +  18395747 GTGCCTCTGCAAGAGCAGATTTTCTTTTGCCTTTCTGTTCTTTTGAGC-TGTTCATTTAATCTTGCAGGGGATCT-GACAGCTTTCTCTAGCTCC-ACAGC-----------ACTCACTGAGAAGCACAGAAAGA-GAGAAGAAAGAA-TGCTGATG-GCAGCTCCCATGAAGA-GATCTGTTATG------GGCTATGTGAGCAAAGTCTGCCTGTTTCCCAAGTGTCCAACGCTCAGAATTTAGGAATAGAAGTAGCAATTCCAACACTC-TGTCTTTATGACAGTTTAGCTAATGAATGTAAGTGTTCAGCATAACCCA-TTTACTGGACAGTGGATGATTCAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5335646 321 +  26952557 GTGCCTCTGCAAGAGCAGATTTTCTTTTGCCTTTCTGCTCTTTTGAGC-TGTTCATTTAATCTTGCAGGGGATCT-GACAGCTTTCTCTAGCTCC-ACAGC-----------ACTCACTGAGAAGCACAGAAAGA-GAGAAGAAAGAA-TGCTGATG-GCAGCTCCCATGAAGA-GATCTGTTATG------GGCTATGTGAGCAAAGTCTGCCTGTTTCCCAAGTGTCCAACGCTCAGAATTTAGGAATAGAAGTAGCAATTCCAACACTC-TGTCTTTATGACAGTTTAGCTAATGAATGTAAGTGTTCAGCATAACCCA-TTTACTGGACAGTGGATGACTCAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28436274 321 +  82825804 GTGCCTCTGCAAGAGCAGATTTTCTTTTGCCTTTCTGTTCTTTTGAGC-TGTTCATTTAATCTTGCAGGGGATCT-GACAGCTTTCTCTAGCTCC-ACAGC-----------ACTCACCGAGAAGCACAGAAAGA-GAGAAGAAAGAA-TGCTGATG-GCAGCTCCCATGAAGA-GATCTGTTATG------GGCTATGTGAGCAAAGTCTGCCTGTTTCCCAAGTGTCCAACGCTCAGAATTTAGGAATAGAAGTAGCAATTCCAACACTC-TGTCTTTATGACAGTTTAGCTAATGAATGTAAGTGTTCAGCATAACCCA-TTTACTGGACAGTGGATGATTCAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4105837 321 -   4237731 GTGCCTCTGCAAGAGCAGATTTTCTTTTGCCTTTCTGTTCTTTTGAGC-TGTTCATTTAATCTTGCAGGGGATCT-GACAGCTTTCTCTAGCTCC-ACAGC-----------ACTCACTGAGAAGCACAGAAAGA-GAGAAGAAAGAA-TGCTGATG-GCAGCTCCCATGAAGA-GATCTGTTATG------GGCTATGTGAGCAAAGTCTGCCTGTTTCCCAAGTGTCCAACGCTCAGAATTTAGGAATAGAAGTAGCAATTCCAACACTC-TGTCTTTATGACAGTTTAGCTAATGAATGTAAGTGTTCAGCATAACCCA-TTTACTGGACAGTGGATGATTCAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      374381 322 -   1175262 GTGCCTGTGCAAGAGCAGATTTTTTTTTGCCTTTCTGTTCTTTTGAGC-TGTTCATTTAATCTTGCAGGGGATCTGGACAGCTTTCTGTAGCTCC-ACAGC-----------ACTCACTGAGAAGCACAGAAAGA-GAGAAGAAAGAA-TGCTGATG-GCAGCTCCCATGAAGA-GATCTGTTATG------GGCTATGTGAGCAAAGTCTGCCTGTTTCTCAAGTGTCCAATGCTCAGAATTTAGGAATAGAAGTAGCAATTCCAACACTC-TGTCTTTATGACAGTTTAGCTAATGAATGTAAGTGTTCAGCGTAACCCA-TTTACTGGACAGTGGATGATTCAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123731162 323 - 204313951 GTGCCTCTGCAAGAGCAGAGTTTCCCTTGCCTTTCTGTTCTGTTGAGC-TGTTCATTTAATCTTGCA-GGGATCT-GACAGGTTTCTTTAGCGCC-ATAGCATTTCTTTAGCACTCAGTGAGAAGCAGAGAAAGA-GAGAAGAAAAAA-TGCTGATT-GCGGCTCCCAGGCAGA-GAGCCGTTA--------GGCTATGTGAGCAACGTCTGCCTGTTTCCAAAGTGG-------TCAGAATTTAGGACTAAAAGTAGCAATTCCAACAATC-TGTCTTTATGACAGTTCAGCTAATGAATGTAAGTGTTCAGTATAACCCAATTTACTGGACAGTGGATGATTCAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55774085 326 -  71252344 GTGCCTCTGCAAGAGCAGAGTTTCCTTTGCCTTTCTGTTCTGTTGAGC-TGTTCATTTAATCTTGCAGGGGATCT-GACAGCTTTCTCTAGCTCC-ATAGCATTTCTTTAGAACTCAATGAGAAGGACAGAAAGA-GAGAAGAAAAAA-TGCTGATG-GCAGCTCCCAGGCAGA-GATCTGTTATG------GGCTATGTGAGTAAAGTCTGTCTGTTTCCAAAGTGG-------TCGGAATTTAGGACTAGAAGTAGCAATTCCAACAATC-TGTCTTTATGACAGTTCAGCTAATGAATGCAAGTGTTCAGTATAACCCAATTTACTGGACAGTGGATGATTCAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       77321 325 -   3089952 GTGCCTCTGCAAGAGCAGAGTTTCCTTTGCCTTTCTGTTCTGTTGAGC-TGTTCATTTAATCTTGCAGGGGATCT-GACAG-TTTCTCTAGCTCC-ATAGCATTTCTTTAGCACTCAAGGAGAAGCACAGAAAGA-GAGAAGAAAAAA-TGCTGATG-GCAGCTCCCAGGCAGA-GATCTGTTATG------GGCTATGTGAGCAAAGTCTGCCTGTTTCCAAAGTGG-------TCAGAATTTAGGACTAGAAGTAGCAATTCCAACAATC-TGTCTTTATGACAGTTCAGCTAATGAATGTAAGTGTTCAGTATAACCCACTTTACTGGACAGTGGATGATTCAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13277995 324 -  42888418 GTGCCTCTGCAAGAGCAGAGTTTCCTTTGCCTTTCTGTTCTGTTGAGC-TGTTCATTTAATCTTGCAGGGGATCT-GACGGCTTTCTCTAGCTCC-ATAGCATTTCTTTAGCACTCAATGAGAAGCACAGAA--A-GAGAAGAAAAAA-TGCTGATG-GCAGCTCCCAGGCAGA-GATCTGCTATG------GGCTATGTGAGCAAAGTCTGCCTGTTTCCAAAGTGG-------TCAGAATTTAGGACTAGAAGTAGCAATTCCAACAATC-TGTCTTTATGACAGTTCAGCTAATGAATGTAAGTGTTCAGTATAACCCAATTTACTGGACAGTGGATGATTCAT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60609705 329 + 108143057 GTGCCTCTGCAGAAACAGATTTCCTTTTGCTTTTCTGTTCTGTTGAGCTTGTTCATTTAATCTCATGGGGAATCT-GACAGCTTTCTCTAGGTCCTATAGCATTTCTTTAGCACTCAGTGAGAAGCACAGTAAGA-GTGAAGAAAGAA-AGCTGATG-GT---TCCCATGCAGA-GACCTGCTATG------GGCTATATGAGCAAAGTCTGCCTGTTG-CCAAGTATCTGATGCTCAGAA-TTAGGACTAGAAGTAGCGATTCCAACACTC-TGTCATTATGACAGCTCAGCTAATGAATACAAATGTTCAGCATAACCCA-TTTACTGGCCAGTGGATGATTTAT
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3645006 332 +  11683526 GTGCCTCTGCAAGAACAGATTTCCTTTTGCCTTTCTGTTCTGTTGAGCTTGTTCAGGTAATCTCACGGGAGATCT-GACAGCTTTCTCTAGGTCCTGTAGCATTTCTTTAGCACTCAGTGAGAAACACAGTAAGA-GCGAAGAAAGCA-AGCTGATG-GTGG-TCCCATGCAGA-GACCTGCTATG------GGCTATGTGAGCAAAGTCTGCCTGTTTCCCAAGTATCTGATGCTCAGAA-TTAGGACTAGAAGTAGCAATTCCAACACTC-TGTCATTATGACAGCTCAGCTAATGAATGCAAATGTTCAGCATAACCCA-TTTACTGGCCAGTGGATGATTTAT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3133258 332 +   4132165 GTGCCCCTGCAAGAGCAGATTTCCTTTTGCCTCTCTGTTCTGTTGAGCTTGTTCATTTAATCTCACAGGGGATCT-GACAGCTTTCTCTAGCTCCTGCAGCATTTCTTTGGCACGCAGTGAGAAGCTCAGTAAGA-GAGAA-AAAGAA-TGCTGATG-GCAACTCCCACACAGA-GACCAGCTAAG------GGCTATGTGAGCAAAGTCTGCCTGTTTGCCCAGTATCtgttgctcagaa-ttaggactaggagtagcaattccAGCACTC-TGTCATTATGACAGCTCCCCTAATGAAGGCAAATGTTCAGCATACCCCA-TTTACTGGACAGTGGATGATTCAT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55570084 337 +  90702639 ACA-GTCTGCAAGAGCAGGTTTCCCTTC-CCCTCCTGTTCCGTTAGACTTGTTCTTTTAATCTCACACAGAACCT-GACAGCTTTCTTCAACTCCTAAAGCAGTTCTTCAG-GAAAAATGAAAAGCACAAAGAGACAAAAAGAAAGAAGTGCTGATGAGCACTTGATAGGCTGATGGGCATTTACATGCCCTGGCTATGTGGTCAAGGTCTGCTTGCTCCCCAAGTAGCCAAGGCTCAGAA--CGAGGATGGAGGCCATGCTTTCAACAT---GGTCTCTGTGACAGCTCAGCTAACGAATGCAAATATTCAGCACAGCCCA-TTTACTGGACAGTACCTGATTCAT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14973729 332 +  74389097 GTGCCTCTGCCTGAGCAGATTTCCTTTTGCCTTTCTGTTCTGTTGAGCTTGTTCATTTAATCTCACAGGGGATCT-GACAGCTTTCTCCAGCTCCTAAAGCATTTCTTTAGCACTCATTGAAAAGCACACGGAGA-GAGAAGAACGA--TGGTGATG-GCGGCTCACATGCAGA-GACCTGCTATG------GGCTACGTGAGCAAAGTCTGCCTGTTTCCCAAGTGTCTAATGCTCAGAA-TTAGGACTAGAAGTAACAATCCCAGCACTC-TGTCTTTATGACAGCTCAACTAATGAATGCAAATGTTCAGCATAACCCA-TTTACTGGACAGTGGATGATTCAT
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2698806  53 +   3667625 I

a score=3326398.000000
s hg38.chr5_KI270796v1_alt    150289 196 +    172708 ATT---GAGATGTGCTATAGAAAA-TGTCAAGTGCTTTTAATTTATGGACTG----CATATATAGTTCATGTGGCTAAATTCTCTTCTTCTTGACACAGAGAACAGGTGATGGGTATTCTC---AATATACCCTATGTGAATAAGAAAAACA-TTTTGACAATATACACAATATTGCCCTCAAATGAACTGATTTTTGTGCACATTAG
s panTro5.chr5             125253565 196 + 181907262 ATC---GAGATGTGCTATAGAAAA-TGTCAAGTGCTTTTAATTTATGGACTG----CATATATAGTTCATGTGGCTAAATTCTCTTCTTCTTGACACAGAGAACAGGTGATGGGTATTCTC---AATATACCCTATGTGAATAAGAAAAACA-TTTTGACAATATACACAATATTGCCCTCAAATGAACTGATTTTTGTGCACATTAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126590286 196 + 183735486 ATC---GAGATGTGCTATAGAAAA-TGTCAAGTGCTTTTAATTTATGGACTG----CATATATAGTTCATGTGGCTAAATTCTCTTCTTCTTGACACAGAGAACAGGTGATGGGTATTCTC---AATATACCCTATGTGAATAAGACAAACA-TTTTGACAATATACACAATATTGCCCTCAAATGAACTGATTTTTGTGCACATTAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1782047 196 +   8933513 ATC---GAGATGTGCTATAGAAAA-TGTCAAGTGCTTTTAATTTATGGACTG----CATATATAGTTCATGTGGCTAAATTCTCTTCTTCTTGACACAGAGAACAGGTGATGGGTATTCTC---AATATACCCTATGTGAATAAGAAAAACA-TTTTGACAATATACACAATATTGCCCTCAAATGAACTGATTTTTGTGCACATTAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139916499 199 + 163208435 ATCATTGAGATGTGCTATAGAAAA-TGTCAAGTGCTTTTAATTTATGGACTG----CATATACAGTTCATGTGGCTAAATTCTCTTCTTCTTGACATAGAGAACAGGTGATGGGTATTCTC---AATATACCCTATGTGAATAAGAAAAACA-TTTTGACAATATACACAATATTGCCCTCAAATGAACTGGTTTTTGTGCACATTAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122901282 199 + 180051392 ATCATTGAGATGTGTTATAGAAAA-TGTCAAGTGCTTTTAATTTATGGACTG----CATATACAGTTCATGTGGCTAAATTCTCTTCTTCTTGACACAGAGAACAGGTGATCAGTGTTCTC---AATATACCCTATGTGAACAAGAAAAACA-TTTTGACAATCTACACAATATTGCCCTCAAATGAACTCATTTTTGTGCTCATTAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124324903 199 + 181584905 ATCATTGAGATGTGTTATAGAAAA-TGTCAAGTGCTTTTAATTTATGGACTG----CATATACAGTTCATGTGGCTAAATTCTCTTCTTCTTGACACAGAGAACAGGTGATCAGTGTTCTC---AATATACCCTATGTGAACAAGAAAAACA-TTTTGACAATCTACACAATATTGCCCTCAAATGAACTCATTTTTGTGCTCATTAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16323548 199 +  18395747 ATCATTGAGATGTGTTATAGAAAA-TGTCAAGTGCTTTTAATTTATGGACTG----CATATACAGTTCATGTGGCTAAATTCTCTTCTTCTTGACACAGAGAACAGGTGATCAGTGTTCTC---AATATACCCTATGTGAACAAGAAAAACA-TTTTGACAATCTACACAATATTGCCCTCAAATGAACTCATTTTTGTGCTCATTAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5335967 199 +  26952557 ATCATTGAGATGTGTTATAGAAAA-TGTCAAGTGCTTTTAATTTATGGACTG----CATATACAGTTCATGTGGCTAAATTCTCTTCTTCTTGACACAGAGAACAGGTGATCAGTGTTCTC---AATATACCCTATGTGAATAAGAAAAACA-TTTTGACAATCTACACAATATTGCCCTCAAATGAACTCATTTTTGTGCTCATTAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28436595 199 +  82825804 ATCATTGAGATGTGTTATAGAAAA-TGTCAAGTGTTTTTAATTTATGGACTG----CATATACAGTTCATGTGGTTAAATTCTCTTCTTCTTGACACAGAGAACAGGTGATCAGTGTTCTC---AATATACCCTATGTGAATAAGAAAAACA-TTTTGACAATCTACACAATATTGCCCTCAAATGAACTCATTTTTGTGCTCATTAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4106158 199 -   4237731 ATCATTGAGATGTGTTATAGAAAA-TGTCAAGTGCTTTTAGTTTATGGACTG----CATATACAGTTCATGTGGCTAAATTCTCTTCTTCTTGACACAGAGAACAGGTGATCAGTGTTCTC---AATATACCCTATGTGAATAAGAAAAACA-TTTTGACAATCTACACAATATTGCCCTCAAATGAACTCATTTTTGTGCTCATTAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      374703 197 -   1175262 ATCATTGAGATGTGTTAGAGAAAA-TGTCAAGTGCTTTTAATTTATGGAC------CATATACAGTTCATGTGGCTAAATTCTCTTCTTCTTGACACAGAGAACAGGTGATCAGTGTTCTC---AATATACCCTATGTGAATAAGAAAAACA-TTTTGACAATCTACACAATATTGCCCTCAAATGAACTCATTTTTGTGCTCATTAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123731485 199 - 204313951 ATCGTTGAGATGTGTTATAGAAAA-TGTCAAGTGCTTTTAATTTATGGACTG----CATATACAGTTCGTGTAGCTAAATTCTCTTCTTCTTGTCCTGGAGAACAGGTAATGGGTATTTTT---AATATACCCTATATGGATAAGAAAAACA-TTTTGACAATCTATACAATATTGTCCTCAAATAAGCTCAATTTTGTGCTCATTAG
i calJac3.chr2             C 0 I 6727
s saiBol1.JH378106          55774411 199 -  71252344 ATCGTTGAGATGTGTTACAGAAAA-TGTCAAGTGCTTTTAATTTATGGACTG----CAGATACAGTTCATGTGGCTAAATTCTCTTCTTCCTGACACAGAGAACAGGTGATGGGTATTTCC---AATATATGCTATGTGGATAAGAAAAACA-TTTTGACCATCTACACAATATTGTCCTCCAATAAGCTCAATTTTATGCTAATTAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       77646 199 -   3089952 ATCGTTGAGATGTGTTATAGAAAA-TGTCAAGTGCTTTTAATTTATGGACTG----CATATACAGTTCATGTGGCTAAATTCTCTTCTTCTTGACATAGAGAACAGGTGATGGGTATTTCC---AATATACCCTATGTGGATAAGAAAAACA-TTTTGACAACCTACACAATATTGTCCTCAAATAAGCTCAATTTTATGCTCATTAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13278319 199 -  42888418 ATCGTTGAGATGTGTTATAGGAAA-TGTCAAGTGCTTTTAATTTATGGACTG----CATATACAGTTCATGTGGCTAAATTCTCTTCTTCTTGACATAGAGAACAGGTGATGGGTATTTCC---AATATACCCTATGTGGATAAGAAAAACA-TTTTGACAATCTACACAATGTTGTCCTCAAATAAGCTCAATTTTACGCTCATTAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60610034 202 + 108143057 ATCACTGAGATGTGTTATAGAAAA-TGCCAAGTGCTTTTAATTTATGGACTG----CATACACAGTTCATGTGGCTAAATTCTCTTCTTCTTGACATACAGAACAGGTGATGGGTATCTTCCCTGGTATATCCTATGCTGATAGGAAAGACA-TTTTGACAACCTATGCAATTTTTCCCCCAGATAAGCTCGTTTTTGTGCTCACTGG
i micMur3.chr12            C 0 I 4
s proCoq1.NW_012155062v1     3645338 202 +  11683526 ATCACTGAGATATGTTATAGAAAA-TGTCAAGTGCTTTTAATTTATGGACTG----CATGCACAGTTCGTGTGGCTAAAGTCTCTTCTTCCTGACAGACAGAACAGGGGATGGGTATCTTCCCTGGTATATCCTATGTTGATAGGAAAGACA-TTTTGACAACCTACACAATTTTGTCCTTAGATAAGCTCGTTTTTGTGCTCCCTGG
i proCoq1.NW_012155062v1   C 0 I 4
s otoGar3.GL873679           3133590 202 +   4132165 ATCACTAAGATGTGCTATAGAAAA-TGTCAAGTGCTTTTAATTTATGGACTG----CATACACAGTTCATGTGGCTAAATTCTCTTCTTCCTGGCACGCAGAACAAGTGATGGGTATCTTCCCCAGTATATCCTATGTTGATAAGAAAGACA-TTTTGACAATCTACTCAATTCTGCTCTCAGATAAGCTCATTTTTGTCCTCACTGG
i otoGar3.GL873679         C 0 I 4
s mm10.chr18                55570421 205 +  90702639 ATCATTGAGATGTATTATAGACAATTGTCAAGCATTTTAAACTTGTGGACTGCACACACACACAATTCATGTCGTTACAGTCTCTTCTCCC---CATGCAGAATAGGAGATGGGTGCCTTCCTTGCTTGATTGTAGGTAGCTAGGAAAGACATTTTTGACAATCGACACCATTTTGCCATCAGATAAGTTCACTTTTGAGCTCAGTAG
i mm10.chr18               C 0 I 4
s canFam3.chr11             14974061 202 +  74389097 ATCATTGGGATGTGTTATAGAAAA-TGTCAAGTGCTTTTAATTTATGGACTG----CATCTACAGTTCATGTGGCTATATTCGCTTCTTCTTGACACACTGAACAGGTGATAGGTATCTTCCGTAGTATATTCTTTGCAGATGGGAAAGACA-ACTTGACAATCTACACAATTTTGCCATCAGATAAGCTCATTTTTGTGCTCACTAG
i canFam3.chr11            C 0 I 4
s dasNov3.JH567306           2698859 199 +   3667625 ---ATTGGGATATGTTATAGAAAA-TGTCAAGTGCTTTTAATTTATGGACTG----CATACACAGTGCATATGGCTATATTCTCTTTTTCTTGACATGCAGAGCAGATGATCAGTATCTTACCTAGTATATCCTTTGTGGATGGGGAAGACA-TTTTGACAACCTTCACAATTTTGCCCTCAGATAAACTCATTTTTGTGTTCACTAG
i dasNov3.JH567306         I 53 C 0

a score=2334730.000000
s hg38.chr5_KI270796v1_alt    150485 170 +    172708 ----ATAAAAGATTCTATTCACTCAATTGGACTTCTTCTCTAGTGACAACACAAGACAGAAGAC-CTGCTGGAGAAGTTGCTTCCACGTGAGACCCTGTCACTAATGGAACTTATCACCACTTCCTCACAAACACTGTTCTTAGAGCTCATTTCCAGAGGGC-CCTCCTCTTCTGT
s panTro5.chr5             125253761 170 + 181907262 ----ATAAAAGATTCTATTCACTCAATTGGACTTCTTCTCTAGTGACAACACAAGACAGAAGAC-CTGCTAGAGAAGTTGCTTCCACGTGAGACCCTGTCACTAATGGAACTTATCACCACTTCCTCACAAACACTGTTCTTAGAGCTCATTTCCAGAGGGC-CCTCCTCTTCTGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126590482 170 + 183735486 ----ATAAAAGATTCTATTCACTCAATTGGACTTCTTCTCTAGTGACAACACAAGACAGAAGAC-CTGCTAGAGAAGTTGCTTCCACGTGAGACCCTGTCACTAATGGAACTTATCACCACTTCCTCACAAACACTGTTCTTAGAGCTCATTTCCAGAGGGC-CCTCCTCTTCTGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1782243 170 +   8933513 ----ATAAAAGATTCTATTCACTCAATTGGACTTCTTCTCTAGTGACAGCACAAGACAGAAGAC-CTGCTAGAGAAGTTGCTTCCACGTGAGACCCTGTCACTAATGGAACTTATCACCACTTCCTCACAAACACTGTTCTTAGAGCTCATTTCCAGAGGGC-CCTCCTCTTCTGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139916698 170 + 163208435 ----ATAAAAGATTCTATTCACCCAATTGGACTTCTTTTCTAGTGACAACACAAGACATAAGAC-CTGCTAGAGAAGTTGCTTCCACATGGGACCCTGTTACTAATGGAACTTATCACCACTTCCTCACAAACACTCTTCTTAGAGCTCATTTCCAGAGGGC-CCTCGTCTTCTGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122901481 170 + 180051392 ----ATAAAAGATTCTATTCACCCAATTGGACTTATTCTCTAGTGACAACACAAGACAGAAGAC-CTGCTAGAGAAGTTGCTTCCACAGGGGACCCTGTCACTAATGGAATTTGTCACCACTTCCTCACAAACACTGTTGCTAGAGCTCATTTGCAGCGGGC-CCTCCTCTTCTGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124325102 170 + 181584905 ----ATAAAAGATTCTATTCACCCAATTGGACTTATTCTCTAGTGACAACACAAGACAGAAGAC-CTGCTAGAGAAGTTGCTTCCACAGGGGACCCTTTCACTAATGGAATTTGTCACCACTTCCTCACAAACACTGTTGCTAGAGCTCATTTGCAGCGGGC-CCTCCTCTTCTGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16323747 170 +  18395747 ----ATAAAAGATTCTATTCACCCAATTGGACTTATTCTCTAGTGACAACACAAGACAGAAGAC-CTGCTAGAGAAGTTGCTTCCACAGGGGACCCTGTCACTAATGGAATTTGTCACCACTTCCTCACAAACACTGTTGCTAGAGCTCATTTGCAGCGGGC-CCTCCTCTTCTGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5336166 170 +  26952557 ----ATAAAAGATTCTATTCACCCAATTGGACTTATTCTCTAGTGACAACACAAGACAGAAGAC-CTGCTAGAGAAGTTGCTTCCAGAGGGGACCCTGTCACTAATGGAATTTGTCACCACTTCCTCACAAACACTGTTGCTAGAGCTCATTTGCAGTGGGC-CCTCCTCTTCTGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28436794 170 +  82825804 ----ATAAAAGATTCTATTCACCCAATTGGACTTATTCTCTAGTGACAACACAAGACAGAAGAC-CTGCTAGAGAAGTTGCTTCCACAGGGGACCCTGTCACTAATGGAATTTGTCACCACTTCCTCACAAACACTGTTGCTAGAGCTCATTTGCAGTGGGC-CCTCCTCTTCTGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4106357 170 -   4237731 ----ATAAAAGATTCTATTCACCCAATTGGACTTATTCTCTAGTGACAACACAAGACAGAAGAC-CTGCTAGAGAAGTTGCTTCCAGAGGGGACCCTGTCACTAATGGAATTTGTCACCACTTCCTCACAAACACTGTTGCTAGAGCTCATTTGCAGTGGGC-CCTCCTCTTCTGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      374900 170 -   1175262 ----ATAAAAGATTCTATTCACCCAATTGCACTTATTCTCTAGTGACAACACAGGACAGAAGAT-CTGCTAGAGAAGTTGCTTCCACATGGGACCCTGTCCCTAATGGAACTTGTCACCACTTCCTCACAAACACTGTTGTTAGAGCTCATTTACAGCGGGC-CCTCCTCTTCTGT
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55774610 170 -  71252344 ----ATAAAAGATTCTATTCACCCAACTGGACTTCTTCTCTAGTGACACCACAAGACAGAAGAC-CTGCTAGGGAAGTTGCTTCCACATGGGACCCTGTCACTAATGGAACTTGTCACCTCTTTCTCACAAGCAATGTCTGTAGAGTTCATTTCCAGAGGGC-CCTCTTCTTCTGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       77845 170 -   3089952 ----ATAAAAGATTCTATTCACCCCACTGGACTTCTTCTCTAGTGACAGCACAAGACAGAAGAC-CTGCTAGAGAAGTTGCTTCCACACGGGACCCTGTCACTAATGGAACTTGTCACCTCTTCCTCACAAACACTGTCTGTAGAGCTCATTTCCAGAGGAC-CCTCTTCTTCTGT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13278518 166 -  42888418 ----ATAAAAGATTCTATTCACCCAACTGGACTTCTTCTCTAGTGACAACACAAGACAGAAGAC-CTGCTAGAGAAGTTGCTTCCACACGGGACCCTGTCACTAATGGAACTTGTCACCTCTTCCTCACAAACA----CTGTAGAGCTCATTTCCAGAGGGC-CCTCCTCTTCTGT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60610240 170 + 108143057 ----TCAAAAGATTCTGTTCACCCAACGGGACTTTTTCCCTGGTGACAACACAAGGTAGAAGAC-CTGCTAGAGAAGCTGCCTCCATACAGCACCCTGTCACTGATGAAACTCATCAGCAAGTCCTCGTGAATACTGTCCCTGGAGCTCATCTCTGGAGAGC-CCTCCTCTCCTGT
i micMur3.chr12            I 4 I 99
s proCoq1.NW_012155062v1     3645544 170 +  11683526 ----TCAAAAGATTCTGTTCACCCAACTGGACTTTTTCCCTGGTGACAACACAAGGTAGAAGAC-CTGCTAGAGAAGCTGCTTCCATACAGCACCTTGTCCCTGATGAAACTCATCAGCAACTCCTCGCAAGTATTGTCCCTAGAGCTCATCTCCAGAGAGC-CCTCCTCTTCTGT
i proCoq1.NW_012155062v1   I 4 C 0
s otoGar3.GL873679           3133796 164 +   4132165 ----TCAAAAGATTCTGCTCAGCCACCTGGACTTTTCCTCTGGTGACAACACAAAGTAGAAGAC-CTACTAGAGAGGTCGTGTCCACCCAGGACCCTGCCACTGATGAAACTCCCCAGCACCTCCCC-CAGATACTGTCTGCAGAATGCATCTCTAGAGAGC-CCTCCTGT-----
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55570630 125 +  90702639 ----TGAAAAGATTCTG-TCACTCAACTGGACCTTTCTTCTAATGACAGCACAAGGCAAAAGCC---------AGGGTAACTCCCACTTA----------------GAAACTCATCAGC---------------CTTTCTGTAGAGC-CAGTCCCAAAGCTG-CCTTCAGTT----
i mm10.chr18               I 4 C 0
s canFam3.chr11             14974267 171 +  74389097 ----TCAAAAGATTCTGTTCACCCAAATGGACATTTTCTCTAGTGGCAATGCAAGGCGGAAGAC-TTGATAGAGAAGTTACTTCCACAGAGGTCTCTGCAACTTAGAGAATTCATCACCACTTCCTCACAAAGGCTGTCTGCAGAACTCATCCCCAAGGGGCTCCTCCTCTTCTGT
i canFam3.chr11            I 4 C 0
s dasNov3.JH567306           2699058 176 +   3667625 TTAATCAAAAGATTCTCTTCGCCCAACTGGACTTCTTCTCTAATGACAACTCAAGGCTGAGGACTTTGATAGGGAAGTTACTTCCACATAGGACGCTGCCACTTATGGAACTCATCACTGCCTCCTTGACAACACTGTCCAGAGAGCTTATCTCCACGGAGCCCCTCCTCATCTAT
i dasNov3.JH567306         C 0 C 0
e calJac3.chr2             123731684 6727 - 204313951 I

a score=1080273.000000
s hg38.chr5_KI270796v1_alt    150655  99 +    172708 TCCGA-A-CTCTCAGGCATTGACCACTCAATCCTGTCCATTTCAGGTCTCTACCGTTGGCAGACATCTG----------------------------CTTGG------------CCTCTCTA---ACGATACCCACAAATA-------------------------TCC
s panTro5.chr5             125253931  99 + 181907262 TCCAA-A-CTCTCAGGCATTGACCACTCAATCCTGTCCATTTCAGGTCTCTCCCGTTGGCAGACATCTG----------------------------CTTGG------------CCTCTCTA---ATGATACCCACAAATA-------------------------TCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126590652  99 + 183735486 TCCAA-A-CTCTCAGGCATTGACCACTCAATCCTGTCCATTTCAGGTCTCTCCCGTTGGCAGACATCTG----------------------------CTTGG------------CCTCTCTA---ATGATACCCACAAATA-------------------------TCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1782413  99 +   8933513 TCCAA-A-CTCTCAGGCATTGACCACTCAATCCTGTCCATTTCAGGTCTCTCCCGTTGGCAGACATCTG----------------------------CTTGG------------CCTCTCTA---ATGATACCCACAAATA-------------------------TCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139916868  99 + 163208435 TCCAA-A-CTCTCAGGCATTGACCACTCAATCCTGTCCATTTCAGGTCTCTCCTGTTGGCAGACATCTG----------------------------CTTGG------------CCTCTCTA---ATGATACCCACAAACA-------------------------TCC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122901651  99 + 180051392 TCCAA-A-TTCTCAGACATTGACCACTCAATTCTTTCCATTTCAGGTCTCTCCCACTGGCAGACATCTG----------------------------CTTGA------------CCTCTCTA---ATGATACCCGCAAATA-------------------------TCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124325272  99 + 181584905 TCCAA-A-TTCTCAGACATTGACCACTCAATTCTTTCCATTTCAGGTCTCTCCCACTGGCAGACATCTG----------------------------CTTGA------------CCTCTCTA---ATGATACCCGCAAATA-------------------------TCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16323917  99 +  18395747 TCCAA-A-TTCTCAGACATTGACCACTCAATTCTTTCCATTTCAGGTCTCTCCCACTGGCAGACATCTG----------------------------CTTGA------------CCTCTCTA---ATGATACCCGCAAATA-------------------------TCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5336336  99 +  26952557 TCCAA-A-TTCTCAGACATTGACCACTCAATTCTTTCCATTTCAGGTCTCTCCCACTGGCAGACATCTG----------------------------CTTGA------------CCTCTCTA---ATGATACCCGCAAATA-------------------------TCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28436964  99 +  82825804 TCCAA-A-TTCTCAGACATTGACCACTCAATTCTTTCCATTTCAGGTCTCTCCCACTGGCAGACATCTG----------------------------CTTGA------------CCTCTCTA---ATGATACCCGCAAATA-------------------------TCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4106527  99 -   4237731 TCCAA-A-TTCTCAGACATTGACCACTCAATTCTTTCCATTTCAGGTCTCTCCCACTGGCAGACATCTG----------------------------CTTGA------------CCTCTCTA---ATGATACCCGCAAATA-------------------------TCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      375070  99 -   1175262 TCCAA-A-TTCTCAAGCATTGACCACTCAATTCTTTCCATTTCAGGTCTCTCCCACTGTCAGACATCTG----------------------------CTTGA------------CCTATCTA---ATGATACCCACAAATA-------------------------TCC
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55774780  99 -  71252344 TCCAA-A-CTCTCAGGCATTGACCACTCAAGCCTGTACATTTCAGGTCTCTCCTGCCAGCAGACATCTG----------------------------CTTGG------------CCTCTCTA---ATGATACTCACAAATA-------------------------TCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       78015  99 -   3089952 TCCAA-A-CTCTCAGGCATTGACCACTCAAGCCTGTACATTTCAGGTGTCTCCTGCCGGCAGACATCTG----------------------------CTTGG------------CCTCTCTA---ATGATACTCGCAAATA-------------------------TCC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13278684 124 -  42888418 TCCAA-A-CTCTCAGGCACTGACCACTCAAGCCTGTACACTTCAGGTCTCTCCTGCTGGCAGACATCTG----------------------------CTTGG------------CCTCTCTA---ATGATACTCACAAATAAGTGAGTATTATTTTCCTGTGATTTTCC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3645714  99 +  11683526 CGCGA-A-GTCTCGGGTATTGACTGCTCAAGCCTCTACATTTCAGCTTTCTCCTGATGACAGACATCTG----------------------------CTTGG------------CCTCCCTA---ATGGTACTGAAATATG-------------------------TCC
i proCoq1.NW_012155062v1   C 0 I 1
s otoGar3.GL873679           3133960  99 +   4132165 TCCAA-A-GTGTCAGGTATTGACTAATTAAGCCTCTACATTTCAGCTTTCTCCTGCTTGCAGACATCTG----------------------------CTTGG------------CCGGCCCC---GTGATATAAAAATATG-------------------------TCC
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55570755  82 +  90702639 ---------------------------------TGTGTATTTCAGCTTCCTTCTGCTGGCAGATATCTGCCAAGGACATCC-------------TCACCTGT------------CTTCCTTA---ACAAAGCTCA-AACTG-------------------------CAC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14974438 114 +  74389097 CCTAATA-GTCCCAGTCACTGACTGCTCAAATCTGGCCCCTCCTG-CCTCTCCTGCTAGCAGGGATATG----------------------------CCAAGGACTCGCTCCTCCCTCTGTATTCGTGAAACCCAAAGCAA-------------------------TCC
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2699234 125 +   3667625 TCCAA-AGTTCTCAGGCATTGACTGCTCAAGCCTACTCATTTCAG---CCTTCTGCTGGCAGGCATCTGCCAAGGACTTGCTCCTTCTACCTTTTCACGTGG------------CCTCCCTA---ATGAAGGCCAATTCTG-------------------------TCC
i dasNov3.JH567306         C 0 I 1
e micMur3.chr12             60610410  99 + 108143057 I
e calJac3.chr2             123731684 6727 - 204313951 I

a score=893473.000000
s hg38.chr5_KI270796v1_alt    150754 63 +    172708 TATAATCACAGGAAAATAAGAGGCTAATGTAGATTCTGGATTCCAGGACTAATAGGAGTTCTT
s panTro5.chr5             125254030 63 + 181907262 TATAATCACAGGAAAATAAGAGGCTAATGTAGATTCTGGATTCCAGGACTAATAGGAGTTCTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126590751 63 + 183735486 TATAATCACAGGAAAATAAGAGGCTAATGTAGATTCTGGATTCCAGGACTAATAGGAGTTCTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1782512 63 +   8933513 TATAATCACAGGAAAATAAGAGGCTAATGTAGATTCTAGATTCCAGGACTAATAGGAGTTCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139916967 63 + 163208435 TATAATCACAGGAAAATAAGAGGCTAATGTAGATTCTGGATTCCAGGACTAATACGAGTTCTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122901750 63 + 180051392 AATAATCACAGGAAAATAAGAGGCTAATGTAGATTCTGGATTCAAGGACTAATAGGAGTTCTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124325371 63 + 181584905 AATAATCACAGGAAAATAAGAGGCTAATGTAGATTCTGGATTCAAGGACTAATAGGAGTTCTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16324016 63 +  18395747 AATAATCACAGGAAAATAAGAGGCTAATGTAGATTCTGGATTCAAGGACTAATAGGAGTTCTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5336435 63 +  26952557 AATAATCACAGGAAAATAAGAGGCTAATGTAGATTCTGGATTCAAGGACTAATAGGAGTTCTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28437063 63 +  82825804 AATAATCACAGGAAAATAAGAGGCTAATGTAGATTCTGGATTCAAGGACTAATAGGAGTTCTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4106626 63 -   4237731 AATAATCACAGGAAAATAAGAGGCTAATGTAGATTCTGGATTCAAGGACTAATAGGAGTTCTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      375169 63 -   1175262 AATAATCACAGGAAAATAAGAGGCTAATGTAGATTCTGGATTCAAGGACTAATAGGAGTTCTT
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55774879 60 -  71252344 TATAATCA---GAAAATAAGAGGCTAATTTAGATTCTGGATTCCAGGACTAATAGAAGTTCTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       78114 60 -   3089952 TATAATCA---GAAAATAAGAGGCCAATTTAGATTCTGGATTCCAGGACTAATAGAAGTTCTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13278808 63 -  42888418 TATAATCACAGGAAAATAAGAGGCTAATTTAGATTCTGGATTCCAGGACTAATAGAAGTTCTT
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60610509 60 + 108143057 TATGATCAAAGGAAAATAAGAGGCTAATTTATATTTTGGATTTCAGGACTAAT---AATTCTT
i micMur3.chr12            I 99 C 0
s proCoq1.NW_012155062v1     3645814 60 +  11683526 AATGATCACAGGAAAATAAGAGGCTAATTTAGACTTCGGATTTCAGGACTAAT---AGTTCTT
i proCoq1.NW_012155062v1   I 1 C 0
s otoGar3.GL873679           3134060 54 +   4132165 TAGGATCACAGG-----AAGAGGCTGA-TTGGATTTTGGATTTCAGGACCAAT---AGCTCTT
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55570837 60 +  90702639 CATGATCAAAGGAAACCAAGAAACTAACATAGACTCTGGATTCCAGGAATAATAAGGGTT---
i mm10.chr18               C 0 C 0
s canFam3.chr11             14974553 63 +  74389097 GATGACCACAGGGCAATAAAAGGCTAACTGAGATTCTGGATTGTGGGACTAACAGAAGTTcat
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2699360 63 +   3667625 TAATACCACAGGAAAATAAGAGGTTAATTTAGATTCTGGCTTAAAAGACTAGTAGAAATCCTT
i dasNov3.JH567306         I 1 C 0
e calJac3.chr2             123731684 6727 - 204313951 I

a score=37962.000000
s hg38.chr5_KI270796v1_alt    150817 7 +    172708 TGTCCCA
s panTro5.chr5             125254093 7 + 181907262 TGTCCCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126590814 7 + 183735486 TGTCCCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1782575 7 +   8933513 TGTCCCA
i gorGor5.CYUI01015135v1   C 0 C 0
s saiBol1.JH378106          55774939 7 -  71252344 tgttcca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       78174 7 -   3089952 tgtccca
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13278871 7 -  42888418 tgtccca
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60610569 7 + 108143057 tgtccca
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3645874 7 +  11683526 tgtccca
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3134114 7 +   4132165 tgtccca
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14974616 7 +  74389097 tgtccta
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2699423 7 +   3667625 TGTCCAG
i dasNov3.JH567306         C 0 C 0
e manLeu1.NW_012103321v1     4106689 0 -   4237731 C
e chlSab2.chr23             28437126 0 +  82825804 C
e cerAty1.NW_012002512v1     5336498 0 +  26952557 C
e macNem1.NW_012012355v1    16324079 0 +  18395747 C
e macFas5.chr6             124325434 0 + 181584905 C
e rheMac8.chr6             122901813 0 + 180051392 C
e mm10.chr18                55570897 0 +  90702639 C
e calJac3.chr2             123731684 6727 - 204313951 I
e colAng1.NW_012119644v1      375232 0 -   1175262 C
e nomLeu3.chr2             139917030 0 + 163208435 C

a score=6610.000000
s hg38.chr5_KI270796v1_alt    150824 3 +    172708 CAG
s panTro5.chr5             125254100 3 + 181907262 TAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126590821 3 + 183735486 TAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1782582 3 +   8933513 TAG
i gorGor5.CYUI01015135v1   C 0 C 0
s saiBol1.JH378106          55774946 3 -  71252344 tag
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       78181 3 -   3089952 taa
i cebCap1.NW_016107590v1   C 0 C 0
s micMur3.chr12             60610576 3 + 108143057 tag
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3645881 3 +  11683526 caa
i proCoq1.NW_012155062v1   C 0 C 0
s dasNov3.JH567306           2699430 3 +   3667625 TAg
i dasNov3.JH567306         C 0 I 10
e canFam3.chr11             14974623 0 +  74389097 C
e manLeu1.NW_012103321v1     4106689 0 -   4237731 C
e chlSab2.chr23             28437126 0 +  82825804 C
e cerAty1.NW_012002512v1     5336498 0 +  26952557 C
e macNem1.NW_012012355v1    16324079 0 +  18395747 C
e macFas5.chr6             124325434 0 + 181584905 C
e rheMac8.chr6             122901813 0 + 180051392 C
e otoGar3.GL873679           3134121 0 +   4132165 C
e aotNan1.NW_018505940v1    13278878 0 -  42888418 C
e mm10.chr18                55570897 0 +  90702639 C
e calJac3.chr2             123731684 6727 - 204313951 I
e colAng1.NW_012119644v1      375232 0 -   1175262 C
e nomLeu3.chr2             139917030 0 + 163208435 C

a score=11636.000000
s hg38.chr5_KI270796v1_alt    150827 8 +    172708 TAttttct
s panTro5.chr5             125254103 8 + 181907262 TATTTCCt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126590824 7 + 183735486 TATTCCC-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1782585 7 +   8933513 TATTTCC-
i gorGor5.CYUI01015135v1   C 0 C 0
s saiBol1.JH378106          55774949 8 -  71252344 tattttct
i saiBol1.JH378106         C 0 I 273
s cebCap1.NW_016107590v1       78184 8 -   3089952 tattttct
i cebCap1.NW_016107590v1   C 0 I 283
s micMur3.chr12             60610579 8 + 108143057 tattttct
i micMur3.chr12            C 0 I 184
s proCoq1.NW_012155062v1     3645884 8 +  11683526 tattttct
i proCoq1.NW_012155062v1   C 0 I 184
e canFam3.chr11             14974623 0 +  74389097 C
e manLeu1.NW_012103321v1     4106689 0 -   4237731 C
e chlSab2.chr23             28437126 0 +  82825804 C
e cerAty1.NW_012002512v1     5336498 0 +  26952557 C
e macNem1.NW_012012355v1    16324079 0 +  18395747 C
e macFas5.chr6             124325434 0 + 181584905 C
e rheMac8.chr6             122901813 0 + 180051392 C
e otoGar3.GL873679           3134121 0 +   4132165 C
e aotNan1.NW_018505940v1    13278878 0 -  42888418 C
e dasNov3.JH567306           2699433 10 +   3667625 I
e mm10.chr18                55570897 0 +  90702639 C
e calJac3.chr2             123731684 6727 - 204313951 I
e colAng1.NW_012119644v1      375232 0 -   1175262 C
e nomLeu3.chr2             139917030 0 + 163208435 C

a score=701127.000000
s hg38.chr5_KI270796v1_alt    150835 1309 +    172708 ttttttttttttttttttAAAA--CATAATTTTTTTATTTTAtttta------ttattattatactttaagttttagggtacatgtgcacaacgtgcaggtttgttacatatgaatacatgtgccatgttggtgtactgcacccattaactcatcatttagcattaggtatatctcctaatgctat-------ccctccccccaccccacaacagtccccagagtgtgatgttccccttcctgtgtccatgtgttctcattgttcatttcccacctatgagtgagaacatgcagtgtttggttttttgtccttgtgatagtttgctgagaacgatgatttccagtttcatccatgtccctacaaggatatgaactcatcattttttatggctgcatagtattccatggtgtatatgtgccacattttcttaatccagtctatcgttgttggacatttgggttggttccaagtctttgctattgtgaatagtgccgcaatagacatacgtgcgcatgtgtctttatagcagcatgatttataatcctttgggtatatacccagtaatgggatggctgggtcaagtggtatttctagttctagatccctgaggaatcgccacactgacttccacaatggttgaactagtttacagtcccaccagcagtgtaaaagtgttcctatttctccacatcctctccagcacctgttgtttcctgactttttaatgactgccattctaactggtgtgagatggtatctcattgtggttttgatttgcatttctctgatggccagtgatgatgagcattttttcatgtgtctgttggctgcataaatgtcttcttttgagaagtgtctgttcatatccttcacccactttttgatggggttgtt----tttttcttgtaaatttgtttgagttcattgtagattctggatattagccctttgtcagatgggtaggttgagaaaattttctcccatgttgtaggttgcctgttgactctgatggtagtttcttttgctgtgcagaagctctttagtttaattagatccgatttgtcaattttggcttttgttgccattgcttttggtgttttagacatgaagtccttgcccatgcctatgtcctgaatggtattgcctaggtgtttttctagggtttttatagtgttaggtctaacatttaagtctttaatccatcttgaattaatttttgtataaggtgtaaggaagggatccagtttcagctttctacatatggctagccagttttaccagcacaatttattaaatagggaatcctttcctcattgcttgtttttg
s panTro5.chr5             125254111 1315 + 181907262 tttttttttttttttttAAAAAAGCATAATTATTTTATtttatttta-------tattattatactttaagttttagggtacatgtgcacaatgtgcaggtttgttacatatgaatacatgtgccatgttggtgtactgcacccattaactcatcatttagcattaggtatatctcctaatgctatccc--ccccctccccccaccccacaacagtccccggagtgtgatgttccccttcctgtgtccatgtgttctcattgttcaattcccacctatgagtgagaacatgcggtgtttggttttttgtccttgtgatagtttgctgagaacgatgatttccagtttcatccatgtccctacaaggatatgaactcatcattttttatggctgcatagtattccatggtgtatatgtgccacattttcttaatccagtctatcattgttggacatttgggttggttccaagtctttgctattgtgaatagtgctgcaatagacatacgtgtgcatgtgtctttatagcagcatgatttataatcctttgggtatatacccagtaatgggatggctgggtcaaatggtatttccagttctagatccctgaggaatcgccacactgacttccacaatggttgaactagtttacagtcccaccaacagtgtaaaagtgttcctctttctccacatcctctccagcacctgttgtttcctgactttttaatgatcgccattctaactggtgtgagatggtatctcactgtggttttgatttgcatttctctgatggccagtgatgataagcattttttcatgtgtctgttggctgcataaatgtcttcttttgagaagtgtctgttcatatccttcacccactttttgatggggttgtt----tttttcttgtaaatttgtttgagttcattgtagattccggatattagccctttgtcagatgagtaggttgcgaaaattttctcccattttgtaggttgcctgttgactctgatggtagtttcttttgctgtgcagaagctctttagtttaattagatcccatttgtcaattttggcttttgttgccattgcttttggtgttttagacatgaagtccttgcctatgcctatgtcctgaatggtattgcctaggtgtttttctagggtttttatggttttaggtctaacatttaagtctttaatccatcttgaattaatttttatataaggtgtaaggaagggatccagtttcagctttctacatatggctagccagttttaccagcacagtttattaaatagggaagcctttcctcattgcatgtttttg
i panTro5.chr5             C 0 I 5895
s panPan2.chr5             126590831 1311 + 183735486 -----TTTTTTTTTTTAAAAAAAGCATAATTATTTTATtttatttta-------tattattatactttaagttttagggtacatgtgcacaatgtgcaggtttgttacatatgaatacatgtgccatgttggtgtactgcacccattaactcatcatttagcattaggtatatctcctaatgctatccct-cccccacccccaaccccacaacagtccccggagtgtgatgttccccttcctgtgtccatgtgttctcattgttcaattcccacctatgagtaagaacatgcggtgtttggttttttgtccttgtgatagtttgctgagaacgatgatttccagtttcatccatgtccctacaaggatatgaactcatcattttttatggctgcatagtattccatggtgtatatgtgccacattttcttaatccagtctatcattgttggacatttgggttggttccaagtctttgctattgtgaatagtgccgcaataaacatacgtgtgcatgtgtctttatagcagcatgatttataatcctttgggtatatacctagtaatgggatggctgggtcaaatggtatttccagttctagatccccgaggaatcgccacactgacttccacaatggttgaactagtttacagtcccaccaacagtgtaaaagtgttcctctttctccacatcctctccagcacctgttgtttcctgactttttaatgattgccattctaactggtgtgagatggtatctcattgtggttttgatttgcatttctctgatggccagtgatgataagcattttttcatgtgtctgttggctgcataaatgtcttcttttgagaagtgtctgttcatatccttcacccactttttgatggggttgtt----tttttcttgtaaatttgtttgagttcattgtagattctggatattagccctttgtcagatgagtaggttgcgaaaattttctcccattttgtaggttgtctgttgactctgatggtagtttcttttgctgtgcagaagctctttagtttaattagatcccatttgtcaattttggcttttgttgccattgcttttggtgttttagacatgaagtccttgcccatgcctatgtcctgaatggtattgcctaggtgtttttctagggtttttatggttttaggtctaacatttaagtctttaatccatcttgaattaatttttatataaggtgtaaggaagggatccagtttcagctttctacatatggctagccagttttaccagcacaatttattaaatagggaagcctttcctcattgcatgtttttg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1782592 1320 +   8933513 ------TTTTTTTAAAAAAAAAAGCATAATTTTTTTATTTTATCTTAttttatttattattatactttaagttttagggtacatgtgcacaatgtgcaggtttgttacatatgaatacatgtgccatgttggtgtactgcacccattaactcatcatttagcattaggtatatctcctaatgctatccctccccccaccccccaccccacaacagtccctggagtgtgatgttccccttgctgtgtccatgtgttctcattgttcaattcccacctatgagtgagaacatgcggtgtttggttttttgtccttgtgatagtttgctgagaacgatgatttccagtttcatccatgtccctacaaagatatgaactcatcattttttatggctgcatagtattccatggtgtatatgtgccacattttcttaatccagtctatcactgttggacatttgggttggttccaagtctttgctattgtgaatagtgccgcaatagacatacgtgtgcatgtgtctttatagcagcatgatttataatcctttgggtatatacccagtaatgggatggctgggtcaaatggtatttctagttctagatccctgaggaatcgccacactgacttccacaatggttgaacaagtttacagtcccaccaacagtgtcaaagtgttcctatttctccacatcctctccagcacctgttgtttcctgactttttaatgatcgccattctaactggtgtgagatggtatctcattgtggttttgatttgcatttctctgatggccagtgatgataagcattttttcatgtgtctgttggctgcataaatctcttcttttgagatgtgtctgttcatatccttcacccac-ttttgatggggttgtttgtgtttttcttgtaaatttgtttgagttcattgtagattctggat-ttagccctttgtcagatgagtaggttgcaaaaattttctcccattttgtaggttgcctgttgactctgatggtagtttcttttgctgtgcagaagctctttagtttaattagatcccatttgtcaattttggcttttgttgccattgcttttggtgttttagacatgaagtccttgcccatgcctatgtcctgaatggtattgcctaggtgtttttctagggtttttatggttttaggtctaacatttaagtctttaatccatcttgaattaatttttgtataaggtgtaaggaagggatccagtttcagctttctacatatggctagccagttttaccagcacaatttattaaatagggaagcctttcctcattgcttgtttttg
i gorGor5.CYUI01015135v1   C 0 C 0
e micMur3.chr12             60610587  184 + 108143057 I
e canFam3.chr11             14974623    0 +  74389097 C
e proCoq1.NW_012155062v1     3645892  184 +  11683526 I
e manLeu1.NW_012103321v1     4106689    0 -   4237731 C
e chlSab2.chr23             28437126    0 +  82825804 C
e cerAty1.NW_012002512v1     5336498    0 +  26952557 C
e macNem1.NW_012012355v1    16324079    0 +  18395747 C
e macFas5.chr6             124325434    0 + 181584905 C
e rheMac8.chr6             122901813    0 + 180051392 C
e otoGar3.GL873679           3134121    0 +   4132165 C
e aotNan1.NW_018505940v1    13278878    0 -  42888418 C
e cebCap1.NW_016107590v1       78192  283 -   3089952 I
e dasNov3.JH567306           2699433   10 +   3667625 I
e mm10.chr18                55570897    0 +  90702639 C
e saiBol1.JH378106          55774957  273 -  71252344 I
e calJac3.chr2             123731684 6727 - 204313951 I
e colAng1.NW_012119644v1      375232    0 -   1175262 C
e nomLeu3.chr2             139917030    0 + 163208435 C

a score=108888.000000
s hg38.chr5_KI270796v1_alt    152144 196 +    172708 tcaggtttgtcaaagatcagatagttgtagatatgtggcattatttctgagggctctgttctgttccattgatctatatctctgttttggtaccagtaccatgctgttttggttactgtagccttgtagtatagtttgaagtcaggtagcgtgatgcctccagctttgttcttttggcttaggattgacttggcga
s panTro5.chr5             125261321 196 + 181907262 tcaggtttgtcaaagatcagatagttgtagatatgtggcattatttctgagggctctgttctgttccattgatctatatctctgttttggtaccagtaccatgctgttttggttactgtagccttgtagtatagtttgaagtcaggtagcgtgatgcctccagctttgttcttttggcttaggattgacttggcga
i panTro5.chr5             I 5895 C 0
s panPan2.chr5             126592142 196 + 183735486 tcaggtttgtcaaagatcagatagttgtagatatgtggcattatttctgagggctctgttctgttccattgatctatatctctgttttggtaccagtaccatgctgttttggttactgtaaccttgtagtatagtttgaagtcaggtagcgtgatgcctccagctttgttcttttggcttaggattgacttggcga
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1783912 196 +   8933513 tcaggtttgtcaaagatcagatagttgtagatacatggcattatttctgaggggtctgttctgttccattgatctatatctctgttttggtaccagtaccatgctgttttggttactgtagccttgtagtatagtttgaagtcaggtagggtgatgcctccagctttgttcttttggcttaggattgacttggcga
i gorGor5.CYUI01015135v1   C 0 C 0
e micMur3.chr12             60610587 184 + 108143057 I
e canFam3.chr11             14974623   0 +  74389097 C
e proCoq1.NW_012155062v1     3645892 184 +  11683526 I
e manLeu1.NW_012103321v1     4106689   0 -   4237731 C
e chlSab2.chr23             28437126   0 +  82825804 C
e cerAty1.NW_012002512v1     5336498   0 +  26952557 C
e macNem1.NW_012012355v1    16324079   0 +  18395747 C
e macFas5.chr6             124325434   0 + 181584905 C
e rheMac8.chr6             122901813   0 + 180051392 C
e otoGar3.GL873679           3134121   0 +   4132165 C
e aotNan1.NW_018505940v1    13278878   0 -  42888418 C
e cebCap1.NW_016107590v1       78192 283 -   3089952 I
e dasNov3.JH567306           2699433  10 +   3667625 I
e mm10.chr18                55570897   0 +  90702639 C
e saiBol1.JH378106          55774957 273 -  71252344 I
e calJac3.chr2             123731684 6727 - 204313951 I
e colAng1.NW_012119644v1      375232   0 -   1175262 C
e nomLeu3.chr2             139917030   0 + 163208435 C

a score=42988.000000
s hg38.chr5_KI270796v1_alt    152340 7 +    172708 tgtcccg
s panTro5.chr5             125261517 7 + 181907262 tgtcccg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126592338 7 + 183735486 tgtcccg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1784108 7 +   8933513 tgtccca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139917030 7 + 163208435 tgtcccg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122901813 7 + 180051392 tgtcctg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124325434 7 + 181584905 tgtcctg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16324079 7 +  18395747 tgtcctg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5336498 7 +  26952557 tgtcctg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28437126 7 +  82825804 tgtcctg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4106689 7 -   4237731 tgtcctg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      375232 7 -   1175262 tgtcctg
i colAng1.NW_012119644v1   C 0 C 0
s mm10.chr18                55570897 7 +  90702639 TATTCTG
i mm10.chr18               C 0 C 0
e micMur3.chr12             60610587 184 + 108143057 I
e canFam3.chr11             14974623 0 +  74389097 C
e proCoq1.NW_012155062v1     3645892 184 +  11683526 I
e otoGar3.GL873679           3134121 0 +   4132165 C
e aotNan1.NW_018505940v1    13278878 0 -  42888418 C
e cebCap1.NW_016107590v1       78192 283 -   3089952 I
e dasNov3.JH567306           2699433 10 +   3667625 I
e saiBol1.JH378106          55774957 273 -  71252344 I
e calJac3.chr2             123731684 6727 - 204313951 I

a score=227291.000000
s hg38.chr5_KI270796v1_alt    152347 24 +    172708 cagtattttctgtgaggataaaca
s panTro5.chr5             125261524 24 + 181907262 cagtattttctgtgaggataaaca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126592345 24 + 183735486 cagtattttctgtgaggataaaca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1784115 24 +   8933513 cagtattttctgtgaggataaaca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139917037 24 + 163208435 tagtattttctgtgaggataaaca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122901820 24 + 180051392 tagtattttctgtgaggatgaaca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124325441 24 + 181584905 tagtattttctgtgaggatgaaca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16324086 24 +  18395747 tagtattttctgtgaggatgaaca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5336505 24 +  26952557 tagtattttctgtgaggatgaaca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28437133 24 +  82825804 tagtattttctgtgaggatgaaca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4106696 24 -   4237731 tagtattttctgtgaggatgaaca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      375239 24 -   1175262 tagtattttctgtgaggatgaaca
i colAng1.NW_012119644v1   C 0 C 0
s aotNan1.NW_018505940v1    13278878 24 -  42888418 tagtgttttctgtgaggatgaaca
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3134121 24 +   4132165 tagtattttctgagaggataaaaa
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55570904 24 +  90702639 CAGCCTtttctatgaggataaaaa
i mm10.chr18               C 0 C 0
s canFam3.chr11             14974623 24 +  74389097 tagaattttctatgaggaaaaaaa
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60610587 184 + 108143057 I
e proCoq1.NW_012155062v1     3645892 184 +  11683526 I
e cebCap1.NW_016107590v1       78192 283 -   3089952 I
e dasNov3.JH567306           2699433 10 +   3667625 I
e saiBol1.JH378106          55774957 273 -  71252344 I
e calJac3.chr2             123731684 6727 - 204313951 I

a score=761814.000000
s hg38.chr5_KI270796v1_alt    152371 109 +    172708 t-cta---tatttgcacagtctaatgtgactgtcgctagacacatgtggctattgagcaattaaaatgtgggtagtttgactgaggctatgaattttt-----gttttattttattat
s panTro5.chr5             125261548 109 + 181907262 t-cta---tatttgcacagtctaatgtgactgtcgctaggcacatgtggctattgagcaattaaaatgtgggtagtttgactgaggctgtgaattttt-----gttttattttattat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126592369 106 + 183735486 t-ctt---tatttgcacagtctaatgtgactgtcgctaggcacatgtggctattgagcaattaaaatgtgggtagtttgactgaggctatgaattttt-----gttttatt---ttat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1784139 109 +   8933513 t-cta---tatttgcacagtctaatgtgactgtcgctaggcacatgtggctattgagcaattaaaatgtgggtagtttgactgaggctatgaattttt-----gttttattttattat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139917061 104 + 163208435 t-cta---tatttgcacagtctaatgtgactgtcgctaggcacatgtggctactgagcaattaaaatgtgggcagtttgattgaggctatgaattttt-----gtttta-----ttat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122901844 102 + 180051392 t-ctg---tatttgcactgtccaa---ggccatcgctaggcacatgtggctattgcacaattaaaatgtgggtagtt----tgaggatatgaattttt-----gttttattttattat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124325465 102 + 181584905 t-ctg---tatttgcaccgtccaa---ggccatcgctaggcacatatggctattgcacaattaaaatgtgggtagtt----tgaggatatgaattttt-----gttttattttattat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16324110 102 +  18395747 t-ctg---tatttgcaccatccaa---ggccatcgctaggcacatgtggctattgcacaattaaaatgtgggtagtt----tgaggatatgaattttt-----gttttattttattat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5336529 102 +  26952557 t-ctg---tatttgcaccgtccaa---ggccatcgctaggcacatgtggctattgcacaattaaaatgtgggtagtt----tgaggatatgaattttt-----gttttattttattat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28437157 102 +  82825804 t-ctg---tatttgcaccatccaa---ggccatcgctaggcacatgtggctattgcgcaattaaaatgtgggtagtt----tgaggatatgaattttt-----gttttattttattat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4106720 102 -   4237731 t-ctg---tatttgcaccgtccaa---ggccatcgctaggcacatgtggctattgcacaattaaaatgtgggtagtt----tgaggatatgaattttt-----gttttattttattat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      375263 102 -   1175262 t-cta---tatttgcactgtccaa---ggccatcgctaggcacatgtggctattgcacaattaaaatgtgggtagtt----tgaggatacgaattttt-----gttttattttattat
i colAng1.NW_012119644v1   C 0 C 0
s aotNan1.NW_018505940v1    13278902 109 -  42888418 t-cta---tgttcgcgctacccgatataacagttgttaggcacatgtggctgttgagcaagtaaaatgtgggtagtttgactgaggctatgaattttt-----cctttattttattct
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3134145 107 +   4132165 t-gtgccttacttgcactgcccgatgtggtagtcacgaggcacatgtggctttcagacaatcaggg-gtgggtagtt----tgagcttctgaattttt-----accttattttgttat
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55570928 113 +  90702639 t-gtt---ctctttctgcttccaatatgatagtaactagacacagatggctcttgagtagttaaaatattggtagtttggtcatggatctgtattcttaaatcgttttctttaatgg-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14974647 111 +  74389097 tgctc---catttgcactgcctaacacgatagccactaggaacatgtggctattgggcaattgaaatgtgcatagtcaatgtggggatgtgaattttt----tcttttatttcattat
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2699443  77 +   3667625 t-cta---tatttgcactaaccaatatgataaccactaggcacatgtgcttgtcaaatgcttaaaat--------------------------TTTTT-----ATTTC------TTAT
i dasNov3.JH567306         I 10 C 0
e micMur3.chr12             60610587 184 + 108143057 I
e proCoq1.NW_012155062v1     3645892 184 +  11683526 I
e cebCap1.NW_016107590v1       78192 283 -   3089952 I
e saiBol1.JH378106          55774957 273 -  71252344 I
e calJac3.chr2             123731684 6727 - 204313951 I

a score=646865.000000
s hg38.chr5_KI270796v1_alt    152480 68 +    172708 aattaatttaa-atttttaatgaccaaataggcctagtaattatcatattgTATTG-CC-AATAGAGAGGT
s panTro5.chr5             125261657 68 + 181907262 aattaatttaa-atttttaatgaccaaataggcctagtaattatcatattgTCTTG-CC-AATAGAGAGGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126592475 68 + 183735486 aattaatttaa-atttttaatgaccaaataggcctagtaattatcatattgTATTG-CC-AATAGAGAGGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1784248 68 +   8933513 aattaatttaa-atttttaatgaccaaataggcctagtaattatcatattgTATTG-CC-AATAGAGAGGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139917165 66 + 163208435 aattaatttaa-atttttaatgaccaaataggcctagtaattatcatattggattg-cC-AAT--AGTGGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122901946 66 + 180051392 aattaatttaa-atttttaatgaccaaataggccttttaattatcatattggattg-cC-AAT--AGAGGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124325567 66 + 181584905 aattaatttaa-atttttaatgaccaaataggccttttaattatcatattggattg-cC-AAT--AGAGGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16324212 66 +  18395747 aattaatttaa-atttttaatgaccaaataggccttttaattatcatattggattg-cC-AAT--ACAGGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5336631 66 +  26952557 aattaatttaa-atttttaatgaccaaataggccttttaattatcatattggattg-cC-AAT--AGAGGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28437259 66 +  82825804 aattaatttaa-atttttaatgaccaaataggccttttaattatcatattggattg-cC-AAT--AGAGGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4106822 66 -   4237731 aattaatttaa-atttttaatgaccaaataggccttttaattatcatattggattg-cC-AAT--AGAGGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      375365 66 -   1175262 cattaattcaa-atttttaatgaccaaataggccttttaattatcatattggattg-cC-AAT--AGAGGT
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55775230 67 -  71252344 aattaatttaaaatttttaatGACCTAATAGACCTAGTAATTATCATATTAGATTG-CC-AAT--AGAAGT
i saiBol1.JH378106         I 273 C 0
s cebCap1.NW_016107590v1       78475 67 -   3089952 AATTAATTTAACATTTTTAATGACCAAATAGGCCTAGTAATTATCATATTAGATTG-CC-AAT--AGAGGT
i cebCap1.NW_016107590v1   I 283 C 0
s aotNan1.NW_018505940v1    13279011 66 -  42888418 aattaatttaa-atttttaatgaccaaataggcctagtaattatcatattagattg-cC-AAT--AGAGGT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3134252 67 +   4132165 gattaatttaa-attcttcatgactacatatgtctagtggtacttctattgtacgaccc-aAT--GGCTAT
i otoGar3.GL873679         C 0 I 2
s mm10.chr18                55571041 67 +  90702639 accaaatttta-aatgtgaatgactacctatgcctaacatctatgagattagacagTTC-CAT--AGATGC
i mm10.chr18               C 0 I 4
s canFam3.chr11             14974758 67 +  74389097 aattaatttaa-aattttaatcaccacctgttccttgtggttagcctactgggcaa-cCAAAT--AGATGC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2699520 62 +   3667625 AATTAATGTGT----TTTAATTATCACATGGGGCTAGTCATTACCGTATGGAGAGT-GC-AAC--AGAAG-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60610587 184 + 108143057 I
e proCoq1.NW_012155062v1     3645892 184 +  11683526 I
e calJac3.chr2             123731684 6727 - 204313951 I

a score=811829.000000
s hg38.chr5_KI270796v1_alt    152548 59 +    172708 AAGGCCT--------------------CCTGGGCCTTTTTCCTGAGGCTGAGAAATCTATT----------------TCAGTTCTTAATGGAAAC
s panTro5.chr5             125261725 59 + 181907262 AAGGCCT--------------------CCTGGGCCTTTTTCCTGAGGCTGAGAAATCTATT----------------TCAGTTCTTAATGGAAAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126592543 59 + 183735486 AAGGCCT--------------------CCTGGGCCTTTTTCCTGAGGCTGAGAAATCTATT----------------TCAGTTCTTAATGGAAAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1784316 59 +   8933513 AAGGCCT--------------------CCTGGGCCTTTTTCCTGAGGCTGAGAAATCTATT----------------TCAGTTCTTAATGGAAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139917231 75 + 163208435 AAGGCCT--------------------CCTGGGCCTTTTTCCTGAGCCTGAAAAATCAGTTCAGTTCTTAATGGAAATCAGTTCTTAATGGAAAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122902012 59 + 180051392 AAGGCCT--------------------CCTGGGCCTTTTTCCTGAGCCTGAAAAATCTATT----------------TCAGTTCTTAATGGAAAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124325633 59 + 181584905 AAGGCCT--------------------CCTGGGCCTTTTTCCTGAGCCTGAAAAATCTATT----------------TCAGTTCTTAATGGAAAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16324278 59 +  18395747 AAGGCCT--------------------CCTGGGCCTTTTTCCTGAGCCTGAAAAATCTATT----------------TCAGTTCTTAATGGAAAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5336697 59 +  26952557 AAGGCCT--------------------CCTGGGCCTTTTTCCTGAGCCTGAAAAATCTATT----------------TCAGTTCTTAATGGAAAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28437325 59 +  82825804 AAGGCCT--------------------CCTGGGCCTTTTTCCTGAGCCTGAAAAATCTATT----------------TCAGTTCTTAATGGAAAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4106888 59 -   4237731 AAGGCCT--------------------CCTGGGCCTTTTTCCTGAGCCTGAAAAATCTATT----------------TCAGTTCTTAATGGAAAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      375431 59 -   1175262 AAGGCCT--------------------CCTGGGCCTTTTTCCTGAGCCTGCAAAATCTATT----------------TCAGTTCTTAATGGAAAC
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55775297 59 -  71252344 AAGGCCT--------------------CCTGGGCCTTTTTCCTGAGCCTGAAAAATCTAAT----------------TCAGTTCTCATTGGAAAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       78542 59 -   3089952 AAGGCCT--------------------CCTGGGCCTTTTTCCTGAGGCTGAAAAGTCTAAT----------------TCAGTTCTCATTGGAAAC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13279077 59 -  42888418 AAGGCCT--------------------CCTGGGCCTTTTTACTGAGCCCGAAAAGTCTAAT----------------TCACTTCTCATTGGAAAC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60610771 59 + 108143057 AAGGCTT--------------------CCTAGGCCTTTTTACTGAGCCTGAAAAATCTATT----------------TAAATTTTTAATGGAAAC
i micMur3.chr12            I 184 I 98
s proCoq1.NW_012155062v1     3646076 59 +  11683526 AAGGCCT--------------------CCTAGGCCTTTTTAATGACCCTGAAAAATCTATT----------------TAAGTTCTTAATGGAAAC
i proCoq1.NW_012155062v1   I 184 C 0
s otoGar3.GL873679           3134321 59 +   4132165 AAGGCAT--------------------CCTAGGCCTTTTAACTAAGACTGAAACGGCTATT----------------TCAGTTCTTAAAGTACAT
i otoGar3.GL873679         I 2 C 0
s mm10.chr18                55571112 48 +  90702639 AACACCC--------------------CTCAG-----------AAGTCCAAAGAGCATGTT----------------TCAATCCTTCATGGAATT
i mm10.chr18               I 4 C 0
s canFam3.chr11             14974825 59 +  74389097 AAAGTCT--------------------CCCAGGCTTCTGTCCTGAGTCTGAAAAGTCAGTT----------------TCAGTACTTAATGGAAAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2699582 79 +   3667625 AAGGTCTTTAAGAGTCCCCTTCTTTAGCCTAGGCTTCTGACCTGAACTTGAACGATTTATT----------------TCAGTTCTTGGTGGAAAA
i dasNov3.JH567306         C 0 C 0
e calJac3.chr2             123731684 6727 - 204313951 I

a score=326438.000000
s hg38.chr5_KI270796v1_alt    152607 26 +    172708 TCGCAACATTGAGATGTCCTCTAGGA
s panTro5.chr5             125261784 26 + 181907262 TCGCAACATTGAGATGTCCTCTAGGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126592602 26 + 183735486 TCGCAACATTGAGATGTCCTCTAGGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1784375 26 +   8933513 TTGCAACATTGAGATGTCCTCTAGGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139917306 26 + 163208435 TCGCAACATTGAGATGTCCTCTAGGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122902071 26 + 180051392 TCCCAACATTGAGATATCCTCTAGGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124325692 26 + 181584905 TCCCAACATTGAGATATCCTCTAGGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16324337 26 +  18395747 TCCCAACATTGAGATATCCTCTAGGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5336756 26 +  26952557 TCCCAACATTGAGATATCCTCTAGGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28437384 26 +  82825804 TCCCAACATTGAGATATCCTCTAGGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4106947 26 -   4237731 TCCCAACATTGAGATATCCTCTAGGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      375490 26 -   1175262 TCCCAACATTGAGATATCCTCTAGGA
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55775356 26 -  71252344 TCCCAACTTTGAGATATTCTCTAGGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       78601 26 -   3089952 TCCCAACTTTGGGATGTTCTCTAGGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13279136 26 -  42888418 TCCCAACTTTGAGATGTTCTCTAGGA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3646135 26 +  11683526 TTCCAGCTTTGACATGTCCTTTAGGA
i proCoq1.NW_012155062v1   C 0 I 220
s otoGar3.GL873679           3134380 25 +   4132165 TTCCGGCACTGA-GTATCCTCTAGGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55571160 25 +  90702639 -TCCGAGGTCTAAGTGTCTTCTAGGA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14974884 26 +  74389097 TTTCAGGACTGAGGTATTCCCTAAAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2699661 26 +   3667625 TTCTAGCATTGAAGTATCCTCTAGGA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60610830 98 + 108143057 I
e calJac3.chr2             123731684 6727 - 204313951 I

a score=382654.000000
s hg38.chr5_KI270796v1_alt    152633 71 +    172708 GTTACAGTAGACAAGACCCTGCTC-AAAGAGAAATTTA-TTGGCCCAGCAGTTGGGCTTTGAGGTCCCTGTAT
s panTro5.chr5             125261810 71 + 181907262 GTTACAGTAGACAAGACCCTGCTC-AAAGAGAAATTTA-TTGGCCCGGCAGTTGGGCTTTGAGGTCCCTGTAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126592628 71 + 183735486 GTTACAGTAGACAAGACCCTGCTC-AAAGAGAAATTTA-TTGGTCCGGCAGTTGGGCTTTGAGGTCCCTGTAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1784401 71 +   8933513 GTTACAGTAGACAAGACCCTTCTC-AAAGAGAAATTTA-TTGGCCCAGCAGTTGGGCTTTGAGGTCCCTGTAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139917332 62 + 163208435 GTTGCAGTAGACAAGATCCTGCTC-AAAGAGAAATGTA-TTGGCCCAGCAGTTGGACTTTGAGG---------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122902097 46 + 180051392 GTTACAGTAGAC---------------------------TTGTCCTGGCAGTTGGACTTTGAGGACCTTATAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124325718 46 + 181584905 GTTACAGTAGAC---------------------------TTGTCCTGGCAGTTGGACTTTGAGGACCTTATAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16324363 46 +  18395747 GTTACAGTAGAC---------------------------TTGTCCTGGCAGTTGGACTTTGAGGACCTTATAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5336782 46 +  26952557 GTTGCAGTAGAC---------------------------TTGTCCTGGCAGTTGGACTTTGAGGACCTTATAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28437410 72 +  82825804 GTTGCAGTAGACAAGACCCTACTC-AAGAGAGAAATTTATTGTCCTGGCAGTTGGACTTTGAGGACCTTATAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4106973 46 -   4237731 GTTGCAGTAGAC---------------------------TTGTCCTGGCAGTTGGACTTTGAGGACCTTATAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      375516 72 -   1175262 GTTGCAGTAGACAAGACCCCACTC-AAGAGAGAAATTTCTTGTCCTGGCAGTTGGACTTTGAGGACCTTATAT
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55775382 70 -  71252344 ATTGCAGTAGACACAACCTTACTT--GAGAGAAATCTA-TTGTCCCAGCAGTTGGACTTGGAGAACCTTGTAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       78627 70 -   3089952 ATTGCAGTAGACATAACCTTACTC--GAGAGAAATCTA-TTGTCCTAGCAGTTGGACTTGGAGAACCTTGTAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13279162 72 -  42888418 ATTGCAGTAGACACAACCTTACTCAAGAGAGAAATCTA-TTGTCCCAGCAGTTGGACTTTGAGAACCTTGTTT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3134405 71 +   4132165 ATTCTTTCCGATAGGACCTGGCTCAAGACAGAAGTGTG-TGGTCCCAACAAATAGACTTTGAT-ACCTTAAGC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55571185 65 +  90702639 ATGTCTTCATACTATACCTTGATC-AAAAGGAACATTG-GTGATCTCGAAGG------TTGAGGACACTGctt
i mm10.chr18               C 0 I 54
s canFam3.chr11             14974910 71 +  74389097 AGCCCCTCAGACAAGGCTGGTTTG-AGAGAGAAATTTG-TGGTCCTAGCAGCTGGGCCCTAAGGACTTTGTGC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2699687 72 +   3667625 ACAACTTTAGACAAAACTTGGATCAAGAGAGAAATCTG-TTGTCCCAGAAGCTGGTTTCTGAGAACCTTGTGT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60610830 98 + 108143057 I
e proCoq1.NW_012155062v1     3646161 220 +  11683526 I
e calJac3.chr2             123731684 6727 - 204313951 I

a score=1530625.000000
s hg38.chr5_KI270796v1_alt    152704 147 +    172708 CCACTCCATCTCGAAGGTACCAGCCCATTTATACATCTTAATTGTCCTAATATTAGGTTTGGAGTTTAGGACTTGAAGTTGTTTGACTCCAGGGAGCCTCATTTTTTGTTCTATTTTAG---GCCAATTAA-TC-CCTGGGGCATGC-TCTAT-
s panTro5.chr5             125261881 147 + 181907262 CCACTCCATCTCGAAGGTACCAGCCCATTTCTACATCTTAATTGTCCTAATATTAGGTTTGGAGTTTAGGACTTGAAGTTGTTTGACTCCAGGGAGCCTCATTTTTTGTTCTATTTTAG---GCCAATTAA-TC-CCTGGGGCATGC-TCTAT-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126592699 147 + 183735486 CCACTCCATCTCGAAGGTACCAGCCCATTTCTACATCTTAATTGTCCTAATATTAGGTTTGGAGTTTAGGACTTGAAGTTGTTTGACTCCAGGGAGCCTCATTTTTTGTTCTATTTTAG---GCCAATTAA-TC-CCTGGGGCATGC-TCTAT-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1784472 147 +   8933513 CCACTCCATCTCGAAGGTACCAGCCCATTTATACATCTTAATTGTCCTAATATTAGGTTTGGAGATTAGGACTTGAAGTTCTTTGACTCCAGGGAGCCTCATTTTTTGTTCTATTTTAG---GCCAATTAA-TC-CCTGGGGCATGC-TCTAT-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139917394 145 + 163208435 --ACTCCAGCTCCAAGGTACCAGCCCATTTGTACATCTTAATCGTCCTAATATTAGGTTTGGAGTTTAGGACTTGAAGTTGTTTGACTCCAGGGAGCCTCATTTTTTGTTCTATTTTAG---GCCAATTAA-TC-CCTGGGGCGTGA-TCTAT-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122902143 146 + 180051392 CAACTCCATCTCCAAGGTACCAGCCCATTCATACATCTTAATTGTCCTGATATTAGGCTTGGAGTTTAGGACTTGAAGTTGTTTGACTCCAGGGAGCCTCA-TTTTTGTTCTATTTTAG---GCCAATTAA-TC-CCTGGGGCATTA-TCTCT-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124325764 146 + 181584905 CAACTCCATCTCCAAGGTACCAGCCCATTCATACATCTTAATTGTCCTGATATTAGGCTTGGAGTTTAGGACTTGAAGTTGTTTGACTCCAGGGAGCCTCA-TTTTTGTTCTATTTTAG---GCCAATTAA-TC-CCTGGGGCATTA-TCTCT-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16324409 146 +  18395747 CAACTCCATCTCCAAGGTACCAGCCCATTCATACATCTTAATTGTCCTGATATTAGGCTTGGAGTTTAGGACTTGAAGTTGTTTGACTCCAGGGAGCCTCA-TTTTTGTTCTATTTTAG---GCCAATTAA-TC-CCTGGGGCATTA-TCTCT-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5336828 146 +  26952557 CAACTCCATCTCCAAGGTACCAGCCCATTCATACATCTTAATTGTCCTGATATTAGGCTTGGAGTTTAGGACTTGAAGTTGTTTGACTCCAGGGAGCCTCA-TTTTTGTTCTATTTTAG---GCCAATTAA-TC-CCTGGGGCATTA-TCTCT-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28437482 145 +  82825804 CAACTCCATCTCCAAGGTACCAGCCCATTCATACATCTTAATTGTCC-GATATTAGGCTTGGAGTTTAGGACTTGAAGTTGTTTGACTCCAGAGAGCCTCA-TTTTTGTTCTATTTTAG---GCCAATTAA-TC-CCTGGGGCATTA-TCTAT-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4107019 146 -   4237731 CAACTCCATCTCCAAGGTACCAGCCCATTCATACATCTTAATTGTCCTGATATTAGGCTTGGAGTTTAGGACTTGAAGTTGTTTGACTCCAGGGAGCCTCA-TTTTTGTTCTATTTTAG---GCCAATTAA-TC-CCTGGGGCATTA-TCTCT-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      375588 146 -   1175262 CAACTCCATCTCCAAGGTACCAGCCCATTCATACATTTTAATTGTCATAATATTAGGCTTGGAGTTTAGGACTTGAAGTTGTTTGACTCCAGGGAGCCTCA-TTTTTGTTCTATTTTGG---GCCAATTAA-TC-CCTGGGGCATTA-TCTAT-
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55775452 147 -  71252344 CCACTCCATCTCCAAGGTACCAG-CCATTCTTGCATCTTAATTGTCCACGTATTAGTTTTGGAGTTTAGGACTTGAAGTTGTTTGACTCCAGGGATCCTCA-TTCTTGTTCTAATTTAG---GCCAAATAATTT-CCTGGGGTGTGATTCTAT-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       78697 147 -   3089952 CCACTCCATCTCCAAGGTACCAG-CCATTCATGCATCTTAATTGTCCTAATATCAGTTTTGGAGTTTAAGACTTGAAGTTGTTTGACTCCAGGGAGCCTCA-TTCTTGTTATAATTTAG---GCCAATTAATTT-CCTGGGGTATGATTCTAT-
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13279234 147 -  42888418 CCACTCCATCTCCAAGGTACCAG-CCATTCATGCATCTTAATTGTCCTAATATTAGTTTTGGAGTTTAGGACTTGAAGTTGTTTGACTCCAGGGAGCCTCA-TTCTTGTTCTAATTTAG---GCCAATTAATTT-CCTGGGATGTGATTCTAT-
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60610928 148 + 108143057 CCACTCCATCTACAAGGTACTAGTTCACTAATGCATCATAATTGTCCCATTATTAAATTTGGGGTTTAGGAATTGAAGTTGTATGACTCCAGGAATCCTCA-TTTTGGTCTTATTTTAT---GTCACTTCA-TCTCTTGGGGTATGATTCTAT-
i micMur3.chr12            I 98 I 1
s otoGar3.GL873679           3134476 148 +   4132165 CCATTCCATCTCTAGGGCACTAATTCACTTATGTATCCTGAGTGTCCTATTATTTAATTTGGGGTTTAAGACTTGAACTTGTATGACTCCTGGGATCCTCA-TTCTGGCCTTATTTTAT---GTCAGTTCA-TCTCCTGGCACATGCTTCTGT-
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55571304 137 +  90702639 cttcttcttcttcttcttcACATCTTACTCATGCATT----TTGTCCTTATGTTAGGTTTGGGGGTTAGAACTTGAAATTATGTGACTTCATTGATCCCCG-----------ATATTAGATTGTTGATTTA-TCTTCTGTGGCTCCATTCTGT-
i mm10.chr18               I 54 I 1
s canFam3.chr11             14974981 143 +  74389097 TCACTCCATCTCCAAGGTGTCAGACCATTTATGTATCATAGTTGTCTCAATATTAGGT-----ACTTAGGACTTGAGGTTACATGACTCCAGGGATCTTCA-TTCTTGTCTTCTTTTAG---GCCAGTCCA-CCTCCTGGGGCACAATTCTGT-
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2699759  51 +   3667625 --------------------------------------------------------------------------------------------------CTG-TCCTTGTCTTATTTTAT---ATCAGTGCA-TATCTTGGCCCATAATTCTGAG
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3646161 220 +  11683526 I
e calJac3.chr2             123731684 6727 - 204313951 I

a score=1737360.000000
s hg38.chr5_KI270796v1_alt    152851 132 +    172708 AAATGTGAATGAATGACA--------------CCCTCTGAAGTTGTGTGACATT----------GGTGTGTACACAAGATATTTGTC--------------------AATTATCTAGACTCAAGAT-AATTTGCTCTCCTGC-TTTTT--GGGCTCTCCTGCTTTCTCATATAGTCATGA
s panTro5.chr5             125262028 132 + 181907262 AAATGTGAATGAATGACA--------------CCCTCTGAAGTTGTGCGACATT----------GGTGTGTACACAAGATATTTGTC--------------------AATTATCTAGACTCAAGAT-AATTTGCTCTCCTGC-TTTTT--GGGCTCTCCTGCTTTCTCATATAGTCATGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126592846 132 + 183735486 AAATGTGAATGAATGACA--------------CCCTCTGAAGTTGTGCGACATT----------GGTGTGTACACAAGATATTTGTC--------------------AATTATCTAGACTCAAGAT-AATTTGCTCTCCTGC-TTTTT--GGGCTCTCCTGCTTTCTCATATAGTCATGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1784619 132 +   8933513 AAATGTGAATGAATGACA--------------CCCTCTGAAGTTGTGCGACATT----------GGTGTGTACACAAGATATTTGTC--------------------AATTATCTAGACTCAAGAT-AATTTGCTCTCCTGC-TTTTG--GGGCTCTCCTGCTTTCTCATATAGTCATGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139917539 132 + 163208435 AAATGTGAATGAATGACA--------------CCCTCTGAAGTTGTGTGACACT----------GGTGTGTACACAAGATATTTGGC--------------------AATTATCTAGACTCAAGAT-AATTTGCTCTCCTGC-TTTTT--GGGCTCTCCTGCTTTCTCATATAGTCATGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122902289 132 + 180051392 AAATATGAATGAATGACA--------------CCCGCTGAAGTTGTGCGACACT----------GGTGTGTATACAAGACATTTGGC--------------------AATTATCTAGACTCAAGAT-AATTTGCTCTCCTGC-TTTTT--GGGCTTCACTGCTTTCTCATATAGTCATGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124325910 132 + 181584905 AAATATGAATGAATGACA--------------CCCGCTGAAGTTGTGCGACACT----------GGTGTGTATACAAGACATTTGGC--------------------AATTATCTAGACTCAAGAT-AATTTGCTCTCCTGC-TTTTT--GGGCTTCCCTGCTTTCTCATATAGTCATGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16324555 132 +  18395747 AAATATGAATGAATGACA--------------CCCGCTGAAGTTGTGCGACACT----------GGTGTGTATACAAGACATTTGGC--------------------AATTATCTAGACTCAAGAT-AATTTGCTCTCCTGC-TTTTT--GGGCTCCCCTGCTTTCTCATATAGTCATGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5336974 132 +  26952557 AAATATGAATGAATGACA--------------CCCGCTTAAGTTGTGCAACATT----------GGTGTGTATACAAGACATTTGGC--------------------AATTATCTAGACTCAAGAT-AATTTGCTCTCCTGC-TTTTT--GGGCTCCCCTGCTTTCTCATATAGTCATGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28437627 132 +  82825804 AAATGTGAATGAATGACA--------------CCCTCTGAAGTTGTGCGACATT----------GGTGTGTATACAAGATATTTGGC--------------------AATTATCTGGACTCAAGAT-AATTTGCTCTCCTGC-TTTTT--GGGCTCTCCTGCTTTCTCATATAGTCATGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4107165 132 -   4237731 AAATATGAATGAATGACA--------------CCCGCTGAAGTTGTGCGACATT----------GGTGTGTATACAAGACATTTGGC--------------------AATTATCTAGACTCAAGAT-AATTTGCTCTCCTGC-TTTTT--GGGCTCCCCTGCTTTCTCATATAGTCATGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      375734 132 -   1175262 AAATGTGAATGAATGACA--------------CCCTCTGAAGTTGTGCGACATT----------GGTGTGTATACAAGATACTTGGC--------------------AATTATCTAGACTCAAGAT-AATTTTCTCTCTTGC-TTTTT--GGGCTCTCCTGCTTTCTCGTATAGTCATGA
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55775599 132 -  71252344 AAATGTGAATGAATGACA--------------CCCTCTGAAGTTGTGTGACATT----------GGTATGTACACAAGATATTTGGC--------------------AGTTTTCTAGACTCGAGAT-AATTTGCTCCCCTGC-TTTTT--GGGCTCTCCTGCTTTCTCATATAGTCATGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       78844 132 -   3089952 AAATGTGAATGAATGAAA--------------CCCTCTGAAGTTGTGTGACATT----------GATATGTACACAAGATATTTGGC--------------------AGTTATCTAGACTCGAGAT-AATTTGCTCTCCTGC-TTTTT--GGGCTCCCCTGCTTTCTCATATAGTCATGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13279381 132 -  42888418 AAATGTGAATGAATGACA--------------CCCTCTGAAGTTGTGTGACATT----------GGTATGTACACAAGATATTTGGC--------------------AGTTATCTAGACTCGAGAT-AATTTGCTCTCCTGC-TTTTT--GGGCTCTCCTGCTTTCTCATATAGTCATGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60611077 132 + 108143057 AAATGTGAAGGAATGGTG---------------CCTCTGGAGTTGTGCAGCATT----------GGTATGTACACAGGACATTTGAC--------------------AGTTTTCTAGACTTAAGAG-AAATTGTTCTTGTGCATTTTG--GGGATCTACTGATTTCTCATATGGTCACAA
i micMur3.chr12            I 1 C 0
s proCoq1.NW_012155062v1     3646381 133 +  11683526 AAATGTGAATGAATGGTG--------------CCCTCTGGAGTTGTGCAGCATT----------GGTATGTACACAGGACATTTGAC--------------------AAATTTCTAGACTTAAGAG-AAATTGTTCTCCTGCATTTTG--GGGATCTACTGATTTCTCATATGGTCATGA
i proCoq1.NW_012155062v1   I 220 C 0
s otoGar3.GL873679           3134625 133 +   4132165 AAATGTGAATGAATGATG--------------CCCTCTGGAATTGTGTAGAATT----------GGTGTATACACAGAGCATGTGAC--------------------AATTTTCTAGACTGAAGAG-AAATTTTTCTCTTATGTTTTA--GGGCTCTCCTGATTTTCCATATGGTCATGA
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55571442 117 +  90702639 AAATTTGAGTAAACAGCAAATA-------AGGTTCTTAGGGGTTGTACTGTGTT----------GCCATAGCCACAATACCTGGGGT--------------------AGTT-TTTGGA--------------GCTCATCTGC-TTTTT--GA-------TGCATTC-CATAAAGTTGTAA
i mm10.chr18               I 1 I 100
s canFam3.chr11             14975125 135 +  74389097 AAATGTGAATGAATGATG--------------CCCTCTGGAATCATGCAACCTT----------GGTGT-TACGCAAAACATCTGACA------------------AAATTTTCTAGACTCAAGAG-AAAGTAATCTCCTGC-TTTTTTGGGAGTCTCCTGTTGTCTCATGTAGTCATCA
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2699810 178 +   3667625 AAATGTGAAC-AATGACACTTACCCTCTTCCCCTCCCTAGTGTTGTGCAATGCTATGAGTCCTGGGTATGTACACAAAACATTTTACAAAATTTCTAGAGAAATAGAAATTTTCTAGACTCTAGAGAAAAAAACTTTCCTGC-TTTTGGGGGGACATCCCATTTTTTCATATGATCATGC
i dasNov3.JH567306         C 0 C 0
e calJac3.chr2             123731684 6727 - 204313951 I

a score=1402522.000000
s hg38.chr5_KI270796v1_alt    152983 107 +    172708 GTCAGGGAAGGGGAAACAGTGCTAGAGGCAGAGTAAGGTTGTGGGATCTCACCTGAACTGTGACTGAACCTCATCTTGGATAAGTTGCTTTCTAGCCTCCCTGTGTG
s panTro5.chr5             125262160 107 + 181907262 GTCGGGGAAGGGGAAACAGTGCTAGAGGCAGAGTGAGGTTGTGGGATCTCACCTGAACTGTGACTGAACCTCATCTTGGATAAGTTGCTTTCTAGCCTCCCTGTGTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126592978 107 + 183735486 GTCGGGGAAGGGGAAACAGTGCTAGAGGCAGAGTGAGGTTGTGGGATCTCACCTGAACTGTGACTGAACCTCATCTTGGATAAGTTGCTTTCTAGCCTCCCTGTGTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1784751 107 +   8933513 GTCAGGGAAGGGGAAACAGTGCTAGAGGCAGAGTGAGGTTGTGGGATCTCACCTGAACTGTGACTGAACCTCATCTTGGATAAGTTGCTTTCTAGCCTCCCTGTGTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139917671 107 + 163208435 GTCAGGGAAGGGGAAACAGTGCTAGAGGTAGAGTGAGGGTGTGGGATCCCACCTGAACTGTGACTGCACCTCATCTTGGATAAGTTGCTTTCTAGCCTCCCTGTGTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122902421 107 + 180051392 GTCAGGGAAGGGGAAACAGTGCTAGAGGCAGAGTGAGGGTGTGGGATCCCACCTGAATTGTGACTGCATCTCATCTTGGATAAGTTGCTTTCTAGCCTCCCTGTGTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124326042 107 + 181584905 GTCAGGGAAGGGGAAACAGTGCTAGAGGCAGAGTGAGGGTGTGGGATCCCACCTGAATTGTGACTGCATCTCATCTTGGATAAGTTGCTTTCTAGCCTCCCTGTGTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16324687 107 +  18395747 GTCAGGGAAGGGGAAACAGTGCTAGAGGCAGAGTGAGGGTGTGGGATCCCACCTGAATTGTGACTGCATCTCATCTTGGATAAGTTGCTTTCTAGCCTCCCTGTGTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5337106 107 +  26952557 GTCAGGGAAGGGGAAACAGTGCTAGAGGCAGAGTGAGGGTGTGGGATCCCACCTGAATTGTGACTGCATCTCATCTTGGATAAGTTGCTTTCTAGCCTCCCTGTGTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28437759 107 +  82825804 GTCAGGGAAGGTGAAGCAGTGCTAGAGGCAGAGTGAGGGTGTGGGATCCCACCTGAATTGTGACTGCATCTCATCTTGGATAAGTTGCTTTCTAGCCTCCCTGTGTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4107297 107 -   4237731 GTCAGGGAAGGGGAAACAGTGCTAGAGGCAGAGTGAGGGTGTGGGATCCCACCTAAATTGTGACTGCATCTCATCTTGGATAAGTTGCTTTCTAGCCTCCCTGTGTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      375866 107 -   1175262 GTCAGGGAAGGTGAAACAGTGCTAGAGGCAGAGTGAGGGTGTGGGATCCCACCTGAATTGTTACTGCATCTCATCTTGGGTAAGTTGCTTTCTAGCCTCCCTGTGTG
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55775731 107 -  71252344 GTCAGGGAAGGGGAAACAGTCCTAGAGGCAGAGTGAGGGTGTGGGATCCCACCTGAACTGTGACTGCACCTCATCTTGGATAAGTTGCTTTCTAGCCATCCTGTGTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       78976 107 -   3089952 GTAAGGGAAGGGGAAACAGTGCTAGAGGCAGAGTGAGGCTGTGGGATCCCACCTGAAATGTGACTCCACCTCATCTTGGGTAAGTTGCTTTCTAGCCACGTTGTGTG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13279513 107 -  42888418 GTCAGGGAAGGGGAAACAGTGCTAGAGGCAGAGTTAGGGTGTGGGATCCCACCTGAACTGTGACTGCACCTCATCTTGGATAAGTTGCTTTCTAGCCATCCTGTGTG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60611209  99 + 108143057 GTCAGGGAAGGAGAAACAGTGCGAGAGGC-------AGGTGGGGGACCCCATGTGAACTGT-ACCCTACCTCATCTTGGATAAGTTGCTTTCCTGCCTCACTGCATG
i micMur3.chr12            C 0 I 4
s proCoq1.NW_012155062v1     3646514  99 +  11683526 GTCAGGGCAGGAGAAACAGTGCTAGAGGC-------GGGTGGGGGACGCTACCTGGACTGTGACCCTACCTCATCTTAGATACGTTGCTTTCTAGCCTCACTGTGT-
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3134758  90 +   4132165 GTCAGGGAAGGAGAAATGGTGCTAGAAGCAGAGTGAGGGTGGGGG-----------------ACCCTACGTCATCATGAATAAATTGCTTTCTAGTCTCACCGTGTG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14975260  89 +  74389097 GTGAGGGAAGGGGAAACAGTGCCAGAGGGAGAGTAAGGGTGGGGGATCTGACCTGGATT----------------TTGGAT--GTCCCTTTCTAGGCACCTTCTATG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2699988 105 +   3667625 ATAAGAGAATGGGAAACAGTGCTAGAAGCAGAGTAAGAATAGGGGATCCCACCTGGCCTATACTCCTACCTCATTTTGGACAAATCACTTTCTAGCTCCTTAGTG--
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55571559 100 +  90702639 I
e calJac3.chr2             123731684 6727 - 204313951 I

a score=213402.000000
s hg38.chr5_KI270796v1_alt    153090 20 +    172708 TGTACATCCTGTCTAATTGT
s panTro5.chr5             125262267 20 + 181907262 TGTACATCCTGTCTAATTGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126593085 20 + 183735486 TGTACATCCTGTCTAATTGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1784858 20 +   8933513 TGTACATCCTGTCTAATTGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139917778 20 + 163208435 TGTACATCCTGTCTAATTGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122902528 20 + 180051392 TTTACATCCTGTCTAATTGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124326149 20 + 181584905 TTTACATCCTGTCTAATTGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16324794 20 +  18395747 TTTACATCCTGTCTAATTGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5337213 20 +  26952557 TTTACATCCTGTCTAATTGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28437866 20 +  82825804 TTTACATCCTGTCTAATTGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4107404 20 -   4237731 TTTACATCCTGTCTAATTGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      375973 20 -   1175262 TTTACATGCTGTCTAATTGC
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55775838 20 -  71252344 TGTACAGCCTGTCTAGTTGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       79083 20 -   3089952 TGTACAGCCTGTCTAGTTGC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13279620 20 -  42888418 TGTACAGCTTGTCTAGTTGC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3646613 17 +  11683526 ---ACATCCTGCCTGATCAC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3134848 18 +   4132165 --CACATCCTGCCTGATCAC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14975349 14 +  74389097 TATACTCCCTGTCT------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2700093 20 +   3667625 TGTCCATCCTATCTGATTGC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60611308  4 + 108143057 I
e mm10.chr18                55571559 100 +  90702639 I
e calJac3.chr2             123731684 6727 - 204313951 I

a score=1356183.000000
s hg38.chr5_KI270796v1_alt    153110 118 +    172708 CTCATCCCACATGTTTCTCAAGATAGGGGAATATCTGAAAGCCAGGA-GTGATTTACTGTGTAGTCCAAGGCCAGTAACTCAGCTTTCTTAAGCCAGCACCTCT--CTTGTTGAGATTTCC
s panTro5.chr5             125262287 118 + 181907262 CTTATCCCACATGTTTCTCAAGATAGGGGAATATCTGAAAGCCAGGA-GTGATTTACTGTGTAGTCCAAGGCCAGTAACTCAGCTTTCTTAAGCCAGCACCTCT--CTTGTTGAGATTTCC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126593105 118 + 183735486 CTTATCCCACATGTTTCTCAAGATAGGGGAATATCTGAAAGCCAGGA-GTGATTTACTGTGTAGTCCAAGGCCAGTAACTCAGCTTTCTTAAGCCAGCACCTCT--CTTGTTGAGATTTCC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1784878 118 +   8933513 CTTATCCCACATGTTTCTCAAGATAGGGGAATATCTGAAAGCCAGGA-GTGATTTACTGTGTAGTCCAAGGCCAGTAACTCAGCTTTCTTAAGCCAGCACCTCT--CTTGTTGAGATTTCC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139917798 118 + 163208435 CTCATCCCACATGTTTCTCAAGATAGGAGAATATCTGAAATCCAGGA-GTGATTTACTGTGTAGTCCAAGGCCAGTAACTCAGCTTTCTTAAGCCAGCACCTCT--CTTGTTGAGATTTCC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122902548 117 + 180051392 CTCATCCCACATGTTTCTCAAGATCGCAGAATATCTGAAAGGCAGGA-GTGA-TTACTGTGTAGTCCAAGGCCAGTCACTCAGGTTTCTTAAGCCATCACGTCT--CTTGTTGAGATTTCC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124326169 117 + 181584905 CTCATCCCACATGTTTCTCAAGATCGCAGAATATCTGAAAGCCAGGA-GTGA-TTACTGTGTAGTCCAAGGCCAGTCACTCAGGTTTCTTAAGCCATCACGTCT--CTTGTTGAGATTTCC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16324814 117 +  18395747 CTCATCCCACATGTTTCTCAAGATCGCAGAGTATCTGAAAGCCAGGA-GTGA-TTACTGTGTAGTCCAAGGCCAGTCACTCAGGTTTCTTAAGCCATCACGTCT--CTTGTTGAGATTTCC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5337233 117 +  26952557 CTCATCCCACATGTTTCTCAAGATCGCAGAATATCTGAAAGCCAGGA-GTGA-TTACTGTGTAGTCCAAGGCCAGTCACTCAGGTTTCTTAAGCCATCACATCT--CTTGTTGAGATTTCC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28437886 116 +  82825804 CTCAT-CGACATGTTTCTCAAGATCGTAGAATACCTGAAAGCCAGGA-GTGA-TTACTGTGTAGCCTAAGGCCAGTCACTCAGGTTTCTTAAGCCAGCATGTCT--CTTGTTGAGATTTCC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4107424 117 -   4237731 CTCATCCCACATGTTTCTCAAGATCGCAGAATATCTGAAAGCCAGGA-GTGA-TTACTGTGTAGTCCAAGGCCAGTCACTCAGGTTTCTTAAGCTATCACGTCT--CTTGTTGAGATTTCC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      375993 117 -   1175262 CTCATCCCACATGTTTCTCAAGATCGTAGATTATCTGAAAGCCAGGA-GTGA-TTACTGTGTAGTCTAAGGCCAGTCCCTCAGGTTTCTTAAGCCAGCACGTCT--CTTGCTGAGATTTCC
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55775858 117 -  71252344 TTCATCCCACATGTTTCTCAAGAAAGGAGAATATCTGAAAGCCAAGA-GTGATTTACTGTGTAGTCCAAGGCCAGTCACCCAGATTTCTTAACCCAGCACCTCT--CTTGTTGAGATTTC-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       79103 117 -   3089952 CTCATCCCACACGTTTCTCAAGAAAGGAGAATATCTGAAAGCCAAGA-GTGATTTACTGTGTAGTCCAAGGCCAGTCACTCAGATTTCTTAACCCAGCACCTCT--CTTGTTGAGATTTC-
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13279640 117 -  42888418 CTCACCCCACATGTTTCTCAAGAAAGGAGAATATCTAAAAGCCAAGA-GTGATTTACTGTGTAGTCCAAGGCCAATCACTCAGATTTCTTAACCCAGCACCTCT--CTTGTTGAGATTTC-
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60611312 118 + 108143057 CCCCTCCCATGTTGCTCTCAAGATAAGAGAAGATGTGGAAGCCAGTT-ATGATTTGCTTTGTAATCCCGGGCCATTCATTCAGATTTTTTAAGCCAGCATCTCT--GTTGCTGAGATTTCC
i micMur3.chr12            I 4 C 0
s proCoq1.NW_012155062v1     3646630 118 +  11683526 CTCCTCCCATGTTGCTCTCAAGATATGAGAAGATGTGGAAGCCAGTT-GTGATTTGCTTTGTAATCCAAGGCCATCCATTCAGATTTTTTAAGCCAGCGTCTCT--CTTGCTGGGATTTCC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3134866 118 +   4132165 CTCCTCCCATGTTTCTCTCAAGGTAGGAGAAGCTTTAGAAGCCAGAT-ATGATTGGCTTGGTAATCCGAGGCCCGTCATTAAGATTTTTAAAGCCACCATCTCT--CTTGCTGAGATTTCC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14975363  83 +  74389097 ----------------CTCAAGA-----GAAGACAGAAAAGCCAAGT-GTAA-CCACCATGTG--------------ACTCAGATCTTTTAAACCAGCTCCTCT-CCTTGCTGAGATAGCC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2700113 117 +   3667625 CTCCTTCTTTATGTCT---AAGTTAACAAAAGATCTGAGAGCCAGAATGTGACTCACTATGTTACCCAAGACCAGGCACTCAGATCTTTTAAGC-AGCACCTCTCCCTTGTCAAGGTATCA
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55571559 100 +  90702639 I
e calJac3.chr2             123731684 6727 - 204313951 I

a score=159002.000000
s hg38.chr5_KI270796v1_alt    153228 13 +    172708 TTTTGTCTATGGA
s panTro5.chr5             125262405 12 + 181907262 -TTTGTCTATGGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126593223 12 + 183735486 -TTTGTCTATGGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1784996 12 +   8933513 -TTTGTCTATGGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139917916 12 + 163208435 -TTTGTCTATGGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122902665 12 + 180051392 -TTTGTCTATGGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124326286 12 + 181584905 -TTTGTCTATGGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16324931 12 +  18395747 -TTTGTCTATGGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5337350 12 +  26952557 -TTTGTCTATGGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28438002 12 +  82825804 -TTTGTCTATGGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4107541 12 -   4237731 -TTTGTCTATGGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      376110 12 -   1175262 -TTTGTCTATGGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123738411 13 - 204313951 ttttggctgtgtt
i calJac3.chr2             I 6727 I 2
s saiBol1.JH378106          55775975 13 -  71252344 TTTTGTCTGTGGA
i saiBol1.JH378106         C 0 I 1568
s cebCap1.NW_016107590v1       79220 13 -   3089952 TTTTGTCTGTGGA
i cebCap1.NW_016107590v1   C 0 I 1548
s aotNan1.NW_018505940v1    13279757 13 -  42888418 TTTTGTCTGTGGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60611430 12 + 108143057 -TTTGTTCATAgg
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3646748 12 +  11683526 -TTTGTTCATGGG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3134984 12 +   4132165 -TCTGTTTGGGGG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14975446 12 +  74389097 -TTGGTCCATGAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2700230 12 +   3667625 -TTGTTCTGCTGG
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55571559 100 +  90702639 I

a score=76188.000000
s hg38.chr5_KI270796v1_alt    153241 5 +    172708 CTTAT
s panTro5.chr5             125262417 5 + 181907262 CTTAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126593235 5 + 183735486 CTTAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1785008 5 +   8933513 CTTAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139917928 5 + 163208435 CTTAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122902677 5 + 180051392 TTTAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124326298 5 + 181584905 TTTAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16324943 5 +  18395747 TTTAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5337362 5 +  26952557 TTTAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28438014 5 +  82825804 CTTAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4107553 5 -   4237731 TTTAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      376122 5 -   1175262 CTTAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123738426 5 - 204313951 ctTAT
i calJac3.chr2             I 2 C 0
s saiBol1.JH378106          55777556 5 -  71252344 ctTAT
i saiBol1.JH378106         I 1568 C 0
s cebCap1.NW_016107590v1       80781 5 -   3089952 ctTAT
i cebCap1.NW_016107590v1   I 1548 C 0
s aotNan1.NW_018505940v1    13279770 5 -  42888418 CTTAT
i aotNan1.NW_018505940v1   C 0 I 1561
s micMur3.chr12             60611442 5 + 108143057 ctcat
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3646760 5 +  11683526 CTCAT
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3134996 5 +   4132165 CTCAT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14975458 5 +  74389097 CTTAC
i canFam3.chr11            C 0 I 1
s dasNov3.JH567306           2700242 5 +   3667625 CTCAT
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55571559 100 +  90702639 I

a score=28277.000000
s hg38.chr5_KI270796v1_alt    153246 4 +    172708 -GATA
s panTro5.chr5             125262422 4 + 181907262 -GATa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126593240 4 + 183735486 -GATa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1785013 4 +   8933513 -GACa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139917933 4 + 163208435 -GATa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122902682 4 + 180051392 -GATA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124326303 4 + 181584905 -GATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16324948 4 +  18395747 -GATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5337367 4 +  26952557 -GATA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28438019 4 +  82825804 -GATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4107558 4 -   4237731 -GATA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      376127 4 -   1175262 -GATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123738431 4 - 204313951 -GAAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55777561 4 -  71252344 -GAAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       80786 4 -   3089952 -GAAG
i cebCap1.NW_016107590v1   C 0 C 0
s micMur3.chr12             60611447 4 + 108143057 -gata
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3646765 4 +  11683526 -GATA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3135001 4 +   4132165 -GATA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14975464 3 +  74389097 -GAA-
i canFam3.chr11            I 1 C 0
s dasNov3.JH567306           2700247 4 +   3667625 GGAA-
i dasNov3.JH567306         C 0 C 0
e aotNan1.NW_018505940v1    13279775 1561 -  42888418 I
e mm10.chr18                55571559 100 +  90702639 I

a score=3362234.000000
s hg38.chr5_KI270796v1_alt    153250 273 +    172708 AAGAACACTGGCTTGGGAGTCTCATGTTC-TGAATTCCCTAGTCCTGGATTTTTCCATCTCTTTGGTAACTCAGCTTCTCTGAACTTCAAGTTGGAATAATCAAATAAAATGATGGATGTGCAATATTATTAAATATGTTATTAAGAGCAGAAAC-AAAACTTTC-ATGGCTATAGGCTTTGATTG----------------CTCTCTTTAGGAGTAAA----------------AGTTTTCTTCTGGAGGTCCATGATATGAGATATAGGGTAGGGTCCAGAGACTGGAATGGAGCCAGGATGAACT
s panTro5.chr5             125262426 272 + 181907262 aagaacactggcttgggagtctcatgttc-tgaattccctagtcctgga-ttttccatctctttggtaactcagcttctctgaacttcaagttGGAATAATCAAATAAAATGATGGATGTGCAATATTATTAAATATGTTATTAAGAGCAGAAAC-AAAACTTTC-ATGGCTATAGGCTTTGATTG----------------CTCTCTTTAGGAATAAA----------------AGTTTGCTTCTGGAGGTCCATGATATGAGATATAGGGTAGGGTCCAGAGACTGGAATGGAGCCAGGATGAACT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126593244 272 + 183735486 aagaacactggcttgggagtctcatgttc-tgaattccctagtcctgga-ttttccatctctttggtaactcagcttctctgaacttcaagttGGAATAATCAAATAAAATGATGGATGTGCAATATTATTAAATATGTTATTAAGAGCAGAAAC-AAAACTTTC-ATGGCTATAGGCTTTGATTG----------------CTCTCTTTAGGAATAAA----------------AGTTTGCTTCTGGAGGTCCATGATATGAGATATAGGGTAGGGTCCAGAGACTGAAATGGAGCCAGGATGAACT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1785017 272 +   8933513 aagaacactggcttcggagtctcatgttc-tgaattacctagtcctgga-ttttccatctctttggtaactcagcttctctgaacttcaagttGGAATAATCAAATAAAATGATGGATGTGCAATATTATTAAATATGTTATTAAGAGCAGAAAC-AAAACTTTC-ATGGCTATAGGCTTTGATTG----------------CTCTCTTTAGGAATAAA----------------AGTTTGCTTCTGGAGGTCCATGATATGAGATATAGGGTAGGGTCCAGAGACTGGAATGGAGCCAGGATGAACT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139917937 272 + 163208435 aagaacactggcttgggagtctcatgttc-tgaattccctagtcctgga-ttttccatctctttggtaactcagcttctctgaacttcaagttGGAATAATCAAGTAAAATGATGGATGTGCAATATTATTAAATATGTTATTAAGAGCAGAAAC-AAAACTTTC-ATGGCTATAGGCTTTGATTG----------------CTCTCTTTAGGAATAAA----------------AGTTTGCCTCTGGAGGTCCATGATATGAGACATAGGGTAGGGTCCAGAGACTGGAATGGAGCCAGGATGAACT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122902686 272 + 180051392 AAGAACACTGACTTGAGAGTCTTGTGTTC-TGAATTCCATAGTCCTGGA-TTTTCCATCTCTTTGATAACTCAGCTTCTCTGAACTTCAAGTTGGAAGAATCAAATAAAATGATGAATGTGCAATATTATTAAATATGTTATTAAGAGCAGAAAC-AAATATTTC-ATGGCTATTGGCTTTGATTA----------------CTCTCTTTAGGAATAAA----------------AGTTTGCTTCTGGAGGTGCGTGATATGAGATATAGAGTAGGGTCCAGAGACTGGAATGGAGCCAGGATGAACT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124326307 272 + 181584905 AAGAACACTGACTTGAGAGTCTTGTGTTC-TGAATTCCGTAGTCCTGGA-TTTTCCATCTCTTTGATAACTCAGCTTCTCTGAACTTCAAGTTGGAAGAATCAAATAAAATGATGAATGTGCAATATTATTAAATATGTTATTAAGAGCAGAAAC-AAATATTTC-ATGGCTATTGGCTTTGATTA----------------CTCTCTTTAGGAATAAA----------------AGTTTGCTTCTGGAGGTGCGTGATATGAGATATAGAGTAGGGTCCAGAGACTGGAATGGAGCCAGGATGAACT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16324952 272 +  18395747 AAGAACACTGACTTGAGAGTCTTGTGTTC-TGAATTCCGTAGTCCTGGA-TTTTCCATCTCTTTGATAACTCAGCTTCTCTGAACTTCAAGTTGGAAGAATCAAATAAGATGATGAATGTGCAATATTATTAAATATGTTATTAAGAGCAAAAAC-AAATATTTC-ATGGCTATTGGCTTTGATTA----------------CTCTCTTTAGGAATAAA----------------AGTTTGCTTCTGGAGGTGCGTGATATGAGATATAGAATAGGGTTCAGAGACTGGAATGGAGCCAGGATGAACT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5337371 272 +  26952557 AAGAACACTGACTTGAGAGTCTTGTGTTC-TGAATTCCGTAGTCCTGGA-TTTTCCATCTCTTTGATAACTCAGCTTCTCTGAACTTCAAGTTGGAAGAATCAAATAAAATGATGAATGTGCAATATTATTAAATATGTTATTAAGAGCAGAAAC-AAACATTTC-ATGGCTATAGGCTTTGATTG----------------CTCTCTTTAGGAATAAA----------------AGTTTGCTTCTGGAGGTGCGTGATACGAGATAtagagtagggtccagagactggaatggagccaggatgaact
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28438023 272 +  82825804 AAGAACACTGGCTTGAGAGTCTTGTGTTC-TGAATTCCGTAGCCCTGGA-TTTTTCATCTGTTTGATAACTCAGCTTCTCTGAACTTCAAGTTGGAAGAATCAAATAAAATGATAGATGTGCAACATTATTAAATATGTTATTAAGAGCAGAAAT-AAAACTTTC-ATGGCTATAGGCTTTGATTG----------------CTGTCTTTAGGAATAAA----------------AGTTTGCTTCTGGAGGTGTATGATATGAGATATAGAGTAGGGTCCAGAGACTGGAATGGAGCCAGGATGAACT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4107562 272 -   4237731 AAGAACACTGACTTGAGAGTCTTGTGTTC-TGAATTCCGTAGTCCTGGA-TTTTCCATCTCTTTGATAACTCAGCTTCTCTGAACTTCAAGTTGGAAGAATCAAATAAAATGATGAATGTGCAATATTATTAAATATGTTATTAAGAGCAGAAAC-AAATATTTC-ATGGCTATAGGCTTTGATTG----------------CTCTCTTTAGGAATAAA----------------AGTTTGCTTCTGGAGGTGCGTGATATGAGATAtagagtagggtccagagactggaatggagccaggatgaact
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      376131 272 -   1175262 AAGAACACTGGCTTGAGAGTCTTGTGTTC-TGAATTCCATAGTCCTGGA-TTTTCCATCTCTTTGATAACTCAGCTTCTCTGAACTTCAAGTTGGAAGAATCAAATAAAATGATGGATGTGCAATATTATTAAATATGTTATTAAGAGCAGAAAC-AAAACTTTC-ATGACTATAGGCTTTGATTG----------------CTCTCTTTAGGAATAAA----------------AGTTTGCTTCTGGAGGTGCATGATATGACATATAGGGTCGGGTGCAGAGACTGGAATGGAGCCAGGATGAACT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123738435 244 - 204313951 AAGAACACTGGCCTGGGAGTCTCATGTTC-TGAATTCCTGAGTCCTGTA-TTTTCCATCTGTTTGGTAACTCAGCTTCTCTGAACTTTAAGTTGGGAGAATCAAATACAATTACTGGTGTTAAATATTATTAAATACATTATTAAGAGCAGAAAC-CAAACTTTC-AT-CCTGTAAGCTTTGATTT----------------CTGTCTTTAGGAAC-AA----------------AGTTTATCTCTGGA--------------------------GGTCCAGAGACTGGAATGGAGTCAAGACAAACT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55777565 244 -  71252344 aagaacactggcttgggagtctcatgctc-tgaattcctgagtcctgga-tttcccatctgtttggtaactcaccttctctgaactttaagttGGGAGAATCAAATACAATGACTGGTGTGCAATATTATTAAATACATTAGTAAGACCAGAAAC-CAAAATTTC-AT-CCTATAAGCTTTGATTG----------------CTGTCTTTAGGAAC-AA----------------AGTTTATCTCTGGA--------------------------GATCCAGAGACTGGAATGGAGTCAAGACAAACT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       80790 243 -   3089952 aagaacactggcctgggagtctcatgctc-tgaattcccaagtcctgga-ttt-ccatctgtttggttactcagcttctctgaactttaagttGGGAGAATCAAATACAATGACTGGTGGGCAATATTATTAAAAACATTATTAAGAGCAGAAAC-CAAACTTTC-AT-CCTATAAGCTTTGATTG----------------CTGTCTTTAGGAAC-AA----------------AGTTTATCTCTGGA--------------------------GGTCCAGAGACTGGAATGGAGTCAAGACAAACT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13281336 244 -  42888418 AAGAACACTGGCCTGGGAGTCTCATGCCC-TGAATTCCCATGTCATGGA-TTTTCCATCTGTTTGGTAACTCAGCTTCTCTGAAGTTTAAGTTGGGAGAATCACATACAATAACTGGTGTGCAATATTATTAAATACATTATTAAGAGCAGAAAC-CAAACTTTC-AT-CCTATAAGCTTTGATTG----------------CTGTCTTTAGGAAC-AA----------------AGTTTATCTCTGGA--------------------------GGTCCAGAGACTTGAATGGAGTCAAGACAAACT
i aotNan1.NW_018505940v1   I 1561 C 0
s micMur3.chr12             60611451 272 + 108143057 aacagcacggacttgggagtctcatgctcttgagttctctagtcctgga-ttttccatatcttaagtaactctgcttctctggacttcaagttGGGAGAATCAAATAAAATGATGGAT--GCAATATTAAGAAATATGTTATTAAGAGCAGAAAAGAAAACTTTA-AGGGCTATAGGCTTGGCTTA----------------CTGTCTTTAAAAAAAAA----------------AGTTTGCCTCTCTATGTCCATGATGTGAGATATGGGGCAGCGTCAAGAGACTGGGGTGGAGCCAGGCTGAACT
i micMur3.chr12            C 0 I 2699
s proCoq1.NW_012155062v1     3646769 261 +  11683526 AACAGCACAGACCTGGGAGTC---------TGAATTCTCTAGTCCTGGA-TTTTCCATCTCTTAAGTAATTATGCTTCTCTGAACTTCAAGTTGGGAGAATCAAATAAAATGATGGAT--GCAATATTAGTAAGTATGTTATTAAGAGCAGAAAAGAAAACTTTA-AGGGCTATAGGCCTGGCTTA----------------CTGTCTTTAAAATAAAA----------------AGTTTGCCTCTCTAGGTCCATGATGTGAGATACGGGGCAGGGTCA--AGACTGGAATGGAGCCAGGCTGAACT
i proCoq1.NW_012155062v1   C 0 I 952
s otoGar3.GL873679           3135005 264 +   4132165 AATAGCACTAGCCTAGGACTCTCATGCTC-TGAGTTCTCTAGTCTTAGA-TTTTCCAACTCTTAGGAA------CTTCTCTGAACTTCCAGTTGGGAGAACCAAATAAAAAGATGATTG-GCAGTATTAGCAAGTATGATATTAAGAGCAGAAAAGAAAACTTTC-CGGCAGAGAGGCTTGGCTTA----------------CTGTATTCAAAAATAAAATAAGTCCTTGATTTGAGATTACCTCTCTAAATCCTTGGTCTGAGATTTGGGACAGGGTCAAGAGACTGCA------------------
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14975467 253 +  74389097 AAGTACA-------------------TGC-CTGGTTCCCTAGTTCCACC-TTTTCCATTTATGATGTAACTCAGGTTCTCTGGACTTCAAGTTGACAGAACCAAATAAAATCATAGATATACAATATCATTAAGTATGTTATTAAGAGCAGAAAA-AAAGCCTTCTAGGGTCATAGGCTGT-CTTA----------------CTCTGTTTAGGAGCTGA----------------AGTTTGCTTTGGTATGTCCATGATATAAGATTTAGGGCAGGATAGAGAGAATGAAATAAAGCCACGGTGAACT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2700251 253 +   3667625 ---------------------------------AAGATCTACTCTTGGG-TTTTCCATCTATTGAGTAACTCAATTTGTCTGAACCTCAAA-TATAAGAATCGAATAAAATGATGAATGTGTAGtattattaaatatattatttaGAACAAAAG--AAATATTCC-AGAACTGTATGCTTTGCTTGTTTTCTAAGTCTAGCCCTCTCTTTAGTTGCTAA----------------AG-TTGCTTCTTTAGGTCTGTGATAATAAATTTGGGCCATGGTCAAGGAGATGGACAGGAGCCAGAATGAACT
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55571559 100 +  90702639 I

a score=919285.000000
s hg38.chr5_KI270796v1_alt    153523 80 +    172708 ATACTGCTTC--CT----CTCTCC-----ACCACTTTGG---A---GAGACCAGT-GGTGGCTCA-CAAACAGCTTTAATATCTACTCTCACTACAACt
s panTro5.chr5             125262698 80 + 181907262 ATACTGCTTC--CT----CTCTCC-----ACCACTTTGG---A---GAGACCAGT-GGTGGCTGA-CAAATGGCTTTAGTATCTACTCTCACTACAACt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126593516 79 + 183735486 ATACTGCTTC--CT----CTCTCC-----ACCACTTTGG---A---GAGACCAGT-GGTGGCTGA-C-AATGGCTTTAGTATCTACTCTCACTACAACt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1785289 80 +   8933513 ATACTGCTTC--CT----CTCTCC-----ACCACTTTGG---A---GAGACCAGT-GGTGGCTGA-CAAATGGCTTTAGTATCTACTCTCACTACAACt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139918209 80 + 163208435 ATACTGCTTC--CT----CTCTCC-----ACCACTTTGG---A---GAGACCAGT-GGTGGCTCA-CAAGTGGCTTTAGTATCTACTCTCACTACAACt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122902958 80 + 180051392 ATACTGCTTC--CT----CTCTCC-----ACCACTTTGG---A---GAGACCAGT-GGTGGCTCA-CAAGTGGCTTTAGTATCTACTCTCACTACAACt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124326579 80 + 181584905 ATACTGCTTC--CT----CTCTCC-----ACCACTTTGG---A---GAGACCAGT-GGTGGCTCA-CAAGTGGCTTTAGTATCTACTCTCACTACAACt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16325224 80 +  18395747 ATACTGCTTC--CT----CTCTCC-----ACCACTTTGG---A---GAGACTAGT-GGTGGCTCA-CAAGTGGCTTTAGTATCTACTCTCACTACAACt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5337643 80 +  26952557 atactgcttc--ct----ctctcc-----tccACTTTGG---A---GAGACCAGT-GGTGGCTCA-CAAGTGGCTTTAGTATCTACTCTCACTACAACt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28438295 80 +  82825804 ATACTGCTTC--CT----CTCTCC-----ACCACTTTGG---A---GAGACCAGT-GGTGGCTCA-CAAGTGGCTTTAGTATCTGCTCTCACTACAACt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4107834 80 -   4237731 atactgcttc--ct----ctctcc-----tccACTTTGG---A---GAGACCAGT-GGTGGCTCA-CAAGTGGCTTTAGTATCTACTCTCACTACAACt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      376403 80 -   1175262 ATACTGCTTC--CT----CTCTCC-----ACCACTTTGG---A---GAGACCAGT-GGTGGCTCA-CAAGTGGCTTTAGTATCTACTCTCACTACAACt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123738679 84 - 204313951 ACACTACCTC--TTAACTCTCTCC-----ACCACTTTGG---A---GAGACCAGT-GGTGGCTCA-CAAGTGGCTTTAGTATCTACTCTAACTACAACT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55777809 83 -  71252344 ACACTGCCTC--TT-ACTCTCTCC-----ACCACGTTGG---A---GAGACCAGT-GGTGGCTCA-CAAGTGGCTTTAGTATCTACTCTCACTACAACt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       81033 83 -   3089952 ACACTGCCTC--TT-ACTCTCTCC-----ACCACTTTGG---A---GAGACCAGT-GGTGGCTCA-CAAGTGGCTTTAGTATCTACTCTCACTACAACt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13281580 83 -  42888418 ACACTGCCTC--TT-ACTCTCTCC-----ACCACTTTGG---A---GGGACCAGT-GGTGGCTCA-GAAGTGGCTTTAGTGTCTACTCTCACTACAACt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3135269 67 +   4132165 ------CTGC--CA----CTGTCCCTGAAACCCCTTCAG---A---GAGACCAG--------------GGTGGGTCTAGTGTTTCTTCTCCCTACAGCt
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14975720 86 +  74389097 ATCCTGCCCCTACT----CTCTCC-----ATGCTTTTGGCCTA---GAGACCAGC-ACTGATTTATCAGATGGCTTTTATATCTCCTTTCACTACAGTT
i canFam3.chr11            C 0 I 396
s dasNov3.JH567306           2700504 87 +   3667625 ACACTGCCCC--TA-AC-CTCTCT-----ACCCCTTCAG---ACCTGAGACTAGCAAGTTATTTATCAAGTGGCTCTAGTATATCCTTTCTCTACAGCT
i dasNov3.JH567306         C 0 I 384
e micMur3.chr12             60611723 2699 + 108143057 I
e proCoq1.NW_012155062v1     3647030 952 +  11683526 I
e mm10.chr18                55571559 100 +  90702639 I

a score=109804.000000
s hg38.chr5_KI270796v1_alt    153603 11 +    172708 gtgaaacagtt
s panTro5.chr5             125262778 11 + 181907262 gtgaaacaggt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126593595 11 + 183735486 gtgaaacaggt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1785369 11 +   8933513 gtgaaacaggt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139918289 11 + 163208435 gtgaaacaggt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122903038 11 + 180051392 gcgaaacaggt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124326659 11 + 181584905 gcgaaacaggt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16325304 11 +  18395747 gcgaaacaggt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5337723 11 +  26952557 gcgaaacaggt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28438375 11 +  82825804 gcgaaacaggt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4107914 11 -   4237731 gcgaaacaggt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      376483 11 -   1175262 gcgaaacaggt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123738763 11 - 204313951 GTGAAAAAGTT
i calJac3.chr2             C 0 I 27
s saiBol1.JH378106          55777892 11 -  71252344 gtgaaaaagtt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       81116 11 -   3089952 gtgaaaaaggt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13281663 11 -  42888418 gtgaaaaaggt
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3135336 11 +   4132165 gtgaagcaggc
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14975806 396 +  74389097 I
e proCoq1.NW_012155062v1     3647030 952 +  11683526 I
e dasNov3.JH567306           2700591 384 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I

a score=2873833.000000
s hg38.chr5_KI270796v1_alt    153614 332 +    172708 tcaccgtgaactggttactaacttatctgaggcc-aatgaggcagaacacca--ccatacaca-acaagtta-atgaaatgggtttattagttacagataggcagcaaga---gacaacagaagcctaggactcattgtgagctggtcctcaaggctcaggaaaggtacaccagggtgg-----ttggagatttgactgcatgtgttccacttgcacaacagctgactgactctgaaaggtagcctattctgggtgttatatcttggtggtcacaagacccacttggctaaagcattgaaggacatactgttatagagtgt----------ggggagaccaaaacagagcccagg
s panTro5.chr5             125262789 332 + 181907262 tcactgtgaactggttactaacttatctgaggcc-aatgaggcagaatagca--ccatacaca-acaagtta-atgaagtgggtttattagttacagataggcagcaaga---gataacagaagcctaggactcattgtgagctggtcctcaaggctcagaaaaggtacaccagggtgg-----ctggagatttgactgcatgtgttccacttgcacaacagctgactgactctgaaaggtagcctattctgggtgttaaatcttggtggtcacaagacccacttggctaaagcattgaaggacatactgttatagagtgt----------ggggagaccaaaacagagcccagg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126593606 332 + 183735486 tcactgtgaactggttactaacttatctgaggcc-aatgaggcagaacacca--ccatacaca-acaagtta-atgaagtgggtttattagttacagataggcagcaaga---gataacagaagcctaggactcattgtgagctggtcctcaaggctcaggaaaggtacaccagggtgg-----ttggagatttgactgcatgtgttccacttgcacaacagctgactgactctgaaaggtagcctattctgggtgttatatcttggtggtcacaagacccacttggctaaagcattgaaggacatactgctatagagtgt----------ggggagaccaaaacagagcccagg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1785380 332 +   8933513 tcactgtgaactggttactaacttatctgaggcc-aatgaggcagaacacca--ccacacaca-acaagtta-atgaagtgggtttattagttacagataggcagcaaga---gataacagaagcctaggactcattgtgagctggtcctcaaggctcaggaaaggtacaccagggtgg-----ttggagatttgactgcatgtgttccacttgcacaacagctgactgactctgaaaggtagtctattctgggtgttatatcttggtggtcacaagacccacttggctaaagcattgaaggacatactgttatagagtgt----------ggggagaccaaaacagagcccagg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139918300 333 + 163208435 tcactgtgaactggttactgacttatctgaggcc-aatgaggcagaacacca--ccatacaca-acaagtta-atgaagtgggtttattagttacagataggcagcaaga---gacaacagaagcctaggactcattgtgagctggtcctcaaggctcaggaaagctacaccagggtgg-----ttggagatttgactgcgtgtgttccacttgcacaacagctgactgactctgaaaggtagcctattctgggtgttatatcttggtagtcacaagacccacttggctaaagcattgaagaacatactgttatagagtgt---------gggggggaccaaaacagagcccagg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122903049 336 + 180051392 tcactgtgaactggttactaacttatctgaggccaaatgaggcagaacacca--ccatacaca-acaagtta-atgaagtagatttattagttatagaaaggcagccaga---gacaacagaagcctaggactcattgtgagctggtcctcaaggctcaggaaagctaccccagggtgg-----ttgaagatttgactccaagtgttctacttgcacaacagctgactgactcttaaaggtaggctattctgggttttatatcttggtggtcac---accaacttggctaaaacattgaaaggcatactgtgatagagtgttgggg----ggcggggaccaagacagagcccagg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124326670 336 + 181584905 tcactgtgaactggttactaacttatctgaggccaaatgaggcagaacacca--ccatacaca-acaagtta-atgaagtagatttattagttatagaaaggcagccaga---gacaacagaagcctaggactcattgtgagctggtcctcaaggctcaggaaagctaccccagggtgg-----ttgaagatttgactccaagtgttctacttgcacaacagctgactgactcttaaaggtaggctattctgggttttatatcttggtggtcac---accaacttggctaaaacattgaaaggcatactgtgatagagtgttgggg----ggcggggaccaagacagagcccagg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16325315 332 +  18395747 tcactgtgaactggttactaacttatctgaggcc-aatgaggcagaacacca--ccatacaca-acaagtta-atgaagtagatttattagttatagaaaggcagccaga---gacaacagaagcctaggactcattgtgagctggtcctcaaggctcaggaaagctaccccagggtgg-----ttgaagatttgactccaagtgttctacttgcacaacagctgactgactcttaaaggtaggctattctgggttttacatcttggtggtcac---accaacttggctaaaacattgaaaggcatactgtgatagagtgttgggg-------ggggaccaagacagagcccagg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5337734 339 +  26952557 tcactgtgaactggttactaacttatctgaggcc-aatgaggcagaacacca--ccatacaca-acaagtta-atgaagtagatttattagttgtagaaaggcagccaga---gacaacagaagcctaggactcattgtgagctggtcctcaaggctcaggaaagctaccccagggtgg-----ttgaagatttgactccaagtgtcctacttgcacaacagctgactgactcttaaaggtaggctattctgggttttatatcttggtggtcac---accaacttggctaaaacattgaaaggcatactgtgatagagtgttgggggtgggggggggaccaagacagagcccagg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28438386 329 +  82825804 tcactgtgaactggttgctaacttatctgaggcc-aatgaggcagaacacca--ccatacaca-acaagtta-atgaagtggatttattagttatagaaaggcagccaga---gacaatagaagcctaggactcattgcgagctggtcctcaaggctcaggaaagctaccccagggtgg-----ttgaagatttgactccaagtgttctacttgcacaacagctgactgactcttaaaggtaggctattctgggttttatatcttggtggtcac---acccacttggctaaaacgttgaaaggcatactgttatagagtgt----------ggggggaccaagacagagcccagg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4107925 338 -   4237731 tcactgtgaactggttactaacttatctgaggcc-aatgaggcagaacacca--ccatacaca-acaagtta-atgaagtagatttattagttatagaaaggcagccaga---gacaacagaagcctaggactcattgtgagctggtcctcaaggctcaggaaagctaccccagggtgg-----ttgaagatttgactccaagtgttctacttgcacaacagctgactgactcttaaaggtaggctattctgggttttatatcttggtggtcac---accaacttggctaaaacattgaaaggcatactgtgatagagtgttgggg-gcggggggggaccaagacagagcccagg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      376494 331 -   1175262 tcactgtgaactggttactaacttatctgaggcc-aatgaggcagaacacca--ccatacaca-gcaagtta-atgaagtggatttattagttatagaaaggcagccaga---gacaacagaagcccaggactcattgtgagctggtcctcaaggctccggaaagctaccccagggtgg-----ttgaagatttgactccaagtgttccacttgcacaacagctgactgactcttaaaggtaggctattctgggttttatgtcttggtggtcac---acccacttggctaaaacattgaaaggcatactgttatagagtgtggggg--------gggaccaagacagagctcagg
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55777903 321 -  71252344 tcactgtgaactggttactgactta-ctgaggcc-aacgaggcagaacacca--ccataca----caagttacatgaag--------tcacttatagataggtagcaaga---gacaacagatacctaggacttactgtgagccagccctcaaggctcaggaaagctaccccaggttga-----ttggagatttgactgcatgtgttacacttgcacaacaactgactgactctgaaaggtagcctgctctgggttttatattttggtggtcacaagacccacagggctaaagcattgaaagacatcctgttatagagtgc----------gagggtaccaaaacagagcacagg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       81127 325 -   3089952 tcactgtgaactggttgctaacttatctgaggcc-aacgaggcagaacacca--ccataca----caagttacatgaag--------tcatttatagataggcagcaggagacgacaacagacacctaggactcattgtgagctggtcctcaaggctcaggaaggctaacccagggtga-----ttggagatttgactgcatgtgttacacttgcacagcaactgactgactctgaaaggtagcctgctctgggttttatatcttggtggtcacaagacccacagagctaaagcattgaaggacatcctgttatagagtgt----------tggggtaccaaaacagaacacagg
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13281674 322 -  42888418 tcactgtgaactggttactaacttatctgaggcc-aacgaggcagaacacca--ccatata----caagttatatgaag--------tcacttatagataggcagcaaga---gacaacagatacctaggactcattgtgagctggtcctcaaggctcaggaaagctacctcagggtga-----ctggagatttgattgcatgtgttacacttgcacaacaagtgactgactctgaaaggtagcctgctctgggttttatatcttggtggtcacaagacccacagagctaaagcattgaaggacatcctattatggagtgt----------gggggtaccaaaacagagcacagg
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3135347 351 +   4132165 tcactatgccatggtaactaacttacctgagtct-agtgagacagaacaccactccatatacacacaacttacatgaaacaggcttgttactttcggataggcaacaaag---gacatcagagacctaggaatcactgtgagctcatccccaaggctcggggaaactgcctggggaggggggcatggagtctttgattacacatgtcccacttgcatcgcagctaagagactccagaatgtgacccatccttgattttatacctcattgctcctaatatccatgtggctaaagtgttgaagggcatcttattatgggttgagggcttgtggagagggacaaggacagagcccagg
i otoGar3.GL873679         C 0 I 523
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14975806 396 +  74389097 I
e proCoq1.NW_012155062v1     3647030 952 +  11683526 I
e dasNov3.JH567306           2700591 384 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I
e calJac3.chr2             123738774  27 - 204313951 I

a score=2485922.000000
s hg38.chr5_KI270796v1_alt    153946 301 +    172708 tg--------------tattagtccattctcatgctgctaataaagacat---acccaagagtgggtaatttataaagaaaagaagtttaatttattcatggttttgcagagctcagaaggcctcaggaaacttacagtcatggtggaaggggaagaaaacacatccttcttcacatggcagcagcaca----------------------aaggagaagtgcacagcaaagt--gggggagggggaagcccccttataaaaccatcagatcttgtgagaactcactcattatcatgggaacagcataaaggtaactgccccaatgattcaattacctccca
s panTro5.chr5             125263121 325 + 181907262 tg--------------tattagtccattctcatgctgctaataaagacat---acccaagagtgggtaatttataaagaaaagaagtttaatgtattcatggttttgcagagctcagaaggcctcaggaaacttacaatcatggtggaaggggaagaaaacacatccttcttcacatggcagcagcacatccttcttcacatggcagcagtaaggagaagtgcacagcaaagcgggggggggggggaagcccccttataaaaccatcagatcttgtgagaactcactcattatcatgggaacagcataaaggtaactgccccaatgattcaattacctccca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126593938 323 + 183735486 tg--------------tattagtccattctcatgctgctaataaagacat---acccaagagtgggtaatttataaagaaaagaagtttaatttattcatggttttgcagagctcagaaggcctcagaaaacttacaatcatggtggaaggggaagaaaacacatccttcttcacatggcagcagcacatccttcttcacatggcagcagtaaggagaagtgcacagcaaagc--ggggtagggggaagcccccttataaaaccatcaggtcttgtgagaactcactcattatcatgggaacagcataaaggtaactgccccaatgattcaattacctccca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1785712 323 +   8933513 tg--------------tattagtccattctcatgctgctaataaagacat---acccaagagtgggtaatttataaagaaaagaagtttaatttattcacggtttcgcagagctcagaaggcctcaggaaacttacaatcatggtggaaggggaagaaaacacatccttcttcacatggcagcagcacatccttcttcacatggcagcagtaaggagtagtgcacagcaaagc--gggggagggggaagcccccttataaaaccatcagatcttgtgagaactcactcattatcatgggaacagcacaaaggtaactgccccagtgattcaattacctccca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139918633 294 + 163208435 TG-----------------tagtctgttctcatgctgctaataaagacat---acccaaaagtgggtaatttataaagaaaataagtttaattgattcatggttttgcggagctcagaaggcctcaggaaacttacaatcatggtagaaggggaagaaaacacatccttcttcacatggcagcagt-------------------------aaggagaagtgcacagcaaagc--aggggagggggaagcccccttataaaaccatcagatcttgtgagaactcacttattatcatgggaacagcataaaggtaaccg-cccaatgactcaattacctccca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122903385 311 + 180051392 TGTATTAGTCCAGGtgtattagtccgtactcatgctgctaataaagacat---acccaagagtgggtaatttatacagaaaataaatttaattgattcatggttttgcaaagctcagaaggcctcaggaaacttacgatcatggtggaaggggaagaaaacgcatcctccttcacatggcagcagt-------------------------aaggagaagtgcagagcaaagt--gggggagggggaagccccc-tataaaaccatcagatcttgtgagaactcactcattatcatgggaacagcataaaggtaaccaccccaatgactcagttacctccca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124327006 311 + 181584905 TGTATTAGTCCAGGtgtattagtccgtactcatgctgctaataaagacat---acccaagagtgggtaatttatacagaaaataaatttaattgattcatggttttgcaaagctcagaaggcctcaggaaacttacaatcatggtggaaggggaagaaaacgcatcctccttcacatggcagcagt-------------------------aaggagaagtgcagagcaaagt--gggggagggggaagccccc-tataaaaccatcagatcttgtgagaactcactcattatcatgggaacagcataaaggtaaccaccccaatgactcagttacctccca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16325647 311 +  18395747 TGTATTAGTCCAGGtgtattagtccgtactcatgctgctaataaagacat---acccaagagtgggtaatttatacagaaaataaatttaattgattcatggttttgcaaagctcagaaggcctcaggaaacttacgatcatggtggaaggggaagaaaacgcatcctccttcacatggcagcagt-------------------------aaggagaagtgcagagcaaagt--gggggagggggaagccccc-tataaaaccatcagatcttgtgagaactcactcattatcatgggaacagcataaaggtaaccaccccaatgactcagttacctccca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5338073 311 +  26952557 TGTATTAGTCCAGGtgtattagtccgtacttatgctgctaataaagacat---acccaagagtgggtaatttataaagaaaataaatttaattgattcatggttttgcaaagctcagaaggcctcaggaaacttacgatcatggtggaaggggaagaaaacgcatcctccttcacatggcagcagt-------------------------aaggagaagtgcagagcaaagt--gggggagggggaagccccc-tataaaaccatcagatcttgtgagaactcactcattatcatgggaacagcataaaggtaaccgccccaatgactcagttacctccca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28438715 311 +  82825804 TGTATTAGTCCAGGtgtattagtccgtactcatgctgctaataaagacat---acccaagagtgggtaatttataaagaaaataaatttaattgattcatggttttgcagagctcagaaggcctcaggaaacttataatcatggtggaaggggaagaaaatgcatcctccttcacatggcagcagt-------------------------aaggagaagtgcagagcaaagt--gggggagggggaagcccct-tataaaaccatcagatcttgtgagaactcactcattatcatgggaagagcataaaggtaaccaccccaatgactcagttacctccca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4108263 311 -   4237731 TGTATTAGTCCAGGtgtattagtccgtacttatgctgctaataaagacat---acccaagagtgggtaatttataaagaaaataaatttaattgattcatggttttgcaaagctcagaaggcctcaggaaacttacgatcatggtggaaggggaagaaaacgcatcctccttcacatggcagcagt-------------------------aaggagaagtgcagagcaaagt--gggggagggggaagccccc-tataaaaccatcagatcttgtgagaactcactcattatcatgggaacagcataaaggtaaccaccccaatgagtcagttacctccca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      376825 314 -   1175262 TGTATTAGTCCAGGtgtattagtccgtactcatgctgctaataaagacataccacccaagagtgggtaatttataaagaaaataagtttaattgattcatggttttgcagagctcagaaggcctcaggaaacttacaatcatggtggaaggggaagaaaacgcatcctccttcacatggcagcagt-------------------------aaggagaagtgcagagcaaagt--gggggagggggaagcccct-tataaaaccatcagatcttgtgagaactcgttcattgtcatgggaacagcataaaggtaaccaccccaatgagtcagttacctccca
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55778224 293 -  71252344 tg--------------tattaatccattttcatgccacgaataaagacat---acccaagagtcagtaatttataaaggaaagaagtttaattgattcatagttttgcagagctcaggaggcctcaggaaacttacagtcatgatggaaggggaagaaaacacatccttcttcatatggcagcagt-------------------------aaggagaagtacagagtgaagg--gg----aggggaagctcct-tataaaaccatcagatcttgtgagaactgattcactatgatgagaacagcataaagctaaccaccccaatgattcaattacctccca
i saiBol1.JH378106         C 0 I 631
s cebCap1.NW_016107590v1       81452 276 -   3089952 tg--------------tattagtccattctcatgccactaataaagacat---tcccaagagtgagtaatttataaaggaaagaagtttaattgtttcatagttttgcagagctcaagaggcctcaggaaacttacaatcatggtggaaggggaagaaaacacatccttcttcacatggcagcagt-------------------------aaggagaagtacagagtgaagg--gg----aggggaagcccct-tataaaaccatcagatcttg-----------------tgatgagaacagcataaagctaaccaccccaatgattcaattacctccca
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13281996 293 -  42888418 tg--------------tattagtccattctcatgctgctaataaagacat---acccaagagtgagtaatttataaaggaaagaattttaattgattcatagttttgcagagctcaggaggcctcaggaaactttcaatcatggtggaaggggaagaaaacacatccttcttcacatggcagcagt-------------------------aaggagaagtacagagtgaagg--ag----aggggaagcccct-tataaaaccatcagatcttgtgagaactcactcactatgatgagaacagcataaagctaaccaccccaatgattcgattacctccca
i aotNan1.NW_018505940v1   C 0 I 629
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14975806 396 +  74389097 I
e proCoq1.NW_012155062v1     3647030 952 +  11683526 I
e otoGar3.GL873679           3135698 523 +   4132165 I
e dasNov3.JH567306           2700591 384 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I
e calJac3.chr2             123738774  27 - 204313951 I

a score=27792.000000
s hg38.chr5_KI270796v1_alt    154247 2 +    172708 cc
s panTro5.chr5             125263446 2 + 181907262 cc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126594261 2 + 183735486 cc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1786035 2 +   8933513 cc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139918927 2 + 163208435 cc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122903696 2 + 180051392 cc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124327317 2 + 181584905 cc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16325958 2 +  18395747 cc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5338384 2 +  26952557 cc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28439026 2 +  82825804 cc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4108574 2 -   4237731 cc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      377139 2 -   1175262 GC
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55779148 2 -  71252344 CC
i saiBol1.JH378106         I 631 C 0
s cebCap1.NW_016107590v1       81728 2 -   3089952 cc
i cebCap1.NW_016107590v1   C 0 I 632
s aotNan1.NW_018505940v1    13282918 2 -  42888418 CC
i aotNan1.NW_018505940v1   I 629 C 0
s proCoq1.NW_012155062v1     3647982 2 +  11683526 CC
i proCoq1.NW_012155062v1   I 952 C 0
s otoGar3.GL873679           3136221 2 +   4132165 CC
i otoGar3.GL873679         I 523 C 0
s canFam3.chr11             14976202 2 +  74389097 CC
i canFam3.chr11            I 396 C 0
s dasNov3.JH567306           2700975 2 +   3667625 CT
i dasNov3.JH567306         I 384 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e mm10.chr18                55571559 100 +  90702639 I
e calJac3.chr2             123738774 27 - 204313951 I

a score=188864.000000
s hg38.chr5_KI270796v1_alt    154249 15 +    172708 atgtcTAAAGACAGC
s panTro5.chr5             125263448 15 + 181907262 atgtcTAAAGACAGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126594263 15 + 183735486 atgtcTAAAGACAGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1786037 15 +   8933513 atgtcTAAAGACAGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139918929 15 + 163208435 ATGCCTAAAGACAGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122903698 15 + 180051392 ATGCCTAAAGACAGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124327319 15 + 181584905 ATGCCTAAAGACAGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16325960 15 +  18395747 CTGCCTAAAGACAGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5338386 15 +  26952557 ATGCCTAAAGACAGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28439028 15 +  82825804 ATGCCTAAAGACAGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4108576 15 -   4237731 ATGCCTAAAGACAGC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      377141 15 -   1175262 ATGCCTAAAGACAGC
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55779150 15 -  71252344 ATGCATAAAGACAGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       82362 15 -   3089952 ATGCCTAAAGACAGC
i cebCap1.NW_016107590v1   I 632 C 0
s aotNan1.NW_018505940v1    13282920 15 -  42888418 ATGCCTGAAGACAGC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3647984 15 +  11683526 ATGCCTGAAGACAAG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3136223 15 +   4132165 ATGCCTGAAGACAAG
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14976204 15 +  74389097 ATGCCTGAGGACATT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2700977 14 +   3667625 ATGCCT-ATGACAGC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e mm10.chr18                55571559 100 +  90702639 I
e calJac3.chr2             123738774 27 - 204313951 I

a score=449785.000000
s hg38.chr5_KI270796v1_alt    154264 34 +    172708 CATGCAGATGTTGTTTTT-ATGCTCAAAGAAAAGC
s panTro5.chr5             125263463 34 + 181907262 CATGCAGATGTTGTTTTT-ATGCTCAAAGAAAAGC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126594278 34 + 183735486 CATGCAGATGTTGTTTTT-ATGCTCAAAGAAAAGC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1786052 34 +   8933513 CATGCAGATGTTGTTTTT-ATGCTCAAAGAAAAGC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139918944 34 + 163208435 CATGCAGATGTTGTTTTT-ATGCTCAAAGAAAAGC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122903713 34 + 180051392 CATGCAGATGTTGTTTTT-ATGCTCGAAGAAAAGC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124327334 34 + 181584905 CATGCAGATGTTGTTTTT-ATGCTCGAAGAAAAGC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16325975 34 +  18395747 CATGCAGATGTTGTTTTT-ATGCTCGAAGAAAAGC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5338401 34 +  26952557 CATGCAGATGTTGTTTTT-ATGCTCGAAGAAAAGC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28439043 34 +  82825804 CATGCAGATGTTGTTTTT-ATGCTCGAAGAAAAGC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4108591 34 -   4237731 CATGCAGATGTTGTTTTT-ATGCTCGAAGAAAAGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      377156 35 -   1175262 TATGCAGATGTTGTTTTTAATGCTCAAAGAAAAGC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123738801 31 - 204313951 CATACAGA---TGTTTTT-ATGCTCAAGGAAAAGC
i calJac3.chr2             I 27 C 0
s saiBol1.JH378106          55779165 31 -  71252344 CATGCAGT---TATTTTT-ATGCTCAAGGAAAAGC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       82377 31 -   3089952 CATGCAGA---TGTTTTT-ATGCTCAAGGAAAAGC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13282935 31 -  42888418 CATGCAGA---TGTTTTT-ATGCTCAAGGAAAAGG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3647999 34 +  11683526 CATGCAGATATTGTCTTT-GTGCTCAAAGAAAACC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3136238 34 +   4132165 CATGCAGATGTTGTTGTT-GTGCTCAAAGGAAAGC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14976219 34 +  74389097 CATGCAGATATTTTCCTT-GTGCTCCAGAAGAAGT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2700991 34 +   3667625 CAGGAAGACATTGTCTTT-GTGTTCCAGGAAAAGC
i dasNov3.JH567306         C 0 I 3499
e micMur3.chr12             60611723 2699 + 108143057 I
e mm10.chr18                55571559 100 +  90702639 I

a score=504656.000000
s hg38.chr5_KI270796v1_alt    154298 38 +    172708 CCATAAACACTTCTGCCATGATGGCACCAGTGTGCTCT
s panTro5.chr5             125263497 38 + 181907262 CCATAAACACTTCTGCCATGATGGCACCAGTGTGCTCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126594312 38 + 183735486 CCATAAACACTTCTGCCATGATGGCACCAGTGTGCTCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1786086 38 +   8933513 CCATAAACACTTCTGCCATGATGGCACCAGTGTGCTCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139918978 38 + 163208435 CCATAAACACTTCTGCCATGATGGCACCAGTGTGCTCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122903747 38 + 180051392 CCATAAACACTTCTGCCATGATGGCACCAGTGTGCTCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124327368 38 + 181584905 CCATAAACACTTCTGCCATGATGGCACCAGTGTGCTCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16326009 38 +  18395747 CCATAAACACTTCTGCCATGATGGCACCAGTGTGCTCT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5338435 38 +  26952557 CCATAAACACTTCTGCCATGATGGCACCAGTGTGCTCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28439077 38 +  82825804 CCATAAACACTTCTGCCACGATGGCGCCAGTGTGCTCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4108625 38 -   4237731 CCATAAACACTTCTGCCATGATGACACCAGTGTGCTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      377191 38 -   1175262 CCATAAACACTTCTGCCATGATGGCACCAGTGTGCTCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123738832 38 - 204313951 CCATGAACTCTTCTGCCAAGATGGCACCAGTTTGCTCT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55779196 38 -  71252344 CCATGAACTCTTCTGCCAAGATGGCACCAGTGTGCTCT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       82408 38 -   3089952 ACATGAACTCTTCTACCCAGATGGCACCAATGGGCTCT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13282966 38 -  42888418 CCATGAACTCTTCTGCCAAGATGGCACCAGTATGCTCG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3648033 38 +  11683526 CTGTGAACACCTCTACCAAGATGGCACCAATGTGTTCT
i proCoq1.NW_012155062v1   C 0 I 2152
s otoGar3.GL873679           3136272 38 +   4132165 CCATGAGCACCTCTACCAAGATGGCACCGTTGTGTTCC
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14976253 38 +  74389097 CCATGCATGCTTTTGCCAAGATGGCACCAATGTGCTCT
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e dasNov3.JH567306           2701025 3499 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I

a score=62552.000000
s hg38.chr5_KI270796v1_alt    154336 5 +    172708 GTAGT
s panTro5.chr5             125263535 5 + 181907262 GTAGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126594350 5 + 183735486 GTAGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1786124 5 +   8933513 GTAGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139919016 5 + 163208435 GTAGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122903785 5 + 180051392 GTAGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124327406 5 + 181584905 GTAGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16326047 5 +  18395747 GTAGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5338473 5 +  26952557 GTAGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28439115 5 +  82825804 GTAGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4108663 5 -   4237731 GTAGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      377229 5 -   1175262 GTAGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123738870 5 - 204313951 GTAGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55779234 5 -  71252344 GTAGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       82446 5 -   3089952 ACAGT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13283004 5 -  42888418 GTAGT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3136310 5 +   4132165 ACAGT
i otoGar3.GL873679         C 0 I 1642
s canFam3.chr11             14976291 5 +  74389097 ATAGT
i canFam3.chr11            C 0 I 1731
e micMur3.chr12             60611723 2699 + 108143057 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e dasNov3.JH567306           2701025 3499 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I

a score=7234116.000000
s hg38.chr5_KI270796v1_alt    154341 768 +    172708 CAtgatatggtttggctgtgtccccacccaaatcttatcttgaattgtagttcccataatccccacgtgtcctgggagggacctagtgggaggtaatttaatcatga-agtggttaccctcatgctgttctcatgatagggcatgagttctcacaagatctgatggttttataagaggcattttcctcttttgctcagctcttctccttcctgccatcatgtgaagaaggacatgtttgcttccccttcccaccatgattgtaagtttcctgagttctccccagccatgcagaactgtgagtcaattaaacccctttcctttataaattacccagtctcaggcagcattttatggcagtgtgagaacagactaatCACTaaattggtactgagaatagtggggtgctgcattaa-gatacccaaaaatatggaagtgactttggaactctgtaacagcagaggttggaacagtttggagggctcaggagaagacaggaagatgttggaaagtttgaaacttcctagagacttgagtagttttggacaaaatgctaatagtgatatggacaatgttgt----ccagactgaggtggtctcagatagagatgaggaacttgctggaaactggaataaaggtgatcgttgccatgcattggcaaacaggctggcaacattttgcctctgccctaaagatctgccgaactatgaacttgagagaaaaaatttagggcagggatctggcagaagaaatttctaaggagcaaagcattca
s panTro5.chr5             125263540 772 + 181907262 CAtgatatggtttggctgtgtccccacccaaatcttatcttgaattgtagttcccataatccccacgtgtcctgggagggacctagtgggaggtaatttaatcatga-ggtggttaccctcatgctgttctcatgatagggcgtgagttctcacaagatctgacggttttataagaggcattttccccttttgctcagctcttctccttcctgccatcatgtgaagaaggacatgtttgcttccctttcccaccatgattgtaagtttcctgagttctccccagccatgcagaactgtgagtcaattaaacccctttcctttataaattacccagtctcaggcagcattttatggcagtgtgagaagagactaatCACTaaattggtactgagaatagtggggtgctgcattaa-gatacccaaaaatatggaagtgactttggaactctgtaacagcagaggttggaacagtttggagggctcaggagaagacaggaagatgttggaaagtttgaaacttcctagagacttgagtagttttggccaaaatgctgatagtgatatggacaatgttgtccagccagactgaggtggtctcagatagagatgaggaacttgctggaaactggaataaaggtgatcgttgccatgcattggcaaacaggctggcaacattttgcctctgccctaaagatctgtggaactatgaacttgagagaaaacatttagggcagggatctggcagaagaaatttctaaggagcaaagcattca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126594355 772 + 183735486 CAtgatatggtttggctgtgtccccacccaaatcttatcttgaattgtagttcccataatccccacgtgtcctgggagggacctagtgggaggtaatttaatcatga-ggtggttaccctcatgctgttctcatgatagggcatgagttctcacaagatctgatggttttataagaggcattttcctcttttgctcagctcttctccttcctgccatcatgtgaagaaggacatgtttgcttccctttcccaccatgattgtaagtttcctgagttctccccagccatgcagaactgtgagtccattaaacccctttcctttataaattacccagtctcaggcagcattttatggcagtgtgagaagagactaatCACTaaattggtactgagaatagtggggtgctgcattaa-gatacccaaaaatatggaagtgactttggaactctgtaacagcagaggttggaacagtttggagggctcaggagaagacaggaagatgttggaaagtttgaaacttcctagagacttgagtagttttggccaaaatgctgatagtgatatggacaatgttgtccagccagactgaggtggtctcagatagagatgaggaacttgctggaaactggaataaaggtgatcgttgccatgcattggcaaacaggctggcaacattttgcctctgccctaaagatctgtggaactatgaacttgagagaaaacatttagggcagggatctggcagaagaaatttctaaggagcaaagcattca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1786129 770 +   8933513 CAtgatatggtttggctgtgtccccacccaaatcttatcttgaattgtagttcccataatccccacgtgtcct-ggagggacctagtgggaggtaatttaatcatga-agtggttaccctcgtgctgttctcatgatagggcgtgagttctcacaagatctgatggttttataagaggcattttcctcttttgctcagctcctctcctttctgccatcatgtgaagaaggacatgtttgcttccctttcccaccatgattgtaagtttcctgagttctccccagccatgcagaactgtgagtcaattaaacccctttcctttataaattacccagtctcaggcagcattttatggcagtgtgagaacagactaatCACTaaattggtactgagaatagtggggtgctgcattaa-gatacccaaaaatatggaagtgactttggaactctgtaacagcagaggttggaacagtttggagggctcaggagaagacaggaagatgttggaaagtttgaaacttcctagagacttgagtagttttggccaaaatgctgatagtgatatggacaatgttgtccagccagactgaggtggtctcagatagagatgaggaacttgctgg-aactggaataaaggtgatcgttgccatgcattggcaaacaggctggcaacattttgcctctgccctaaagatctgtggaactatgaacttgagagaaaaaatttagggcagggatcttgcagaagaaatttctaaggagcaaagcattca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139919021 768 + 163208435 CAtgatatggtttagctgtgtccccacccaaatcttatcttgaattgtagttcccataatccccacatgtcctgggagggacccagtgggaggtaatttaatcatgg-agtggttaccctcatgctgttctcatgatagggagtgagttctcacaagatctgatggttttataagaggtattttccccttttgctcagctcttctccatcctgccatcatgtgaagaaggacttgtttgcttccccttcccaccatgtttgtaagtttcctgagttctccccaaccatgaagaactgtgagtcaattaaacccctttcctttataaattacccagtctcaggaagctctttatagcagtgtgagaacagattaatCAgtaaattggtactgagaatagtggggtgctgcattaa-gatacccaaaaatatggaattgactttggaagtcggtaacagcagaggttggaacagtttggagggctcaggggaagacaggaagatgttggaaagtttgaaacttcccagatacttgagtagttttggccaaaatgctgatagtgatatggacaatgttgc----ccagactgaggtggtctcacatagagatgaggaacttgctggaaactggaataaaggtgattgttgccatgcttttgcaaagagactggcaacattttgcctctgccctaaagatctgtggaactttgaacttgagagagaaaatttagggcagggatctggcagaagaaatttctaaggagaaaagcattca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122903790 767 + 180051392 TAtgatatgatttggctgtgtccctacccatatcttatcttgaattatagctcctataatctacacgtgtcctgggagggaccctgtgggaggtaatttaatcatgg-ggtggttaccctcatgctgttctaatgatagggagtgagttctcacaagatctgatggttttataagaggcattttccccttttgctcagctcttctcctttctgccatcatgtgaagagggacgtgtttgcttcccctt-ccatcatgattgtaagtttcctgaatcctccccagccatgcagaactgtgagtcaattaaacccctttcctttataaattacctagtctcaggcaactctttacagcagtgtgagaacagactaatCAgtaaattggtactgagactagtggagggcttcattaa-gataccaaaaaatatggaagtgactttggaactgggtaacagcagaggttggaacagtatggagggttcaggagaagacaggaagatgttggaaagtttggaacttcccagagacttgagcagctttggccaaaatgctgatagtgatatggacaatgtttt----ccagactgaggtggtctcagatggagatgaggaacttgctggaaacaggaataaaggtgattcttgccatgagttggcaaagagactggtagcattttgcctctgtcctaaagatctgtggaactttgaacttgagagagaaaatttagggcaaggatctggcagaagaaatttgtaaggagcaaagcattca
i rheMac8.chr6             C 0 I 4554
s macFas5.chr6             124327411 757 + 181584905 TAtgatatgatttggctgtgtccctacccatatcttatcttgaattatagctcctataatctacacgtgtcctgggagggaccctgtgggaggtaatttaatcatgg-ggtggttaccctcatgctgttctaatgatagggagtgagttctcacaagatctgatggttttataagaggcattttccccttttgctcagctcttctcctttctgccatcatgtgaagagggacgtgtttgcttcccctt-ccatcatgattgtaagtttcctgaatcctccccagccatgcagaactgtgagtcaattaaacccctttcctttataaattacctagtctcaggcaactctttacagcagtgtgagaacagactaatCAGTaaattggtactgagactagtggagggcttcattaa-gataccaaaaaatatggaagtgactttggaactgggtaacagcagaggttggaacagtatggagggttcaggagaagacaggaagatgttggaaagtttggaacttcccagagacttgagcagctttggccaaaatgctgatagtgatatggacaatgtttt----ccagactgaggtggtctcagatggagatgaggaacttgctggaaacaggaataaaggtgattcttgccatgagttggcaaagagactggtagcattttgcctctgtcctaaagatctgtggaactttgaacttgagagagaaaatttagggcaaggatctggcagaagaaatttctaaggagc----------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16326052 767 +  18395747 CAtgatatgatttggctgtgtccctacccatatcttatcttgaattatagctcctataatctacacgtgtcctgggagggaccctgtgggaggtaatttaatcatgg-ggtggttaccctcatgctgttctaatgatagggagtgagttctcacaagatctgatggttttataagaggcattttccccttttgctcagctcttctcctttctgccatcatgtgaagagggacgtgtttgcttcccctt-ccatcatgattgtaagtttcctgaatcctccccagccatgcagaactgtgagtcaattaaacccctttcctttataaattacctagtctcaggcaactctttacagcagtgtgagaacagactaatCAGTaaattggtactgagactagtggagggcttcattaa-gataccaaaaaatatggaagtgactttggaactgggtaacagcagaggttggaacagtatggagggctcaggagaagacaggaagatgttggaaagtttggaacttcccagagacttgagcagctttggccaaaatgctgatagtgatatggacaatgtttt----ccagactgaggtggtctcagatggagatgaggaagttgctggaaacaggaataaaggtgattcttgccatgagttggcaaagagactggtagcattttgcctctgtcctaaagatctgtggaactttgaacttgagagagaaaatttagggcaaggatctggcagaagaaatttctaaggagcaaagcattca
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5338478 767 +  26952557 CAtgatatgatttggctgtgtccctacccatatcttatcttgaattatagctcctataatctacacgtgtcctgggagggaccctgtgggaggtaatttaatcatgg-ggtggttaccttcatgctgttctaatgatagggagtgagttctcacaagatctgctggttttataagaggcattttccccttttgctcagctcttctccttcctgccatcatgtgaagagggacgtgtttgcttcccctt-ccatcatgattgtaagtttcctgaatcctccccagccatgcagaactgtgagtcaattaaacccctttcctttataaattacctagtctcaggcaactctttacagcagtgtgagaacagactaatCAgtaaattggtactgagactagtggagggcttcattaa-gataccaaaaaatatggaagtgactttgaaactgggtaacagcagaggttggaacagtatggagggctcaggagaagacaggaagatgttggaaagtttgaaacttcccagagacttgagcagctttggccaaaatgctgatagtgatatggacaatgtttt----ccagactgaggtggtctcagatggagatgaggaacttgctggaaacaggaataaaggtgattcttgccatgagttggcaaagagactggtagcattttgcctctgtcctaaagatctgtggaactttgaacttgagagagaaaatttagggcaaggatctgtcagaagaaatttctaaggagcaaagcattca
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28439120 767 +  82825804 CAtgatatgatttgactgtgtccttacccatatcttatcttgaattatagctcctataatccacatgtgtcctgggagggacccagtgggagataatttaatcatgg-ggtggttaccctcatgctgttctaatgatagggagtgagttcttacaagatctgatggttttataagaggcattttccccttttgctcagctcttctccttcctgccatcatgtgaagaaggacgtatttgcttcccctt-ccatcatgattgtaagtttcctgaatcctccccagccatgcagaactgtgagtcaattaaacccctttcctttataaattacctagtctcaggcaactctttacagcagtgtgagaacagactaatCAGTaaattggtactgagagtagtggagggcttcattaa-gataccaaaaaatatggaagtgactttggaactggataacagcagaggttggaacagtatggagggctcaggagaagacaggaagatgttggaaagtttgaaacttcccagagacttgagcagctttggccaaaatgctgatagtgatatggacaatgtttt----ccagactgaggtggtctcagatggagatgaggaacttgctggaaacagtaataaaggtgattcttgccatgagttggcaaagagactggcagcattttgcctctgtcctaaagatctgtggaactttgaacttgagagagaaaatttagggcaaggatctggcagaagaaatttctaaggagcaaagcattca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4108668 767 -   4237731 CAtgatatgatttggctgtgtccctacccatatcttatcttgaattatagctcctataatctacacgtgtcctgggagggaccctgtgggaggtaatttaatcatgg-ggtggttaccttcatgctgttctaatgatagggagtgagttctcacaagatctgctggttttataagaggcattttccccttttgctcagctcttctccttcctgccatcatgtgaagagggacgtgtttgcttcccctt-ccatcatgattgtaagtttcctgaatcctccccagctatgcagaactgtgagtcaattaaacccctttcctttataaattacctagtctcaggcaactctttacagcagtgtgagaacagactaatCAgtaaattggtactgagactagtggagggcttcattaa-gataccaaaaaatatggaagtgactttggaactgggtaacagcagaggttggaacagtatggagggctcaggagaagacaggaagatgttggaaagtttgaaacttcccagagacttgagcagctttggccaaaatgctgatagtgatatggacaatgtttt----ccagactgaggtggtctcagatggagatgaggaacttgctggaaacaggaataaaggtgattcttgccatgagttggcaaagagactggtagcattttgcctctgtcctaaagatctgtggaactttgaacttgagagagaaaatttagggcaaggatctgtcagaagaaatttctaaggagcaaagcattca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      377234 765 -   1175262 CACgatatgatttggctgtgtccctacccatgtcttagcttgaattatagctcctataatccacacgtgtcctgggagggacccagtgggaggtaatttaatcatgg-ggtggttaccctcatgctgttctaatgatagggagtgagttctcacaagatctgatggttttttaagaggcattttccccttttgctcagctcttcttcttcctgccatcatgtgaagaaggacgtgtttgcttcccctt-ccatcatgattgtaagtttcctgaatcctccccagccatgcagaactgtgagtcaattaaacccctttcctttataaattacctagtctcaggcaactctttacggcagtgtgagaacagactaatCAgtaaattggcactgagagtagtggggggcttcattaa-gataccaaaaaatatggaagtgactttggaactgggtaacagcagaggttggaacagtatggaggactcaggagaagacaagaagatgttggaaagtttgaaacttcctagagacttgagcagctttggtcaaaatgctgatagtgatatggacaatgtttt----ccagactgaggtggtctcagatggagatgaggaacttgctggaaacaggaataaaggtgattcttgccatgagttggc--agagactggcagcattttgtctctgtcctaaagatctgtggaactttgaacttgagagagaaaatttagggcagggatctggtagaagaaatttctaaggagcaaagcattca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123738875 764 - 204313951 CAtgatatggtttggttgagtccccacacaaatcttgtcttgaattgtagttcccataatccccacttatcctgggaggaaccaggtgggaggtaatttaatcatggaggtgtttatcctcatgttgttctcatgattgtgagtgaattttcacaagatatcatggttttataagagacattttcctcttttgcttggcacttcttct---tgccatcatgta-agaaggatgtgtttgcttcccctt-ctgctgtaattgtaagtttcctgagtcctccccagccatgtggaactgtgagtcaattaaacttttttcctttataaattacccagtctcaggcagttctttatagcagcattagaacaaactaatCAgtaaattggtaccaagagtagtggggcactgatctaaggatacccaaaaatctggaagtgactttggaaccgggtaacagcagagattggaacagtttggagggctcaggagaagctaggaagatgttggacaattttgagcttcctagagactagaatggctttgaccaaaatgctgatagtgatatggacaatgtagt----ccagactgaagttgtctcagatgcagatgaggaacttgctggaaactagaataaagttcattctttctatgtgttagctaaaagtctggcagcattttgcccctattataaagatctgtggaactttgaacatgagagagataatttagggcaggcatctggcagaagaag-ttctaaggaggaaagcattca
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55779239 768 -  71252344 TAtgatatggtttggttgagtccccacacaaaccttatcttgaattgtagttcccataatccccgcatgtcctgggagggaccaagtgggaggtaatttaatcatggaggtgtttaccctcatgttgttctcatgattgtaagtgaattctcacaagatctcatggttttataagagacattttcctcttttgcttggcacttcttcttcctgccatcatgtgcagaaggatgtgtttgcttccctgt-ctgctgtaattgtaagtttcctgagtcctccccagccacgtggaactgtgagtcaattaaaattctttcctttataaattacccagtctcaggcagttctttatagcagcattagaacaaactaatCAgtaaattgttaccaagagtagtggggcactgatctaaggataccgaaaaatctggaagtgactttggaactgggtaacagcagaggttggaatggtttggagggctcaggagaagataggaagatgttggacagtttggagcttcctagagactagaatggctttgaccaaaatgctgatagtgatatggacaatgtagt----ccagactgaagtggtctcagatgcagatgaggaactttctggaaactggaataaaggtgattctttctatgtgctagcaaagagtctgacagcattctgcccctgttctaaagatctgtggaactttgaacttgagagagataattgagggcaggcatctggcagaagaat-ttctaaggagtaaagcattca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       82451 768 -   3089952 CAtgatatggtttggttgagtccccacacaaatcttatcttgaattgtagttcccataatccccacatgtcctgggagggaccaagtgggaggtaatttaatcatggaggtgtttaccctcacgttattctcatgattgtgagtgaattctcacaagatctcatggttttataagagacattttcctcttttgcttggcgcttcttcttcctgccatcatgtgaagaaggatgtgtttgcttcccctt-ctgctgtaattgtaagtttcctgagtcctcccaagccacgtggaactgtgagtcaattaaacttatttcctttataaattacccagtctcaggcagctctttatagcagcattagaacaaactaatCAgtaaattggcaccaagagtagtggggcactgatctaaggataccccaaaatctggaagtgactttggaactgggaaacagcagaggttggaacagtttggagggctcaggagaagacaggaagatgttggacagtttggagcttcctagagactagaatggctttgaccaaaatgcccacagtgatatggacaaagtaat----acagactgaagtggtctcagatacagatgaggaacttgctggaaactagaataaaggtgattctttctatgtgttagcaaagagtctggcagcattctgcccctgttctaaagatctgtggaactttgaacttgagagagataatttagggcaggcatctggcagaagaag-ttctaaggagtaaagcattca
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13283009 751 -  42888418 CAtgatatggtttggttgagtccccacacaaatcttatcttgaattgtagttcccataatccccacatgtcctgggagggaccaagtgggaggtaatttaatcacggaggtgtttaccctcatgttcttctcatgattgtgagtgaattctcacaagatctcatggttttat--gagacattttcctcttttgtttggcacttcttcc---taccgtcatgtgaagaaggatgtgtttgcttcccctt-ctgctgtaattgtaagtttcctgagtcctccctagccacgtggaactatgagttaattaaacttctttcctttataaatttcccagtctcaggcagttttttattgcagcattagaacgaactaatCAgtaaattggtaccaagagtagtggggcgctgatctaaggatacccaaaaatctggaagtgtctttggaactgggtaacagcagaggttggaacagtttggagggctcaggagaagataggaagatgttggacagtttagagcttcctagagactagaatggctttgaccaaaatgctgatagtgatatggacaatgtagt----ccagactgaacttgc------------tgaggaacttgctggaaactagaataaaggtgattctttctatgtgttagcaaagagtctggcagcattttgcccctgttctaaagatctgtgaaactttgaacttgagagagataatttagggcaggcatctggcagaagagg-ttctaaggagtaaagcattca
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3136315 1642 +   4132165 I
e dasNov3.JH567306           2701025 3499 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I

a score=740888.000000
s hg38.chr5_KI270796v1_alt    155109 85 +    172708 agatatgacttggatgctgttaaaagcattcagttttatgtattcacaaatatatcgtttggaattggaacttctgtttgaaaaa
s panTro5.chr5             125264312 85 + 181907262 agatatgacttggatgctgttaaaagcattcagttttatatattcacaaagatgtggtttggaattggaacttatgtttgaaaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126595127 85 + 183735486 agatatgacttggatgctgttaaaagcattcagttttatatattcacaaagatgtggtttggaattggaacttatgtttgaaaaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1786899 85 +   8933513 agatatgacttggatgctgttaaaagcattcagttttatatattcacaaagatatggtttggaattggaacttatgtttgaaaaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139919789 85 + 163208435 agatatgacttggatgctgttaaaagcattcagttttatgtattcacaaagatatggtttgtaattggaacttatgtttgaaaaa
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124328168 63 + 181584905 ----------------------aaagcattcagttttctgtattcacaaagatatggtttggaattggaacttatgtttgaaaaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16326819 85 +  18395747 agatatgacttggatgctgttaaaagcattcagttttctgtattcacaaagatatggtttggaattggaacttatgtttgaaaaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5339245 85 +  26952557 agatatgacttggatgctgttaaaagcattcagttttctgtattcacaaagatatggtttggaattggaacttatgtttgaaaaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28439887 85 +  82825804 agatatgacttggatgctgttaaaagcattcagttttatgtattcacaaagatatggtttggaattggaacttatgtttgaaaaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4109435 85 -   4237731 agatatgacttggatgctgttaaaagcattcagttttctgtattcacaaagatatggtttggaattggaacttatgtttgaaaaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      377999 85 -   1175262 agatatgacttggatgctgttaaaagcattcaattttatgtattcacaaagatatggtttggaattggaacttatgtttgaaaaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123739639 85 - 204313951 agatatcacttagatgctattaaaagcattcagttttatgtattcacaaatatatggttgggaattggaacttatgtttgaaaaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55780007 85 -  71252344 agatatgacttagatgctattaaaagcattcagttttatgtattcacaaagatatggtttagaattggaacttatgtttgaaaaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       83219 85 -   3089952 agatatgacttagatgctattaaaggcattcagttttatgtattcacaaagatatggtttggaactggaacttatgtttgaaaaa
i cebCap1.NW_016107590v1   C 0 I 4461
s aotNan1.NW_018505940v1    13283760 85 -  42888418 agatatgacttagatgctattaaaagcattcagttttatgtactcacaaagatatggtttggaattggaacttatgtttgaaaaa
i aotNan1.NW_018505940v1   C 0 I 4800
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e rheMac8.chr6             122904557 4554 + 180051392 I
e otoGar3.GL873679           3136315 1642 +   4132165 I
e dasNov3.JH567306           2701025 3499 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I

a score=12007.000000
s hg38.chr5_KI270796v1_alt    155194 2 +    172708 ga
s panTro5.chr5             125264397 2 + 181907262 ga
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126595212 2 + 183735486 ga
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1786984 2 +   8933513 ga
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139919874 2 + 163208435 ga
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124328231 2 + 181584905 ga
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16326904 2 +  18395747 ga
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5339330 2 +  26952557 ga
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28439972 2 +  82825804 ga
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4109520 2 -   4237731 ga
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      378084 2 -   1175262 ga
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123739724 2 - 204313951 aa
i calJac3.chr2             C 0 I 4017
s saiBol1.JH378106          55780092 2 -  71252344 aa
i saiBol1.JH378106         C 0 I 4428
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e rheMac8.chr6             122904557 4554 + 180051392 I
e otoGar3.GL873679           3136315 1642 +   4132165 I
e aotNan1.NW_018505940v1    13283845 4800 -  42888418 I
e cebCap1.NW_016107590v1       83304 4461 -   3089952 I
e dasNov3.JH567306           2701025 3499 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I

a score=18870.000000
s hg38.chr5_KI270796v1_alt    155196 4 +    172708 agca
s panTro5.chr5             125264399 4 + 181907262 agca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126595214 4 + 183735486 agca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1786986 4 +   8933513 agca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139919876 4 + 163208435 atca
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124328233 4 + 181584905 agca
i macFas5.chr6             C 0 I 4494
s macNem1.NW_012012355v1    16326906 4 +  18395747 agca
i macNem1.NW_012012355v1   C 0 I 4486
s cerAty1.NW_012002512v1     5339332 4 +  26952557 agca
i cerAty1.NW_012002512v1   C 0 I 4489
s chlSab2.chr23             28439974 4 +  82825804 agca
i chlSab2.chr23            C 0 I 3668
s manLeu1.NW_012103321v1     4109522 4 -   4237731 agca
i manLeu1.NW_012103321v1   C 0 I 4492
s colAng1.NW_012119644v1      378086 4 -   1175262 agca
i colAng1.NW_012119644v1   C 0 I 4417
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e rheMac8.chr6             122904557 4554 + 180051392 I
e otoGar3.GL873679           3136315 1642 +   4132165 I
e aotNan1.NW_018505940v1    13283845 4800 -  42888418 I
e cebCap1.NW_016107590v1       83304 4461 -   3089952 I
e dasNov3.JH567306           2701025 3499 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I
e saiBol1.JH378106          55780094 4428 -  71252344 I
e calJac3.chr2             123739726 4017 - 204313951 I

a score=4730.000000
s hg38.chr5_KI270796v1_alt    155200 5 +    172708 TTCCA
s panTro5.chr5             125264403 5 + 181907262 TTCCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126595218 5 + 183735486 TTCCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1786990 5 +   8933513 TTCCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139919880 5 + 163208435 TTCCA
i nomLeu3.chr2             C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e manLeu1.NW_012103321v1     4109526 4492 -   4237731 I
e chlSab2.chr23             28439978 3668 +  82825804 I
e cerAty1.NW_012002512v1     5339336 4489 +  26952557 I
e macNem1.NW_012012355v1    16326910 4486 +  18395747 I
e macFas5.chr6             124328237 4494 + 181584905 I
e rheMac8.chr6             122904557 4554 + 180051392 I
e otoGar3.GL873679           3136315 1642 +   4132165 I
e aotNan1.NW_018505940v1    13283845 4800 -  42888418 I
e cebCap1.NW_016107590v1       83304 4461 -   3089952 I
e dasNov3.JH567306           2701025 3499 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I
e saiBol1.JH378106          55780094 4428 -  71252344 I
e calJac3.chr2             123739726 4017 - 204313951 I
e colAng1.NW_012119644v1      378090 4417 -   1175262 I

a score=2100.000000
s hg38.chr5_KI270796v1_alt    155205 1 +    172708 C
s panTro5.chr5             125264408 1 + 181907262 C
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126595223 1 + 183735486 C
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1786995 1 +   8933513 C
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139919885 1 + 163208435 C
i nomLeu3.chr2             C 0 I 87
s calJac3.chr2             123743743 1 - 204313951 C
i calJac3.chr2             I 4017 C 0
s saiBol1.JH378106          55784522 1 -  71252344 C
i saiBol1.JH378106         I 4428 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e manLeu1.NW_012103321v1     4109526 4492 -   4237731 I
e chlSab2.chr23             28439978 3668 +  82825804 I
e cerAty1.NW_012002512v1     5339336 4489 +  26952557 I
e macNem1.NW_012012355v1    16326910 4486 +  18395747 I
e macFas5.chr6             124328237 4494 + 181584905 I
e rheMac8.chr6             122904557 4554 + 180051392 I
e otoGar3.GL873679           3136315 1642 +   4132165 I
e aotNan1.NW_018505940v1    13283845 4800 -  42888418 I
e cebCap1.NW_016107590v1       83304 4461 -   3089952 I
e dasNov3.JH567306           2701025 3499 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I
e colAng1.NW_012119644v1      378090 4417 -   1175262 I

a score=68668.000000
s hg38.chr5_KI270796v1_alt    155206 9 +    172708 TAACTGACT
s panTro5.chr5             125264409 9 + 181907262 TAACTGACT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126595224 9 + 183735486 TAACTGACT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1786996 9 +   8933513 TAACTGACT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139919973 9 + 163208435 TAACTGACT
i nomLeu3.chr2             I 87 C 0
s rheMac8.chr6             122909111 9 + 180051392 TAACTGACT
i rheMac8.chr6             I 4554 C 0
s macFas5.chr6             124332731 9 + 181584905 TAACTGACT
i macFas5.chr6             I 4494 C 0
s macNem1.NW_012012355v1    16331396 9 +  18395747 TAACTGACT
i macNem1.NW_012012355v1   I 4486 C 0
s cerAty1.NW_012002512v1     5343825 9 +  26952557 TAACTGACT
i cerAty1.NW_012002512v1   I 4489 C 0
s chlSab2.chr23             28443646 9 +  82825804 TAACTGACT
i chlSab2.chr23            I 3668 C 0
s manLeu1.NW_012103321v1     4114018 9 -   4237731 TAACTGACT
i manLeu1.NW_012103321v1   I 4492 C 0
s colAng1.NW_012119644v1      382507 9 -   1175262 TAACTGACT
i colAng1.NW_012119644v1   I 4417 C 0
s calJac3.chr2             123743744 9 - 204313951 TAGATGACT
i calJac3.chr2             C 0 I 2
s saiBol1.JH378106          55784523 9 -  71252344 TAGGTGACT
i saiBol1.JH378106         C 0 I 2
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3136315 1642 +   4132165 I
e aotNan1.NW_018505940v1    13283845 4800 -  42888418 I
e cebCap1.NW_016107590v1       83304 4461 -   3089952 I
e dasNov3.JH567306           2701025 3499 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I

a score=809926.000000
s hg38.chr5_KI270796v1_alt    155215 82 +    172708 CTCCAGATGTTGCTTGATTGCAGTTGAAGAGATAAAGGGGTCCTTGGCCTTCACTGTTTCCCTGAACAGTTATCTTCTCTCA
s panTro5.chr5             125264418 82 + 181907262 CTCCAGATGTAGCCTGATTGCAGTTGAAGAGATAAAGGGGTCCTTGGCCTTCACTGTTTCCCTGAACAGTTATCTTCTCTCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126595233 82 + 183735486 CTCCAGATGTAGCCTGATTGCAGTTGAAGAGATAAAGGGGTCCTTGGCCTTCACTGTTTCCCTGAACAGTTATCTTCTCTCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1787005 82 +   8933513 CTCCAGATGTAGCTTGATTGCAGTTGAAGAGATAAAGGGGTCCTTGGCCTTCACTGTTTCCCTGAACAGTTATCTTCTCTCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139919982 81 + 163208435 CTCCAGATGTTGC-TGATTGCAGTTGAAGAGAAAAAGGGGTCCTTGGCCTTCACTCTTTCCCTGAACAGTTATCTTCTCTCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122909120 82 + 180051392 CTCCAGATGTTGCTTGATTGCAGTTGAAGAGATGAAGGGGTCCTTGGCTTTCACTCTTTCCCTAAACAGTTATCTTCTCTCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124332740 82 + 181584905 CTCCAGATGTTGCTTGATTGCAGTTGAAGAGATGAAGGGGTCCTTGGCTTTCACTCTTTCCCTAAACAGTTATCTTCTCTCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16331405 82 +  18395747 CTCCAGATGTTGCTTGATTGCAGTTGAAGAGATGAAGGGGTCCTTGGCTTTCACTCTTTCCCTAAACAGTTATCTTCTCTCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5343834 82 +  26952557 CTCCAGATGTTGCTTGATTGCAGTTGAAGAGAGAAAGGGGTCCTTGGCTTTCACTCTTTCCCTAAACAGTTATCTTCTCTCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28443655 82 +  82825804 CTCCAGATGTTGCTTGATTGCAGTTGAAGAGATAAAGGGGTCCTTGGTTTTCACTCTTTCCCTAAACAGTTATCTTCTCTCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4114027 82 -   4237731 CTCCAGATGTTGCTTGATTGCAGTTGAAGAGAGAAAGGGGTCCTTGGCTTTCACTCTTTCCCTAAACAGTTGTCTTCTCTCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      382516 82 -   1175262 CTCCAGATGTTGCTTGATTGCAGTTGAAGAGATAAAGGGGTCCTTGGCCTTCACTCTTTCCCTAAACAGTTATCTTCTCTCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123743755 82 - 204313951 CTCCAGATCTTGCTTGATTGTAGTTGAGGAGATGAAGGGGTCATTGGTCTTCACTCTTTCCCTGAACAGTTACCTTCTCTCA
i calJac3.chr2             I 2 C 0
s saiBol1.JH378106          55784534 82 -  71252344 CTCCAGATCTTGCTTGATCGTAGTTGAGGAGATGAAGGGGTCGTTGGTCTTCACTCTTTCCTTGAACAGCTACCTTCTCTCA
i saiBol1.JH378106         I 2 C 0
s cebCap1.NW_016107590v1       87765 82 -   3089952 CTCCAGATCTTGCTTGATTGTAGTTGAGGAGATGAAGGGGTCGTTGGTCTTCACTCTTTCCCTGAACAGTGACCTTCTCTCA
i cebCap1.NW_016107590v1   I 4461 C 0
s aotNan1.NW_018505940v1    13288645 82 -  42888418 CTCCAGATCTTGCTTGATTGTAGTTGAGGAGATGAAGGGGTCATTGGACTTCACTCTTTCCCTGAACGGTTACCTTCTCTCG
i aotNan1.NW_018505940v1   I 4800 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3136315 1642 +   4132165 I
e dasNov3.JH567306           2701025 3499 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I

a score=974167.000000
s hg38.chr5_KI270796v1_alt    155297 94 +    172708 CACTCTTATCCTCTGGGGCATTGCCAATCTATGGCCAAAGTCTCTTGGAGCAAAACTCCTACTCTCATCTCTCAGATCATTT----CAAGTGCTCAAC
s panTro5.chr5             125264500 94 + 181907262 CACTCCTATCCTCTGGGGCATTGCCAATCTATGGCCAAATTCTCTTGGAGCAAAACTCCTACTCTCATCTCTCAGATCATTT----CAAGTGCTCAAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126595315 94 + 183735486 CACTCCTATCCTCTGGGGCATTGCCAATCTATGGCCAAAGTCTCTTGGAGCAAAACTCCTACTCTCATCTCTCAGATCATTT----CAAGTGCTCAAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1787087 94 +   8933513 CACTCCTATCCTCTGGGGCATTGCCAATCTATGGCCAAAGTCTCTTGGAGCAAAACTCCTACTCTCATCTCTCAGATCATTT----CAAGTGCTCAAC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139920063 94 + 163208435 CACTCTTATCCTCTGGGGCATTGCTAATCTATGGCCAAAGTCTCTTGGAGTAAAACTCCTACTCTCATCTCTCAGATCATTT----CAAGTGCTCAAC
i nomLeu3.chr2             C 0 I 3743
s rheMac8.chr6             122909202 98 + 180051392 CATTCTTATCCTCTGGGGCATTGCTAGTCTATGGCTGGAATCTCTTGGATCAAAACTCCCACTCTCATCTCTCAGATCATTTCCAACCAGTGCTCAAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124332822 98 + 181584905 CATTCTTATCCTCTGGGGCATTGCTAGTCTATGGCTGGAATCTCTTGGATCAAAACTCCCACTCTCATCTCTCAGATCATTTCCAACCAGTGCTCAAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16331487 98 +  18395747 CATTCTTATCCTCTGGGGCATTGCTAGTCTATGGCTGGAATCTCTTGGATCAAAACTCCCACTCTCATCTCTCAGATCATTTCCAACCAGTGCTCAAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5343916 98 +  26952557 CATTCTTATCCTCTGGGGCATTGCTAGTCTATAGCTGGAATCTCTTGGATCAAAACTCCCACTCTCATCTCTCAGATCATTTCCAACCAGTGCTCAAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28443737 98 +  82825804 CATTCTTATCCTCTGGGGCATTGCTAGTCTATGGCTGGAATCTCTTGGATCAAAACTCCCACTCTCATCTCTCAGATCATTTCCAACCAGTGCTCAAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4114109 98 -   4237731 CATTCTTATCCTCTGGGGCATTGCTAGTCTATAGCTGGAATCTCTTGGATCAAAACTCCCACTCTCATCTCTCAGATCATTTCCAACCAGTGCTCAAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      382598 98 -   1175262 CATTCTTATTCTCTGGGGCATTGCTAGTCTATGGCTGGAATCTCTTGGATCAAAACTTCCACTCTCATCTCTCAGATCATTTCCAACCAGTGCTCAAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123743837 97 - 204313951 CATTCTTATCCTCTGGATCATTGCTAATCTATGGCTGGAGTCTCTTGGAGCAAAACTCCCACTCTCATCTCTCAAACCATTTCC-ACCACTGCTCAAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55784616 97 -  71252344 CATTCTTATCCTCTGGATCATTGCTAATCTATGGCTGGAGTCTCTTGGAGCAAAACTCCCACTCTCATCTCTCACATCATTTCC-ACCAGTGCTCAAC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       87847 97 -   3089952 CATTCTTATCCTCTGGATCATTGCTAATCTATGGCTGCAGTCTTTTGGAGCAAAACTCCCACTCTCATATCTCAAATAATTTCT-ACCAGTGCTCAAC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13288727 98 -  42888418 CATTCTTATTCTCTGGATCATTGCTAATCTATGGCTGGAGTCTCTTGGAGCAAAACTCCCACTCTCATCTCTCAAATCATTTCCAACCAGTGCTCAAC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3137957 98 +   4132165 CGCTCTTACCCTCAGACGCACTGTACTTCTATGGTTGTTGTCCTTTGGAGGACAATTCCCCCTCTCATCTGTCATGTTATTTCCAGCCAGTGCTCAAC
i otoGar3.GL873679         I 1642 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e dasNov3.JH567306           2701025 3499 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I

a score=2376894.000000
s hg38.chr5_KI270796v1_alt    155391 221 +    172708 TTGTTGTCAGCTTTGGACTGCTCCTATAGATTGAAAATTCTGCCAGGTTTTGTCCATGATGCTGAGTGTGAGCAGCTC-AAAAATTTGTTTGCTATCTTCTTCAGTTTGAGATTGTTTTATGAACAAATGACCAATATCATGTCAAGGTCATCTAGCCTTCCTATCCCACGGGAGGGGTAGCA----GGGGAAGTGTGAAGACTGGGTCCCTGTCTCCATGACCTA
s panTro5.chr5             125264594 221 + 181907262 TTGTTGTCAGCTTTGGACTGCTCCTATAGATTGAAAATTCTGCCAGGTTTTGTCCATGATGCTGAGTGTGAGCAGCTG-AAAAATTTGTTTGCTATCTTCTTCAGTTTGAGATTGTTTTATGAACAAATGACCAATATCATGTCAAGGTCATCTAGCCTTCCTATCCCACGGGAGGGGTAGCA----GGGGAAGTGTGAAGACTGGGTCTCTGTCTCCATGACCTA
i panTro5.chr5             C 0 I 4943
s panPan2.chr5             126595409 221 + 183735486 TTGTTGTCAGCTTTGGACTGCTCCTATAGATTGAAAATTCTGCCAGGTTTTGTCCATGATGCTGAGTGTGAGCAGCTG-AAAAATTTGTTTGCTATCTTCTTCAGTTTGAGATTGTTTTATGAACAAATGACCAATATCATGTCAAGGTCATCCAGCCTTCCTATCCCACGGGAGGGGTAGCA----GGGGAAGTGTGAAGACTGGGTCTCTGTCTCCATGACCTA
i panPan2.chr5             C 0 I 4962
s gorGor5.CYUI01015135v1     1787181 221 +   8933513 TTGTTGTCAGCTTTGGGCTGCTCCTATAGATTGAAAATTCTGCCAGGTTTTGTCCATGATGCTGAGTGTGAGCAGCTG-AAAAATTTGTTTGCTATCTTCTTCAGTTTGAGATTGTTTTATGAACAAATGACCAATATCATGTCAAGGTCATCTAGCCTTCCTATCCCACGGGAGGGGTAGCA----GGGGAAGTGTGAAGACTGGGTCTCTGTCTCCATGACCTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139923900 222 + 163208435 TTGTTGTCAGCTTTGGACTGCTCCTATGGATTGAGAATTCTGCCAGGTTTTGTCCATGATGCTGGGTGTGAGCAGCTG-AAAAATTTGTTTGCTATCTTCTTTGGTTTCAGATTGTTTTATGAACAAATGACGAATATGATGTCAAGGTCATCTGGCCTTCCTATCCCATGGGAGAGGTAGCA---GGGGGAAGTGTGAAGACTGGGTCTCTGTCTCCATGACTTG
i nomLeu3.chr2             I 3743 C 0
s rheMac8.chr6             122909300 221 + 180051392 TTGTTGTCAGCTTTGGGCTGCTCCTATGGATTGAGAATTCTGCCAGGTTTTGTCCATTATGCTGGGTGTGAGCAGCTG-AAAAATTTGTTTGCAATCTTGTTCGGTTTGAGATTATTTTATGAACAAATGACCAATATCATGTCAAGGTCATCTAGCCTTCCTATCCCACAGGAGGGGTAGCA----GGGGAAGTGTGAAGACTGGGTCTCTGTCTCCATGACTTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124332920 221 + 181584905 TTGTTGTCAGCTTTGGGCTGCTCCTATGGATTGAGAATTCTGCCAGGTTTTGTCCATTATGCTGGGTGTGAGCAGCTG-AAAAATTTGTTTGCAATCTTGTTCGGTTTGAGATTATTTTATGAACAAATGACCAATATCATGTCAAGGTCATCTAGCCTTCCTATCCCACAGGAGGGGTAGCA----GGGGAAGTGTGAAGACTGGGTCTCTGTCTCCATGACTTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16331585 221 +  18395747 TTGTTGTCAGCTTTGGGCTGCTCCTATGGATTGAGAATTCTGCCAGGTTTTGTCCATTATGCTGGGTGTGAGCAGCTG-AAAAATTTGTTTGCAATCTTGTTCGGTTTGAGATTATTTTATGAACAAATGACCAATATCATGTCAAGGTCATCTAGCCTTCCTATCCCACAGGAGGGGTAGCA----GGGGAAGTGTGAAGACTGGGTCTCTGTCTCCATGACTTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5344014 221 +  26952557 TTGTTGTCAGCTTTGGGCTGCTCCTATGGATTGAGAATTCTGCCAGGTTTTGTCCATTATGCTGGGTGTGAGCAGCTG-AAAAATTTGTTTGCAATCTTGTTTGGTTTGAGATTATTTTATGAACAAATGACCAATATCATGTCAAGGTCATCTAGCCTTCCTATCCCACAGGAGGGGTAGCA----GGGGAAGTGTGAAGACTGGGTCTCTGTCTCCATGACTTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28443835 218 +  82825804 ---TTGTCAGCTTTGGGCTGCTCCTATGGATTGAGAATTCTGCCAGGTTTTGTCCATTATGCTGGGTGTGAGCAGCTG-AAAAATTTGTTTGCAATCTTGTTCGGTTTGAGATTATTTTATGAACAAATGACCAATATCATGTCAAGGTCATCCAGCCTTCCTATCCTACAGGAGGGGTAACA----GGGGAAGTGTGAAGACTGGGTCTCTGTCTCCATGACTTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4114207 211 -   4237731 TTGTTGTCAGCTTTGGGCTGCTCCTATGGATTGAGAATTCTGCCAGGTTTTGTCCATTATGCTGGGTGTGAGCAGCTG-AAAAATTTGTTTGCAATCTTGTTCGGTTTGAGATTATTTTATGAACAAATGACC----------TTAGGTCATCTAGCCTTCCTATCCCACAGGAGGGGTAGCA----GGGGAAGTGTGAAGACTGGGTCTCTGTCTCCATGACTTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      382696 221 -   1175262 TTGTTGTCAGCTGTGGGCTGCTCCTATGGATCGAGAATTCTGCCAGGTTTTGTCCATTATGCTGGGTGTGAGCAGCTG-AAAAATTTGTTTGCAATCTTGTTCGGTTTGAGATTATTTTGTGAACAAATGACCAATATCATGTCAAGGTCATCTAGCCTTCCTGTCCCACAGGAGGGGTAGCA----GGGGAAGTGTGAAGACTGGGTCTCTGTCTCCATGACTTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123743934 221 - 204313951 TTGTTTTCAGCTTTGGGCTACTCCTATGGATTGAGAATTCTGCCAGGTTTTGTCCATGATGCGGGGTGTGAGCAGCTG-AAAAATTTGTTTGCTATCTTCTTCTGTTTGAGATTGTTTTACGAACAAATGACCAATATCATGTCAAGGTCATCTGGCCTTCCTATCCCATGGGTGGAGTAGCA----GGGGAAGTATGAAGACTGGGTCTCCATCTCCATAACCTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55784713 221 -  71252344 TTGTGGTCAGCTTTGGGCTACTCCTATGGATTGAGAATTCTGCCAGGTTTTGTCCATGACGCGGGGTGTGAGCAGCTA-AAAAATTTGTTTGCTATCTTCTTCTGTTTGAGATTGTTTTATGAACAAATGACCAATATCATGTCAAGGTCATCTGGCCTTTCTATCCCATGGGAGGAGTAGCA----GGGGAAGTGTGAAGACTGGGTCTCCATCTCTATAATCTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       87944 221 -   3089952 TTGTTGTCAGCTTTGGGCTACTCATATGGATTGAGAATTCTGCCCGGTTTTGTCCATGATGCTGGACGTGAGCAGCTG-AAAAATTTCTTTGCTATCTTCTTCTGTTTGAGATTGTTTTACGAACAAATGACCAATATCATGCCAAGGTCATCTGGCCTTCCTATGCCATGGGAGAAGTAGCA----GGGGAAGTGTGAAGACTGGGTCTCCATCTCTATAACCTG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13288825 222 -  42888418 TTGTTGTCAGCTTTGGGCTACTCCTATGGATTGAGAATTCTGCCAGGTTTTGTCCATGATGCTGGGTGTGAGCAGCTGAAAAAATCTGTGTACTATCTTCTTCTGTTTGAGATTGTTTTACGAACAAATGACCAATATCATGTCAAGGTCATCTGGCCTTCCTATCCCATGGGAGGAGTAGCA----GGGGAAGTGTGAAGACTGGGTCTCCATCTCCATAACCTG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3138055 225 +   4132165 TTGTGGTCATCTCTGGGTTACTCCTGTGGACTCCCAATTCTGCCAGGCTTTGTTCATGATGCTAGGTTTGAGGGGCTG-GAATTTTTTTTGGCTATCATCTTCAGTTTCATGTGGCTTTGTGAACCCATGACCAATATCATCTCAAGGCCATCTGGCCCTCTTCTGCCACGGGAAGGGTGGTGGCAGGGGGAGGTTTGTGCTCAGGATATTGGTCTCCTTGACCCA
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e dasNov3.JH567306           2701025 3499 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I

a score=818735.000000
s hg38.chr5_KI270796v1_alt    155612 77 +    172708 CTTTGGTATTTTCCCCAAGGAGCTTGGCAGTCTCATCTCTAG------------------AGTCA--GTCTCTGAAACATGGGTGGTTAAAGAGAGA
s panTro5.chr5             125269758 77 + 181907262 CTTTGGTATTTTCCCCAAGGAGCTTGGCAGTCTCATCTCTAG------------------AGTCA--GTCTCTGAAACATGGGTGGTTAAAGAGAGA
i panTro5.chr5             I 4943 C 0
s panPan2.chr5             126600592 77 + 183735486 CTTTGGTATTTTCCCCAAGGAGCTTGGCAGTCTCATCTCTAG------------------AGTCA--GTCTCTGAAACATGGGTGGTTAAAGAGAGA
i panPan2.chr5             I 4962 C 0
s gorGor5.CYUI01015135v1     1787402 77 +   8933513 CTTTGGTATTTTCCCCAAGGAGCTTGGCAGTCTCATCTCTAG------------------AGTCA--GTCTCTGAAACATGGGTGGTTAACGAGAGA
i gorGor5.CYUI01015135v1   C 0 I 4948
s nomLeu3.chr2             139924122 77 + 163208435 CTTTGGTATTTTCCCCAAGGAGCTTGGCAGTCTTTTCTCTAG------------------AGTCA--GTCTCTGAAACATGGGTGGTTAAAGAGAGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122909521 93 + 180051392 CTTTGGTATTTTCCCCAAGGAGCTTGGcagtcttatctctagagtcagtctcatctct--agtca--gtctcTGAAACATGGGTGGTTAAAGAGAGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124333141 93 + 181584905 CTTTGGTATTTTCCCCAAGGAGCTTGGcagtctcatctctagagtcagtctcatctct--agtca--gtctcTGAAACATGGGTGGTTAAAGAGAGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16331806 93 +  18395747 CTTTGGTATTTTCCCCAAGGAGCTTGGcagtctcatctctagagtcagtctcatctct--agtca--gtctcTGAAACATGGGTGGTTAAAGAGAGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5344235 93 +  26952557 CTTTGGTATTTTCCCCAAGGAGCTTGGcagtctcatctctagagtcagtctcatctct--agtca--gtctcTGAAACATGGGTGGTTAAAGAGAGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28444053 93 +  82825804 CTTTGGTATTTTCCCCAAGGAGCTTGGcagtctcatctctagagtcagtctcatctct--agtca--gtctcTGAAACATGGGTGGTTAAACAGAGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4114418 93 -   4237731 CTTTGGTATTTTCCCCAAGGAGCTTGGCAGTCTCATCTCTAGAGTCAGTCTCATCTCT--AGTCA--GTCTCTGAAACATGGGTGGTTAAAGAGAGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      382917 95 -   1175262 CTTTGGTATTTTCCCCAAGGAGCTTGGCAGTCTCATCTCTATAGTCAGTCTCATCTCTAGAGTCA--GTCTCTGAAACATGGGTGATTAAAGAGAGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123744155 75 - 204313951 CTTTGGTATTTTCCCCAAGAAGTTTGCCAGTCTCATCTCTAG------------------AGTCA--GTCACTGAAAC--AGGTGGTTGAAAAGAGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55784934 77 -  71252344 CTTTGGTATTTTCCCCAAGGAGTTTGCCAGTCTCATCTCTAG------------------AGTCA--GTCTCTGAAATAGAGGTGGTTAAAGAGAGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       88165 77 -   3089952 CTTTGGTATTTTCCCCAAGGAGCTTGCCAGTCTCATCTCTAG------------------AGTCA--GTCTCTGAAACACAGGTGGTTAAAGAGAGG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13289047 77 -  42888418 CTTTGGTATTTTCCCCAAGGAGCTTGCCAGTCTCATCTCTAG------------------AGTCA--GTCTCTGAAACACGGGTGGTTAAAGAGAGG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3138280 77 +   4132165 CTTCAATATTTTCCCCAAGAAGCTTGGCAA-CTCATCTATGG------------------ATTCACCATTTCCAGAACAT-GGTGAATGAGCAGGAA
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e dasNov3.JH567306           2701025 3499 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I

a score=1421628.000000
s hg38.chr5_KI270796v1_alt    155689 144 +    172708 ATGGCAGAATAGAGAAGAGGCCAGGATTGTGTCTCTC---------------------------------------------TCATCTGATATAGTTTTATGGATTCAAGGACCTTAAAGGGCAAAGCCTGCCTCTGCTGCCCCCAAAACTACGTAATATGAGCTTCTAACATCAGCTGAATCCTTGGA
s panTro5.chr5             125269835 144 + 181907262 ATGGCAGAATAGAGAAGAGGCCAGGATTGTGTCTCTC---------------------------------------------TCATCTGATATAGTTTTATGGATTCAAGGACCTTAAAGGGCAAAGCCTGCCTCTGCTGCCCCCAAAACTACGTAATATGAGCTTCTAACATCAGCTGAATCCTTGGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126600669 144 + 183735486 ATGGCAGAATAGAGAAGAGGCCAGGATTGTGTCTCTC---------------------------------------------TCATCTGATATAGTTTTATGGATTCAAGGACCTTAAAGGGCAAAGCCTGCCTCTGCTGCCCCCAAAACTATGTAATATGAGCTTCTAACATCAGCTGAATCCTTGGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1792427 143 +   8933513 ATGGCAGACTAGAGAAGAGGCCAGGATTGTGTCTCTC---------------------------------------------TCATCTGATATAGTTTTATGGATTCAAGGACCTTAAAGGGCAAAGCCTGCCTCTGCTG-CCCCAAAACTACGTAATATGAGCTTCTAACATCAGCTGAATCCTTGCA
i gorGor5.CYUI01015135v1   I 4948 C 0
s nomLeu3.chr2             139924199 144 + 163208435 ATGGCAGACTAGAGAAGAGGCCAGGATTATATCTCTC---------------------------------------------TCATCTGAAATAGTTTTATGGATTCAAGGACCTTAAATGGCAAAGCCTGCCTCTGATGCCCCCAAAACCACATAATATGAGCTTCTAACATCAGCTGAATCCTTGGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122909614 144 + 180051392 ATGGCAGACTAGAGAAGAGGTCAGGATTGTGTCTCTC---------------------------------------------TCATCTAAAATAGTTTTATGGATTCAAGGACCTTAAAGGGCAAAACCTGCCTCTGCTGCCCCCAAAATCATGGAATATGAGATTCTAACATCAGCTGAATCCTTGGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124333234 144 + 181584905 ATGGCAGACTAGAGAAGAGGTCAGGATTGTGTCTCTC---------------------------------------------TCATCTAAAATAGTTTTATGGATTCAAGGACCTTAAAGGGCAAAACCTGCCTCTGCTGCCCCCAAAATCATGGAATATGAGATTCTAACATCAGCTGAATCCTTGGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16331899 144 +  18395747 ATGGCAGACTAGAGAAGAGGTCAGGATTGTGTCTCTC---------------------------------------------TCATCTAAAATAGTTTTATGGATTCAAGGACCTTAAAGGGCAAAACCTGCCTCTGCTGCCCCCAAAATCATGGAATATGAGATTCTAACATCAGCTGAATCCTTGGA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5344328 144 +  26952557 ATGGCAGACTAGAGAAGAGGTCAGGATTGTGTCTCTC---------------------------------------------TCATCTAAAATAGTTTTATGGATTCAAGGACCTTAAAGGGCAAAACCTGCCTCTGCTGCCCCCAAAATCATGGAATATGAGCTTCTAACATCAGCTGAATCCTTGGA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28444146 144 +  82825804 ATGGCAGACTAGAGAAGAGGTCAGGATTGTGTCTCTC---------------------------------------------TCATCTAAAATAGTTTTATGGATTCAAGGACCTTAAAGGGCAAAACCTGCCTCTGCTGCCCCAAAAATCATGGAATATGAGCTTCTAACATCAGCTGAATCCTTGGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4114511 144 -   4237731 ATGGCAGACTAGAGAAGAGGTCAGGATTGTGTCTCTC---------------------------------------------TCATCTAAAATAGTTTTATGGATTCAAGGACCTTAAAGGGCAAAACCTGCCTCTGCTGCCACCAAAATCATGGAATATGAGCTTCTAACATCAGCTGAATCCTTGGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      383012 144 -   1175262 ATGGCAGACTAGAGAAGAGGCCAGGATTGTGTCTCTC---------------------------------------------TCATCTAAAATAGTTTTATGGATTCAAGGACCTTAAAGGGCAAAACCTGCCTCCGCTGCCCTCAAAATCATGGAATATGAGTTTCTAACATCAGCTGAATCCTTGGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123744230 144 - 204313951 ATGGGAGACTAGAGAAGACACCAGGATTGTGTCTCTC---------------------------------------------TCATCTGAAATGGTTTTATGGATTCAAAGACCTTAAAGGGCAAAGCCTGTCTCTGCTGCATCTAAAACCATTTAATATGAGCTTCTAACATCAGCTCAATCCTTAGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55785011 187 -  71252344 AAGGGAGACTAGAGAAGATGCCAGGATTGTCTCTCTC--ATCTGAAATAATTTTATGGATTCAAAGACCTTAAAGGGCAAAGCCATCTGAAATAGTTTTATGGATTCAAAGAACTTAAAGGGCAAAGCCTGTCTCTGCTGCATCTAAAACCATTTAATATGAGCTTCTAACATCAGCTCAATCCTTAGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       88242 187 -   3089952 GTGGGAGACTAGAGAAGACACCAGGATTGTGTCTCTCTCATCTGAAATAATTTTATAGATTCAAAGACCTTAAAGGGCAAAGCCATCTGAAATAGTTTTATGGATTCAAAGACCTTAAAGGGCAAAGCCTG--TCTGCTGCATCTAAAACTATTTAATATGAGCTTCTAACATCAGTTCAATCCTTAGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13289124 188 -  42888418 ATGGGAGACTAGAGAAGACGCCAGGATTGTGTCTCTCTCATCTGAAATAATTTTATGAATTCGAAGACCTTAAAGGGCAAAGCCATCTGAAACAGTTTTATGGATTCAAAGACCTTAAAGGGCAAAACCTGTCTCTGCTGCATCTGAAACCATTTAATATGAGC-TCTAACATCATCTCAATCCTTAGA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3138357 139 +   4132165 AAGGCAGACTACAAAAGATGCCAGGAGTCCATCTTTC---------------------------------------------TTATCTGAAA--GTGCTTTGGACTGGAGGACCTAAAAGGACAAGGCCTA---CTGCCTCACCTCAAATCATATAATAGGAACTTCTAATATCTGTTGAGTCCTCTGA
i otoGar3.GL873679         C 0 I 305
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e dasNov3.JH567306           2701025 3499 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I

a score=6500025.000000
s hg38.chr5_KI270796v1_alt    155833 703 +    172708 TTGGGGAAGAAATCCTCCCATAAGGAATTCACATGACTTTCCTGAC-------------------CACTGAGTGTAATATTTCTGGTTTCCATGTGAGTATGAGACTTTCCAGGACCAGGCAGTGGA---TAGTAGGCAGCAAACTGAAGACAACCCACATACAGGCTTTCTACCCAAAATGGTCTACCCCAGTGACTTCCCAAGTTTACTTGGCGGGTATA-TTTTTTTTGTTTGTCTTTATTCCAGGTTTTTCTACAGGCTTTTTGATCAGCCATTCCCTGCGTGACTGA----C-TTACTTTTTTTTTTTTCCTCAGAGTTTTCCTTCAGAACCTCCTGTGTTTAGCTTCTGAATCCCATGGTAGGTTATTTT---GGTCCCTCCTCAAGG-TATGTCTCATACATCTCCCCAGGTCTTTCCCTACCTGGATCCTCACTAGCTGGGACCCTTACATGGCAGCCTCCTGGGTGCTTCTATTAATATACAATCTTGGTCTTTTAGTATTTGAATACAGAGGGCTGTGAGAGC-TTTCCTTGGTTATTTCCCCCAAGGCTGCATCAGTGCCAGAGGTGCTTGGATGATGTAGGGCTGGCCTCCCTGTTGTTGAATAAATTATTATTGAAGGTAGTTCTCCAGCTGCTTCT-GGATCTGTTTACTGATTGTACATTCTCCACGAAGGGTGCAGCCTGCCACACAGGCCTAAAGAAAGACAGACAGGGCTGTATGGGGG
s panTro5.chr5             125269979 698 + 181907262 TTGGGGAAGAAATCCTCCCATAAGGAATTCACATGACTTTCCTGAC-------------------CACTGAGTGTAATATTTCTGGTTTCCATGTGAGTATGAGACTTTCCAGGACCAGGCAGTGGA---TAGTAGGCAGCAAACTGAAGACAACCCACATACAGGCTTTCTACCCAAAATGGTCTACCCCAGTGACTTCCCAAGTTTACTTGGCAGGTATA-TATTTTTTGTTTGTTTTTATTCCAGGTTTTTCTACAAGCTTTTGGATCAGCCATTCCCTGCGTGACTTA----C-TT---TTTTTTTTTTTCCTCAGAGTTTTCCTTCAGAACCTCCTGTGTTTAGCTTCTGAATCCCATGGTAGGTTATTTT-TTGGTCCCTCCTCAAGG-TATGTCTCATACATCTCCCCAGGTCTTTCCCTACCTGGATCCTCACTAGCTGGGGCCCTTACACGGCAGCCTCCTGGGTGCTTCTATTAATATACAATCTTGGTCTTTTAGTATTTGAATACAGAGGGCTGTGAGAGC-TTTCCTTGGTTATTTCCCCCAAGGCTGCATCAGTGCCAGAGGTGCTTGGATGATGTAGGGCTGGCCTCCCTGTTGTTGAATAAATTATTATTGAAGGTAGTTCTCCAGCTGCTTCT-GGATCTGTTTACTGATTGTACATTCTCCACGAAGGGTGCAGCCTGCCACACAGGCCTAAAGAAAGACAG----GGCTGTATGGGGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126600813 696 + 183735486 TTGGGGAAGAAATCCTCCCATAAGGAATTCACATGACTTTCCTGAC-------------------CACTGAGTGTAATATTTCTGGTTTCCATGTGAGTATGAGACTTTCCAGGACCAGGCAGTGGA---TAGTAGGCAGCAAACTGAAGACAACCCACATACAGGCTTTCTACCCAAAATGGTCTACCCCAGTGACTTCCCAAGTTTACTTGGCAGGTATA-TTTTTTTTGTTTGTTTTTATTCCAGGTTTTTCTACAAGCTTTTTGATCAGCCATTCCCTGCGTGACTTA----C-TT------TTTTTTTTCCTCAGAGTTTTCCTTCAGAACCTCCTGTGTTTAGCTTCTGAATCCCATGGTAGGTTATTTTTTTGGTCCCTCCTCAAGG-TATGTCTCATACATCTCCCCAGGTCTTTCCCTACCTGGATCCTCACTAGCTGGGACCCTTACATGGCAGCCTCCTGGGTGCTTCTATTAATATACAATCTTGGTCTTTTAGTATTTGAATACAGAGGGCTGTGAGAGC-TTTCCTTGGTTATTTCCCCCAAGGCTGCATCAGTGCCAGAGGTGCTTGGATGATGTAGGGCTGGCCTCCCTGTTGTTGAATAAATTATTATTGAAGGTAGTTCTCCAGCTGCTTCT-GGATCTGTTTACTGATTGTACATTCTTCACGAAGGGTGCAGCCTGCCACACAGGCCTAAAGAAAGACAG----GGCTGTATGGGGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1792570 699 +   8933513 TTGGGGAAGAAATCCTCCCATAAGGAATTCACATGACTTTCCTGAC-------------------CACTGAGTGTAATATTTCTGGTTTCCATGTGAGTATGAGACTTTCCAGGACCAGGCAGTGGA---TAGTAGGCAGCAAACTGAAGACAACCCACATACAGGCTTTCTACCCAAAATGGTCTACCCCAGTGACTTCCCAAGTTTACTTGGCGGGTATA-TTTTTTTTGTTTGTTTCTATTCCAGGTTTTTCTACAAGCTTTTTGATCAGCCATTCCCTGTGTGACTTT----T-TT---TTTTTTTTATTCCTCAGAGTTTTCCTTCAGAACCTCCTGTGTTTAGCTTCTGAATCCCATGGTATGTTATTTT-TTGGTCCCTCCTCAGGGTTATGCCTCATACATCTCCCCAGGTCTTTCCCTACCTGGATCCTCACTAGCTGGGACCCTTACATGGCAGCCTCCTGGGTGCTTCTATTAATATACAATCTTGGTCTTTTAGTATTTGAATACAGAGGGCTGTGAGAGC-TTTCCTTGGTTATTTCCCCCAAGGCTGCATCAGTGCCAGAGGTGCTTGGATGATGTAGGGCTGGCCTCCCTGTTGTTGAATAAATTACTATTGAAGGTAGTTCTCCAGCTGCTTCT-GGATCTGTTTACTGATTGTACATTCTCCACGAAGGGTGCAGCCTGCCACACAGGCCTAAAGAAAGACAG----GGCTGTATGGGGC
i gorGor5.CYUI01015135v1   C 0 I 20
s nomLeu3.chr2             139924343 690 + 163208435 TTGAGGAAGAAATCCTCCCATAAGGAATTCACATGACTTTCCTGAC-------------------CACTGAGTGTAATATTTCTGGTTTCCATGTGAGTATGAGACTTTCCAGGACTGGGCAGTGGA---TAGTAGGCAGCAAACTGAAGACAACCCACATACAGGCTTTCTACCCAAAATGGTCTACCCCAGTGACTTCCCAAGTTTACTTGGTGGGTATA-T-TTTTTTGTTTGTTTCTATTCCAGGTTTTTCTATGAGCTTTTTGATCAGCCATTCCCTGCATGACTTA----C-TT------TTTGTTTTCCTCAGAGTTTCCCTTCTGAACCTTCTGTGTTTAGCTTCTGAATCCCATGGTAGGTTTTTTT-TTGGCCCCTCCTCAAGG-TATGCCTCATACATCTCCCCAGGTCTTTCTCTACCTGGATCCTCGCTAGCTGGGACGCTTACATGGCAGCCTCTTGGGTGCTTCTATTAATATACAATCTTGGTCTTTTAGTATTTGAATACAGAGGGCTGTGTGAGC-TTTCCTTGGTTATTTCCCCTAAGGCTGCATCAGTGCCAGAGGTGCTTGGATGATGTAGGGCTGGCCTCCCTGTTGTTGAATAAATTATTATTGAAGGTAGTTCTCCAGCTGCTCCT-GGATCTGTTTACTGATTGTACATTCTCCATGAAGGGCGCAGCCTGCCACATACGTCT----AAAGACAG----GACTGTTTGGGGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122909758 692 + 180051392 TTGAGGAAGGAATCCTCCCATAAGGAAATCATATGACGTTCCTGAC-------------------CACTGAGTGTAATATTTCTGGTTTCCATGTGAGTATGAGACTTTCCAGGAGTGGAGAGTGGA---TAGTAGGCAGCAAGCTGAAGACAACCCACATATAGGCTTTCTACCCAAAATGGTCTGCCCCAGTGACTCCCCAAGTTTACTTGGCAGGTATA-TTTTTTTTGTTTGTTTCTGGTCCAGGTTTTTCTATGAGCTTTTTGATCAGCCATTCCCTGAGTGACTTA----C-TT---------TTTTTTCTCAGAGTTTTCCTTCAGAACCTTCTGTGTTTAGCTTCTGAATCCTGCGGTAGGTTATTTT-TTGGCACCTCCTCAAGA-TATGCCTCATACATCTCCCCATGTCTTTCCCTACCTGGATCCTCACTAGCTGGGACCCTTACATGGCAGCCTCCTGGGTACTTCTATTAGCATACGATCTTGGTCTTTTAGTATTTAAATACAGAGGGCTGTGAAAGC-TTTCCTTGGTGATTTCCCCTAAGGCTGCGTCAGTGTCAGAGGTGCTTGGATGATGTAGGGCTGGCCTCCCTGGTGTTGAATACATTATTATTGAAAGTGGTTCTCCAGTTGCTTCT-GGATCTGTTTACTGATTGTACATTCTCCACGAGGGGTGCAGCCTGCTACATAAGCCTAAAGAAAGACAG----GGCTGTATAGGGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124333378 692 + 181584905 TTGAGGAAGGAATCCTCCCATAAGGAAATCATATGACGTTCCTGAC-------------------CACTGAGTGTAATATTTCTGGTTTCCATGTGAGTATGAGACTTTCCAGGAGTGGAGAGTGGA---TAGTAGGCAGCAAGCTGAAGACAACCCACATATAGGCTTTCTACCCAAAATGGTCTGCCCCAGTGACTCCCCAAGTTTATTTGGCAGGTATA-TTTTTTTTGTTTGTTTCTGGTCCAGGTTTTTCTATGAGCTTTTTGATCAGCCATTCCCTGAGTGACTTA----C-TT---------TTTTTTCTCAGAGTTTTCCTTCAGAACCTTCTGTGTTTAGCTTCTGAATCCTGCGGTAGGTTATTTT-TTGGCACCTCCTCAAGA-TATGCCTCATACATCTCCCCATGTCTTTCCCTACCTGGATCCTCACTAGCTGGGACCCTTACATGGCAGCCTCCTGGGTACTTCTATTAGCATACGATCTTGGTCTTTTAGTATTTAAATACAGAGGGCTGTGAAAGC-TTTCCTTGGTGATTTCCCCTAAGGCTGCATCAGTGTCAGAGGTGCTTGGATGATGTAGGCCTGGCCTCCCTGGTGTTGAATACATTATTATTGAAAGTGGTTCTCCAGTTGCTTCT-GGATCTGTTTACTGATTGTACATTCTCCACGAGGGGTGCAGCCTGCTACATAAGCCTAAAGAAAGACAG----GGCTGTATAGGGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16332043 692 +  18395747 TTGAGGAAGGAATCCTCCCATAAGGAAATCATATGACGTTCCTGAC-------------------CACTGAGTGTAATATTTCTGGTTTCCATGTGAGTATGAGACTTTCCAGGAGTGGAGAGTGGA---TAGTAGGCAGCAAGCTGAAGACAACCCACATATAGGCTTTCTACCCAAAATGGTCTGCCCCAGTGACTCCCCAAGTTTACTTGGCAGGTATA-TTTTTTTTGTTTGTTTCTGGTCCAGGTTTTTCTATGAGCTTTTTGATCAGCCATTCCCTGAGTGACTTA----C-TT---------TTTTTTCTCAGAGTTTTCCTTCAGAACCTTCTGTGTTTAGCTTCTGAATCCTGCGGTAGGTTATTTT-TTGGCACCTCCTCAAGA-TATGCCTCATACATCTCCCCATGTCTTTCCCTACCTGGATCCTCACTAGCTGGGACCCTTACATGGCAGCCTCCTGGGTACTTCTATTAGCATACGATCTTGGTCTTTTAGTATTTAAATACAGAGGGCTGTGAAAGC-TTTCCTTGGTGATTTCCCCTAAGGCTGCATCAGTGTCAGAGGTGCTTGGATGATGTAGGGCTGGCCTCCCTGGTGTTGAATACATTATTATTGAAAGTGGTTCTCCAGTTGCTTCT-GGATCTGTTTACTGATTGTACATTCTCCACGAGGGGTGCAGCCTGCTACATAAGCCTAAAGAAAGACAG----GGCTGTATAGGGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5344472 688 +  26952557 TTGAGGAAGGAATCCTCCCATAAGGAAATCATATGACGTTCCTGAC-------------------CACTGAGTGTAATATTTCTGGTTTCCATGTGAGTATGAGACTTTCCAGGAGTGGAGAGTGGG---TAGTAGGCAGCAAGCTGAAGACAACCCACATATAGGCTTTCTACCCAAAATGGTCTGCCCCAGTGACTCCCCAAGTTTCCTTGGCAGGTATA-TTTTTTTTGTTTGTTTCTGGTCCAGGTTTTTCTATGAGCTTTTTGATCAGCCATTCCCTGAGTGACTTA----C-TT---------TCTTTTCTCAGAGTTTTCCTTCAGAACCTTCTGTGTTTAGCTTCTGAATCCTGCGGTAGGTTATTTT-TTGGCACCTCCTCAAGA-TATGCCTCATACATCTCTCCATGTCTTTCCCTACCTGGATCTTCACTAGCTGGGACCCTTACATGGCAGCCTCCTGCGTACTTCTATTAGCATACGATCTTGGTCTTTTAGTATTTAAATACAGAGGGCTGTGAAAGC-TTTCCTTGGTGATTTCCCCTAAGGCTGCATCAGTATCAGAGGTGCTTGGATGATGTAGGGCTGGCCTCCCTGGTGTTGAATACATTATTATTGAAAGTGGTTCTCCAGTTGCTTCT-GGATCTGTTTACTGATTGTACATTCTCCACGAGGGGTGCAGCCTGCTACATAGGCCT----AAAGACAG----GGCTGTATGGGGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28444290 687 +  82825804 TTGAGGAAGGAATCCTCCCATAAGGAAATCATATGACGTTCCTGAC-------------------CACTGAGTGTAATATTTCTGGTTTCCATGTGAGTATGAGACTTTCCAGGAGTGGAGAGTGGA---TAGTAGGCAGCAAGCTGAAGACAACCCACATATAGGCTTTCTACCCAAAATGGTCTGCCCCAGTGACTCCCCAAGTTTACTTGGCAGGTATA-TTTTTTTTGTTTGTTTCTGGTCCAGGTTTTTCTATGAGCTTTTTGATCAGCCATTCCCTGAGTGACTTA----C-TT---------TTTTTTCTCAGAGTTTTCCTTCAGAACCTTCTGTGTTTAGCTTCTGAATCCTGCAGTAGGTTATTTT-TTGGCACCTCCTCAA-A-TATGCCTCATACATCTCCCCATGTCTTTCCCTACCTGGATCCTCACTAGCTGGGACCCTTACATGGCAGCCTCCTGGGTACTTCTATTAGCATACGATCTTAGTCTTTTAGTATTTAAATACAGAAGGCTGTGAAAGC-TTTCCTTGGTGATTTCCCCTAAGGCTGCATCAGTGCCAGAGGTGCTTGGATGATGTAGGGCTGGCCTCCCTGGCGTTGAATACATTATTATTGAAAGTAGTTCTCCAGTTGCTTCT-GGATCTGTTTACTGATTGTACGTTCTCCACGAGGGGTGCAGCCTGCTACATAGGCCT----AAAGACAG----GGCTGTATGGGGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4114655 689 -   4237731 TTGAGGAAGGAATCCTCCCATAAGGAAATCATATGACGTTCCTGAC-------------------CACTGAGTGTAATATTTCTGGTTTCCATGTGAGTATGAGACTTTCCAGGAGTGGAGAGTGGA---TAGTAGGCAGCAAGCTGAAGACAACCCACATATAGGCTTTCTACCCAAAATGGTCTGCCCCAGTGACTCCCCAAGTTTACTTGGCAGGTATATTTTTTTTTGTTTGTTTCTGGTCCAGGTTTTTCTATGAGCTTTTTGATCAGCCATTCCCTGAGTGACTTA----C-TT---------TCTTTTCTCAGAGTTTTCCTTCAGAACCTTCTGTGTTTAGCGTCTGAATCCTGCGGTAGGTTATTTT-CTGGCACCTCCTCAAGA-TATGCCTCATACATCTCCCCATGTCTTTCCCTACCTGGATCCTCACTAGCTGGGACCCTTACATGGCAGCCTCCTGCGTACTTCTATTAGCATACGATCTTGGTCTTTTAGTATTTAAATACAGAGGGCTGTGAAAGC-TTTCCTTGGTGATTTCCCCTAAGGCTGCATCAGTGTCAGAGGTGCTTGGATGATGTAGGGCTGGCCTCCCTGGTGTTGAATACATTATTATTGAAAGTGGTTCTCCAGTTGCTTCT-GGATCTGTTTACTGATTGTATATTCTCCACGAGGGGTGCAGCCTGCTACATAGGCCT----AAAGACAG----GGCTGTATGGGGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      383156 705 -   1175262 TTGAGGAAGGAATCCTCCCATAAGGAATTCATATGATGTTCCTGATTACATTACTGAATGTATTACACCGAGTGTAATATTTCTGGTTTCCATGTGAGTATGAGACTTTCCAGGAGTGGAGAGTGGA---TAGTAGGCAGCAAGCTGAAGACAACCCACATATAGGCTTTCTACCCAAAATGGTCTGCCCCAGTGACTCCCCAAGTTTACTTGGCAGGTATA-TTTTTT---TTTGTTTCTGGTCCAGGTTTTTCTATGAGCTTTTTGATCAGCCATTCCCTGAGTGACTTA----CTTT---------TTTTTTCTCAGAGTTTTCCTTCAGAACCTTCTGTGTTTAGCTTCTGAATCCTGTGGTAGGTTATTTT-TTGGCACCTCCTCAAGG-TATGCCTCATACATCTCCGCATGTCTTTCCCTACCTGGATCCTCACTAGCTGGGACCATTACATGGCAGCCTCCTGGGTACTTCTATTAGTATACGATTTTGGCCTTTTAGTATTTAAATACAGAGGGCTGTGAAAGC-TTTCCTTGGTGATTTCCCCTAAGGCTGCATCAGTGCCAGAGGTGCTTGGATGATGTAGGGCTGGCCTCCCTGGTGTTGAATACATTATTATTGAAGGTGGTTCTCCAGTTGCTTCT-GGATCTGTTTACTGATTGTACATTCTCCATGAGGGGTGCAGCCTGCTACATAGGCCT----AAAGACAG----GGCTATATGGGGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123744374 681 - 204313951 TTTAGGAAGGAAAGCTCCCACAAGGGACTCACATGACATGCCTGAC-------------------TACTGAGTGTAATATTTCTTGTTTCCATGTGAGTATGAGACTTTCCAGGAGTAGGCAGTGGATAGTAGTAGGCAGCCAGCTGAAGACAACCCACATACAGGCTTTCTACCCAAATTGGTC-----------CTCCCCAAGTTTACTTGG-------A-TATATTTTGTTTGTTTCTGGTCCAGGTTTTCCTATGAGCTTTTTGATCAGCCATTCCCTGAGTAACTTACTTTC-TT----TCTTTTTTTTTCTCAGAGATTTCCTTCAGAACCTTCTGTGTTTAGCTTCTGAGTCTTGTAGTAGATTGTTTT-TTGGCCCCTCCTCAAGC-TATATTTCATGCATCTCCCCTGGTCCTTCCCTATCTGGATCCTCCCTAGCTGGGACCCTTACATGGCCGCCTCCTGGGTGCTTCTATTAATATACAGTCTTGGTCCTTTAGTATTT-AATACAGAGGGCTGTGAGAGA-TTTCCTTGGTAATTTCCTTTAAGGCTGCATCAGTGCCAGAGGTGCTTGGATGATGTCGGGCTGGCCTCCCTGGTGTCGAGTAAATCATTATTGAAGGTGGTTCTCCAGCTGCTTCT-GGATCTGTTTACTGATAGTGCATTCTTCATGAAGAATGTAGACTGCCACACTGGCCT----AAAGACAG----GGCTGTATGGGGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55785198 665 -  71252344 TCTAGGAAGGAAAGCTCCCACAAGGGACTCACATGACATGCCTGAC-------------------TACTGAGTGTAATATTTCTTGTTTCCATGTGAGTATGAGACTTTCCAGGAGTGGACAGTGGA---TAGTAGGCAGCCAGTCAAAGGCAACCCACATACAGGCTTTCTACCCAAATTGGTC-----------CTCCCCGAGTTTACTTGG-------A-TATGTTTTGTTTGTTTCTGGTCCAGGTTTTCCTGTGAGCTTTTTGATCAGCCATTCCCTGAGTAACTTA----C-TT----TTTTTTTTTTTCTCAGAGATTTCCTTCAGAACCTTCTGTGTTTAGCTTCTGAGTCTTGTAGTAGATTGTTTT-TTGGCCCCTCCTCAAGC-TATGCTTCATGCATCTCCCCAGGCCTTTCCCTATCTGGATCCTCCCTAGCTGGGACCCTTACATGGCAGCCTCCTGGGTGCTTCTATTAATATACAATCTTGGTCCTTTAGTATTT-AATACAGAGTGCTGTGAGAGC-TTTCCTTGGTAATTTCCTTTAAGGCTGCATCAGTGCCAGAGGTGCTTGGATGAGGTAGGGCTGGCCTCCCTGGTGTTGAATAAACCGTTATTGAAGGTGGTTCTCCAGCTGCTTCC-AGATCTGTTTACTGATAGTGCATTCTCTGTGAAGAATGCAGACT---------GCCT----AAAAACAG----GGCTGTATGGGGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       88429 674 -   3089952 TCTAGGAACGAAAGCTCCCACAAGGGACTCACATGACATGCCTGAC-------------------AACTGAGTGTAATATTTCTTGTTTCCATGTGAGTATGAGACTTTCCAGGAGTGGGCAGTGGA---TAGTAGGCAGCCAGTCGAAGACAGCCCACATACAGGCTTTCTACCCAAGTTGGTC-----------CTCCCCGAGTTTACTTGA-------A-TATATTTTGTTTGTTTCTGGTCCAGGTTTTCCTATGAGCTTTTTGATCAGCCATTCCCTGAGTAACTTA------CT----TTTTTTTTTTTCTCAGAGATTTCCTTCAGAACCTTCTGTGTTTAGCTTCTGAGTCTTGTAGTAGATTGTTTT-TTGGCCCCTCCTCAAGC-TATGCGTCATGCATCTCCCCAGGTCTTTCCCTATCTGGATCCTCCCTAGCTGGGACCCTTACATGGCAGCCTCCTGGGTGCTTCTATTAATATACAATCTTGGTCCTTTAGTATTT-AATACAGAGGGCTGTGAGAGC-TTTCCTTGGTAATTTCCTTTAAGACTGCGTCAGTGCCAGAGGCACTTGGATGATGTAGGGCTGACCTCCCTGGTGTTGAATAAATAGTTATTGAAGATGGTTCTTCAGCTGCTTCTGGGATCTGTTTACTGATAGTGCATTCTCCATGAAGAATGTAGACTGCCACACTGGCCT----AAAGACAG----GGCTGTATGGGGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13289312 676 -  42888418 TCTAGGAAAGAAAGCTCCCACAAGGGACTCACATGACATGCCTGAC-------------------TACTGAGTATAATATTTCTTGTTTCCATGTGAGTATGAGACTTTCCAGGAGTGGGCAGTGGA---TAGCAGGCAGCCAGTCGAAGACAACCCACATACAGTCTTTCTACCCAAATTGGTC-----------CTCCCCAAGTTTACTTGG-------A-TATATTTTGTTTGTTTCTGGTCCAGGTTTTCCTATGAGCTTTCTGATCAGCCATTCCCTGAGTAACTTA---CT-TT----TTTTTTTTTTTCTCAGAGATTTCCTTCAGAACCTTCTGTGTTTAGCTTCTGAGTCTTGTAGTAGGTTGTTTT-TTGGCCCCTCCTCAAGC-TGTGCTTCATGCATCTCCCCAGGCCTTTCCCTATCTGGATCCTCCCTAGCTGGGACCCTTACATGGCAGCCTCCTGCGTGTTTCTATTAATATACAATCTTGATCCTTTAGTATTT-AATACAGAGGGCTGTGAGAGCTTTTCCTTGGTAATTTCCTTTAAGGCTGCATCAGTGTCAGAGGTGCTTGGATGATGTAGGGCTGGCCTCCCTGGTGTTGAATAAATCATTATTGAAGGTGGTTCTCCAGCTGCTTCT-GGATCTGTTTACTGATAGTGCATTCTCCATGAAGAATGTAGACTGCCACACTGGCCT----AAAGACAG----GGCTGTATCGGGA
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I
e dasNov3.JH567306           2701025 3499 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I

a score=29485.000000
s hg38.chr5_KI270796v1_alt    156536 4 +    172708 AAGG
s panTro5.chr5             125270677 4 + 181907262 AAGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126601509 4 + 183735486 AAGG
i panPan2.chr5             C 0 C 0
s nomLeu3.chr2             139925033 4 + 163208435 AAGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122910450 4 + 180051392 AAAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124334070 4 + 181584905 AAAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16332735 4 +  18395747 AAAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5345160 4 +  26952557 GAGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28444977 4 +  82825804 AAAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4115344 4 -   4237731 AAAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      383861 4 -   1175262 AAAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123745055 4 - 204313951 AAGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55785863 4 -  71252344 AAGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       89103 4 -   3089952 AAGG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13289988 4 -  42888418 AGGG
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e gorGor5.CYUI01015135v1     1793269 20 +   8933513 I
e otoGar3.GL873679           3138496 305 +   4132165 I
e dasNov3.JH567306           2701025 3499 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I

a score=1548592.000000
s hg38.chr5_KI270796v1_alt    156540 162 +    172708 TTGTGCACTGAAGAAACGAGGACTTTCTGAGGTCGATGGACCAGAGAAGGTAACACCATGAACTTCCTAGGTTCTTTTGCAACAAGTGCCATTTTAGATGTTGAATTTTTATTGAGATGAGAGAC--TATCTCTTTCTTGGCACTAGAGAAGGATATGCCACAC
s panTro5.chr5             125270681 162 + 181907262 TTGTGCACTGAAGAAACAAGGACTTTCTGAGGTCGATGGACCAGAGAAGGTAACACCATGAACTTCCTAGGTTCTTTTGCAACAAGTGCCATTTTAGATGTTGAATTTTTATTGAGATGAGAGAC--TATCTCTTTCTTGGCACTAGAGAAGGATATGCCACAC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126601513 162 + 183735486 TTGTGCACTGAAGAAACAAGGACTTTCTGAGGTCGATGGACCAGAGAAGGTAACACCATGAACTTCCTAGGTTCTTTTGCAACAAGTGCCATTTTAGATGTTGAATTTTTATTGAGATGAGAGAC--TATCTCTTTCTTGGCACTAGAGAACGATATGCCACAC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1793289 164 +   8933513 TTGTGCACTGAAGAAACAAGGACTTCCTGAGGTCCATGGCCCAGAGAAGGTAACACCATGAACTTCCTAGGTTCTTTTGCAACAAGTGCCATTTTAGATGTTGAATTTTTATTGAGATGAGAGACTATATCTCTTTCTTGGCACTAGAGAAGGATATGCCACAC
i gorGor5.CYUI01015135v1   I 20 C 0
s nomLeu3.chr2             139925037 149 + 163208435 CTATGCACTGAAGAAACAAGGACTTCCTGAGGTCCATGGACCAGAGAAGGTAACACCATGAACTTCCTAGGTTCTTTTGCAACA-----------AGATGTT--CTTTTTATTCAGATGAGAGAC--TATCTCTTTCTTGGCACTAGAGAAGGATATGCCACAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122910454 162 + 180051392 TTGTGTACTGAAGAAACAAGGACTTCCTGAGGTCCATGGACCGGAGAAGGTAACACCATGAACTTCCTAGGTTCTTTTGCAACACGTGCCATTTAAGATGTTGAATTTTTATTGAGATGAGAGAC--TGTCTCTTTCTTAGCACTAGAGAAGGATGTGCCACAC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124334074 162 + 181584905 TTGTGTACTGAAGAAACAAGGACTTCCTGAGGTCCATGGACCGGAGAAGGTAACACCATGAACTTCCTAGGTTCTTTTGCAACACGTGCCATTTAAGATGTTGAATTTTTATTGAGATGAGAGAC--TGTCTCTTTCTTAGCACTAGAGAAGGATGTGCCACAC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16332739 162 +  18395747 TTGTGTACTGAAGAAACAAGGACTTCCTGAGGTCCATGGACTGGAGAAGGTAACACCATGAACTTCCTAGGTTCTTTTGCAACACGTGCCATTTAAGATGTTGAATTTTTATTGAGATGAGAGAC--TGTCTCTTTCTTAGCACTAGAGAAGGATGTGCCACAC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5345164 158 +  26952557 TTGTGTACTG----AACAAGGACTTCCTGAGGTCCATGGACCGGAGAAGGTAACACCATGAACTTCCTAGGTTCTTTTGCAACACGTGCCATTTAAGATGTTGAATTTTTATTGAGATGAGAGAC--TGTCTCTTTCTTAGCACTAGAGAAGGATGTGCCACAC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28444981 162 +  82825804 TTGTGTACTGAAGAAACAAGGACTTCCTGAGGTCCATGGACCGAAGAAGGTAACACCATGAACTTCCTAGGTTCTTTTGCAACACGTGCCATTTAAAATGTTGAGTTTTTATTGAGATGAGAGAC--TATCTCTTTCTTAGCACTAGAGAAGGATGTGCCACAC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4115348 162 -   4237731 TTGTGTACTGAAGAAACAAGGACTTCCTGAGGTCCATGGACCAGAGAAGGTAACACCATGAACTTCCTAGGTTCTTTTGCAACACGTGCCATTTAAGATGTTGAATTTTTATTGAGACGAGAGAC--TGTCTCTTTCTTAGCACTAGAGAAGGATGTGCCACAC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      383865 162 -   1175262 TTGTGTACTGAAGAAACAAGGACTTCCTGAGGTCCATGGACCGGAGAAGGTAACACCATGAACTTCCTAGGTTCTTTTGCAACAAGTGCCATTTTAGATGTTGGATTTTTATTGACATGAGAGAC--TATCTCTTTCTTAGCACTAGAGAAGGATGTGCCACAC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123745059 161 - 204313951 TTGTGCACCAAACAAACAAGGACTTCCCGAGGTTCATGGACCAGAGAAGGTACCACCATGAACTTCCTAGGTTATTTTGCAACAAGTGCCATTTTGGATATTAAATTTTTACTGAGATGAGCGAC---AACTCTTTCTTAGCACCAGAGAAGGATGTGCCACAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55785867 160 -  71252344 TTGTGCACCAAAGAAACTAGGACTTCCTGAGGTTCATGGACCAGAGAATATAACACCATGAACTTCCTAGGTTCTTCTGCAACAAGTGCCATTTTGGATATTGAATTTTTACTGAAATGAGCGAC---ATCTCTTTCTTAGCACTCAAGAAGGATGTGCCACA-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       89107 161 -   3089952 TTGTGCACCAAAGAAACAAGGACTTCCTGAGGTTCATGGACCAGAGAAGGTAACGCCATCAATTTCCTAGGTTCTTTTGCAACAAATGCCATTTTGGATATTGAATTTTTACTGAGATGAGCGAC---ATCTCTTTCTTATCACTAGAGAAGGATGTGCCACAC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13289992 161 -  42888418 TTGTGCACCAAAGAAACAAGGACTTCCTGAGGTTCACGGACCAGAGAAGGTAACACCATGAACTTCCTAGCTTCTTTTGCAACAAGTGCCATTTTGGATATTGAATTTTTACTGAGATGAGCGAC---ATCTCTTTCTTAGCACTAGAGAAGGATGTGCCACAC
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I
e dasNov3.JH567306           2701025 3499 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I

a score=3161029.000000
s hg38.chr5_KI270796v1_alt    156702 322 +    172708 CCGAATCCATACTGATCTGGAGAGTGAGCAAGGCCTTCCCTTTAGCTAGATCCAATCTCTTAAGAGAGCAGTTGGATTTATTTTAAACAATATTGTTTGTTTTGAATCA---CTTATTTGATGACTTCTTCTAAGATAGGCCTCCTGA-TTTTTGGCACTTACTTTCTAACTTTCACTAAAATTCCTCATAGCCTCTCAAATCCTTT-AA----AAAATCAATAATGAGGCCATATTTTTGTCTT---ATATACCTAGGATAACGAGGCATTTAAGAAAGTTGTAATACAGCTTCATTATTAAGATTATTAACTGCTTTAATTAAGCACTGTGT
s panTro5.chr5             125270843 322 + 181907262 CCGAATCCATACTGATCTGGAGAGTGAGCAAGGCCTTCCCTTTAGCTAGATCCAATCTCTTAAGAGAGCAGTTGGATTTATTTTAAACAATATTGTTTGTTTTGAATCA---GTTATTTGATGACTTCTTCTAAGATAGGCCTCCTGA-TTTTTGGCATTTACTTTCTAACTTTCACTAAAATTCCTCATAGCCTCTCAAATCCTTT-AA----AAAATCAATAATGAGGCCATATTTTTGTCTT---ATATACCTAGGATAAAGAGGCATTTAAGAAAGTTGTAATACAGCTTCATTATTAAGATTATTAACTGCTTTAATTAAGCACTGTGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126601675 321 + 183735486 CCGAATCCATACTGATCTGGAGAGTGAGCAAGGCCTTCCCTTTAGCTAGATCCAATCTCTTAAGAGAGCAGTTGGATTTATTTTAAACAATATTGTTTGTTTTGAATCA---CTTATTTGATGACTTCTTCTAAGATAGGCCTCCTGA-TTTTTGGCATTTACTTTCTAACTTTCACTAAAATTCCTCATAGCCTCTCAAATCCTTT-AA----AAAATCAATAATGAGGCCATATTTTTGTCTT---ATATACCTAGGATAATGAGGCATTTAAGAAAGTT-TAATACAGCTTCATTATTAAGATTATTAACTGCTTTAATTAAGCACTGTGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1793453 322 +   8933513 CCGAATCCATACTGATCTGGAGAGTGAGCAAGGCCTTCCCTTTAGCTAGATCCAATCTCTTAAGAGAGCAGTTGGATTTATTTTAAACAATATTGTTTGTTTTGAATCA---CTCATTTGATGACTTCTTCTAAGATAGGCCTCCTGA-TTTTTGGCATTTACTTTCTAACTTTCACTAAAATACCTCATAGCCTCTCAAATCCTTT-AA----AAAATCAATAATGAGGCCATATTTTTGTCTT---ATATACCTAGGATAACCAGGCATTTAAGAAAGTTGTAATACAGCTTCATTATTAAGATTATTAACTGCTTTAATTAAGCACTGTGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139925186 316 + 163208435 CCAAATCCATACTGATCTGGAGAGTGGGCAAGGCCTTCCCTTTAGCTAGATCCAATCTCTTAAGAGAGCAGTTGGATTTATTTTAAACAATATTGTTTGTTTTGGATCA---CTCATTTGATGACTTATTCTATGATAGGCCTCCTGA-TTTTTGGCACTTACTTTCGAACTTTCACTAAAATTCCTCATAGCCTCTCAAATCCTTT-AA----AAAATCAATAATGAGGCCATATTTTTGTCTTATCATCTGCCTAGGATAACCAGGCATTTAAGAAAGTTGTAATACAGCTTC---------ATTATTAACTGCTTTAATTAAGCACTGTGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122910616 319 + 180051392 CCCAATCCATACTGATCTGGAGAGTGGGCAAGGCCTTCCCTTTAGCTAGATCCAATCTCTTAAGAGAGCAGTTGGATTTATTTTAAACAATATTGATTGTTTTGAATCA---CTCATTTGATGACTTCTTCTATGACAGGCCTCCTGA-TTTTTGGCACTTACTTTCTAACTTTCACTAAAATTCCTCATAGCCTCTCAAATACATT-AA----AAAATTAATAATGAGGCCATATTTTTGTCTT---ATCTACCTATGATAACCAGGAATTTAAGAAAGTTGTAATATAGCTTC---ATTAAGATTATTAACTGCTTTAATTAAGCGTTGTGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124334236 319 + 181584905 CCCAATCCATACTGATCTGGAGAGTGGGCAAGGCCTTCCCTTTAGCTAGATCCAATCTCTTAAGAGAGCAGTTGGATTTATTTTAAACAATATTGATTGTTTTGAATCA---CTCATTTGATGACTTCTTCTATGACAGGCCTCCTGA-TTTTTGGCACTTACTTTCTAACTTTCACTAAAATTCCTCATAGCCTCTCAAATACATT-AA----AAAATTAATAATGAGGCCATATTTTTGTCTT---ATCTACCTATGATAACCAGGAATTTAAGAAAGTTGTAATATAGCTTC---ATTAAGATTATTAACTGCTTTAATTAAGCGTTGTGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16332901 318 +  18395747 CCCAATCCATACTGATCTGGAGAGTGGGCAAGGCCTTCCCTTTAGCTAGATCCAATCTCTTAAGAGAGCAGTTGGATTTATTTTAAACAATATTGATTGTTTTGAATCA---CTCATTTGATGACTTCTTCTATGACAGGCCTCCTGA-TTTTCGGCACTTACTTTCTAACTTTCACTAAAATTCCTCATAGCCTCTCAAATACATT-AA----AAAATTAATAATGAGGCCATA-TTTTGTCTT---ATCTACCTATGATAACCAGGAATTTAAGAAAGTTGTAATATAGCTTC---ATTAAGATTATTAACTGCTTTAATTAAGCGTTGTGT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5345322 315 +  26952557 CCCAATCCATACTGATCTGGAGAGTGGGCAAGGCCTTCCCTTTAGCTAGATCCAATCTCTTAAGAGAGCAGTTGGATTTATTTTAAACAATATTGTTTGTTTTGAATCA---CTCATTTGATGACTTCTTCTATGACAGGCCTCCTGA-TTTTTGGCACTTACTTTCAAACTTTCACTAAAATTCCTCATAGCCTCTCAAATACATT-AA----AAAATTAATAATGAGGCCATATTTTTGTCTT---ATCTACCTATGATAACCAGGAATTTAAGACAGTTGTAATATAGC-------TTAAGATTATTAACTGCTTTAATTAAGCGTTGTGT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28445143 313 +  82825804 CCCAATCCATACTGATCTGGAGAGTGGGCAAGGCCTTCCTTTTAGCTAGATCCAATCTCTTAAGAGAGCAGTTGGATTTATTTTAAACAATATTGTTTGTTTTGAATCA---CTCATTTGATGACTTCTTCTATGACAGGCCTCCTGA-TTTTTGGCACTTACTTTCTAACTTTCACTAAAATTCCTCATAGCCTCTCAAATACATT-AA----AAAATTAATAATGAAGCCATATTTTTGTCTT---ATCTACCTATGATAACCAGGAATTTAAGAAAGTTGTAATACAGC-------TTC--ATTATTAACTGCTTTAATTAAGCGTTGTGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4115510 315 -   4237731 CCCAATCCATACTGATCTGGAGAGTGGGCAAGGCCTTCCCTTTAGCTAGATCCAATCTCTTAAGAGAGCAGTTGGATTTATTTTAAACAATATTGTTTGTTTTGAATCA---CTCATTTGATGACTTCTTCTATGACAGTCCTCCTGA-TTTTTGGCACTTACTTTCAAACTTTCACTAAAATTCCTCATAGCCTCTCAAATACATT-AA----AAAATTAATAATGAGGCCATATTTGTGTCTT---ATCTACCTATGATAACCAGGAATTTAAGAAAGTTGTAATATAGC-------TTAAGATTATTAACTGCTTTAATTAAGCGTTGTGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      384027 319 -   1175262 CCCAATCCATACTGATCTGGAGAGTGGGCAAGGTCTTCCCTTTAGCTAGATCCAATCTCTTAAGAGAGCAGTTGGATTTATTTTAAACAATACTGTTTGTTTTGAATCA---CTCATTTGATGA---CTTCTATGACAGGCCTCCTGA-TTTTTGGCACTTACCTTCTAACTTTCACTAAAATTCCTCATAGCCTCTCAAACACATT-AA----AAAATTAATAATGAGGCCATATGTTTGTCTT---ATCTACCTATGATAACCAGGCATTTAAGAAAGTTGTAATACAGCTTCATTATTAAGATTATTAACTGCTTTAATTAAGCATTGTGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123745220 322 - 204313951 CCAAATCCGTATTGATCCAGAGAATGGGCAAAATCTTCCCTTTAGCTAGATCCTAGCTCTTAA-AGAGCAGTTGGATTTATTTTAAACAATATCATTTGTTTCAAATCA---CTCATTTGGTAACTTCTTCCATGACAGACCTCCTGATTTTTTTCTACCTACTTTCTAACTTTAAGAAAAATTCCTCATAGCCTCTCGAATCCTTTAAA----AAAATTAACAATGAGGGCATCTATTTGACTT---A-CTGCCTGTGATAACCAGGCCTTTAAGAAAGTTTTAATACAGCTTCATTATTAAGATTATTAACTGCTTTAATTAAGCACTGTGT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55786027 313 -  71252344 ---------TACTGATCTGGAGAATGGGCAAAACCTTTCCTTTAGCTAGATCCAATCTCTTAAGAGAGCAGTTCGATTTATTTTAAACAATATTGTTTGTTCTGAATCA---CTCATTTGGTAACTTCTTCTATGACAGGCCTCCTGA-TTTTTTCTAACTACTTTCTAACTTTCAGAAAAATTCCTCATAGCCTCTCAAATCCTTT-AA----AAGATTAATAGTGAGGGCATCTATTTGACTT---ACCTGCCTGTGATAACCAGGCATTTAAGAAAGTTGTAATACAGCTTTGTTATTAAGATTATTAACTGCTTTAATTAAGCACTGTGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       89268 320 -   3089952 CCAAATCCATATTGATCCGGAGAATGGGCAAAACCTTCCCTTTAGCTAGATCCAGTCTCTTAAGAGAGCAGTTGGATTTATTTTAAACAATATTGTTTGTTTTTAGTCA---CTCATTTGATAACTTCTTCTGTGACAGGCCTCCTGA-TTTTTTCTACCTACTTTCTAACTTTCAGAAAAATTCCTCATAGCCTCTCAAATCCTTT-AA----AAAATTAACAATGAGGGCATCTGTTTGACTT---ATCTACCTGTGATAACCAGGCATTTAAGAAAGTTGTAATACAGCTTCATTATTA--ATTATTAACTGCTTTGATTAAGCACTGTGT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13290153 320 -  42888418 CCAAACCCATACTGATCCGGAGAATGGGCTAAACTTTCCCTTTAGCTAGATCCAATCTCTTAAGAGAGCAGTTAGATTTATTTTAAACAATATTCTTTGTTTTTAATCA---CTCATTTGGTAACTTCT---GTGACAGACCTCCTGATTTTTTTCTACCTACTTTCTAACTTTCAGAAAAATTCCTCATAGCTTCTCAAATCCTTT-AA----AAAATTAACAATGAGGGCATCTATTTGACTT---ACCTGCCTGTGATAACCAGGCATTTAAGAAAGTTGTAATACAGCTTCCATATTAAGATTATTAACTGCTTTAATTAAGCACCGTGT
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2704524 322 +   3667625 CCTAGCTCATACTGATACAGAGAAAGGGGAAGATTTCCTTTTAAG--AAATTTAATCCCTTAGGAGAACAATTGAAAGTATTTATAGAAATA----GTGTTTTGAAATGCATCTCATTTTTTTTTTTTTTGTATGGCAGGCTTCCTGA-TTTTTT-CATCTCCTTTCAAACTTTCATCAAAAGCTCTTGTGAGGGCTCaaattttta-aaaaataaaataaataatGAAGCCATTTGTTTGTTTT---ACCTACCTATGGTAGCCAAATATATAAGAGAGTTTTAGTGCAGTTTCATTATTAAGATTATAAATTGTTTTAATTAAATACTGTAT
i dasNov3.JH567306         I 3499 I 552
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I
e mm10.chr18                55571559 100 +  90702639 I

a score=372841.000000
s hg38.chr5_KI270796v1_alt    157024 45 +    172708 AATTTCTCTACCTCCTCAATTCTTTC-TTTTCTCAATTCTCA---CTTT
s panTro5.chr5             125271165 45 + 181907262 AATTTCTCTACCTCCTCAATTCTTTC-TTTTCTCAATTCTCA---CTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126601996 45 + 183735486 AATTTCTCTACCTCCTCAATTCTTTC-TTTTCTCAATTCTCA---CTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1793775 45 +   8933513 AATTTCTCTACCTCCTCAATTCTTTC-TTTTCTCAATTCTCA---CTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139925502 30 + 163208435 AATTTCTCTACCTCCTCAATTCTTTC-TTTT------------------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122910935 48 + 180051392 AATTTCTTTATGTCctcaattctttc-ttttctcaattctcacttcttt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124334555 48 + 181584905 AATTTCTTTATGTCctcaattctttc-ttttctcaattctcacttcttt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16333219 48 +  18395747 AATTTCTTTATGTCctcaattctttc-ttttctcaattctcacttcttt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5345637 48 +  26952557 AATTTCTTTACGTCctcaattctttc-ttttctcaattctcacttcttt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28445456 48 +  82825804 AATTTCTTTACatcctcaattctttc-ttttctcaattctcacttcttt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4115825 49 -   4237731 AATTTCTTTACGTCCTCAATTCTTTCTTTttctcaattctcacttcttt
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      384346 48 -   1175262 AAtttctttacttcctcaattctttc-ttttctcaattctcacttcttt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123745542 48 - 204313951 GATTTCTTTAACTCCTCAGTTCTTTA-TTTTCTCAAATCTTACTTTCTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55786340 48 -  71252344 GATTTCTTTACCTCCTCAGCTTTTTA-TTTTCTCAATTCTTAGTTTCAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       89588 48 -   3089952 GATTTCTTTATCTCCTCAGTTCTTTA-TTttctcaattcttactttctt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13290473 48 -  42888418 GATTTCTTTACCTCCCCAGTTCTTTA-TTttctcaattcttactttctt
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I
e dasNov3.JH567306           2704846 552 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I

a score=4215126.000000
s hg38.chr5_KI270796v1_alt    157069 406 +    172708 ATTTCCTTTCTCAATTCTCCTTTATTTTCAATTCAATTCTCATGAATCTGCCTTGGCTCAGGACACCCAGACCTTTTCCATCCATATATGCAACTTTACCAGAGTTGACAGCTCCTTTCTTTGCTAGTTTTCTTCCGTAGCAACAGCTTCTCAGTCGTCCTCTACTTCCAAAGGGCCT----ATCCCTCAAGTCTCACCTCCCATCTTCTTTGTCTTCACCACTGGAGGCCTTTCAGTTTCAAAAACCCCTTCCATACACCCTAGCATTATTTGTATGGTCATTTATGTCTTGATTCTAGCCCTGGCTGACCCTAGAGG-----------CCATTTGCAAAGCACTCTTCAAAATCTGAATAAAGACGAGGTAAGATATTTTAAAATGGCATTCCAGGTGAGAAA-AAGAGACTATAAAAAT
s panTro5.chr5             125271210 406 + 181907262 ATTTCCTTTCTCAATTCTCCTTTATTTTCAATTCAATTCTCATGAATCTGCCTTGGCTCAGGACACCCAGACCTTTTCCATCCATATATGCAACTTTACCAGAGTTGACAGCTCCTTTCTTTGCTAGTTTTCTTCCGTAGCAACAGCTTCTCAGTCGTCCTCTACTTCCAAAGGGCCT----ATCCCTCAAGTCTCACCTCCCATCTTCTTTATCTTCACCACTGGAGGCCTTTCAGTTTCAAAAACCCCTTCCATACACCCCAGCATTATTTGTATGGCCATTTATGTCTTGATTCTAGCCCTGACTGACCCTAGAGG-----------CCATTTGCAAAGCACTCTTCAAAATCTGAATAAAGACGAGGTAAGATATTTTAAAATGGCATTCCAGGTGAGAAA-AAGAGACTATAAAAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126602041 406 + 183735486 ATTTCCTTCCTCAATTCTCCTTTATTTTCAATTCAATTCTCATGAATCTGCCTTGGCTCAGGACACCCAGACCTTTTCCATCCATATATGCAACTTTACCAGAGCTGACGGCTCCTTTCTTTGCTAGTTTTCTTCTGTAGCAACAGCTTCTCAGTCGTCCTCTACTTCCAAAGGGCCT----ATCCCTCAAGTCTCACCTCCCATCTTCTTTATCTTCACCACTGGAGGCCTTTCAGTTTCAAAAACCCCTTCTATACACCCTAGCATTATTTGTATGGCCCTTTATGTCTTGATTCTAGCCCTGACTGACCCTAGAGG-----------CCATTTGCAAAGCACTCTTCAAAATCTGAATAAAGATGAGGTAAGATATTTTAAAATGGCATTCCAGGTGAGAAA-AAGAGACCATAAAAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1793820 406 +   8933513 ATTTCCTTCCTCAATTCTCCTTTATTTTCAATTCAATTCTCATGAATCTGCCTTGGCTCAGGAAACCCAGACCTTTTCCATCCATATATGCAACTTTACCAGAGTTGACAGCTCCTTTCTTTGCTAGTTTTCTTCTGTAGCAACAGCTTCTCAGTTGTCCTCTACTTCCAAAGGGCCT----ATCCCTCAAGTCTCACCTCCCATCTTCTTTATCTTCACCACTGGAGGCCTTTCAGTTTCAAAAACCCCTTCCATACACCCTAGCATTATTTGTATGGCCATTTATGTCTTGATTCTAGCCCTGACTGACCCTAGAGG-----------CCATTTGCAAAGCACTCTTCAAAATCTGAATGAAGATGAGGTAAGATATTTTAAAATGGCATTCCAGGTGAGAAA-Aagggactataaaaat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139925532 400 + 163208435 ---------CTCAATTCCCCTTTATTTTCAATTCAATTCTCATGAATCTGCCTTGGCTCAGGACACCCAGACCTTTTCCATCCACATATGCAACTTTACCAGAGTTGACAGCTCCTTTCTTTGCTAGTTTTCTTCCGTAGCAACAGCTTCTCAATCGTCTTCTACTTCCAAAGGGCCTATCCATCCCTTAAGTCTCACC-CCCATCTTCTTTGTCTTCACCACTGGAGGCCTTTCGGTTTCAAAAACCCCTTCCGTATACCCTAGCATTATTTGTATGGCCATTTATGTCTTGATTTTAGCCCTGACTGACCCTAAAGG-----------CCATTTGCAAAGCCCTCTTCAAAATCTGAATAAAGACGAGGTAAAATATTTTAAAACGGCATTCCAGGTGAGAAA-AAGAGACTATAAAAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122910983 404 + 180051392 atttccttcctcaattctcctttattttcagttcaattctcaTGAATCTGCCTTGGCTCAGGACACCCAGACCTTTTCCATCCATATATGCAACTTTACCAGAGTTGACAGCTCCTTTCTTTGTTCGTTTTCTTCTGTAGCAACAGCTTCTCAATCGTCCTCTACTTCCAAAGGGCCT----ATCCCTCAAGTCTAACCTCCCATCTTCTTTGTCTTTACCACTGGAGGCCTTTCAGTTTCAAAAACCCCTTCCAAACACCCTAGCATTATTTGTATGGCCATTTATGTCTTGATTCTAGCACTGACTGATCCTAAAGG-----------CCGTTTGCAAAGCACTCTTCAAAATCTGAATAAAGACAAGGTAAAATATTTTAAAAAGGCATTC--GGTGAGAAA-AAGAGACTATAAAAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124334603 404 + 181584905 atttccttcctcaattctcctttattttcagttcaattctcaTGAATCTGCCTTGGCTCAGGACACCCAGACCTTTTCCATCCATATATGCAACTTTACCAGAGTTGACAGCTCCTTTCTTTGTTCGTTTTCTTCTGTAGCAACAGCTTCTCAATCGTCCTCTACTTCCAAAGGGCCT----ATCCCTCAAGTCTAACCTCCCATCTTCTTTGTCTTTACCACTGGAGGCCTTTCAGTTTCAAAAACCCCTTCCAAACACCCTAGCATTATTTGTATGGCCATTTATGTCTTGATTCTAGCCCTGACTGATCCTAAAGG-----------CCGTTTGCAAAGCACTCTTCAAAATCTGAATAAAGACAAGGTAAAATATTTTAAAAAGGCATTC--GGTGAGAAA-AAGAGACTATAAAAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16333267 404 +  18395747 atttccttcctcaattctcctttattttcagttcaattctcaTGAATCTGCCTTGGCTCAGGACACCCAGACCTTTTCCATCCATATATGCAACTTTACCAGAGTTGACAGCTCCTTTCTTTGTTCGTTTTCTTCTGTAGCAACAGCTTCTCAATCGTCCTCTACTTCCAAAGGGCCT----ATCCCTCAAGTCTAACCTCCCATCTTCTTTGTCTTTACCACTGGAGGCCTTTCAGTTTCAAAAACCCCTTCCAAACACCCTAGCATTATTTGTATGGCCATTTATGTCTTGATTCTAGCCCTGACTGATCCTAAAGG-----------CCGTTTGCAAAGCACTCTACAAAATCTGAATAAAGACAAGGTAAAATATTTTAAAAAGGCATTC--GGTGAGAAA-AAGAGACTATAAAAAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5345685 404 +  26952557 atttccttcctcaattctcctttattttcagttcaattctcaTGAATCTGCCTTGGCTCAGGACACCCAGACCTTTTCCATCCATATATGCAACTTTACCAGAGTTGACAGCTCCTTTCTTTGTTCGTTTTCTTCTGTAGCAACAGCTTCTCAATCGTCCTCTACTTCCAAAGGGCCT----ATCCCTCAAGTCTAACCTCCCATCTTCTTTGTCTTTACCACTGGAGGCCTTTCAGTTTCAAAAACCCCTTCCATACACCCTAGCATTATTTGTATGGCCATTTATGTCTTGATTCTAGCCCTGACTGATCCTAAAGG-----------CCGTTTGCAAAGCACTCTTCAAAATCTGAATAAAGACAAGGTAAAATATTTTAAAAAGGCATTC--GGTGAGAAA-AAGAGACTATAAAAAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28445504 402 +  82825804 atttccttcctcaattctcctttattttcagttcaattctcaTGAATCTGCCTTGGCTCACGACACCCAGACCTTTTCCATCCATATATGCAACTTTACCGGAGTTGACAGCTCCTTTCTTTGTTCGTTTTCTTCTGTAGCAACAGCTTCTCAATCGTCCTCTACTTCCAAAGGGCCT----ATCCCTCAAG--TAACCTCCCATCTTCTTTGTCTTTACCACTGGAGTCCTTTCAGTTTCAAAAACCCCTTCCATATACCCTAGCATTATTTGTATGGCCATTTATGTCTTGATTCTAGCCCTGACTGATCCTAAAGG-----------CTGTTTGCAAAGCACTCTTCAAAATCTGAATAAAGACAAGGTAAAATATTTTAAAAAGGCATTC--GGTGAGAAA-AAGAGACTATAAAAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4115874 404 -   4237731 atttccttcctcaattctcctttattttcagttcaattctcaTGAATCTGCCGTGGCTCAGGACACCCAGACCTTTTCCATCCATATATGCAACTTTACCAGAGTTGACAGCTCCTTTCTTTGTTCGTTTTCTTCTGTAGCAACAGCTTCTCAACCGTCCTCTACTTCCAAAGGGCCT----ATCCCTCAAGTCTAACCTCCCGTCTTCTTTGTCTGTACCACTGGAGGCCTTTCAGTTTCAAAAACCCCTTCCATACACCCTAGCATTATTTGTATGGCCACTTATGTCTTGATTCTAGCCCTGACTGATCCTAAAGG-----------CCGTTTGCAAAGCACTCTTCAAAATCTGAATAAAGACAAGGTAAAATATTTTAAAAAGGCATTC--GGTGAGAAA-AAGAGACTATAAAAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      384394 404 -   1175262 atttccttcCTCAATTCACCTTTATTTTCAGTTCAATTCTCATGAATCTGCCTTGAATCAGGACACCCAGACCTTTTCCATCCATATATGCAACTTTACCAGAGTTGGTAGCTCCTTTCTTTGCTAGTTTTCTTCTGTAGCAACAGCTTCTCAATCGTCCTCTACTTCCAAAGGGCCT----ATCCCTCAAGTCTAACCTCCAGTCTTCTTTGTCTTCACCACTGGAGGCCTTTCAGTTTCAAAAACCCCTTCCATACACCCTAGCATTATTGGTATGGCCATTTATGTCTTGATTCTAGCCCTGACTGATCCTGAAGG-----------CTGTTTGCAAAGCACTCTTCAAAATCTGAATAAAGACAAGGTAAAATATTTTAAAAAGGCATTC--AGTGAGAAA-AAGAGACTATAAAAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123745590 405 - 204313951 ATTTCCTTCCTCAATTCTTCTTTATTCTCAATTTAATTCTCATGAATCTGCC-TGACACAGGACACCGAGACCTTTTCCACCCATATTTACAACGTTACCAGAATTGACAGCTCCTTTCTTTGCTAGTTTTCTTCTATAGCAACAGCTTCTCCATCATCCTCTGCTTACAAAGGGCCT----GTGCGTAAAGCCTCATCTCCCATCGTCTTTGTCTTCACCACAGAAGGCCTTTCGGTTTCAAAAACCCCTTCCATACACCCTATCATTATTTGTATGGCCATTTATGTCCTGATTCTAGCCCTGATGAACCCCAAAGG-----------CCATTTGCAAAGCACTCTTCAAAATCTGAATAAAAAGGAGGTAAAATATTTTAAAAAGGCACTCCAGGTGAGAAA-AAGAGACTATAAACAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55786388 405 -  71252344 ATTTCCTGCCTCAATTCTTCCTTATTCTCAATTCAGTTCTCATGAATCTGCC-TGATCCAGGACACCCAGACTGTTTCCAACTATATATACAACTTTACCAGAATTGACAGCTCTTTTCTTTGCTAGTTTTCTTCTATAGCAACAGCTTCTCCATCATCCTCTGCTTCCAAAGGGCCT----GTGCCTCAAGCCTCATCTCCCATCTTCTTTGTCTTCACCACAGGAGGCCTTTCAGTTTCAAAAACCCCTTCCATATATCCTATCATTATTTGTATGGGCATTTATGACCTGATTCAAGCCTTGATGAACCCCAAAGG-----------CCATTTGCAAAGCACTCTTCAAAATCTGAATAAAAATGAGGTAAAATATTTTAAAAAGGCATTCCAGGTGAGAAA-ATAAGACTATAAAAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       89636 405 -   3089952 atttccttcctcaattcttctttattctcaattcaatcctcaTGAATCTGCC-TGACCCAGGACACCCAGACCTTTTCCACCCATATATACAACTTTACCAGAATTGACAGCTCTTTTCTTTGCTAGTTTTCTTCTATAGCAACAGCTTCTCCATCATCCTCTGCTTCCAAAGGGCCT----GTGCCTAAAGCCTCATCTCCCATCTTCTTTGTCTTCACCACAGGAGGCCTTTCAGTTTTAAAAACCCCTTCCATATACCTTATCATTATTTGGATGGCCATTTATGTCCTGATTCTAGCCCTGATGAACCCCAAAGG-----------TCATTTGCAAAGCACTCTTCAAAATCTGAATAAAAACGAGGCAAAATATTTTAAAAAGACATTCCAGGTGAGAAA-AAGAGACTATAAAAAT
i cebCap1.NW_016107590v1   C 0 I 307
s aotNan1.NW_018505940v1    13290521 405 -  42888418 atttccttcctcaattcttctttattctcaattcaattctcaTGAATCTGCC-TGACCCAGGACACCCAGACCTTTTCCACCCATATATACAACTTTACCAGAATTGACAGCTCCTTTCTTTGCTAGTTTTCTTCTATAGCAACAGCTTCTCCATCATCCTCTGCTTCCAAAGGGCCT----GTGCCTAAAGCCTCATCTCCCATCTTCTTTGTCTTCATGACAGGAGGCCTTTCAGTTTTAAAAACCCCTTCCATACACCCTATCATTATTTGTATGGCCATTTATGTCCTGATTCTAGCCCTGATGAACTCCAAAGG-----------CCATTTGCAAAGCACTCTTCAAAATCTGAATAAAAACTAGGTAAAATATTTTAAAAAGGCATTCCAGGTGAGAAA-AGGAGACTATAAAAAT
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2705398 410 +   3667625 ATTTCTTTACTTTGATTTCCTCAATTCCCCTAATAATTCTAATCAATCAGCCTTGACCCGGATGACTCAAGCCTTTCCCATCCATGTATATGGCTTGA-TAGAGTTAAAGCCTCCTTTCTTTGTTAGTTTTCTCCTGTACCAATAACTTTTCCATAGCCCCCTTCTTCCAAAGGGCCT----ATGCTTCAGTTCCTATCCCCCCATCTATTTCTCTCCATTGCCAAAAGATTTTCTGTTTTAAAAA-TTCTGCCACACATCCCAGCATTTTTAGCATTGTTACTTATGGCCTTATTCTAGCCCTGACAGTTGTTAGAAGTCCCAGGACTCCCACTTATAAAACACCTTTCAAAATTTAAGCAAAGTTAAGCTCCAG------AAAGAGAATATCCAGGTGAGAAAGAATACGTTATAAAAGT
i dasNov3.JH567306         I 552 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I
e mm10.chr18                55571559 100 +  90702639 I

a score=12000.000000
s hg38.chr5_KI270796v1_alt    157475 1 +    172708 G
s panTro5.chr5             125271616 1 + 181907262 G
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126602447 1 + 183735486 G
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1794226 1 +   8933513 g
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139925932 1 + 163208435 G
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122911387 1 + 180051392 G
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124335007 1 + 181584905 G
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16333671 1 +  18395747 G
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5346089 1 +  26952557 G
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28445906 1 +  82825804 G
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4116278 1 -   4237731 G
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      384798 1 -   1175262 G
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123745995 1 - 204313951 G
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55786793 1 -  71252344 G
i saiBol1.JH378106         C 0 C 0
s aotNan1.NW_018505940v1    13290926 1 -  42888418 G
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2705808 1 +   3667625 G
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I
e cebCap1.NW_016107590v1       90041 307 -   3089952 I
e mm10.chr18                55571559 100 +  90702639 I

a score=788688.000000
s hg38.chr5_KI270796v1_alt    157476 77 +    172708 GCTCactgctttaattttc-aaaaatgtcaatattgtaaaagagatacaaggctgc-caactgctccagattaacggaa
s panTro5.chr5             125271617 77 + 181907262 GCTCactgctttaattttc-aaaaatgtcaatattgtaaaagagatacaaagctgc-caactgctccagattaacggaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126602448 77 + 183735486 GCTCactgctttaattttc-aaaaatctcaatattgtaaaagagatacaaagctgc-caactgctccagattaacggaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1794227 77 +   8933513 gctcactgctttaatttcc-aaaaatgtcaatattgtaaaagagatacgaagctgc-caactgctccagattaatggaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139925933 77 + 163208435 GCTCATTGctttaatcttc-aaaaatgtcaatattgtaaaagagacacaaagctga-caactgctccagattaatggaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122911388 78 + 180051392 CCTCATTGctttaatcttc-aaaaatgtcaatattgtaaaagagacacaaagctggccaactgctccaaattaatggaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124335008 78 + 181584905 CCTCATTGctttaatcttc-aaaaatgtcaatattgtaaaagagacacaaagctggccaactgctccaaattaatggaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16333672 78 +  18395747 CCTCATTGctttaatcttc-aaaaatgtcaatattgtaaaagagacacaaagctggccaactgctccaaattaatggaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5346090 77 +  26952557 CCTCATTGctttaatcttc-aaaaatgtcaatattgtaaaagagacacaaagctgg-caactgctccagattaatggaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28445907 77 +  82825804 CCTCATTGctttaatcttc-aaaaatgtcaatattgtaaaagagacacaaagctgg-caactgctccagattaatggaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4116279 77 -   4237731 CCTCATTGctttaatcttc-aaaaatgtcaatattgtaaaagagacacaaagctgg-caactgctccagattaatggaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      384799 77 -   1175262 GCTCATTGctttaatcttc-aaaaatgtcaatattgtaaaagagacacaaagctgg-caactgctccagattaatggaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123745996 77 - 204313951 GCTCATTGctttaatctac-gaaaatgtcaacattgtaaaagaggcgcaaagctga-caacagctccagattaatggaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55786794 77 -  71252344 GCTCATTGctttaatctac-aaaaatgtcaatattgtaaaagagacacaaagctga-caactgctccagattaatggaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       90348 77 -   3089952 GCTCATTGctttaatctac-aaaaatgtcaatattgtaaacgagacacaaagctga-caactgctccagtttaatggaa
i cebCap1.NW_016107590v1   I 307 C 0
s aotNan1.NW_018505940v1    13290927 77 -  42888418 GCTCATTGctttaatctac-aaaaatgtcaatattgtaaaagaggcacaaagctga-caattgctccagattaatggaa
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2705809 74 +   3667625 GTGCATCTCTGTAATCTTCAAAAAATGCCGGTGTCATAAAAGAG----AGAGTTGG-AGAACGTTGCAGGTTAAAAGGA
i dasNov3.JH567306         C 0 I 498
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I
e mm10.chr18                55571559 100 +  90702639 I

a score=357699.000000
s hg38.chr5_KI270796v1_alt    157553 34 +    172708 actaaagagatatgataacttaatacagtacatg
s panTro5.chr5             125271694 34 + 181907262 actaaagagatatgataacttaatacagtacatg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126602525 34 + 183735486 actaaagagatatgataacttaatacagtacatg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1794304 34 +   8933513 attaaagagatatgataacttaatacagtacatg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139926010 34 + 163208435 actaaagagatatgataacttaatacagtacatg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122911466 34 + 180051392 actaaagagatatgataacttaatacagtgcatg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124335086 34 + 181584905 actaaagagatatgataacttaatacagtgcatg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16333750 34 +  18395747 actaaagagatacgataacttaatacagtgcatg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5346167 34 +  26952557 actaaagagatatgataacttaatacagtgcatg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28445984 34 +  82825804 actaagaagatacgataacttaatacagtacatg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4116356 34 -   4237731 actaaagagatatgataacttaatacagtgcatg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      384876 34 -   1175262 actgaagagatatgataacttaatacagtgcatg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123746073 34 - 204313951 actaaagagatacgataacttaatacagtacatg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55786871 34 -  71252344 actaaagagatatgataacttaatatagtacatg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       90425 34 -   3089952 actaaagagatatgataacttaatacagtacgtg
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13291004 34 -  42888418 actaaagagatatgataacttaatacagtacatg
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I
e dasNov3.JH567306           2705883 498 +   3667625 I
e mm10.chr18                55571559 100 +  90702639 I

a score=173207.000000
s hg38.chr5_KI270796v1_alt    157587 15 +    172708 gtcctagactgcacc
s panTro5.chr5             125271728 15 + 181907262 gtcctagactgcacc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126602559 15 + 183735486 gtcctagactgcacc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1794338 15 +   8933513 gtcctagactgcacc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139926044 15 + 163208435 gtcctagactgcacc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122911500 15 + 180051392 atcctagactgcacc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124335120 15 + 181584905 atcctagactgcacc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16333784 15 +  18395747 atcctagactgcacc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5346201 15 +  26952557 atcctagactgcacc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28446018 15 +  82825804 atcctagactacacc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4116390 15 -   4237731 atcctagactgcacc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      384910 15 -   1175262 atcctagactgcacc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123746107 15 - 204313951 gtcctagactgtacc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55786905 15 -  71252344 gtcctagactgtacc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       90459 15 -   3089952 gtcctagactgtacc
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13291038 15 -  42888418 gtcctagactgtacc
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2706381 15 +   3667625 gtcctagactggatc
i dasNov3.JH567306         I 498 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I
e mm10.chr18                55571559 100 +  90702639 I

a score=187663.000000
s hg38.chr5_KI270796v1_alt    157602 18 +    172708 ctgAGCTGGAGGAA----AATA
s panTro5.chr5             125271743 18 + 181907262 ctgagctggaggaa----aata
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126602574 18 + 183735486 ctgagctggaggaa----aata
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1794353 18 +   8933513 ctgagctggaggaa----aata
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139926059 18 + 163208435 ctgagctggaggaa----aaga
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122911515 18 + 180051392 ctgagctggaggaa----aata
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124335135 18 + 181584905 ctgAGCTGGAGGAA----AATA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16333799 18 +  18395747 ctgAGCTGGAGGAA----AATA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5346216 18 +  26952557 ctgagctggaggaa----aata
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28446033 18 +  82825804 ctgAGCTGGAAGAA----AATA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4116405 18 -   4237731 ctgagctggaggaa----aata
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      384925 18 -   1175262 ctgagctgaaggaa----aaga
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123746122 18 - 204313951 ccgcgttggaggaa----aaga
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55786920 18 -  71252344 ctgggctggaggaa----aaga
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       90474 18 -   3089952 ctgTGCTGGAGGAG----AAGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13291053 18 -  42888418 ctgCACTGGAGGAA----AAGA
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55571659 22 +  90702639 CTAAGTTGGATGTACCTTAAAA
i mm10.chr18               I 100 C 0
s dasNov3.JH567306           2706396 18 +   3667625 ctgtaccagaggaa----aagc
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14976296 1731 +  74389097 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I

a score=3698920.000000
s hg38.chr5_KI270796v1_alt    157620 337 +    172708 AATTTTACAAA--GTATATTACTGGGGAGGTAAATTTATAAAA--TTGAAGG--AGTCAACACATTAAAGTTTCATGTTAACATT---GAATTTAACGA-------ATTGTCAGGatcactgaaacttatggtatttgcatatgatattcaaataaacacattataatattacaacccgccataggaaaaaa-aattattcaaactgaatcaat----ccatggacaccaactagatatgcctaaatgttacttgattgatgatgtatttatatgtaacactagaaaggaggtacaagtccaacatgcatactaa-aatccaacaatact-------gtct-tacaggaagcaaatgttgaagtgaa
s panTro5.chr5             125271761 337 + 181907262 aattttataaa--gtatattactgggGAGGTAAATTTATAAAA--TTGAAGG--AGTCAACACATTAAAGTTTCATGTTAACATT---GAATTTAACAA-------ATTGTCAGGatcactgaaacttatggtatttgcatatgatattcagataaacacattataatattacaacccaccacaggaaaaaa-aattatttaaactgaatcaat----ccatggacaccaactagatatgcctaaatgttacttgattgatgatgtatttatgtgtaacactagaaaggaggtacaagtccaacacacatactaa-aatccaacaatact-------atct-tacaggaagcaaatgttgaagtgaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126602592 328 + 183735486 aattttataaa--gtatattactgggGAGGTAAATTTATAAAA--TTGAAGG--AGTCAACACATTAAAGTTTCATGTTAACATT---GAATTTAACGA-------ATTGTCAGGatcactgaaacttatggtatttgcatatgatattcagataaacacattataatattacaacccgccacaggaaaaaa-aattattcaaactgaatcaat-------------ccaactagatatgcctaaatgttacttgattgatgatgtatttatgtgtaacactagaaaggaggtacaagtccaacacgcatactaa-aatccaacaatact-------atct-tacaggaagcaaatgttgaagtgaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1794371 343 +   8933513 aattttataaa--gtatattactgggGAGGTAAATTTATAAAA--TTGAAGG--AGTCGACACATTAAAGTTTCATGTTAACATT---GAATTTAATGA-------ATTGTCAGGatcactgaaacttatgctatttgcatatgatattcaaat-aacacattataatattacaaccaaccataggaaaaaa-aattattcaaactgaatcaat----tcatggacaccaactagatatgcctaaatgttacttgattgatgatgtatttatgtgtaacactagaaaggaggtacaagtccaacatgcatactaa-aatccaacaatactatcaatcatct-tacaggaagcaaatgttgaagtgaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139926077 348 + 163208435 aattaTATAAA--GTATATTACTGGGGAGGTAAATTTATAAAA--TTGAAGG--AGTCGACACATTAAAGTTTCATGTTAACATT---GAATTTAATGAATTGTGTATTGTCAGGatcactgaaacttatgctatttgcatatgatattcaaataaacacattataatattacaacccaccataggaaaaaa-aattattcaaactgaatcaatcaatcaattgacaccaactagatatgcctaaatcttacttgactgatgatgcatttatgtgtaatactagaaaggaagtacaagtccaacatgcgtactaa-aatccaacaatact-------atct-tacaggaagcaaatgttgaagtgaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122911533 341 + 180051392 aattttataaa--gtatattactgggGAGGTACTTTTATAAAA--TTGAAGG--AGTCGACACATTAAAGTTTCATGTTAACATT---GAATTTAATGAATTGTGTATTGtaaggatcactgaaacttatgctattttcatatgatattcaaataa--acattataatattacaatccaccatagg-aaaaa-aattattcaaaccgaatcaat----ccattaacaccaactagatatgcctaaatcttacttgattgatgatgcatttatgtgtaataccagaaaggaggtacaagtccaacatgcatactaa-aatccaacaatact-------atct-tacaggaagcaaatgttgaagtgaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124335153 341 + 181584905 AATTTTATAAA--GTATATTACTGGGGAGGTACTTTTATAAAA--TTGAAGG--AGTCGACACATTAAAGTTTCATGTTAACATT---GAATTTAATGAATTGTGTATTGtaaggatcattgaaacttatgctattttcatatgatattcaaataa--acattataatattacaatccaccatagg-aaaaa-aattattcaaaccgaatcaat----ccattaacaccaactagatatgcctaaatcttacttgattgatgatgcatttatgtgtaataccagaaaggaggtacaagtccaacatgcatactaa-aatccaacaatact-------atct-tacaggaagcaaatgttgaagtgaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16333817 341 +  18395747 AATTTTATAAA--GTATATTTCTGGGGAGGTACTTTTATAAAA--TTGAAGG--AGTCGACACATTAAAGTTTCATGTTAACATT---GAATTTAATGAATTGTGTATTGtaaggatcactgaaacttatgctattttcatatgatattcaaataa--acattataatattacaatccaccatagg-aaaaa-aattattcaaaccgaatcaat----ccattaacaccaactagatatgcctaaatcttacttgattgatgatgcatttatgtgtaataccagaaaggaggtacaagtccaacatgcatactaa-aatccaacaatact-------atct-tacaggaagcaaatgttgaagtgaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5346234 339 +  26952557 aattttataaa--gtatattactgggGAGGTACTTTTATAAAA--TTGAAGG--AGTGGACACATTAAAGTTTCATGTTAACATT---GAATTTAATGAATTGTGTATTataaggatcactgaaacttatgctatttgcatatgatattcaaataaacacattataatattacaatccaccatagg-aaaaa-aattattcaaaccgaatcaat----ccattaacaccgactagatatgcctaaatcttac----ttgatgatgcatttatgtgtaatactagaaaggaggtacaagtccaacatgcatactaa-aatccaacaatact-------atct-tacaggaagcaaatgttgaagtgaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28446051 343 +  82825804 AATTGTATAAA--GTATATTACTGGGGAGGTACTTTTATAAAA--TTGAAGG--AGTCGACACATTAAAGTTTCATGTTAACATT---GAATTTAATGAATTGTGTATTGtaaggatcactgaaacttatgctatttgtatatgatattcaaataaacacattataatattacaatccaccatagg-aaaaa-aattattcaaaccgaatcaat----ccattaacaccaactagatatgcctaaatcttacttgattgatgatgcatttatgtgtaatactagaaaggaggtgcaggtccaacatgcttactaa-aatccaacaatact-------atct-tacaggaagcaaatgttgaagtgaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4116423 337 -   4237731 aattttataaa--gtatattactgggGAGGTACTTTTATAAAA--TTGAAGG--AGTCG--ACATTAAAGTTTCATGTTAACATT---GAATTTAATGAACTGTGTATTGtaaggatcactgaaacttatgctatttgcatatgatattcaaataaacacattataatattacaatccaccatagg-aaaaa-aattattcaaaccgaatcaat----ccattaacaccaactagatatgcctaaatcttac----ttgatgatgcatttatgtgtaatactagaaaggaggtacaagtccaacatgcatactaa-aatccaacaatact-------atct-tacaggaagcaaatgttgaagtgaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      384943 341 -   1175262 aATTTTATAAA--GTATATTACTGGGGAGGTACTTTTATAAAA--TTGAAGG--AGTCGACACATTGAAGTTTAATGTTAACATT---GAATTTAATGAATTGTGT-TTGtaaggatcactgaaaattatgctatttgcatatgatattcaaataaacacattataatattacaatccaccata-g-aaaaa-aattattcaaactgaatcaat----ccattgacaccaactagatatgcctaaatcttacttgattgatgatgcatttatgtgtaatactagaaaggaggtacaagtccaacatgcatactaa-aatccaacaatact-------atct-tacaggaagcaaatgttgaagtgaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123746140 348 - 204313951 aattCCATAAA--GTATATTGCTGGGGAGGTCAATTTATAAAA--TTAAAAG--AGTTTACACATTAAAGTTTCATGTTAACATTGAGGAGTTTAATGAATTGTGTACTGTCAGGataactgaaacttatgctatttgcatatgatattcaaataaacacattataatattgcaacccagcataggaaaaaa-aatcattcacactgcatcact----ccattgacaccaactagatatctctaaatcttacttaattggtgatacttttatgtgaaatactagagagaaggtacaagtccaacatgcatactaatcataccacattaat-------atcc-tacatgaagcaaatgttgaagtgaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55786938 345 -  71252344 aattCTATAAA--GTATATTACTGGGGAGGTCAATTTATAAAA--TTGAAAG--AGTTGACACATTAAAGTTTCATGTTAACATT---GAGTTTAATGTATTGTGTCTTGTCAGGatcactgaaacttatgctatttgcatatgacattcaaataaacacattacaatattgcaatccagcataggaaaaaa-agtcattcaaactgaatcaat----ccattggcaccaactagatatgtctaaatcttacttgattggtgatgcttttatgtgcaatgctagaaaggaagtacaagtccaatgtgcatactaataatgccaccacaaa-------atct-tacatgaagcaaatgttgaagtgaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       90492 344 -   3089952 AATTTCATAAA--GTATATTACTGGGGAGGTCAATTTATAAAA--CTGAAAG--AGTTCGCACATTAAAATTTCATGTTAACATT---GAGTTTAATGAATTGTATCTTGTCAGGatcactgaaacttatgctatttgcatatgatattcaaataa--acattataatattgcaacccagcccaggaaaaaagaatcattcaaactgagtcaat----ccattgacaccaactagatatgtctaaatcttacttgattggtgatgcttttatgtgtaatactagaaaggaggtacaagtccaatgtgcatacgaataatgccaccataaa-------gtct-tacatgaagcaaatgttgaagggaa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13291071 349 -  42888418 AATTCCATAAA--GTATATTACTGGGGAGGTCAATTTATAAAA--TTGAAAG--AGTTGACACATTAAAGTTTCATGTTAACATTGAGGAGTTTAATGAATCGTGTATTGTCAAGattactgaaacttatgctctttgaatatgacattcaaataaacacattataatattgcaacccagcataggaaaaaaaaatcattcaaactgaatcaat----ccattgacaccaactagatatgtctaaatcttacttgattggtgatacttttatgtgtagtactagaaagaaggtacaagtccaacatgcatagtaatcataccacattaat-------attt-tacatgaagcaaatgttgaagtgaa
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55571681 304 +  90702639 TTTCCTACAAA--ATCCATTACCAGTGAGGTGAACTTTCAAAG--TTGAAGG--TGTCAGCACATTCAAATTCCACACTGCTGTT---GAATGTAATGAGTGGGGCACTGTCA-tattactgtaattt-tgctgcttatatttgatatttagggaaacactttgcagttttacaatct---------------gggcattcaaaatgagtccat----ctcttgccaccaaattgatcTGACCAAAGCTGAGTTG-----TGATACATTTCAGTGCTAT------------GTGC---TCCAACATGTGTGTGAG------ATCAAGACT-------AACTCCCCAGGAAACAAAAGTTAAGTTTAA
i mm10.chr18               C 0 I 6046
s canFam3.chr11             14978027 330 +  74389097 AATTCCATGAA--GCACATGACTAGGAAGGAAAAGTCACAAAAACGTAATAG--AGTAGG-----TAAAGTTCCATATTAATGTG---GAATTAAATGAATTGTGCATTGtaggtatcactgtaacttgtgctgtttgcataaaatattcaaatcaacacattacaatgttacatctgggcat----aaaaa-aaccattcatactgaatcaat----ccactgacactgactagctctgactagatctgacttgattggtgatgtatttatgtgttaaactggaa-------gcaagtctgacatgcacattgt-aatgcaacaatggc-------atct-taaatgaagcaaatgttaaagtgaa
i canFam3.chr11            I 1731 C 0
s dasNov3.JH567306           2706414 332 +   3667625 aattctaaaaattgtacattactggggaggtaaattgacaaaa--ttgaaatacagttggtagattaaagttctgtattaatatt---aaATTTAATGAATTGTGTCTTTTGTgtaacactgtcaattatattgtttgcataaaagaatccaataaatacattacaacattatatctgagcttag--aaaaa-agtcattcaaactgaatcaat-----cattgacattaactagctctgactaagta--actagattggtgatgtgttga--------gctagaaatgagacacaagtccaacatgtacactat-aat---acaatagt-------attg-tatgtgatataaatgttaaagtgaa
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I

a score=2755378.000000
s hg38.chr5_KI270796v1_alt    157957 277 +    172708 atatgtcttg---aaat-taatgaagtttcatttaattgaaaatatattttacactagttcaatgtttgtttacatttaaacttaaattagtaaactaaa--aaatttaaaactccattcctc-agaca--ctctgcacatttcaagtgctcaat-gccacatgtggctagtggctgccatattgaacagctcagGTCTAGAAGAAAGCATGAAGACT--ATTGCCTCATCTGTCCCTCTTCTCATTCTCCCATGGCGATTGT-AGTCATGTTGGAGAGATGGAAAAGAA
s panTro5.chr5             125272098 273 + 181907262 atatgtcttg---aaat-gaatgaagtttcatttaattgaaaatatattttacactagttcaa----tgtttacatttaaacttaaattagtaaactaaa--aaatttaaaactccattcctc-agaca--ctctgcacatttcaagtgctcaat-gccacatgtggctagtggctgccatattgaacagctcagGTCTAGAAGAAAGCATGAAGACT--ATTGCCTCATCTGTCCCTCTTCTCATTCTCCCATGGCGATTGT-AGTCATGTTGGAGAGATGGAAAAGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126602920 272 + 183735486 atatgtcttg---aaat-taatgaagcttcatttaattgaaaatatattttacactagttcaa----tgtttacatttaaacttaaattagtaaatt-aa--aaatttaaaactccattcctc-agaca--ctctgcacatttcaagtgctcaat-gccacatgtggctagtggctgccatattgaacagctcagGTCTAGAAGAAAGCATGAAGACT--GTTGCCTCATCTGTCCCTCTTCTCATTCTCCCATGGCGATTGT-AGTCATGTTGGAGAGATGGAAAAGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1794714 272 +   8933513 atatgtcttg---aaat-taatgaagtttcatttaattgaaaatatattttacactagttca-----tgtttacatttaaacttaaattagtaaaataaa--aaatttaaaactccattcctc-agaca--ctctgcacatttcaagtgctcaat-gccacatgtggctagtggctgccatattgaacagctcagGTCTAGAAGAAAGCATGAAGACT--ATTGCCTCATCTGTCCCTCTTCTCATTCTCCCATGGTGATTGT-AGTCATGTTGGAGAGATGGAAAAGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139926425 251 + 163208435 ----------------------gaggtttcatttaactggaaatatattttacactagttcaa----tgtttacat------ttaaattagtaaatttaa--aaatttaaaactccattcttc-agacaccctctccacatttcaaatgctcaat-gccacatgtgtctagtggctgccatattgaacagctcagGTCTAGAAGAAAGCATGAAGACT--ATTGCCTCATCTGTCCCTCTTCTCATTCTCCTATGGTGATTGT-AGTCATGTTGGAGAGATGGAAAAGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122911874 274 + 180051392 atatgtcttg---aaat-taatgaagtttcatttaattgaaaatatattttacactagttcaa----tgtttacatttaaacttaaattagtaaattaaa--gaatttaaaactccattcctc-agacacgctctccacatttcaagtgcttggt-gccacacgtggctag-tgctgccatattgaacagctcagGCCTAGAAGAAAGCATGAAGACT--ATTGCCTCATCTGTCCCTCTTCTCATTCTCCTATGGTGATTGT-AGTCATGTTAGAGAGATGGAAAAGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124335494 274 + 181584905 atatgtcttg---aaat-taatgaagtttcatttaattgaaaatatattttacactagttcaa----tgtttacatttaaacttaaattagtaaattaaa--gaatttaaaactccattcctc-agacacgctctccacatttcaagtgcttggt-gccacacgtggctag-tgctgccatattgaacagctcagGTCTAGAAGAAAGCATGAAGACT--ATTGCCTCATCTGTCCCTCTTCTCATTCTCCTATGGTGATTGT-AGTCATGTTAGAGAGATGGAAAAGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16334158 274 +  18395747 atatgtcttg---aaat-taatgaagtttcatttaattgaaaatatattttacactagttcaa----tgtttacatttaaacttaaattagtaaattaaa--gaatttaaaactccattcctc-agacacgctctccacatttcaagtgcttggt-gccacacgtggctag-tgctgccatattgaacagctcagGTCTAGAAGAAAGCATGAAGACT--ATTGCCTCATCTGTCCCTCTTCTCATTCTCCTATGGTGATTGT-AGTCATGTTAGAGAGATGGAAAAGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5346573 274 +  26952557 atatgtcttg---aaat-taatgaagtttcatttaattgaaaatatattttacactagttcaa----tgtttacatttaaacttaaattagtaaattaaa--aaatttaaaactccattcctc-agacacactctccacatttcaagtgcttggt-gccacacatggctag-tgctgccatattgaacagctcagGTCTAGAAGAAAGCATGAAGACT--ATTGCCTCATCTGTCCCTCTTCTCATTCTCCTATGGTGATTGT-AGTCATGTTAGAGAGATGGAAAAGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28446394 275 +  82825804 atatgtcttg---aaat-taatgaagtttcatttaattgaaaatatattttacactagttcaa----tgtttacatttaaacttaaattagtaaattaaa--aaattaaaaactccattcctc-agacacgctctccacatttcaagtgctcagt-gccacacgtggctagttgctgccatattgaacagctcagGTCTAGAAGAAAGTATGAAGACT--ATTGCCTCATCTGTCCCTCTTCTCATTCTCCTATGGTGATTGT-AGTCATGTTAGAAAGATGGAAAAGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4116760 274 -   4237731 atatgtcttg---aaat-taatgaagtttcatttaattgaaaatatattttacactagttcaa----tgtttacatttaagcttaaattagtaaattaaa--aaatttaaaactccattcctc-agacacgctctccacatttcaagtgcttggt-gccacacatggctag-tgctgccatattgaacagctcagGTCTAGAAGAAAGCATGAAGACT--ATTGCCTCATCTGTCCCTCTTCTCACTCTCCTATGGTGATTGT-AGTCATGTTAGAGAGATGGAAAAGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      385284 275 -   1175262 atatgtcttg---aaat-taatgaagtttcatttaactgaaaatatattttacactagtgcaa----tgtttacatttaaacttaaattagtaaattgaa--aaatttaaaactccattcctc-agacacgctctccacatttcaagtgctcagt-gccacacgtggctagttgctgccatattgaacagctcagGTCTAGAAGAAAGCATGAAGACT--ATTGCCTCATCTGTCCCTCTTCTCATTCTCCTATGGTGATTGT-AGTCATGTTAGAGAGATGGAAAAGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123746488 274 - 204313951 atagatcttg--aaaat-taataaagttgcatttaattgaaaatgtgttttacactagttcat----cgtttacatttaaacttaaattagtaaatttaa--caatttaaaactccattcctc-agaccctctctccacatttcaagtgctcaat-gccacatgtggccagtggctgccatactgaacagctcagGTCTAGAACAAAGCATTAATACT--ATTACTTCATCTGTCCCACTTCTCATTCTCCTAT-GTGATTGT-AGTCATG-TGGAGAGGTGGAAAAGAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55787283 234 -  71252344 ataagtcttg--aaaat-taataaagttgcatttaattgaaaatgtattttacactagttcag----ggtttatatttaaacttaaattagcaaatttaa--caatttaaaactccgttcctc-agatgctct-----------------------------------------CTGCCATACTGAACAGCTCAGGTCTAGAACAAAGCATGAATGCT--ATGACCTCATCTGTCCCTCTTCTCATTCTCCTGT-GTGATTGT-AGTCGTG-TGGAGAGATGGAAAAGAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       90836 274 -   3089952 atacgtcttg--aaaat-taataaagttgcatttaattgaaaatgtattttacactagttcaa----ggtttacatttaaacttaaattagtaaatttaa--caatttgtaactcttttcctt-agacactctctctacatttcaagtgctcaat-gcaacatgtggccagtggctgccatactgaacagctcagGTCTAGAACAAAGCATGAATGCT--ATTACCTCATCTGTCCCTCTTCTCATTCTCCTAT-GTGATTGT-AGTCATG-TGGAGAGATGGAAAAGAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13291420 275 -  42888418 atatgtcttg--aaaat-taataaagttgcatttaattgaaaatgtattttacactagttcaa----tgtttacatttaaacttaaattagtacatttaa--caatttaaaactccattcctc-agacactctctccacatttcaagtgctcaat-gccacatgtgaccaatggctgccatactgaacagctcagGTCTAGAACAAAGCATGAATACT--ATTACCTCATCTGTCCCTCTTCTCATTCTCCTAT-GTGATTGT-AGTCATGTTGGAGAGATGGAAAAGAA
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14978357 262 +  74389097 --atgtctta---aaac-tgataaaggtgcatttaatag-aaatgtaattcaacatgcttcag----tttttaagtttaaa-tgaaat-----------a--aaatttataattcaattcctc-agtcacaccagccacattttaagtgctcaggaacctcatgcagctattggttaccaaactaagcagtacaAGTGGAGAAGAAAGCTTGAAGACTAGATTGCCTCATGTATCCC-CTTCTCTGTGCGAGGGGGTGATGGT-GGTCATGGTGGTGAGATGGGAGGGGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2706746 269 +   3667625 atgagtcttacaaaaataaaataaaattgcatttaa-tgaaaaaatattttgcactgcttcat----tttttaaa-------ttaaat--gaaaattgcattaagttaaaaattcaattccttaagttgcaacagccatattccaagtgcccaat-agc-catgtggctactggctactatactggacaacccagGTCCAGGCAAAAGCGTGAAGACTAGATTTCCGCATCTGCATCTCTTCC--TTCTGATATGATAAAGGTGGGGCAAG---AGGAGATGGGAAAGGG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I
e mm10.chr18                55571985 6046 +  90702639 I

a score=2022418.000000
s hg38.chr5_KI270796v1_alt    158234 189 +    172708 AAGATCG-----------------------------------------------------------------------TGGAGTTGTTTCCTATGCTTTAATTCATAATTTCTGATAAAGAAGAC---AAAAGGAAGCATC---------------------------TATTTTGGC----------------------------------------------------------------ACAAA-----------AAGGAATGGATGAGTTAGTGTG-TTGTCCACTGCA-TCTCTTTCC-TACAGGCACTTCCTCATGCCTGATATGTTTCTGAAA----C-----------------------TTTCTTGATGAGAGGGGTGCTGTT------ACCA
s panTro5.chr5             125272371 189 + 181907262 AAGATCG-----------------------------------------------------------------------TGGAGTTGTTTCCTATGCTTTAATTCATAATTTCTGATAAAGAAGAC---AAAAGGAAGCATC---------------------------TATTTTGGC----------------------------------------------------------------ACAAA-----------AAGGAATGGATGAGTTAGTGTG-TTGTCCACTGCG-TCTCTTTCC-TACAGGCACTTCCTCATGCCTGATATGTTTCTGAAC----C-----------------------TTTCTTGATGAGAGGAGTGCTGTT------ATCA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126603192 189 + 183735486 AAGATCG-----------------------------------------------------------------------TGGAGTTGTTTCCTATGCTTTAATTCATAATTTCTGATAAAGAAGAC---AAAAGGAAGCATC---------------------------TATTTTGGC----------------------------------------------------------------ACAAA-----------AAGGAATGGATGAGTTAGTGTG-TTGTCCACTGCA-TCTCTTTCC-TACAGGCACTTCCTTATGCCTGATATGTTTCTGAAC----C-----------------------TTTCTTGATGAGAGGAGTGCTGTT------ATCA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1794986 193 +   8933513 AAGATCG-----------------------------------------------------------------------TGGAGCTGTTTCCTATGCTTTAATTCATAATTTCTGATAAAGAAGAC---AAAAGGAAGCATC---------------------------TATTTTGGC----------------------------------------------------------------ACAAA-----------AAGGAATGGATGAGTTAGTGTG-TTGTCCACTGCA-TCTCTTTCC-TACAGGCACTTCCTCATGCCTGATATGTTTCTGAACCTTTC-----------------------TTTCTTGATGAGAGGAGTGCTGTT------ATCA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139926676 195 + 163208435 AAGATCG-----------------------------------------------------------------------TGGAGTTGTTCCCCATGCTTTAATTCGTAATTTCTGATAAAGAAGAG---AAAAGGAAGCATC---------------------------TATTTTGGC----------------------------------------------------------------ACAAA-----------AAGGAATGGATGAGTTAGTGTG-TTGTCCATTGCA-TCTCTTTCC-TATAGGCACTTTCTCATGCCTGACGTGTTTCTGAAC----C-----------------------TTTCTTGATGAGAGGAGTGCTGTTATCATCATCA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122912148 190 + 180051392 AAGATTG-----------------------------------------------------------------------TGGAGTTGTTTCCTATGCTTTAATTCATAATTTCTGATAAAG--------AAAAAGAAGCATC---------------------------TATTTTGGC----------------------------------------------------------------ACAAG-----------AAGGAATGGATGAGTTAGTATG-TTGTCCATTGCA-TCTCTTTCC-TATAGGCACTTTCTCATGCCTGATGTATTTCTGAAC----C-----------------------TTTCTTGATGAGAGGAGTGCTGTTATCATCATCA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124335768 190 + 181584905 AAGATTG-----------------------------------------------------------------------TGGAGTTGTTTCCTATGCTTTAATTCATAATTTCTGATAAAG--------AAAAAGAAGCATC---------------------------TATTTTGGC----------------------------------------------------------------ACAAG-----------AAGGAATGGATGAGTTAGTATG-TTGTCCATTGCA-TCTCTTTCC-TATAGGCACTTTCTCATGCCTGATGTATTTCTGAAC----C-----------------------TTTCTTGATGAGAGGAGTGCTGTTATCATCATCA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16334432 190 +  18395747 AAGATTG-----------------------------------------------------------------------TGGAGTTGTTTCCTATGCTTTAATTCATAATTTCTGATAAAG--------AAAAAGAAGCATC---------------------------TATTTTGGC----------------------------------------------------------------ACAAG-----------AAGGAATGGATGAGTTAGTATG-TTGTCCATTGCA-TCTCTTTCC-TATAGGCACTTTCTCATGCCTGATGTATTTCTGAAC----C-----------------------TTTCTTGATGAGAGGAGTGCTGTTATCATCATCA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5346847 190 +  26952557 AAGATTG-----------------------------------------------------------------------TGGAGTTGTTTCCTATGCTTTAATTCATAATTTCTGATAAAG--------AAAAAGAAGCATC---------------------------TATTTTGGC----------------------------------------------------------------ACAAG-----------AAGGAATGGATGAGTTAGTATG-TTGTCCATTGCC-TCTCTTTCC-TATAGGCACTTTCTCATGCCTGATGTATTTCTGAAC----C-----------------------TTTCTTGATGAGAAGAGTGCTGTTATCATTATCA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28446669 190 +  82825804 AAGATTG-----------------------------------------------------------------------TGGAGTTGTTTCCTATGCTTTAATTCATAATTTCTGATAAAG--------AAAAGGAAGCATC---------------------------TATTTTGGC----------------------------------------------------------------ACAAG-----------AAGGAATGGATGAATTAGTATG-TTGTGCATTGCA-TCTCTTTCC-TATAGGCACTTTCTCATGCCTGATGTGTTTCTGAAC----C-----------------------TTTCTTGATGAGAGGAGTGCTGTTATCATCATCA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4117034 190 -   4237731 AAGATTG-----------------------------------------------------------------------TGGAGTTGTTTCCTATGCTTTAATTCATAATTTCTGATAAAG--------AAAAAGAAGCATC---------------------------TATTTTGGC----------------------------------------------------------------ACAAG-----------AAGGAATGGATGAGTTAGTATG-CTGTCCATTGCA-TCTCTTTCC-TATAGGCACTTTCTCATGCCTGATGTATTTCTGAAC----C-----------------------TTTCTTGATGAGAGGAGTGCTGTTATCATTATCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      385559 190 -   1175262 AAGATTG-----------------------------------------------------------------------TGGAGTTGTTTCCTATGCTTTAATTCATAATTTCTGATAAAT--------AAAAGGAAGCATC---------------------------TATTTTGGC----------------------------------------------------------------ACAAG-----------AAGGAATGGATGAGTTAGTATG-TTGTCCATTGCA-TCTCTTTCC-TATAGGCACTTTCTCATGCCTGATGTGTTTCTGAAC----C-----------------------TTTCTTGATGAGAGGAGTGCTGTTATTGTCATCA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123746762 260 - 204313951 AAGATCAAGCACAggccagtgcgcaatggataacgtgtctgactacggatcagaagattctaggAAAAGAAAAGATCGTGGAGTTATTCCTTATGCTTTTATTAATGATTTCTGATAAAGAAGAG---AAAAGGAAGCATC---------------------------TATTTTAGC----------------------------------------------------------------ACAAA-----------AAGGAATGGGTGAGTTAATATC-TTGTCCATTGCA-TTTCTTTCC-AATAGGCACTTCTGCATGCCTGACGTGTTTCTGCAC----C-----------------------ATTCTTGATGAGAGGAGTGCTGTT------ATCA
i calJac3.chr2             C 0 I 11
s saiBol1.JH378106          55787517 189 -  71252344 AAGATCA-----------------------------------------------------------------------TGGAGTTATTCCTTATGCTTTAATTAATAATTTCTGATAAAGAAGAG---AAAAGGAAGCATC---------------------------TATTTTGGC----------------------------------------------------------------ACAAA-----------AGGGAATGGGTGAGTTAGTGTC-TTGTCCATTGCA-TTTCTTTCC-AATAGGCACTTTTGCATGCCTGATGTGTTTCTGCAC----C-----------------------TTTCTTGATGAGAGGAGTGCTGTT------ATCA
i saiBol1.JH378106         C 0 I 11
s cebCap1.NW_016107590v1       91110 189 -   3089952 AAGATCG-----------------------------------------------------------------------TGGAGTTATTCCTTGTGCTTTAATTAACGATTTCTGATAAAGAGGAG---AAAAGGAAGCATC---------------------------TATTTTGGC----------------------------------------------------------------ACAAA-----------AAGGAATGGGTAAGTTAGTATC-TTATTCATTGTA-TTTCTTTCC-AGTAGGCATTTTTGCACGCCTGATGTGTTTCTGCAC----C-----------------------TTTCTTGATGAGAGGAGTGCTGTT------ATCA
i cebCap1.NW_016107590v1   C 0 I 55
s aotNan1.NW_018505940v1    13291695 189 -  42888418 AAGAGCA-----------------------------------------------------------------------TGGAGTTATTCCTTATGCTTTAATTAATGATTTCTGATAAAGAAGAG---AAAAGGAAGCATC---------------------------TATTTTGGC----------------------------------------------------------------ACAAA-----------AAGGAATGGGTGAGTTAGTATC-TTGTCCATTTCA-TTTCTTTCC-AATAGGCACTTTTGCATGCCTGATGTGTTTCTGCAC----C-----------------------TTTCTTGATGAGAGGAGTGCTGTT------ATCA
i aotNan1.NW_018505940v1   C 0 I 11
s mm10.chr18                55578031 304 +  90702639 AAGACCT-----------------------------------------------------------------------TGAACGAGTTCTCTATGCTTGAATTCACAATTTATGATAAAC--------ATAAAGGAACACCATCCTTTTCCTTCTGGCTGTTTTTGGTTTTGTTGGCTTCGCATTCTTCTGCCCTTTCCCCCTGAGGGTTACAGCTGCGAGCCACAGTACCGAGCTTGAAAACAAAGTGGTATACACAAAAAATACATAAGCTACTGTT-TTACACGCTGGATTTTCTCTCT-TTTGGGCA-----AAGTGCTTG-CGTGTTTCTGGAC----CGTTTTTTGTTTTTGTTTTTTTGGTTTTTTTGTAAGAGGAGTGCTGTC------CCCA
i mm10.chr18               I 6046 I 2
s canFam3.chr11             14978619 198 +  74389097 AAGATCC-----------------------------------------------------------------------CCGAGTTACT-CCTATGCTTTCATCCATGATTTCTGATAAGGAGGAGAAAAGAAAAAAACATG---------------------------CTCTTTGGC----------------------------------------------------------------CTATA-----------AAGGAATGGATGAGCTGGTGTC-TTATTCCTTGGA-TTTCTTTCCTTTTAGGCACTTTCTCATGACTGATACGTTTTGGGAG----T-----------------------ATTCTTAATGAGAAGAGAGGAACTGTTAGTATCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2707015 190 +   3667625 AAGATCT-----------------------------------------------------------------------TGGAGTTGCTGTCCATGCTTTAAT-AATGACTTCTGATAAAGAGGAG---AAAAGGAATCATA---------------------------CTCTTTGGT----------------------------------------------------------------CCAAA-----------AAGGAATGGATGAATTAACTTCTTTGTCCACTGGA-TTTCTTTTCTTCCAGACACCTTCTTATGCCTGCTATGTTTCAGGGA----T-----------------------ATTCTTGCTGGGAAGAATGCTGTT------GTTA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I

a score=70268.000000
s hg38.chr5_KI270796v1_alt    158423 27 +    172708 CATGGTAA--------GGC-CAAAAAACCCCACAAA
s panTro5.chr5             125272560 27 + 181907262 CATGGTAA--------GGC-CAAAAAAACCCACAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126603381 27 + 183735486 CATGGTAA--------GGC-CAAAAAAACCCACAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1795179 26 +   8933513 CATGGTAA--------GGC-CAAAAAA-CCCACAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139926871 27 + 163208435 CATGGTAA--------GGC-AAAAAAAACCCACACA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122912338 25 + 180051392 TTTGGTAA--------GGC--AAAAAAACTCACA-A
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124335958 26 + 181584905 TTTGGTAA--------GGC-AAAAAAAACTCACA-A
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16334622 26 +  18395747 TTTGGTAA--------GGC-AAAAAAAACTCACA-A
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5347037 26 +  26952557 TTTGGTAA--------GGC-AAAAAAAACTCACA-A
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28446859 26 +  82825804 TTGGGTAA--------GGC-AAAAAAACCTCACA-A
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4117224 27 -   4237731 TTTGGTAA--------GGCAAAAAAAAACTCACA-A
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      385749 27 -   1175262 TTTGGTAA--------GGCAAAGAAAACCTCACA-A
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123747033 26 - 204313951 TAAGTCAA--------AAT-caaacaaacaaaca-a
i calJac3.chr2             I 11 I 6
s saiBol1.JH378106          55787717 34 -  71252344 TAAGTCAAAATcaatcaat-caaacaaacaaaca-a
i saiBol1.JH378106         I 11 I 6
s aotNan1.NW_018505940v1    13291895 19 -  42888418 TAAGTCAA--------AAT-CAAACAAA--------
i aotNan1.NW_018505940v1   I 11 I 1
s mm10.chr18                55578337 25 +  90702639 AGCGTTTA--------TAC-CAAACAACCACAAC--
i mm10.chr18               I 2 C 0
s canFam3.chr11             14978817 15 +  74389097 TTTGATAA--------GGC-AACA------------
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I
e cebCap1.NW_016107590v1       91299 55 -   3089952 I
e dasNov3.JH567306           2707205  0 +   3667625 C

a score=581163.000000
s hg38.chr5_KI270796v1_alt    158450 66 +    172708 AAAACTGGCTTTTCAAAAACTAATAGTTGCAC-------Taggttgtttaaactctctcagcctcattttgct
s panTro5.chr5             125272587 66 + 181907262 AAAACTGGCTTTTCAAAAACTAATAGTTGCAC-------Taggttgtttaaactctctcagcctcattttgct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126603408 66 + 183735486 AAAACTGGCTTTTCAAAAACTAATAGTTGCAC-------Taggttgtttaaactctctcagcctcattttgct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1795205 62 +   8933513 AAAACTGGCTTTTCAAAAACTAATAGTTGCAC-------TAGG----ttaacctctctcagcctcattttgct
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139926898 66 + 163208435 AAAActggcttttcaacaactaacagttgcac-------taggttgcgtaacctctctcagcctcattttgct
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122912363 66 + 180051392 AAAActggcttttcaacatctaatagttgcac-------taggttgcttaacccctcacagcctcattttgct
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124335984 66 + 181584905 AAAACTGGCTTTTTAACATCTAATAGTTGCAC-------Taggttgcttaacccctcacagcctcattttgct
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16334648 66 +  18395747 AAAActggcttttcaacatctaatagttgcac-------taggttgcttaacccctcacagcctcattttgct
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5347063 66 +  26952557 AAAActggcttttcaacatctaatagttgcac-------taggttgcttaacccctcgcagcctcattttgct
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28446885 66 +  82825804 AAAACTGGCTTTTCAACATCTAATAGTTGCAC-------Taggttgcttaacccctcgcagcctcattttgct
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4117251 66 -   4237731 AAAActggcttttcaacatctaatagttgcac-------taggttgcttaacccctcgcagcctcattttgct
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      385776 65 -   1175262 AAAACTGGCTTTTCAACATCTAGTAGTTGCAC-------TAGGTTGCTTAA-CCCTCTCAACCTCATTTTGCT
i colAng1.NW_012119644v1   C 0 I 320
s calJac3.chr2             123747065 65 - 204313951 CAAACTGG-TTTTCAACAACTAATAGTTGCAC-------caggttgcttaagttctctcagtttcattttgct
i calJac3.chr2             I 6 C 0
s saiBol1.JH378106          55787757 66 -  71252344 aaaACTGGCTTTTCAACAACTAATAGTTGCAC-------Taggttgcttaagttctctccatctcattttgct
i saiBol1.JH378106         I 6 C 0
s cebCap1.NW_016107590v1       91354 66 -   3089952 aaaActggcttttcaacaactaatagttgcac-------ttggttgcttaagttctctcagtctcattttgct
i cebCap1.NW_016107590v1   I 55 C 0
s aotNan1.NW_018505940v1    13291915 34 -  42888418 AAAACTGGCTTTTc---------------------------------------tctctcagtctcattttgct
i aotNan1.NW_018505940v1   I 1 C 0
s mm10.chr18                55578362 38 +  90702639 --------ACTTTCAGCAGTGAATAGCTG---------------------------TTCAGTCTTGGTGTGTC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14978832 71 +  74389097 AAAACTAGCTTATCAACAACTAATGGCTGCAAGTCTTAgcagcttacttaaactctct--atttcagcttgct
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2707205 37 +   3667625 --------------------------TTGT---------CAGTttactt-acctcttgcagcctcaatttgct
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I

a score=1857831.000000
s hg38.chr5_KI270796v1_alt    158516 184 +    172708 tatacataaaat-tattaaacccttgtcttattcatgtcccaggt-ctg----tgtatgtatgaggtaataatattttgaaaa----cAAA-CGCTCTAAATGT-----TAAATATAGCAATAACATTACACCAATATACA----ATAGTTTTTATTTTCATGGTTACTTCTCTTAGCCGAC----------------ACAAGGCCCATTTCTT-ATTCAT
s panTro5.chr5             125272653 184 + 181907262 tatacataaaat-tattaaacccttgtcttattcatgtcccaggt-ctg----tgtatgtatgaggtaataatattttgaaaa----caaa-cgctgtaaatgt-----taaatATAGCAATAACATTACACCAATATACA----ATAGTTTTTATTTCCATGGTTACTTCTCTTAGCCAAC----------------ACAAGGCCCATTTCTT-ATTCAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126603474 184 + 183735486 tatacataaaat-tattaaacccttgtcttattcatgtcccaggt-ctt----tgtatgtatgaggtaataatattttgaaaa----cAAA-CACTCTAAATGT-----TAAATATAGCAATAACATTACACCAATATACA----ATAGCTTTTATTTTCATGGTTACTTCTCTTAGCCGAC----------------ACAAGGCCCATTTCTC-ATTCAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1795267 188 +   8933513 tatacataaaat-tattaaacccttgtcttattcatgtcccaggt-ctgtgtatgtatgtatgaggtaataatattttgaaaa----cAAG-CACTCTAAATGT-----TAAATATAGCAATAACATTACACCAGTATACA----ATAGTTTTTATTTTCATGGTTACTTCTCTTAGCCGAC----------------ACAAGGCCCATTTCTT-ATTCAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139926964 185 + 163208435 tatacataaaat-tatttaacccttgtcttattcatgtcccagat-ctg----tgtatgtatgagg---taatattttgaaaa----cAAG-TGCTCTAAATGT-----TAAATATAGCAATAACATTACACCAATATACAACACATAGTTTTTACTTTCATGGTTACCTCTCTTAGCCGAC----------------ACAAGGCCCATTTCTT-ATTCAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122912429 190 + 180051392 tatacataaaat-tattaaacccttgtcttattcatgtctcaggt-ctg----tgtatgtatgaggtaataatattttgaaaacAATCAAA-CACTCTAAATGT-----TGGATATAGCAATAACATTACACCAATATACAATGTATAGTTTTTATTTTCATGGTTACCTCTCTTAGCTTAC----------------ACAAGGCCCATTTCTT-GTTC--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124336050 190 + 181584905 tatacataaaat-tattaaacccttgtcttattcatgtctcaggt-ctg----tgtatgtatgaggtaataatattttgaaaacAATCAAG-CACTCTAAATGT-----TAGATATAGCAATAACATTACACCAATATACAATGTATAGTTTTTATTTTCATGGTTACCTCTCTTAGCTTAC----------------ACAAGGCCCATTTCTT-GTTC--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16334714 190 +  18395747 tatacataaaat-tattaaacccttgtcttattcatgtctcaggt-ctg----tgtatgtatgaggtaataatattttgaaaacAATCAAA-CACTCTAAATGT-----TGGATATAGCAATAACATTACACCAATATACAATGTATAGTTTTTATTTTCATGGTTACCTCTCTTAGCTTAC----------------ACAAGGCCCATTTCTT-GTTC--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5347129 187 +  26952557 tatacataaaat-tattaaacccttgtcttattcatgtctcaggt-ctg----tgtatgtatgagg---taatattttgaaaacAGTCAAG-CACTCTAAATGT-----TAGACATAGCAATAACATTACACCAATATACAATGTATAGTTTTTATTTTCATGATTACCTCTCTTAGCTCAC----------------ACAAGGCCCATTTCTT-GTTC--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28446951 189 +  82825804 tatacataaaat-tattaaacccttgtcttattcatgtctcaggt-ctg----tgtatgtatgag-taataatattttgaaaacAATCAAG-CACTCTAAATGT-----TAGATATAGCAATAACATTACACCAATATACAATGTATAGTTTTTATTTTCATGGTTACCTCTCTTAGCTTAC----------------ACAAGGCCCATTTCTT-GTTC--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4117317 187 -   4237731 tatacataaaat-tattaaacccttgtcttattcatgtctcaggt-ctg----tgtatgtatgag---gtaatattttgaaaacAATCAAG-CACTCTAAATGT-----TAGACATAGCAATAACATTACACCAATATACAATGTATAGTTTTTATTTTCATGGTTACCTCTCTTAGCTTAC----------------ACAAGGCCCATTTCTT-GTTC--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      386161 190 -   1175262 tatacataaaat-tattaAATCCTTGTCTTATTCATGTCTCAGGT-CTA----TGTATGTATGAGGTAATAATATTTTGAAAACAATCAAG-CACTCTAAATGT-----TAAATATAGCAATAACATTACACCAATATACAATATATAGTTTTTATTTTCATGGTTACCTCTCTTAGCTGAC----------------ACAAGGCCCATTTCTT-GTTC--
i colAng1.NW_012119644v1   I 320 C 0
s calJac3.chr2             123747130 192 - 204313951 tatacataaaat-tattaaacgcttgtcttatacctgtctcaggt-cta----tgtatgtatgaggtaatggtattttgtaaacagtcaag-tgctctaAATAT-----TAAATATAGCAATAACATTACACCAATATACAATATATAGTTTTTATTTTCATGATTATCTCCCCTAACCAAC----------------ATAAGGCCCATTTCCT-ATTTAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55787823 192 -  71252344 tatacataaaat-tattaaacgcttgtcttattcctgtctcaggt-cta----tgtatgtatgagataatggtattttgtaaacagtcaag-tgctctaaatgt-----TAAATATAGCAATAATATTACACCGATATACAATATATAGTTTTTATTTTCATGATTATCTCCGTTAGCCAAC----------------ATAAGGCCCATTTCTT-ATTTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       91420 192 -   3089952 tatacataaaat-tattaaacgcttgtcttattcctgtttgaggt-cta----tgtgtatatgaggtaatggtattttgtaaacagtcaaa-tgctctaaatgt-----TAAATATAGCAATAACATTATGCCAATTTACAATATGTAGTTTTTATTTTCATGATTATCTCCCTTAGCCAAC----------------ATAAGGCCCATTTTTT-ATTTAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13291949 192 -  42888418 tatacataaaat-tattaaacacttgtcttattcctgtctcaggt-cta----tgtatgtatgaggtaatggtattttgtaaacagtcaag-tgctctaaatgt-----TAAATATAGCAATAACATTACACCAATATGCAATATATAGTTTATATTTTCATGATTATCTCCCTTAGCCAAC----------------ATAAGGCCCATTTCTT-ATTTAT
i aotNan1.NW_018505940v1   C 0 I 25
s mm10.chr18                55578400 152 +  90702639 --TGC-TAAGAG-TA---------------------------------G----AATAT-TATAGAGTAATTATGCTTTATGAACAGTCCAG-TTCACTAATTATTTTGCTAATTATA-CATTGACATCCCACCA------CATATATATGTCTTATTTT-ATGGTTTTCTCTCTTAGCTGAT----------------ATGAAGCCAATTTTTT-TTTAT-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14978903 171 +  74389097 tatatgttaaatacactaagcacttgtcttacctatttcccagag-ctg----tGTA-----------ATAATGCTTT-TAAACATTAAAGTTGCTCTAATTATTTTGGTAACTATAACGGTAACATTGCGCCATG---------ACAGTTTTTA-TTTCATGGATATATATCTTACTAGAG----------------ACAAAATCCAATTCTT-------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2707242 208 +   3667625 tatatgtaaaat-tattacacacttatcttaaacacttcacaggtgctg----cataccttagaggttgtga-aatgtgcaaacagtcaag-tgctctaATTATTTTGCTAATTATGACAATAACAAAGTACAAAGATACA------GGTTTTAATTTTCATGGTTCTCTCTCTTACTAGGCCATGAGGTCCATAAAAATATGGTCTATTTCTTGGTTCAT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I

a score=-36034.000000
s hg38.chr5_KI270796v1_alt    158700 8 +    172708 CTC-------TTTTT
s panTro5.chr5             125272837 8 + 181907262 CTT-------TTTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126603658 8 + 183735486 CTG-------TTTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1795455 7 +   8933513 CT--------TTTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139927149 6 + 163208435 C---------TTTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122912619 5 + 180051392 ----------TTTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124336240 5 + 181584905 ----------TTTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16334904 5 +  18395747 ----------TTTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5347316 5 +  26952557 ----------TTTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28447140 5 +  82825804 ----------TTTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4117504 5 -   4237731 ----------TTTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      386351 5 -   1175262 ----------TTCTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123747322 7 - 204313951 --CTT-----TTTA-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55788015 5 -  71252344 --C-------TTTA-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       91612 5 -   3089952 --C-------TTTT-
i cebCap1.NW_016107590v1   C 0 C 0
s mm10.chr18                55578552 7 +  90702639 ----TA---ATATT-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14979074 4 +  74389097 ----------TTTT-
i canFam3.chr11            C 0 I 25
s dasNov3.JH567306           2707450 8 +   3667625 -----ATATATTT--
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I
e aotNan1.NW_018505940v1    13292141 25 -  42888418 I

a score=1664362.000000
s hg38.chr5_KI270796v1_alt    158708 171 +    172708 AAAA-----AATTTCAATTCATTGCTTATTTTAGACATAGA-AAAATTAGA-AAAAATTAATGGAAGACACCTGAGAGGAAGCAAATTTTAATATTGTATTGCATATGCTAGAGGTC---TGTTTTCTTTTTtctttttttaaaaaaaaaataatgtgctagacaaag-agt-aaagcccttc
s panTro5.chr5             125272845 162 + 181907262 TAAA-----AATTTCGATTCATTGCTTATTTTAGACATAGA-AAAATTAGA-AAAAATTAATGAAAGACACCTGAGAGGAAGCAAATTTTAATATTGTATTGCATGTGCTAGAGGTC---TGTTTTCTtttttcttt---------aaaaaaaatgtgctagacaaag-agt-aaagcccttc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126603666 166 + 183735486 TAAA-----AATTTCAATTCATTGCTTATTTTAGACATAGA-AAAATTAGA-AAAAATTAATGAAAGACACCTGAGAGGAAGCAAATTTTAATATTGTATTGCATGTGCTAGAGGTC---TGTTTTCTTttttcttt-----taaaaaaaataatgtgctagacaaag-agt-aaagcccttc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1795462 166 +   8933513 AAAA-----AATTTCAATTCATTGCTTATTTTAGACATAGA-AAAATTAGA-AAAAATTAATGAAAGACACCTGAGAGGAAGCAAATTTTAATATTGTATTGCACGTACTAGAGGTC---TGTTTTCTTTTTTCTTT-----AAAAAAAAATAATGTGCTAGACATAG-AGT-AAAGCCCTTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139927155 166 + 163208435 AAAA-----AAATTCAATTCATTTCTTATTTTAGACATAGA-AAAATTAGA-AAAAATTAATGAAAGACACCTGAGAGGAAGCAAATTTTAATATTGTATTGCATGTGCTAGAGGTC---TGTTTTCTTTtttcttt------ttaaaaaataacgtgctagacatag-agtaaaagcccttc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122912624 173 + 180051392 ACAA--TTTTTTTTCAATTCATTGCATATTTTAGACATAGA-AAAATTAGA-AAAAATTAATGAAAGACACCTGAGAGGAAGCAAATTTTAATATTGTATTGCATATGCTAGAGATCTGTTGTTTTCTtttttcttt------aaaaaaaataacatgctagacataatagtaaaagcccttc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124336245 171 + 181584905 ACAA-TTTTTTTTTCAATTCATTGCATATTTTAGACATAGA-AAAATTAGA-AAAAATTAATGAAAGACACCTGAGAGGAagcaaattttaatattgtattgcatatgctagagatc---tgttttcttttttcttt------aaaaaaaataacatgctagacataatagtaaaagcccttc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16334909 173 +  18395747 ACAA--TTTTTTTTCAATTCATTGCATATTTTAGACATAGA-AAAATTAGA-AAAAATTAATGAAAGACACCTGAGAGGAAGCAAATTTTAATATTGTATTGCATATGCTAGAGATCTGTTGTTTTCTTTTTTCTTT------AAAAAAAATAACATGCTAGACATAATAGTAAAAGCCCTTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5347321 163 +  26952557 ACAA-TTTTtttttcaattcattgcatattttagacataga-aaaattaga-aaaaattaatgaaagacacctgagaggaagcaaattttaatattgtattgcatatgctagaggtc----------tgttttcttt------aaaaaaaaaaacatgctagacatag-agtaaaagcccttc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28447145 171 +  82825804 ACAATTTTTTTTTTCAATTCATTGCATATTTTAGACATAGA-AAAATTAGA-AAAAATTAATGAAAGACACCTGAGAGGAAGCAAATTTTAATATTGTATTGCATGTGCTAGAGGTC---TGTTTTCTtttttcttt------aaaaaaaataacatgctagacatag-agtaaaagcccttc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4117509 170 -   4237731 ACAA-TTTTTTTTTCAATTCATTGCATATTTTAGACATAGA-AAAATTAGA-AAAAATTAATGAAAGACACCTGAGAGGAAGCAAATTTTAATATTGTATTGCATATGCTAGAGGTC---TGTTTTCTtttttcttt------aaaaaaaataacatgctagacatag-agtaaaagcccttc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      386356 170 -   1175262 ACAA--ATTTTTTTCAATTCATTGCATATTTTAGACATAGA-AAAAATAGA-AAACATTAATGAAAGACACCTGAGAGGAAGTAAATTTTAATATTGTATTGCATGTGCTAGAGGTC---TGTTTTCTtctttcttt-----aaaaaaaaaaaacatgctagacatag-agtaaaagcccttc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123747329 166 - 204313951 AAAA-----AATTTCAATTCATTGCATATTTTAGACTTAGA-AAAATAAGA-AAAAATTAATGAGAGACACCTGAGGGGAAGCAAATTTTAATATCATATTAAATGTGCTAGAGGTC---TGTTTTCTTTTTTCTCT------TAAAGAAATAATATGCTATACATAG-AGTAAAAGCCCTTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55788020 166 -  71252344 AAAA-----AAATTAAATTCATTTCATATTTTAGACTTTGA-AAAATAAGA-AAAAATTAATGAGAGACACCTGAGGGCAAGCAAATTTTAATATCATATTAAATGTGCTAGATGTC---TGTTTTATtttttctct------taaagaaataatatgctatacatag-agtaaaagcccttc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       91617 166 -   3089952 AAAA-----AATTTAAATTCATTGCATATTTTAGACTTAGA-AAAATAGGA-AAAAATTAATGAGAGACACCTGAGGGGAAGCAAATTTTAATATCATATTAAATGTGCTAGAGGTC---TGTTTTCTTTTTTCTCT------TAAAGAAATAATATGCTATACATAG-AGTAAAAGCCCTTC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13292166 164 -  42888418 AAAA-----AATTTCAATTCATTGC--ATTTTAGACTTAGG-AAAATAAGA-AAAAATTAATGAGAGACACCTGAGGGGAAGCAAATTTTAATATCATATTAAATGTGCTAGAGGTC---TGTTTTCTTTTTTCTCT------TAAAGAAATAATATGCTGTACATAG-AGTAAAAGCCCTTC
i aotNan1.NW_018505940v1   I 25 C 0
s mm10.chr18                55578559 136 +  90702639 GGAG-----ATTTCCATTGCACTGCAACTTTT----------GAAATAAGGTGGAAATTAACACACGATCCCTGAGATAATGCAAATTTCACTATCAAGTCTAATTTGCTGTATGTA------TTCTTTTTTTCTAT------TA-------------------ATAG-ATAAGGAGCCCTCC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14979103 160 +  74389097 AAAA-----AAGACCAACTCATTGCATATTTTAAATA---A-AAAAATAGG-GAAAATTAATATGAGATACTTGAGATAAAGTAAATTTTAATATCATATCAAATTTACTATAGGTC------TTTCTTCTTTCTCT------TTAAGAAATAATATGTTATTCAAAG-AATACAAGTCCCAC
i canFam3.chr11            I 25 C 0
s dasNov3.JH567306           2707458 162 +   3667625 TTAA-----AAAGTCAATTCATTGCATATGTTAAATATATAGAAAAGTAGG-GAAAAATAATG--AGACATCTGagatgaaacaaattttaatgtgg--tcaaat-tgctgtaggtt---tcttttgctctttcttt------ttagtaagtaatacattacatataa-aatgaacgctctcc
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I

a score=31059.000000
s hg38.chr5_KI270796v1_alt    158879 3 +    172708 cat--
s panTro5.chr5             125273007 3 + 181907262 cat--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126603832 3 + 183735486 cat--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1795628 3 +   8933513 CAT--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139927321 3 + 163208435 cat--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122912797 3 + 180051392 cat--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124336416 3 + 181584905 cat--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16335082 3 +  18395747 CAT--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5347484 3 +  26952557 cat--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28447316 3 +  82825804 cat--
i chlSab2.chr23            C 0 I 1
s manLeu1.NW_012103321v1     4117679 3 -   4237731 cat--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      386526 3 -   1175262 cat--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123747495 3 - 204313951 CAT--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55788186 3 -  71252344 cat--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       91783 3 -   3089952 CAT--
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13292330 3 -  42888418 CAT--
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55578695 3 +  90702639 CAT--
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2707620 3 +   3667625 --tag
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14979263 0 +  74389097 C
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e otoGar3.GL873679           3138496 305 +   4132165 I

a score=11767.000000
s hg38.chr5_KI270796v1_alt    158882 10 +    172708 ttataccatt
s panTro5.chr5             125273010 10 + 181907262 ttataccatt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126603835 10 + 183735486 ttataccatt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1795631 10 +   8933513 TTATACCATT
i gorGor5.CYUI01015135v1   C 0 C 0
s calJac3.chr2             123747498 10 - 204313951 TTACATCATT
i calJac3.chr2             C 0 C 0
s mm10.chr18                55578698 10 +  90702639 ATACTTCACT
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2707623 10 +   3667625 tcaccccatt
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14979263  0 +  74389097 C
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e manLeu1.NW_012103321v1     4117682  0 -   4237731 C
e chlSab2.chr23             28447319  1 +  82825804 I
e cerAty1.NW_012002512v1     5347487  0 +  26952557 C
e macNem1.NW_012012355v1    16335085  0 +  18395747 C
e macFas5.chr6             124336419  0 + 181584905 C
e rheMac8.chr6             122912800  0 + 180051392 C
e otoGar3.GL873679           3138496 305 +   4132165 I
e aotNan1.NW_018505940v1    13292333  0 -  42888418 C
e cebCap1.NW_016107590v1       91786  0 -   3089952 C
e saiBol1.JH378106          55788189  0 -  71252344 C
e colAng1.NW_012119644v1      386529  0 -   1175262 C
e nomLeu3.chr2             139927324  0 + 163208435 C

a score=5890.000000
s hg38.chr5_KI270796v1_alt    158892 5 +    172708 tttct
s panTro5.chr5             125273020 5 + 181907262 tttct
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126603845 5 + 183735486 tttct
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1795641 5 +   8933513 TTTCT
i gorGor5.CYUI01015135v1   C 0 C 0
s calJac3.chr2             123747508 5 - 204313951 TTTCT
i calJac3.chr2             C 0 C 0
s mm10.chr18                55578708 5 +  90702639 ATTCT
i mm10.chr18               C 0 I 1206
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14979263 0 +  74389097 C
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e manLeu1.NW_012103321v1     4117682 0 -   4237731 C
e chlSab2.chr23             28447319 1 +  82825804 I
e cerAty1.NW_012002512v1     5347487 0 +  26952557 C
e macNem1.NW_012012355v1    16335085 0 +  18395747 C
e macFas5.chr6             124336419 0 + 181584905 C
e rheMac8.chr6             122912800 0 + 180051392 C
e otoGar3.GL873679           3138496 305 +   4132165 I
e aotNan1.NW_018505940v1    13292333 0 -  42888418 C
e cebCap1.NW_016107590v1       91786 0 -   3089952 C
e dasNov3.JH567306           2707633 0 +   3667625 C
e saiBol1.JH378106          55788189 0 -  71252344 C
e colAng1.NW_012119644v1      386529 0 -   1175262 C
e nomLeu3.chr2             139927324 0 + 163208435 C

a score=1820.000000
s hg38.chr5_KI270796v1_alt    158897 2 +    172708 tt
s panTro5.chr5             125273025 2 + 181907262 tt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126603850 2 + 183735486 tt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1795646 2 +   8933513 TT
i gorGor5.CYUI01015135v1   C 0 C 0
s calJac3.chr2             123747513 2 - 204313951 TT
i calJac3.chr2             C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14979263 0 +  74389097 C
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e manLeu1.NW_012103321v1     4117682 0 -   4237731 C
e chlSab2.chr23             28447319 1 +  82825804 I
e cerAty1.NW_012002512v1     5347487 0 +  26952557 C
e macNem1.NW_012012355v1    16335085 0 +  18395747 C
e macFas5.chr6             124336419 0 + 181584905 C
e rheMac8.chr6             122912800 0 + 180051392 C
e otoGar3.GL873679           3138496 305 +   4132165 I
e aotNan1.NW_018505940v1    13292333 0 -  42888418 C
e cebCap1.NW_016107590v1       91786 0 -   3089952 C
e dasNov3.JH567306           2707633 0 +   3667625 C
e mm10.chr18                55578713 1206 +  90702639 I
e saiBol1.JH378106          55788189 0 -  71252344 C
e colAng1.NW_012119644v1      386529 0 -   1175262 C
e nomLeu3.chr2             139927324 0 + 163208435 C

a score=3112.000000
s hg38.chr5_KI270796v1_alt    158899 21 +    172708 ttt-----------aattattattatacttta
s panTro5.chr5             125273027 23 + 181907262 ctttt----tttaaaattattatta-----ta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126603852 18 + 183735486 ttttt---------aattattatta-----ta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1795648 29 +   8933513 TTTTTAAAATT---Aattattattatacttta
i gorGor5.CYUI01015135v1   C 0 I 13
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14979263  0 +  74389097 C
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e manLeu1.NW_012103321v1     4117682  0 -   4237731 C
e chlSab2.chr23             28447319  1 +  82825804 I
e cerAty1.NW_012002512v1     5347487  0 +  26952557 C
e macNem1.NW_012012355v1    16335085  0 +  18395747 C
e macFas5.chr6             124336419  0 + 181584905 C
e rheMac8.chr6             122912800  0 + 180051392 C
e otoGar3.GL873679           3138496 305 +   4132165 I
e aotNan1.NW_018505940v1    13292333  0 -  42888418 C
e cebCap1.NW_016107590v1       91786  0 -   3089952 C
e dasNov3.JH567306           2707633  0 +   3667625 C
e mm10.chr18                55578713 1206 +  90702639 I
e saiBol1.JH378106          55788189  0 -  71252344 C
e calJac3.chr2             123747515  0 - 204313951 C
e colAng1.NW_012119644v1      386529  0 -   1175262 C
e nomLeu3.chr2             139927324  0 + 163208435 C

a score=787.000000
s hg38.chr5_KI270796v1_alt    158920 11 +    172708 ctttaagtata
s panTro5.chr5             125273050 11 + 181907262 ctttaagtata
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126603870  5 + 183735486 ctt------ta
i panPan2.chr5             C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14979263  0 +  74389097 C
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e gorGor5.CYUI01015135v1     1795677 13 +   8933513 I
e manLeu1.NW_012103321v1     4117682  0 -   4237731 C
e chlSab2.chr23             28447319  1 +  82825804 I
e cerAty1.NW_012002512v1     5347487  0 +  26952557 C
e macNem1.NW_012012355v1    16335085  0 +  18395747 C
e macFas5.chr6             124336419  0 + 181584905 C
e rheMac8.chr6             122912800  0 + 180051392 C
e otoGar3.GL873679           3138496 305 +   4132165 I
e aotNan1.NW_018505940v1    13292333  0 -  42888418 C
e cebCap1.NW_016107590v1       91786  0 -   3089952 C
e dasNov3.JH567306           2707633  0 +   3667625 C
e mm10.chr18                55578713 1206 +  90702639 I
e saiBol1.JH378106          55788189  0 -  71252344 C
e calJac3.chr2             123747515  0 - 204313951 C
e colAng1.NW_012119644v1      386529  0 -   1175262 C
e nomLeu3.chr2             139927324  0 + 163208435 C

a score=365167.000000
s hg38.chr5_KI270796v1_alt    158931 674 +    172708 atgtgcacaatgtgcaggttagttacatatgtatacatgtgccatgctggtgtgctgcacccattaactcgtcatttagcgttaggtatatctcctaatgctatccctccccctccccccaccccacaacagtccccagagtgtgatgttccccttcctgtgtccatgtgttctcaatgttcaattcccacttatgagtgagaacatgcggtgtttggtttttttgtccttgcgatagtttactgagaatgatgatttctaatttcatccatgtccctacaaaggacatgaactcatcattttttatggctgcgtagtattccgtggtgtatatgtgccacattttcttaatccagtctatcgttgttggacatttgggttggttccaagtctttgctattgtgaatagtgccgcaatagacatatgtgtgcatgtgtctttatagcagcatgatttatagtcctttgggtatatacccagtaatgggatggctgggtcaaatggtatttctagttctagatccctgaggaatcgccacactgacttccacaatggttgaactagtttacagtcccaccagcagtgtaaaagtgttcctgtttctccacatcctctccagcacctgttgtttcctgactttttaa----tgactgccattctaactggtgtgagatgg
s panTro5.chr5             125273061 674 + 181907262 atgtgcacaatgtgcaggttagttacatatgtatacatgtgccatgctggtgtgctacacccatcaactcgtcatttagcattaggtgtatctcctaatgctatccctccccctccccccaccccacaacagtccccagagtgtgatgttccccttcctgtgtccatgtgttctcaatgttcaattcccacttatgagtgagaacatgcggtgtttggtttttttgtccttgcgatagtttactgagaatgatgatttctaatttcatccatgtccctacaaaggacatgaactcatcattttttatggctgcatagtattccgtggtgtatatgtgccacattttcttaatccagtctatcattgttggacatttgggttggttccaagtctttgctattgtgaatagtgccgcaataaacatatgtgtgcatgtgtctttatagcagcatgatttatagtcctttgggtatatacccagtaatgggatggctgggtcagatcgtatttctagttctaaatccctgaggaattgccacactgacttccacaatggttgaactagtttacagtcccaccaacagtgtaaaagtgttcctatttctccacatcctctccagcacctgttgtttcctgactttttaa----tgactgccattctaactggtgtgagatgg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126603875 678 + 183735486 atgtgcacaatgtgcaggttagttacatatgtatacatgtgccatgctggtgtgctgcacccattaacttgtcatttagcattaggtatatctcctaatgctatccctccccctccccccaccccacaacagtccccagagtgtgatgttccccttcctgtgtccatgtgttctcaatgttcaattcccacttatgagtgagaacatgcggtgtttggtttttttgtccttgcgatagtttactgagaatgatgatttctaatttcatccatgtccctacaaaggacatgaactcatcattttttatggctgcatagtattccgtggtgtatatgtgccacattttcttaatccagtctatcattgttggacatttgggttggttccaagtctttgctattgtgaatagtgccgcaataaacatatgtgtgcatgtgtctttatagcggcatgatttatagtcctttgggtatatacccagtaatgggatggctgggtcagatggtatttctagttctagatccctgaggaatcgccacactgacttccacaatggctgaactagtttacagtcccaccaacagtgtaaaagtgttcctatttctccacatcctctccagcacctgttgtttcctgactttttaatgactgactgccattctaactggtgtgagatgg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1795690 671 +   8933513 atgtgcacaatgtgcaggttagttacatatatatacatgtgccatgctggtgtgctgcacccatcaactcgtcatttagcattaggtatatctcctaa-gctatccct-cccctccccccaccccacaacagtccccggagtgtgatgttccccgtcctgtgtccatgtgttctcaatgttcaattcccacttgtgactgagaacatgcggtgtttgg-ttttttgtccttgcaatagtttgctgagaatgatgatttccaatttcatccatgtccctacaaaggacatgaactcatcattttttatggctgcatagtattccgtggtgtatatgtgccacattttcttaatccagtctatcattgttggacatttgggttgattccaagtctttgctattgtgaatagtgccgcaataaacatacgtgtgcatgtgtctttatagcagcatgatttatagtcctttgggtatctacccagtaatgggatggctgggtcagacggtatttctagttctagatccctgaggaatcgccacactgacttccacaatggttgaactagtttacagtcccaccaacagtgtaaaagtgttcctatttctccacatcctctccagcacctgttgtttcctgactttttaa----tgaccgccattctaactggtgtgagatgg
i gorGor5.CYUI01015135v1   I 13 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14979263   0 +  74389097 C
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e manLeu1.NW_012103321v1     4117682   0 -   4237731 C
e chlSab2.chr23             28447319   1 +  82825804 I
e cerAty1.NW_012002512v1     5347487   0 +  26952557 C
e macNem1.NW_012012355v1    16335085   0 +  18395747 C
e macFas5.chr6             124336419   0 + 181584905 C
e rheMac8.chr6             122912800   0 + 180051392 C
e otoGar3.GL873679           3138496 305 +   4132165 I
e aotNan1.NW_018505940v1    13292333   0 -  42888418 C
e cebCap1.NW_016107590v1       91786   0 -   3089952 C
e dasNov3.JH567306           2707633   0 +   3667625 C
e mm10.chr18                55578713 1206 +  90702639 I
e saiBol1.JH378106          55788189   0 -  71252344 C
e calJac3.chr2             123747515   0 - 204313951 C
e colAng1.NW_012119644v1      386529   0 -   1175262 C
e nomLeu3.chr2             139927324   0 + 163208435 C

a score=2332.000000
s hg38.chr5_KI270796v1_alt    159605 3 +    172708 cac
s panTro5.chr5             125273735 3 + 181907262 cat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126604553 3 + 183735486 cat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1796361 3 +   8933513 cat
i gorGor5.CYUI01015135v1   C 0 C 0
s otoGar3.GL873679           3138801 3 +   4132165 cat
i otoGar3.GL873679         I 305 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14979263 0 +  74389097 C
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e manLeu1.NW_012103321v1     4117682 0 -   4237731 C
e chlSab2.chr23             28447319 1 +  82825804 I
e cerAty1.NW_012002512v1     5347487 0 +  26952557 C
e macNem1.NW_012012355v1    16335085 0 +  18395747 C
e macFas5.chr6             124336419 0 + 181584905 C
e rheMac8.chr6             122912800 0 + 180051392 C
e aotNan1.NW_018505940v1    13292333 0 -  42888418 C
e cebCap1.NW_016107590v1       91786 0 -   3089952 C
e dasNov3.JH567306           2707633 0 +   3667625 C
e mm10.chr18                55578713 1206 +  90702639 I
e saiBol1.JH378106          55788189 0 -  71252344 C
e calJac3.chr2             123747515 0 - 204313951 C
e colAng1.NW_012119644v1      386529 0 -   1175262 C
e nomLeu3.chr2             139927324 0 + 163208435 C

a score=9555.000000
s hg38.chr5_KI270796v1_alt    159608 1 +    172708 t
s panTro5.chr5             125273738 1 + 181907262 t
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126604556 1 + 183735486 t
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1796364 1 +   8933513 t
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139927324 1 + 163208435 t
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122912800 1 + 180051392 t
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124336419 1 + 181584905 t
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16335085 1 +  18395747 T
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5347487 1 +  26952557 t
i cerAty1.NW_012002512v1   C 0 C 0
s manLeu1.NW_012103321v1     4117682 1 -   4237731 t
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      386529 1 -   1175262 t
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55788189 1 -  71252344 t
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       91786 1 -   3089952 T
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13292333 1 -  42888418 T
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3138804 1 +   4132165 t
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14979263 0 +  74389097 C
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e chlSab2.chr23             28447319 1 +  82825804 I
e dasNov3.JH567306           2707633 0 +   3667625 C
e mm10.chr18                55578713 1206 +  90702639 I
e calJac3.chr2             123747515 0 - 204313951 C

a score=122394.000000
s hg38.chr5_KI270796v1_alt    159609 13 +    172708 ta-taccatttttc
s panTro5.chr5             125273739 13 + 181907262 ta-taccatttttc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126604557 13 + 183735486 ta-taccatttttc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1796365 13 +   8933513 tA-TACCATTTTTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139927325 14 + 163208435 tattaccatttttc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122912801 13 + 180051392 ta-tgccatttttc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124336420 13 + 181584905 ta-tgccatttttc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16335086 13 +  18395747 TA-TGCCATTTTTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5347488 13 +  26952557 ta-tgccatttttc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28447320 13 +  82825804 ta-tgccatttttc
i chlSab2.chr23            I 1 C 0
s manLeu1.NW_012103321v1     4117683 13 -   4237731 ta-tgccatttttc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      386530 13 -   1175262 ta-tgccatttttc
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55788190 13 -  71252344 ta-caccatttttc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       91787 13 -   3089952 TA-CACCATTTTTC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13292334 13 -  42888418 TA-CACCATTTTTC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3138805 13 +   4132165 ta-tcccattttcc
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14979263  0 +  74389097 C
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e dasNov3.JH567306           2707633  0 +   3667625 C
e mm10.chr18                55578713 1206 +  90702639 I
e calJac3.chr2             123747515  0 - 204313951 C

a score=34304.000000
s hg38.chr5_KI270796v1_alt    159622 3 +    172708 ttc
s panTro5.chr5             125273752 3 + 181907262 ttc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126604570 3 + 183735486 ttc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1796378 3 +   8933513 TTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139927339 3 + 163208435 ttc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122912814 3 + 180051392 ttc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124336433 3 + 181584905 ttc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16335099 3 +  18395747 TTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5347501 3 +  26952557 ttc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28447333 3 +  82825804 ttc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4117696 3 -   4237731 ttc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      386543 3 -   1175262 ttc
i colAng1.NW_012119644v1   C 0 C 0
s saiBol1.JH378106          55788203 3 -  71252344 ttc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       91800 3 -   3089952 TTC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13292347 3 -  42888418 TTC
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3138818 3 +   4132165 ttt
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2707633 3 +   3667625 ctc
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14979263 0 +  74389097 C
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e mm10.chr18                55578713 1206 +  90702639 I
e calJac3.chr2             123747515 0 - 204313951 C

a score=840524.000000
s hg38.chr5_KI270796v1_alt    159625 78 +    172708 ctcctcctt--gaggtaactaactatcattatgaagttggtgaatatcctgcccgtCAAAAGTCTCAGGCTTTCATGAGG
s panTro5.chr5             125273755 78 + 181907262 ctcctcttt--gaggtaactaactatcattatgaagttggtgaatatcctgcccgtCAAAAGTCCCAGGCTTTCATGAGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126604573 74 + 183735486 ctcctcctt--gagg----taactatcattatgaagttggtgaatatcctgcccgtCAAAAGTCTCAGGCTTTCATGAGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1796381 74 +   8933513 CTCCTCCTT--GAGG----TAATTATCATTATGAAGTTGGTGAATATCCTGCCCGTCAAAAGTCTGAGGCTTTCATGAGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139927342 74 + 163208435 ctcctcctt--gagg----taactatcattatgaagttggtgaatatcttgcccatCAAAAGTCTCAGGCTTTCATGAGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122912817 75 + 180051392 ctcctcctt-ggagg----taactgtcattatgaagttggtgaatatcctgtccatCAAAAGTCTCAGGCTTTCATGAGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124336436 75 + 181584905 ctcctcctt-ggagg----taactgtcattatgaagttggtgaatatcctgtccatCAAAAGTCTCAGGCTTTCATGAGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16335102 75 +  18395747 CTCCTCCTT-GGAGG----TAACTGTCATTATGAAGTTGGTGAATATCCTGTCCATCAAAAGTCTCAGGCTTTCATGAGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5347504 75 +  26952557 ctcctcctt-ggagg----taactgccattatgaagttggtgaatatcctGTCTATCAAAAGTCTCAGGCTTTCATGAGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28447336 75 +  82825804 ctcctcctt-ggagg----taactgtcattatgaagttggtgaatatcctgtccatCAAAAGTCTCAGGCTTCCATGAGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4117699 75 -   4237731 ctcctcctt-ggagg----taactgtcattatgaagttggtgaatatcctgtccatCAAAAGTCTCAGGCTTTCATGAGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      386546 75 -   1175262 ctcctcctt-ggagg----taactatcattatgaagttggtgaacatcttgtccatCAAAAGTCTCAGGCTTTCATGAGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123747515 74 - 204313951 CTCCTCCTG-GGAGG----TAATTATCATTCTGAAGTTGGTGAATA-CCAGCTCATCAAAAGTCTAAGGCTTTCATGAGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55788206 75 -  71252344 ctcctcttg-ggagg----taattatcattatgaagttggtgaatatcccacccatCAAAAGTCTCAGGTTTCCATGAGG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       91803 73 -   3089952 CTCCTCCTG-GGAGG----TAATTTTCATTATGAAGTTGGTGAATATCCTGCCCATCAAAAGTC--AGGCTTTCATGAGG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13292350 75 -  42888418 CTCCTCCTG-GGAGG----TAATTATCATTATGAAGTTGGTGAAAATCCTGCCCATCAAAAGTCTCAGGCTTTCATGAGG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3138821 74 +   4132165 cttctcctg--gagg----taactatcttcatgaagttggtaaatatcctgcctgCCAAGGGTCTCAGGCTTTCACAAGG
i otoGar3.GL873679         C 0 C 0
s dasNov3.JH567306           2707636 75 +   3667625 ctccccctttggagg----taactactgttatgaagatggtgacaatcctgcccatCAGTGGGCTCATGCATT-ATGAAG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e canFam3.chr11             14979263  0 +  74389097 C
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e mm10.chr18                55578713 1206 +  90702639 I

a score=3700960.000000
s hg38.chr5_KI270796v1_alt    159703 372 +    172708 cagtatagcatggcattgaagatcgtagatgctggggccagtgctgccact-ttttaatcatg------tgactttgagcaaattccattcctt---aacttctcagttccttcatctgaaaaatgga---aataatagagtctagtccatctggttattgtgaggataaaatt--tattcatgtttctaaaagttcgtattaagctctgcgtgaatgatagctatc-attattattATTAATATTACAAATATTTGTCCA--TGTGTATGGTCTATGTTTATATAAAAGG------TAGC---AATGTAG--------------TTttttttcagtcaacattacatctttgtgatgtacccatgttgatatattcatacagagtgaattaatctttactcatttatagcat
s panTro5.chr5             125273833 365 + 181907262 cagtatagcatggcattgaagatcgtagatgctggggccagtgctgccact-ttttaatcatg------tgactttgagcaa-----attcctt---aacttctcagttccttcatctgaaaaatgga---aataatagagtctaattcatcgggttattgtgaggataaaatt--tattcatgtttctaaaagttcgtattaagctctgcgtgaatgttagctatc-attATTATTATTAATATTACAAATATTTATCCA--TGTGTATGGTCTATGTTTATATAAAAGG------TAGC---AATGTAG--------------TTttttttcagtcaacattacatctttgtgatgtacccatgttgatatattcaaacagagtgaattaatctttacttatttatagc--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126604647 365 + 183735486 cagcatagcatggcattgaagatcgtagatgctggggccagtgctgccact-ttttaatcatg------tgactttgagcaa-----attcctt---aacttctcagttccttcatctgaaaaatgga---aataatagagtctaattcatctggttattgtgaggataaaatt--tattcatgtttctaaaagttcgtattaagctctgcgtgaatgttagctatc-attATTATTATTAATATTACAAATATTTGTCCA--TGTGTATGGTCTATGTTTATATAAAAGG------TAGC---AATGTAG--------------TTttttttcagtcaacattacatctttgtgatgtacccatgttgatatattcaaacagagtgaattaatctttacttatttatagc--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1796455 368 +   8933513 cagtatagcatggcattgaagatcgtagatgctggggccagtgctgccact-ttttaatcatgtgactttgactttgagcaa-----attcctt---aacttgtcagttccttcatctgaaaaatgga---aataatagagtttaattcatctggttattgtcaggataaaatt--tattcatgtttctaaaagttcgtattaagctctgcgtgaatgttagctatc-attATTATTA--AATATTACAACTATTTGTCCA--TGTGTATGGCCTATGTTTATATAAAAGG------TAGC---AATGTAg---------------tttttttcagtcaacattacatctttgtgatgtacccatgttgatatattcaaacagagtgaattaatctttacttatttatagc--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139927416 355 + 163208435 cagtataccatggcattgaagatcatagatgctggggccagtgctgccact-ttttaatcgtg------tgactttgagcaa-----attactt---aacctctctgttccttcatctggaaaattga---aataatagagtctaattcatataattattgtgaagataaa------attcgtgtttctaaaagtttctattaagctctgcatgaatgttagctatt-attATTATTA------TTACAAATATTTGTCCA--TGTGTATGGTCTGTGTTTATATAAAAGG------TAGC---AATGTAG--------------TTttttttcagtcaatattacgtctttgtgatgtacccatgttgatatattcaaacagagtgaattaatctttacttatttatagc--
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122912892 364 + 180051392 cagtatagcatggcattgaagatcatagatgctggggccagtgctgccact-ttttaatcgtg------tgactttgagcaa-----attacataacaacttctcagttcctttgtctgaaaaatgga---aataatagagtctaactcatatggttattgtgagcataaaatt--tatttgcatttttgaaggttcatattaagctctgtgtgaatgttagctatcaATCATTATTGTTATTATTACAAATATTTGTCCA--TGTGTATGGTCTGTGTTTATATAAAATT------TAGC---AATGTAg---------------tttttttcagtcaacattacatctttgtgatgtacccatgttgatatattcaaacagaatgaatt----tttacttatttatagc--
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124336511 364 + 181584905 cagtatagcatggcattgaagatcatagatgctggggccagtgctgccact-ttttaatcgtg------tgactttgagcaa-----attacataacaacttctcagttcctttgtctgaaaaatgga---aataatagagtctaactcatatggttattgtgagcataaaatT--TATTTGCATTTTTGAAGGTTCATATTAAGCTCTGTGTGAATGTTAGCTATCAGTCATTATTGTTATTATTACAAATATTTGTCCA--TGTGTATGGTCTGTGTTTATATAAAATT------TAGC---AATGTAT---------------Tttttttcagtcaacattacatctttgtgatgtacccatgttgatatattcaaacagaatgaatt----tttacttatttatagc--
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16335177 364 +  18395747 cagtatagcatggcattgaagatcatagatgctggggcgagtgctgccact-ttttaatcgtg------tgactttgagcaa-----attatataacaacttctcagttcctttgtctgaaaaatgga---aataatagagtctaactcatatggttattgtgagcataaaatt--tatttgcatttttgaaggttcatattaagctctgtgtgaatgttagctatcaATCATTATTGTTATTATTACAAATATTTGTCCA--TGTGTATGGTCTGTGTTTATATAAAATT------TAGC---AATGTAg---------------tttttttcagtcaacattacatctttgtgatgtacccatgttgatatattcaaacagaatgaatt----tttacttatttatagc--
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5347579 362 +  26952557 cagtatagcatggcattgaagatcatagatgctggggccagtgctgccact-ttttaatcatg------tgactttgagtaa-----attacttaacaacttctcagttcctttgtctgaaaaatgga---aataat--agtctaactcatatggttattgtgaggataaaatg--tatttgcatttttgaaggttcatattaagctctgtgtgaatgttagctatcaATCATTATTGTTATTATTACAAATATTTGTCCA--TGTGTATGGTCTGTGTTTATATAAAATT------TAGC---AATGTAg---------------tttttttcagtcaacattacatctttgtgatgtacccatgttgatatattcaaacagagtgaatt----tttacttatttatagc--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28447411 364 +  82825804 cagtatagcatggcattgaagttcatagatgctggggccagtgctgccact-ttttaatcgtg------tgactttgagcaa-----attacttaacaacttctcagttcctttgtctgaaaaatgga---aataatagagtctaactcatatggttattgtgaggataaaatt--tatttgcatttttgaaggttcatattaagctctgtgtgaatgttagctatcaatcattattgttattattACAAATATTTGTCCA--TGTGTATGGTCTGTGTTTATATAAAATT------TAGC---AATGTAg---------------tttttttcagtcaacattacatctttgtgatgtacccatgttgatatattcaaacagagtgaatt----tttacttatttatagc--
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4117774 362 -   4237731 cagtatagcatggcattgaagatcatagatgctggggccagtgctgccact-ttttaatcgtg------tgacttttagcaa-----attacttaacaacttctcagttcctttgtctgaaaaatgga---aataat--agtctaactcatatggttattgtgaggataaaatt--tatttgcatttttgaaggttcatattaagctctgtgtgaatgttagctatcaATCATTATTGTTATTATCACAAATATTTGTCCA--TGTGTATGGTCTGTGTTTATATAAAATT------TAGC---AATGTAg---------------tttttttcagtcaacattacatctttgtgatgtacccatgttgatatattcaaacagagtgaatt----tttacttatttatagc--
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      386621 346 -   1175262 cagtatagcatggcatggaagatcatagatgctggggccagtgctgccact-ttttaatcgtg------tgactttgagcaa-----attacttaacaactgctcagttcctttgtctgaaaaatgga---aataatagagtctaactcatagggttattgtgaggataaaatg--tattcgtgtttttgaaggttcatattaagctctgtgtgaatgttagctatc-------------attATTACAAA-ATTTGTCCA--TGTGTATGGTCTGTGTTTATATAAAAGT------TAGC---AATGTAG---------------TTTTTTTCAT----CTTTACATCTTTGTGATGTACCCATGTTGATATATTCAGAGTGAATTAATA----TTTACTTATTTATAGC--
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123747589 362 - 204313951 cagtataacatagcattgaagatcatagatgctggggtcagtgctgctaca-ttttaatcgtg------tgactttgagcaa-----attactt---------------acttcacctgaaaaatggg---aatagtagagtctgactcctacggttattgtgatgatAACATT--TATCCATGTTTTTAAAGGTTCGTATTAAGTTCCGCATGAATGTTAGCtatt-attattattattattattaCAAATATTTGTCCA--TGTGTATGGTCTGTGTTTATATAAAAGGTTTATATAGTTTATATGTAG--------------TTTAtttttagtcaacattatgtctctgtgatgtacccatgttgatatattcaaacagaatgaattaatgtttacttatttatagc--
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55788281 348 -  71252344 cagtatagcttgacattgaagatcatagatgctggggtcagtgctgctaca-ttttaatcgtg------tgactttgagcaa-----attactt---------------acttcatctgaaaaatggg---aataatagagtctgactcatatggttattgtgaggataaaatt--tatctgtgtttttaaaggtttgtaataacttctgcatgaatgttag---tg-attattattattATTATTACAAATATTTGTCCA--TGTGTATGGTCTGTGTTTATATAAAAGG------TAGC---AATGTAG--------------TTTAtttttagtcaacattacgtctctgtgatgtacccatgttgatacactcaa--agagtgaattaatgtttacctttttatagc--
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       91876 344 -   3089952 cagcatagcatggcattgaagatcgtagatgctggggtcagtgctgttaca-ttttaattgtg------tgactttgagcaa-----attactt---------------acttcatctgaaaaatggg---aataatagagtctgactcatattgttattgtgaggataaaatt--tatccatgtttttaaaggtttgtaataagttctgcatgcatattag----------ctattattATTATTACAAATGTTTGTCCA--TGTGTATGGTCTGTGTTTATATAAAAGG------TAAC---AATGTAG--------------TTTATTTTTAGTCAACATTACCTCACTGTGATGTACCCATGTTGATATATTCCAACAGAGTGAATTAATGTTTACTTATTTATAGC--
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13292425 349 -  42888418 cagtatagcatggcattgaagatcatagatgctggggttggtgctgctaca-ttttaatcatg------tgactttgagcaa-----attactt---------------acttcatctgaaaaatggg---aataatagagtctgactcatatggttattgtgaggataaaatt--tatccatgtttttaaaggttcatattcagttctgcatgaatgtcag---ct-attattATTATTATTATTACAAATATTTGTCCA--TGTGTATGGTCTGTGTTTATATAAAAGG------TAAc---aatgtgg--------------ttta-ttttagtcaacattacatctctgtgatgtacccatgttgatatattcaaacagagtgaattaatatttacttatttatagc--
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3138895 260 +   4132165 ACAAATAGCATGGCTTTGAAGAACATATTCACAGGAGCCAGTGCTGCTACC-TTTT----GTG------TGACCTTGAACAA-----AT-------------------------------------------------------------------------------------------AGTGTTCTTAAGGGTCCTTATTAAATTCTGCATAAGTATTAGCTATC-ATTATT-------TTATCATGAATATTTGTTCA--TACGTGTG------GTTTAGATGGAAGA------TTAC---AGTGT-----------------Gttttttcagtcagcattatgtctctgtgaggtacccatgttgatacattcaaacag--tggattaattttaactgacttatagc--
i otoGar3.GL873679         C 0 I 2
s canFam3.chr11             14979263 361 +  74389097 cagtatagcctgccatttaagaaaacagactctggagacagctttgccactgctttgatagtg------tgaccttggacaa-----gttatta---aacttcttagtttcctcaactgaaaaatgagcataataatacagtctaatttatatggttattatgacaataaaatgcacattgaattttttaagggcccatattaagttctgtataaatattggttatC-------CTTATGAGTAGTACAGATGTTTATACAATTGTGTGTGGCCAAGATTTATATAAAAGG------TAAT---AATGtg----------------tttttcccagtcaac---acatctctgtgatgcacccatgtgaatatactcaaacagagtgaattaat-ttgacttatttgtact--
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2707711 344 +   3667625 CTgtatagcatgacattgaagaggatggactctggagccagctctgccact-ttttaattgta------tgaccttgagcaa-----attaact---------tctgcttcctcatctga-----------aataac---------ctaatatggttattgtgagaaaaaaatT--GGTA-----TTTTAAGGGTCTATTTTAAGTTCTTTATAAATATTAGCTATT-------ATAGTTATTATTACAAATGTTCATACATATGTGTGTAGTCAAGGtttatgtaaaaa-------taac---aatgatatattttattatttcttttctctcagtcaacat-atgttggtgtgatgta-ctatgttgatacattcacactgagggaattaattttggcttatttatagt--
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60611723 2699 + 108143057 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e mm10.chr18                55578713 1206 +  90702639 I

a score=720185.000000
s hg38.chr5_KI270796v1_alt    160075 58 +    172708 attctactaaatgtttatatcatagcttagattcttttctc----actgactgataatttta
s panTro5.chr5             125274198 58 + 181907262 attctactaaatgtttatatcatagcttagattcttttctc----actgactgataatttta
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126605012 58 + 183735486 attctactaaatgtttatatcatagcttagattcttttctc----actgactgataatttta
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1796823 58 +   8933513 attctactaaatgtttatatcatagcttagattcttttctc----gctgactgataatttta
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139927771 62 + 163208435 attctactaaatgcttatatcatagcttagattctttcctcactgactgactgataatttta
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122913256 56 + 180051392 attctactgaatgtttatatcatagttt--attctttcctc----actgactgataatttta
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124336875 56 + 181584905 attctactgaatatttatatcatagttt--attctttcctc----actgactgataatttta
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16335541 56 +  18395747 attctactgaatgtttatatcatagttt--attctttcctc----actgactgataatttta
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5347941 56 +  26952557 attctactgaatgtttatatcatagttt--attctttcctc----actgactgataatttta
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28447775 52 +  82825804 attctactgaatgtttatagcatagttt--attctttcctc--------actgataatttta
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4118136 56 -   4237731 attctactgaatgtttatatcatagttt--attctttcctc----actgactgataatttta
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      386967 51 -   1175262 TTTCTACTGAATGTT-----CATAGTTT--ATTCTTTCCTC----ACTGACTGATAATTTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123747951 56 - 204313951 attctactaaatgtttatatcataattt--attcttgcctc----atggactgataatttta
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55788629 56 -  71252344 attctactaaatgtttatatcatagttt--attctttcctc----attgactgataatttta
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       92220 56 -   3089952 ATTCTACTAAATGTTTATATCATAGTTT--ATTCTTTCCTC----GTTAACTGATAATTTTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13292774 56 -  42888418 attctactaaatgtttatatcatagttt--attctttcctc----attgactgataatttta
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60614422 56 + 108143057 ATTCTACTTAATGTTTATATCATAGTTT--ATTCTTTCCTT----ATTGACTGAAATTTTTA
i micMur3.chr12            I 2699 C 0
s otoGar3.GL873679           3139157 54 +   4132165 --tctactgaatgtttatatcattattt--gctctttcccc----attggctgacatttttc
i otoGar3.GL873679         I 2 C 0
s canFam3.chr11             14979624 56 +  74389097 gttccaatgaatgttgatatcatgggtt--attcattttct----actgacagctattttta
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2708055 56 +   3667625 cttttattgaatgtttatatcacagctt--aatcattctcc----attgagaaacattttta
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I
e mm10.chr18                55578713 1206 +  90702639 I

a score=1489367.000000
s hg38.chr5_KI270796v1_alt    160133 111 +    172708 ct-gtgtcta-gtgtttccattattatatctgg-a---------gaacccttgt--atatagttcctgggatacat--ACACATCCTATTCATCTTTGTATTGCAGAAAT------TAGTGTCTTTCCAGACA
s panTro5.chr5             125274256 111 + 181907262 ct-gtgtcta-gtgttttcattattatatctgg-a---------gaacccttgt--atatagttcctgggatacat--acacgTCCTATTCATCTTTGTATTGCAGAAAT------TAGTGTCTTTCCAGACA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126605070 111 + 183735486 ct-gtgtcta-gtgttttcattattatatctgg-a---------gaacccttgt--atatagttcctgggacacat--ACACATCCTATTCATCTTTGTATTGCAGAAAT------TAGTGTCTTTCCAGACA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1796881 112 +   8933513 ctggtgtcta-gtgttttcattattatatctgg-a---------gaacccttgt--atatagttcctgggatacat--ACACATCCTATTCATCTTTGTATTGCAGAAAT------CAGTGTCTTTCCAGACA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139927833 110 + 163208435 ct-gtgtcta-gtgttt-catcattatatctgg-a---------gaacccttgt--agatagttcctaggatacat--ACACATCCTATTCATCTTTATATTGCAGAAAT------CAGTATCTTTCCAGACA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122913312 111 + 180051392 ct-gtgtcta-gtgttttcattattatatctgg-a---------gaacccttgt--atatagttcctaggatacat--ACACATCCTATTCATCTTTATATTGCAGAAAT------TAGTGTCTTTCCAGACA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124336931 111 + 181584905 ct-gtgtcta-gtgttttcattattatatctgg-a---------gaacccttgt--atatagttcctaggatacat--ACACATCCTATTCATCTTTATATTGCAGAAAT------TAGTGTCTTTCCAGACA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16335597 111 +  18395747 ct-gtgtcta-gtgttttcattattataTCTGG-A---------GAACCCTTGT--ATATAGTTCCTAGGATACAT--ACACATCCTATTCATCTTTATATTGCAGAAAT------TAGTGTCTTTCCAGACA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5347997 111 +  26952557 ct-gtgtcta-gtgttttcattattatatctgg-a---------gaacccttgt--atatagttcctaggatacat--ACACATCCTATTCATCTTTATATTGCAGAAAT------TAGTGTCTTTCCAGACA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28447827 111 +  82825804 ct-gtgtcta-gtgttttcattattatatctgg-a---------gaacccttgt--atatagttcctaggatacat--ACACATCCTATTCATCTTTATATTGCAGAAAT------TAGTGTCTTTCCAGACA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4118192 111 -   4237731 ct-gtgtcta-gtgttttcattattataTCTGG-A---------GAACCCCTGT--ATATAGTTCCTAGGATACAT--ACACATCCTATTCATCTTTATATTGCAGAAAT------TAGTGTCTTTCCAGACA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      387018 111 -   1175262 CT-GTGTCTA-GTGTTTTCATTATTATATCTGG-A---------GAACCCTTGT--ATATAGTTCCTAGGATACAT--ACACATCCTATTCATCTTTATATTGCAGAAAT------GAGTGTCTTTCCAGACA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123748007 111 - 204313951 ct-gtgtcta-gttttctcattattataTCTGG-A---------GAACCCTTGC--GTATATTTCCAGGCATACAT--ACACACCCAATTCATCTTTATATTGCAGAAAT------TAGTGTATTGCCAGACA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55788685 111 -  71252344 ct-gtgccta-gttttttcattattatatctgg-a---------gagcccttgc--gtatatttcctggcatacat--ACACACCTGATTCATCTTTATATTGCAGAAAT------TAGTGTATTTCCAGACT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       92276 111 -   3089952 CT-GTGCCTA-GTTTTTTCATTATTATATCTGG-A---------GAACCCCTGC--GTATATTTCCTGGCATACAT--ACACACCTGATTCATCGTTATATTGCAGAAAT------TAGTGTATTTCCAGACA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13292830 111 -  42888418 ct-gtgacta-gttttttcattattatatctgg-a---------gaacccttgc--atatatttcctggcatatat--acACACCCGATTCATCTTTATATTGCAAAAAT------TAGTGTATTTCCAGACA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60614478 113 + 108143057 CT-GAGTCAA-GTATTTTTGTTATTATGCCTGG-A---------GAACTCATGT--CCATATGTCCTGGGATACATGCACACATTCTAGTCATCTTTAGATTGCAGGAAT------TGGTGCCTTTCCAGACA
i micMur3.chr12            C 0 I 779
s otoGar3.GL873679           3139211 114 +   4132165 at-gtgtcct-ttttttttgttattatgtctggaa---------gaactcttgt--acatgtgtcctggcagacatgtacACATTCTAGTCATCTGTATATTGCAGGAAT------TAGTGCCTTTCCAGATA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55579919 110 +  90702639 CT-TTGCTCA-ATATTT---TAATTACATTTAC-A---------GAGCTCATGT--ACATATTTTCTGACATGCATGtatatattttatttatatttaCAATTCAGAAAT------TAGCATTGATCCAAATG
i mm10.chr18               I 1206 C 0
s canFam3.chr11             14979680 113 +  74389097 ct-gtttcta-tcttttttgttattacacccag-g---------taatgcttgt--acatctttcctggcatacatgttcaTATTCTATTCATCTTTGTATCACAGGAAT------TAATGCCATTCCAGACA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2708111 126 +   3667625 -----ttctacaggtttttgttattaca-ctgg-atgatacagtgagccattgtacatatatttcctggcatacatgtgcaTAATCTATTCACCTTAGATTCCCAGGAATTATTAATAGTACCATACTAGATA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I

a score=2817545.000000
s hg38.chr5_KI270796v1_alt    160244 262 +    172708 TAGTAGGTGTGGATGA----------------GTCATTGTTAAAGTTAATTGACTTTTTATGTAT----------------TTACATCTTGGC----TAAGCCCATGGTGAGTTCTCT-GAG----------------------ATAGGAATGATGGGCAC--AAACTGG--------------------ATGCTCAAT-------------AAACTGCTGA---GATCTGGGACACATGAGGTCAGGCACGTGGCTGGCACAGCCAATCTTCCAT-ATGTGAGAGGTTAACATGCTGAGTGAAGGACGTATGTCAATTATTTGAGG----------AGCATGCGA-CACTGAAAGTCTACTTG-AGCAA------AA
s panTro5.chr5             125274367 262 + 181907262 TAGTAGATGTGGATGA----------------GTCATTGTTAAAGTTAATTGACTTTTTATGTAT----------------TTACATCTTGGC----TAAGCCCATGGTGAGTTCTCT-GAG----------------------ATAGGAATGATGGGCAC--AAACTGG--------------------ATGCTCAAT-------------AAACTGCTGA---GATCTGGGACACATGAGGTCAGGCACGTGGCTGGCACAGCCAATCTTCCAT-ACGTGAGAGGTTAACGTGCTGAGTGAAGGACGTATGTCAATTATTTGAGG----------AGCATGCGA-CACTGAAAGTCTACTTG-AGAAA------AA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126605181 262 + 183735486 TAGTAGGTGTGGATGA----------------GTCATTGTTAAAGTGAATTGACTTTTTATGTAT----------------TTACATCTTGGC----TAAGCCCATGGTGAGTTCTCT-GAG----------------------ATAGGAATGATGGGCAC--AAACTGG--------------------ATGCCCAAT-------------AAACTGCTGA---GATCTGGGACACATGAGGTCAGGCACGTGGCTGGCACAGCCAATCTTCCAT-ACGTGAGAGGTTAACATGCTGAGTGAAGGACATATGTCAATTATTTGAGG----------AGCATGCGA-CACTGAAAGTCTACTTG-AGCAA------AA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1796993 262 +   8933513 TAGTAGGTGTGGATGA----------------GTCATTGTTAAAGTGAATTGACTTTTTATGTAT----------------TTACATCTTGGC----TAAGCCCATGGTGAGTTCTCT-GAG----------------------ATAGGAATGATGGGCAC--AAATTGG--------------------ATGCTCAAT-------------AAACTGCTGA---GATCTGGGACACATGAGGTCAGGCACATGGCTGGCACAGCCAATCTTCCAT-ACGTGAGAGGTTAACATGCTGAGTGAAGGACGTATGTCAATTATTTGAGG----------AGCATGCGA-CACTGAAAGTCTACTTG-AGCAA------AA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139927943 262 + 163208435 TAGTAGATGCGGATGA----------------GTCATTGTTAAAGTGAATTGACTTTTTATGTAT----------------TTACATCTTGGC----TAAACCCATGGTGAGTTCTCT-GAG----------------------ATAGGAATGATGGGCAC--AAACTGG--------------------ATGCTGAAT-------------AAACTGCTGA---GATCTGGGATGCGTGAGGTCAGGCACGTGGCTGGCACAGCCAGTCTTCCAT-ACGTGAGAGGTTAACATGCTGAGTGAAGGACCTATGTCAATTATTTGAGG----------AGCATGCGA-CACTGAAAGTCTACTTG-AGCAA------AA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122913423 262 + 180051392 TAGTAGATGTGAATGA----------------GTCATTGTTAAAGTGAATTGACTTTTTATGTAT----------------TTACATCTTGAC----TAAGTCCATGGTGAGTTCTCT-GAG----------------------GTAGGAATGATGGGCAC--AAACTGG--------------------ATGCTCAAT-------------AAACAGCTGA---GATCTGGAACACGTGAGGTCAGGCATGTGGCTAGCACAGCCAATCTTCCAT-ATGTGAGAAGTTAACATGCTGAGTGAAGGACGTATGTCAATTACTTAAGG----------AGCATACAA-CACTGAAAGTCCACCTG-AGCAA------AA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124337042 262 + 181584905 TAGTAGATGTGAATGA----------------GTCATTGTTAAAGTGAATTGACTTTTTATGTAT----------------TTACATCTTGGC----TAAGTCCATGGTGAGTTCTCT-GAG----------------------GTAGGAATGATGGGCAC--AAACTGG--------------------ATGCTCAAT-------------AAACAGCTGA---GATCTGGAACACGTGAGGTCAGGCATGTGGCTAGCACAGCCAATCTTCCAT-ATGTGAGAAGTTAACATGCTGAGTGAAGGACGTATGTCAATTACTTAAGG----------AGCATGCAA-CACTGAAAGTCCACCTG-AGCAA------AA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16335708 262 +  18395747 TAGTAGATGTGAATGA----------------GTCATTGTTAAAGTGAATTGACTTTTTATGTAT----------------TTACATCTTGAC----TAAGTCCATGGTGAGTTCTCT-GAG----------------------GTAGGAATGATGGGCAC--AAACTGG--------------------ATGCTCAAT-------------AAACAGCTGA---GATCTGGAACACGTGAGGTCAGGCATGTGGCTAGCACAGCCAGTCTTCCAT-ATGTGAGAAGTTAACATGCTGAGTGAAGGACGTATGTCAATTACTTAAGG----------AGCATGCAA-CACTGAAAGTCCACCTG-AGCAA------AA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5348108 262 +  26952557 TAGTAGATGTGAAAGA----------------GTCATTGTTAAAGTGAATTGACTTTTTATGTAT----------------TTACATCTTGGC----TAAGTCCATGGTGAGTTCTCT-GAG----------------------GTAGGAGTGATGGGCAC--AAACTGG--------------------ATGCTCAAT-------------AAACAGCTGA---GATCTGGAACACGTGAGGTCAGGCATGTGGCTAGCACAGCCAATCTTCCAT-ATGTGAGAAGTTAACATGCTGAGTGAAGGACGTATGTCAATTACTTAAGG----------AGCATGCAA-CACTGAAAGTCCACCTG-AGCAA------AA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28447938 262 +  82825804 CAGTAGATGTGAATGA----------------GTCATTGTTAAAGTGAATTGACTTTTTATGTAT----------------TTACATCTTGGC----TAAGTCTATGGTGAGTTCTCT-GAG----------------------GTAGGAATGATGGGCAC--AAACTGG--------------------ATGCTCAAT-------------AAACATCTGA---GATCTGGGACACGTGAGGTCAGGTATGTGGCTAGCACAGCCAGTCTTCCAT-ATGTGAGAAGTTAACATGCTGAGTGAAGGACCTATGTCAATTATTTGAGG----------AGCATGCAA-CACCGAAAGTCCACCTG-AGCAA------AA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4118303 262 -   4237731 TAGTAGATGTGAATGA----------------GTCATTGTTAAAGTGAATTGACTTTTTATGTAT----------------TTACGTCTTGGC----TAAGTCCATGGTGAGTTCTCT-GAG----------------------GTAGGAATGATGGGCAC--AAACTGG--------------------ATGCTCAAT-------------AAACAGCTGA---GATCTGGAACACGTGAGGTCAGGCCTGTGGCTAGCACAGCCAATCTTCCAT-ATGTGAGAAGTTAACATGCTGAGTGAAGGACGTATGTCAATTACTTAAGG----------AGCATGCAA-CACTGAAAGTCCACCTG-AGCAA------AA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      387129 262 -   1175262 TAGTAGATGTGAATGA----------------GTCATTGTTAAAGTGAATTGACATTTTATGTAT----------------TTACATCTTGGC----TAAGTCCATGGTGAGTTCTCT-AAG----------------------GTAGGAATGATGGGCAC--AAACTGG--------------------ATGCTCAAT-------------AAACGGCTGA---GATCTGGGGCACGTGAGGTCAGGCATGTGGCTAGCACAGCCAGTCTTCCAT-ATGTGAGAAGTTAACATGCTGAATGAAGGACCTATGTCAGTTATTTGAGG----------AGCATGCAA-CACTGAAAGTCTACCTG-AGCAA------AA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123748118 266 - 204313951 TAGTAGGTGTGGATGA----------------GTCATTGTTAAAGTGAGTTGACTTTTCATGTGT----------------ATACATCTTGGCTCTGTAAGTCCATCGTGAGTTCCTG-GAG----------------------GCAGGAATAATGGGCAC--AAACTGG--------------------AACCTCAAT-------------TAATTGCTGA---GATCTGGGATGAGTGAGGTCAGGCATGTGGCTAGCACAGCCAATCTTCCAT-GGATGAGAGGTCAACATGCAGAGGGAAAGACCTATGTCAACGATTTGAGG----------ACCACGTGA-CACTGAAAGTCCACTCA-AGAAA------AA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55788796 261 -  71252344 TAGTAGGTATGGATGA----------------GTCATCGTTAAAGTGAATTGACTTTTCATGTGT----------------TCGTATCTTGGCTCTCTAAGTCCATCATGAGTTCCTG-GAG----------------------GCAGGAATAATGGGTGT--AAACTGG--------------------AAGCACAAT-------------AAATTGCTGA---GATCTGGGATG-----TGTCAGGCATGTGGCTAGCACAGCCAATCTTCCAT-GGGTGAGAGGTCAACATGCAGAGGGAAAGACCTATGTCAACGATTTGAGG----------ACCATGCGA-CAGTGAAAGTCCACTTG-AGAGA------AA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       92387 266 -   3089952 TAGTAGATGTGGATGA----------------GTCATTGTTAAAGTGaattgacttttcatgtgt----------------ttacatcttggctctctaagtccatcgtgagttcctg-gag----------------------gcaggaataatgGGTGC--AAACTGG--------------------AAGCTCAAT-------------AAATTGCCGA---GATCTGGGATGTGTGAGATCAGGCATGTGGCTAGCACAGTCAATATTTCAT-GCGTGAGAGGTCAACATGCAGAGGGAAAGACCTATGTCAACGTTTTGAGG----------ACCATGTGA-CACTGAAATTCCACTTG-AGAAA------AA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13292941 266 -  42888418 TAGTAGATGTGGATGA----------------GTCATTGTTAAAGTGaattgacttttcatgtgt----------------ttacatcttggctctctaagtccatcgtgagttcctg-gag----------------------gcaggaataatgGGCAC--AAACTGG--------------------AAGCTCAAT-------------AAATTGCTGA---GATCTGGGATGTGTGAGGTCAGGCATGTGGCTAGCACAGCCAATCTTCCAT-GCGTGAGAGGTCAACATGCAGAGGGAAAGACCTGTGTCGGTGATTTGAGG----------ACCATGCGA-CACTGAAAGTCCACTTG-AGAAA------AA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3139325 327 +   4132165 TGATAGATATCAATAA----------------GTCATTATTCAAGTGAACTGACTTTGTATGCATagtagaaatgccatagtta-acctctac----taacctctctacaagctcctt-aagttgacctaattttcatagacttacatgcactgcatgtac--aaattggtagagtaggcctccttccttatgttgaccacctgtatatgtgaaccagtttacacgatctgggtagAGTGATGTCAGACATGTGGCTAGTACAGTGTAACTTTCAT-ATATGAGAGGTGAGCAC---AAGTAAAGAGTCTGTGGCAACTATTTAAGG----------AGCAAAACC-CACCAGAAGTTGACTTG-AG-----------
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55580029 271 +  90702639 TCATATGTGTAG-TGATTttgttgttgttgttgttgttgttAAAGTAAGTTAGCTTTCGGGAGGT----------------TCAGGTCTTGGCTGCCTAAGTTCATGGGGAACTTCTT-AAA----------------------GTACAGGAGATAGACATCACAAAAAA--------------------AGCCTTAAC-------------CAGCTGGTGG---GCTTAAATAGAC-TAAGGTTAGGCCTATGACCAACAAAG--AATATTTTAT-GTTTGCAGGGTCAG-ATGGAAAGTGAAGGG--------ATTTATATTCAG----------GGGATGTAA--ACTAGAACTTGAAAGGCAGCAA------TC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14979793 272 +  74389097 CAGGCAGTCTTAATGA----------------GTCACTGTTAGAGTGAACTGACTTTTCAGGTAC----------------TCAGATCTGGGCTCCCTAACATGATGGCAAGCTCCTT-GAA----------------------GCAAGACTGATGGGCTC--GAGGCAG--------------------ATCCTTAGT-------------AAGTTACCGT---GGCCCCAGTAGAGTGAGGTGGTGCCTGTGGCTAGTACAGTATATCTCCTGC-ACATCAGAGGTGAACACAGTGCGGAAGAGGCTTATAGCTACTGTTCCAGG----------AGCATACAA-CACTGACAGTCCACTTC-AGAGAGACAGCAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2708237 267 +   3667625 TAGCAGGTGTTAATGA----------------ATCATTGTTCAAGTGAATTTGCTCTTCTTGTTT----------------TTAGATCTTGCTTCT-TGAGTTGATTAGGAACTCCTTCAAG----------------------GCAGGGGTGATGGGCAC--TTATCAG--------------------ATTCTCACA-------------TTGCTGCTGA---GGCCTTGATAGAGTGAGGTCCAGTATGTGGCTTGTGTAGTATATCTTCCATAACACAACAGAT-----------GTTATGGGCCTGTGCCAACCACCTGAGGTATCACAGTAAGCATACAAACACTGAAAGTCAACTTG-AGAAT------GA
i dasNov3.JH567306         C 0 I 9637
e micMur3.chr12             60614591 779 + 108143057 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I

a score=70101.000000
s hg38.chr5_KI270796v1_alt    160506 7 +    172708 --GAGGGTT
s panTro5.chr5             125274629 7 + 181907262 --GAGGGTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126605443 7 + 183735486 --GAGTGTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1797255 7 +   8933513 --GAGTGTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139928205 7 + 163208435 --GAGGGTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122913685 7 + 180051392 --GAGGGTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124337304 7 + 181584905 --GAGGGTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16335970 7 +  18395747 --GAGGGTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5348370 7 +  26952557 --GAGGGTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28448200 7 +  82825804 --GAGGGTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4118565 7 -   4237731 --GAGGGTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      387391 7 -   1175262 --GAGGGTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123748384 7 - 204313951 --GAGAGTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55789057 7 -  71252344 --GAGGGTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       92653 7 -   3089952 --GAGGGTC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13293207 7 -  42888418 --GAGGGTT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3139652 5 +   4132165 --GAGTG--
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55580300 7 +  90702639 --AGGAGCT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14980065 7 +  74389097 --GAGGGGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2718141 7 +   3667625 GGGAGTG--
i dasNov3.JH567306         I 9637 C 0
e micMur3.chr12             60614591 779 + 108143057 I
e proCoq1.NW_012155062v1     3648071 2152 +  11683526 I

a score=543217.000000
s hg38.chr5_KI270796v1_alt    160513 42 +    172708 GTTTTTAAAAGA---GAACC-----TGTAGGT-GAC--ACTCAT----ATTGACATG
s panTro5.chr5             125274636 43 + 181907262 GTTTTTAAAAGA---GAACC-----TGTAGGTAGAC--ACTCAT----ATTGACATG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126605450 42 + 183735486 GTTTTTAAAAGA---GAACC-----TGTAGGT-GAC--ACTCAT----ATTGACATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1797262 42 +   8933513 GTTTTCAAAAGA---GAACC-----TGTAGGT-GAC--ACTCAT----ATTGACATG
i gorGor5.CYUI01015135v1   C 0 I 8
s nomLeu3.chr2             139928212 42 + 163208435 GTTTTCAAAAGA---GAACC-----TGTAGGT-GAC--ACTCTT----ATTGACATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122913692 42 + 180051392 GTTTTTAAAAGA---GAACC-----TGTAGGT-GAC--ACTCAT----ATTGACATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124337311 42 + 181584905 GTTTTTAAAAGA---GAACC-----TGTAGGT-GAC--ACTCAT----ATTGACATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16335977 42 +  18395747 GTTTTTAAAAGA---GAACC-----TGTAGGT-GAC--ACTCAT----ATTGACATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5348377 42 +  26952557 GTTTTTAAAAGA---GAACC-----TGTAGGT-GAC--ACTCAT----ATTGACATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28448207 45 +  82825804 GTTTTTAAAAGAAGGGAATC-----TGTAGGT-GAC--ACTCAT----ATTGACATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4118572 42 -   4237731 GCTTTTAAAAGA---GAACC-----TGTAGGT-GAC--ACTCAT----ATTGACATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      387398 42 -   1175262 GTTTTTAAAAGA---GAACC-----TGTAGGT-GAC--ACTCAT----ATTGACATG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123748391 42 - 204313951 GTTTTTAAAAGA---GACCT-----TGTAGTT-GAC--ACTCAT----ACTGACATG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55789064 42 -  71252344 GTTTTTAAAAGA---GAACC-----TGTAGGT-GAC--ATTCAT----ACTGACATG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       92660 44 -   3089952 GTTTTTAAAAGA---GAAGC-----TGTAGGT-CACCTACGCAT----ACTGCCATG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13293214 42 -  42888418 GTTTTTAAAAGA---GAACC-----TGTAGGT-GAC--ACTCAT----ACTGACATG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3650223 42 +  11683526 GTTTTTAAAAGA---CAGCC-----TGTAAGT-GAC--ACTCAC----AATGACATG
i proCoq1.NW_012155062v1   I 2152 I 31
s otoGar3.GL873679           3139657 51 +   4132165 GTTTTAAAAAGA---CAGACAGTTTGGTAAGT-GAC--ACTCACTCATATGGACATG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55580307 37 +  90702639 -----AAAAACA---GAGCC-----TGTAAGT-GAG--GTCGAT----GCTGATATA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14980072 42 +  74389097 GTTTTTAAAAGA---GAACC-----TGGTAGT-GAA--ACTCGT----ACTCATATG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2718148 39 +   3667625 ATTTTTTAAAGC---TTATT-----T---AAT-GAG--TTTCAT----GCTTTTAAG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60614591 779 + 108143057 I

a score=52692.000000
s hg38.chr5_KI270796v1_alt    160555 5 +    172708 CCATT
s panTro5.chr5             125274679 5 + 181907262 CCATC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126605492 5 + 183735486 CCATC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1797312 5 +   8933513 CCATC
i gorGor5.CYUI01015135v1   I 8 C 0
s nomLeu3.chr2             139928254 5 + 163208435 CCATC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122913734 5 + 180051392 TCATT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124337353 5 + 181584905 TCATT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16336019 5 +  18395747 TCATT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5348419 5 +  26952557 TCATT
i cerAty1.NW_012002512v1   C 0 I 1
s chlSab2.chr23             28448252 5 +  82825804 TCATT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4118614 5 -   4237731 TCATT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      387440 5 -   1175262 TCATT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123748433 5 - 204313951 CCATT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55789106 5 -  71252344 CCATT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       92704 5 -   3089952 CCATT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13293256 5 -  42888418 CCATT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3139708 5 +   4132165 TCACT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55580344 5 +  90702639 CTGTG
i mm10.chr18               C 0 I 1
s canFam3.chr11             14980114 5 +  74389097 CTATT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2718187 5 +   3667625 CCCTT
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60614591 779 + 108143057 I
e proCoq1.NW_012155062v1     3650265 31 +  11683526 I

a score=251148.000000
s hg38.chr5_KI270796v1_alt    160560 29 +    172708 GTTCTTGGCCTTC---------------------TTT-AAAGTAGATTTTG
s panTro5.chr5             125274684 50 + 181907262 GTTCTTGGCCTTCTTTAAAGTACATTTTGATTCTTTT-AAAGTAGATTTTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126605497 50 + 183735486 GTTCTTGGCCTTCTTTAAAGTAGATTTTGATTCTTTT-GAAGTAGATTTTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1797317 50 +   8933513 GTTCTTGGCCTTCTTTAAGGTAGATTTTGATTCTTTT-AAAGTAGATTTTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139928259 24 + 163208435 GTTCTTGGCCTTCTT---------------------------TAGATTTTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122913739 20 + 180051392 GTT---------C---------------------TTT-GAAGTAGATTTTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124337358 29 + 181584905 GTTCTTGGCCTCC---------------------TTT-GAAGTAGATTTTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16336024 29 +  18395747 GTTCTTGGCCTCC---------------------TTT-GAAGTAGATTTTG
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28448257 29 +  82825804 GTTCTTGGCCTCC---------------------TTT-GAAGTAGATTTTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4118619 29 -   4237731 GTTCTTGGCCTCC---------------------TTT-GAAGTAGATTTTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      387445 29 -   1175262 GTTCTTGGCCTCC---------------------TTT-AAAGTAGATTTTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123748438 29 - 204313951 GTTCTTGGCCTTC---------------------TTT-AAAGTAGATTTTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55789111 29 -  71252344 GTTCTTGGCCTTC---------------------TTT-AAAGTAGATTTTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       92709 29 -   3089952 GCTCTTGGCCTTC---------------------TTT-AAAGTAGATTTTG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13293261 29 -  42888418 GTTCTTGGCCTTC---------------------TTT-AAAGTAGATTTTG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3139713 29 +   4132165 -CACCTGGCCTTC---------------------TTTAAAAATAGGCTTTT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55580350 28 +  90702639 GTTCA-GGCCTTC---------------------TTT-AAAATAAATGTAT
i mm10.chr18               I 1 C 0
s canFam3.chr11             14980119 29 +  74389097 TATCCTGGCCTTC---------------------TTT-CATGTAGATTTTG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2718192 29 +   3667625 TGTCTTTGATTTC---------------------TTT-AATGTAGATTTTG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60614591 779 + 108143057 I
e proCoq1.NW_012155062v1     3650265 31 +  11683526 I
e cerAty1.NW_012002512v1     5348424  1 +  26952557 I

a score=434384.000000
s hg38.chr5_KI270796v1_alt    160589 33 +    172708 ATTCTTCAGCTTGGAAAGAAAGGGATATTACTC
s panTro5.chr5             125274734 33 + 181907262 ATTCTTCAGCTTGGAAAGACAGGGATATTACTC
i panTro5.chr5             C 0 I 4
s panPan2.chr5             126605547 33 + 183735486 ATTCTTCAGCTTGGAAAGACAGGGATATTACTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1797367 33 +   8933513 ATTCTTCAGCTTGGAAAGACAGGGATATTACTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139928283 33 + 163208435 ATTATTCAGCTTGGAAAGACAGAGATATTACTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122913759 33 + 180051392 ATTCTTCAGCTTGGAAAAACAGGGATATTACTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124337387 33 + 181584905 ATTCTTCAGCTTGGAAAAACAGGGATATTACTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16336053 33 +  18395747 ATTCTTCAGCTTGGAAAAACAGGGATATTACTC
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28448286 33 +  82825804 ATTCTTCAGCTTGGAAAAACAGGGATATTACTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4118648 33 -   4237731 ATTCTTCAGCTTGGAAAAACAGGGATATTACTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      387474 33 -   1175262 ATTCTTCAGCTTGGAAAAACAGGGATATTACTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123748467 33 - 204313951 ATTCTTCAGCTTGGAAAGACAGGGATATTACTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55789140 33 -  71252344 ATTCTTCAGCTTGGAAAGACAGGGATATTACTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       92738 33 -   3089952 ATTCTTCAGCTTGGAAAGACAGGGATATTACTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13293290 33 -  42888418 ATTCTTCAGCTTGGAAAGACAGGGATATTACTT
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3650296 33 +  11683526 ATTCTCCAGCTCTGAAAGAAAGGGATATTACTC
i proCoq1.NW_012155062v1   I 31 I 198
s otoGar3.GL873679           3139742 33 +   4132165 ATTTGCCATCTTTGAAAGAAAAGGATAATCTTC
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55580378 31 +  90702639 -ATCTCCAGCTAGGAAAGGAAGGAATACATCT-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14980148 31 +  74389097 ATTCTCCAACTC--AAAGAAAGGGATATTACTC
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2718221 33 +   3667625 AATCTCCAATTTTGACAGAAAGAGATATTTCTC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60614591 779 + 108143057 I
e cerAty1.NW_012002512v1     5348424  1 +  26952557 I

a score=1592906.000000
s hg38.chr5_KI270796v1_alt    160622 177 +    172708 TAATTTTCATGATGAATTGGAATCGGCAAGCCTCAAAGTTCTAACAAAAGA-GGGATGCAGAA-Ag-----aactctttgcagtttcccagtgatatcatgcca---gtctat------gcctccaaggc------tttgcccaattccttctgc---ttaaa----------------------at--gccctt-------cctccctGG------------TGAGCCTCTAATAAA---CATCTGT
s panTro5.chr5             125274771 174 + 181907262 TAATTTTCATGATGAATTGGAATAGGCAAGCCTCAAAGTTCTAACAAAAGA-GGGATGCAGAA-Ag-----aactctttgcagtttcccagtgatatcatgcca---ttctat------gcctccaagac------tttgcccaattccttctgc---ttaaa----------------------at--gccctt-------cctccctGG------------TGAGCCTC---TAAA---CATCTGT
i panTro5.chr5             I 4 C 0
s panPan2.chr5             126605580 174 + 183735486 TAATTTTCATGATGAATTGGAATCGGCAAGCCTCAAAGTTCTAACAAAAGA-GGGATGCAGAA-Ag-----aactctttgcagtttcccagtgatatcatgcca---ttctat------gcctccaaggc------tttgcccaattccttctgc---ttaaa----------------------at--gccctt-------cctccctGA------------TGAGCCTC---TAAA---CATCTGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1797400 174 +   8933513 TAATTTTCATGACGAATTGGAATCGGCAAGCCTTAAAGTTCTAACAAAAGA-GGGATGCAGAA-AG-----AActgtttgcagtttcccagtgatatcatgcca---ttctat------gcctccaaggc------tttgcccaattccttctgc---ttaaa----------------------at--gccctt-------cctcCCTGG------------TGAGCCTC---TAAA---CATCTGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139928316 174 + 163208435 TAATTTTCATGATGAATTGGAATTGGCAAGCCTCAAAGTTCTAACGAAAGA-GGGATGCAGAA-Ag-----aactctttgcggtttcccagtgatatcatgcca---ttccac------gcctccaaggc------tttgcctgattccttctgc---ttaaa----------------------at--gtcctt-------cctccctgg------------tgagcctc---taaa---catcTGT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122913792 177 + 180051392 TAATTTTCATGACGACATGGAATCGGCAAGCCTCAAAGTTCTAATGAAAGA-GGGATGCAGAA-AGAGA-TAACTCTTTGCGGTTTCCCAGTGATATCATGCCA---TTGCAT------CCCTCCAAGGC------TTTGCCTGATTCCTTCTGC----TAAA----------------------AT--GCCCTT-------CCTCCCTAG------------TGAGCCTC---TAAA---CATCTGT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124337420 177 + 181584905 TAATTTTCATGACGACATGGAATCGGCAAGCCTCAAAGTTCTAATGAAAGA-GGGATGCAGAA-AGAGA-TAACTCTTTGCGGTTTCCCAGTGATATCATGCCA---TTGCAT------CCCTCCAAGGC------TTTGCCTGATTCCTTCTGC----TAAA----------------------AT--GCCCTT-------CCTCCCTAG------------TGAGCCTC---TAAA---CATCTGT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16336086 177 +  18395747 TAATTTTCATGACGACATGGAATCGGCAAGCCTCAAAGTTCTAATGAAAGA-GGGATGCAGAA-AGAGA-TAACTCTTTGCGGTTTCCCAGTGATATCATGCCA---TTGCAT------CCCTCCAAGGC------TTTGCCTGATTCCTTCTGC----TAAA----------------------AT--GCCCTT-------CCTCCCTAG------------TGAGCCTC---TAAA---CATCTGT
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28448319 177 +  82825804 TAATTTTCATGACGACTTGGAATCGACAAGCCTCAAAGTTCTAATGAAAGA-GGGATGCAGAA-AGAGA-GAACTCTTTGCGGTTTCCTAGTGATATCATGCCA---TTGCAT------CCCTCCAAGGC------TTTGCCTGATTCCTTCTGC----TAAA----------------------AT--GCCCTT-------CCTCACTAG------------TGAGCCTC---TAAA---CATCTGT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4118681 177 -   4237731 TAATTTTCATGACGACTTGGAATCGGCAAGCCTCAAAGTTCTAATGAAAGA-GGGATGCAGAA-AGAGA-gaactctttgcggtttcccagtgacatcatgcca---ttgcgt------ccctccaaggc------tttgcctgattccttctgc----taaa----------------------at--gccctt-------cctccctAG------------TGAGCCTC---TAAA---CATCTGT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      387507 178 -   1175262 TAATTTTCATGATGACTTGGAATCGGCAAGCCTCAAAGTTCTAACGAAAGA-GGGATGCAGAA-AGaca-gaactctttgcggtttcccagtgatatcatgcca---ttgcat------gcctccaaggc------tttgactgattccttctgc---ttaaa----------------------at--gccctt-------cctccctAG------------TGAGCCTC---TAAA---CATCTGT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123748500 198 - 204313951 TAATTTTCATGACGACTTGGAATCGGCTAGCCTCAAAACTCTAATGAAAGA-GGGATGCAGAA---AGA-GAATGCTTCGCGGTTTCCCAGTGATATCATGCCA---TTCCAT------GCCAACACGGC------TTTGCCTGATTCCTTCTGA---TTAAAAGGACAGAAGGCGTCTGTTTAGAC--GCCTTT-------CCTCCCTGG------------TGAGCGTC---TAAA---CATCTAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55789173 176 -  71252344 TAATTTTAATGACGACTTGGAATCGGCTAGTCTCAAAACTCTAATGAAAGA-GGGATGCAGAA---AGA-GAATGCTTTGCAGTTTCCCAGTGATATCATGCCA---TTCCAT------GCCAGCATGGC------TTTGCCTGATTCCTTCTGA---TTAAA----------------------AT--ACCCTT-------CTTCCCTGG------------TGAGCCTC---TAAA---CATCTGT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       92771 178 -   3089952 TAATTTTCATGACAACTTAGAATTGGCTAGTCTCAAAACACTAATGAAAGA-AGGATGCAGAA-AGAGA-GAATGCTTTGCAGTTTCCCAGTGATATCATGCCA---TTCCAT------GCCAACATGGC------TTTGCCTGATTCCTTCTGA---TTAAA----------------------AT--GCCCTT-------CCTCCCTGG------------TGAACCTC---TAAA---CATCTAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13293323 178 -  42888418 TAATTTTCATGATGACTTGGAATCGGCTAATCTCAAAACTCTAATGAAAGA-GGGATGCAGAA-AGAGA-GAATGCTTTGCAGTTTCCCAGTGATATCATGCCA---CTCCAT------GCCAACATGAC------TTTGCCTGATTCCTTCTGA---TTAAA----------------------AT--GCCCTT-------CCTCCCTGG------------TGAGCCTC---TAAA---CATCTAT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3139775 129 +   4132165 AAACTATCATGAAAACTTGGAAATGGCAGGCCTCAGCATTCTAAAGAAAG----------------------------------------------------CA---TTCCAC------GACTCCACAAC------TTTGTCTGGTGTCTTCTGC---CTAAG----------------------AT--GCTCTT-------CCTCACTGG------------CAAGCTTC---TAAA---CGTCTGC
i otoGar3.GL873679         C 0 I 15
s mm10.chr18                55580409 174 +  90702639 --------AGGACAATGTGGAGCTAAAAAACATCAGTATTCCAAAGAAAG---GGATGCTAAGCAAAGA-GTACTCTTC-TAGCTGCCTAGTGGGGTTCTCCCACAGTTCTACAAGCTGGCCTAAAATGCTATCCTTCTGTCTTGTTCCCTCTAAACCTTAAA----------------------ACTGGTCAAT-------GTTTTCTAG------------TGAGC--------------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14980179 181 +  74389097 AAGCTTTTAGGACAGCTTGGAGTGGTCAAGCCTCAGCACTCAGAAGACAGA-GGAAAGCAGGA-AAGGAGGAACTCTCTGCAGTTGTCCAGTGACATCTGGCCA--------C------ATCTCCACGGC------TTTGCCTGATTCCACCTGC---CTAAA----------------------AT--ACCCTTTCTTCTCCCTCTCCAG------------CAAACCTC---TAAA---TATCTAC
i canFam3.chr11            C 0 I 15
s dasNov3.JH567306           2718254 198 +   3667625 AAGTCTTTAAGACAACTTGGAATTGGCAAGCCACAGCACTGAACAGTAACACGGGATGTAGGA-AG-----AACACTTGGCAGTGTCTGAATGACAGCATTCCA---TGCCAC------Acctccacagc------tttgtgtgattccttctgc--cctaaa----------------------at--gttctttcatgttcctctctgggaatacctgtgctcatcctt---caaggctcatctGC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60614591 779 + 108143057 I
e proCoq1.NW_012155062v1     3650329 198 +  11683526 I
e cerAty1.NW_012002512v1     5348424   1 +  26952557 I

a score=810059.000000
s hg38.chr5_KI270796v1_alt    160799 65 +    172708 AAGAAGGCTTCCAGCCTGGCCTTAG-GTTTCTTCATATCATACTGTACTTTTCATATTAATA------------------------GTTA
s panTro5.chr5             125274945 65 + 181907262 GAGAAGGCTTCCAGCCTGGCCTTAG-GTTTCTTCATATCATACTGTACTTTTCATATTAATA------------------------GTTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126605754 65 + 183735486 AAGAAGGCTTCCAGCCTGGCCTTAG-GTTTCTTCATATCATACTGTACTTTTCATATTAATA------------------------GTTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1797574 65 +   8933513 AAGAAGGCTTCCAGCCTGGCCTTAG-GTTTCTTCATATCATACTGTACTTTTCATATTAATA------------------------GTTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139928490 65 + 163208435 AAGAAGCCTTCCAGCCTGGCCTCAG-GTTTCTTCATATCATACTGTACTTTTCATATTAATA------------------------GTTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122913969 68 + 180051392 AAGAAGCCTTCCAGCCGGGCCTCAG-GTTTCTTCATATCATACTGTACTTTTCATATTAATA---------------------GTTGTTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124337597 65 + 181584905 AAGAAGCCTTCCAGCCGGGCCTCAA-GTTTCTTCATATCATACTGTACTTTTCATATTAATA------------------------GTTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16336263 65 +  18395747 AAGAAGCCTTCCAGCCGGGCCTCAG-GTTTCTTCATATCATACTGTACTTTTCATATTAATA------------------------GTTA
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28448496 65 +  82825804 AAGAAGCCTTCCAGCCAGGCCTCAG-GTTTCTTCATATCATACTGTACTTTTCATATTAATA------------------------GTTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4118858 65 -   4237731 AAGAAGCCTTCCAGCCGGGCCTCAG-GTTTCTTCATATCATACTGTACTTTTCATATTAATA------------------------GTTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      387685 65 -   1175262 AAGAAGCCTTCCAGCCGGGCCTCAG-GTTTCTTCATATCATACTGTACTTTTCATATTAATA------------------------GTTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123748698 65 - 204313951 AAGAAGAGTCCTAGCCTGGCCTCAG-GTTTCTTCATATCTTACTGTACTTTTCATATTGATA------------------------GTTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55789349 65 -  71252344 AAGAAGCCTCCTAGCCTGGCCTCAG-GCTTCTTCATATCATACTGTACTTTTCATATTGATA------------------------GTTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       92949 65 -   3089952 AAGAAGCCTCCTAGCCTGGCCTCAG-GTTTCTTCATATCATACTGTACTTTTCATATTGATA------------------------GTTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13293501 65 -  42888418 AAGAAGCCTCCTAGCCTGGCCTCAG-GTTTCTTCATATCATACTGTACTTTTCATATTGATA------------------------GTTA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3650527 65 +  11683526 AAGAAGCCTCCTAGCCTGGGTTCAG-GTTTCTTCATATCACACCGTGCTTTTTATATTATTA------------------------GTTA
i proCoq1.NW_012155062v1   I 198 C 0
s otoGar3.GL873679           3139919 89 +   4132165 AAGAAGCCGCCCAGCCTGGGTTCTG-GTTTCATCACATCACTCTGTGCTTTTCATATTATTACAACTATAGAACTATAGTTATATTATTA
i otoGar3.GL873679         I 15 C 0
s mm10.chr18                55580583 55 +  90702639 -----AGCTACCAACCTTAGTTTAT-GTGTCTTCACATAATGTAG-ACTTTTCTGTTTAGTA----------------------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14980375 65 +  74389097 AAGAAGCCTCCCAGCCTGGGTTCAG-GGTTCTTCACATGACACTGTACTTTTCATATTATGA------------------------GCTA
i canFam3.chr11            I 15 C 0
s dasNov3.JH567306           2718452 60 +   3667625 AATAAGCCTCCCAGCCTGGATTCAATATTTCTTCATATCATGCTA------TCATATCTTTA------------------------ATTA
i dasNov3.JH567306         C 0 I 2453
e micMur3.chr12             60614591 779 + 108143057 I
e cerAty1.NW_012002512v1     5348424  1 +  26952557 I

a score=96976.000000
s hg38.chr5_KI270796v1_alt    160864 8 +    172708 AATATTGA
s panTro5.chr5             125275010 8 + 181907262 AATATTGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126605819 8 + 183735486 AATATTGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1797639 8 +   8933513 AATATTGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139928555 8 + 163208435 AATATTGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122914037 8 + 180051392 AATATTGA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124337662 8 + 181584905 AATATTGA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16336328 8 +  18395747 AATATTGA
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28448561 8 +  82825804 AATATTGA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4118923 8 -   4237731 AATATTGA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      387750 8 -   1175262 AATATTGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123748763 8 - 204313951 AATATTGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55789414 8 -  71252344 AATATTGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       93014 8 -   3089952 AATATTGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13293566 8 -  42888418 AATATTGA
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3650592 8 +  11683526 ACTATAGA
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3140008 8 +   4132165 ACTAGTGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55580638 8 +  90702639 AATATGGG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14980440 7 +  74389097 AATAT-GA
i canFam3.chr11            C 0 C 0
e micMur3.chr12             60614591 779 + 108143057 I
e cerAty1.NW_012002512v1     5348424 1 +  26952557 I
e dasNov3.JH567306           2718512 2453 +   3667625 I

a score=744699.000000
s hg38.chr5_KI270796v1_alt    160872 61 +    172708 AAGTAAttctgcctctagaattgat-gactagc------ttatattgagccaactgttctatcaagaa
s panTro5.chr5             125275018 61 + 181907262 AAGTAAttctgcctctagaattgat-gactagc------ttatattgagccaactgttctatcaagaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126605827 61 + 183735486 AAGTAATTCTGCCTGTAGAATTGAT-gactagc------ttatattgagccaactgttctatcaagaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1797647 61 +   8933513 AAGTAAttctgcctctagaattgat-gactagc------ttatattgagccaactgttctatcaagaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139928563 61 + 163208435 AAGTAAttctgcctctagaattgat-gactagc------ttatattgagccaaatgttctatcaagaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122914045 61 + 180051392 AGGTAAttctgcctctagaattgatagactagc------ttatattgagccaatggttc-atgaagaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124337670 61 + 181584905 AGGTAAttctgcctctagaattgatagactagc------ttatattgagccaatggttc-atgaagaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16336336 61 +  18395747 AGGTAAttctgcctctagaattgatagactagc------ttatattgagccaatggttc-atgaagaa
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28448569 61 +  82825804 CGGTAAttctgcctctagaattgatagactagc------ttatattgagccaacggttc-atgaagaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4118931 61 -   4237731 AGGTAAttctgcctctagaattgatagactagc------ttatattgagccaacggttc-atgaagaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      387758 61 -   1175262 AGGTAAttctgcctctagaattgatagactagc------ttatattgagccaatggttc-acgaagaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123748771 62 - 204313951 AACTAAttctgcctctagaattgatagactagc------ttatattgagtcaacttttctatcaagaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55789422 62 -  71252344 AACTAAttctgcctctagaattgatagactagc------ttatattgagccaacttttctatcaagaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       93022 62 -   3089952 AACTAAttctgcctctagaattgatagactagc------ttatagtgagccaacttttctatcaagaa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13293574 62 -  42888418 AACTAAttctgcctctagaattgatagactagc------ttatattgagccaacttttctatcaagaa
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3650600 62 +  11683526 AAGTAAttctgcctctggaattgatggagcagc------tcctatcgagccaactgtgctatcaagaa
i proCoq1.NW_012155062v1   C 0 I 53
s otoGar3.GL873679           3140016 62 +   4132165 AAGTAAttctgcctctggacttgatggaccagc------tcctattgagccaactgtcccattgagaa
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55580646 62 +  90702639 GAGGTATTCTGCCTTTAGAATTGATACTctagc------tcatattaagccaattgtcttactgagaa
i mm10.chr18               C 0 C 0
s canFam3.chr11             14980447 61 +  74389097 GACAGATTCTCCCCCTGGA-Ttgatggactcac------tcatatggagccaatcatcctaccaagaa
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2720965 68 +   3667625 aaGCacttctgcctctggatttgatgggctagctattaataatatagagtgaattatcctatcaagaa
i dasNov3.JH567306         I 2453 C 0
e micMur3.chr12             60614591 779 + 108143057 I
e cerAty1.NW_012002512v1     5348424  1 +  26952557 I

a score=469862.000000
s hg38.chr5_KI270796v1_alt    160933 55 +    172708 taactggaagagt---------------taga-ttaa-------------aaaaat----a----ccttttg---ttctaagacactgtggagcc
s panTro5.chr5             125275079 55 + 181907262 taacaggaagagt---------------taga-ttaa-------------aaaaat----a----ccttttg---ttctaagacactgtggagcc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126605888 55 + 183735486 taagaggaagagt---------------taga-ttta-------------aaaaat----a----ccttttg---ttctaagacactgtggagcc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1797708 55 +   8933513 taacaggaagagt---------------taga-ttaa-------------aaaaat----a----ccttttg---ttctgagacactgtggagcc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139928624 55 + 163208435 taacaggaagagt---------------taga-ttaa-------------aaaaat----a----tcttttg---ttctaagacattgtggagca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122914106 55 + 180051392 taacaggaagagt---------------taga-ttta-------------aaaaat----a----tcttttg---ttctaacacactgtggagcg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124337731 55 + 181584905 taacaggaagagt---------------taga-ttaa-------------aaaaat----a----tcttttg---ttctaacacactgtggagcg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16336397 55 +  18395747 taacaggaagagt---------------taga-ttaa-------------aaaaat----a----tcttttg---ttctaacacactgtggagcg
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28448630 56 +  82825804 taacaggaagagt---------------tagatttaa-------------aaaaat----a----tcttttg---ttctaacacactgtggagcg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4118992 55 -   4237731 taacaggaagagt---------------taga-taaa-------------aaaaat----a----tcttttg---ttctaacacactgtggagcg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      387819 54 -   1175262 taacaggaagagt---------------taga-ttaa-------------aaaaa-----a----tcttttg---ttctaacacactgtggagcg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123748833 55 - 204313951 taacaggaagagc---------------tagc-ttta-------------aaaaat----a----ccttttg---ttctaaggcacagtggagtg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55789484 55 -  71252344 taacaggaagaga---------------tagc-tgta-------------aaatat----a----ccttttg---ttctaaggcactgtggagtg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       93084 55 -   3089952 taacaggaagaac---------------tagc-ttta-------------aaatat----a----ccttttg---ttctaagccactgtggagtg
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13293636 55 -  42888418 taacaggaagagc---------------tagt-ttga-------------aaaaat----a----ccttttg---ttctaaggcactgtggagtg
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3140078 58 +   4132165 taactagaagagc---------------taga-taaa-------------aagcacaacaa----ccttctg---cctgaaaacaccg-ggagct
i otoGar3.GL873679         C 0 I 4
s mm10.chr18                55580708 58 +  90702639 taatgggaacagc---------------taga-ttaa-------------aaatac----aaaacccatctgaatgtctgaggaactaccg----
i mm10.chr18               C 0 C 0
s canFam3.chr11             14980508 61 +  74389097 taactagaagagc---------------taga-tgaaaaccaatcaaatgaaagaa----a----cc---tg---tttgaagagactccca----
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2721033 66 +   3667625 taactagaagtgtagaataagaaacaaatata-ctaa-------------aaacat----a----tctggcg-------aaggcactgaagagct
i dasNov3.JH567306         C 0 I 4
e micMur3.chr12             60614591 779 + 108143057 I
e proCoq1.NW_012155062v1     3650662 53 +  11683526 I
e cerAty1.NW_012002512v1     5348424  1 +  26952557 I

a score=82383.000000
s hg38.chr5_KI270796v1_alt    160988 5 +    172708 aggca
s panTro5.chr5             125275134 5 + 181907262 aggca
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126605943 5 + 183735486 aggca
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1797763 5 +   8933513 aggca
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139928679 5 + 163208435 aggca
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122914161 5 + 180051392 aggca
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124337786 5 + 181584905 aggca
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16336452 5 +  18395747 aggca
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28448686 5 +  82825804 aggca
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4119047 5 -   4237731 aggca
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      387873 5 -   1175262 aggca
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123748888 5 - 204313951 aggca
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55789539 5 -  71252344 aggca
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       93139 5 -   3089952 aggca
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13293691 5 -  42888418 aggca
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3650715 5 +  11683526 aggca
i proCoq1.NW_012155062v1   I 53 C 0
s otoGar3.GL873679           3140140 5 +   4132165 aggca
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55580766 5 +  90702639 aaaca
i mm10.chr18               C 0 C 0
s canFam3.chr11             14980569 5 +  74389097 agaca
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2721103 5 +   3667625 agaca
i dasNov3.JH567306         I 4 C 0
e micMur3.chr12             60614591 779 + 108143057 I
e cerAty1.NW_012002512v1     5348424 1 +  26952557 I

a score=3765212.000000
s hg38.chr5_KI270796v1_alt    160993 259 +    172708 gcaaggactggcagggt--aaagggactctggagaaggaaaacccattaaggtgaacatgacattttgcac-----tgcttttccctttggaa---------catttgccaatt--------------------------Tataggtaataaagctctac--aaaaagtaaggagattataaatacaaaattaatgctattggttacccttgaggaaaaggcagggtgtcttgagatagggcataaagg--aggttttt--------------------aaagaacagac----tgtattttattttttaaactgg---------------------------------------------------attgtgattagat
s panTro5.chr5             125275139 259 + 181907262 gcaaggactggcagggt--aaagggactctggagaaggaaaacccattaaggtgaacatgacattttgcac-----tgcttttccctttggaa---------catttgccaatt--------------------------Tataggtaataaagctctac--aaaaagtaaggagattataaatacaaaattaatgctattggttacccttgaggaaaaggcagggtgtcttgagatagggcataaagg--aggttttt--------------------aaagaacagac----tgtattttattttttaaactgg---------------------------------------------------attgtgattagat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126605948 258 + 183735486 gcaaggactggcagggt--aaagggactctggagaaggaaaacccattaaggtgaacatgacattttgcac-----tgcttttccctttggaa---------catttgccaatt--------------------------Tataggtaataaagctctac--aaaaagtaaggagattataaatacaaaattaatgctattggttacccttgaggaaaaggcagggtgtcttgagatagggcataaagg--aggttttt--------------------aaagaacagac----tgtatttta-tttttaaactgg---------------------------------------------------attgtgattagat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1797768 285 +   8933513 gcaaggactggcagggt--aaagggactctggagaaggaaaacccattaaggtgaacatgacattttgcac-----tgcttttccctttggaa---------catttgccaattTATAGATAATAAAGCTCTACAAAAAGTATAGATAATAAAGCTCTAC--AAAAAGTAAGGAGATTATAAATACAAAATTAATGCTATTGGTTATCCTTGAGGAAAAGGCAGGGTGTCTTGAGATAGGGCATAAAGG--AGGTTTTT--------------------AAAGAACAGAC----TGTATTTTATTTTTTAAACTGG---------------------------------------------------ATTGTGATTAGAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139928684 261 + 163208435 gcaaggactggcagggtaaaaagggactctggagaaggaaaacccattaaggtgaacatgatattttgcac-----tgcttttccctttggaa---------catttaccagtt--------------------------Tataggtaataaagctctac--aaaaagtaaggagattataaatacaaaattaatgctattggttacccttgaggaaaaggcagggtgtcttgagatagggcacaaagg--aggttttt--------------------aaagaacaggc----tgtattttgttttaaaaactgg---------------------------------------------------attgtgattagat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122914166 262 + 180051392 gcaaggactggcagggt--aaagggactctggagaaggaaaacccattgaggtgaacatgacattttgcactgctttgcttttccctttggaa---------catttgccaact--------------------------tataggtaataaagctctac--aaaaagtaaggagattataaatacaaaattaatgctattggttaccctggaggaaaaggcagggtgtcttgagatagggcataaagg--aggttttt--------------------aaagaacagac----tg--ttttattttttaaactgg---------------------------------------------------attgttattagat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124337791 262 + 181584905 gcaaggactggcagggt--aaagggactctggagaaggaaaacccattgaggtgaacatgacattttgcactgctttgcttttccctttggaa---------catttgccaact--------------------------tataggtaataaagctctac--acaaagtaaggagattataaatacaaaattaatgctattggttaccctggaggaaaaggcagggtgtcttgagatagggcataaagg--aggttttt--------------------aaagaacagac----tg--ttttattttttaaactgg---------------------------------------------------attgttattagat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16336457 262 +  18395747 gcaaggactggcagggt--aaagggactctggagaaggaaaacccattgaggtgaacatgacattttgcactgctttgcttttccctttggaa---------catttgccaact--------------------------tataggtaataaagctctac--aaaaagtaaggagattataaatacaaaattaatgctattggttaccctggaggaaaaggcagggtgtcttgagatagggcataaagg--aggttttt--------------------aaagaacagac----tg--ttttattttttaaactgg---------------------------------------------------attgttattagat
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28448691 255 +  82825804 gcaaggactggcagggt--aaagggactctggagaaggaaaacccattaaggtgaacatgacattttgcac-----tgcttttccctttggaa---------catttgccaact--------------------------Tataggtaataaagctctag--aaaaagtaaggagattataaatacaaaattaatgctattgattaccctggaggaaaaggcaggatgtcttgagatagggcacaaagg--aggttttt--------------------aaagaacagac--------tcttattttttaaactgg---------------------------------------------------attgttattagat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4119052 257 -   4237731 gcaaagactggcagggt--aaagggactctggagaaggaaaacccattaaggtgaacatgacattttgcac-----tgcttttccctttggaa---------catttgccaact--------------------------Tataggtaataaagctctac--aaaaagtaaggagattataaatacaaaattaatactattggttaccctggaggaaaaggcagggtgtcttgagatagggcataaagg--aggttttt--------------------aaagaacagac----tg--ttttattttttaaactgg---------------------------------------------------attgttaatagat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      387878 261 -   1175262 gcaaggactggcagggt--aaagagactctggagaaggaaaacccattaaggtgaacatgacgttttgcac-----tgcttttccctttggaa---------catttgccaatt--------------------------Tataggtaataaagctctac--agaaagtaaggagagtataaatacaaaattaatgctattggttaccctggaggaaaaggcaggatgtcttgagatagggcacaaagg--aggttttt--------------------aaagaacagactgtttg--ttttattttttaaactgg---------------------------------------------------attgtgattagat
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123748893 259 - 204313951 gcaaggactggcagggt--aaagggactctggagaaggaaaacccattaaggtgaacatgacattttgcac-----tgctattccctttggaa---------catgtgccaatt--------------------------Tataggtgataaagctctac--aaaaagtaaggagattataaatacaaaattaatgctattggttacccttgaggaaaaggcaaggtgtcttgaggtagggcacaaagg--aggtttta--------------------aaagaacagac----tgtattttatattttaaactgg---------------------------------------------------attgtgattaaat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55789544 259 -  71252344 gcaaggactagcagggt--aaagggactctggagaaggaaaacccattaaggtgaacatgacattttgcac-----tgctattccctttggaa---------catttgccaatt--------------------------Tataggtaataaagctctac--aaaaagtaaggagattataaatacaaaattaatgctattggttacccttgaggaaaaggcaaggtgtcttgagatagggcacaaagg--aggttttt--------------------aaagaacagac----tgtattttattttttaaactgg---------------------------------------------------attgtgattaaat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       93144 258 -   3089952 gcaaggactggcagggt--aaagggactctggagaaggaaaacccattaaggtgaacatgacattttgcac-----tgctattccctttggaa---------catttgccaatt--------------------------TATAGGTAATAAAGCTCTAC--AAAAAGTAAGGAGATTATAAATACAAAATTAATGCTGTTGGTT-CCCTTGAGGAAAAGGCAAGCTGCCTTGAGATAGGGCACAAAGG--AGGTTTTT--------------------AAAGAACGGAC----TGTATTTTGTTTTTTAAACTGG---------------------------------------------------ATTGTGATTAAAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13293696 259 -  42888418 gcaaggactggcagggt--aaagggactctggagaaggaaaacccattaaggtgaacatgacattttgcac-----tgctattccctttggaa---------catttgccaatt--------------------------Tataggtaataaagctctac--aaaaagtaaggagattataaatacaaaattaatgctattggttacccttgaggaaaaggcaaggtgtcttgagatagggcacaaagg--aggttttt--------------------aaagaatagac----tgtattttattttttaaactgg---------------------------------------------------attgtgattaaat
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60615370 259 + 108143057 gcaaggactggcggagt--aaagggactcaggagacagaaaacccattaa-gtgaacatgacattttgtac-----tgcttttccctttggag---------catttgccaatt--------------------------TATAGGTAATAAAGTGCTAC-AAAAAAGGAAGGAGATTATAAATATAAAATTTATGCTATTGGTTGCCCTTGAGGGAAAGGCAGGATGTCTTGAGATAGGGCACAAAGT--GGGTTTTT--------------------AAAGAACAGGC----TGTACTTTATTCCTTAAACTGG---------------------------------------------------ATTGTGGTTGGAT
i micMur3.chr12            I 779 C 0
s proCoq1.NW_012155062v1     3650720 261 +  11683526 gcaaggactggcagggt--aaagggactcgggagacagaaaacccattaaggtgaacatgacattttgcac-----tgcttttccctttggag---------catttgccaatt--------------------------Tataggtaataaagctctacaaaaaaaggaaggggattataaatatcaaatttatgctattggttacccttgagggaaaggcaggatgtcttgagatagggcacaaagt--gggttttt--------------------aaggaacaggc----tgtattttattccttaaactgg---------------------------------------------------attgtggttagat
i proCoq1.NW_012155062v1   C 0 I 52
s otoGar3.GL873679           3140145 259 +   4132165 gcaagctctggcagggt--aacgggactcaggagaaagaaaacccatcaaggagaacatgacattttgcac-----cgcttttccctttggag---------catttgccaatt--------------------------Tataggtaataaagctctac-aaaaaagtaaggaaattagaaatacaaaatttctgctactggtt-cccctgagggaaaggcaggatgtcttgagagagggcacaaaac--agattttg--------------------aaggaacgggt----tgtattttattccttaagctgg---------------------------------------------------attgtggttacat
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55580771 250 +  90702639 accatgttttgaagggt--gaaagtccttaggaaaaggaaatctcattatgatgaacatgacattgtgtct-----tgttttcccctttgaga---------catgtgccaatt--------------------------TATAGGCAATACAATTCTAT---aaaagtaagtcaattatatacccaaaattcatgctgctggcaacccttgagggaaa-------tgtcatcaggcagaccacaaagg--atgctttt--------------------atagaatagac----t-tactttatttcctaagctgg---------------------------------------------------aatagagctacat
i mm10.chr18               C 0 C 0
s canFam3.chr11             14980574 295 +  74389097 gcaaggacttcaagagt--aaaggtcttcatgagaaggaaaattcataagggggaacatgacattttgcac-----tgcttttccctttggaacatttgGAGCATTTGCCAATTTACCG---------------------TATTGGCAAtaaaaccatac-agaaaagtgagtagattataagtagaaaattcaggcaactgattaccctagaggg-gaggcaggtcattttgagacagggcatacaggtttgattttgtttgttctctctttttaaaaaagaaacaggc----agtatcctatttcttaaactag---------------------------------------------------attgtggttacat
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2721108 285 +   3667625 aaaagggcttaaaggat--aaaggtcttcaagagaagaaaagctcattaa-gtgaacatgaccttttgcac-----tgcttttccctttgcat---------catttgccagtt--------------------------cATAGACAGTCAAAATAATC-AGAAAAGTAAGGAGATTATA-ATGCAAAATGCAGACTATGGATTACCCCTGAGGGAAAGGGA---------GAGGTAGTGCACATAAG--GAGTTTTT--------------------AAGGAACAG------TG--TTCTATTTCTTAATCTAGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAT-----------
i dasNov3.JH567306         C 0 C 0
e cerAty1.NW_012002512v1     5348424   1 +  26952557 I

a score=529976.000000
s hg38.chr5_KI270796v1_alt    161252 68 +    172708 tgctaattggttcactatttttctttaaattctcatatttacata---------atatatatGTG-CATATATACAAG
s panTro5.chr5             125275398 68 + 181907262 tgctaattggttcattatttttctttaaattctcatatttatgta---------atatatatGTG-CATATATACAAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126606206 68 + 183735486 tgctaattggttcattatttttctttaaattctcatatttatgta---------atatatatgtg-tatatatACAAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1798053 68 +   8933513 TGCTAATTGGTTCATTATTTTTCTTTAAATTCTCatatttatgta---------atatatatgtg-tatatatacaag
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139928945 51 + 163208435 tgctaatcagttcattatttt-----------tcatatttatgta---------------atgtg-tatatatacaag
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122914428 68 + 180051392 tgctaatcggttcattatttttctttaaattctcatatttatgta---------atatatatgtg-tatatatACAAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124338053 68 + 181584905 tgctaatcggttcattatttttctttaaattctcatatttatgta---------atatatatgtg-tatatatACAAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16336719 68 +  18395747 tgctaatcggttcattatttttctttaaattctcatatttatgta---------atatatatgtg-tatatatACAAG
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28448946 68 +  82825804 tgctaatcggttcgttatttttctttaaattctcatatttatgta---------atatatatgtg-tatatatACAAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4119309 68 -   4237731 tgctaatcggttcattatttttctttaaattctcatatttatgta---------atatatatgtg-tatatatACAAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      388139 68 -   1175262 tgctaatcggttcattatttttctataaattctcatatttatgta---------atatatatgtg-tatatatACAAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123749152 64 - 204313951 tgctaattggttcatta-ctttttaaagattttcatatttata------------tgtgtgtgta-tatatAGGCAGA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55789803 71 -  71252344 tgctaattggttcgttatttttttttagattttcatatttatata------tgtctatgtgtata-tatatatGCAGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       93402 77 -   3089952 TGCTAATTGGTTCAttattttttttttaattttcatatttatatatgtgtgtgtgtgtgtatata-tatatatgcaga
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13293955 71 -  42888418 tgctaattggttcattattttaaaaaaaaatttcatatttatata------tgtgtgtgtgtata-tatatatgcaga
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60615629 48 + 108143057 ----GGTCAGTTTATTATTTTTCTTCAAA-------------------------GCatatatgta-tacatatataca
i micMur3.chr12            C 0 I 11
s otoGar3.GL873679           3140404 48 +   4132165 ----aatcagttcattatttttcttcaaa-------------------------gcatatatgtg-tacatatgcaca
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55581021 51 +  90702639 cattaatctatgtgttattttacttcaaatttttatatacataaa---------acatat------------------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14980869 74 +  74389097 agcaaataagtttgttatttttcttcaaatttacgtgcacatacagatacatatttatatatgtgatatatATG----
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2721393 39 +   3667625 AGGTAATCAGTTTATTGTTTCCTTTCAAATTTACATATG---------------------------------------
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3650981 52 +  11683526 I
e cerAty1.NW_012002512v1     5348424  1 +  26952557 I

a score=3023570.000000
s hg38.chr5_KI270796v1_alt    161320 243 +    172708 TATATAATA-TA---TTCTGC--ATCTTCATTTAGCAaaaag--aaaagaaagaaagtaaaag--aaagCAGGCCCTCAACTAATAGCTGTTATCCACAGAGAACATATTCCAG-ACCCCAGCACAATTGTGTACGTCAGCAATTGCCTCTGAGAGCTGCTAGAAAGCCTGCTTCTCACACCCATCTTTAGTAACTTCTGTTATTCCCCAGTGGTAATAGAAATCTCTAGGGCTGGAAGCTCCAAGTTGCTAAT
s panTro5.chr5             125275466 243 + 181907262 TATATAATA-TA---TTCTGC--ATCTGCATTTAGCAaaaag--aaaagaaagaaagtaaaag--aaagCAGGCCCTCAACTAATAGCTGTTATCCACAGAGAACATATTCCAG-ACCCCAGCACAATTGTGTACGTCAGCAATTGCCTCTGAGAGCTGCTAGAAAGCCTGCTTCTCACACCCCTCTTTAGTAACTTCTGTTATTCCCCAGTGGTAATAGAAATCTCTAGGGCTGGAAGCTCCAAGTTGCTAAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126606274 242 + 183735486 TATATAATA-TA---TTCTGC--ACCTGCATTTAGCAAaaag--aaaa-aaagaaagtaaaag--aaagCAGGCCCTCAACTAATAGCTGTTATCCACAGAGAACATATTCCAG-ACCCCAGCACAATTGTGAACGTCAGCAATTGCCTCTGAGAGCTGCTAGGAAGCCCGCTTCTCACACCCATCTTTAGTAACTTCTGTTATTCCCCAGTGGTAATAGAAATCTCTAGGGCTGGAAGCTCCAAGTTGCTAAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1798121 240 +   8933513 tatataata-ta---tTCTGC--ATCTGCATTTAGCAAAAAG--AAAA-AAACAAAGTAAAAG--AAAGCAGGCCCTCAACTAATAGCTGTTATCCACAGAGAACATATTCCAG-ACCCCAGCACAATTGTGTATGTCAGCAATTGTCTCTGAGAGCTGCTAGAAAGCCTGCTTCTCACACCCATCTTTAGTAACT--TGTTATTCCCCAGTGGTAATAGAAATCTCTAGGGCTGGAAGCTCCAAGTTGCTAAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139928996 243 + 163208435 tatataata-ta---ttctGC--ATCTGCATTTAGCaaaaag--aaaaaaaagaaagtaaaag--aaaaCAGGCCCTCAAATAATAGCTGTTATCCACAGAGAACATATTCCAG-ACCCCAGCACAATTGTGTACGTCAGCAATTGCCTCTGAGAGCTGCTAGAAAGCCTGCTTCTTACACCCATCTTTAGCAACTTCTGTTATTCCCCAGTGGTAATAGAAATCTCTAGGGCTGGAAGCTCCAAGTTGCTAAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122914496 243 + 180051392 TATATAATA-TA---TTCTGC--ATCTGCATTTAGCaaaaagaaaaaaaaaagaaagtaaaag--aaaagaGGCCCTCATCTAATAgctgttatccacagaggacatatgccag-accccagcacagttgtgtatgtcggcaattgcct-tgagagctgctagaaagcctgcttctcacacccatctttagtaacttctg-tattcccCAGTGGTAATAGAAATCTCTAGGGCTGGAAGCTGCAAGTTGCTAAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124338121 243 + 181584905 TATATAATA-TA---TTCTGC--ATCTGCATTTAGCaaaaagaaaaaaaaaagaaagtaaaag--aaaagaGGCCCTCATCTAATAGCTGTTATCCACAGAGGACATATGCCAG-ACCCCAGCACAGTTGTGTATGTCGGCAATTGCCT-TGAGAGCTGCTAGAAAGCCTGCTTCTCACACCCATCTTTAGTAACTTCTG-TATTCCCCAGTGGTAATAGAAATCTCTAGGGCTGGAAGCTGCAAGTTGCTAAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16336787 242 +  18395747 TATATAATA-TA---TTCTGC--ATCTGCATTTAGCaaaaag-aaaaaaaaagaaagtaaaag--aaaagaGGCCCTCATCTAATAGCTGTTATCCACAGAGGACATATGCCAG-ACCCCAGCACAGTTGTGTATGTCGGCAATTGCCT-TGAGAGCTGCCAGAAAGCCTGCTTCTCACACCCATCTTTAGTAACTTCTG-TATTCCCCAGTGGTAATAGAAATCTCTAGGGCTGGAAGCTGCAAGTTGCTAAT
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28449014 241 +  82825804 TATATAATA-TA---TTCTGC--ATCTGCATTTAGCAAAAAG--AAAAAAAAGAAAGTAAAAG--AAAGGAGGCCCTCATCTAATAGCTGTAATCCACAGAGGACATATTCCAG-ACCCCAGCACAGTTGTGTATGTCGGCAATTACCT-TGAGAGCTGCTAGAAAGCCTGCTTCTCACACCCATCTTTAGTAACTTCTG-TATTCCCCAGTGGTAATAGAAATCTCTAGGGCTGGAAGCTGCAAGTTGCTAAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4119377 242 -   4237731 TATATAATA-TA---TTCTGC--ATCTGCATTTAGCaaaaag-aaaaaaaaagaaagtaaaag--aaaagaGGCCCTCATCTAATAgctgttatccacagaggacacattccag-accccagcacagttgtgtatgtcggcaattgcct-tgagagctgctagaaagcctgcttctcacacccatctttagtaacttctg-tattcccCAGTGGTAATAGAAATCTCTAGGGCTGGAAGCTGCAAGTTGCTAAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      388207 242 -   1175262 TATATAATA-TA---TTCTGC--ATCTGCATTTAGCAaaaag--aaaaaaaagaaagtaaaag--aaaagaaGCCCTCATCTAATAGCTGTTATCCACAGAGGACATATTCCAG-ACCCCAGCACAACTGTGTATGTCGGCAATTGCCT-TGAGAGCTGCTAGAAAACCTGCTTCTCATGCCCATCTTTAGTAACTTCTGTTATTCCCCAGTGGTAATAGAAATCTCTAGGGCTGGAAGCTGCAAGTTGCTAAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123749216 239 - 204313951 TATATAATA-TA---GTCTGC--ATCTGCACTTAGCCAAAAG--AAAA-AAAGAAAGTAAAAG--AA---AGGCTCTCACCTAATAGTTGTTATCCACAGAGAACATATTCCAG-ACCCCAGCACAATTGTGTACTTCAGCAATTGCCTCTGAGAGCTGCTAGAAAACAAGCTTCTCACACACATCTTTAGTAACTTCTGTTATTCCCTAGTGGTAATAGAAATCTCTAGGGCTGGAAGCTCCAAGTTGCTAAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55789874 241 -  71252344 TATATAATA-TA---TTCTGC--GTCTGCATTTAGCAAAAAG--AAAA-AAAGGAAGTAAAAG--AAAACAGGCTCTCACCTAACAGTTGTTATCCACAGAGAACATATTCCAG-ACCCCAGCACAATTGTGTACTTCAGTAATTGCCTCTAAGAGCTGCTAGAAAGCCTGCTTCTCACATCCATCTTTAGTAACTTCTGTTATTCCCTAGTGGTAATAGAAATCTCTA-GGCTGGAAGCTCCAAGTTGCTAAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       93479 242 -   3089952 tatataata-ta---tTCTGC--ATCTGCATTTAGCAAAAAT--AAAA-AAAGAAAGTAAAAG--AAAACAGGCTCTCATCTAATAGTTGTTATCCACAGAGAACATATTCTAG-ACCCCAGCACAATTGTGTACTTCAGCAATTGCCTCTGAGACCTGCTAGAAAGCCTGCTTCTCACATCCATCTTTAGTAACTTCTGTCATTCCCTAGTGGTAACAGAAGTCTCTAGGGCTGGAAGCTCCCAGTTGCTAAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13294026 241 -  42888418 tatataata-ta---ttCTGC--ATCTGCATTTAGCAAAAAG--AAAA-AAAGAAAGTGAAAG--AAAACAGGCTCTCATCTAATAGTTGTTATCCACAGAGAACGTATTCCAG-A-CCCAGCACAATTGTGTACTTCAGCAATTGCCTCTGAGAGCTGCTAGAAAGCCTGCTTCTCACACCCATCTTTAGTAACTTCTGTTATTCCCTAGTGGTAATAGAAATCTCTAGGTCTGGAAGCTCCAAGTTACTAAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60615688 238 + 108143057 -------CA-TATTCTTCTGC--ATCTGTATTTAGCATAAGG--ATAA-AAGGAAAGTAAAAG--AAAACAGACTCCAAACCAATAGCTTTTATCCACAGAGAACAAATTTCAA-CCCCCAATGTGATTTCGTACTTCAGCAGTTTCCTCCGAGAGCTGCTAGAAAGGCTGCTCTTCATGTCCACCCTAAGTAATTTTTGCCATTCTCAAGTGCTAATAAAATTCTCCAGGGCTGGAAGCTCCATGTTTCTAAT
i micMur3.chr12            I 11 C 0
s proCoq1.NW_012155062v1     3651033 246 +  11683526 TATATAGCA-TATTCTTCTCT--ATCTGTATTTAGCATAAGG--AAAA-AAGGAAAGTAAAAG--AAAACAGACTCCAAACTAATAGCTTTTATCCACAGAGAACAAAATTCAGCCCCCCAGTGTGATTTTGTACTTCAGCAGTTTCCTCCGAGAGCTGCTAGAAAGCCTGCTCTTCGTGTCCATCCTAAGTAACTTCTCCTATTCCCAAGTGCTAATAAAATTCTCCAGAGCTGGAAGCTCCATGTTTCTAAT
i proCoq1.NW_012155062v1   I 52 I 772
s otoGar3.GL873679           3140452 240 +   4132165 --cata-ta-tattcttCTGC--ATCTGTATTTAGCACA--G--GCAA-AAGGAAAATAACAGGAAAAAAAGACTCAAAACTAAGAGCTTCTATCCACAGAGAACAAATTTTAG-TCCCCAGTTTGGTTCTGTATGTTAGCAGTTTCCTTTGAGAGCTGCTGGAAAGCTTGCTCTTCGAATCCATCTTAAGTAAGTTCTGCTATTCCCAGG-GCTAATATAATTCTCCAGGGCTGGAAGATCCATGTTTCCAA-
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55581072 216 +  90702639 -------------tcctCCAC--ATTTCTCCTTAGCATAATA--GGGC-AGAGGAAG-----G--AGAATGAGATTCCA---AACAGTTCCTATTCAGAATG---ATATTCCAT-CTCATATCACGAGTTTATTCAGCAGTGACTTCCTCTAAAAGCAA--AGACAGGCTGATTCTCACACCCATTTCAAATAAC---TGCTATTCCCAGGTGGTGATAAAAATCTACAGGGCCAGAAGCTTCCTGTGTGTAA-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14980943 220 +  74389097 TATATCACATTA---TTTTTC--ATGCACATTTATCGCGAAG--AAGA----------AAAAG--GAAAGAAACTCTAAACTAATAGCTCTTATCCACAGAGAACATATTCCAG-CCCTCAGCATGATTTTGTATTTCAGCAGTTTCCTC--AGAGTTGCTAGAAAACCTGTTCTTCTCATCCGTCGCTAGTAACTTCTGTTATTCCCAAATGATAATAAAAATCTCCAGGGCTAGAAGCTA------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2721432 238 +   3667625 CATTTTACA-CA---TTCTTCTTATGTGTATTTATCATACGA--TAAA------TAATAAAAG--AAAACAGACTCCAAAATAATAGCCTTTATCCACAGAGCACGTACTCTAG-GCACCAGCATAATTTTTTACATCAGCGATTTCCTCTGAGTGCTGCAAGAAAGTCAGCTTTTCTCATCTCTGTCTAGTAACTTCTATCATTCCCAAAGTAAAAAAAAAATCCTCAGGGGTTGAAGCTCCATGCTTTTAA-
i dasNov3.JH567306         C 0 C 0
e cerAty1.NW_012002512v1     5348424   1 +  26952557 I

a score=11849.000000
s hg38.chr5_KI270796v1_alt    161563 1 +    172708 T
s panTro5.chr5             125275709 1 + 181907262 T
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126606516 1 + 183735486 T
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1798361 1 +   8933513 T
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139929239 1 + 163208435 T
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122914739 1 + 180051392 T
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124338364 1 + 181584905 T
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16337029 1 +  18395747 T
i macNem1.NW_012012355v1   C 0 C 0
s chlSab2.chr23             28449255 1 +  82825804 T
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4119619 1 -   4237731 T
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      388449 1 -   1175262 T
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123749455 1 - 204313951 T
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55790115 1 -  71252344 T
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       93721 1 -   3089952 T
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13294267 1 -  42888418 T
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3140692 1 +   4132165 T
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55581288 1 +  90702639 C
i mm10.chr18               C 0 C 0
s dasNov3.JH567306           2721670 1 +   3667625 T
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60615926 0 + 108143057 C
e canFam3.chr11             14981163 0 +  74389097 C
e proCoq1.NW_012155062v1     3651279 772 +  11683526 I
e cerAty1.NW_012002512v1     5348424 1 +  26952557 I

a score=272214.000000
s hg38.chr5_KI270796v1_alt    161564 22 +    172708 TGTAGGG-TTCTCATCC-TTAAAA-
s panTro5.chr5             125275710 22 + 181907262 TGTAGGG-TTCTCATCC-TTAAAA-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126606517 22 + 183735486 TGTAGGG-TTCTCATCC-TTAAAA-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1798362 22 +   8933513 TGTAGGG-TTCTCATCC-TTAAAA-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139929240 22 + 163208435 TGTAGGG-TTCTCATCC-TTAAAA-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122914740 22 + 180051392 TGTAAGG-TTCTCATCC-TTAAAA-
i rheMac8.chr6             C 0 I 1
s macFas5.chr6             124338365 22 + 181584905 TGTAAGG-TTCTCATCC-TTAAAA-
i macFas5.chr6             C 0 I 1
s macNem1.NW_012012355v1    16337030 22 +  18395747 TGTAAGG-TTCTCATCC-TTAAAA-
i macNem1.NW_012012355v1   C 0 I 1
s cerAty1.NW_012002512v1     5348425 22 +  26952557 TGTAAGG-TTCTCATCC-TTAAAA-
i cerAty1.NW_012002512v1   I 1 I 1
s chlSab2.chr23             28449256 22 +  82825804 TGTAAGG-TTCTCATCC-TTAAAA-
i chlSab2.chr23            C 0 I 1
s manLeu1.NW_012103321v1     4119620 22 -   4237731 TGTAAGG-TTCTCATCC-TTAAAA-
i manLeu1.NW_012103321v1   C 0 I 1
s colAng1.NW_012119644v1      388450 22 -   1175262 TGTAAGG-TTCTCATCC-TTAAAA-
i colAng1.NW_012119644v1   C 0 I 1
s calJac3.chr2             123749456 22 - 204313951 TGCAGGG-TTCTCATCC-TTAAAA-
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55790116 22 -  71252344 TGCAGGG-TTCTCATCC-TTAAAA-
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107590v1       93722 23 -   3089952 TGGAGGA-TTCCCATCCTTTAAAA-
i cebCap1.NW_016107590v1   C 0 I 1
s aotNan1.NW_018505940v1    13294268 22 -  42888418 TGCAGGG-TTCTCATCC-TTAAAA-
i aotNan1.NW_018505940v1   C 0 I 1
s micMur3.chr12             60615926 22 + 108143057 TGTAGGG-TTCTCATCC-TTAAAA-
i micMur3.chr12            C 0 I 761
s otoGar3.GL873679           3140693 22 +   4132165 TGTAGGG-ATCTTATCC-CTAAAG-
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55581289 22 +  90702639 TGTGGAC-TCTCAATCC-TTCAAA-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14981163  4 +  74389097 --------------------AAAA-
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2721671 24 +   3667625 CGTAGTTCTTTTCATCC-TTAAATA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3651279 772 +  11683526 I

a score=1506467.000000
s hg38.chr5_KI270796v1_alt    161586 134 +    172708 TCTGTTAATCAGAAGCACACGTATT----AAAATTGCATGTGTGGGCTCA-TTTAGGGGAGATTAC-GATATAATATG--AAG--------AAGGTAATGATTAGGTATGGAAATAGAAGAAAGCATGAAGAGTCCAATTGTT--C--AGAGTC
s panTro5.chr5             125275732 134 + 181907262 ACTGTTAATCAGAAGCACACGTATT----AAAATTGCATGTGTGGGCTCA-TTTAGGGGAGATTAC-GATATAATATG--AAG--------AAGGTAATGATTAGGTATGGAAATAGAAGAAAGCATGAAGAGTCCAATTGTT--C--AGAGTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126606539 134 + 183735486 ACTGTTAATCAGAAGCACACGTATT----AAAATTGCATGTGTGGGCTCA-TTTAGGGGAGATTAC-GATATAATATG--AAG--------AAGGTAATGATTAGGTATGGAAATAGAAGAAAGCATGAAGAGTCCAATTGTT--C--AGAGTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1798384 133 +   8933513 ACTGTTAATCAGAAGCACACGTATT----AAAATTGCATGTGTGGGCTCA-TTTA-GGGAGATTAT-GATATAATATG--AAG--------AAGGTAATGATTAGGTATGGAAATAGAAGAAAGCATGAAGAGTCCAATTGTT--C--AAGTTC
i gorGor5.CYUI01015135v1   C 0 I 11
s nomLeu3.chr2             139929262 136 + 163208435 ACTGTTAATCAGAAGCACAAGTATT----AAAGTTGCACGTGTGGGCTCA-TTTAGGGGAGATTAT-GATATAATATAATATG--------AAGGTAGTGATTAGGTATGGAAATAGAAGAAAGCATGAAGAGTCCAATTTTT--C--AGAGTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122914763 132 + 180051392 ACTGTTAATCAGAAGCACAAGTATT----AAAGTTGCATGTGTGGGCTCA-TTTAGGGGAGATTAC-GATATAATATG--AAG--------AAGGTAATGATTAGGTATGGAAATAGAAGAAAGCATGAAGAGTCCAATTGCT--C----AGTC
i rheMac8.chr6             I 1 C 0
s macFas5.chr6             124338388 132 + 181584905 ACTGTTAATCAGAAGCACAAGTATT----AAAGTTGCATGTGTGGGCTCA-TTTAGGGGAGATTAC-GATATAATATG--AAG--------AAGGTAATGATTAGGTATGGAAATAGAAGAAAGCATGAAGAGTCCAATTGCT--C----AGTC
i macFas5.chr6             I 1 C 0
s macNem1.NW_012012355v1    16337053 132 +  18395747 ACTGTTAATCAGAAGCACAAGTATT----AAAGTTGCATGTGTGGGCTCA-TTTAGGGGAGATTAC-GATATAATATG--AAG--------AAGGTAATGATTAGGTATGGAAATAGAAGAAAGCATGAAGAGTCCAATTGCT--C----AGTC
i macNem1.NW_012012355v1   I 1 C 0
s cerAty1.NW_012002512v1     5348448 132 +  26952557 ACTGTTAATCAGAAGCACAAGTATT----AAAGTTGCATGTGTGGGCTCA-TTTAGGGGAGATTAC-GATATAATATG--AAG--------AAGGTAATGATTAGGTATGGAAATAGAAGAAAGCATGAAGAGTCCAATTGCT--C----AGTC
i cerAty1.NW_012002512v1   I 1 C 0
s chlSab2.chr23             28449279 134 +  82825804 ACTGTTAATCAGAAGCACAAGTATT----AAAGTTGCATGTGTGGGCTCA-TTTAGGGGAGATTAC-GATATAATATG--AAG--------AAGGTAATGATTAGGTATGGAAATAGAAGAAAGCATGAAGAGTCCAATTGTT--C--AGAGTC
i chlSab2.chr23            I 1 C 0
s manLeu1.NW_012103321v1     4119643 132 -   4237731 ACTGTTAATCAGAAGCACAAGTATT----AAAGATGCATGTGTGGGCTCA-TTTAGGGGAGATTAC-GATATAATATG--AAG--------AAGGTAATGATTAGGTATGGAAATAGAAGAAAGCATGAAGAGTCCAATTGCT--C----AGTC
i manLeu1.NW_012103321v1   I 1 C 0
s colAng1.NW_012119644v1      388473 134 -   1175262 ACTGTTAATCAGAAGCACAAGTATT----AAAATTGCATGTATGGGCTCA-TTTAGGCGAGATTAT-GATATAATATG--AAG--------AAGGTAATGATTAGGTATGGAAATAGAAGAAAGCATGAAGAGTCCAATTGTT--C--AGAGTC
i colAng1.NW_012119644v1   I 1 C 0
s calJac3.chr2             123749479 135 - 204313951 ACTGTTAATCAGAAGCAGAAGTATT----CAAGTTGCATGTGTGGGCTCATTTTAGGGGAGACTAA-GAAATAACTTG--AGG--------AAGGTAATGATTAGATATGGAAATAGAAGAATGCATGAAGAGTCCAATTGTT--C--AGAGTC
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55790139 114 -  71252344 ACTGTTAATCAGAAGCACAAGTATT----AAAGTTGCATGTGTGGGCTCATTTTAGGGGAGATTAA-GAAATAACTTG--AAG--------AAGGT---------------------AAGATTGTATGAAGAGTCTAGTTGTT--C--AGAGTC
i saiBol1.JH378106         I 1 C 0
s cebCap1.NW_016107590v1       93746 135 -   3089952 ACTGTTAATCAGAAGCATAAGTATT----AAAGTTGCATGTGTGGGCTCATTTTAGGGGAGATTAA-GAAATAACTTC--AGG--------AACGTAATGATTAGATATGGAAATAGAAGAATGAATGAAGAGTCCAATTGTT--C--AGAGTC
i cebCap1.NW_016107590v1   I 1 C 0
s aotNan1.NW_018505940v1    13294291 135 -  42888418 ACAGTTAATCAGAAGCACATGTATT----AAAGTTGCATGTGTGGGCTCATTTTAGGGAAGATTAA-GAAATAACTTG--AGG--------AAAGTAATGATTAGATATGGAAATAGAAGAATGCATGAAGAGCCCAATTGTT--C--AGAGTC
i aotNan1.NW_018505940v1   I 1 C 0
s otoGar3.GL873679           3140716 132 +   4132165 ACCTTTAATCAGAAACAAGACTATT----AAACTTGC-TGTGTGGCCTCATTCTAGGGGAGATTAG-AAAAGAATATG--AAG--------AAGGCAATGTTTA--TATG--AATAGAAGAAAGCACGAGGAATGAGTTTGTTTCC--AGAGTC
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55581311 138 +  90702639 ACTACTAAAGAAAACCATAGACATT----GAAACAGGATATATAGCCTCATTCTACATGAAATTTTAAACATAATATG--AAA--------AAGGCATGGTTTGGGTAGAAGGGTAAATGAAGACACAGGGAATCCATTTGTT--TCTAAAATT
i mm10.chr18               C 0 C 0
s canFam3.chr11             14981167 138 +  74389097 GCTGGTATGCAGAAATAAGAGTATTAAAGAAAGCTG-ATGTGTGGCCTCATCCTAGGAGAGATTAA-AAAAGAATACA--AAG--------AAGGCAATGTTTAGGTTGGGGGGTAGAAGAAAGTGTGAGAAATCAATCTGTT--T--ACAGAC
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2721695 134 +   3667625 CTTATTAATTAGAAACAAGAGTGTT----AAAGCTGGACGCATGGTCTCAATCTAGGAGAAAATGT-AAAAGAACATG--AAAAAAGGAACAAGGCAATGTTTAGTCA-GAGAGCAAAAGAAAGCATCAGGAGTCCAATTTT------------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60615948 761 + 108143057 I
e proCoq1.NW_012155062v1     3651279 772 +  11683526 I

a score=118480.000000
s hg38.chr5_KI270796v1_alt    161720 12 +    172708 ACCAGCATATAA
s panTro5.chr5             125275866 12 + 181907262 ACCAGCATATAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126606673 12 + 183735486 ACCAGCATATAA
i panPan2.chr5             C 0 C 0
s nomLeu3.chr2             139929398 12 + 163208435 ACCAGCATATAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122914895 12 + 180051392 ACCAGCATATAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124338520 12 + 181584905 ACCAGCATATAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16337185 12 +  18395747 ACCAGCATATAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5348580 12 +  26952557 ACCAGCATATAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28449413 12 +  82825804 ACCAGCATATAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4119775 12 -   4237731 ACCAGCATATAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      388607 12 -   1175262 ACCAGCATATAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123749614 12 - 204313951 ACCAGCATATAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55790253 12 -  71252344 ACCAACATATAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       93881 12 -   3089952 ACCACCATATAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13294426 12 -  42888418 ACCAGCATATAA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3140848 11 +   4132165 -TCCACATGTGA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55581449 10 +  90702639 -ATGGTTTATA-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14981307 12 +  74389097 AGCCATATATAA
i canFam3.chr11            I 2 C 0
s dasNov3.JH567306           2721829 12 +   3667625 GTCTACCTGTAC
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60615948 761 + 108143057 I
e proCoq1.NW_012155062v1     3651279 772 +  11683526 I
e gorGor5.CYUI01015135v1     1798517 11 +   8933513 I

a score=846541.000000
s hg38.chr5_KI270796v1_alt    161732 78 +    172708 AAATTCTTACATCCATAT---AGCTTTCTACATATACACAGATAATGATGTGTACA-----TACATAAAGGGATTG--------TGGGTGTGAA
s panTro5.chr5             125275878 77 + 181907262 AAATTCTTACATCCATAT---AGCTTTCTACATATACACAGATAATGATGTGTACA-----TACAT-AAGGGATTG--------TGGGTGTGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126606685 77 + 183735486 AAATTCTTACATCCATAT---AGCTTTCTACATATACACAGATAATGATGTGTACA-----TATAT-AAGGGATTG--------TGGGTGTGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1798528 77 +   8933513 AAGTTCTTACATCCATAT---AGCTTTCTACATATACACCGATAATGATGTGTACA-----TACAT-AAGGGATTG--------TGGGTGTGAA
i gorGor5.CYUI01015135v1   I 11 C 0
s nomLeu3.chr2             139929410 76 + 163208435 AAATTCTTACA-CCAAAT---AGCTTTCTACATATACATAGATAATGATGTGTACA-----TACGT-AAGGCATTG--------TGGGTGTGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122914907 77 + 180051392 AAATTCTTACACCCATAT---AGCTTTCAACATATACACAGATAATGATGTGTACA-----TACAT-AAGGGATTG--------TGAGTGTGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124338532 77 + 181584905 AAATTCTTACACCCATAT---AGCTTTCAACATATACACAGATAATGATGTGTACA-----TACAT-AAGGGATTG--------TGAGTGTGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16337197 77 +  18395747 AAATTCTTACACCCATAT---AGCTTTCAACATATACACAGATAATGATGTGTACA-----TACAT-AAGGGATTG--------TGAGTGTGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5348592 77 +  26952557 AAATTCTTACACCCATAT---AGCTTTCAACATATACACAGATAATGATGTGTACA-----TACAT-AAGGGATTG--------TGGGTGTGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28449425 77 +  82825804 AAATTCTTACACCCATAT---AGCTTTCAACATATACACAGATAATGATGTGTACA-----TACAT-AAGGGATTG--------TGGGTGTGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4119787 82 -   4237731 AAATTCTTACACCCATAT---AGCTTTCAACATATACACAGATAATGATGTGTACATACATTACAT-AAGGGATTG--------TGGGTGTGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      388619 77 -   1175262 AAATTCTTACACCCATAT---AGCTTTCAACATATACACAGATAATGATGTGTACA-----TACCC-AAGGGATTG--------TGGGTGTGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123749626 77 - 204313951 AAATTCTTACACCCCTAT---AGATTTATACATATATGCGGGTAACGATGTGTACA-----TACAT-AAGGGATTG--------TGGGTGTAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55790265 77 -  71252344 AAATTCTTATGCCCCTAT---AGATTTATACATATACACAGATGATGATGTGTACA-----TACAT-AAGGGATTG--------TGGGTGTAAA
i saiBol1.JH378106         C 0 I 194
s cebCap1.NW_016107590v1       93893 77 -   3089952 AAATTCTTACACCCCTAT---AGATTTATACATATACACAGATAATGATGTGTACA-----TACAT-AAGGGATTG--------TGGGTGTAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13294438 77 -  42888418 AAATTCTTACACCCCTAT---AGATTTATACATATACACAAATAATGATGTGTACA-----TACAT-AAGGGATTG--------TGGGTGTAAA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3140859 84 +   4132165 CAATTCTTACACCTGTGT---ACCTGTGTATGTAAGCATAAATG-TAATGCAAATG-----TACTT-TCTGGATGGGTATGAAATGGGTATGAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55581459 74 +  90702639 AGGTCCTTTCATTCACTTATAAGGTCCTTTTATacacacacacacacacacacaca-----cacac-GATAGATTA--------TAAA------
i mm10.chr18               C 0 C 0
s canFam3.chr11             14981319 77 +  74389097 CAATTCTTATATCTGTAT---ACCTTTGTACATATACACATATAATAATGTGTACA-----TCTGT-ACTGGATTT--------GGGGAATGAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2721841 67 +   3667625 ----------ACCTTTAT---ATATATATACACGCACAAATACACTAATAAATGCA-----TACAC-ATTATAACA--------CAGGTATGAA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60615948 761 + 108143057 I
e proCoq1.NW_012155062v1     3651279 772 +  11683526 I

a score=-7629.000000
s hg38.chr5_KI270796v1_alt    161810  7 +    172708 AGTT------AGG
s panTro5.chr5             125275955  7 + 181907262 AGTT------AGG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126606762  7 + 183735486 AGTT------AGG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1798605  7 +   8933513 AGTT------AGG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139929486  7 + 163208435 AGTT------AGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122914984  4 + 180051392 AGTT---------
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124338609  4 + 181584905 AGTT---------
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16337274 10 +  18395747 AGTTTTGATG---
i macNem1.NW_012012355v1   C 0 I 35
s cerAty1.NW_012002512v1     5348669  4 +  26952557 AGTT---------
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28449502  3 +  82825804 AGT----------
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4119869  3 -   4237731 AGT----------
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      388696  4 -   1175262 AGTT---------
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123749703  7 - 204313951 AGTT------AGG
i calJac3.chr2             C 0 C 0
s cebCap1.NW_016107590v1       93970  3 -   3089952 ----------AGG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13294515  7 -  42888418 AGTT------AGG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3140943  7 +   4132165 AATT------AGG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55581533  7 +  90702639 CATT------AGG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14981396  7 +  74389097 GGTC------AGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2721908  7 +   3667625 AATT------AGG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60615948 761 + 108143057 I
e proCoq1.NW_012155062v1     3651279 772 +  11683526 I
e saiBol1.JH378106          55790342 194 -  71252344 I

a score=6552.000000
s hg38.chr5_KI270796v1_alt    161817 3 +    172708 -AAG
s panTro5.chr5             125275962 3 + 181907262 -AAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126606769 3 + 183735486 -AAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1798612 3 +   8933513 -AAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139929493 3 + 163208435 -AAG
i nomLeu3.chr2             C 0 C 0
s saiBol1.JH378106          55790536 3 -  71252344 -AAG
i saiBol1.JH378106         I 194 C 0
s otoGar3.GL873679           3140950 3 +   4132165 -GAG
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55581540 3 +  90702639 -AAG
i mm10.chr18               C 0 C 0
s canFam3.chr11             14981403 3 +  74389097 -AAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2721915 3 +   3667625 CAA-
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60615948 761 + 108143057 I
e proCoq1.NW_012155062v1     3651279 772 +  11683526 I
e manLeu1.NW_012103321v1     4119872 0 -   4237731 C
e chlSab2.chr23             28449505 0 +  82825804 C
e cerAty1.NW_012002512v1     5348673 0 +  26952557 C
e macNem1.NW_012012355v1    16337284 35 +  18395747 I
e macFas5.chr6             124338613 0 + 181584905 C
e rheMac8.chr6             122914988 0 + 180051392 C
e aotNan1.NW_018505940v1    13294522 0 -  42888418 C
e cebCap1.NW_016107590v1       93973 0 -   3089952 C
e calJac3.chr2             123749710 0 - 204313951 C
e colAng1.NW_012119644v1      388700 0 -   1175262 C

a score=-82105.000000
s hg38.chr5_KI270796v1_alt    161820 24 +    172708 GATAGATAG-ATAAGAATA----AAATTT
s panTro5.chr5             125275965 24 + 181907262 GATAGATAG-ATAAGAATA----AAATTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126606772 20 + 183735486 ----GATAG-ATAAGAATA----AAATTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1798615 20 +   8933513 ----GATAG-ATAAGAATA----AAATTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139929496 20 + 163208435 ----AACAG-ATAAGAATA----AAATTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122914988  2 + 180051392 ---------------------------TT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124338613  2 + 181584905 ---------------------------TT
i macFas5.chr6             C 0 C 0
s cerAty1.NW_012002512v1     5348673  2 +  26952557 ---------------------------TT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28449505  3 +  82825804 --------------------------TTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4119872  3 -   4237731 --------------------------TTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      388700  2 -   1175262 ---------------------------TT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123749710 23 - 204313951 -AAGAACAG-ATAAGAATA----AAATTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55790539 24 -  71252344 GAAGAACAG-ATAAGAATA----AAATTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       93973 23 -   3089952 -AAGAACAG-ATAAGAATA----AAATTC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13294522 19 -  42888418 -AAGAACAG-ATAAGAATA----AA----
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3140953 24 +   4132165 ----AAAAG-ATAAGAATAGGGTAAAATA
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55581543 22 +  90702639 ------AAG-CCAAGCATAAGATAGAGTC
i mm10.chr18               C 0 I 1
s canFam3.chr11             14981406 25 +  74389097 AATGCATAACACAAGGGTA----AAACGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2721918 21 +   3667625 ---AACCAG-ACAAGAAGAGGGTGA----
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60615948 761 + 108143057 I
e proCoq1.NW_012155062v1     3651279 772 +  11683526 I
e macNem1.NW_012012355v1    16337284 35 +  18395747 I

a score=113640.000000
s hg38.chr5_KI270796v1_alt    161844 8 +    172708 GATTAGGA
s panTro5.chr5             125275989 8 + 181907262 GATTAGGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126606792 8 + 183735486 GATTAGGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1798635 8 +   8933513 GATTAGGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139929516 8 + 163208435 GATGAGGA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122914990 8 + 180051392 GATGAGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124338615 8 + 181584905 GATGAGAA
i macFas5.chr6             C 0 C 0
s cerAty1.NW_012002512v1     5348675 8 +  26952557 GATTAGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28449508 8 +  82825804 GATGAGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4119875 8 -   4237731 GATTAGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      388702 8 -   1175262 GATTAGGA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123749733 8 - 204313951 GATTAGGG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55790563 8 -  71252344 TATTAGGA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       93996 8 -   3089952 GATTAGGA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13294541 7 -  42888418 -ATTAGGA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60616709 8 + 108143057 GATTAGGA
i micMur3.chr12            I 761 C 0
s proCoq1.NW_012155062v1     3652051 8 +  11683526 GATTAGGA
i proCoq1.NW_012155062v1   I 772 C 0
s otoGar3.GL873679           3140978 8 +   4132165 GATTAGGA
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55581566 8 +  90702639 GCTTAGAA
i mm10.chr18               I 1 C 0
s canFam3.chr11             14981431 8 +  74389097 GATTAGGA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2721939 8 +   3667625 AATGAGAA
i dasNov3.JH567306         C 0 C 0
e macNem1.NW_012012355v1    16337284 35 +  18395747 I

a score=2061371.000000
s hg38.chr5_KI270796v1_alt    161852 158 +    172708 ------AAGG-GTATGGAGATGCTCATTAAGTTTATGAAGAGATAGATATACTTTGTGA-GTTAAAGACAACATAAAGAAG--------TAAACAACAATGAGTAGGGAATAAAATGT-A-GAGAAGGAAGGAATCAAAT-AATCAATAAAGCTAACATTGCTTTAGG---GG-----------AAAAA--CT
s panTro5.chr5             125275997 156 + 181907262 ------AAGG-GTATGGAGATGCTCATTAAGTTTATGAAG----AGATATACTTTGTGA-GTTAAAGACAACATAAAGAAG--------TAAACAACAATGAGTAGGGAATAAAATGT-A-GAGAAGGAAGGAATCAAAT-AATCAATAAAGCTAACATTGCTTTAGG---GG-----------AAAAACTCT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126606800 156 + 183735486 ------AAGG-GTATGGAGATGCTCATGAAGTTTATGAAG----AGATATACTTTGTGA-GTTAAAGACAACATAAAGAAG--------TAAACAACAATGAGTAGGGAATAAAATGT-A-GAGAAGGAAGGAATCAAAT-AATCAATAAAGCTAACATTGCTTTAGG---GG-----------AAAAACTCT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1798643 148 +   8933513 ------AAGG-GTATGGAGATGCTCATTAAGTTTATGAAG----AGATATACTTTGTGA-GTTAAAGACAACATAAAGAAG--------TAAACAACAATGAGTAGGGAATAAAATGT-A-GAGAAGGAAGGAATCAAAT-AATCA--------AACATTGCTTTAGG---GG-----------AAAAACTCT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139929524 153 + 163208435 ------AAGG-GTATGGAGATGCTCATTAAGTTTATGAAG----AGATATACTTTGTGA-GTTAAAGACAACAAAAAGAAA--------TA---AACAATGAGTAGGGAATAAAATGT-A-GAGAAGGAAGGAATCAAAT-AATCAATAAAGCTAACATTGCTTTAGG---GG-----------AAAAATGCT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122914998 156 + 180051392 ------AAGG-GTGTGGAGATGCTCATTAAGTTTATGACG----AGATATAGTTTGTGAGGTTAAAGACAACACAAAGAAG--------TAAACAACAATGAGTAGGGAATAAAATGT-A-GAGAAGTAAGGAATCAAAT-AATCAATAAAGCTAACATTGCTTTA-G---GG-----------AAAAGCTCT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124338623 156 + 181584905 ------AAGG-GTGTGGAGATGCTCATTAAGTTTATGAAG----AGATATACTTTGTGAGGTTAAAGACAACACAAAGAAG--------TAAACAACAATGAGTAGGGAATAAAATGT-A-GAGAAGTAAGGAATCAAAT-AATCAATAAAGCTAACATTGCTTTA-G---GG-----------AAAAGCTCT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16337319 156 +  18395747 ------gagc-tcattaagatgctcattaagtttatgaAG----AGATATACTTTGTGAGGTTAAAGACAACACAAAGAAG--------TAAACAACAATGAGTAGGGAATAAAATGT-A-GAGAAGTAAGGAATCAAAT-AATCAATAAAGCTAACATTGCTTTA-G---GG-----------AAAAGCTCT
i macNem1.NW_012012355v1   I 35 C 0
s cerAty1.NW_012002512v1     5348683 156 +  26952557 ------AAGG-GTGTGGAGATGCTCATTAAGTTTATGAAG----AGATATACTTTGTGAGGTTAAAGACAACACAAAGAAG--------TAAACAACAATGAGTAGGGAATAAAATGT-A-GAGAAGTAAGGAATCAAAT-AATCAATAAAGCTAACATTGCTTTA-G---GG-----------AAAAGCTCT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28449516 152 +  82825804 ------AAGG-GTGTGGAGATGCTCATTAAGTTTATGAAG----AGATATACTTTGTGAGGTTAAAGACAACATAAAGAAG--------TAAACAACAATGAGTAGGGAATAAAATGT-A-GAGAAGTAAGGAATC-----AATCAATAAAGCTAACATTGCTTTA-G---GG-----------AAAAGCTCT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4119883 156 -   4237731 ------AAGG-GTGTGGAGATGCTCATTAAGTTTATGAAG----ATATATACTTTGTGAGGTGAAAGACAACACAAAGAAG--------TAAACAACAATGAGTAGGGAATAAAATGT-A-GAGAAGTAAGGAATCAAAT-AATCAATAAAGCTAACATTGCTTTA-G---GG-----------AAAAGCTCT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      388710 156 -   1175262 ------AAGG-GTGTGGAGATGCTCATTAAGTTTATGAAG----AGATATACTTTGTGAAGTTAAAGACAACATAAAGAAG--------TAAACCACAATGAGTAGGGAATAAAATGT-A-GAGAAGTAAGGAATCAAAT-AATCAATAAAGCTAACATTGCTTTA-G---GA-----------AAAAACTCT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123749741 158 - 204313951 ------AAGG-GTAGGGAGATGCTCATTAAGTTTATGAAG----AGATATACTTTGTGA-GTTAGGGACAACATAAAGAAG--------TAAACAACAATGAATAGGTAATAAAATGT-A-GAGAAAAAAGGAATTAAAT-TATCAATAAAGCTAACATTGCTTTTGG---GG---------AAAAAAACTCC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55790571 157 -  71252344 ------AAGG-GTATGGAGATGCTCATTAAGTTTATGAAG----AGATATACTTTGTGA-GTTAGGGACAACAGAAAGAAG--------TAAACAACAATGAGTAGGAAATGAAATGT-A-GAGAAGAAAGGAATTAAAT-CATCAATAAAGTTAACATTGCTTTAGG---GG----------AAAAAACTCC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       94004 156 -   3089952 ------ATGG-GTATGGAGATGCTCATTAAGTTTATGAAG----AGATATACTTAGTGA-GTTAGGGACAACATAAAGAAG--------TAAACAGCAATGACTAGGGAATAAAATAT-A-GAGAAGAAAGGAATTAAAT-CATCAATAAAGCTAACATTGCTTTAAG---GG-----------AGAAATTCC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13294548 157 -  42888418 ------AAGG-GTATGGAGATGCTCATTAAGTTTATGAAG----AGATATACTTTGTGA-GTTAGGCACAATATAAAGAAG--------TAAACAACAATGAGTAGGGAATAAAATGT-A-GAGAAGAAAGGAATTAAAT-CATCAATAAAACTAACATTGCTTTAGA---GG----------AAAAAACTCC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60616717 154 + 108143057 ------AAGG-GTATGGAGATGCTGGCTGAATTCATGAAG----AGATGTAATTTGTGA-GTTGAAGACAATAAAAAGAAG--------TAAACAAGAATGGGGG-AGGATAAAATGTAA-GAGAAGGAAAGAATAAATT-AATCAATAAAGATAGCATCACTTTAGG---GG-----------AGAAACT--
i micMur3.chr12            C 0 I 90
s proCoq1.NW_012155062v1     3652059 153 +  11683526 ------AAGG-GTATGGAGATGCTGGCTGAGTTCATGAAG----AGATGTAATTTGTGA-GTTGAAGACAG-AAAAAGAAG--------TAAACAAGAATGGGGA-AGGATAAAATGTAA-GAGAGGGAAGGAATAAAAT-AATCAATAAAGTTAATATCACTTTAGG---GG-----------GAAAACT--
i proCoq1.NW_012155062v1   C 0 I 2
s otoGar3.GL873679           3140986 148 +   4132165 ------AGGGAGCATGGAGATGCTGGCTAAATTTATGAAA----AAATATAATTTGTGA-GT--AAGACAGTAAAAAGAAG--------TAAACAAGAATGGGGG--GAGTAAAATGTAA-GAGAAGGAAGGAATAAAAT-----AATAAACTTAACATCACTTTAGG---GG-----------GAAACTC--
i otoGar3.GL873679         C 0 I 1
s mm10.chr18                55581574 150 +  90702639 ------AAAG-CTATAG-GAGGAAGGTTGAGTTTATAAAG----AGATACAATTTGTGA-ATCAAAAATTGT---AAGAAT--------TGAACAAGATGTAGTGCAGAATAAAAC---A-GAAGAGAAAAAAACCCAATCAATCAATACAATCATTATGACTTTAAT---GT-----------AAAACCAC-
i mm10.chr18               C 0 C 0
s canFam3.chr11             14981439 166 +  74389097 ------AAAG-GAATGGAGATAGTAGCTGAGTTCCTGAAG----AGATACAGCTTATGA-GTTTCTGACAGCAAAAAGAAGAGGATGGATGAGCAAGAACAGGTTGAGAATAAAATGTAA-GAGATGGAAAGAACCAAGG-AATCAGTCAAGTTAACATCACTTTAGGTGTGG-----------AAGAACC--
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2721947 176 +   3667625 AAAGGAATGG-GTATGGAGGTAGTAATTGAGATTATGATG----AAATACAATTTATAA-GTAAAAGGCAATTAAAAGAAGTCGATGGGTGAACAAGAATGGGTGGGAAATAACATGT-ACGAGAAGGAAGGAATCGAGT---CCAATAAAGTTAGCATCA-TTTAGG---GGTGGAGGGGAATAAAATC---
i dasNov3.JH567306         C 0 C 0

a score=474725.000000
s hg38.chr5_KI270796v1_alt    162010 49 +    172708 ACATGAA--ACAGATTTCTTTTGGAAATCAAAATAGAAGAGGCTGTGG-TTT
s panTro5.chr5             125276153 49 + 181907262 ACATGAA--ACAGATTTCTTTTGGAAATCAAAATAGAAGAGGCTGTGG-TTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126606956 49 + 183735486 ACATGAA--ACAGATTTCTTTTGGAAATCAAAATAGAAGAGGCTGTGG-TTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1798791 49 +   8933513 ACATGAA--ACAGATTTCTTTTGGAAATCAAAATAGAAGAGGCTGTGG-TTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139929677 50 + 163208435 ATATGAA--ACAGATTTCTTTTGGAAATGAAAATAGAAGAGGCTGTGGTTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122915154 48 + 180051392 ACATGAA----ACATTTCTTTTGGAAATGAAAATAGAAGAGGTTGTGGTTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124338779 48 + 181584905 ACATGAA----ACATTTCTTTTGGAAATGAAAATAGAAGAGGTTGTGGTTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16337475 48 +  18395747 ACATGAA----ACATTTCTTTTGGAAATGAAAATAGAAGAGGTTGTGGTTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5348839 50 +  26952557 ACATGAA--ACACATTTCTTTTGGAAATGAAAATAGAAGAGGCTGTGGTTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28449668 50 +  82825804 ACATGAA--ACAGATTTCTTTTGGAAATGAAAATAGAAGAGGCTGTGGTTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4120039 50 -   4237731 ACATGAA--ACAGATTGCTTTTGGAAATGAAAATAGAAGAGGCTGTGGTTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      388866 50 -   1175262 ACATGAA--ACAGATTTCTTTTGGAAATGAAAATAGAAGAGGCTGTGGTTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123749899 49 - 204313951 ACATCGA---CAGATTTCTATTGGAAATCAAAATAGAAGAGGTTGTGGTTTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55790728 49 -  71252344 ACCTCAA---CAGATTTCTATTGGAAATGAAAATAGAAGAGGTTGTGGTTTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       94160 49 -   3089952 ACATCAA---CAGGTTTCTATTGGAAATGAAAATAGAAGAGGTTGTGGTTTC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13294705 49 -  42888418 ACATCAA---CAGATTTCTATTGGAAATGAAAATAGAAGAGGTTGTGGTTTC
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3652214 49 +  11683526 TTATAGA--ACAAATTTCCATTGGAAATGAGAATAGGAGAGGCTGTGGTTT-
i proCoq1.NW_012155062v1   I 2 I 438
s otoGar3.GL873679           3141135 49 +   4132165 ATAGAGA--ACAAATTTCCACTGGAAAGGAGAATAGGAGAAGTGATGGTTT-
i otoGar3.GL873679         I 1 I 1
s mm10.chr18                55581724 51 +  90702639 TCATGCAGTACAGCTTTCCAGGAGAAAATGACAGGCAAACAGCCATGATTT-
i mm10.chr18               C 0 I 3
s canFam3.chr11             14981605 12 +  74389097 -------ACAGAGATTTCC---------------------------------
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2722123 44 +   3667625 ACATAGA--CTAGATTTCTATTGGAAAC-----TAGGAGAGTCTATGATTT-
i dasNov3.JH567306         C 0 I 1
e micMur3.chr12             60616871 90 + 108143057 I

a score=568202.000000
s hg38.chr5_KI270796v1_alt    162059 47 +    172708 AAACTACAAATTACATCTTGCTTCCAGATTTCC---AA--G----AGTTTTTCCTT
s panTro5.chr5             125276202 47 + 181907262 AAACTACAAATTTCATCTTGCTTCCAGATTTCC---AA--G----AGTTTTTCCTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126607005 47 + 183735486 AAACTACAAATTTCATCTTGCTTCCAGATTTCC---AA--G----AGTTTTTCCTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1798840 38 +   8933513 AAACTACAAATTTCATCTTGCTTCC------------A--G----AGATTTTCCTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139929727 47 + 163208435 ATACTACAAATTTCATCTTGCTTCCAGATTTCC---AA--G----AGTTTTTCCTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122915202 47 + 180051392 ATACTACAAATTTCATCTTGCTTCCAGATTTCC---AA--G----AGTTTTTCCTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124338827 47 + 181584905 ATACTACAAATTTCATCTTGCTTCCAGATTTCC---AA--G----AGTTTTTCCTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16337523 47 +  18395747 ATACTACAAATTTCATCTTGCTTCCAGATTTCC---AA--G----AGTTTTTCCTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5348889 47 +  26952557 ATACTACAAATTTCATCTTGCTTCCAGATTTCC---AA--G----AGTTTTTCCTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28449718 47 +  82825804 ATACTACAAATTTCATCTTGCTTCCAGATTTCC---GA--G----AGTTTTTCCTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4120089 47 -   4237731 ATACTACAAATTTCATCTTGCTTCCAGATTTCC---AA--G----AGTTTTTCCTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      388916 47 -   1175262 ATACTACAAATTTCCTCTTGCTTCCAGATTTCC---AA--G----AGTGTTTCCTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123749948 47 - 204313951 ACACTACAAATTTCATTTTGCTTCCAGATTTCT---AA--G----AGTTTTTCCTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55790777 47 -  71252344 ACTCTACAAATTTCATTTTGCTTCCAAATTTCT---AA--G----AGTTTTTCCTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       94209 47 -   3089952 ACACTACAAATTTCATTTTGCTTCCAGATTTCT---AA--G----GGTTTTTCCCT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13294754 47 -  42888418 ACACTACAAATTTCATTTTGCTTCCAGATTTCT---AA--G----GGTTTTTCCTT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3141185 46 +   4132165 ACACCCTGAATTTCACGTTGCTTACAGATTGCC----A--G----AGTTTTTCCTT
i otoGar3.GL873679         I 1 C 0
s mm10.chr18                55581778 49 +  90702639 ATACAGTAGGTTTCACTGTGCTTTCTGACATCA---AAACA----ACTCTTTTTTT
i mm10.chr18               I 3 C 0
s canFam3.chr11             14981617 51 +  74389097 ATACCCCAGGTTCTATGGTGCTTCCAGATTTCC---AA--GCAGAGGTTTTCTCCT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2722168 50 +   3667625 ACATCACATATTTCATGTTGCTTCCAGAGTTCCTGCCG--A----AGTTGTTCCTT
i dasNov3.JH567306         I 1 C 0
e micMur3.chr12             60616871 90 + 108143057 I
e proCoq1.NW_012155062v1     3652263 438 +  11683526 I

a score=38217.000000
s hg38.chr5_KI270796v1_alt    162106 3 +    172708 CAT
s panTro5.chr5             125276249 3 + 181907262 CAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126607052 3 + 183735486 CAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1798878 3 +   8933513 CAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139929774 3 + 163208435 CAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122915249 3 + 180051392 TAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124338874 3 + 181584905 TAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16337570 3 +  18395747 TAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5348936 3 +  26952557 CAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28449765 3 +  82825804 CAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4120136 3 -   4237731 CAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      388963 3 -   1175262 CAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123749995 3 - 204313951 CAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55790824 3 -  71252344 CAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       94256 3 -   3089952 CAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13294801 3 -  42888418 CAT
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55581827 3 +  90702639 CAT
i mm10.chr18               C 0 I 13
s canFam3.chr11             14981668 3 +  74389097 CAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2722218 3 +   3667625 CAG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60616871 90 + 108143057 I
e proCoq1.NW_012155062v1     3652263 438 +  11683526 I
e otoGar3.GL873679           3141231 0 +   4132165 C

a score=76476.000000
s hg38.chr5_KI270796v1_alt    162109 6 +    172708 ACCCTG
s panTro5.chr5             125276252 6 + 181907262 ACCCTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126607055 6 + 183735486 ACCCTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1798881 6 +   8933513 ACCCTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139929777 6 + 163208435 ACCCTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122915252 6 + 180051392 GCCCTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124338877 6 + 181584905 GCCCTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16337573 6 +  18395747 GCCCTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5348939 6 +  26952557 GCCCTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28449768 6 +  82825804 GCCCTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4120139 6 -   4237731 GCCCTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      388966 6 -   1175262 GCCCTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123749998 6 - 204313951 GCCCTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55790827 6 -  71252344 GCCCTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       94259 6 -   3089952 GCCCTG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13294804 6 -  42888418 GCCCTG
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14981671 6 +  74389097 GCCCTG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2722221 6 +   3667625 CTCCTG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60616871 90 + 108143057 I
e proCoq1.NW_012155062v1     3652263 438 +  11683526 I
e otoGar3.GL873679           3141231 0 +   4132165 C
e mm10.chr18                55581830 13 +  90702639 I

a score=3396434.000000
s hg38.chr5_KI270796v1_alt    162115 409 +    172708 tgatatggtttgactgtgtccccacccaaatctcatattgaattgtagtt--------ctccacgtgctgtaggagggactcagtgggaggtaattgaatcatggg---ggtggttatgctcatgctgttctcatgatagtgaggtaattgaatcatggggtcagttatcttcatgctgttctcatgat----agtgagttctcatgagatcagatggttttataaggggcttttcttactttgcttggcacttctctctcctgctgccatgtgaagaaggatgtgtttccttctccttctcctcctgctatg---at--gtttcctgaggcctccc---------cagccatgtggaactgtgagtcaatttaacctttttcctttaaaagttacccagtctcgggcacactttatagcagcatgagaatagcctaa
s panTro5.chr5             125276258 409 + 181907262 tgatatggtttgactgtgtccccacccaaatctcatattgaattgtagtt--------ctccatgtgctgtaggagggactcagtgggaggtaattgaatcatgggggtggtggttatgctcatgctgttctcatgatagtgaggtaattgaatcatggggtcagttatcttcatgctgttctcatgat----agtgagttctcatgagatcagatggttttataaggggcttttcttactttgcttggcacttctctctcctgctgccatgtgaagaaggatgtgtttccttctcctt------ctgctatgattat--gtttcctgaggcctccc---------cagccatgtggaactgtgagtcaatttaacctttttcctttaaaaattacccagtctcgggcacactttatagcagcatgagaatggactaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126607061 410 + 183735486 tgatatggtttgactgtgtccccacccaaatctcatattgaattgtagtt--------ctccatgtgctgtaggagggactcagtgggaggtaattgaatcatggg---ggtggttatgctcatgctgttctcatgatagtgaggtaattgaatcatggggtcagttatctgcatgctgttctcatgatagtgagtgagttctcatgagatcagatggttttataagtggcttttcttactttgcttggcacttctctctcctgctgccatgtgaagaaggatgtgtttcgttctcctt------ctgctatgattat--gtttcctgaggcctccc---------cagccatgtggaactgtgagtcaatttaacctttttcctttaaaaattacccagtctcgggcacactttatagcagcatgagaatggactaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1798887 359 +   8933513 tgatatggtttgactgtgtccccacccaaatctcatattgaattgtagtt--------ctccatgtgctgtaggagggactcagtgggaggtaattgaatcatggg---ggtggttatgctcatgctgttctcatgatagtg---------------------------------------------------agtgagttcccatgagatcagatggttttataaggggcttttcttactttgcttggcacttctctctcctgctgccatgtgaagaaggatgtgtttccttctcctt------ctgctatgattat--gtttcctgaggcctccc---------cagccatgtggaactgtgagtcaatttaacctttttcctttaaaaattacccagtctcgggcacactttatagcagcatgagaatggactaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139929783 358 + 163208435 tgatatggtttggctgtgtccccacccaaatctcatactgaattgtaatt--------ctccatgtgttgtaggagggactcagtgggaggtaattgaatcatggg---ggcggttatcctcatgctgttctcatg---------------------------------------------------atagagagtgagttctcatgagatcagatggttttatatggggcttttctta-tttgcttcgcacttctctctcctgctgccatgtgaagaaggatgtgtttccttctcctt------ctgctatgattat--gtttcctgaggcctccc---------cagccatgtggaactgtgagtcaatttaacctttttcctttaaaaattacccagtctcgggcacattttatagcaggatgagaatggactaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122915258 359 + 180051392 tgatatggtttggctgtgtccccacccaaatctcatattgaattgtagtt--------cctcatgtgttgtaggagggactcagtgggaggtaattgaatcatggg---ggcagttatcctcatgctgttctcatgatagtg---------------------------------------------------tgtgagttctcatgagatcggatggttttataaggggcttttcttcctttgcttggcacttctctctcctactgtcatgtgaagaaggacgtgtttccttctcctt------ctgctatgattat--gtttcctgaggcctccc---------cagccatgtggaactgtgagtcaacttaacctttttcctttaaaaattacccagtctcgggcatactttatagcagcatgagaatggattaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124338883 359 + 181584905 tgatatggtttggctgtgtccccacccaaatctcatattgaattgtagtt--------cctcatgtgttgtaggagggactcagtgggaggtaattgaatcatggg---ggcagttatcctcatgctgttctcatgatagtg---------------------------------------------------tgtgagttctcatgagatcagatggttttataaggggcttttcttcctttgcttggcacttctctctcctactgtcatgtgaagaaggacgtgtttccttctcctt------ctgctatgattat--gtttcctgaggcctccc---------cagccatgtggaactgtgagtcaacttaacctttttcctttaaaaattacccagtctcgggcacactttatagcagcatgagaatggattaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16337579 359 +  18395747 tgatatggtttggctgtgtccccacccaaatctcatattgaattgtagtt--------cctcatgtgttgtaggagggactcagtgggtggtaattgaatcatggg---ggcagttatcctcatgctgttctcatgatagtg---------------------------------------------------tgtgagttctcatgagatcagatggttttataaggggcttttcttcctttgcttggcacttctctctcctactgtcatgtgaagaaggacgtgtttccttctcctt------ctgctatgattat--gtttcctgaggcctccc---------cagccatgtggaactgtgagtcaacttaacctttttcctttaaaaattacccagtctcgggcacactttatagcagcatgagaatggattaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5348945 356 +  26952557 tgatatggtttggctgtgtccccacccaaatctcatattgaattgtagtt--------ccccatgtgttgtaggagggactcagtgggaggtaattgaatcatggg---ggcagttatcctcatgctgttctcatgatagtg---------------------------------------------------tgcgagttctcatgagatcagatggttttataaggagcttttcttcctttgcttggcacttctctctcctactgtcatgt---gaaggacgtgtttccttctcctt------ctgctatgattat--gtttcctgaggcctccc---------cagccatgtggaactgtgagtcaacttaacctttttcctttaaaaattacccagtctcaggcacactttatagcagcatgagaatggattaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28449774 355 +  82825804 TGATATGCC----ctgtgtccccacccaaatctcatattgaattgtggtt--------ccccatgtgttgtaggagggactcagtgggaggtaattgaatcatggg---ggcagttatcctcatgctgttctcatgatagtg---------------------------------------------------tgtgagttctcatgagatcagatggttttataaggggcttttcttcctttgcttggcacttctctctcctactatcatgtgaagaaggatgtgtttccttctcctt------ctgctatgattat--gtttcctgaggcctccc---------cagccatgtggaactgtgagtcaacttaacctttttcctttaaaaattacccagtctcaggcacactttatagcagcatgagaatggattaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4120145 359 -   4237731 tgatatggtttggctgtgtccccacccaaatctcatattgaattgtagtt--------ccccatgtgttgtaggagggactcagtgggaggtaattgaatcatggg---ggcagttatcctcatgctgttctcatgatagtg---------------------------------------------------tgtgagttctcatgagatcagatggttttataaggggcttttcttcctttgcttggcacttctctctcctactgtcatgtgaagaaggacgtgtttccttctcctt------ctgctatgattat--gtttcctgaggcctccc---------cagccatgtggaactgtgagtcaatgtaacctttttcctttaaaaattacccagtctcgggcacactttatagcagcatgagaatggattaa
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      388972 354 -   1175262 tgatatggtttggctgtgtccccacccaaatctcgtattgaattgtagtt--------ccccatgtgttgtaggagggactcagtaggaggtaactgaatcatggg---ggcagttatcctcatgctgttctcatgatagt-------------------------------------------------------gagttctcatgagatcagatggttttataaggggcttttcttcctttgcttggcacttctctctcctactgtcatgtgaagaaggacatgtttccttctcctt------ctgctatgattat--gtttcctgaggcctccc---------cagccatgtggaactgtgagtcaacttcacctttttcctttaaaaatta-ccagtctcaggcacactttatagcagcacgagaatggattaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123750004 367 - 204313951 tgatatggtttgactatgtccccacccaaatatcatcttaaattatagtt-ccataatccccataagttatagga-ggacccaatgagaggtaattgaatcatggg---ggtagttacacccatgctgctctcatggtaatg---------------------------------------------------agtgagttctcatgagattggatggttttataaggggcttttcttctcttgtttggtacttctctctcctgctgccatgtaaagaagaacgtgtttccttcttctt------ctgctatgattataagtttcctaaggcctctc---------cagacatgtggaactgtgaatcaatttaacctgttttctttataaattacccattcttgggcacactttatagcagcatgagaatggactaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55790833 365 -  71252344 tgatatggtttgaccatgtccccacccaaatcttatcttaaattatagttcccataatccccatatgttataggagggacccaatgagatgtaattgaatcatggg---ggtagttacacccatgctgctctcatggtaatg---------------------------------------------------agtgagttctcatgagatt-gatggttttataaggggcttttcttcccttgtttggcacttctctctcctgttgccatgtgaagaagaacgtgtttc---ctcctt------ctgctatgattataagtttcctaaggcctctc---------cagacatgtggaactgtgaatcaatttaaccttttttctttataaattacccattcttgggcacactttatggcagcatgagaatggactaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       94265 368 -   3089952 tgatatggtttgactatgtccccacccaaatctcatcttaaattatagttcccataatccccatatgttataggagggacccagtgagaggtaattgaatcatggg---ggtagttacacccatgctgctctcatggtaatg---------------------------------------------------agtaagttctcatgagattggatggttttataagggg-ttttcttcccttgtttggcactgccctctcctgctgccatgtgaagaagaatgtgttgccttcttctt------ctgctatgattataagtttcctaaggcctctc---------cagacatgtggaactgtgaatcaatttaaccttttttctttataaattacccattcttgggcacactttatagcagcatgagaatggactaa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13294810 378 -  42888418 tgatatggtttgacaatgtccccacccaaatcgcatcttaaattatagctcccataatccccatatgttataggagggacccaatgagaggtaattgaatcatggg---ggtagttgcacccatgctgctctcatggtaatg---------------------------------------------------agtgagttctcatgagattggatggttttataaggggcttttcttcccttgtttggcacttctctctcctgctgccatgtgaagaagaacatgtttccttctcctt------ctgctatgattataagtttcccaaggcctcttaagtttccaaagacatgtggaactgtgaatcaatttaaccttttttctttataaattacccattcttgggcacactttatagcagcttgagaatggactaa
i aotNan1.NW_018505940v1   C 0 C 0
e micMur3.chr12             60616871  90 + 108143057 I
e canFam3.chr11             14981677   0 +  74389097 C
e proCoq1.NW_012155062v1     3652263 438 +  11683526 I
e otoGar3.GL873679           3141231   0 +   4132165 C
e dasNov3.JH567306           2722227   0 +   3667625 C
e mm10.chr18                55581830  13 +  90702639 I

a score=94956.000000
s hg38.chr5_KI270796v1_alt    162524 9 +    172708 cacaTCCTA
s panTro5.chr5             125276667 9 + 181907262 cacaTCCTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126607471 9 + 183735486 cacaTCCTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1799246 9 +   8933513 cacaTCCTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139930141 9 + 163208435 tacaTCCTG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122915617 9 + 180051392 tacaTCCTG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124339242 9 + 181584905 tacaTCCTG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16337938 9 +  18395747 tacaTCCTG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5349301 9 +  26952557 tacaTCCTG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28450129 9 +  82825804 tacaTCCTG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4120504 9 -   4237731 tacaTCCTG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      389326 9 -   1175262 tacaTCCTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123750371 9 - 204313951 tacaTCCTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55791198 9 -  71252344 tataTCCTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       94633 9 -   3089952 tacaTCCTG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13295188 9 -  42888418 tacaTCCTG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3141231 9 +   4132165 CACGTCTTA
i otoGar3.GL873679         C 0 C 0
e micMur3.chr12             60616871 90 + 108143057 I
e canFam3.chr11             14981677 0 +  74389097 C
e proCoq1.NW_012155062v1     3652263 438 +  11683526 I
e dasNov3.JH567306           2722227 0 +   3667625 C
e mm10.chr18                55581830 13 +  90702639 I

a score=74653.000000
s hg38.chr5_KI270796v1_alt    162533 7 +    172708 CCTTAAG
s panTro5.chr5             125276676 7 + 181907262 CCTTAAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126607480 7 + 183735486 CCTTATG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1799255 7 +   8933513 CCTTAAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139930150 7 + 163208435 CCTTATG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122915626 7 + 180051392 CCTTATG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124339251 7 + 181584905 CCTTATG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16337947 7 +  18395747 CCTTATG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5349310 7 +  26952557 CCTTATG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28450138 7 +  82825804 CCTTATG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4120513 7 -   4237731 CCTCATG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      389335 7 -   1175262 CCTTCTG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123750380 7 - 204313951 CCTTATG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55791207 7 -  71252344 CCTTATG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       94642 7 -   3089952 CCTTATG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13295197 7 -  42888418 CCTTATG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3141240 7 +   4132165 CCTCGCA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14981677 7 +  74389097 GCGTACA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2722227 7 +   3667625 CCTTACA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60616871 90 + 108143057 I
e proCoq1.NW_012155062v1     3652263 438 +  11683526 I
e mm10.chr18                55581830 13 +  90702639 I

a score=55004.000000
s hg38.chr5_KI270796v1_alt    162540  7 +    172708 AAAT----AGA
s panTro5.chr5             125276683  7 + 181907262 AAAT----AGA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126607487  7 + 183735486 AAAT----AGA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1799262  7 +   8933513 AAAT----AGA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139930157  7 + 163208435 AAAT----TGG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122915633  7 + 180051392 AAAT----TGG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124339258  7 + 181584905 AAAT----TGG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16337954  7 +  18395747 AAAT----TGG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5349317  7 +  26952557 AAAT----TGG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28450145  7 +  82825804 AAAT----TGG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4120520  7 -   4237731 AAAT----TGG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      389342 11 -   1175262 AAATTACCTGG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123750387  7 - 204313951 AAAT----TTG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55791214  7 -  71252344 AAAT----TTG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       94649  7 -   3089952 AAAT----TTG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13295204  7 -  42888418 AAAT----TTG
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3141247  7 +   4132165 AATT----TTA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55581843  7 +  90702639 AAAT----TTG
i mm10.chr18               I 13 C 0
s canFam3.chr11             14981684  7 +  74389097 ACAT----CCA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2722234  7 +   3667625 AAAT----ATA
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60616871 90 + 108143057 I
e proCoq1.NW_012155062v1     3652263 438 +  11683526 I

a score=1700337.000000
s hg38.chr5_KI270796v1_alt    162547 126 +    172708 -----------TAAAGAA-------TGGCCTTG---------GGAGAAAACTGTTGCCACCAGGCAATTGCCTTTTGACTGGGCACACACCTTTGTTGTCTCTATGGTTCCTTA---------------------ATGTCA--ATATTACTTAATATAT-------AATGCTTCAACTCAGAG
s panTro5.chr5             125276690 126 + 181907262 -----------TAAAGAA-------TGGCCTTG---------GGAGAAAACTGTTACCACCAGGCAATTGCCTTTTGACTGGGCACACACCTTTGTTGTCTCTATGGTTCCTTA---------------------ATGTCA--ATATTACTTAATATAT-------AATGCTTCAACTCAAAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126607494 126 + 183735486 -----------TAAAGAA-------TGGCCTTG---------GGAGAAAACTGTTACCACCAGGCAATTGCCTTTTGACTGGGCACACACCTTTGTTGTCTCTATGGTTCCTTA---------------------ATGTCA--ATATTACTTAATATAT-------AATGCTTCAGCTCAGAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1799269 126 +   8933513 -----------TAAAGAC-------TGGCCTTG---------GGAGAAAACTGTTACCACCAGGCAATTGCCTTTTGACTGGGCACACACCTTTGTTGTCTCTATGGTTCCTTA---------------------ATGTCA--ATATTACTTAATACAT-------AATGCTTCAACTCAAAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139930164 126 + 163208435 -----------TAAAGAA-------TGGACTTG---------GGAGAAAACTGTTACCACCAGGCAATTGCCTTTTGACTAGGGACACACCTTTGTTGTCTCTATGGTTCCTTA---------------------ATGTCA--ATATTACTTAATATAT-------AATGCTTCAACTCAGAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122915640 126 + 180051392 -----------TAAAGAA-------TGGCCTTG---------TGAGAAAACTGTTACCACCAGGCAATTGCCTTTTGACTGGGCACACACCTTTGTTGTCTCTATGGTTCCTTA---------------------ATGTCA--ATATTACTTAATATAT-------AATGCTACAACTCAGAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124339265 126 + 181584905 -----------TAAAGAA-------TGGCCTTG---------TGAGAAAACTGTTACCACCAGGCAATTGCCTTTTGACTGGGCACACACCTTTGTTGTCTCTATGGTTCCTTA---------------------ATGTCA--ATATTACTTAATATAT-------AATGCTACAACTCAGAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16337961 126 +  18395747 -----------TAAAGAA-------TGGCCTTG---------TGAGAAAACTGTTACCACCAGGCAATTGCCTTTTGACTGGGCACACACCTTTGTTGTCTCTATGGTTCCTTA---------------------ATGTCA--ATATTACTTAATATAT-------AATGCTACAACTCAGAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5349324 126 +  26952557 -----------TAAAGAA-------TGGCCTTG---------TGAGAAAACTGTTACCACCAGGCAATTGCCTTTTGACTGGGCACACACCTTTGTTGTCTCTATGGTTCCTTA---------------------ATGTCA--ATATTACTTAATATAT-------AATGCTACAACTCAGAG
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28450152 126 +  82825804 -----------TAAAGAA-------TGGCCTTG---------TGAGAAAACTGTTACCACCAGGCAATTGCCTTTTGACTGGGCACACACCTTTGTTGTCTCTATGGTTCCTTA---------------------ATGTCA--ATATTACTTAATATAT-------AATGCTACAACTCAGAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4120527 126 -   4237731 -----------TAAAGAA-------TGGCCTTG---------TGAGAAAACTGTTACCACCAGGCAATTGCCTTTTGACTGGGCACACACCTTTGTTGTCTCTATGGTTCCTTA---------------------ATGTCA--ATATTACTTAATATAT-------AATGCTACAACTCAGAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      389353 126 -   1175262 -----------TAAAGAA-------CGGCCTTG---------TGAGAAAACTGTTACCACCAGGCAATCGCCTTTTGACTGGGCACGCACCTTTGTTGTCTCTATGATTCCTTA---------------------ATGTCA--ATGTTACTTAATATAT-------AATGCTACAACTCAGAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123750394 122 - 204313951 -----------TAAAGAA-------AGGTCTTG---------GGAGAAAAGTGTTA----CAGGCAATTGCCTTTTGACTGGGCACACACCTCTGTAGTCTCTGTGGCTCCTTA---------------------AAGTCA--ATATTACTTAATATAT-------AATACTTCAACTCAGAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55791221 122 -  71252344 -----------TAAAGAA-------AGACTTTG---------GGCTAAAACTGTTA----CAGGCAGTTGCCTTTTGACTGGGCACACACCTCTGTAGTCTCTGTGGCTCCTTA---------------------AAGTCA--ATATTACTTAATTTAT-------AATGCTTCAACTCAGAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       94656 120 -   3089952 -----------TAAAGAA-------AGGCCTTG---------GGAGAAAAC--TTA----CAGGCAATTGTCTTTTGACTGGGCACACACCTCTGTAGTCTCTGTGGCTCCTTA---------------------AAGTCA--ATATTACTTAATATAT-------AAAGCTTCAACTCAGAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13295211 122 -  42888418 -----------TAAAGAA-------AGGCCTTG---------GGAGAAAACTGTTA----CAGTCAATTGCCTTTTGACTGGGCATACACCTCTGTAGACTCTGTGGCTCCTTA---------------------AAGTCA--ATATTACTTAATATAT-------AATGTTTCAACTCAGAG
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60616961 126 + 108143057 -----------TAAAGAA-------TGGCCTTG---------GGAGAAACGTATTACCATAAGGCAGTTGCCTTTTGAGTGGACACACATATTTGTAATCTTTTTGCTTCCTTA---------------------ATCTCA--ATACTACTTAATATAC-------AATGCTTCAGCTAAGAG
i micMur3.chr12            I 90 I 15
s otoGar3.GL873679           3141254 123 +   4132165 -----------TAAAGAA-------TGACCTTG---------GGAGGAACTAACCACTGCAAGGCAGTTGGCTTTT-ACTCTGTACCAACATTTATA---------CTTCTGTA---------------------AACTCA--ACACTACTTACTATACATAGTTTAATGCTTCGACTAAGAA
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55581850 126 +  90702639 -----------TAAAGAA-------AGGCCTTG---------AGGGAAAAGAATTTCCATGGGACAATTGCTTTTCAACTGGGCACATACCTTTCTGGCATTTAGAATTCCTAA---------------------AACCAA--ATATTGCTTAATACAT-------AGTGCTTCAACTAAGAA
i mm10.chr18               C 0 C 0
s canFam3.chr11             14981691 126 +  74389097 -----------TAAAGAA-------TGGCCTTG---------GAAGTAAAGTATTTCCATAAGGCAATTGCCTTATAAGTGAGCACACACCTTTGCAGCCTCTATGCTTCCTTA---------------------AACACA--GTGCAACTTAATACAT-------AATGCTTCAACTAAGAG
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2722241 176 +   3667625 CAATGGCCTTATATGGAAGTTGCAGTAGCCTTGTTTTTCTTATGAGAAATGTATTATCACAAGACAAGTGCCTTTTACCTGAGCACACATTTTTGAAGCCTTTATGCATCCTTAAGCCTGGGATTTGGCTTATTTATATCATTATATTCCTTAATTTAT-------AATGCTTCAAATACAAG
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3652263 438 +  11683526 I

a score=592222.000000
s hg38.chr5_KI270796v1_alt    162673 59 +    172708 AATGAGTAACTCCAAGTGTAACCACATGGCAGAGTTA----TGGATATTACCTT---CAACAACTG
s panTro5.chr5             125276816 59 + 181907262 AATGAGTAACTCCAAGTGTAACCACATGGCAGAGTTA----TGGATATTACCTT---CAACAATTG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126607620 59 + 183735486 AATGAGTAACTCCAAGTGTAATCACATGGCAGAGTTA----TGGATATTACCTT---CAACAATTG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1799395 59 +   8933513 AATGAGTAACTCCAAGTGTAACCACATGGCAGAGTTA----TGGATATTACCTT---CAACAATTG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139930290 54 + 163208435 AATGAGTAACTCCAAGTGTAACCACATGGCAGACTTA----TGGATATTACCTT---CAAC-----
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122915766 54 + 180051392 AATGAGTAACTCCAAGTGTAACCACATGGCAGAGTTA----TGGATATTACCTT---CAAC-----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124339391 54 + 181584905 AATGAGTAACTCCAAGTGTAACCACATGGCAGAGTTA----TGGATATTACCTT---CAAC-----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16338087 54 +  18395747 AATGAGTAACTCCAAGTGTAACCACATGGCAGAGTTA----TGGATATTAGCTT---CAAC-----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5349450 54 +  26952557 AATGAGTAACTCCAAGTGTAACCACATGGCAGAGTTA----TGGATATTACCTT---CAAC-----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28450278 54 +  82825804 AATGAGTAACTCCAAGTGTAACCACATGGCAGAGTTA----TGGATATTACCTT---CAAC-----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4120653 54 -   4237731 AATGAGTAACTCCAAGTGTAACCACATGGCAGAGTTA----TGGATATTACCTT---CAAC-----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      389479 54 -   1175262 AATGAGTAACTCCAAGTGTAACCACATGGCAGAGTTA----TGGATTTTACCTT---CAAC-----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123750516 54 - 204313951 AATGAGTAATTTCAAGTGTAAACACATGGCAGAGTTA----TGGATATTACCTT---CAAC-----
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55791343 54 -  71252344 AATGAATAACTTCAAGTGTAAACACATGGCAGAGTTA----TGGATATTACCTT---CAAC-----
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       94776 54 -   3089952 AATGAGTAACTTCAAGTGTAAACACATGGCAGAGTTA----TGGATATTACCTT---CAAT-----
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13295333 54 -  42888418 AATGAGTAACTTCAAGTGTAAACACATGGCAGAGTTA----TGGACATTACCTT---CAAC-----
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3141377 15 +   4132165 -------------------------------------------GATAGCATCTT---GAAC-----
i otoGar3.GL873679         C 0 I 2
s mm10.chr18                55581976 58 +  90702639 GGTGTGAAACCTCTACCTTACACCCATGGGACAGTTGCATCTGTCCATCATTCT---GTTC-----
i mm10.chr18               C 0 C 0
s canFam3.chr11             14981817 54 +  74389097 AATGAGAAACTTCAAGTACAAACACATGGCAGCTTTC----TGGAAATCAACTT---GAGT-----
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2722417 56 +   3667625 AATAAGAAACTTTGAGTG-AAAAGCAAGTCCGAGTTG----TGAAAATCACTTTGACCAAC-----
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60617087 15 + 108143057 I
e proCoq1.NW_012155062v1     3652263 438 +  11683526 I

a score=505304.000000
s hg38.chr5_KI270796v1_alt    162732 33 +    172708 AATTGTTAAGAAGGAAGAATGCTTGATCTT----AAA----
s panTro5.chr5             125276875 33 + 181907262 AATTGTTAAGAAGGAAGAATGCTTGACCTT----AAA----
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126607679 33 + 183735486 AATTGTTAAGAAGAAAGAATGCTTGATCTT----AAA----
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1799454 33 +   8933513 AATTGTTAAGAAGGAAGAATGCTTGATCTT----AAA----
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139930344 33 + 163208435 AATTGTTAAGAAGGAAGAATGCTTAATCTT----AAA----
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122915820 33 + 180051392 AATTGTTAAGAAGGAAGAATGCTTGATCTT----AAA----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124339445 33 + 181584905 AATTGTTAAGAAGGAAGAATGCTTGATCTT----AAA----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16338141 33 +  18395747 AATTGTTAAGAAGGAAGAATGCTTGATCTT----AAA----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5349504 33 +  26952557 AATTGTTAAGAAGGAAGAATGCTTGATCTT----AAA----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28450332 33 +  82825804 AATTGTTAAGAAGGAAGAATGCTTGATCTT----AAA----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4120707 33 -   4237731 AATTGTTAAGAAGGAAGAATGCTTGATCTT----AAA----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      389533 33 -   1175262 AATTGTTAAGAAGGAAGAATGCTTGATCTT----AAA----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123750570 37 - 204313951 AATTGTTAAGAAGGAAGAATGCTTGACCTTAAACAAA----
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55791397 37 -  71252344 AATTGTTAAGAAGGAAGAATGCTTGACCTTAAACAAA----
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       94830 37 -   3089952 AATTGTTAAGAAGGAAGAATGCTTGACCTTAAACAAA----
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13295387 37 -  42888418 AATTGTTAAGAAGGAAGAATGCTTGACTTTAAACAAA----
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60617102 33 + 108143057 AATTGTTAAGAAAGAAGAATGCTTGATCTT----AAA----
i micMur3.chr12            I 15 I 200
s otoGar3.GL873679           3141394 31 +   4132165 --TTGTTAGAAAAGAAAAATGCTTAATCTT----AAA----
i otoGar3.GL873679         I 2 I 4
s mm10.chr18                55582034 32 +  90702639 AATTG-TAAGAAGGAAGAATGTTGGGTAAT----AAC----
i mm10.chr18               C 0 I 3
s canFam3.chr11             14981873 33 +  74389097 AACTGTCAAGAAGGAAGATTGCTTAATCTT----AAA----
i canFam3.chr11            I 2 I 4
s dasNov3.JH567306           2722473 34 +   3667625 ---TGTTAAGAAGAAAGAATGTTTGATTGT----AAACAAA
i dasNov3.JH567306         C 0 C 0
e proCoq1.NW_012155062v1     3652263 438 +  11683526 I

a score=2069386.000000
s hg38.chr5_KI270796v1_alt    162765 200 +    172708 TCCCTAGAAAAAAA---CATAATATCTAATATTTCAGATATTTGTCAGTAACCCCTAGTTAATTTGA-TATTTAACTTTG---GTG------AAATATTATTCT-TGG-AATAATATTGGAATAAATACTTCTACTGAATCTGAGAAAT-ACAATCGAAATCACCCAAACTAAATGTC-----TTTTTCTT-AAAAAAAAAG-------TG-----GAGGA-GG---GGG-CTCCTAAA
s panTro5.chr5             125276908 204 + 181907262 TCCCTGGAAAAAAA---CATAATATCTAATATTTCAGATATTTGTCAGTAACCCCTAGTTAATTTGA-TATTTAACTTTG---GTG------AAATATTATTCT-TGG-AATAATATTGGAATAAATACTTTTACTGAATCTGAGAAAT-ACAATCGAAATCACCCAAACTAAATGTC---TTTTTTTCTTAAAAAAAAAAG-------TG-----GAGGA-GG---GGGTCTCCTAAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126607712 200 + 183735486 TCCCTAGAAAAAAA---CATAATATCTAATATTTCAGACATTTGTCAGTAACCCCTAGTTAATTTGA-TATTTAACTTTG---GTG------AAATATTATTCT-TGG-AATAATATTGGAATAAATACTTTTACTGAATCTGAGAAAT-ACAATCGAAATCACCCAAACTAAATGTC-----TTTTTCTT-AAAAAAAAAG-------TG-----GAGGA-GG---GGT-CTCCTAAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1799487 200 +   8933513 TCCCTAGAAAAAAC---CATAATATCTAATATTTCAGATATTTGTCAGTAACTCTTAGTTAATTTGA-TATTTAACTTTG---GTG------AAGTATTATTCT-TGG-AATAATATTGGAATAAATATTTTTACTGAATCTGAGAAAT-ACAATCAAAATCACCCAAACTAAATGTC-----TTTTTCTT-AAGAAAAAAG-------TG-----GAGGA-GG---GGT-CTCCTAAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139930377 212 + 163208435 TCCCTAGAAAAAAA-ACCACAATATCTAATATTTCAGATATTTGTCAGTAACCCCTAGTTAATTCAA-TATTTAACTTTG---GTGAAA--TAAATATTATTCT-TGG-AATAATATTGGAATAAATACTTTTACTGAATCTGAGAAATAACAATCAAAATCACCCAAACTAAATGCCTTTTTTTTTTCTT-AAAAAAAAAA-------TG-----GAGGC-AG---GGT-CTCCTAAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122915853 199 + 180051392 TCCCTAGAAAAAAA---CACAATATCTAATATTTCAGATATTTGCCAGTAACCCCTAGTTAATTCAA-TATTTAACTTTG---ATGAAA--TAAATATTATTCT-TAG-AATAATATTGGAATAAATATTTTTACTGAATC--AGAAAT-ACAATCAAAATCACCCAAACTAAATGTC---TTTTTTTCTT-TAAAAAAA---------TG-----GAGGG-G------T-CTCCTACA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124339478 199 + 181584905 TCCCTAGAAAAAAA---CACAATATCTAATATTTCAGATATTTGCCAGTAACCCCTAGTTAATTCAA-TATTTAACTTTG---ATGAAA--TAAATATTATTCT-TAG-AATAATATTGGAATAAATATTTTTACTGAATC--AGAAAT-ACAATCAAAATCACCCAAACTAAATGTC---TTTTTTTCTT-TAAAAAAA---------TG-----GAGGG-G------T-CTCCTACA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16338174 199 +  18395747 TCACTAGAAAAAAA---CACAATATCTAATATTTCAGATATTTGCCAGTAACCCCTAGTTAATTCAA-TATTTAACTTTG---ATGAAA--TAAATATTATTCT-TAG-AATAATATTGGAATAAATATTTTTACTGAATC--AGAAAT-ACAATCAAAATCACCCAAACTAAATGTC---TTTTTTTCTT-TAAAAAAA---------TG-----GAGGG-G------T-CTCCTACA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5349537 202 +  26952557 TCCCTAGAAAAAAG---CACAATATCTAATATTTCAGATATTTGCCAGTAACCCCTAGTTAATTCAA-TATTTAACTTTG---ATGAAA--TAAATATTATTCT-TGG-AATAATATTGGAATAAATATTTTTACTGAATC--AGAAAT-ACAATCAAAATCACCCAAACTAAATGTC---TTTTTTTCTT-AAAAAAAA---------TG-----GAGGA-GG---GTT-CTCCTACA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28450365 202 +  82825804 TCCCTAGAAAAAAA---CACAATATCTCATATTTCAGATATTTGCCAGTAACTCCTAGTTAATTCAA-TATTTAACTTTG---ATGAAA--TAAATATTATTCT-TGG-AATAATATTGGAATAAATATTTTTACTGAATC--AGAAAT-ACAATCAAAATCACCCAAACTAAATGTC---TTTTTTTCTT-AAAAAAAA---------TG-----GAGGA-GG---GTT-CTCCTACA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4120740 202 -   4237731 TCCCTAGAAAAAAA---CACAATATCTAATATTTCAGATATTTGCCAGTAACCCCTAGTTAATTCAA-TATTTAACTTTG---ATGAAA--TAAATATTATTCT-TGG-AATAATATTGGAATAAATATTTTTACTGAATC--AGAAAT-ACAATCAAAATCACCCAAACTAAATGTC---TTTTTTTCCT-AAAAAAAA---------TG-----GAGGA-GG---GTT-CTCCTGCA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      389566 207 -   1175262 TCCCTAGAAAAAAA---CACAATATCTAATATTTCAGATATTTGCCAGTAACCCCTAGTTAATTCAA-TATTTAACTTTG---GTGAAA--TAAATATTATTCT-TGG-AATAATATTGGAATAAATGTTTTTACTGAATCTGAGAAAT-ACAATCAAAATCACCCAAACTAAATGTC---TTTTTTTCTT-AAAAAAAA---------AA-----AAGGA-GGAGAGGT-CTCCTATA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123750607 203 - 204313951 CCTCTAGAAAAAAA---CACAATATCTAATGTTTCAAATATTTCTCAGTAACTCCTAATTAATTCAA-TATTTAACTTTG---ATGAAA---AAATATTATTTG-TGG-AATAATATTAGCATAAATATTTTTACTGAATCTGAGGAAT-ACAATCAAAACCACCCAAACTAAATATC---TTTTTTCCCT-TAAAAAAA---------TG-----GAGGA-GG---GGT-CTCCTAAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55791434 203 -  71252344 TCCCTAGAAGAAAA---CACAATATCTAATATTTCACATATTTCTCAGTAACTCCTAATTAATTCAA-TATTTAACTTTG---ATGAAG--TAAATATTATTCA-TGG-AATAATATTAGCATAAATATTTTTACTGAATCCGAGGAAT-ACAATCAAAACCACCCAAACCAAATATC---TTTTTTCCCT-T-AAAAAA---------TG-----GAGGA-GG---GGT-CTCCTAAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       94867 202 -   3089952 TCCCTAGAAGAAAA---CACAATATCTAATATTTCAGATATTTCTCAGTAACTCCTAATTAATTCAA-TATTTAACTTTG---ATGAAA--TAAATATTATTCA-TGG-AATAATATTAGCATAAATATTTTTACTGAATCTGAGGAAT-ACAGTCAACACCATCCAAACTAAATATC---TTTTTTCCCT-T---AAAA---------TG-----GAGGAGGG---GGT-CTCCTAAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13295424 204 -  42888418 TCCCTAGATGAAAA---CACAATATCTAATATTTCAGATATTTATCAGTAACTCCTAATTAATTCAA-TATTTAACTTTG---ATGAAA--TAAATATTATTCG-TGG-AATAATATTAGCATAAATATTTTTACTGAATCTGAGGAAT-ACAATCGAAACCATCAAAACTAAATGTC---TTTTTTCCCT-TAAAAAAA---------TG-----GAGGA-GG---GGT-CTCCTAAA
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3141429 165 +   4132165 TGCCTACAAGAAAA---CATCATGTCTAACATTGCAGATATTTA--------CACAAGGTAACTCAGTTATTTAACTTTG---AAAAAAAACAGGCATTATTCT-TGT-AG------------AAACTATTTTACTGGATCTAAGAAAT-ATAATAAAAGTCACCTGAGC------TC--------------------AA---------TG-----GAGTG-GA---AGT-CCCCGAAG
i otoGar3.GL873679         I 4 C 0
s mm10.chr18                55582069 203 +  90702639 TGCCTAGAAAAAAAAAACATAATATCTAATATTTCAAATACTTACTAGTAGCCCCCAAGCTATTCAA-CATATAACTTTG---ACAAAA--TATATATTAAGCT-TGGCAAAAATATTG-------------TACTGGGTCAAAGAAAT-ATAA-CAAAATCACCTGTGCTGAAAGCT---TTTCTTTGAA-aaaaaaaaagaaaagaaaa-----gaaaa-ga---GGA-ACCACAAA
i mm10.chr18               I 3 I 1
s canFam3.chr11             14981910 183 +  74389097 TGCCTGGAAAAAAG---CATACTGTCTAATATTTCAGATATTTATCAGCAATCTCTAGGCAATTCAA----------TTG---ACACAA--TAGGTATTATTCTCTGG-GAAAATATTG-------------TACTAGATCTCAGAAAT-ATAA---AAATCATGGGACCCGAATGAC---TTTTTTTCTT-GAAAAAAC---------TG-----GGGGG-GGGGGGGT-CTTTGAAG
i canFam3.chr11            I 4 C 0
s dasNov3.JH567306           2722507 185 +   3667625 TGCCCGCAAGAAGT---CATAATATCTAAAATT-CAAAAAGTCACTAGCAAACCCTTGATAATTCAA-TATTCAACTTTGAATACAAAA--TAGATATCATTCC-TGG-AG------------AAAATATTTTACTGAATCTAAGAAAT-ACAGTAAAAATTACCTGAGCAGAATGAT---GTTTTTTCCT-TGAGAAAA---------TGTCCTCAAAG-------------------
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60617135 200 + 108143057 I
e proCoq1.NW_012155062v1     3652263 438 +  11683526 I

a score=1885730.000000
s hg38.chr5_KI270796v1_alt    162965 128 +    172708 TGAAAATGATGTACTAAAGA-TTACATAAAATACAACATAAACATTTTATAAG-----GGGTAGACAGGAAAGTAATGA-GCCTTTTGGGTCAGTAGTAAAAATGC--------------------AAGCACCCATTATGCATACAAA-GAATCTA
s panTro5.chr5             125277112 128 + 181907262 TGAAAATGATGTACTAAAGA-TTACATAAAATACAACATAAAAATTTTATAAG-----GGGTAGACAGGAAAGTAATGA-GCCTTTTGGGTCAGTGGTAAAAATGC--------------------AAGCACCCATTATGCATACAAA-GAATCTA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126607912 128 + 183735486 TGAAAATGATGTACTAAAGA-TTACATAAAATACAACATAAAAATTTTATAAG-----GGGTAGACAGGAAAGTAATGA-GCCTTTTGGGTCAGTAGTAAAAATGC--------------------AAGCACCCATTATGCATACAAA-GAATCTA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1799687 128 +   8933513 TGAAAATGATGTACTAAAGA-TTACATAAAATACAACATAAAAATTTTATAAG-----GGGTAGACAGGAAAGTAATGA-GCCTTTTGGGTCAGTAGTAAAAATGC--------------------AAGCACCCATTATGCATACAAA-GAATCTA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139930589 148 + 163208435 TGAAAATGATGTACTAAAGA-TTACATAAAATACAACATAAAAATTTTATAAG-----GGGTAGACAAGAAAGCAGTGA-GCCTTTTGGATCAGTAGTAAAAACACAAGCACCCATTATGCATACAAAGCACCCATTATGCATACAAA-GAATCTA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122916052 128 + 180051392 TGAAAATGATGTACTAAGGA-TTACACAAAATACAACATAAACATTTTATAAG-----GGGTAGACAGGAAAGCAATGA-GCCGTTTGGGTCAGCAGTAAAAATAC--------------------AAGCACCCATTATGCATACGAA-GAATCTA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124339677 128 + 181584905 TGAAAATGATGTACTAAGGA-TTACACAAAATACAACATAAACATTTTATAAG-----GGGTAGACAGGAAAGCAATGA-GCCGTTTGGGTCAGCAGTAAAAATAC--------------------AAGCACCCATTATGCATACGAA-GAATCTA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16338373 128 +  18395747 TGAAAATGATGTACTAAGGA-TTACACAAAATACAACATAAACATTTTATAAG-----GGGTAGACAGGAAAGCAATGA-GCCGTTTGGGTCAGCAGTAAAAATAC--------------------AAGCACCCATTACGCATACGAA-GAATCTA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5349739 133 +  26952557 TGAAAATGATGTACTAAGGA-TTACATAAAATACAACATAAAAATTTTATAAGGGGTAGGGTAGACAGGAAAGCAATGA-GATGTTTGGGTCAGCAGTAAAAATAC--------------------AAGCACCCATTATGCATACAAA-GGATCTA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28450567 128 +  82825804 TGAAAATGATGTACTAAGGA-TTACATAAAATACAACATAAAAATTTTATAAG-----GGGTAGACAGGAAAGCAATGA-GCCGTTTGGGTTAGCAGTAAAAATAC--------------------AAGCACCCATTATGCATACAAA-GAATCTA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4120942 128 -   4237731 TGAAAATGATGTACTAAGGA-TTACATAAAATACAACATAAAAATTTTATAAG-----GGGTAGACAGGAAAGCAATGA-GACGTTTGGGTCAGCAGTAAAAATAC--------------------AAGCACCCATTATGCATACAAA-GAATCTA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      389773 128 -   1175262 TGAAAATGATGTACTAAGGA-TTACATATAATACAATATAAAAATTTTATAAG-----GGGTAGACAGGAAAGCAATGA-GCCATCTGGGTCAGCAGTAAAAATAC--------------------AAGCACCCATTGTGCATACAAA-GAATCTA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123750810 127 - 204313951 TGAAAATGATGTACTAAAGA-TAACataaaatataatataaaaattttataa------GGGTAGACAGGAAGGTAATGA-GTCTTTTGGGTCAGTAGTAAAAATAT--------------------AAGCACCCATTATCTATACAAA-TAATCTA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55791637 127 -  71252344 TGAAAATGATGTACTAAAGA-TAACACAAAATACAACATAAAAATTTTGTAA------GGGTAGACAGGAAGGCAACGA-GTCTTTTGGGTCAGTAGTAAAAATAC--------------------AAGCACCCATTATCTATACAAA-TAATCTA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       95069 127 -   3089952 TGAAAATGATGTATTAAAGA-TAACATAAAATACAACATAAACATTTTATAA------GGGTAGACAGGAAGGCAATGA-GTCTTTTGGGTCAGTAGTAAAAATAC--------------------AAGCACCCATTATCTATACAAA-CAATCTA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13295628 128 -  42888418 TGAAAATGATGTACTAAAGA-TAACATAAAATACAACATAAAAATTTTATAA------GGGTAGACAGGAAGGCAATGA-GTCTTTTGGGTCAGTAGTAAAAATAC--------------------AAGCACCCATTATCTAAACAAGTTGGTCTA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60617335 128 + 108143057 TGAAAATGATGTGCTAAGGA-TAATATAAAATACAACAATAAAATTGTAAAAG-----TGGTAGACAGGAAGGCAATGA-GTCTTTCTGGTCAGTAGTGAAGATAC--------------------AAGCACAAAGCATGCATACAAA-GTATCTA
i micMur3.chr12            I 200 I 58
s proCoq1.NW_012155062v1     3652701 128 +  11683526 TGAAAATGATGCGCTAAGGA-TGATATAAAATACAACATTAAAATTGTACAAG-----GGGTGGACAGGAAGGCAACGA-GTCTTTGGAGTCAGTAGTGAAAATAC--------------------AAGCACCAAGAATGCAAACAAA-GTATCTA
i proCoq1.NW_012155062v1   I 438 C 0
s otoGar3.GL873679           3141594 124 +   4132165 TGAAAATGATGTGTTAAGGA-TAATATAAAATACAACATTAAAATTGTATAAG-----GGGCAGACAGGAAGGCAAGGA-ATCTTTCTGGTCAGTAGTAAAAATAT--------------------AAGCACCAATAATGCATACAAA-GTA----
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55582273 128 +  90702639 CAAAACTGATACACTTGAGACTCTTATAAAATCTGATATTGAATTTCTTTAG------GAGTGAACAGCAAAGCTACGGCTTCCTCCTGTTCAATGATGAAAGTAT--------------------AAGCACCTATATTGCATGAGAA-GTATCA-
i mm10.chr18               I 1 C 0
s canFam3.chr11             14982093 126 +  74389097 TGAAAACATCCTG--GATGA-TAATATAAGAAACAATATTAAAATTAATTTTA-----TGCGAGACAGAAAAGCAATGA-GACTTTCTGATCAGTAGTAAAAATAC--------------------AAGTACCTACAGCATATATAAA-GTATCTA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2722692 128 +   3667625 TGAAAATGATATAATGAGGA-TAATATAAAATGCAACATTAAAATTGTATGAA-----GGGTAAACAGAAAGGCAATGA-GGCTTTCTGGTCACTAGTAAAAAATC--------------------AAGCCCCTATAATGCATATAAA-ATACCTA
i dasNov3.JH567306         C 0 C 0

a score=1047185.000000
s hg38.chr5_KI270796v1_alt    163093 76 +    172708 TCCACATA-ATAAATAAATATATAAAAATGGACATGTGCATGCAAAGGAGGAGCTTTGAC------------AACTAATTTCTAAACAG
s panTro5.chr5             125277240 76 + 181907262 TTCACATA-ATAAATAAATATATAAAAATGTATATGTGCATGCAAAGGAGGAGCTTTGAC------------AAGTAATTTCTAAACAG
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126608040 76 + 183735486 TCCACATA-ATAAATAAATATATAAAAATGTATATGTGCATGCAAAGGAGGAGCTTTGAC------------AAGTAATTTCTAAACAG
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1799815 76 +   8933513 TCCACATA-ATAAATACATATATAAAAATGTACATGTGCATGCAAAGGAGGAGCTTTGAC------------AAGTAATTTCTAAACAG
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139930737 76 + 163208435 TCCACATA-ATAAATAAATATATAAAAATGTACATGTGCATGCAAAGGAGGAGCTTCGAC------------AAGTAATTTCTAAACAG
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122916180 76 + 180051392 TCCACATA-ATAAATAAATATATAAAAATGTACATGTGCATGCAAAAGAGGAGCTTCGAC------------AAGTAATTTCTAAACAG
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124339805 76 + 181584905 TCCACATA-ATAAATAAATATATAAAAATGTACATGTGCATGCAAAAGAGGAGCTTTGAC------------AAGTAATTTCTAAACAG
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16338501 76 +  18395747 TCCACATA-ATAAATAAATATATAAAAATGTACATGTGCATGCAAAAGAGGAGCTTCGAC------------AAGTAATTTCTAAACAG
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5349872 74 +  26952557 TCCACATA-ATAAATAAATATATAAAAATGTACATGCACATGCAAAAGAGGAGCTTCGAC------------AAGTAATTTCTAAAC--
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28450695 85 +  82825804 TCCACATA-ATAAATAAATATATAAAAATGTACATGCACATGCAAAA---GAGCTTCGACTTTTGCTTTAGAAAGTAATTTCTAAACAG
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4121070 76 -   4237731 TCCACATA-ATAAATAAATATATAAAAATGTACATGCACATGCAAAAGAGGAGCTTCGAC------------AAGTAATTTCTAAACAG
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      389901 76 -   1175262 TCTACATA-ATAAATAAATATATAAAAATGTACATGCGCATACAAAGGAGGAGCTTCGAC------------AAGTAATTTCTAAACAG
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123750937 76 - 204313951 CCCACATA-ATAAATACATATATAAAAATGTACATGTGCATGCAAATGTGGAGCTTTGAT------------AAGTAATTTCTAAACAG
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55791764 76 -  71252344 CCCACATG-ATAAATACATATATAAAAATGTTCATGTGCATGCAAATGTGGAGCTTTGAT------------AAGTAATTTCTAAACAG
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       95196 76 -   3089952 CCCGCATA-ATAAATACATATATAAAAATGTACATGTGCATGCAAATGTGGAGCTTTGAT------------AAGTAATTTCTAAACAG
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13295756 76 -  42888418 CCCACATA-ATAAATACATATATAAAAATGTACATGTGCATGCAAATGTGGAGCTTTGAT------------AAGGAATTTCTAAACAG
i aotNan1.NW_018505940v1   C 0 C 0
s proCoq1.NW_012155062v1     3652829 76 +  11683526 AGCATATA-ATAAATAAATATATAAAAATGTGCACATGCGTGCGAAGGGGGAGCTTCAAC------------AATGAATTTCTAAATAG
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3141718 76 +   4132165 CGCATATA-ATAAATAAATACATAAAAATGTGTACATGCCTGCAAAGGGGGAGCTTCGCC------------AATGAACCTCTAAATAT
i otoGar3.GL873679         C 0 I 2
s mm10.chr18                55582401 75 +  90702639 CACACATA-ATAAATAAA-GTATAAGATAGGACATGTGCATACAAAAGAGGAGTATTGAT------------AACTAATTTCTCAATTG
i mm10.chr18               C 0 I 2
s canFam3.chr11             14982219 76 +  74389097 CATACATA-ATAAATAAATACATATAAGCACACATGTGTGTGCAAAGAGGTAGATTTGAC------------ATCTAATTTCTAAATAA
i canFam3.chr11            C 0 I 2
s dasNov3.JH567306           2722820 65 +   3667625 ----CATACATAGGTAAAT------AAATGCACATGTGTGTACAAAGGAAGAGAATTGAC------------A--TAATTTCTAAGTAG
i dasNov3.JH567306         C 0 C 0
e micMur3.chr12             60617463 58 + 108143057 I

a score=903494.000000
s hg38.chr5_KI270796v1_alt    163169 64 +    172708 --AGAGAT-----TCACATCAGAAAATCATTCTTATTATGTTTC-TCTCATCAGAACGTTGCTGGCATTTTC
s panTro5.chr5             125277316 64 + 181907262 --AGAGAT-----TCACATCAGAAAATCATTCTTATTATGTTTC-TCTCATCAGAACTTTGCTGGCATTTTC
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126608116 64 + 183735486 --AGAGAT-----TCACATCAGAAAATCATTCTTATTATGTTTC-TCTCATCAGAACTTTGCTGGCATTTTC
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1799891 64 +   8933513 --AGAGAT-----TCACATCAGAAAATCATTCTTATTATTTTTC-TCTCATCAGAACTTTGCTGGCATTTTC
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139930813 65 + 163208435 --AGAGAT-----TCACATCAGAAAATCATTCTTATTACGTTTCTTCTCATCAGACCTTTGCTGGCATTTTC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122916256 61 + 180051392 --AGAGAT-----TCACATCAGAAAATCATTC---TTATATTTT-TCTTGTCAGACCTTTGTTGACATTTTC
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124339881 61 + 181584905 --AGAGAT-----TCACATCAGAAAATCATTC---TTATGTTTT-TCTTGTCAGACCTTTGTTGACATTTTC
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16338577 61 +  18395747 --AGAGAT-----TCACATCAGAAAATCATTC---TTATGTTTT-TCTTGTCAGACCTTTGTTGACATTTTC
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5349946 64 +  26952557 --AGAGAT-----TCACATCAGAAAATCATTCTTATTATGTTTT-TCTTGTCACACCTTTGTTGACATTTTC
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28450780 69 +  82825804 --AGAGATTCACATCACATCAGAAAATCATTCTTATTATGTTTT-TCTTGTCAGACCTTTGTTGACATTTTC
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4121146 62 -   4237731 --AGAT-------TCACATCAGAAAATCATTCTTATTATGTTTT-TCTTGTCAGACTTTTGTTGACATTTTC
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      389977 64 -   1175262 --AGAGAT-----TCACATCAGAAAATCATTCTTATTATGTTTT-TCTTGTCAGGCCTTTGTTGACATTTTC
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123751013 64 - 204313951 --AGAGAT-----TCACATCAGGGAATCATTCTTACCAGGATTT-TCCCATCAGACCTTTGCTGGCATTTTC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55791840 64 -  71252344 --AGAGAT-----TCATATCAGGGAATCATTCTTACCAGGTTTT-TCCTATCAGACCTTTGCTGCAATTTTC
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       95272 64 -   3089952 --AGAGAT-----TCACATCAGGGAATCATTCTTACCAGGTTTT-TCCCATCAGACCTTTGCTGGCATTTTC
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13295832 64 -  42888418 --AGAGTT-----TCACATCAGGGAATCATTGTTACCAGGTTTT-TCCCATCAGACCTTTGCTGGCATTTTC
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60617521 64 + 108143057 --AGAGAT-----TCACATCAGAAAATAATTCTCATTATGTTTA-CCCCATCAGACCTTTGCGGGCATTTTC
i micMur3.chr12            I 58 C 0
s proCoq1.NW_012155062v1     3652905 62 +  11683526 ----AGAT-----TCGCATCAGAAAATCATTCTCATTATGTCTA-CCCCACCACACCTTTGCTGGCATTTTC
i proCoq1.NW_012155062v1   C 0 C 0
s otoGar3.GL873679           3141796 64 +   4132165 --AGAGAT-----TCACATCAGAAAACCATCCTTATTATGTTTG-CCCCATCAGACCATTGCTGGCATTTTC
i otoGar3.GL873679         I 2 C 0
s mm10.chr18                55582478 64 +  90702639 --AGGTAC-----TCATATCAAAGGAGTATTCTCCTTATATTTC-ACCTGTGAGACCCTGGTTTATATTTCC
i mm10.chr18               I 2 I 2005
s canFam3.chr11             14982297 63 +  74389097 --ATAGGT-----CCGCATCAGAAAATCATTCTCATTATATCTA-TCCCATCAAACCTTC-CTGGCATTGCC
i canFam3.chr11            I 2 C 0
s dasNov3.JH567306           2722885 66 +   3667625 GGAGAACT-----TCACATTAGAATATCATTCTCATTACTTCTG-CCCCATCAGATTGTTGCTGAAATTTTC
i dasNov3.JH567306         C 0 C 0

a score=2878585.000000
s hg38.chr5_KI270796v1_alt    163233 201 +    172708 TAGCTGAAGGATTTATTTTTACACATTATCATGTATGTTCTCTCCTTGTTTTCTT---AGAGACCTTAGGCAAGGTCAAAGAATTAGCATTACTCACTA--AAATTTGGTAATTCCTTACCGTGTGAATGATTTCAAGAGGTGCT-GCA---AA-----TTTTTTAGCAATTTGAAACAAAATTAA---------------------TTAATTAGCATCTACTTTAATTTTTACAA
s panTro5.chr5             125277380 201 + 181907262 TAGCTGAAGGATTTATTTTTACACATTATCATGTATGTTCTCTCCTTGTTTTCTT---AGAGACCTTAGGCAAGGTCAAAGAATTAGCATTACCCACTA--AAATTTGGTAATTCCTTACCGTGTGAATGATTTCAAGAGGTGTT-GCA---AA-----TTTTTTAGCAATTTGAAACAAAATTAA---------------------TTAATTAGCATTTACTTTAATTTTTACAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126608180 201 + 183735486 TAGCTGAAGGATTTATTTTTACACATTATCATGTATGTTCTCTCCTTGTTTTCTT---AGAGACCTTAGGCAAGGTCAAAGAATTAGCATTACCCACTA--AAATTTGGTAATTCCTTACCGTGTGAATGATGTCAAGAGGTGTT-GCA---AA-----TTTTTTAGCAATTTGAAACAAAATTAA---------------------TTAATTAGCATTTACTTTAATTTTTACAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1799955 201 +   8933513 TAGCTGAAGGATTTATTTTTACACATTATCATGTATGTTCTCTTCTTGTTTTCTC---AGAGACCTTAGGCAAGGTCAAAGAATTAGCATTACCCACTA--AAATTTGGTAATTCCTTACCGTGTGAATGATTTCAAGAGGTGTT-GCA---AA-----TTTTTTAGCAATTTGAAACAAAATTAA---------------------TTAATTAGCGTTTACTTTAATTTTTACAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139930878 201 + 163208435 TAGTTGAAGGATTTATTTTTACACATTATCATGTATGTTCTCTCCTTGTTTTCTT---AGAGACCTTAGGCAAGGCCAAAGAATTAGCATTACCCACTA--AAATTTGGTAATTCCTTACCGTGTGAATGATTTCAAGAGGTGTT-GCA---AA-----TTTTTTAGCAATTTGAAACAAAATTAA---------------------TTAATTAGCATTTACTTTAATTTTTACAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122916317 197 + 180051392 TAGCTGAAGGATTTATTTTTACACATCATCATGTATGTTCTCTCCTTGTTTTCTT---AGAGACCTTAGGCAAGTTCAAATAATTAGCATTATCCATTA--AAATTTGGTAATTCCTTACTGTGTGAATGATTTCAAGAGGTGTT-GCA---AA-----TTTTGTAGCAATTTGAAACAAAA-------------------------TTAATTAGCATTTACTTTAATTTTTACAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124339942 197 + 181584905 TAGCTGAAGGATTTATTTTTACACATCATCATGTATGTTCTCTCCTTGTTTTCTT---AGAGACCTTAGGCAAGTTCAAATAATTAGCATTATCCACTA--AAATTTGGTAATTCCTTACTGTGTGAATGATTTCAAGAGGTGTT-GCA---AA-----TTTTGTAGCAATTTGAAACAAAA-------------------------TTAATTAGCATTTACTTTAATTTTTACAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16338638 197 +  18395747 TAGCTGAAGGATTTATTTTTACACATCATCATGTATGTTCTCTCCTTGTTTTCTT---AGAGACCTTAGGCAAGTTCAAATAATTAGCATTATCCACTA--AAATTTGGTAATTCCTTACTGTGTGAATGATTTCAAGAGGTGTT-GCA---AA-----TTTTGTAGCAATTTGAAACAAAA-------------------------TTAATTAGCATTTACTTTAATTTTTACAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5350010 197 +  26952557 TAGCTGAAGGATTTATTTTTACACATCATCATGTATGTTCTCTCCTTGTTTTCTT---AGAGACCTTAGGCAAGTTCAAATAATTAGCATTACCCACTA--AAATTTGGTAATTCCTTACTGTGTGAATGATTTCAAGAGGTGTT-GCA---AA-----TTTTGTAGCAATTTGAAACAAAA-------------------------TTAATTAGCATTTACTTTAATTTTTACAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28450849 197 +  82825804 TAGCTGAAGGATTTATTTTTACACATCATCATGTATGTTCTCTCCTTGTTTTCTT---AGAGACCTTAGGCAAGTTCAAATAATTAGCATTACCCACTA--AAATTTGGTAATTCCTTACTGTGTGAATGATTTCAAGAGGTGTT-GCA---AA-----TTTTGTAGCAATTTGAAACAAAA-------------------------TTAATTAGCATTTACTTTAATTTTTACAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4121208 220 -   4237731 TAGCTGAAGGATTTATTTTTACACATCATCATGTATGT--TCTCCTTGTTTTCTT---AGAGACCTTAGGCAAGTTCAAATAATTAGCATTACCCACTA--AAATTTGGTAATTCTTTACTGTGTGAATGATTTCAAGAGGTGTT-GCA---AA-----TTTTGTAGCAATTTGAAACAAAATTAATTAGCAtttactttaatttttttaattagcatttactttaatttTTACAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      390041 197 -   1175262 TAGCTGAAGGATTTATTTTTACACATTATCATGTATGTTCTCTCCTTGTTTTCTT---AGGGACCTTAGGCAAGTTCAAATAATTAGCATTACCCACTA--AAATTTGGTAATTCCTTACTGTGTGAATGATTTCAAGAGGTGTT-GCA---AA-----TTTTTTAGCAATTTGAAACAAAA-------------------------TTAATTAGCATTTACTTTAATTTTTACAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123751077 202 - 204313951 TAGCTGAAGGATTTATTTTTACACATTATCATGTATGTTCTCTCCTTGCTTTTTT---AGAGACCTCAGGCAAGGTCAAAGAATTAGCATTACCCACTA--ATGTTTGGTAATTCCTTACTGTGTGAATGATTTCAAGAGGCGTGAACG---AA-TTTTTTTTTTAGTGATTTGAAACAAAA-------------------------TTAATTAGCGTTTACTTCAATTTTTACAA
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55791904 199 -  71252344 TAGCTGAAGAATTTATTTTTACACATCATCATGTATATTCTCTCCTTGTTTTTTT---AGAGACCTTAGGCAAGGTCAAAGAATTAGCATTACCCACTA--ATATCTGGTAATTCCTTACTGTGTGAATGATTTCAAGAGGTGTTAACA---AA----TTTTTTAATAGATTTGAAACAAAA-------------------------TTAATTAGCATTTACTTCAATTTTTACAA
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       95336 203 -   3089952 TAGCTAAAGGATTTATTTTTACACATTATCATGTATATTCTCTCTTTGTTTTTTT---AGAGACCTTAGGCAAGGTCGAAGAATTAGCATTACCCACTA--ATGTTTGATAATTCCTTACTGTGTGAATGATTTCAAGCGGTGTTAACA---AATTTTTTTTTTTAGCGATTTGAAACAAAA-------------------------TTAATTAGCATTTACTTCAATTTTTACAA
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13295896 201 -  42888418 TAGCTGAAGGATTTATTTTTACACATTATCATGTGTGTTCTCTCCTTGTTTTTTT---AGAGACTTTAGGCAAGTTCAAAGAATTAGCATTACCCACTG--ATGTTTGGTAATTCCTTACTGTGTGAGTGATTTCAAGAGGTGTTAACA---AA--TTTTTTTTTAGCGATTTGAAACAAAA-------------------------TTAATTAGCATTTACTTCAATTTTTACAA
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60617585 189 + 108143057 TATCTCTAGGGTTTACTCTTACACATTATCATGTGTGTTTTCTCCTTGTTTTCTT---AGAGACCTTAGGCAAGGTCAAAGAATTAAC--------CCC--TAGTTCAGTAATTCCTTACTCTGTGAATGATTTCAAGAAGTGTA-ATA---TA-----TTTTTTAGCAATTTGAAAAAAAA-------------------------TTAATTTACATTTACTTTAATTTTTACAA
i micMur3.chr12            C 0 C 0
s proCoq1.NW_012155062v1     3652967 189 +  11683526 TATCTCTAGTGCTTACTCTCACACATTATCATGTATGTTCTCTCCTTGTTTTCTC---AGAGACCTTAGGCAAGGTCGAAGAGTTAGC--------CCC--TAATTCAGTAATTCCTTACAGAGTGAATGGTTTCAAGAAGGGTT-ATA---CA-----TTTTTTAGCAATTTGAAACAAAA-------------------------TTAGTTTACATTTACTTTAATTTTTACAA
i proCoq1.NW_012155062v1   C 0 N 0
s otoGar3.GL873679           3141860 190 +   4132165 TA--TCCAGGATTTATTCTTACACATTACCATGTATGTTTTCTCCTTGTTTTCTG---AGTGCCCTTAGGGAAGGTGGAAGTATTATC--------CCC--TAATTCAACAATTCCTTACTTTGTTAATGATTTCAAGAAGTGTT-ATAATTTT-----TTTTTTAGCAATTTGAAGCAAAA-------------------------TTAATTTGCATTTATTGTACTTTTTACAA
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14982360 197 +  74389097 TATCTGGAGGATTT-TTATTACGCATTATCATATATGCATTCTCCTT-TTTTCTT---AGATACCTTAGGCATGGTCAAAGAACTAGTATTACCTACTACCTAATTCAGTAATTCCTCATTTTGTTAATGATTTCAAGAGGTATT-ATA---AA----TTTCTTTAGCAATCAGAAACAAAA-------------------------TTAATTA-CACTTGCTTTAATTTCTAAAA
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2722951 198 +   3667625 TATCTGTAGGATTTATTATTACACATTGTCATATATGCACTTTCCTTGTTTTCTTAGCAGAGAATTTAACTAAAGTCAAAGAAATAACATTTCTCACTA--A----TTGAAATTCCTTATTTTGTGAATGATTTCAAGAGATGTT-ATG---AC---TTTTTTTTAACAATTCAAAACAAAA-------------------------TTAACTTATATTTACTTTAATTTTTAAAA
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55582542 2005 +  90702639 I

a score=606180.000000
s hg38.chr5_KI270796v1_alt    163434 40 +    172708 GCACTTAAAATATTTGCCATATAATTTTTTAGGCAGAAAA-
s panTro5.chr5             125277581 40 + 181907262 GCACTTAAAATATTTGCCATATAATTTTTTAGGCAGAAAA-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126608381 40 + 183735486 GCACTTAAAATATTTGCCATATAATTTTTTAGGCAGAAAA-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1800156 40 +   8933513 GCACTTAAAATATTTGCCATGTAATTTTTTAGGCAGAAAA-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139931079 40 + 163208435 GCACTTAAAATATTTGCCATATAATTTTTTAGGTAGAAAA-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122916514 40 + 180051392 GCACTTAAAATATTTGCCATATAATTTTTTAGGCAGAAAA-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124340139 40 + 181584905 GCACTTAAAATATTTGCCATATAATTTTTTAGGCAGAAAA-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16338835 40 +  18395747 GCACTTAAAATATTTGCCATATAATTTTTTAGGTAGAAAA-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5350207 40 +  26952557 GCACTTAAAATATTTGCCATATAATTTTTTAGGCAGAAAA-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28451046 40 +  82825804 GCACTTAAAATATTTGCCATATAATTTTTTAGGCAGAAAA-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4121428 40 -   4237731 GCACTTAAAATATTTGCCATATAATTTTTTAGGCAGAAAA-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      390238 40 -   1175262 GCACTTAAAATATTTGCCATGTAATTTTTTAGGCAGAAAA-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123751279 40 - 204313951 GCACTTAAAATATTTGACATATAATTTTTTAGGCAGAAAA-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55792103 40 -  71252344 GCACTTAAAATATTTGACATATAATTTTTTAGGCAGAAAA-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       95539 40 -   3089952 GCACTTAAAATATTTGACATATAATTTTTTAGGCAGAAAA-
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13296097 40 -  42888418 GTACTTAAAATATTTGACATATAATTTTTTAGGCAGAAAA-
i aotNan1.NW_018505940v1   C 0 C 0
s micMur3.chr12             60617774 40 + 108143057 ACATTTAAAGCATTTGCCTTGTAATTCTTTAGGCAGAAAA-
i micMur3.chr12            C 0 N 0
s otoGar3.GL873679           3142050 40 +   4132165 CCATTTAAAATGTTTGCCTTTTAATTCTTTAGGCAGAAAA-
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14982557 40 +  74389097 GCATTTAAAATATTTGCTGTATAATTATTTAGGCCAAAAA-
i canFam3.chr11            C 0 I 5
s dasNov3.JH567306           2723149 41 +   3667625 GCATATAAAATATTTGCCACATGATTCCTTAGGTAGAAAAA
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55582542 2005 +  90702639 I

a score=1417088.000000
s hg38.chr5_KI270796v1_alt    163474 137 +    172708 TGAGTTGTGCTATT-AATTTTAAAGGTAAAAAGAGCCTGTTGCAACCC--ATTAAACCACCCTCCCATCTCCATTTAACAGCAACTTCAAAAGCTAGGGCTAACAGAAATATCCTGTGTCCATCTG-ATATTTCCACTTCT--
s panTro5.chr5             125277621 137 + 181907262 TGAGTTGTGCTATT-AATTTTAAAGGTAAAAAGAGCCTGTTGCAACCC--ATTAAACCACCCTCCCATCTCCATTTAACAGCAACTTCAAAAGCTAGTGCTAACAGAAATATCCTGTGTCCATCTG-ATATTTCCACTTCT--
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126608421 137 + 183735486 TGAGTTGTGCTATT-AATTTTAAAGGTAAAAAGCGCCTGTTGCAACCC--ATTAAACCACCCTCCCATCTCCATTTAACAGCAACTTCAAAAGCTAGTGCTAACAGAAATATCCTGTGTCCATCTG-ATATTTCCACTTCt--
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1800196 137 +   8933513 TGAGTTGTGCTATT-AATTTTAAAGGTAAAAAGAGCCTGTTGCAACCC--ATTAAACCACCCTCTCATCTCCATTTAACAGCAACTTCAGAAGCTAGTGCTAACAGAAATATCCTGTGTCCATCTG-ATATTTCCACTTCT--
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139931119 135 + 163208435 TAAGTTGTGCTATT-AATTTTAAAGGCAAAAAGAGCCTGTTGCAAGCC--ATTAAACCACCCTGCCGTCTCCATTTAACAGCAACTTCAAAAGCTAGTGCTAACAGAAATACCCTGTGTCCATCTG-ATATTTCCACTT----
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122916554 135 + 180051392 TAAGTTGTGCTATT-AATTTTAAAGGTAAAAAGAGCCTGTTGCAACCC--ATTAAACCACCCTCCCATCTCCATTTAACAGCAACTTCAAAAGCTAGTGCTAACATAAATATCCTGTGTCCATCTG-ATATTTCCACTT----
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124340179 135 + 181584905 TAAGTTGTGCTATT-AATTTTAAAGGTAAAAAGAGCCTGTTGCAACCC--ATTAAACCACCCTCCCATCTCCATTTAACAGCAACTTCAAAAGCTAGTGCTAACATAAATATCCTGTGTCCATCTG-ATATTTCCACTT----
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16338875 135 +  18395747 TAAGTTGTGCTATT-AATTTTAAAGGTAAAAAGAGCCTGTTGCAACCC--ATTAAACCACCCTCCCATCTCCATTTAACAGCAACTTCAAAAGCTAGTGCTAACATAAATATCCTGTGTCCATCTG-ATATTTCCACTT----
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5350247 130 +  26952557 TAAGTTGTGCTATT-AATTTTAAAGGTAAAAAGAGCCTGTTGCAACCC--ATGAAACTACCCTCCCATCTC-----AACAGCAACTTCAAAAGCTAGTGCTAACATAAATATCCTGTGTCCATCTG-ATATTTCCAGTT----
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28451086 135 +  82825804 TAAGTTGTGCTATT-AATTTTAAAGGTAAAAAGAGCCTGTTGCAACCC--ATTAAACCACCCTCCCATCTCCATTTAACAGCAACTTCAAAAGCTAGTGCTAACATAAATATCCTGTGTCCATCTG-ATATTTCCACTT----
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4121468 135 -   4237731 TAAGTTGTGCTATT-AATTTTAAAGGTAAAAAGAGCCTGTTGCAACCC--ATGAAACCACCCTCCCATCTCCATTTAACAGCAACTTCAAAAGCTAGTGCTAACATAAATATCCTGTGTCCATCTG-ATATTTCCACTT----
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      390278 135 -   1175262 TAAGTTGTGCTATT-AATTTTAAAGGTAAAAAGAGCCTGTTGCAACCC--ATTAAACCACCCTCCCATCTCCATTTAACACCAACTTCAAAAGCTAGTGCTAACATAAATATCCTGTGTCCCTCTG-ATATTTCCACTT----
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123751319 133 - 204313951 TAAGTTGTGCTCTT-AATTGTAAAGGTGAAAAGAACCTGTTGCAACTC--ATTAAATCCCCCTCCCATCTCCATTTAATAGCAACTTCAATAACTAGTGCTAAAAT--ATATCTTGTATCCATCTC-ATATTTCCACTT----
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55792143 133 -  71252344 TAAATTGTGCTATT-AATTGTAAAGGTAAAAAGAACCTGTTGCAACTC--ATTAAATCCTCCTCCCATCTCCAATTAATAGCAACTTCAGTAACCACTGCTAAAAT--ATATCCTGTATTCATCTC-ATATTTCCACTT----
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       95579 133 -   3089952 TAAGTTGTGCTATT-AATTGTAAAGGTAAAAAGAACCTGTAGCAACTC--ATTAAATTCCCCTCCCATCTCCATTTAATAGCAACTTCAATAACTAGTGTTAAAAT--ATATCCTGTGTCCATCTC-ATATTTCCACTT----
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13296137 115 -  42888418 TAAGTGGTGCTATT-AATTGTAAAGGTAAAAAGAACCTGTTGCAACTC--ATTTAATCCCCCTCCCATCTCCATTTAATAGCAACTTCAATAACTA--------------------TATCCATCTC-AGATTTCCACTT----
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3142090 118 +   4132165 TAAATCACACTGTT-AATCATAAAAGCAAAAACA-------GCAACTCAGAGTAAac----------ttccagtgtaacagcaattcccacagctgtctccaaaat--gtatcttgtgtccatctg-atctgtccattt----
i otoGar3.GL873679         C 0 I 5756
s canFam3.chr11             14982602 133 +  74389097 TAAATTGTGGCATTAAATTATGACAACAAAGAAAGCCTACTGCAATTC--ACTAAACca-cctcccatacccaccaagcaacaattccaacagctatttccaagat--atatcctgaatccatggg-atccatccactc----
i canFam3.chr11            I 5 I 1816
s dasNov3.JH567306           2723190 125 +   3667625 TAAGTTACATAATTAAATTATAAGGGAAAAGACAGTCTGTTGCAACTT--ACCAAACCATCTTCCTTTCCTCAACTAACAtcaatctccaaaac--------------atattccttattcacctgtatccattcactt--gt
i dasNov3.JH567306         C 0 C 0
e mm10.chr18                55582542 2005 +  90702639 I

a score=10714.000000
s hg38.chr5_KI270796v1_alt    163611 3 +    172708 Tcc-
s panTro5.chr5             125277758 3 + 181907262 Tcc-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126608558 3 + 183735486 acc-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1800333 3 +   8933513 Tcc-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139931254 2 + 163208435 -cc-
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122916689 2 + 180051392 -cc-
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124340314 2 + 181584905 -cc-
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16339010 2 +  18395747 -cc-
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5350377 2 +  26952557 -cc-
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28451221 2 +  82825804 -cc-
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4121603 2 -   4237731 -cc-
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      390413 2 -   1175262 -cc-
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123751452 2 - 204313951 -ct-
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55792276 2 -  71252344 -ct-
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       95712 2 -   3089952 -ct-
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13296252 2 -  42888418 -ct-
i aotNan1.NW_018505940v1   C 0 C 0
s dasNov3.JH567306           2723315 3 +   3667625 -ctc
i dasNov3.JH567306         C 0 I 1554
e canFam3.chr11             14982735 1816 +  74389097 I
e otoGar3.GL873679           3142208 5756 +   4132165 I
e mm10.chr18                55582542 2005 +  90702639 I

a score=7791561.000000
s hg38.chr5_KI270796v1_alt    163614 837 +    172708 ctaaaacatagtggcttcac-aaaagtatttattatctcacagtctctgttgatcagaaatttgcggg----tgattgttagggtggctctggcttggaatctctcatggtgttgcaattaagatgctcactgagattccagtggccttttgaacctg-taagatccacttccaagactgttcactcctatagctattgatagcaggcctttcagttcctccctgattgttgatagaaggcttatgttccttgccacactgccttcctcataaggcttctaaggcctcttgagtagtttcatgtcatggcagctgg-cttcttcaggggcaggtgatccaagagaacaagacaaaaactacagtggcttttataatctagcctcggtactcatgcagtatcatctccacaatatcctattgactactgtattagtctgttcttgcactgct------ataaagaaatatctgagatagggtaattaataaagaaaagagattt-aattggcttatgcttctgcaggctgtaaatgaagcatagaggtttctgcttttgaggaggccccaggaaacttccggtcatggcggaaggcgattggggaatgaggcatct----------cacatggtgggagcatgagcaagagagagtagcggg-tgggtg---ctacacacttt----taaacaaccagatctcataagaactctatcatgagaacagcaccaagaggatggtgctaaaccatttatgagaaatctcccctatgattcaatcacttccctccaga----------ccccacctccaacacaggggatgacaatttgacatgaagtttgggtggggacacagatccaaatcatatcaac-tac
s panTro5.chr5             125277761 837 + 181907262 ctaaaacatagtggcttaac-aaaagtatttattatctcacagtctctgttgatcagaaatttgcggg----tgattgttagggtgactctggcttggaatctctcatggtgttgcaattaagatgctcactgagattccagtggccttttgaacctg-taagatccacttccaagattgtacattcctatagctattgatagcaggcctttcagttcctccctgattgttgatagaaggcttatgttccttgccacattgccttcctcataaggcttctaaggcttcttgagtagtttcatgtcatggcagctgg-cttcttcaggggcaggtgatccaagagaacaagacaaaaactacagtggcttttataatctagcctcagtactcatgcagtatcatttccacaatatcctactgactactgtattagcctgttcttgcactgct------ataaagaaatatctgagaaaaggtaattaataaagaaaagagattt-aattggcttatggttctgcaggctgtaaaggaagcatagaggtttctgcttttgaggaggccccaggaaacttccagtcatggcagaaggcgattggggaatgaggcatct----------cacatggtgggagcatgagcaagagagagtaggggg-tgggtg---ctacacacttt----tcaacaaccagatctcatgagaactctatcatgagaacagcaccaaggggatggtgctaaaccatttatgagaaatctcccctatgattcaatcacttccctccaga----------ccccacctccaacgtgggggatgacaatttgacatgaaatttgggtggggacacagatccaaatcatatcaag-tac
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126608561 847 + 183735486 ctaaaacacagtggcttaac-aaaagtatttattatctcacagtctctgttgatcagaaatttgcggg----tgattgttagggtggctctggcttggaatctctcatggtgttgcaattaagatgctcactgagattccagtggccttttgaacctg-taagatccacttccaagattgtacactcctatagctattgatagcaggcctttcagttcctccctgattgttgatagaaggcttatgttccttgccacattgccttcctcataaggcttctaaggcttcttgagtagtttcatgtcatggcagctgg-cttcttcaggggcaggtgatccaagagaacaagacaaaaactacagtggcttttataatctagcctcagtactcatgcagtatcatttccacaatatcctactgactactgtattagtctgttcttgcactgct------ataaagaaatatctgagatagggtaattaataaagaaaagagattt-aattggcttatggttctgcaggctgtaaaggaagcatagaggtttctgcttttgaggaggccccaggaaacttccagtcatggcagaaggcgattggggaatgagacatctcacatggtggcacatggtgggagcatgagcaagagagagtaggggg-tgggtg---ctacacacttt----tcaacaaccagatctcatgagaactctatcatgagaacagcaccaaggggatggtgctaaaccatttatgagaaatctcccctatgattcaatcacttccctccaga----------ccccacctccaacatgggggatgacaatttgacatgaaatttgggtggggacacagatccaaatcatatcaac-tac
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1800336 837 +   8933513 ctaaaacatagtggcttaac-aaaagtatttattatctcacagtctctgttgatcagaaatttgcggg----tgattgttagggtggctctggcttggaatctctcatggtgttgcaattaagatgcttactgagattccagtggccttttgaacctg-taagatccacttccaagattgtacactcctatagctattgatagcaggcctttcagttcctccctgattattgatagaaggcttatgttccttgccacattgccttcctcataaggcttctaaggcttcttgagtagtttcatgtcatggcagctgg-cttcttcaggggcaggtgatccaagagaacaagacaaaaactacagtggcttttataatctagcctcagtactcatgcagtatcatttccacaatatcctattgactactgtattagtctgttcttgcactgct------ataaagaaatatctgagatagggtaattaataaagaaaagagattt-aattggcttatggttctgcaggctgtaaaggaagcatagaggtttctgcttttgaggaggccccgggaaacttccagtcatggcagaaggcgattggggaatgaggcatct----------cacatggtgggagcataagcaagagagagtaggggg-tgggtg---ctacacacttt----taaacaaccagatctcatgagaactctgtcatgagaacagcaccaaggggatggtgctaaaccatttatgagaaatctcccctatgattcagtcacttccctccaga----------ccccacctccaacacgggggatggcaatttgacatgaaatttgggtggggacacagacccaaatcatatcaac-tac
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139931256 750 + 163208435 ctaaaacatagtgggttaac-aaaaa----tattatctcacagtctctgttgatcagaaatttgcagg----tgattgctagggtggctctggcttggaatctctcatggtgttgcaattaagatactcactgagattccagtggccttttgagcctg-taagatccactgccgagattgtacactcctatagctattgatagcaggcctttcggttcctccctgattgttgatagacggcttatgttccttgccacattgccttcctcataaggct---------tcttgagtagtctcatgt-----------------ttcaggggcaggtgatccaatagaacaagac-------------------ataatctagcctcagtactcatgcaatatcatttccacaatatcctatt------------------------------------------gaaatacctgagac--ggtaattaataaagaaaagagattt-aattggctcatggttctgcaggctgtaaaggcagcatagaggtttctgcttttgaggaggccccaggaagcttccagtcatggcagaaggcgaatgggaaatgaggc-tcc----------catggggtgggagcatgagcaagagagaataggggg-cgggtg---ctacacgcttt----taaacaacaagatctcatgagaactctatcatgagaacagcaccaaggggatggtgccaaactatttatgagaaatctcacccatgattcaatcacctccctccagg----------ccccacctccaacactggggatgacaatttgacatgagatttgggtggggacacagatccaaatcatatcaAC-TAC
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122916691 826 + 180051392 ctaaaacatagtggcttaac-aaaa-tatttattatctcacagtctctgttgatcagaaatttgtgggtgattgattgttagggtggctctggcttggaatctctcatggtgttgcaattaagatgctcactgagattccagtggccttttgagcctgttaagatccacttccaagattgtacacttctatagctattgatagccggcctttcagttcctccctgattgttgatagaaggcttatgttccttgccacattgccttcctcataaggct---------tcttgagtagtctcatgtaatggcagctga-cttcttcaggggcaggtcatccaagagaacaagacaaaaactacaatggcttttataatctagcttcagtactcatgcaatatcatttccacaatatcctattgactactgtattagtctgttcttgcactgctataaagataaagaattacctgagacagggtaattaataaagaaaagagattt-aattggctcatggttctgcaggctgtaccggaagc--agaggtttctgcttttggggaggcctcaggcagcttccagtcatgatagaatgcaaatggggaataaggcatct----------cacatggtagaagcatgagcaagagaaagcaggggg-caggtg---ctacacactttcaaacaaacaaccagatc--------------tcatgagaatagcaccaaggggatggtgctaaaccatttatgagaaatctcccccatgatttaatcacctccctccagg----------tcccaactccaacactggggatgacaatttgacatgagatttgggtggggacatagatccaaatcacatctac-tac
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124340316 826 + 181584905 ctaaaacatagtggcttaac-aaaa-tatttattatctcacagtctctgttgatcagaaatttgtgggtgattgattgttagggtggctctggcttggaatctctcatggtgttgcaattaagatgctcactgagattccagtggccttttgagcctgttaagatccacttccaagattgtacacttctatagctattgatagccggcctttcagttcctccctgattgttgatagaaggcttatgttccttgccacattgccttcctcataaggct---------tcttgagtagtctcatgtaatggcagctga-cttcttcaggggcaggtcatccaagagaacaagacaaaaactacaatggtttttataatctagcttcagtactcatgcaatatcatttccacagtatcctattgactactgtattagtctgttcttgcactgctataaagataaagaattacctgagacagggtaattaataaagaaaagagattt-aattggctcatggttctgcaggctgtaccggaagc--agaggtttctgcttttggggaggcctcaggcagcttccagtcatgatagaatgcaaatggggaataaggcatct----------cacatggtagaagcatgagcaagagaaagcaggggg-caggtg---ctacacactttcaaacaaacaaccagatc--------------tcatgagaatagcaccaaggggatggtgctaaaccatttatgagaaatctcccccatgatttaatcacctccctccagg----------tcccaactccaacactggggatgacaatttgacatgagatttgggtggggacatatatccaaatcacatcaac-tac
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16339012 822 +  18395747 ctaaaacatagtggcttaac-aaaa-tatttattatctcacagtctctgttgatcagaaatttgtgggtgactgattgttagggtggctctggcttggaatctctcatggtgttgcaattaagatgctcactgagattccagtggccttttgagcctgttaagatccacttccaagattgtacacttctatagctattgatagccggcctttcagttcctccctgattgttgatagaaggcttatgttccttgccacattgccttcctcataaggct---------tcttgagtagtctcatgtcatggcagctga-cttcttcaggggcaggtcatccaagagaacaagacaaaaactacaatggcttttataatctagcttcagtactcatgcaatatcatttccacaatatcctattgactactgtattagtctgttcttgcactgctataaagataaagaattacctgagacagggtaattaataaagaaaagagattt-aattggctcatggttctgcaggctgtaccggaagc--agaggtttctgcttttggggaggcctcaggcagcttccagtcatgatagaatgcaaatggggaataaggcatct----------cacatggtagaagcatgagcaagagaaagcaggggg-caggtg---ctacacacttc----caaacaaccagatc--------------tcatgagaatagcaccaaggggatggtgctaaaccatttatgagaaatctcccctatgatttaatcacctccctccagg----------tcccaactccaacactggggatgacaatttgacacgagatttgggtggggacatagatccaaatcacatcaac-tac
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5350379 816 +  26952557 ctaaaacatagtggcttaac-aaaa-tatttattatctcacagtctctgttgatcagaaatttgtgggtgattgattgttagggtggctctggcttggaatctctcatggtgttgcaattaagatgctcactgagattccagtggccttttgagcctgttaagatccacttccaagattgtacacttctatagctattgatagccggcctttcagttcctccctaattgttgatagaaggcttatgttccttgccacattgccttcctcataaggct---------tcttgagtagtctcatgtcatggcagctga-cttcttcaggggcaggtcatccaagagaacaagacaaaaactacaatggcttttataatctagcttcagtactcatgcaatatcatttccacaatatcctattgactactgtattagtctgttcttgcactgct------ataaggaattacctgagacagggtaattaataaagaaaagagattt-aattggctcatggttctgcaggctgtaccggaagc--agaggtttctgcttttggggaggcttcaggcagcttccagtcatgatagaaggcaaatggggaataaggcatct----------cacatggtagaagcatgagcaagagaaagcaggggg-caggtg---ctacacacttt----caaacaaccagatc--------------tcatgagaatagcaccaaggggatggcgctaaaccatttatgagaaatctcccccatgattcaatcacctccctccagg----------tcccaactccaacactggggatgacaatttgacatgagatttgggtggggacacagatccaaatcacatcaac-tac
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28451223 831 +  82825804 ctaaaacatagtggcttaac-aaaa-tatttattatctcacagtctctgttgattagaaatttgtgggtgattgattgttagggtggctctggcttggaatctctcatggtgttgcaattaagatgctcactgagattccagtggccttctgaacctgttaagatcctcttccaagattgtacacttctatagctattgacagccggcctttcagttcctccctgattgttgatagaaggcttatgttccttgccacactgccttcctcataaggct---------tcttgagtagtctcatgtcatggcagctgaccttcttcaggggcaggtcatacaagagaacaagacaaaaactacaatggcttttataatctagcttcagtactcatgcaataccatttccacaatatcctattgactactgtattagtctattcttgcactgct------ataaagaagtacctgagacagggtaattaataaagaaaagagattt-aattggctcatggttctgcaggctgtaccagaagc--agaggtttctgcttttggggaggcctcaggcagcttccagtcatgacagaaggcaaatggggaataaggcatct----------cacatggtaggagtatgagcaagagagagcagcggg-caggtg---ctacacacttt----caaacaaccagatctcatgagaactctatcatgagaacagcaccaaggggatggtactaaaccatttatgagaaatctcccccatgattcaatcacctccctccagg----------tcccacctccaacactagggatgacaatttgacatgagatttgggtggggacacagatccaaatcacatcaac-tac
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4121605 816 -   4237731 ctaaaacatagtggcttaac-aaaa-tatttattatctcacagtctctgttgatcagaaatctgtgggtgattgattgttagggtggctctggcttggaatctctcatggtgttgcaattaagatgctcactgagattccagtggccttttgagcctgttaagatccacttccaagattgtacacttctatagctattgatagccggcctttcagttcctccctgattgttgatagaaggcttatgttccttgccacattgccttcctcataaggct---------tcttgagtactctcatgtcatggcagctga-cttcttcaggtgcaggtcatccaagagaacaagacaaaaactacaatggcttttataatctagcttcagtactcatgcaatatcatttccacaatatcctattgactactgtattagtctgttcttgcactgct------ataaagaattacctgagacagggtaattaataaagaaaagagattt-aattggctcatggttctgcaggctgtaccagaagc--agaggtttctgcttttggggaggcctcaggcagcttccagtcatgatagaaggcaaatggggaataaggcatct----------cacatggtagaagcatgagcaagagaaagcaggggg-caggtg---ctacacacttt----caaacaaccagatc--------------tcatgagaatagcaccaaggggatggtgctaaaccacttatgagaaatctcccccatgattcaatcacctctctccagg----------taccaactccaacactggggatgacaatttgacatgagatttgggtggggacacagatccaaatcacatcaac-tac
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      390415 831 -   1175262 ctaaaacatagtggcttaac-aaaa-tatttattatctcacagtctctgttgatcagaaatttgtgggtgattgattgttagggtggctctggcttggaatctctcatggtgttgcaattaagatgctcactgagatgccagtggccttttgagcctgttaagatccacttccaagattgtacacttctatagctattgatagctggcctttcagttcctccctgattgttgatagaaggcttatgttccttgccacattgccttccccataaggct---------tcttgagtagtctcatgccatggcagttga-cttcttcaggggcaggtcatccaagagaacaagacaaaaactacaatggcttttataatctagcttcagtactcaggcaatatcatttccacaatatcctattgacttctgaattagtctgttcttgcactgct------ataaagaaatacctgagacagggtaattaataaagaaaagagattt-aattggctcatggttctgcaggctgtaccggaagc--agaggtttctgcttttggggaggcctcaggcagcttccagtcatgacagaaggcaaatggggaataaagcatct----------gacatggtaggagcatgagcaagagagagcaggggg-caggtg---ctacgcacttt----caaacaaccagatctcacgagaactctatcatgagaacagcaccaaggggatggtgctaaaccatttatgagaaatctcccccgtgattcaatcacctccctccagg----------tcccacctccaacactggggatgacaatttgacatgagatttgggtggggacacaaatccaaatcacatcaacttac
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123751454 828 - 204313951 ctaaaacatagtggcttaacaaaaaatatttattatt---aaatttctgttgattagaaatttgtggg----tgattgttagggtggctctggcttgcaatatctcatactgttgcaattaagatgctcactgagattccagtggccatttgagcctg-tgagatccacttccaagatcgtacactttcatagctattgatagcaggcctttcagttcctccctgattgttga--------ttatgttccttgccacattgccttcctcctaaggct---------tcatgagtagtctcatgtcatggcagctgg-cttcttcaagagtaggtgatccaaaagaacaagacaaaaactacagtggcttttataatctatcctcagtactcatgcagtatcatttccacaatatcctattgactaccgtatcagtttgttcttgcactgct------ataaagaaatacctgagacagggcaattaataaagaaaagagatgt-aattgactcatggttctgcaggctgtaaaggaagcatagagacttctgctttccgggaggcctcaggaagcttccagtcatggcagaaggcaaatggggaatgaggcatct----------cacatggtgggagcatgagcaagagagagcagggat-ggagtg---ctacatacttt----taaaaaaccagatctcatgagaattctatcatgaggacaccaccaagggaatggtgctaagccattcataagaaatctcccccatgattcaatcatctccctccaggagatgtcatcccctacctccaacactggggatgacaatttgacatgagatttgggcagagacatagatccaaactatgttaac-tac
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55792278 830 -  71252344 ctaaaacatagtggcttaac-aaaaatatttattttctcacaatctctgttgattagaaatttgtggg----tgattattagggtggctctggcttgcgatatctcatggtgttgcaattaagatgctcactgagatcccagtggccatttgagcctg-tgagatccacttccaagactgtacactttcatagctattgatagcaggcctttcagttcctccctgattgttgatagaaggcttgtgttccttgccacattgccttcctcataaggct---------tcatgagtagtctcatgtcatggcagctgg-cttcttccagagtaggtgatccaaaagaacaagacaaaaactgcagtggcttttataatctagcctcagtactcatgcagtatcatttccacaatatcctatttactaccgtatcagtttgttcttgcactgct------atgaagaaatacctgagacagggtaattgataaagaaaagagatttcaattgactcatggttctgtaggctgtaaaggaagcatagagacttctgctttctgggaggcctcaggaagcctccagtcatggcagaaggcaaatggggaatgaggcatct----------catatggtgggaacatgagcaaaagagagcaggggtgggagtg---ctacatacttt----ttaaaaaccagatctcatgagaattctgtcatgaggatagcaccaaggggatggtgctaagccattcatgagaaatctcccccatgattcaatcatctccctctagg----------ccctacctccaacactggggcggacaatttgacatgagatttgggtggggacacagatccaaactatgtcaac-tac
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       95714 830 -   3089952 ctaaaacatagtggcttaac-acaaatattcattgtctcacaatctctgttgattagaaatttgtggg----tgactattagggtggctctggcttgtgatatctcatggtgttgcaattaagatgctcagtgacattccagtggccatttgagcttg-tgagacccacttccaagattgtacactttcatagctattgatagcaggcctttcagttcctccctgattgttgatagaaggcttatgttccttgccacattgccttcctcataaggct---------tcatgagtagtctcatgttatggcagctgg-c-tcttccagagtaggtgatctaaaagaacaagacaaaaactaaagtggcttttataatctagccttagtactcatgaagtatcatttccacaatatcctcttgactaccatatcagtttgttcttgcactgct------gtaaagaaatacccgagacagggtaattaataaag-aaagagattc-aattgactcatggttctgcaggctttcaaggaagcagaatgacttctgcttttggggaggcctcaggaagcttccagtcatggtagaaggcaaatggggaatgaggcatct----------cacatggtgagagcatgagcaagagggagcaggggtgggggtgctactacatacttt----taaaaaaccagatctcatgagaattctatcatgaggacagcaccaaggggatggtgctaagccattcatgagaaatctcccccatggttcaatcatctccctccagg----------ccctacctccaacactggggatgatgatttgacatgagatttgggcgggtacacatatccaaactatatcaac-tac
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13296254 829 -  42888418 ctaaaacatagtggcttaac-aaaaatatgtattatctcacaatctctgttgattagaaatttgtggg----tgattgttagggtggctctggcttgtgatatctcatggtgttgcaattaagatgctcactgagattccagtggccatttgagcctg-tgagatccacttccaagattgtacactttcatagctattgatagcaggcctttcagttcctccctgattgttgatagaaggcttatgttccttgccacattgccttcctcataaggct---------tcatgagtagtctcatgtcatggcagctgg-cttcttccagagtaggtgatccaaaagaacaagacaaaaactacagtggcttttataatctagcctcagtactcatgcagtatcatttccacaatatcctattgactattgtatcagtttgttcttgcactgct------ataaagaaatacctgagacagggtaattaataaagaaaagagattc-aattgactcatggttctgcaggctgtaaaggaagcatagatacttctgctttccgggaggcctcaggaagcttccagtcatggcagaaggcaaatggggaatgaggcatct----------cacatggtgggagcatgagcaagagagagcagggatgggggtg---ctacatacttt----taaaaaaccagatctcatgagaattctatcatgaggacagcatcaaggggatggtgctaagccattcattagaaatctcccccatgattcaatcatctccctccagg----------ccctacctccaacactggggatgacaatttgacatgagatttgggtggggacacagatccaaactatatcaac-tac
i aotNan1.NW_018505940v1   C 0 C 0
e canFam3.chr11             14982735 1816 +  74389097 I
e otoGar3.GL873679           3142208 5756 +   4132165 I
e dasNov3.JH567306           2723318 1554 +   3667625 I
e mm10.chr18                55582542 2005 +  90702639 I

a score=9737492.000000
s hg38.chr5_KI270796v1_alt    164451 962 +    172708 aaaatcagttttactcaatgtggg-aaggtactaccctttttggata-------aattaggggtcatcttggaggctgCGTTGCACAgtgtgccctctgtctcacaatgactcacatatttcctacatccagtatccactgaacccatggtcaag-acccccctgaaagccccattttattataccaccagctcaaattccagaa-tctgtcatctaaataaagacctcataactaacgatacttctcagatataattccttgaatacagctccctctagtatggtttcttttgatcataagatctatgaactatagaaataagttatctgtctccctgtacacc----cagcagataatgatcatgggatagtcctaggataacgattaaatatacttt----------cattcaaaaaggggaaaaatgagaggcacacgggtgtcgctgaaatcccaacaaaccaatgttggaagttccttcattaggactcagttgtattcctgtctgggaataa--ctgtatggcccttcgctctgctctctgggctcttggttccatcccctcaattatccttcttcttccatgaaaaatagtctatatttacagctgcagtgctttctcagccttct--agtcaacagaatctt--gagtctagatgcattttaaaaaattttatcttatctctattccttccagtccaagctggcagtgtttctgccaatctaataattaa-----aaaacaaaactctgtgggcccattatgaatcat-ttggaatttaatctttt-tataaaagccacacccacaaacctattta--------------ctatctcagccttttcttgagactgtggaggggcaacactttcaaacttcttacaag---tcttactgtttgattgaaggttctctgaggtgccaccttaactcttccaaaggtgttaat-aatgatttttactgctgcccc-------------cttggctttatccttagatcacgtttgcctggcagg
s panTro5.chr5             125278598 976 + 181907262 aaaatcagttttactccatgtggg-aaggtactaccctttttggata-------aattagaggtcatcttggaggctgccttgcacagtgtgccctctgtctcacaatgactcacatatttcctgcatccagtataaactgaacccatggtcaag-acccccc-gaaagccccattttattataccaccagctcaaattccagaa-tttgtcatctaaataaagacctcataaataacggtacttctcagatataattccttgaatacagct-cctctagtatggtttcttttgatcataagatctatgaactatagaaataagttatctgtctccctgtacacc----cagcacataatgatcatgggatagtcctaggataacaattaaatatacttt----------cattcaaaaaggggaaaaatgagaggcatacaggtgtcattgaaatcccaacaaaccaatgttggaagttccttcattaggactaagttgtattcctgtctgggaataa--ctgtatggcccttcgctctgctctctgggctcttggttccatcccctcagttatcctgcttcttccatgaaaaatagtctatatttacagctgcaatgctttctcagccttct--agtcaacagaatcttgagagtctagactcatttaaaaaatttttttattatctctattccttctggtccaagctggcagtgtttctgccaatctaataattaa-----aaaacaaaactctgtgggcccattgtgaatcat-ttggaatttaatctttt-tataaaagccacacccacaaacctatttaagatcaccctttctctatctcagccttttcttgagactgtggaggggcaacactttcaaacttcttacaag---tcttactgtttgattgaaggttctctgaggtgccaccttaactcttccaaaggtgttaac-aatgatttttactgctgcccc-------------cttggctttatccttagatcatgtttgcctggcagg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126609408 977 + 183735486 aaaatcagttttactcaatgtggg-aaggtactaccctttttggata-------aattagaggtcatcttggaggctgccttgcacagtgtgccctctgtctcacaatgactcacatatttcctacatccagtatacactgaacccatggtcaag-acccccctgaaagccccattttattataccaccagctcaaattccagaa-tttgtcatctaaataaagacctcataaataacggtacttctcagatataattccttgaatacagct-cctctagtatggtttcttttgatcataagatctatgaactatagaaataagttatctgtctccctgtacacc----cagcacataatgatcatgggatagtcctaggataacgattaaatatacttt----------cattcaaaaacgggaaaaatgagaggcacgtgggtgtcattgaaatcccaacaaaccaatgttggaagttccttcattaggactcagttgtattcctgtctgggaataa--ctgtatggcccttcgctctgctctctgggctcttggttccatcccctcaattatccttcttcttccatgaaaaatagtctatatttacagctgcaatgctttctcagccttct--agtcaacagaatcttgagagtctagacgcatttaaaaaatttttatattatctctattccttccggtccaagctggcagtgtttctgccaatctaataattaa-----aaaacaaaactttgtgggcccattgtgaatcat-ttggaatttaatctttt-tataaaagccacacccacaaacctatttaagatcaccctttctctatctcagccttttcttgagactgtggaggggcaacactttcaaacttcttacaag---tcttactgtttgattgaaggttctctgaggtgccaccttaactcttccaaaggtgttaac-aatgatttttactgctgcccc-------------cttggctttatccttagatcatgtttgcctggcagg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1801173 977 +   8933513 aaaatcagttttactcaatgtggg-aaggtactaccctttttggata-------aactggaagtcatcttggaggctgccttgcacagtgtgccctctgtctcacaatgactcacatatttcctacatccagtatacactgaacccatgatcaag-acccccctgaaagccccattttattataccaccagctcaaattccagaa-tttgtcatctaaataaagacctcataactaacgatacttctcagatacaattccttgaatacagct-cctctagtatggtttcttttgatcataagatctatgaactatagaaataagttatctgtctccctgtacacc----cagcagataatgatcatgggatagtcctaggataacgattaaatatacttt----------cattcaaaaaggggaaaaatgagaggcatacaggtgtcattgaaatcccaacaaaccaatgttggaagttccttcattaggactcagttgtattcctgtctgggaataa--ctatatggcctttcactctgctctctgggctcttggttccatcccctcaattatccttcttcttccatgaaaaatagtctatatttacagctgcaatgctttctcagtcttct--agtcaacagaatcttgagagtctagacacattttaaaaaattttatattatctctattccttctggtccaagctggcagtgtttctgccaatctaataattaa-----aaaacaaaactctgtgggcccattatgaatcat-ttggaatttaatctttt-tataaaagccacacccacaaacctatttaagatcaccctttctctatctcagccttttcttgagactgtggaggggcaacactttcaaacttcttacaag---tctgactgtttgattgaaggttctctgaggtgccaccttaactcttccaaaggtgttaac-aatgatttttactgctgccct-------------cttggctttatccttagatcatgtttgcctggcagg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139932006 988 + 163208435 AAAATCAGTTTTACTCAATGTGGG-AAGGTACTACCCCTTTTGGATA-------AATTAGAGGTCATCTTGGAGGCTGCCTTGCACAgtgtgccctctgtctcacaa----------atttcctacatccagtatacactgaacccatggtcaag-acccccctgaaagccccattttattataccaccagctcaaattccagaa-tttgtcatctaaataaaggcctcataactaatgatacttttcagatataattccttgaatacagct-cctctagtatggtttcttttaatcataagatctgtgaactatagaaataagttatctgtctccctgtacacc----cagcacataatgatcatgggctactgctaggataacaattaaatatacttt----------cattcaaaaaggggaaaaatgagaggcatacaggtgtcactgaaatcccaacaaaccaatgttggaagttccttcattaggactcagttgtattcctgtctgggaataa--ctgcatggccctttgctctgctctctgggctcttggttccatcctctcaattatccttcttcttccatgaaaaatagtctatatttacacctgcaatgctttctcagccttct--agtcaatagaatcttgagagtctagaggagtttttaaaaattttatattatctctattccttcctgtccaagctggcagtgtttctgtctatctaataattaaaaaacaaaacaaaactctgtggacccattgtgaatcat-ttggaatttaatcttta-tataaaagccacacccacaaacctatttaagattaccctttctctatctcggccttttcttgagactgtggaggggcaatactttcaaacttcttaaaagtcttcttactgtttgattgaaggttctctgaggtgccaccttaactcttccaaaggtgttaac-aatgatttttactgctgccccccccgccccccaacttcgctttatccttagatcacgtttgcctggcagg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122917517 964 + 180051392 aaaatcagctttactcaatgtggg-aaggtactaccctttttggata-------aattagaggtcattttggaggttgccttgcacagtgtgccctctgtctcacagtg------atatttcctacatccagtatacactga----------aag----cccctgaaagccccattttattataccacaagctcaaattccagaa-tttgtcatctaaataaaggcctcataactaatgatacttctcagatataattccttgaatatagct-cctctcgtatgatctcttttgatcataagatctgtgaactatagaaataagttatctgtctccctgtacacc----cagcacataatgatcatgggatagtcctaggataacaattaaatatacttt----------cattcaaaaaggagaaaaatgagaggcttacaggtatcattaaaatcccaacaaaccaatattggaagttccttcattaggactcagctgtattcctgactgggaataa--ctatatggccctttgctctgctctctgggctcttggttccgtcctcgcaattatccttcttcttccatgaaaaatagtctatatttacagctacaatgctttctcagccttct--agtcaatagaatcttgagagtctagaggcctttttaaaaattgtatattatctctattccttcccgtccaagctggcagtgtttctgccaatctaataattaaaaaacaaaacaaaactctgtgggccctttgtgaatcat-ttggaatttaatcttttatataaaagccacacccatacccctatttaagatcactctttctctgtcttagccttttcttgagactgtggaggggcaacactttcaaacttcttagaag---tcttactgtttgattgacggttctccgaggtgccaccttaattcttctaaaggtgttaac-aatgatttttactgctgccct-------------cttggctttatccttagatcatgtctgcctggcagg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124341142 964 + 181584905 aaaatcagctttactcaatgtggg-aaggtactaccctttttggata-------aattagaggtcattttggaggctgccttgcacagtgtgccctctgtctcacagtg------atatttcctacatccagtatacactga----------aag----cccctgaaagccccattttattataccacaagctcaaattccagaa-tttgtcatctaaataaaggcctcataactaatgatacttctcagatataattccttgaatatagct-cctctcgtatgatctcttttgatcataagatctgtgaactatagaaataagttatctgtctccctgtacacc----cagcacataatgatcatgggatagtcctaggataacaattaaatatacttt----------cattcaaaaaggagaaaaatgagaggcttacaggtatcattaaaatcccaacaaaccaatattggaagttccttcattaggactcagctgtattcctgactgggaataa--ctatatggccctttgctctgctctctgggctcttggttccgtcctcgcaattatccttcttcttccatgaaaaatagtctatatttacagctacaatgctttctcagccttct--agtcaatagaatcttgagagtctagaggcctttttaaaaattgtatattatctctattccttcccgtccaagctggcagtgtttctgccaatctaataattaaaaaacaaaacaaaactctgtgggccctttgtgaatcat-ttggaatttaatcttttatataaaagccacacccatacccctatttaagatcactctttctctgtcttagccttttcttgagactgtggaggggcaacactttcaaacttcttagaag---tcttactgtttgattgaaggttctccgaggtgccaccttaattcttctaaaggtgttaac-aatgatttttactgctgccct-------------cttggctttatccttagatcatgtctgcctggcagg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16339834 964 +  18395747 aaaatcagctttactcaatgtggg-aaggtactaccctttttggata-------aattagaggtcattttggaggctgccttgcacagtgtgccctctgtctcacagtg------atatttcctacatccagtatacactga----------aag----cccctgaaagccccattttattatactacaagctcaaattccagaa-tttgtcatctaaataaaggcctcataactaatgatacttctcagatataattccttgaatatagct-cctctcgtatgatctcttttgatcataagatctgtgaactatagaaataagttatctgtctccctgtacacc----cagcacataatgatcatgggatagtcctaggataacaattaaatatacttt----------cattcaaaaaggagaaaaatgagaggcttacaggtatcattaaaatcccaacaaaccaatattggaagttccttcattaggactcagctgtattcctgactgggaataa--ctatatggccctttgctctgctctctgggctcttggttccgtcctcgcaattatccttcttcttccatgaaaaatagtctatatttacagctacaatgctttctcagccttct--agtcaatagaatcttgagagtctagaggcctttttaaaaattgtatattatctctattccttcccgtccaagctggcagtgtttctgccaatctaataattaaaaaacaaaacgaaactctgtgggccctttgtgaatcat-ttggaatttaatcttttatataaaagccacacccatacccctatttaagatcactctttctctgtcttagccttttcttgagactgtggaggggcaacactttcaaacttcttagaag---tcttactgtttgattgaaggttctccgaggtgccaccttaattcttctaaaggtgttaac-aatgatttttactgctgccct-------------cttggctttatccttagatcatgtctgcctggcagg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5351195 968 +  26952557 aaaatcagctttactcaatgtggg-aaggtactaccctttttggata-------aattagaggtcattttggaggctgccttgcacagtgtgcc--ctgtctcacagtgattcacatatttcctacatccagtatacactga----------aag----cccctgaaagccccattttattataccacaagctcaaattccagaa-tttgtcatctaaataaaggcctcataactaatgatacttctcagatataattccttgaatatagct-cctctcgtatgatctcttttgatcataagatctgtgaactatagaaataagttatctgtctccctgtacacc----cagcacataatgatcatgggatagtcctaggataacaattaaatatacttt----------cattcaaaaaggggaaaaatgagaggcttacaggtatcattaaaatcccaacaaaccaatattggaagttccttcattaggactcagttgtattcctgactgggaataa--ctatatggccctttgctctgctctctgggctcttggttccgtcctcgcaattatccttcttcttccatgaaaaatagtctatatttacagctacaatgctttctcagccttct--agtcaatagaatcttgagagtctagaggcctttttaaaaattgtatattatctctattccttcccgtccaagctggcagtgtttctgccaatctaataattaaaaaacaaaacaaaactctgtgagccctttgtgaatcat-ttggaatttaatcttttatataaaagccacacccatacccctatttaagatcaccctttctctgtcttagccttttcttgagactgtggaggggcaatactttcaaacttcttagaag---tcttactgtttgattgaaggttctccgaggtgccaccctaattcttccaaaggtgttaac-aatgatttttactgctgccct-------------cttggctttatccttagatcatgcctgcctggcagg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28452054 936 +  82825804 aaaatcagctttactcaatgcggg-aaggtactaccctttttggata-------aattagaggtcattttggaggctgccttgcacagtgtgccctctgtctcacagtgattcacatatttcctacatccagtatacactga----------aag----cccctgaaagctccattttattataccaccagctcaaattccagaa-tttgtcatctaaataaaggcctcataactaatgatacttctcagatataattccttgaatatagct-cctctcgaatgatctcttttgatcataagatctgtgaactatagaaataagttatctgtctccctgtacacc----cagcacataatgatcatgggatagtcctaggataacaattaaatatacttt----------cactcaaaaaggggaaaaatgaggggcttacaggtatcattaaaatcccaacaaaccaatattggaagttccttcattaggactcagttgtattcctgtctgggaataa--ctagatggccctttgctctgctctctgggctcttggttccatcctcgcaatta-----------------------------atttacagctacaatgctttctcagccttct--agtcaacagaatcttgagagtctagaggcctttttaaaaattgtatattgtctctattcctacccgtccaagctggcagtgtttctgccaatctaataattaa-----aaaacaaaactctgtgggcccattgtgaataat-ttggaatttaatcttttatataaaagccacacctacacccctatttaagatcaccctttctctgtcttagccttttcttgagactgtcgaggggcaacactttcaaacttcttagaag---tcttactgtttgattgagggttctccgaggtgccaccttaattcttccaaaggtgttaac-aatgatttttactgctgcccc-------------cttggctttatccttagatcatgtctgcctggcagg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4122421 970 -   4237731 aaaatcagctttactcaatgtggg-aaggtactaccctttttggata-------aattagaggtcattttggaggctgccttgcacagtgtgccctctgtctcacagtgattcacatatttcctacatccagtatacactga----------aag----cccctgaaagccccattttattataccacaagctcaaattccagaa-tttgtcatctaaataaaggcctcataactaatgatacttctcagatataattccttgaatatagct-cctctcgtatgatcacttttgatcataagatctgtaaactacagaaataagttatctgtctccctgtacacc----cagcacataatgatcatgggatagtcctaggataactattaaatatacttt----------cattcaaaaaggggaaaaatgagaggcttacaggtatcattaaaatcccaacaaaccaatattggaagttccttcattaggactcagttgtattcctgactgggaataa--ctatatggccctttgctctgctctctgggctcttggttccgtcctcgcaattatccttcttcttccatgaaaaatagtctatatttacagctacaatgctttctcagccttct--agtcaatagaatcttgagagtctagaggcctttttaaaaattgtgtattatctctattccttcccgtccaagctggcagtgtttctgccaatctaataattaaaaaacaaaacaaaactctatgggccctttgtgaatcat-ttggaatttaatcttttatataaaagccacacccatacccctatttaagatcaccctttctctgtcttagccttttcttgagactgtggaggggcaacactttcaaacttcttagaag---tcttactgtttgattgaaggttctccgaggtgccaccttaattcttccaaaggTGTTAAC-AATGATTTTTACTGCTGCCCT-------------CTTGGCTTTATCCTTAGATCATGCCTGCCTGGCAGG
i manLeu1.NW_012103321v1   C 0 M 330
s colAng1.NW_012119644v1      391246 970 -   1175262 aaaatcagctttactcaatgtggg-aaggtactaccctttttgaata-------aattagaggtcattttggaggctgccttgcacagtgtgccctccgtctcacagtgattcacatatttcctacatccggtatacactga----------aag----cccctgaaagccccattttattataccaccagctcaaattccagaa-tttgtcatctaaataaaggcctcataactaatgatacttctcagatataattccttgaatatagct-cctctcatatgatctcttttgatcataagatctgtgaaccatagaaataagttatctgtctccctgtacacc----cagcacgtaatgatcatgggatagtcataggataacaattaaatatacttt----------cattcaaaaaggggaaaaatgagaggcttacaggtatcattaaaatcccaacaagccaatattggaagttccttcattaggactcagttgtattcctgtctgggaataa--ctatatggccctttgctctactctctgggctcttggttccatcctcgcaattatccttcttctttcatgaaaaatagtctatatttacagctacaatgctttctcagccttct--agtcaatagaatcttgagagtctagaggccttttaaaaaattgtatattacctctattccttcccgtccaagctggcagtatttctgccaatgtaataattaaaaaacaaaacaaaactctgtgggcccattgtgaatcat-ttggaaattaatcttttacataaaagccacacccacacccctgtttaagatcaccctttctctgtcttagccttttcttgagactgtggaggagcaacactttcaaacttcttagaag---tcttactgtttgattgaaggttctctgaggtgccaccttaattcttccaaaggtgttaac-aatgatttttactgctgcccc-------------cttggctttatccttagatcatgtctgcgtggcagg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123752282 946 - 204313951 aaaataagttgtactcaatgtggg-aaggtactaccccttttggatg-------aattagaggtcatcttggaggctgccttgcacagtgtgctctctgactcataatgattcacatatttcctacaggcagtatatactgaaccccc---------ctctgccgaaagccccatt-cattataccac-----------ccagaa-tttgtcctctaaataaaagcctcacaactaacaatgcttctcagatatacttttttgaatacaact-cctctagtacagtttctttggatcataagatttgtgaacaatagaaataagttatctgtctccctatatacccacgcagcataaaatagtcatgggatagtcataggataataattaaatatacttc----------tattcaaaaaggggaaaaatgagaggcctacaggtgtaactgaaatcacagcaaaccaatgttggaagttc-----------ctcagttttattcctgtctgggaataa--ctgtatggctctttgctctgctctccagactgttggttctatcctctcaattctccttcttcttccatgaaaaatagtctatatttatagctgcaaagctttcttagccttct--agtcaatagactcttgagagtctagacgcctttaaaaaatttttatattatctccat---------tccaagctggcagtgtttctgctaattgaataattaaaaaacaaaacaaaactctgtgggcccattgtgaatcat-gtggaatttacttctttgtataaaagccacacccacaaacttattta-gattaccctttctctatctttgccttttcttgagactgtggaggggcaatactttcaagctttgtagaag---tcctattgttcgattgaaggttctctgaagtgccaccttagctctttctacggtgttaac-aatgatttttactgctacatc-------------tttggccttatccttagatcatgtttctctggcagg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55793108 979 -  71252344 aaaatcagttgtactcaatgtgaa-agggtacttccctttttggata-------aattagaggtcatcttggaggttgccttgcacagtgtgctctctgtctcacagtgattcacatatttcctacatgcagtatattctgaaccccc--------actccccctaaaaccccattccattataccactagttcaaattccagaa-tttgtcctgtaagtaaaaacctcacaactaacaatgcttctcagatatacttctttgaatacaact-cctccagtacagtttctttggatcataagatctgtgaaccatagaaataagttacctgtttccctatacacccacccagcacaaaatagtcatgggatagtcataggataacaattaaatacacttc----------tattcaaaaaggggaaaaatgagaggcatataggtgtaactgaaatcacagcaaaccaatgttggaagttccttcattaggactcagttttattcctgtctgggaataa--ctgtatggctctttgctctgctctctaggctcttggttctatcctctcaattattcttcttcttccatgaaaaatagtctatatttacagctgcaaagctttcttagccttct--agtcaataaaatcttgagatcctagaggcctttaaaaattttttatattatctccattccttccagtccaagctggcagtgttcctgctaattgaataattaaaaatcagaacaaaactctgtgggcccattgtgaatcat-ttggaatttaattctttgtataaaagccacacccacaaacttattta-gattaccctttctctatcttagccttttcttgagactgtggaggggcaatactttcaggctttttagaag---tcttattgtttgattgaagtttctctgaggtgccaccttagctcttcctaaggtgttaac-aatgatttttactgctacatc-------------cttggctttatccttagatcatgtttgtctggcagg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       96544 975 -   3089952 aaaatcagttgtactcaatgtggg-aaggtactaccctttttggata-------aattagaggtcatcttggaggctgcctTGCAGAgtgtgttctctgtctcacggtgagtcacatatttcctacgtgcagtatatactgaactccc---------ctcccccgaaagccccattccattataccaccagttcaaattccagaa-tttgtcctctaaataaaagcctcacaagtaacaatgcttctcagatatacttctttgaatacaact-cctctagtacagtttctttggatcataagatctgtgaactatagaaataagttatctgtctccctatacacccacccagcacaaaatagtcatgggatagtcataggctaacaattaaatatactcc----------tgttcaaagaggggaaaaatgagagccatacaggtgtaactgaaatcacagcaaaccaatgttggaacttccttcattaggactcagttttattcctgtctgggaataa--ctgtatggctctttgctctgctctctaggctcttggttctatcctctcaattatc---cttcttccatgaaaaatagtctatatttatagctgcaaatctttcttagccttct--agtcaatagaatcttgagagtctagaggccttttaaaaatttttatattatctccatttcttccagtccaagctggcagtgtttctgctaattgaataattaaaaaacaaaacaaaactctgtgggcccattgtgaatcat-ttggaatttaattctttgtataaaagccacacccacaaacttattta-gattaccctttctctatcttagccttttcttgagactgtggaggggcaatactttcaagctttttagaag---tcttattgtttgattgaaggttctctgaggtgccaccttagctcttcctaaggtgttaac-aatgatttttactgctacatc-------------cttggctttatccttagatcatgtttgtctcgcagg
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13297083 973 -  42888418 aaaatcagttgtactcaatgtggg-aaggtaccaccctttttgggtg-------aattagaggtcatcttggaggctgccttgcacagtgtgctctctgtctcacaatgattcacatatttcctacatgcagtatatactgaaccccc---------ctcccctgaaagccccactccat-----caccagttcaaattccagaa-tttgtcctctaaataaaagcctcacaactaacaatgcttctcagatatacttctttgaatacaact-cctctagtacagtttctttgggttgtaagatctgtgaactatagaaataagttatctatctcactatacacccactcagcacaaaatagtcatgggatagtcataggataacaattaaatatacttt----------tattcaaaaaggggaaaaatgagaggcatacaggtgtaactgaaatcacagcaaaccaatgttggaagttccttcatcaggactcaattttattcctgtctgggaataa--ctgtatggctctttgctttgctctctaggctcttggttctatcctctcaattattcttctccttccatgaaaaatagtctatatttacagctgcaaagctttcttagccttct--agtcaatagaatcttgagagtctagaggccttttaaaaatttttatattatctccattccttccagtccaagctggcagtgtttctgctaattgaataattaaaaaacaaaacaaaactctgtgggcccattgtgaatcat-ttggaatttaattctttgtgtaaaagccacaaccacaaacttattta-gattacgctttctctatcttagacttttcttgagactgtggaggggcaatactttcaagctttttagaag---tcttattgtttgattgaaggttctctgaggtgccaccttagctcttcctaaggtattaac-aatgatttttactgctacatc-------------cttggctttatccttagatcatgtttgtctggcagg
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14984551 970 +  74389097 aaagcctgtccttctcaaagtgggaaagatagtacca-----ggaggcagaaataattgggggtcatcttggaggctgcctTGCAAAAtctgccctttgtcctacaatgatccacatattctctacatgcaaagtatactca----------tggcactacttccaaagtcccattccattatagtaccaactcaaaatccagaactctgtcatctaaatagcggtcccaatgcagatgaggttcctctgatgtaattccttaaatatagct-cttctagaaaagtgtcttctaatcttgaaatccatgaactgtagcaacgagttaactatccctttatatgtc----caacatacactgg---tgagacag---taggataactttttttttttttttttggtataactatttaaaaggatggtaaattggagacacaaagaagtcactgaaatctagccagatcaattctggaagttcctttattaggtatcagtcttattcctgttcaggaataactctgtatgactcttgattctgacctctgatctcttcgttccttcctggaactcatctttcctttcccacaaaagataacctatgtttgcagctgcaaaactttcttaacctgcttccatcaatagaatttggggggttt-------tcttttccttttatatattgtctctatcctttccagttcaagctgttagtgtttctaccaatataatatgttt---------taaacctctgtggtttacttgtgagtcacgttggagttcaaacctttagataaaatccacatctagaaacttctttaagatacacctttctttatgttggtcttccctggagactgctgagagacag-aatcttaggtttcttagaaa---ccctactgtttgattgaaggttctctgaggtgccatgttagctctttgtttgatcttgacaaatgatctttactgccacact-------------c-tgactttatcattacaccacattttcctagcaag
i canFam3.chr11            I 1816 C 0
e otoGar3.GL873679           3142208 5756 +   4132165 I
e dasNov3.JH567306           2723318 1554 +   3667625 I
e mm10.chr18                55582542 2005 +  90702639 I

a score=247910.000000
s hg38.chr5_KI270796v1_alt    165413 27 +    172708 ccattgggtttcatctttgcatggaaa
s panTro5.chr5             125279574 27 + 181907262 ccattgggtttcatctttgcctggaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126610385 27 + 183735486 ccattgggtttcatctttgcctggaaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1802150 27 +   8933513 ccattgggtttcatctttgcgtggaaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139932994 27 + 163208435 ccattgggtttcatctttgcctggaaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122918481 27 + 180051392 acattgggtttcatctgtgcctggaaa
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124342106 27 + 181584905 acattgggtttcatctgtgcctggaaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16340798 27 +  18395747 acattgggtttcatctgtgcctggaaa
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5352163 27 +  26952557 acattgggtttcatctgtgcctggaaa
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28452990 27 +  82825804 acattgggtttcatctttgcctggaaa
i chlSab2.chr23            C 0 C 0
s colAng1.NW_012119644v1      392216 27 -   1175262 actttgggtttcatctttgcctggaaa
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123753228 27 - 204313951 ccattgtgtttcatctttgcttggaaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55794087 27 -  71252344 ccattgtgtttcatctttgcttggaaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       97519 27 -   3089952 ccattgtgtttcatctttgcttggaaa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13298056 27 -  42888418 ccattgtgtttcatctttgcttggaaa
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14985521 27 +  74389097 gcctcaggttttatttttgcctggaaa
i canFam3.chr11            C 0 C 0
e manLeu1.NW_012103321v1     4123391 330 -   4237731 M
e otoGar3.GL873679           3142208 5756 +   4132165 I
e dasNov3.JH567306           2723318 1554 +   3667625 I
e mm10.chr18                55582542 2005 +  90702639 I

a score=449601.000000
s hg38.chr5_KI270796v1_alt    165440 41 +    172708 tcatttcttaattttagtatt-tttgccatctggaaaaattt
s panTro5.chr5             125279601 41 + 181907262 tcatttcttaattttagtatt-tttgccatctggaaaaattt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126610412 41 + 183735486 tcatttcttaattttagtatt-tttgccatctggaaaaattt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1802177 41 +   8933513 tcatttcttaattttagtatt-tttgccatctggaaaaattt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139933021 41 + 163208435 tcatttcttaattttagtatt-tttgccaactggaaaaattt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122918508 41 + 180051392 tcatttcttaattttagtatt-tttgccatctggagaaattt
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124342133 41 + 181584905 tcatttcttaattttagtatt-tttgccatctggagaaattt
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16340825 41 +  18395747 tcatttcttaattttagtatt-tttgccatctggagaaattt
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5352190 41 +  26952557 tcatttcttaattttagtatt-tttgccatctggagaaattt
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28453017 41 +  82825804 tcatttcttaattttagtatt-tttgccatctggagaaattt
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4123725 41 -   4237731 Tcatttcttaattttagtatt-tttgccatctggagaaattt
i manLeu1.NW_012103321v1   M 330 C 0
s colAng1.NW_012119644v1      392243 41 -   1175262 tcatttcttaattttagtatt-tttgccatctggagaaattt
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123753255 41 - 204313951 ccatttcttaattttagcagt-tttgctatctggagaaattt
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55794114 41 -  71252344 ccatttcttaattttagcagt-tttggtatctggagaaatgt
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       97546 41 -   3089952 ccatttcttaattttagcatt-tttgctctctggaaaatttt
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13298083 41 -  42888418 ccatttcttaattttagcatt-tttgctatctggagaaattt
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14985548 42 +  74389097 ccatttcttaattttagcattatttggcaactggagaagctt
i canFam3.chr11            C 0 I 136
e otoGar3.GL873679           3142208 5756 +   4132165 I
e dasNov3.JH567306           2723318 1554 +   3667625 I
e mm10.chr18                55582542 2005 +  90702639 I

a score=4392777.000000
s hg38.chr5_KI270796v1_alt    165481 438 +    172708 tcaggaccac----------------------------------------------------------------------caagtcttgtctg-ttttttgtttaacaa--ttttttttaggttatcttttacctctttcattttgctgtaatcaggaagaagtttgggaaaactccatagc-agatcattttcaattcattaatcacatttc-tcttttccacatgactgcaggtaatag----tgttggtaaactttctaccaattcataacaagaattcctttaccctcattctcctttaatgcctcataatcagcctcctcaaaagccctcaggcttccccccctacagtctgctcaaggaccgttaggttttcactctcctcccttcaaagttcttccacattcttcccactgcctggattcagagccacttccacatatttaggtatttgttacag-----------------------------------cattaggtagctattgttgcttaacaaattatcacaaacttatgggtttaaaaat
s panTro5.chr5             125279642 439 + 181907262 tcaggaccgt----------------------------------------------------------------------caagtcttgtctg-ttttttgtttaacaa---tttttttaggttatctcttacctctttcattttgctgtaatcaggaagaagtttgggaaaactccatagc-agatcattttcaattcattaaccacatttc-tcttttccacacgactgcaggtaatagtgtttgttggtaaactttctaccaattcataacaagaattccttttccctcattctcctttaatgcctcattatcagcctcctcaaaagccctcaggctt--ccccctacggtctgctcaaggactgttaggttttcactctcctcccttcaaagttcttccacattcttcccactgcctggattcagagccacttccacatatttaggtatttgttacag-----------------------------------cattaggtagctattgttgcttaacgaattaccacaaacttatgggtttaaaaat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126610453 439 + 183735486 tcaggaccgt----------------------------------------------------------------------caagtcttgtctg-ttttttgtttaacaa---tttttttaggttatctcttacctctttcattttgctgtaatcaggaagaagtttgggaaaactccatagc-agatcattttcaattcattaaccacatttc-tcttttccacatgactgcaggtaatagtgtttgttggtaaactttctaccaattcataacaagaattccttttccctcattctcctttaatgcctcattatcagcctcctcaaaagccctcaggctt--ccccctacagtctgctcaaggactgttaggttttcactctcctcccttcaaagttcttccacattcttcccactgcctggattcagagccacttccacatatttaggtatttgttacag-----------------------------------cattaggtagctattgttgcttaacgaattaccacaaacttatgggtttaaaaat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1802218 436 +   8933513 tcaggaccat----------------------------------------------------------------------caagtcttgtctgtttttttgtttaacaa---tttttttaggttatctcttacctcttcctgattacagcaaaatgaaagaagtttgggaaaactccatagc-agatcattttcaattcattaaccacatttc-tcttttccacatgactgcaggtaatag----tgttggtaaactttctaccaattcataacaaaaattccttttctctcattctcctttaatgcctcattatcagcctcctcaaaagccctcaggctt--ccccctacagtctgctcaaggaccgttaggttttcactctcctcccttcaaagttcttccacattcttcccactgcctggattcagagccacttccacatatttaggtatttgtcacag-----------------------------------cattaggtagctattgttgcttaacaaattaccacaaacttatgggtttaaaaat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139933062 436 + 163208435 tcaggaccgt----------------------------------------------------------------------caagtcttgtctctttttttgtttaacaa---tttttttaggttatctcttacctctttcgttttgctgtaatcaggaagaagtttgggaaaactccttagc-agatcattttcaattcattaaccacatttc-tcctttccacatgactgcaggtaatag----tgttggtaaactttctaccaattcataacaagaattccttttccctcattctcctttcatgcctcattatcagcgtcctcaaaagccatcaggctt--ctccctacagtctgctcaaggactgttaggttttcactctcctcccttcaaagttcttccacattcttcccactgcctggattcagagccacttccacatatttaggtatttgttacag-----------------------------------cattaggtagccatttttgcttaacaaattaccacaaacttatgggtttaaaaat
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122918549 430 + 180051392 tcaggaccgt----------------------------------------------------------------------caagtcttgtctc-ttt----ttcaacaa----tttttTAGGTTATCTCTTACCTCTTTCATTTTGCTATAGTCATGAAGAAGTTTGggaaaactccttagc-agatcattttcaattcattaaccacatttt-tcctttccacacaactgcaggtaatag----tgttggtaaactttctaccaattcataacaagaattccttttccttcattctcctttaagatctcattatcaacctcctcaaaagccatcaggctt--ctccctacagtctgttcaaggaatgttaggttttcactctcgtctcttcaaagttcttccacattcttcccactgcctggattcagagccacttccacatagttaggtatttgttacag-----------------------------------cattaggtagctattgttgcttaacaaattaccacaaacttatgggcttaaaaat
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124342174 430 + 181584905 tcaggaccgt----------------------------------------------------------------------caagtcttgtctc-ttt----ttcaacaa----ttttttaggttatctcttacctctttcattttgctataatcatgaagaagtttgggaaaactccttagc-agatcattttcaattcattaaccacatttt-tcctttccacacaactgcaggtaatag----tgttggtaaactttctaccaattcataacaagaattccttttccttcattctcctttaagatctcattatcaacctcctcaaaagccatcaggctt--ctccctacagtctgttcaaggaatgttaggttttcactctcgtctcttcaaagttcttccacattcttcccactgcctggattcagagccacttccacatagttaggtatttgttacag-----------------------------------cattaggtagctattgttgcttaacaaattaccacaaacttatgggcttaaaaat
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16340866 430 +  18395747 tcaggaccgt----------------------------------------------------------------------caagtcttgtctc-ttt----ttcaacaa----tttttTAGGTTATCTCTTACCTCTTTCATTTTGCTATAATCATGAAGAAGTTTGggaaaactccttagc-agatcattttcaattcattaaccacatttt-tcctttccacacaactgcaggtaatag----tgttggtaaactttctaccaattcataacaagaattccttttccttcattctcctttaagatctcattatcaacctcctcaaaagccatcaggctt--ctccctacagtctgttcaaggaatgttaggttttcactcttgtctcttcaaagttcttccacattcttcccactgcctggattcagagccactttcacatagttaggtatttgttacag-----------------------------------cattaggtagctattgttgcttaacaaattaccacaaacttatgggcttaaaaat
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5352231 420 +  26952557 tcaggaccgt----------------------------------------------------------------------caagtcttgtctc-ttt----ttaaacaa----ttttttaggttatctcttacctctttcattttgctataatcatgaagaagtttgggaaaactccttagc-agatcattttcaattcattaaccacatttt-tcctttccacacaactgcaggtaatag----tgttggtaaactttctaccaattcataacaagaattccttttccttcattctcctttaagatctcattatcaacctcctcaaaagccatcaggctt--ctccctacagtctgttcaaggaatgttaggttttcactctcgtctcttcaaag----------ttcttcccactgcctggattcagagccacttccacatagttaggtatttgttaCAT-----------------------------------Cattaggtagctattgttgcttaacaaactaccacaaacttatgggcttaaaaat
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28453058 429 +  82825804 tcaggactgt----------------------------------------------------------------------caagtcttgtctc-ttt----ttaaacaa----ttttttagattatctcttacctctttcattttgctgtaatcatgaagaagtttgggaaaactccttagc-agatcattttcaattcattaaccatatttt-tcctttccacacgactgcaggtaatag----tgttggtaaactttctaccaattcataataagaattccttttctttcattctcctttaagatctcattgtcaacctcctcaaaagccatcaggctt--ctccctgcaggc-gttcaaggaatgttaggttttcactctcgtctcttcaaagtttttccacattcttcccactgcatggattcagagccacttccacatagttaggaatttgttacag-----------------------------------cattaggtagctattgttgcttaacaaattaccacaaacttatgggcttaaaaat
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4123766 430 -   4237731 tcaggaccgt----------------------------------------------------------------------caagtcttgtctc-ttt----ttaaacaa----ttttttaggttatctcttacctctttcatttcgctataatcatgaagaagtttgggaaaactccttagc-agatcattttcaattcattaaccacatttt-tcctttccacacaactgcaggtaatag----tgttggtaaactttctaccaattcataacaagaattccttttccttcattatcctttaagatctcattatcaacctcctcaaaagccatcaggctt--ctccctacagtctgttcaaggaatgttaggttttcactctcgtctcttcaaagttcttccacattcttcccactgcctggattcagagccacttccacatagttaggtatttgttacag-----------------------------------cattaggtagctattgttgcttaacaaattaccacaaacttatgggcttaaaaat
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      392284 430 -   1175262 tcaggactgt----------------------------------------------------------------------caagtcttgtctc-ttt----ttaaacaa----ttttttaggttatctcttacctctttcatttcgctgtaatcataaagaagtttgggaaaactccttagc-agatcattttcaattcattaaccacatttt-ttctttccacacaactgcaggtaatag----tgttggtaaactttctaccaattcataacaagaattccttttccttcattctcctttaagatctcattatcaacctcctcaaaagccatcaggctt--ctccctacagtctgttcaaggaatgttaggttttcgctctcgtctcttcaaagttctttcacattcttcccactgcctggattcagagccacttccacatagttagatatttgtgacag-----------------------------------cattaggtagctattgttgcttaacaaattaccacaaacttatgggcttaaaaat
i colAng1.NW_012119644v1   C 0 I 25
s calJac3.chr2             123753296 437 - 204313951 tcaggatcat----------------------------------------------------------------------caagtctagtctc-ttttttgtttgacatttttttctttaggttatctcttacctctttctttttgctat-atcaggaagaagtttgggaaaactccttaac-agatcactgtcgattcattaaccacatttt-tcctttccacatgactgcaggtaatag----tgttgctaaactttctattaattcatagcaagaattccttttccctcaatttcctttaatgcctcattatcagcctcctcaaaagccatcagactt--ctccttaccatcttttcaaggaatattaggttttcactctcctccctttaaagttcttccacattcttcccactgcctggattcagagccacttccatatatttaggcatttgttacag-----------------------------------cattagttagctattgttgcctaacaaattaccacaaacttattggcttaaaaat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55794155 436 -  71252344 tcaggatcgt----------------------------------------------------------------------caaatctagtgtc-ttttttgtttaacaattttttctttaggttctctcttacctctttcattttgctataatcaggaagaagtttgggaaaactccttagc-agatgactgtcgattcattaaccacatttt-tcctttccacatgactgcaggtaatag----tgttgctaaactttctattaattcatagcaagaattccttttccctcattttcctttaatgcctcattat--gtctcctcagaagctgtcagactt--ctccttaccatctgttcaaggaatgttaggttttcactctcctcccttcaaagttcttccacattcttcccactgcctggatttagagccacttccatatatttaggcatttgttacag-----------------------------------cattagttagttattgttgcctaacaaattaccacaaacttatgggcttaaaaat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       97587 437 -   3089952 tcaggatcat----------------------------------------------------------------------caaatctagtctc-ttttttgtttaacaattttttctttaggttatctcttacctctttcattttgctataatcaggaacaagtttaggaaaaatccttagc-agatcactgtcgattcatgagccacatttt-tcctttccacatgactgcaggtaatag----tgttgctaaactttctattaatgcatagcaagaattcctttttcctcattttcctttaatgcctcattatcagtc-cctcaaaagccatctgactt--ctccttaccatctcttcaaggaatgttacgttttcactctcctcccttcaaagttcttccacattcttcccactgcctggattcagagccacttccttatatttaggcatttgttacag-----------------------------------cattagttagctattgttgtctaacaaattaccagaaacttatgggcttaaaaat
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13298124 438 -  42888418 tcaggattgt----------------------------------------------------------------------caaatctagtctc-ttttttgtttaacaattttttctttaggttatctcttacctctttcatttttctataatcaggaagaagtttgggaaaactccttagc-agatcactgtcgattcattagccacatttt-tcctttccacatgactgcaggtaatag----tgttactaaactttctattaattcatagcaagaattccttttctctcattttcctttaatgcctcattatcagcctcctcaaaaaccatcagactt--ctccttaccatctgttcaaggaacgttaggtttttactctcctcccttcaaagttcttccacattcttccaactgcctggattcagagccacttccatatatttaggcgtttgttacag-----------------------------------cattagttagcgattgttgcctaacaaattaccacaaacttatgggcttaaaaat
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14985726 527 +  74389097 ccaggatcatgtcctggactgaaggcagcgctaaaccactgagtcactggggctgcccaaagcttaggatttttaaaaccgaagtcctgtctc-ttt-ttgtttaacagcatttcctttaggttatcccttacctcttttgttttgctgtaatcaagaaaatattc-ggaagtctctttagctagatcac--tcgatttattagccacattttctactttccacatgactgcagagaacag----tgttgctgaactttctgtcaatatacaccaagaatcccttttccctcaatccactttgagccctcactatcagcttttttaaaagccatcaggctt--ctacccaaagtctgttcaaggtacttgtgtttttcactttcttctc-tcaaagcccttcca---tcttctcactgcctggttccaaaggc---------tatttagatatttgttacagcagcagggcacctccattaccaaactcATTAGTTACattagttgtctatgggtgtgtaacaaagtatcccaaacttactggtttaaaac-
i canFam3.chr11            I 136 C 0
e otoGar3.GL873679           3142208 5756 +   4132165 I
e dasNov3.JH567306           2723318 1554 +   3667625 I
e mm10.chr18                55582542 2005 +  90702639 I

a score=48385.000000
s hg38.chr5_KI270796v1_alt    165919 5 +    172708 aataa
s panTro5.chr5             125280081 5 + 181907262 aataa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126610892 5 + 183735486 aataa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1802654 5 +   8933513 aataa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139933498 5 + 163208435 aacaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122918979 5 + 180051392 aacaa
i rheMac8.chr6             C 0 I 19
s macFas5.chr6             124342604 5 + 181584905 aacaa
i macFas5.chr6             C 0 I 19
s macNem1.NW_012012355v1    16341296 5 +  18395747 aacaa
i macNem1.NW_012012355v1   C 0 I 19
s cerAty1.NW_012002512v1     5352651 5 +  26952557 aacaa
i cerAty1.NW_012002512v1   C 0 I 19
s chlSab2.chr23             28453487 5 +  82825804 aacaa
i chlSab2.chr23            C 0 I 1
s manLeu1.NW_012103321v1     4124196 5 -   4237731 aacaa
i manLeu1.NW_012103321v1   C 0 I 19
s calJac3.chr2             123753733 5 - 204313951 aataa
i calJac3.chr2             C 0 I 1
s saiBol1.JH378106          55794591 5 -  71252344 aacaa
i saiBol1.JH378106         C 0 I 1
s cebCap1.NW_016107590v1       98024 5 -   3089952 aacaa
i cebCap1.NW_016107590v1   C 0 I 1
s aotNan1.NW_018505940v1    13298562 5 -  42888418 aacaa
i aotNan1.NW_018505940v1   C 0 I 1
s canFam3.chr11             14986253 5 +  74389097 aacaa
i canFam3.chr11            C 0 C 0
e otoGar3.GL873679           3142208 5756 +   4132165 I
e dasNov3.JH567306           2723318 1554 +   3667625 I
e mm10.chr18                55582542 2005 +  90702639 I
e colAng1.NW_012119644v1      392714 25 -   1175262 I

a score=-5670.000000
s hg38.chr5_KI270796v1_alt    165924 4 +    172708 --acac
s panTro5.chr5             125280086 4 + 181907262 --acac
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126610897 4 + 183735486 --acac
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1802659 4 +   8933513 --acac
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139933503 4 + 163208435 --acac
i nomLeu3.chr2             C 0 C 0
s chlSab2.chr23             28453493 3 +  82825804 --aaa-
i chlSab2.chr23            I 1 I 10
s calJac3.chr2             123753739 2 - 204313951 --ac--
i calJac3.chr2             I 1 C 0
s saiBol1.JH378106          55794597 2 -  71252344 --ac--
i saiBol1.JH378106         I 1 C 0
s cebCap1.NW_016107590v1       98030 2 -   3089952 --ac--
i cebCap1.NW_016107590v1   I 1 C 0
s aotNan1.NW_018505940v1    13298568 2 -  42888418 --ac--
i aotNan1.NW_018505940v1   I 1 C 0
s canFam3.chr11             14986258 4 +  74389097 acac--
i canFam3.chr11            C 0 C 0
e manLeu1.NW_012103321v1     4124201 19 -   4237731 I
e cerAty1.NW_012002512v1     5352656 19 +  26952557 I
e macNem1.NW_012012355v1    16341301 19 +  18395747 I
e macFas5.chr6             124342609 19 + 181584905 I
e rheMac8.chr6             122918984 19 + 180051392 I
e otoGar3.GL873679           3142208 5756 +   4132165 I
e dasNov3.JH567306           2723318 1554 +   3667625 I
e mm10.chr18                55582542 2005 +  90702639 I
e colAng1.NW_012119644v1      392714 25 -   1175262 I

a score=7740.000000
s hg38.chr5_KI270796v1_alt    165928  6 +    172708 ----tatttc---------------------
s panTro5.chr5             125280090  6 + 181907262 ----tatttc---------------------
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126610901  6 + 183735486 ----tatttc---------------------
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1802663  6 +   8933513 ----tatttc---------------------
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139933507  6 + 163208435 ----tattgc---------------------
i nomLeu3.chr2             C 0 C 0
s calJac3.chr2             123753741  6 - 204313951 ----tgtttc---------------------
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55794599  6 -  71252344 ----tgtttc---------------------
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       98032  6 -   3089952 ----tgtttc---------------------
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13298570  6 -  42888418 ----tgtttc---------------------
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14986262 31 +  74389097 ttattattctctctctctctctctctctctc
i canFam3.chr11            C 0 C 0
e manLeu1.NW_012103321v1     4124201 19 -   4237731 I
e chlSab2.chr23             28453496 10 +  82825804 I
e cerAty1.NW_012002512v1     5352656 19 +  26952557 I
e macNem1.NW_012012355v1    16341301 19 +  18395747 I
e macFas5.chr6             124342609 19 + 181584905 I
e rheMac8.chr6             122918984 19 + 180051392 I
e otoGar3.GL873679           3142208 5756 +   4132165 I
e dasNov3.JH567306           2723318 1554 +   3667625 I
e mm10.chr18                55582542 2005 +  90702639 I
e colAng1.NW_012119644v1      392714 25 -   1175262 I

a score=6938436.000000
s hg38.chr5_KI270796v1_alt    165934 703 +    172708 ---tgattttctgtca-tcatgaatttagaagtgactt-agctggttaggtctggcttgatgtctgtctcatagttgctgtcaaggtgttagtgtgggcta-cagtcat------------ctggtgctagagggttcatttccaagatggttgattcacatgatgattgggcaggaggaatctgtttcttcttgactcttttcaggaggttttaattcctcaccatatggccctacccatgggatttccacaggatttcttgagt-ttctagcaatacggaaagtgtcttcatcaacaatg-atggtcaaggagagtaagatagatgtctcgatatcttctatgacatagcttcataaattacacatcatcatttcttcattggcctgctggttacacaagttagcaatgttcaacatggtaggatact--tcacaggcttaggtctcaagatgaaggaatcattgCA----------------------------------AGCACAAGGATATTGTTAGCACAaggata-------tttgcatttgcttt-------tgcctcaacttgggccaccttttca-----tcagatctttgcaaaggtgacacctcaccatttaggtcgctgatcaaatgtcacct-ctcaagacattctttctttcccacc-gtatctta-tattttctcaatgcttc--ttttatattatactattttactttcttcatagcttttatt----gttgagataatggctcaaacgtttctgattactt-----ttttcttt-
s panTro5.chr5             125280096 698 + 181907262 ---tgattttctgtcattcatgaatttagaagtgactt-agctggtaaggtctggcttgatgtctgtcttatagttgctgtcaaggtgttagtgtgggcta-cagtcat------------ctggtgctagagggttcatttccaagatggttgattcacatgatgatt-ggcaggaggaatctgtttcttcttgactcttttcaggaggttttaattcctcaccatatggccctacccatgggatttccacaggatttcttgagt-ttctagcaatacggaaagtgtcttcatcaacaatg-atggtcaaggagagtaagatagatgcctcaatatcttttatgacatagcttcataaattgcacatcatcatttcttctttggcctgctggttacacaagttagcaatgttcaacatggtaggatact--tcacaggcttaggtctcaagatgaaggaatcattgCA----------------------------------AGCACAAGGATATTGTTAGCACAaggata-------tttgcatttgcttt-------tgcttcaacttgggccaccttttca-----tcagatctttgcaaaggtgacacctcaccatttaggtcgctgatcaaatgtcacct-ctcaagacattctttctttcccacc-gtatctta-tattttctcaatgcttc--ttttata----------ttactttcttcatagcttttatt----gttgagataatggctcaaatgtttttgattacttttttcttttcttt-
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126610907 693 + 183735486 ---tgattttctgtcattcatgaatttagaagtgactt-agctggtaaggtctggcttgatgtctgtcttatagttgctgtcaaggtgttagtgtgggcta-cagtcat------------ctggtgctagagggttcatttccaagatggttgattcacatgatgatt-ggcaggaggaatctgtttcttcttgactcttttcaggaggttttaattcctcaccatatggccctacccatgggatttccacaggatttcttgagt-ttctagcaatacggaaagtgtcttcatcaacaatg-atggtcaaggagagtaagatagatgcctcaatatcttttatgacatagcttcataaattacacatcatcatttcttctttggcctgctggttacacaagttagcaatgttcaacatggtaggatact--tcacaggcttaggtctcaagatgaaggaatcattgCA----------------------------------AGCACAAGGATATTGTTAGCACAaggata-------tttgcatttgcttt-------tgcttcaacttgggccaccttttca-----tcagatctttgcaaaggtgacacctcaccatttaggtcgctgatcaaatgtcacct-ctcaagacattctttctttcccacc-gtatctta-tattttctcaatgcttc--ttttata----------ttactttcttcatagcttttatt----gttgagataatggctcaaacgtttttgattactt-----ttttcttt-
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1802669 702 +   8933513 ---tgattttctgtcattcatgaatttagaagtgactt-agctggtaaggtctggcttgatgtctgtcttatagttgctgtcaaggtgttagtgtgggcta-cagtcat------------ctggtgctagagggttcatttcaaagatggttgattcacatgatgatt-ggcaggaggaatctgtttcttcttgactcttttcaggaggttttaattcctcaccatatggccctacccatgggatttccacaggatttcttgagt-ttctagaaatatggaaagtgtcttcatcaaaaatg-atggtcaaggagagtaagatagatgcctcaatatcttttatgacatagcttcataaattacacatcatcatttcttcactggcctgctggttacacaagttagcaatgttcaacatggtaggatact--tcacaggcttaggtctcaagatgaaggaatcattgCA----------------------------------AGCACAAGGATATTGTTAGCACAaggata-------tttgcatttgcttt-------tgcttcaccttgggccaccttttca-----tcagatctttgcaaaggtgacacctcaccatttaggtcgctgatcaaatgtcacct-ctcaagacattctttctttcccacc-gtatctta-tattttctcaatgcttc--ttttatattatactattttactttcttcatagcttttatt----gttgagataatggctcaaa-gtttttgattactt-----ttttcttt-
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139933513 689 + 163208435 ---tgattttctgtcattcatgaatttagaagtgactt-agctggtaaggtctgacttgatgtctgtcttatagttgctgtcaaggtgttagtgtgggcta-cagtcat------------ctggtgctagagggttcatttcccagatggttgattcacatgatgatt-ggcaggaggaatccgtttcttcttgactcttttcaggaggttttaattcctcaccatatggccctacccataggatttccacaggatttcttgaat-ttctagcaatacggaaagtgtcttcatcaagaatg-atggtcaaggagagtaagatagatgcctcaatatcttttatgacatagcttcataaattacacatcatcatttcttcattggcctgctggttacacaagttagcaatgttcaatatggtaggatactacacacaggcttaggtctcaagatgaaggaatcattgCA----------------------------------AGCACAAGGATATCATTAGCACAaggata-------tctgcgtttgcttt-------tgcctcaacttgggccaccttttca-----tcagatctttgcaaagatgacacctcaccatttaggtctctgatcaaatgtcacct-cttaagacattctttctttcccacc-atatctta-tattttctcaatgcttc--ttttatattatactattttaccttcttcatagcttttatt----gttgagataatggctc--------ttatttaatt--------------
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122919003 698 + 180051392 ---taattttctgtcattcatgaatttagaagtgactt-agctggtaaggtctggcttgatgtctgtcatatagttgctgtcagggtgttggtgtgggcta-cagtcat------------ctggtgctagagggttcatttccaagatggttgactcacatgatgact-ggcaggaggattctgtttcttcttgactcttttcaggaggttttaattcctcaccatatggccctacccat-----------aggatttcttgagt-ttccagcaatatggaaaatatctttgctaagaaagaatggtcaaggagagtaagatacatgcctcaatatcttttatgacatagcttcataaattacacatcatcatttcttcattggcctattggttacacaagttagcgatattcaatatggtaggataccacacaaaggcttaagtctcaagatgaaggaatcattgCA----------------------------------AGCACAAGGATATTGTTAGCACAaggata-------tttgcatttgcttt-------tgcctcaactggggccaccttttca-----tcagacctttgcaaaagtgacacctcaccatttaggtctctcatcaaatgtcaact-ctcaaaacattctttctttctcacc-atatctta-tattttctcaatacttc--ttttatattatactattttactgtcttcatagcttttattattaattgagataatgattcatatgtttttgattactt-----atttatt--
i rheMac8.chr6             I 19 C 0
s macFas5.chr6             124342628 698 + 181584905 ---taattttctgtcattcatgaatttagaagtgactt-agctggtaaggtctggcttgatgtctgtcatatagttgctgtcagggtgttggtgtgggcta-cagtcat------------ctggtgctagagggttcatttccaagatggttgactcacatgatgact-ggcaggaggattctgtttcttcttgactcttttcaggaggttttaattcctcaccatatggccctacccat-----------aggatttcttgagt-ttccagcaatatggaaaatatctttgctaagaaagaatggtcaaggagagtaagatacatgcctcaatatcttttatgacatagcttcataaattacacatcatcatttcttcattggcctattggttacacaagttagcgatattcaatatggtaggataccacacaaaggcttaagtctcaagatgaaggaatcattgCA----------------------------------AGCACAAGGATATTGTTAGCACAaggata-------tttgcatttgcttt-------tgcctcaactggggccaccttttca-----tcagacctttgcaaaagtgacacctcaccatttaggtctctcatcaaatgtcaact-ctcaaaacattctttctttctcacc-atatctta-tattttctcaatacttc--ttttatattatactattttactgtcttcatagcttttattattaattgagataatgattcatatgtttttgattactt-----atttatt--
i macFas5.chr6             I 19 C 0
s macNem1.NW_012012355v1    16341320 698 +  18395747 ---taattttctgtcattcatgaatttagaagtgactt-agctggtaaggtctggcttgatgtctgtcatatagttgctgtcagggtgttggtgtgggcta-cagtcat------------ctggtgctagagggttcatttccaagatggttgactcacatgatgact-ggcaggaggattctgtttcttcttgactcttttcaggaggttttaattcctcaccatatggccctacccat-----------aggatttcttgagt-ttccagcaatatggaaaatatctttgctaagaaagaatggtcaaggagagtaagatacatgcctcaatatcttttatgacatagcttcataaattacacatcatcatttcttcattggcctattggttacacaagttagcgatattcaatatgggaggataccacacaaaggcttaagtctcaagatgaaggaatcattgCA----------------------------------AGCACAAGGATATTGTTAGCACAaggata-------tttgcatttgcttt-------tgcctcaactggggccaccttttca-----tcagacctttgcaaaagtgacacctcaccatttaggtctctcatcaaatgtcaact-ctcaaaacattctttctttctcacc-atatctta-tattttctcaatacttc--ttttatattatactattttactgtcttcatagcttttattattaattgagaaaatgattcatatggttttgattactt-----atttatt--
i macNem1.NW_012012355v1   I 19 C 0
s cerAty1.NW_012002512v1     5352675 698 +  26952557 ---taattttctgtcattcatgaatttagaagtgactt-agctggtaaggtctggcttgatgtctgtcatatagttgctgtcagggtgttggtgtgggcta-cagtcat------------ctggtgctagggggttcatttccaagatggttgactcacatgatgact-ggcaggaggactctgtttcttcttgactcttttcaggaggttttaattcctcaccatatggccctacccat-----------aggatttcttgagt-ttccagcaatatggaaaatatctttgctaagaatgaatggtcaaggagagtaagatacatgcctcaatatattttatgacatagcttcataaattacacatcatcatttcttcattggcctattggttacacaagttagcgatattcaatatggtaggatactacacaaaggcttaagtctcaagatgaaggaatcattgCA----------------------------------AGCACAAGGATATTGTTAGCACAaggata-------tttgcatttgcttt-------tgcctcaacttgggccaccttttca-----tcagacctttgcaaaagtgacacctcaccatttaggtctctcatcaaatgtcaact-ctcaaaacattctttctttctcacc-atatctta-tattttctcaatacttc--ttttatattatactattttactgtcttcatagcttttattattaattgagataatgattcatatgtttttgataactt-----atttatt--
i cerAty1.NW_012002512v1   I 19 C 0
s chlSab2.chr23             28453506 695 +  82825804 ---taattttctgtcattcatgaatttagaagtgactt-agctagtaaggtctggcttgatgtctgtcatatagttgctgtcagggag-tggtgtgggctg-cagtcat------------ctggtgctagggggttcatttccaagatggttgactcacacgatgact-ggcaggaggactctgtttcttcttgactcttttcaggagtttttaattcctcaccatatggccctacccat-----------aggatttcttgagt-ttctagcaatatggaaaatgtctttgctaagaatgaatggtcaaggagagtaagatacatgcctcaatatcttttatgacatagcttcataaattacacatcatcatttcttcattggcctgttggttacacaagttagcaatattcaatatggtagaataccacacaaaggtttaagtctcaagttgaaggaatcattgCA----------------------------------AGCATAAGGATATTGTTAGCACAaggata-------tttgcatttgcttt-------tgcctcaacttgggccaccttttta-----tcagacctttgcaaaggtgacatctcaccatttaggtctctcatcaaatgtcaact-ctcaaaatattctttctttctcacc-atatctta-tattttctcaatacttcttttttatattatactattttactgtcttcatagcttttatt----attgagataatgattcatatgtttttgaatactt-----atttatt--
i chlSab2.chr23            I 10 C 0
s manLeu1.NW_012103321v1     4124220 699 -   4237731 ---taattttctgtcattcatgaatttagaagtgacttaagctggtaaggtctggcttgatgtctgtcatatagttgctgtcagggtgttggtgtgggcta-cagtcat------------ctggtgctagggggttcatttccaagatggttgactcacatgatgact-ggcaggaggactctgtttcttcttgactcttttcaggaggttttaattcctcaccatatggccctacccat-----------aggatttcttgagt-ttccagcaatatggaaaatatctttgctaagaatgaatggtcaaggagagtaagatacatgcctcaataccttttatgacatagcttcataaattacacatcatcatttcttcattggcctattggttacacaagttagcaatattcaatatggtaggatactacacaaaggcttaagtctcaagatgaaggaatcattgCA----------------------------------AGCACAAGGATATTGTTAGCACAaggata-------tttgcatttgcttt-------tgcctcaacttgggccaccttttca-----tcagacctttgcaaaagtgacacctcaccatttaggtctctcatcaaatgtcaact-ctcaaaacattctttctttctcacc-atatctta-tattttctcaatacttc--ttttatattatactattttactgtcttcatagcttttattattaattgagataatgattcatatgtttttgataactt-----atttatt--
i manLeu1.NW_012103321v1   I 19 C 0
s colAng1.NW_012119644v1      392739 697 -   1175262 ---taattttttgtcattcatgaatttagaagtgactt-agctggtaaggtctggcttgatgtctgccatatagttgctgtcagggtgttggtgtgggcta-cagtcat------------ctggtgctagggggttcatttccaagatggttgactcacatgatgact-ggcaggaggactctgtttcttcttgactcttttcaggaggtttt-attcctcaccatatggccctacccat-----------aggatttcttgagt-ttctagcaatatggaaaatgtctttgctaagaatgaatggtcaaggagagtaagatacatgcctcaatatcttttatgacacagcttcataaattacacatcatcatttcgtcattggcctgttggttacacaagttagcaatattcaatatggtagaatactacacaaaggcttaagtctcaagatgaaggaatcattgCA----------------------------------AGCACAAGGATATTGTTAGCACAaggata-------tttgcatttgcttt-------tgcctcaacttgggccaccttttca-----tcagacctttgcaaaggtgacacctcaccatttaggtctctgatcaaatgtcacct-ctcaaaacattctttctttctcacc-atatctta-tattttctcaatacttc--ttttatattatactattttactgtcttcatagcttttattattaattgagataatgattcaaatgtttttgattactt-----atttatt--
i colAng1.NW_012119644v1   I 25 C 0
s calJac3.chr2             123753747 705 - 204313951 ---taagtttctgtcattcatgaatttagaagtgactt-a-ctggtgaggtctggcttgatgtctgtcatctacttgctatcaaggcattggtctggtcta-cagtcat------------ctggtgctagagggttcatttccaagatgattgattcacatgaacatt-ggcagaaggactctgtttcttcttgactcttttcaggaggatttaattccttaccctatggccctacccat-----------aggatttcttgagt-ttcttgcaatatggaaactgtcttcaccaagcataagtggtcgatgagattgagataggtgcctcaatatcttttatgacatagcttcataatttaca---catcatttcttcattggcctgttggttacacaagctaacactattcaatatgtcaggatactacatcaaggcttaagtcttaagatgaagaaatcattgaa-----------------agcACGAGGATGTTGTTAGCACAAGGATATTGTTAGCACAaggata-------tttgcatttgcttt-------tgcctcaacttgagccaccttttca-----tcagatctttgcaaaggtgacactgcaccatttaggtctctgatcaaat-tcacct-ctcaaaacattcgttcttttccacc-atgtgtta-tattttctcaatgcttc--ttttatagtatactattttactttcttcatag-ttttgtt----agtgagataatgattcaaatatttttgattactt-----atttatt--
i calJac3.chr2             C 0 I 3
s saiBol1.JH378106          55794605 691 -  71252344 ---taattttcggtcattcatgaatttagaagcgactt-a-ctggtgaggtctggcttgatgtctgtcatatacttgctatcaaggagttggtctggtcta-cagtcat------------ccagtgctagagggttcatttccaagatggttgattctcatgaagatt-ggcagaaggactctgttttttcttgactcttttcaggaggatttaattccttaccctatggccctacccat-----------aggatttcttgagt-ttcttgcgatatggaaactgtcttcaccaggcataagtggtcgatgagagtaagatagatgcctcaatatcttttatgacatagcttcataaattacacatcatcatttcttcattggcctgttgattacacaagttaacactattcaatatgtcaggacagtacatcaaggcttatgtcttaagatgaagaaatcattgCA----------------------------------AGCACAAGGATATTGTTAGCACAaggata-------tttgcatttgcttt-------ggcctcaacttgagccaccttttca-----tcagatatttgcaaaggtgacacatcatcatttaggtctctgatcaaatgtcatct-ctcaaaacattttttctttcccaccaatatgtta-tattttttcaatgcttc--ttttatattataccattttactttcttcatagcttttgtt----actgag---acgattcaaatgtttttgattactt-----atttatt--
i saiBol1.JH378106         C 0 I 3
s cebCap1.NW_016107590v1       98038 727 -   3089952 ---taattttctgtcattcatgaatttagaagtgactt-a-ctggtgaggtctggcttgatgtctgtcatatacttgctatcaaggcgttggtctggtcta-cagtcat------------ctggtgctagagggttcatttccaagatggttgattcacgtgaagatt-ggcagaaggactctgtttcttcttgactcttttcaggaggatttaattccttaccctatggccctacccat-----------aggatttcttgagt-ttcttgcaatatggaaaccgtcttcaccaagcataagtggtcgatgagagtaagatagatgcctcaatatcttttatgacatagcttcataaattacacatcatcatttcttcattgggctgttggttacacaagctaacactattcaatatgtcaggatactacatcaaggcttaagtcttaaggtgaagaaatcattgTAAGCACAAGGATATTGTTAGCACAAGGATATTGTTAGCACAAGGATATTGTTAGCACAaggata-------tttgcatttgcttt-------tgcctcaacctgagccaccttttca-----tcagatctttgcaaaggtgatacctcaccatttaggtctctgatcaaacgtcacct-ctcaaaacattctttctttcccacc-atatgtta-tattttctcaatgcttc--ttttatattatactattttactttcttcatagcttttgtt----attgagataatgattcaaatgtttttgattactt-----atttatt--
i cebCap1.NW_016107590v1   C 0 I 73
s aotNan1.NW_018505940v1    13298576 693 -  42888418 ---taatttactgtcattcatgaatttagaagtgactt-a-ctggtgaggtctggcttgatgtctgtcatatacttgctatcaaggcattggtctggtcta-cagtcat------------ctggtgctagagggttcatttccaagatggttgatttacatgaagatt-ggcagaaggaccctgtttcttcttgactcttttcaggaggatttaattccttaccctatggccctacccat-----------aggatttcttgagt-ttcctgcaatatggaaactgtcttcaccaagcacaaatggtcgatgaaagtaagatagatgcctcaatatcttttatgacatagcttcataaattacacatcatcatttcttcattggtctgttggttacacaagctaacactattcaatatgtcaggatactacatcaaggcttaagtcttaagatgaagaaatcattgCA----------------------------------AGCAAGAGGATATTGTTAGCACAaggata-------tttgcatttgcttt-------tgccccaacttaagccaccttttca-----tcagatctttgcaaaggtgacatctcaccatttaggtctctgatcaaatgtcacct-ctcaaaacattctttctttcccacc-atatgtca-tattttctcaatgcttc--ttttatattatactattttactttcttcatagcttttgtt----actgagataatgattcaaatgtttttgattgctt-----atttatt--
i aotNan1.NW_018505940v1   C 0 I 3
s canFam3.chr11             14986293 708 +  74389097 tctctctcttttatggttcatgaatctgggagcgactt-agc---taagttctggcttgaggtctctcatgaagttgctgtcaagaagttggtctgggctgccaatcatctggaagcttacctggtggtaggggattcatttcctctacagctaattcacatgactgtt-ggcagagggcctcttttacgac-tggctcttcacagaatgcctttgtgcctcaccacatctttctacgcat-------------gtttatgtgaatgtcctcacaacacggcaactggcttt-ccaagtatgagtgttgcaggggagcaagattaaagccttaatattttctatgaccttgattcataagccacaccccattatttctgaattgttgtgtttcttacacaagttagcactgtccatttgggcaggatactattcaaaggcat-----tcaaaacaaaggattcattgca----------------------------------ggc---------TTATTAGCACAGGGATATTGCTTTTTTGCTCTTTcttttaccttctgcttctacctgggtcacttttttcttttttcagatctttacaagggtaacacctaatcctttaagtatctgatcaagtgttacctcctcaaaccattcttccttTCCTACT-ATATCTTGTTATTGCCCTATTCTTTC--TTTTATATCATGCCATTT-----TCTTCACACATTTCATT---ATTTTAAATCACTATTCAAATATATTTGCTTATTT-----ATTTAAT-T
i canFam3.chr11            C 0 C 0
e otoGar3.GL873679           3142208 5756 +   4132165 I
e dasNov3.JH567306           2723318 1554 +   3667625 I
e mm10.chr18                55582542 2005 +  90702639 I

a score=27316.000000
s hg38.chr5_KI270796v1_alt    166637 20 +    172708 tctttttt--------------------------------------------ttt---ttttttttg
s panTro5.chr5             125280794 20 + 181907262 tctttttt--------------------------------------------ttt---ttttttttg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126611600 23 + 183735486 tcttttct--------------------------------------------tttctcttttttttg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1803371 22 +   8933513 tctttttt--------------------------------------------ttt-ttttttttttg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139934202 13 + 163208435 -------t--------------------------------------------ttt---ttttttttg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122919701 13 + 180051392 -------t--------------------------------------------ttc---ttttttttg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124343326 13 + 181584905 -------t--------------------------------------------ttc---ttttttttg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16342018 13 +  18395747 -------t--------------------------------------------ttc---ttttttttg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5353373 13 +  26952557 -------t--------------------------------------------ttc---ttttttttg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28454201 13 +  82825804 -------t--------------------------------------------ttc---ttttttttg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4124919 14 -   4237731 -------t--------------------------------------------ttc--tttttttttg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      393436 14 -   1175262 -------t--------------------------------------------ttc--tttttttttg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123754455 20 - 204313951 ttgtgtat--------------------------------------------ata---tatatattg
i calJac3.chr2             I 3 C 0
s saiBol1.JH378106          55795299 64 -  71252344 ttgtgtatGtgtgtatatatatacgtgtgtgtgtatatatatacacacacacata---tatgtattg
i saiBol1.JH378106         I 3 C 0
s aotNan1.NW_018505940v1    13299272 20 -  42888418 ttgtatat--------------------------------------------ata---tattttttt
i aotNan1.NW_018505940v1   I 3 I 2
s canFam3.chr11             14987001 19 +  74389097 -GTCATTG--------------------------------------------CTT---TTGTTTTTG
i canFam3.chr11            C 0 C 0
e otoGar3.GL873679           3142208 5756 +   4132165 I
e cebCap1.NW_016107590v1       98765 73 -   3089952 I
e dasNov3.JH567306           2723318 1554 +   3667625 I
e mm10.chr18                55582542 2005 +  90702639 I

a score=1197574.000000
s hg38.chr5_KI270796v1_alt    166657 119 +    172708 gtttgttgtctgccaatagaactgtaagcttctggagtgaaggaacttgtctatctttctcactgttctatcatcagtgcttagaataaggc-------taagagtt----aataaatatgtgttcagtg
s panTro5.chr5             125280814 119 + 181907262 gtttgttgtctgccaatagaactgtaagcttctggagtgaaggaacttgtctatctttctcactgttctatcatcggtgcttagaataaggc-------taagagtt----aataaatatgtgttcaatg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126611623 119 + 183735486 gtttgttgtctgccaatagaactgtaagcttctggagtgaaggaacttgtctgtctttctcactgttctatcatcggtgcttagaataaggc-------taagagtt----aataaatatgtgttcaatg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1803393 119 +   8933513 gtttgttgtctgccaatagaactgtaagcttctggaatgaaggaacttgtctatctttctcactgttctatcatcagtgcttagaataaggc-------taagagtt----aataaatatgtgttcaatg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139934215 119 + 163208435 gtttgttgtctgccaatagaactgtaagcttctggagtgaaggaacttatctatctttctcattgttctatcattagtgcttagaataaggc-------taagagtt----aataaatatgtgttcaatg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122919714 119 + 180051392 gtttgttgtctgccaataggactgtaagcttctggagtgaaggaatttgtctatcttcctcactgttctatcatcagtgcttagaataaggt-------taagagtt----aataaatatgtgttcaatg
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124343339 119 + 181584905 gtttgttgtctgccaataggactgtaagcttctggagtgaaggaatttgtctatcttcctcactgttctatcatcagtgcttagaataaggt-------taagagtt----aataaatatgtgttcaatg
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16342031 119 +  18395747 gtttgttgtctgccaataggactgtaagcttctggaatgaaggaatttgtctatcttcctcactgttctatcatcagtgcttagaataaggt-------taagagtt----aataaatatgtgttcaatg
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5353386 119 +  26952557 gtttgttgtctgccaataggactgtaagcttctggagtgaaggaatttgtctatcttcctcactgttttatcatcagtgcctagaataaggt-------taagagtt----aatacatatgtgttcaatg
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28454214 119 +  82825804 gtttgttgtctgccaataggactgtaagcttctggagtgaaggaatttgtctatcttcctcactgttctatcatcagtgcttagaataaggt-------taagagtt----aataaatatgtgttcaatg
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4124933 119 -   4237731 gtttgttgtctgccaataggactgtaagcttctggagtgaaggaatttgtctatcttcctcactgttctatcatcagtgcttagaataaggt-------taagagtt----aataaatatgtgttcaatg
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      393450 119 -   1175262 gtttgttgtctgccaataggactgtaagcttctggagtgaaagaatttgtctatcttcctcactgttctatcatcagtggttagaataaggt-------taagagtt----aataaacatgtgttcaatg
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123754475 123 - 204313951 gtttgttgtctgccaataggactataagcttctggagtgaaggaagttgtctgtctttttcactgttctatcatcagtgtttagagtaaggc-------taggagttattcaataaatatatgttcaact
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55795363 123 -  71252344 gtttattgtctgccaatagaactataagcttctggagtgaaggaagttgtctatctttttcactgttctatcatcagtgtttagagtaaggc-------taggagttattcaataaatatgtgttcaact
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       98838 123 -   3089952 gtttgttgtctgccaatagaactataagcttctggagtgaaggaagttgtctatctttttcactgttctatcatcagtgtttagagtaaggc-------taggagctattcaataaatatgtgttcaact
i cebCap1.NW_016107590v1   I 73 C 0
s aotNan1.NW_018505940v1    13299294 123 -  42888418 gtttgttatctgccaatagaactataagcttctggagtgaaggaagttgtctatctttttcactgttctatcatcagtgtgtagcgtaaggc-------taggagttattcaataaatatgtgttcaact
i aotNan1.NW_018505940v1   I 2 C 0
s canFam3.chr11             14987020  67 +  74389097 ---------------------------------------------------------------TTTTGTATTATCAGTGATTCTAGTAAGGCTGATACTTAAGATTTATCCAATAAATATTTGTTCAGTG
i canFam3.chr11            C 0 C 0
e otoGar3.GL873679           3142208 5756 +   4132165 I
e dasNov3.JH567306           2723318 1554 +   3667625 I
e mm10.chr18                55582542 2005 +  90702639 I

a score=1935477.000000
s hg38.chr5_KI270796v1_alt    166776 175 +    172708 aatgaaGAAATGCACTCCACATGAATTATAAA---------------------------TTACATTTCTCTTTATAATAGTCTATTTCAAGAAATAATTTAAGCCAATGCAGAAAGACGATGGCATTATCCAATATGGAACAATATACCATTAACAAGGAGCAAGTTCTGAGCTGCTTGGGCAG-----------------CTCAATGGAATGTTTTAT
s panTro5.chr5             125280933 175 + 181907262 aatgaaGAAATGCACTCCACATGAATTATAAA---------------------------TTACATTTCTCTTTATAATAGTCTATTTCAAGAAATAATTTAAGCCAATGCAGAAAGACTATGGCATTATCCAATATGGAACAATATACCATTAACAAGGAGCAAGTTCTGAGCTGCTTGGGCAG-----------------CTCAATGGAATGTTTTAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126611742 175 + 183735486 aatgaaGAAATGCACTCCACATGAATTATAAA---------------------------TTACATTTCTCTTTATAATAGTCTATTTCAAGAAATAATTTAAGCCAATGCAGAAAGACTATGGCATTATCCAATATGGAACAATATACCATTAACAAGGAGCAAGTTCTGAGCTGCTTGGGCAG-----------------CTCAATGGAATGTTTTAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1803512 175 +   8933513 aatgaaGAAATGCACTCCACATGAATTATAAA---------------------------TTACATTTCTCTTTATAATAGTCTATTTCAAGAAATAATTTAAGCCAATGCAGAAAGACTATGGCATTATCCAATATGGAACAATATACCATTAACAAGGAGCAAGTTCTGAGCTGCTTGGGCAG-----------------CTCAATGGAACGTTTTAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139934334 175 + 163208435 aatgaaGAAATGCACTCCACATGAATTATAAA---------------------------TTACATTTTTCTTTATAATAGTCTACTTCAAGAAATAATTTAAGCCAATGCAGAAAGACTATGGCATTATCCAATATGGAACAATATACCATTAACAAGGAGAAAGTTCTGAGCTGCTTGGGCAG-----------------CTCAATGGAATGTTTTAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122919833 175 + 180051392 aatgaaGAAATGCACTCCACATGAATTATAAA---------------------------TTACATCTCTCTTTATAATAGTCTATTTCAAGAAATAATTTAAGCCAGTGCAGAAAGACTATGGCATTATCCAATATGGAACAATATACAATTAACAAGGAGAAAGTTCTGAGCTGCTTGGGCAG-----------------CTCAATGGAATGTTTTAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124343458 175 + 181584905 aatgaaGAAATGCACTCCACATGAATTATAAA---------------------------TTACATCTCTCTTTATAATAGTCTATTTCAAGAAATAATTTAAGCCAATGCAGAAAGACTATGGCATTATCCAATATGGAACAATATACAATTAACAAGGAGAAAGTTCTGAGCTGCTTGGGCAG-----------------CTCAATGGAATGTTTTAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16342150 175 +  18395747 aatgaaGAAATGCACTCCACATGAATTATAAA---------------------------TTACATCTCTCTTTATAATAGTCTATTTCAAGAAATAATTTAAGCCAGTGCAGAAAGACTATGGCATTATCCAATATGGAACAATATACAATTAACAAGGAGAAAGTTCTGAGCTGCTTGGGCAG-----------------CTCAATGGAATGTTTTAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5353505 202 +  26952557 aatgaaGAAATGCACTCCACATGAATTATAAATTACATCTCTCTTTATAATAGTCTATTTTACATCTCTCTTTATAATAGTCTATTTCACGAAATAATTTAAGCCAATGCAGAAAGACTATGGCATTATCCAATATGGAACAATATACAATTAACAAGAAGAAAGTTCTGAGCTGCTTGGGCAG-----------------CTCAATGGAATGTTTTAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28454333 175 +  82825804 aatgaaGAAATGCACTCCACATGAATTATAAA---------------------------TTACATCTCTCTTTATAATAGTCTATTTCAAGAAATAATTTAAGCCAATGCATAAAGACTATGGCATTATCCAATATGGAACAATATACAATTAACAAGGAGCAAGTTCTGAGCTGCTTGGGCAG-----------------CTCAATGGAATGTTTTAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4125052 175 -   4237731 aatgaaGAAATGCACTCCACATGAATTATAAA---------------------------TTACATCTCTCTTTATAATAGTCTATTTCAAGAAATAATTTAAGCCAATGCAGAAAGACTATGGCATTATCCAATATGGAACAATATACAATTAACAAGGAGAAAGTTCTGAGCTGCTTGGGCAG-----------------CTCAATGGAATGTTTTAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      393569 175 -   1175262 aatgaaGAAATGCACTCCACATGAATTATAAA---------------------------TTACATCTCTCTTTATAATAGTCTATTTCAAGAAATAATTTAAGCCAATGCAGAAAGACTATGGCATTATCCAATATGGAACAATATACAATTAACAAGGAGCAAGTTCTGAGCTGCTTGGGCAG-----------------CTCAATGGAATGTTTTAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123754598 168 - 204313951 aatgaGGAAATGCACTCCACATGAATTATTAA---------------------------TTACATTTCTCTTTATAATAGTCCATTACAAGAAATAATTTAAGCCAATGCAGAAAGACTATGACATTATACAATATGCAACAATATACAATTAACAAGGAATAGGTTCTGATCTGCTT-GGC-----------------------ATGAAATGTTTTAC
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55795486 169 -  71252344 aatgaaGAAATGCACCCCACATGAATTATAAA---------------------------TTACATTTCTCTTTATAATAGTCTATTTCAAGAAATAATTTAAGCCAATGCAGAAAGACTAAGGCATTATCCAATATGGAACACTATACAATTAACAAGGACTAGGTTCAGATCTGCTTGGGC-----------------------ATAAAATGTTTTAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       98961 169 -   3089952 aatgaaGAAATGCACTCCACATGAATTATAAA---------------------------TTACATTTGTCTTTATAATAGCCTATTTCAAGAAATAGTTTAAGTCAATGCAGAAAGACTATGGCATTATCCAATATGAAACAATATACAATTAACAAGGAGTAGGTTCTGATCTGCTTGGGC-----------------------ATGAAATGTTTTAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13299417 169 -  42888418 aatgaaGAAATGCACTACACATGAATTATAAA---------------------------TTACATTTCTCTTTATAATAGTCTATTTTAAGAAATAATTTAAGCCAATGCAGAAAGACTATGGCATTATCCAATATGGAACAATATACAATTAACAAGGAGTAGGTTCTGATCTGCTTGGGC-----------------------ATGAAATGTTTTAT
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55584547 191 +  90702639 AATAATCAAATGTCCTCCATCTGGATAAGTTA---------------------------TTTCATTTGTCTTTAGAATGGAATATT-CAAGAAAATACATAAGCCATTATGGAAAGGTTGTGTAGTTAACCACTGTGTGAAAATATGTAATTAACTAGGGACAGGTATTGAGTTGATTGTGCAATAGTAATGTCACATGTTTTCTGTGAAAAGCTCTAT
i mm10.chr18               I 2005 I 61
s canFam3.chr11             14987087 168 +  74389097 AATAAACAAAGGTATTCCATAAGGGTTATAAA---------------------------TGAC-TTTCTTTTTAGAACGATCTATTTCAAGAAAGGATTTAAGTCAGTATTGAAAAGCTCTGGAATTATCCAATACAGAAACATATGTAATTAACAAGAAACAGGTTCTGAGCTGCTTGAGG-----------------------GTGAAATGTATCAC
i canFam3.chr11            C 0 C 0
e otoGar3.GL873679           3142208 5756 +   4132165 I
e dasNov3.JH567306           2723318 1554 +   3667625 I

a score=503837.000000
s hg38.chr5_KI270796v1_alt    166951 51 +    172708 --AATTATTTAGATTC----TTTTAA----------CGTTTTCAAAGTGGAGCCACATAAGAATGAA
s panTro5.chr5             125281108 51 + 181907262 --AATTATTTAGATTC----TTTTAA----------CGTTTTCAAAGTGGAGCCACATAAGAATGAA
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126611917 51 + 183735486 --AATTATTTAGATTC----TTTTAA----------CGTTTTCAAAGTGGAGCCACATAAGAATGAA
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1803687 51 +   8933513 --AATTATTTAGATTC----TTTTAA----------CATTTTCAAAGTGGAGCCACATAAGAATGAA
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139934509 51 + 163208435 --AATTATTTAGATTC----TTTTAA----------TGTTTTCAAAGTGGAGCCACATAAGAATGAA
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122920008 51 + 180051392 --AATTATTTAGATTC----TTTTAA----------TGTTTTCAAAGTGGAACCACATAAGAATGAA
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124343633 51 + 181584905 --AATTATTTAGATTC----TTTTAA----------TGTTTTCAAAGTGGAACCACATAAGAATGAA
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16342325 51 +  18395747 --AATTATTTAGATTC----TTTTAA----------TGTTTTCAAAGTGGAACCACATAAGAATGAA
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5353707 51 +  26952557 --AATTATTTAGATTC----TTTTAA----------TGTTTTCAAAGTGGAACCACATAAGAATGAA
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28454508 51 +  82825804 --AATTATTTAGATTC----TTTTAA----------TGTTTTCAAAGTGGAACCACATAAGAATGAA
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4125227 51 -   4237731 --AATTATTTAGATTC----TTTTAA----------TGTTTTCAAAGTGGAACCACATAAGAATGAA
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      393744 51 -   1175262 --AATTATTTAGATTC----TTTTAA----------TGTTTTCAAAGAGGAACCACATAAGAATGAA
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123754766 55 - 204313951 --AATTATTTAGATTCTCTATTTTTA----------TGTTTTCAAAGTGGAGCCACATAAGAATTAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55795655 55 -  71252344 --AATCATTTAGATTCTCTATATTAA----------TGTTTTCAAAGTAGATCTACCTAAGAATTTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       99130 55 -   3089952 --AATTATTTAGATTCTCTATTTTAA----------TGTTTTCAAAGTGGAGCCACATAAGAATTTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13299586 55 -  42888418 --AATTATTTAGATTCTCTATTTTAA----------TGTTTTCAAAGTGGAGCCACATAATAATTTT
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14987255 67 +  74389097 AGTGTTATATAGATCCTTTGCTTGAAGAACCCTCTCTGTTTTCAAAATGGAGTCACCTAAGAAGGGA
i canFam3.chr11            C 0 C 0
e otoGar3.GL873679           3142208 5756 +   4132165 I
e dasNov3.JH567306           2723318 1554 +   3667625 I
e mm10.chr18                55584738 61 +  90702639 I

a score=20688.000000
s hg38.chr5_KI270796v1_alt    167002 2 +    172708 TT
s panTro5.chr5             125281159 2 + 181907262 TT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126611968 2 + 183735486 TT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1803738 2 +   8933513 TT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139934560 2 + 163208435 GT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122920059 2 + 180051392 TT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124343684 2 + 181584905 TT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16342376 2 +  18395747 TT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5353758 2 +  26952557 TT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28454559 2 +  82825804 TT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4125278 2 -   4237731 TT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      393795 2 -   1175262 TT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123754821 2 - 204313951 TT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55795710 2 -  71252344 TT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       99185 2 -   3089952 TT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13299641 2 -  42888418 TT
i aotNan1.NW_018505940v1   C 0 C 0
s mm10.chr18                55584799 2 +  90702639 ct
i mm10.chr18               I 61 C 0
s canFam3.chr11             14987322 2 +  74389097 ct
i canFam3.chr11            C 0 C 0
e otoGar3.GL873679           3142208 5756 +   4132165 I
e dasNov3.JH567306           2723318 1554 +   3667625 I

a score=2147011.000000
s hg38.chr5_KI270796v1_alt    167004 189 +    172708 ------------------------------------------------------------------TTTTT--AACTGAGCAAGATTTGAAAGGCCCTGCCTGTTTCTGCAAGAACCTGAGACTCATGCTAGAATA--TTAAGGCACAGACTA-----CACAGGTTACAAATCAATGTAGAATACCATGGGCATAGTGATGTGGACATGGTAGAGAGCGAATACTTTTCAGAAAATATTAAGAGACCATCTGGCAGAGTCTCAT
s panTro5.chr5             125281161 189 + 181907262 ------------------------------------------------------------------TTTCT--AACTGAGCAAGATTTGAAAGGCCCTGCCTGTTTCTGCAAGAACCTGAGACTCATGCTAGAATA--TTAAGGCACAGACTA-----CATAGGTTACAAATCAATGTAGAATACCATGGGCATAGTGATGTGGACATGGTAGAGAGCGAATACTTTTCAGAAAATATTAAGAGACCATCTGGCAGAGTCTCGT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126611970 189 + 183735486 ------------------------------------------------------------------TTTCT--AACTGAGCAAGATTTGAAAGGCCCTGCCTGTTTCTGCAAGAACCTGAGACTCTTGCTAGAATA--TTAAGGCACAGACTA-----CATAGGTTACAAATCAATGTAGAATACCATGGGCATAGTGATGTGGACATGGTAGAGAGCGAATACTTTTCAGAAAATATTAAGAGACCATCTGGCAGAGTCTCGT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1803740 189 +   8933513 ------------------------------------------------------------------TTTCT--AACTGAGCAAGATTTGAAAGGCCCTGCCTGTTTCTGCAAGAACCTGAGACTCATGCTAGAATA--TTAAGGCACAGACTA-----CACAGGTTACAAATCAATGTAGAATACCATGGGCATAGTGATGTGGACATGGTAGAGAGCGAATACTTTTCAGAAAATATTAAGAGACCATCTGGCAGAGTCTCGT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139934562 189 + 163208435 ------------------------------------------------------------------TTTTT--AACTGAGCAAGATTTGAAAAACCCTGCCTGTTTCTGCAAGAACCTGAGACTCATGCTAGAATA--TTAAGGCAAAGACTA-----CACAGGTTACAAATCAATGTAGAATGCCATGGACATACCGATGTGGACATGGTAGAGAGCCAATACTTTTCAGAAAATATTAAGAGATCATCTGGCAGAGTCTCAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122920061 189 + 180051392 ------------------------------------------------------------------TTTTA--AACTGAGCAAGATTTGAAAGGCCCTGCCTATTTCTGCAAGAACCTGAGACTCATGCTAGAATA--CTAAGACACAGACTA-----CACAGGTTACAAATTAATGTAGAATACCATGGGCATAGGGATGTGGACATGGTAGAGAGCCAATATTTTTCAGAAAATATTAAGAGACCATCTGGCAGAGTCTCAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124343686 189 + 181584905 ------------------------------------------------------------------TTTTA--AACTGAGCAAGATTTGAAAGGCCCTGCCTATTTCTGCAAGAACCTGAGACTCATGCTAGAATA--CTAAGACACAGACTA-----CACAGGTTACAAATTAATGTAGAATACCATGGGCATAGGGATGTGGACATGGTAGAGAGCCAATATTTTTCAGAAAATATTAAGAGACCATCTGGCAGAGTCTCAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16342378 189 +  18395747 ------------------------------------------------------------------TTTTA--AACTGAGCAAGATTTGAAAGGCCCTGCCTATTTCTGCAAGAACCTGAGACTCATGCTAGAATA--CTAAGACACAGACTA-----CACAGGTTACAAATTAATGTAGAATACCATGGGCATAGGGATGTGGACATGGTAGAGAGCCAATATTTTTCAGAAAATATTAAGAGACCATCTGGCAGAGTCTCAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5353760 189 +  26952557 ------------------------------------------------------------------TTTTA--AACTGAGCAAGATTTGAAAGGCCCTGCCTATTTCTGCAAGAACCTGAGACTCATGCTAGAATA--CTAAGACACAGACTA-----CACAGGTTACAAATTAATGTAGAATACCATGGGCATAGGGATGTGGACATGGTAGAGAGCCAATATTTTTCAGAAAATATTAAGAGAGCATCTGGCAGAGTCTCAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28454561 180 +  82825804 ------------------------------------------------------------------CTTTA--AACTGAGCAAGATTTGAAAGGCCCTGCCTATTTCTGCAAGAACCTGAGACTCATGCTAGAATA--CTAAG---------A-----CACAGGTTACAAATTAATGTAGAATACCATGGGCATAGTGATGTGGACATGGTAGAGAGCCAATATTTTTCAGAAAATATTAAGAGACCATCTGGCAGAGTCTCAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4125280 189 -   4237731 ------------------------------------------------------------------TTTTA--AACTCAGCAAGATTTGAAAGGCCCTGCCTATTTCTGCAAGAACCTGAGACTCATGCTAGAATA--CTAAGACACAGACTA-----CACAGGTTACAAATTAATGTAGAATACCATGGGCATAGGGATGTGGACATGGTAGAGAGCCAATATTTTTCAGAAAATATTAAGAGACCATCTGGCAGAGTCTCAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      393797 189 -   1175262 ------------------------------------------------------------------TTTTA--AACTGAGCAAGATTTGAAAGACCCTGCCTATTTCTGCAAGAACCTGAGACTCATGCTAGAATA--CTAAGACACAGACTA-----CACAGGTTACAAATTAATGTAGAATACCATGGGCATAGTGATGTGGACATGGTAGAGAGCCAATATTTTTCAGAAAATATTAAGAGACCATCTGGCAGAGTCTCAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123754823 187 - 204313951 ------------------------------------------------------------------TTTTT--AACTGAGCAAGATTTGAAAAGCCCTGCCTATTTCTGCAAGAACCTGAGACTCATGCTAGAAAA--CTAAGACACAGGCTA-----CACAGGTTACAAATCAATGT--AATACCATGTGCATAGTGATGTGGACATGGTAGAGAGCCAATACTTTCCAGAAAATATTAGGAGACCACCTGAGAGAGTCTCAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55795712 190 -  71252344 ------------------------------------------------------------------TTTTT-AAACTGAGCAAGATTTAAACAGCCCTGCCTATTTCTGCAAGAACCTGAGACTCATGCTAGAAAA--CTAAGACACAGATTA-----TACAGGTTACAAATCAATGTAGAATACCATGTGCATAGTGATGTGGACATGGTAGAGAGCAAGTACTTTCCAGAAAATATTAGGACACCATCTGATAGAGTCTCAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       99187 166 -   3089952 ------------------------------------------------------------------TTTT---AACTGAGCAAGATTTGAAAAGCCCTGCCTATTTCTGCAAGAACCTGAGACTCATACTAGAAAA--CTAAGACACAGACTA-----CACAGGTTACAAATCAATGTAGAATACCATGTGCATAGTGATGTGGACATGGTAGAGAGCCAATACTTTCCAGAAAATATTAGT----------------------
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13299643 191 -  42888418 ------------------------------------------------------------------TTTTTTTAACTGAGCAAGATTTGAAAAGCCCTGCCTATTTCTGCAAGAACCTGAGACTCATGCTAGAAAA--CTAAGACACAGACTA-----CACAGGTTACAAATCAATGTAGAATACCATGTGCATAGTGATGTGGACATGGTAGAGAGCCAATACTTTCCAGAAATTATTAGGAGACCATCTGATAGAGTCTTAT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3147964 188 +   4132165 ------------------------------------------------------------------TTTTA--AATGGAGCAGAATTTTTAAAACCCTGACTATTTCCACATGAACATGGGACACATACTTAGGAG--CTGGGGTACAGAGTG-----CCCAGGTTGTAAACTAATTTAGAAC-TCATGGGCATGGTGACATTGACATGGAAGAGAGCCAACATTTTTTAGAAAATATTAGGAGACCACTTAGCAGAGTCTCAA
i otoGar3.GL873679         I 5756 C 0
s mm10.chr18                55584801 194 +  90702639 ------------------------------------------------------------------ttttc--ttctAAAGAGGGTTTGAAA-GCCTTGTTTATTCCTTTATGAATATAAGATCTATACACATACAAGTCAGGGAACATAGTATAGTGCATAGGTTAAATTTTAGTCTGTACTTATACAGGCATGGTGGTGTGAGTATGGAAGAGAGTCAGTATTTTTTTAAAAACTGTAGTTGA-CACCTGATAGAGTCCTTC
i mm10.chr18               C 0 C 0
s canFam3.chr11             14987324 244 +  74389097 ttctttctttctttctttctttctttctttctttctttctttctttctttctttctttctttctttctttT--GGCCAAACAGGATTT--AAGACCATACCTG---------GAACACAGGACACATATTAGAGAA--CTAAGGTAGAGAATG-----TACAGATTCCAAACTAATATAGAACTGTAGGGGCAGCGTGACCTGGACATGGCAGAAAGCCAACATTTTTTAGAAAATACTAGAAGGCCACCTAAGAGAGTCTCAT
i canFam3.chr11            C 0 C 0
e dasNov3.JH567306           2723318 1554 +   3667625 I

a score=2154430.000000
s hg38.chr5_KI270796v1_alt    167193 180 +    172708 AG---------AATGTCTAGCAATTGGGAATGTAAAGGAAAGTAAAACACTGCAAACCACTGAATAGCTATGTAAT-AACATCAAGAATCTATGGATGAGAATCAACAA-----------------AATTGAGCAA---TATGAGGAT-AGAAAA-ACTTAAAATTGTCTACTTGTTATTTCTTCGCCTTGCATTCTGTTAGATAATTTTAT
s panTro5.chr5             125281350 180 + 181907262 AG---------AATGTCTAGCAATTGGGAATGTAAAGGAAAGTAAAACACTGCAAACCACTGAATAGCTATTTAAT-AACATCAAGAATCTATGGATGAGAATCAACAA-----------------AATTGAGCAA---TATGAGGAT-AGAAAA-ATTTAAAATTGTCTACTTGTTATTTCTTCACCCTGCATTCTGTTAGATAATTTTAT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126612159 180 + 183735486 AG---------AATGTCTAGCAATTGGGAATGTAAAGGAAAGTAAAACACTGCAAACCACTGAATAGCTATTTAAT-AACATCAAGAATCTATGGATGAGAATCAACAA-----------------AATTGAGCAA---TATGAGGAT-AGAAAA-ATTTAAAATTGTCTACTTGTTATTTCTTCACCCTGCATTCTGTTAGATAATTTTAT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1803929 180 +   8933513 AG---------AATGTCTAGCAATTGGGAATGTAAAGGAAAGTAAAACAGTGCAAACCACTGAATAGCTATGTAAT-AACATCAAGAATCTATGGATGAGAATCAACAA-----------------AATTGAGCAA---TATGAGAAT-AGAAAA-ATTTTAAATTGTCTACTTGTTATTTCTTCACCCTGCATTCTGTCAGATAATTTTAT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139934751 180 + 163208435 AG---------GATGTCTAGCAATTGGGAATGTAAAGGAAAGCAAAATGCTGCAAACCACTGAATAGCTATGTAAT-AACATCAAGAATCTATGGATGAGAATTAACAA-----------------AATTGAGCAA---TATGAGGAT-AGAAAA-ATTTAAAATTGTCCACGTGTTATTTCCTCACCCTGCATTCTGTCAGATAATTTTAT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122920250 180 + 180051392 GG---------AATGTCTAGCAATTGGGAATGTAAAGGAAAGCAAAACACTGCAAACCGCTGAATAGCTATGTAAT-AACATCAAGAATCTACGGATGAGAATCAACAA-----------------AATTGAGCAA---TATGAGGAT-AGCAGA-ATTTAAAATTGTCTACTTGTTATTGCCTCACCCTGCATTCTGTCAGATAGTTTTAT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124343875 180 + 181584905 GG---------AATGTCTAGCAATTGGGAATGTAAAGGAAAGCAAAACACTGCAAACCGCTGAATAGCTATGTAAT-AACATCAAGAATCTACGGATGAGAATCAACAA-----------------AATTGAGCAA---TATGAGGAT-AGCAGA-ATTTAAAATTGTCTACTTGTTATTGCCTCACCCTGCATTCTGTCAGATAGTTTTAT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16342567 180 +  18395747 GG---------AATGTCTAGCAATTGGGAATGTAAAGGAAAGCAAAACACTGCAAACCGCTGAATAGCTATGTAAT-AACATCAAGAATCTACGGATGAGAATCAACAA-----------------AATTGAGCAA---TATGAGGAT-AGCAGA-ATTTAAAATTGTCTACTTGTTATTGCCTCACCCTGCATTCTGTCAGATAGTTTTAT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5353949 180 +  26952557 GG---------AATGTCTAGCAATTGGGAATATAAAGGAAAGCAAAACACTGCAAACCGCTGAATAGCTATGTAAT-AACATCAAGAATCTACGGATGAGAATCAACAA-----------------AATTGAGCAA---TATGAGGAT-AGCAGA-ATTTAAAATTGTCTACTTGTTATTGCCTCACCCTGCATTCTGTCAGATAGTTTTAT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28454741 180 +  82825804 GG---------AATGTCTAGCAATTGGGAATGTAAAGGAAAGCAAAACACTGCAAACCGCTGAATAGCTATGTAAT-AACATCAAGAATCTATGGATGAGAATCAACAA-----------------AATTGAGCAA---TATGAGGAT-AGCAAA-ATTTAAAATTGTCTACTTGTTATTGCCTCACCCTGCATTCTGTCAGATAATTTTAT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4125469 180 -   4237731 GG---------AATGTCTAGCAATTGGGAATGTAAAGGAAAGCAAAACACTGCAAACCGCTGAATAGCTATGTAAT-AACATCAAGAATCTACGGATGAGAATCAACAA-----------------AATTGAGCAA---TATGAGGAT-AGCAGA-ATTTAAAATTGTCTACTTGTTATTGCCTCACCCTGCATTCTGTCAGATAGTTTTAT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      393986 180 -   1175262 GG---------AATATCTAGCAATTGGGAATGTAAAGGAAAGCAAAACACTGCAAACCACTGAATAGCTATGTAAT-AACATCAAGAATCTACAGATAAGAATCAACAA-----------------AATTGAGCAA---TATGAGGAT-AGCAAA-ATTTCAAATTTTCTACTTGTTATTGCCTCACCTTGCATTCTGTCAGATAATTTTAT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123755010 162 - 204313951 GG---------AATGTCTAGCAATTGGGAACGTAAAGGAAAGCAAA----TGCAAACCACTGAATAGCTATGTAAT-AACATTAAGACTCTATGGGTGAGAATCAACAA-----------------AATTG------------------AGCAAA-ATTTATAATTGTCTACTTGTTATTTCCTCACCCTGCACCATGTCAGATAATTTTAT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55795902 180 -  71252344 CG---------AATGTCTAGCAGTTGGGAATGTAAAGGAAAGCAAAGCACCACAAATCACTGAATAGCTGTATAAT-AACATTAAGACTCTTTGGATGAGAATCTACAA-----------------AATTGAGCAA---TATAAGGGT-AGCAAA-ATTTAAAATTGTCTACTTGCTATTTCCTCACCCTGCACCATATCAGATAATTTTAT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       99353 176 -   3089952 -------------TGACTAGCAATTGGGAATGTAAAGGAAAGCAAACCACTGCAAACCACTGCATAGCTATGTAAT-AACATTAAGACTCTATGGATGAGAATCAACAA-----------------AATTGAGCAA---TATGAGGAT-AGCAAA-ATTTAAACTTGTCTACTTGTTATTTCCTTACCCTGCACCATGTCAGATAATTTTAT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13299834 180 -  42888418 GG---------AATGTCTAGCAATTGGGAATGTAAAGGAAAGCAAACCACTGCAAACCACTGAATAGCTATGTAAT-AACATTAAGACTCTATGGATGAGAATCAACAA-----------------AATTGAGCAA---TATGAGGGT-AGCAAA-ATTTAAAATTGTCTACTTGTTATTTCCTCACCCTGCACCATGTCAGATAATTTAAT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3148152 185 +   4132165 GA---------AATATTTAGCAACTGGGAAAGCAAAGGATATCAAAACACTGCATATCA-TGAACAGCCATGTAAT-AAGATCAAGAACCTTTTGAAAATAATTAACAATAATTCTTAATTAACAGAATTAAATAAGAGCATGAGGAT------A-ATTCAAAATTGTTTACTTGTCATTTC---------CATCATGTCAGATAATTGTAT
i otoGar3.GL873679         C 0 C 0
s mm10.chr18                55584995 159 +  90702639 CA---------AACACTTAGCAATCCGAAGTTCAAAGGAAATAAAAGTATAACAAGCCACTAAATGTCCAC---AT-GAAATCGAGAATCTTCTGACAGAAAGCAATGA-----------------GCT----CAG---TA-----------AGA-ATT--AAACAGGAAATGTGTTAGT--CTCATGTTTTATTATCTCAGATGATTTTAT
i mm10.chr18               C 0 N 0
s canFam3.chr11             14987568 190 +  74389097 TGCTTAAGGTAAATGTTTAGCAATTGGAAATGCAAAGGAAATCAAAACACTACAAACTACTGCACAGCTGTGTGAT-AAAATCAAGGACCTAATGAAGAAGACCAATAT-----------------AACTAAGCAA---TACAAGTGTGAGAGAA-ATTCAAAACTGTCTTCTTATTTTTTACTTACTCTGTATTGTGTCAGGTAATTTCAT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2724872 182 +   3667625 ag---------gttgTTTAGCACTTAGAAATGCAAAGGAAATCAAAACAATGCAATTTGCTGCATAGCCATGTGTTGAAGATCAAGGACTCACTGAAGAGTGTCAAAAG-----------------AACTGGACAA---TACGAATGC-ATAAAAGATTCCGAATAGTCTACTTGTTACTCCCTCACCCTGAAACATGTCAGAAAATTTCAG
i dasNov3.JH567306         I 1554 C 0

a score=1219594.000000
s hg38.chr5_KI270796v1_alt    167373  98 +    172708 CAACATAGAAGTTGAGTT-TTACATA--TTAGTCAGGATGTGTTAAATGGAAACCACAGATACACAACT-AAAACTAGATTAAACACATACAATTGTTTTTT
s panTro5.chr5             125281530  98 + 181907262 CAACATAGACGTTGAGTT-TTACATA--TTAGTCAGGATGTATTAAATGGAAACCACAGATACACAACT-AAAACTAGATTAAACACATACAATTGTTTTTT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126612339  98 + 183735486 CAACATAGACATTGAGTT-TTACATA--TTAGTCAGGATGTATTAAATGGAAACCACAGATACACAACT-AAAACTAGATTAAACACATACAATTGTTTTTT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1804109  98 +   8933513 CAACATAGAAGTTGAGTT-TTACATA--TTAGTCAGGATGTGTTAAATGGAAACCACAGATACACAACT-AAAACTAGATTAAACACATACAATTGTTTTTT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139934931  98 + 163208435 CAACATAGACGTTGAGTT-TTACATA--TTAGTCAGGATGTGTTAAATGGAAACCACAGATACACAACT-AAAACTAGATTAAACACATACAATTGTTTTTT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122920430  98 + 180051392 CAACATAGATGTTGAGTT-TTACATA--TTAGTCAGGATGTGTTAAATGGAAACCACAGATACACAACT-AAAACTAGATTAAACACATACAATTGTTTTTT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124344055  98 + 181584905 CAACATAGATGTTGAGTT-TTACATA--TTAGTCAGGATGTGTTAAATGGAAACCACAGATACACAACT-AAAACTAGATTAAACACATACAATTGTTTTTT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16342747  98 +  18395747 CAACATAGATGTTGAGTT-TTACATA--TTAGTCAGGATGTGTTAAATGGAAACCACAGATACACAACT-AAAACTAGATTAAACACATACAATTGTTTTTT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5354129  98 +  26952557 CAACATAGATGTTGAGTT-TTACATA--TTAGTCAGGATGTGTTAAATGTAAACCACAGATACACAACT-AAAACTAGATTAAACACATACAATTGTTTTTT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28454921  98 +  82825804 CAACATAGATGTTGAGTT-TTACATA--TTAGTCAGAATGTGTTAAATGGAAACCACAGATACACAAAT-AAAACTAGATTAAACACATACAATTGTTTTTT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4125649  98 -   4237731 CAACATAGATGTTGAGTT-TTACATA--TTAGTCAGGATGTGTTAAATGGAAACCACAGATACACAACT-AAAACTAGATTAAACACATACAATTGTTTTTT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      394166  99 -   1175262 CAACATAGATGTTGAGTT-TTACGTA--TTAGTCAGAATGTGTTAAATGGAAACCACAGATACACAACTAAAAACTAGATTAAACACATACAATTATGTTTT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123755172  98 - 204313951 CAACATGAACGTTGAGTT-TTACATA--TTAGTCAGGATGTGTTGAATGGACACCACAGACAAACAACT-AAAACTAGAGTAAAGACGTACAATTGTTTCTT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55796082  98 -  71252344 CAACATAGACATTGAGTT-TTATATA--TTAGTCAGGATATGTTGAATGGACACCACAGACAAACAACT-AAAACTAGATTAAACACGTACAGTTGTTTCTT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       99529  98 -   3089952 CAACATAGACCTTGAGTT-TTACATA--TTAGTCAGGATGTGTTGAATGGACACCACAGACAAACAACT-AAAACTAGATAAAACACGTACAATTGTTTCTT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13300014  98 -  42888418 CAACATAGACGTTGAGTT-TTACATA--TTAGTCTGGATGTGTTGAATGGATACCACAGGCAAACAACT-AAAACTAGATTAAACATATACACTTGTTTCTT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3148337 100 +   4132165 CAGCCTAGAATTTGAGTT-TTACATGTCTTAGTCAAGATGTTTTCAACAGAAGCCACAGAGACACAACT-AAAACTAGATTAAACACATACAGAACTTTTTT
i otoGar3.GL873679         C 0 C 0
s canFam3.chr11             14987758  98 +  74389097 TAACCTAGAGGTGGAGTCATTATGTA--TCAGTCAGAATGTTTTGAATATGAGTCACAGA-GTACTATT-AAAACTAGATTAATCACAAACAGTTTTTTTTT
i canFam3.chr11            C 0 C 0
s dasNov3.JH567306           2725054  97 +   3667625 CAAACTAGAGGCTGAATT-TTAAGTA--TTCATCAGGAAGTTTTGAAAGTAAGCCACAGA-ACACAATT-AAATCTACATTAAGGACATAGACTTATTTTTT
i dasNov3.JH567306         C 0 N 0

a score=10579.000000
s hg38.chr5_KI270796v1_alt    167471 2 +    172708 CT
s panTro5.chr5             125281628 2 + 181907262 CT
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126612437 2 + 183735486 CT
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1804207 2 +   8933513 GT
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139935029 2 + 163208435 GT
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122920528 2 + 180051392 GT
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124344153 2 + 181584905 GT
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16342845 2 +  18395747 GT
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5354227 2 +  26952557 GT
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28455019 2 +  82825804 GT
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4125747 2 -   4237731 GT
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      394265 2 -   1175262 GT
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123755270 2 - 204313951 GT
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55796180 2 -  71252344 GT
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       99627 2 -   3089952 GT
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13300112 2 -  42888418 GT
i aotNan1.NW_018505940v1   C 0 C 0
s otoGar3.GL873679           3148437 2 +   4132165 CT
i otoGar3.GL873679         C 0 N 0
s canFam3.chr11             14987856 2 +  74389097 TA
i canFam3.chr11            C 0 C 0

a score=627691.000000
s hg38.chr5_KI270796v1_alt    167473 65 +    172708 ------------------ATGTAGcac-atcaatcttcataataaaaacaactgagaaaaactggagaaaacacaataaccatc
s panTro5.chr5             125281630 65 + 181907262 ------------------ATGTAGcac-atcaatcttcataataaaaacaacagagaaaaactggagaaaacacaataaacatc
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126612439 65 + 183735486 ------------------ATGTAGcac-atcaatcttcataataaaaacaacagagaaaaactggagaaaacacaataaacatc
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1804209 65 +   8933513 ------------------ATGTAGcac-atcaatcttcataataaaaacaactgagaaaaactggagaaaacacaataaacatc
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139935031 64 + 163208435 ------------------ATGTAGCCC-atcaatcttcataataaaaacaa-tgagaaaaactggagaaaacacaataaacatc
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122920530 65 + 180051392 ------------------ATGCAGcac-atcaatcttcataataaaaacaactgggaaaaactggagaaaacacagtaaacatc
i rheMac8.chr6             C 0 C 0
s macFas5.chr6             124344155 65 + 181584905 ------------------ATGCAGcac-atcaatcttcataataaaaacaactgggaaaaactggagaaaacacagtaaacatc
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16342847 65 +  18395747 ------------------ATGCAGcac-atcaatcttcataataaaaacaactgggaaaaactggagaaaacacagtaaacatc
i macNem1.NW_012012355v1   C 0 C 0
s cerAty1.NW_012002512v1     5354229 65 +  26952557 ------------------ATGGAGcac-atcaatcttcataataaaaacaactgggaaaaactggagaaaacacagtaaacatc
i cerAty1.NW_012002512v1   C 0 C 0
s chlSab2.chr23             28455021 65 +  82825804 ------------------ATGGAGcac-atcaatcttcgtaataaaaacaactgggaaaaactggagaaaacacagtaaacatc
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4125749 65 -   4237731 ------------------ATGGAGcac-atcaatcttcataataaaaacaactgggaaaaactggagaaaacacagtaaacatc
i manLeu1.NW_012103321v1   C 0 C 0
s colAng1.NW_012119644v1      394267 65 -   1175262 ------------------ATGGAGcac-atcaatctttgtaataaaaacaactgggaaaaactggagaaaacacagtaaacatc
i colAng1.NW_012119644v1   C 0 C 0
s calJac3.chr2             123755272 64 - 204313951 ------------------ATGTAGcac-atccatcctcataatagaaac-actgagagaaactggaaaaaacacaataaacatc
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55796182 64 -  71252344 ------------------ATGTAGcac-atcaatcctcataatagaaac-actgagagaagctggagaaaacacagtaaacatc
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       99629 64 -   3089952 ------------------ATGTAGcac-atcaatcttcataatagaaac-actgagagaaactggagaaaacacaagaaacatc
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13300114 64 -  42888418 ------------------ATGTAAcac-atcaatcttcataatagaaac-actgagataaactggagaaaacacaataaacatc
i aotNan1.NW_018505940v1   C 0 C 0
s canFam3.chr11             14987858 84 +  74389097 AGCTGTTGTAATCTGGAAAGATACCATGGTAAATCCTCATTGTATaaaaaaaaaaaaaaaaaaggaaacaagaaagaaaCCCTC
i canFam3.chr11            C 0 N 0

a score=18301582.000000
s hg38.chr5_KI270796v1_alt    167538 1976 +    172708 tgttggaaatattgttaagccatc-aaaacagccagcccttgatgggccaacatcttagtgagaagaggaattcactgaagtgaacatgacattctatgctggg-ttatt---------ttgtt-------------gcttcaatctatgtgc----tgattcataaacagcattgctgacaactaataaatcgagcagaaagagtctactgagaagtatagaagctga----acatagccttcagcagtctcat-gggcttagggagaaacattttgtcattcagggctagcaaggc---------agctcaaggttggga----ggggggtcacaattttga-agaggagagaaactcagagaagtaaacctgacagtgtgagatgcttttcccttaaagaatctgtcat---tcataagtgaaacagactgaacatctggggaactgagcagataacagttgctaagtgcctaaagatctaagtatacttatcagtagtccaactgtgatgagagataaaaattggaactaaaagcctacccaaattagaagaccctagtaaacagtccagccttccattgagacATCT---GAGCTATAAATAGATCAATCC-TTTAAAAGt-taattgtaatatgctgtgggtctctttggatttatcctattagg-------tgtccattgagcttcctggatctgaatttctatttccttccccagacatggacagttttttgccattatg----tctttgaatgtattttctgttcctttc-------------------------------------------------tctc-----cgtctttttagtagtccaaaaatatatgcattatttagcttgatggtgtcccacaagtccctcaagctatcttcactcttttatata------tttttctttttactcttcagattgaattatttccattgatctgtcttcaagttttcctgtattttattctgcttgatttagtttgat---------------------------------------------------------ttagaatccctctgtggaatttttgagttcagctattatatttttcagctttatgatttctgtttagtacttttaaatatttt-----------------------------------------------------------------ctttt---------tgttgaa---attctg-ttttttaagcattgctctttatacctcagtggccatctatatgactgatttttgaattccctgttaagtaaatcacat-tctccttttcactacagttggtttctagagatttactttgttctttt---------atttggaacacattaccttgtttcttaa-tttt----------ttttttgattttctgggttggtgtctgcacattagataagacaaccacctctcccagAATGAAATATGATCCCAAATCAACTTAGGGTAAGCCTGGATAAAGTTGATTTATTCTGACATCCTGGGTgaagctaaaaagaatcttctcctggaggaaagccacatttcccaagaattttaacttttcttt--aaaaaaaaaat-------ctcacaaggcataaaattcattaaaaattcacaaggcataccaagagatagaaacaagcggaaaagcagacaacagaaacagtcacatagctgatccaggcatta-----aaattatattgactgtattttaaaataac--tgactattatgttcaataaagag--ataaaaag----agagagaaaaa-tggtgaagaggcggcaagattaacttgcagctcctacttggacaggcagagcagcatgtggagactcaaattatgaaatttttttcccagaactaccacagaaacataccaggaaagctgagagaatccacagatcctttgaaggaagtggcttgctgttgcaggctccttgagacagccaaaaactgtgagtactc-aaagtgtgagagggggaatgtctaccccaa-----acacacattctcactggggaacctgaaggtccagatcatgggagaaggatttgaccttacctggagttgagatgaattt-agagagctgagcgaaatgtaggggtacaagaagcagcaggaagagctctgt-agacactattggtccccagggaaacaattcctga------ctttcaggggtccttggggagggctgccagtggaactg---tgg--aaaaaccacagggagaagg
s panTro5.chr5             125281695 1997 + 181907262 tgttggaaatattgttaagccatc-aaaacagccagcccttgatgggccaacatcttagtgagaagaggaattcactgaagtgaacatgacattctatgctggg-ttatt---------ttgtt-------------gcttcaatctatttgctgattGATTCATAACCAGCATTGCTGACAACTAGTAAATCGAGccgaaagagtctactgagaactacagaagctgaacatacatagccttcagcagtctcatggggcttagggagaaaaattttgtcattcagggctagcaaggT---------agctcaaggttgggaggggggggggtcacaattttga-agagcagagaaactcagagaagtaaacctgacagtgtgagatgcttttcctttaaagaatctgtcat---tcataagtgaaacagactgaacatctggggaactcagcagataacagttgctaagtgcctaaagatctaagtatacttatcagtagtccaactgtgatgagagataaaaattggaactaaaagcttacccaaattagaagaccctagtaaacagtccagccttccattgagacATCT---GAGCTATAGATAGATCAATCC-TTTAAAAGt-taattgtaatatgccgtgggtctctttggattaatcctattagg-------tgtccattgagcttcctggatctgaatttctatttccttccccagacgtggacagttttttgccattatgtctttctttgaatgtattttctgttcctttc-------------------------------------------------tctctctcttgtctttttagtagtccaaaaatatgtgcattatttagcttgatggtgtcccataagtccctcaagctatcttcactcttttatata------tttttctttttactcttcagattgaattatttccattgatctgtcttcaagttttcctgtattttattctgcttgatttagtttgat---------------------------------------------------------ttagaatccctctatggaatttttgagttcagctattatatttttcagctttatgatttctatttagtacttttaaatatttt-----------------------------------------------------------------ctttt---------tgttgaa---attctg-ttttttaagcattgctctttatacctcagtggccatctatatgactgatttttgaattccctgttaagtaaatcacatgtctccatttcactacagttggtttctagagatttattttattctttt---------atttggaacacattaccttgtttcttaa--ttt----------ttttttgattttctgggttggtgtctgcacattagataagacaaccacctctcccagaatgaaatatgatcccaaatcaacttagggtaagcctggataaagttgatttattctaacatcctgggtgaagctaaaaagaatcttctcttggaggaaagccacatttcccaagaattttaacttttcttt--aaaaaaaa----------ctcacaaggcataaaattcattaaaaattcacaaggcataccaagagatagaaacaagcggaaaagcagacaacagaaacagtcacatagctgatccaggcatta-----aaattatattgactgtattttaaaataactgtgactattatgttcaataaagag--ataaaaag----agagagaaaaa-tggtgaagaggaggcaagattaacttgcagctcctacttggacaggcagagcagcatgtggagactcaaattatgaactttttttcccagaactaccacagaaacataccaggaaagctgagagaatccacagatcctttgaaggaagtggcttgctgttgcaggctccttgagacagccaaaaactgtgagtactc-aaagtgtgagagggggaatgtctaccccaa-----acacacattttcactgaggaacctgaaggtccagatcatgggagaaggatttgaccttacctggagttgagatgaattt-agagagctgagcgaaatgtaggggtacaagaagcagcaggaagagctctgt-agacactattggtccccagggaaacaattcctga------ctttcaggggtccttggggagggctgccagtggaactg---tgg--aaaaaccacatggagaagg
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126612504 1989 + 183735486 tgttggaaatattgttaagccatc-aaaacagccagcccttgatgggccaacatcttagtgagaagaggaattcactgaagtgaacatgacattctatgctggg-ttatt---------ttgtt-------------gcttcaatctatttgctgattGATTCATAACCAGCATTGCTGACAACTAGTAAATCAAGccgaaagagtctactgagaactacagaagctgaacatacatagccttcagcagtctcatggggcttagggagaaaaattttgtcattcagggctagcaaggt---------agctcaaggttggga---gggggggtcacaattttga-agagcagagaaactcagagaagtaaacctgacagtgtgagatgcttttcctttaaagaatctgtcat---tcataagtgaaacagactgaacatctggggaactcagcagataacagttgctaagtgcctaaagatctaagtatacttatcagtagtccaactgtgatgagagataaaaattggaactaaaagcttacccaaattagaagaccctagtaaacagtccagccttccattgagacATCT---GAGCTATAGATAGATCAATCC-TTTAAAAGt-taattgtaatatgccgtgggtctctttggattaatcctattagg-------tgtccattgagcttcctggatctgaatttctatttccttccccagacgtggacagttttttgccattatg----tctttgaatgtattttctgttcctttc-------------------------------------------------tctctctcttgtctttttagcagtccaaaaatatgtgcattatttagcttgatggtgtcccataagtccctcaagctatcttcactcttttatata------tttttctttttactcttcagattgaattatttccattgatctgtcttcaagttttcctgtattttattctgcttgatttagtttgat---------------------------------------------------------ttagaatccctctatggaatttttgagttcagctattatatttttcagctttatgatttctatttagtacttttaaatatttt-----------------------------------------------------------------ctttt---------tgttgaa---attctg-ttttttaagcattgctctttatacctcagtggccatctatatgactgatttttgaattccctgttaagtaaatcacatgtctccatttcactacagttggtttctagagatttattttattctttt---------atttggaacacattaccttgtttcttaa---tt----------ttttttgattttctgggttggtgtctgcacattagataagacaaccacctctcccagaatgaaatatgatcccaaatcaacttagggtaagcctggataaagttgatttattctaacatcctgggtgaagctaaaaagaatcttctcttggaggaaagccacatttcccaagaattttaacttttcttt--aaaaaaaa----------ctcacaaggcataaaattcattaaaaattcacaaggcataccaagagatagaaacaagcggaaaagcagacaacagaaacagtcacatagctgatccaggcatta-----aaattgtattgactgtattttaaaataactgtgactattatgttcaataaagag--ataaaaag----agagagaaaaa-tggtgaagaggaggcaagattaacttgcagctcctacttggacaggcagagcagcatgtggagactcaaattatgaactttttttcccagaactaccacagaaacataccaggaaagctgagagaatccacagatcctttgaaggaagtggcttgctgttgcaggctccttgagacagccaaaaactgtgagtactc-aaagtgtgagagggggaatgtctaccccaa-----acacacattttcactggggaacctgaaggtccagatcatgggagaaggatttgaccttacctggagttgagatgaattt-agagagctgagcgaaatgtaggggtacaagaagcagcaggaagagctctgt-agacactattggtccccagggaaacaattcctga------ctttcaggggtccttggggagggctgccagtggaactg---tgg--aaaaaccacacggagaagg
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1804274 2061 +   8933513 tgttggaaatactgttaagccatc-aaaacagccagcccttgatgggcctacatcttagtgagaagaggaattcactgaagtgaacatgacattctatgctggg-ttatt---------ttgtt-------------gcttcaatctatttgctgattGATTCATAACCAGCATTGCTGACAACTAATAAATCGAGccgaaagagtctactgagaagtatagaagctgaacatacatagccttcagcagtctcat-gggcttagggagaaaaattttgtcattcagggctagcaaggt---------agctcaaggttggga----ggggggtcacaattttga-agagcagagaaactcagagaagtaaacctgacagtgtgagatgcttttcccttcaagaatctgtcat---tcataagtgaaacagactgaacatctggggaactgagcagataacagttgctaagtgcctaaagatctaagtatacttatcagtagtccaactgtaatgagagataaaaattggaactaaaagcctacccaaattagaagaccctagtaaacagtccagccttccattgagacATCT---GAGCTATAGATAGATCAATcc-tttaaaagt-taattgtaatatgctgtgggtctctttggattaatcctattagg-------tgtccattgagcttcctggatctgaatttctatttccttccccagacgtggacagttttttgccattatg----tctttgaatgta-tttctattcctttc-------------------------------------------------tctc--tctcgtctttttagtagtccaaaaatatatgcattatttagcttgatgttgtcccataagtccctcaagctatcttcactcttttatata------tttttctttttactcttcagattgaattatttccattgatctgtcttcaagttttcctgtagtctattctgcttgatttagtttgat---------------------------------------------------------ttagaatccctctatggaatttttcagttcagctattatatttttcagctttatgatttctatttagtacttttaaatacttttaaatattttttaaaaaagcatctcactaaatatttagtacttttaaatatctaaaaatttagtacttttaaatagtacttttgaa---attctg-ttttttaagcattgctctttatacctcagtggccatctatatgactgatttttgaattccctgttaagtaaatcacatgtctccatttcactacagttggtttctagagatctattttgttctttt---------atttggaacacattaccttgtttcttaattttt----------ttttttgattttctgggttggtgtctgcacattagataagacaaccacctctcccagaatgaaatatgatcccaaatcagcttagggtaagcctggataaagttgatttattctaacatcctgggtgaagctaaaaagaatcttctcttggaggaaagccacatttcccaagaattttaatttttcttt--aaaaaaaa--t-------ctcacaaggcataaaattcattaaaaattcacaaggcataccaagagatagaaacaagcagaaaagcagacaacagaaacagtcacatagctgatccaggcatta-----aaattatatcgactgtattttaaaataactgtgactattatgttcaataaagag--ataaaaag----agagagaaaaa-tggtgaagaggaggcaagattaacttgcagctcc-acttggacaggcagagcagcatgtggagactcaaattatgaactttttttcccagaactaccacagaaacataccaggaaagcggagagaatccacagatcctttgaaggaagtggcttgctgttgcaggctccttgagacagccaaaaactgtgagtactc-aaagtgtgagagggggaatgtctaccccaa-----acacacattctcactggagaacctgaaggtccagatcatgggagaaggatttgaccttacctggagttgagatgaattt-agagagctgagcgaaatgtaggggtacaagaagcagcaggaagagctctgt-agacactattggtccccaggggaacaattcctga------ctttcaggggtccttggggagggctgccagtggaactg---tgg--aaaaaccacagggagaagg
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139935095 2023 + 163208435 tgttcgaaatattgttaagccatc-aaaacagccagcccttgatgggccaacatcttagtgagaagaggaattcactgaagtgaacatgacattctatgctgggtttttt---------ttgtt-------------gcttcgatctatttgc----tgattcataaccagcattgctgacaactaataaatcaagcagaaagagtctactaagaagtatagaagttga----acatagccttcagcagtctcat-gggcttaaggagaaaaattttgtcattcagggctagcaaggc---------atctcaaggttggga---gggggggtcacaaatttga-agagcagagaaactcagagaagtaaacctgacagtctgacatgcttttcccttaaagaatttgtcat---tcataagtgaaacagactgaaaatctggggaactgagcagataacagttgctaagtgcctaaagatctaagtatacttatcagtagtccaactgtgatgagagataaaaattggaactaaaagcctacccaaattaaaagaccctagtaaacagtccagcttttcattgagacATCT---GAACTATAGATAGATCAATCG-tttaaaagt-taattgtaatatgctatgggtctctttggattcatcctactagg-------tgtccattgagctttctggatctgaatttctatttccttccccagacgtggacagttttctgccattatg----tctttgaatgtattttctgttcctttc-------------------------------------------------tctctctcttctctttttagtagtccaaacatatatacattatttggcttgatggtgtcccataagtccctcaagctatcttcattcttttatata------tttttctttttactcttcagaatgaattatttccattgatctgtcttcaagttttcctgtattttatcctgctagatcaagcaggataaaatacatagaatatcaagcacaataaaatgcatagaataaaataaataaaattccatagaatccctctatggaatttttgagttcagctattatatttttcagcttcacaatttctatttagtacttttaaat-tttt-----------------------------------------------------------------ctttt---------tgttga---------------ttaagcattgctctttatacctcagtggctatctatatgactgatttttgaattccctgttaagtaaatcacg--tctccatttcactacagttggcttctagagatttattttgttctttt---------atttggaacatattaccttgtttcttaa--ttt----------ttttttgattttttgggttggtgtctgaacattagataaaacaaccacctctctcagAATGAAATATGATCCCAAATCAACTTAGGATAAGCCTGGATAAAGTTGATTTATTCTAACATCCTGGGTgaagctaaaaagaatcttctcttggaggaaagccacatttcccaagaattttaatttttcttt--agaaaaaa--t-------ctcacaaggcataaaattcattaaaaattcacaaggcataccaagagatagaaacaagaggaaaagcagacaacagaaacagtcacatagctgatccaggcatta-----aaattatattgactgtatcttaaaataactgtgactattatattcaataaagag--ataaaaag----agagagaaaaa-tgttgaagaggaggcaagattaacttgcagctcctacttggacaggcagagcagcatgtggagcctcaaattatgaactgttgttcccagaactaccacagaaacataccaggaaagctgagagaatccacagatcctttgaaggaagtggcttgctgttgcaggctccttgagacagccaaaac---tgagtactc-aaagtgtgagagggggaatgtctaccccaa-----acacacattctcactggggaacctgaaggtccagatcatgggacaaggatttgaccttacctggagttgagatgaattt-agagagctgagcgaaatgtaggggtacaagaagcagcaggaagagctctgt-agacactattggtccccagggaatcaattcctga------ctttcaggggtccttggggagggatgccagtggaactg---tgg--aaaaaccacagggagaagg
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122920595 1978 + 180051392 tgttggaaatattgttaagccaac-aaaacagtcagcccttgatgggccaacatcttagtgagaagaggaattcactgaagtgaacatgacattctatgctgGG-ttttt---------ttttt--ttttttttttCGCTTCAATCTATTTGC----TGATTCATAACCAGCATTGCTGACAACTAATAAATCAAGCAgaaagagtctattaagaagtatagaagctga----acatagctttcagcagtctcat-gggcttagggagaaaaattttgtcatgcagggctagcaaggc---------agctcaaggttgggg---------gtcacaattttga-agagcagagaaactcagagaagtaaacctgacagtctgagatgcttttcccttaaagaatttgccatttatcataagtgaaccagactgaacatctggggaaccgaacagataacagttgctaagtggttaaagatctaagtatacttatcactagtccaactgtgatgagagataaaaattggaactaaaagcctacccaaattaaaagaccctagtaaatagtccaggcttccattgagacATCT---GAACTATAGATAAATCAATAC-tttaacagt-taattgtaatatgctgtgggtctctttggattcatcctattagg-------tgtccattgagcttcctggatctgaatttctatttccttcctcagacgtggacagttttctgccattgtg----tctccaaatgtattttctgttcctttc-------------------------------------------------tctctctcttctctttttactagtccaaaaatatatacattatttagcttgatggtgtcccataagtccctcaagctatcttcactcttttatatat-----tttttctttttactcttcagattgaattatttccattgatctgtcttcaagttttcctgtattttattctgcttgatctagtttgct---------------------------------------------------------atagaatccctctatggaatttttgagttcagctattatatttttcagctttatgatttctatttagtacttttaaatatttt-----------------------------------------------------------------ctttt---------tgttgaa---attctgtttttttaagcattgctctttatatctcagtggccatctatatgactgatttttgaattccctggtaggtaaatcacatgtctccatttcactacagttgacttctagagatttattttgttctttt---------atttggaacatattgccttgtttcttaatttat----------ttttttgattttctgggttggtgtctgcacattagataagacaaccacctctcccagAATGAGATATGATCCCAAATCAACTTAGGGTAAGCCTGGATAAAGTTGATTTATTCTAACATCCTGGGTgaagctaaaaagaatcttctcttggaggaaagccatatttcccaagaattttaatttttcttt--aaaaaaaaaaa-------ctcac----------attcattaaaaattcacaaggcataccaagagatagaaacaagaggaaaagcagacaatagaaacagtcatatagctgatccaggcattaaaattaaattatattgactgtactttgaaataactgtgactactatgttcaataaaGAG--ATAAAGAG--TCAgaaagaaaaa----------------aagattaacttgcaactcctactcggacaggcagagcagcatgtggagactcaaattatgaacttttgctcccagaactaccacagaagcatactagaaaagctgagagaatacacagatcctttgaaggaagtggcttgctgctgcaggctacttgagatagccaaaaacggtgggtactc-aaagtgtgagagggcgaatgtctaccccaa-----acacacattctcactggggaacctgaaggtccatatcatgggagaagcatttgaccttacctggagctgagatgaattt-agagagctgagcaaaatataggggtacaaaaagcagcaggaagagccctgt-aggcactattggtccccagggaaacaattcctga------ctttcaggggtccttggggagggctgccagtggaactg---tgg--aaaaaccacggggagaaag
i rheMac8.chr6             C 0 I 16
s macFas5.chr6             124344220 1977 + 181584905 tgttggaaatattgttaagccaac-aaaacagtcagcccttgatgggccaacatcttagtgagaagaggaattcactgaagtgaacatgacattctatgctggg--tttt---------ttttt--tttttttttttgcttcaatctatttgc----tgattcataaccagcattgctgacaactaataaatcaagcagaaagagtctattaagaagtatagaagctga----acatagctttcagcagtctcat-gggcttagggagaaaaattttgtcatgcagggctagcaaggc---------agctcaaggttgggg---------gtcacaattttga-agagcagagaaactcagagaagtaaacctgacagtctgagatgcttttcccttaaagaatttgccatttatcataagtgaaccagactgaacatctggggaaccgaacagaTAACAGTTGCTAAGTGGTTAAAGATCTAAGTATACTTATCACTAGTCCAACTGTGATGAGAGATAAAAATTGGAACTAAAAGCCTACCCAAATTAAAAGACCCTAGTAAATAGTCCAGGCTTCCATTGAGACATCT---GAACTATAGATAAATCAATAC-tttaacagt-taattgtaatatgctgtgggtctctttggattcatcctattagg-------tgtccattgagcttcctggatctgaatttctatttccttcctcagacgtggacagttttctgccattgtg----tctccaaatgtattttctgttcctttc-------------------------------------------------tctctctcttctctttttactagtccaaaaatatatacattatttagcttgatggtgtcccataagtccctcaagctatcttcactcttttatatat-----tttttctttttactcttcagattgaattatttccattgatctgtcttcaagttttcctgtattttattctgcttgatctagtttgct---------------------------------------------------------atagaatccctctatggaatttttgagttcagctattatatttttcagctttatgatttctatttagtacttttaaatatttt-----------------------------------------------------------------ctttt---------tgttgaa---attctgtttttttaagcattgctctttatatctcagtggccatctatatgactgatttttgaattccctggtaggtaaatcacatgtctccatttcactacagttgacttctagagatttattttgttctttt---------atttggaacatattgccttgtttcttaatttat----------ttttttgattttctgggttggtgtctgcacattagataagacaaccacctctcccagAATGAGATATGATCCCAAATCAACTTAGGGTAAGCCTGGATAAAGTTGATTTATTCTAACATCCTGGGTgaagctaaaaagaatcttctcttggaggaaagccatatttcccaagaattttaatttttcttt--aaaaaaaaaaa-------ctcac----------attcattaaaaattcacaaggcataccaagagatagaaacaagaggaaaagcagacaatagaaacagtcatatagttgattcaggcattaaaattaaattatattgactgtactttgaaataactgtgactactatgttcaataaaGAG--ATAAAGAG--TCAgaaagaaaaa----------------aagattaacttgcaactcctactcggacaggcagagcagcatgtggagactcaaattatgaacttttgctcccagaactaccacagaagcatactagaaaagctgagagaatacacagatcctttgaaggaagtggcttgctgctgcaggctacttgagatagccaaaaacggtgggtactc-aaagtgtgagagggcgaatgtctaccccaa-----acacacattctcactggggaacctgaaggtccatatcatgggagaagcatttgaccttacctggagctgagatgaattt-agagagctgagcaaaatataggggtacaaaaagcagcaggaagagccctgt-aggcactattggtccccagggaaacaattcctga------ctttcaggggtccttggggagggctgccagtggaactg---tgg--aaaaaccacggggagaaag
i macFas5.chr6             C 0 I 4
s macNem1.NW_012012355v1    16342912 1977 +  18395747 tgttggaaatattgttaagccaac-aaaacagtcagcccttgatgggccaacatcttagtgagaagaggaattcactgaagtgaacatgacattctatgctgGG-ttttt---------ttttt--tttttttttttGCTTCAATCTATTTGC----TGATTCATAACCAGCATTGCTGACAACTAATAAATCAAGCAgaaagagtctattaagaagtatagaagctga----acatagctttcagcagtctcat-gggcttagggagaaaaattttgtcatgcagggctagcaaggc---------agctcaaggttgggg---------gtcacaattttga-agagcagagaaactcagagaagtaaacctgacagtctgagatgcttttcccttaaagaatttgccatttatcataagtgaaccagactgaacatctggggaaccgaacagataacagttgctaagtggttaaagatctaagtatacttatcactagtccaactgtgatgagagataaaatttggaactaaaagcctacccaaattaaaagaccctagtaaacagtccaggcttccattgagacATCT---GAACTATAGATAAATCAATAC-tttaacagt-taattgtaatatgctgtgggtctctttggattcatcctattagg-------tgtccattgagcttcctggatctgaatttctatttccttcctcagacgtggacagttttctgccattgtg----tctccaaatgtattttctgttcctttc-------------------------------------------------tctctctcttctctttttactagtccaaaaacatatacattatttagcttgatggtgtcccataagtccctcaagctatctttactcttttatatat-----tttttctttttactcttcagattgaattatttccattgatctgtcttcaagttttcctgtattttattctgcttgatctagtttgct---------------------------------------------------------atacagtccctctatggaatttttgagttcagctattatatttttcagctttatgatttctatttagtacttttaaatatttt-----------------------------------------------------------------ctttt---------tgttgaa---attctgtttttttaagcattgctctttatatctcagtggccatctatatgactgatttttgaattccctggtaggtaaatcacatgtctccatttcactacagttgacttctagagatttattttgttctttt---------atttggaacatattaccttgtttcttaatttat----------ttttttgattttctgggttggtgtctgcacattagataagacaaccacctctcccagAATGAGATATGATCCCAAATCAACTTAGGGTAAGCCTGGATAAAGTTGATTTATTCTAACATCCTGGGTgaagctaaaaagaatcttctcttggaggaaagccatatttcccaagaattttaatttttcttt---aaaaaaaaaa-------ctcac----------attcattaaaaattcacaaggcataccaagagatagaaacaagaggaaaagcagacaatagaaacagtcatatagctgatccaggcattaaaattaaattatattgactgtactttgaaataactgtgactactatgttcaataaaGAG--ATAAAGAG--TCAgaaagaaaaa----------------aagattaacttgcaactcctactcggacaggcagagcagcatgtggagactcaaattatgaacttttgctcccagaactaccacagaagcatactagaaaagctgagagaatacacagatcctttgaaggaagtggcttgctgctgcaggctacttgagatagccaaaaacggtgggtactc-aaagtgtgagagggcgaatgtctaccccaa-----acacacattctcactggggaacctgaaggtccatatcatgggagaagcatttgaccttacctggagctgagatgaattt-agagagctgagcaaaatataggggtacaaaaagcagcaggaagagccctgt-aggcactattggtccccagggaaacaattcctga------ctttcaggggtccttggggagggctgccagtggaactg---tgg--aaaaaccacggggagaaag
i macNem1.NW_012012355v1   C 0 I 16
s cerAty1.NW_012002512v1     5354294 1979 +  26952557 tgttggaaatattgtttagccaac-aaaacagtcagcccttgatgggccaacatcttagtgagaagaggaattcactgaagtgaacatgacattctatgctgGG---ttt---------ttttt--tttttttttttGCTTCAATCTACTTGC----TGATTCATAACCAGCATTGCTGACAACTAATAAATCAAGCAgaaagagtctattaagaagtatagaagctga----acatagctttcagcagtctcat-gggcttagggagaaaaattttgtcatgcagggctagcaaggc---------agctcaaggttgggg---------gtcacaattttga-agagcagagaaactcagagaagtaaacctgacagtctgagatgcttttcccttaaagaattttccatttatcataagtgaaccagactgaacatctggggaaccgaacagataacagttgctaagtgattaaagatctaagtatacttatcactagtccaactgtgatgagagataaaaattggaactaaaagcctacccaaattaaaagaccctagtaaatagtccaggcttccattgagacATCT---GAACTATAGATAGATCAATAC-tttaacagt-taattgtaatatgctgtgggtctctttggattcatcctattagg-------tgtccattgagcttcctggatctgaatttctatttccttcctcagacgtggacagttttctgccattgtg----tctccaaatgtattttctgttcctttc-------------------------------------------------tctctctcttctctttttactagtccaaaaatatatacattatttagcttgatggtgtcccataagtccctcaagctatcttcactcttttatgtat-----tttttctttttactcttcagattgaattatttccattgatctgtcttcaagttttcctgtattttattctgcttgatctagtttgct---------------------------------------------------------atagaatccctctatggaatttttgagttcagctattatatttttcagctttatgatttctatttagtacttttaaatatttt-----------------------------------------------------------------ctttt---------tgttgaa---attctgtttttttaagcattgctctttatatctcagtggccatctatatgactgatttttgaattccctggtaggtaaatcacatgtctccatttcactacagttgacttctagagatttattttgttctttt---------atttggaacatattaccttgtttcttaatttat----------ttttttgattttctgggttggtgtctgcacattagataagacaaccacctctcccagAATGAGATATGATCCCAAATCAACTTAGGGTAAGCCTGGATAAAGTTGATTTATTCTAACATCCTGGGTgaagctaaaaagaatcttctcttggaggaaagccacatttcccaagaattttaatttttctttaaaaaaaaaaaaa-------ctcac----------attcattaaaaattcacaaggcataccaagagatagaaacaagaggaaaagcagacaatagaaacagtcatatagctgatccaggcattaaaattaaattatattgactgtactttgaaataactgtgactactatgttcaataaaGAA--ATAAAGAG--TCAgaaagaaaaa----------------aagattaacttgcaactcctactcggacaggcagagcagcatgtggagactcaaattatgaacttttgctcccagaactaccacagaaacatactagaaaagctgagagaatacacagatcctttgaaggaagtggcttgctgctgcaggctccttgagatagccaaaaactgtgggtactc-aaagtgtgagagggcgaatgtctaccccaa-----acacacattctcactggggaacctgaaggtccagatcatgggagaagcatttgaccttacctggagctgagatgaattt-agagagctgagcaaaatataggggtacaaaaagcagcaggaagagccctgtaaggcactattggtccccagggaaacaattcctga------ctttcaggggtccttggggagggctgccagtggaactg---tgg--aaaaaccacggggagaaag
i cerAty1.NW_012002512v1   C 0 I 16
s chlSab2.chr23             28455086 1996 +  82825804 tgttggaaatattgttaagccaac-aaaacagtcagcccttgatgggccaacatcttagtgagaagaggaattcactgaagtgaacatgacattctatgctgGG-ttttttgtt-----ttgtt--tttttttgtttGCTTCAATCTATTTGC----TGATTCATAACCAGCATTGCTGACAACTAATAAATCAAGCAgaaagagtctattaagaagtatagaagctga----acatagccttcagcagcctcat-gggcttagggagaaaaattTTGTCATGCAGCActagcaaggc---------agctcaacgttgggg---------gtcacagttttgatagagcagagaaactcagagaagtaaacctgacagtctgagatgcttttcccttaaagaatttgccatttatcataagtgaaccagactgaacatctggggaaccgaacagaTAACAGTTGCTAAGTGATTAAAGATCTAAGTATACTTATCAGTAGTCCAACTGTGATGAGAGATAAAAATTGGAACCAAAAACCTACCCAAATTAAAAGACCCTAGTAAACAGTCCAGCCTTCCATTGAGACATCT---GAACTATAGATAGATCAATAC-tttaacagt-taattgtaatatgctgtgggtctctttggattcatcctattagg-------tgtccattgagcttcctggatctgaatttctatttccttccccagacgtggacagttttctgccattatg----tctccgaatgtattttctgttccttta-------------------------------------------------tctctctcttctctttttactagtccaaaaatatatacactatttagcttgatggtgtcccataagttcctcaagctatcttcactcttttatatat-----tttttctttttactcttcagattgaattatttccattgatctgtcttcaagttttcctgtattttattctgcttgatctagtttgct---------------------------------------------------------atagaatccctctatggaatttttgagttcagctattatatttttcagctttatgatttctatttagtacttttaaatatttt-----------------------------------------------------------------ctttt---------tgttgaa---attctgtttttttaagcattgctctttatacctcagtggccatctatatgactgatttttgaattccctgttaggtcaatcatgtgtctccatttaactacagttgacttctaaagatttattttgttctttt---------atttggaacatattaccttgtttc----tttat----------ttttttgattttctgggttggtgtctgcacattagataagacaaccacctctcccagAATGAAATATGATCCCAAATCAACTTAGGGTAAGCCTGGATAAAGTTGATTTATTCTAACATCCTGGGTgaagctgaaaagaatcttctcttggaggaaagccacatttcccaagaattttaatttttcttt--taaaaaaa----------ctcac----------attcattaaaaattcacaaggcataccaagagatagaaacaagaggaaaagcagacaatagaaacagtcacatagctgatccaggcattaaaattaaattatattgactgtactttgaaataactgtgactattatgttcaataaagagataaaaagaG--TCAGAAAGAAaaaatggtgaagaggcggcaagattaacttgcaactcctacttggacaggcagagcagcatgtggagactcaaattatgaacttttgctctcagaactaccacagaaacataccagaaaagctgagagaatacacagatcctttgaaggaagtggcttgctgctgcagactccttgagacagccaaaaactgtgggtactcaaaagtgtgagagggcaaacatctaccccaa-----acacacattctcattggggaacctgaaggtccagatcatgggagaagcatttgaccttacctggagctgagatgaatttaagagagctgagcaaaatataggagtacaagaagcagcaggaagagccctgt-aggcagtattggtccccagggaaacaattcctga------ctttcaggggtccttggggagggctgccagtggaactg---tgg--aaaaaccacagggagaagg
i chlSab2.chr23            C 0 I 15
s manLeu1.NW_012103321v1     4125814 1989 -   4237731 tgttggaaatattgttaagccaac-aaaacagtcagcccttgatgggccaacatcttagtgagaagaggaattcactgaagtgaacatgacattctatgctgGG-ttttttttt----gttttt--tgtttttttttGCTTCAATCTATTTGC----TGATTCATAACCAGCATTGCTGATAACTAATAAATCAAGCAgaaagagtctattaagaagtatagaagctga----acatagctttcagcagtctcat-gggcttagggagaaaaattttgtcatgcaaggctagcaaggc---------agctcaaggttgggg---------gtcacaattttga-agagcagagaaactcagagaagtaaacctgacagtctgagatgcttttcccttaaagaattttccatttatcataagtgaaccagactgaacatctggggaaccaaacagataacagttgctaagtgattaaagatctaagtatacttatcactagtccaactgtgatgagagataaaaattggaactaaaagcctacccaaattaaaagaccctagtaaatagtccaggcttccattgagacATCT---GAACTATAGATAGATCAATAC-tttaacagt-taattgtaatatgctgtgggtctctttggattcatcctattagg-------tgtccattgagcttcctggatctgaatttctatttccttcctcagacgtggacagttttctgccattgtg----tctccaaatgtattttctgttcctttc-------------------------------------------------tctctctcttctctttttactagtccaaaaatatatacattatttagcttgatggtgtcccataagtccctcaagctatcttcactcttttatatat-----tttttctttttactcttcagattgaattatttccattgatctgtcgtcaagttttcctatattttattctgcttgatctagtttgct---------------------------------------------------------atagaatccctctatggaatttttgagttcagctattatatttttcagctttatgatttctatttagtacttttaaatatttt-----------------------------------------------------------------ctttt---------tgttgaa---attctgtttttttaagcattgctctttatatctcagtggccatctatatgactgatttttgaattccctggtaggtaaatcacatgtctccatttcactacagttgacttctagagatttattttgttctttt---------atttggaacatattaccttgtttcttaatttat----------ttttttgattttctgggttggtgtctgcacattagataagacaaccacctctcccagAATGAGATATGATCCCAAATCAACTTAGGGTAAGCCTGGATAAAGCTGATTTATTCTAACATCCTGGGTgaagctaaaaagaatcttctcttggaggaaagccacatttcccaagaattttaatttttctta--aaaaaaaaaaaaaaaaacctcac----------attcattaaaaattcacaaggcataccaagagatagaaacaagaggaaaagcagacaatagaaacagtcatatagctgatccaggcattaaaattaaattatattgactgtactttgaaataactgtgactactatgttcaataaaGAG--AAAAAGAG--TCAgaaagaaaaa----------------aagattaacttgcaactcctactcggacaggcagagcagcatgtggagactcaaattatg-acctttgctcccagaactaccacagaaacatactagaaaagctgagagaatacacagatcctttgaaggaagtggcttgctcctgcaggctccttgagagagccaaaaactgtgggtactc-aaagtgtgagagggcgaatgtctaccccaa-----acacacattctcactggggaacctgaaggtccagatcatgggagaagcatttgaccttacctggagctgagatgaattt-agagagctgagcaaaatataggggtacaaaaagcagcaggaagagccctgt-aggcactattggtccccagggaaacaattcctga------ctttcaggggtccttggggagggctgccagtggaactg---tgg--aaaaaccacggggagaaag
i manLeu1.NW_012103321v1   C 0 I 16
s colAng1.NW_012119644v1      394332 2010 -   1175262 tgttggaaatattgttaagccaac-aaaacagtcagcccttgatgggccaacatcttagtgagaagaggaactcactgaagtgaacatgacattctatgctgGG-ttttttgtttttgatttttggtttttttttttGCTTCAATCTATTTGC----TGATTCATAACCAGCATTGCTGACAACTAATAAATCAAGCAgaaagagtctattaagaagtatagaagctga----acatagccttcagaagtctcat-gggcttagggagaaaaattttgtcatgcagggctagcaaggc---------agctcaaggttgggg---------gtcacaattttga-agagcagagaaactcagagaagtaaacctgacagtctgagatgcttttcccttaaagaatttgccatttatcataagtgaaccagactgaacatctggggaaccgaacagataacagttgctaagggattaaagatctaagtatacttatcagtagtccaactgtgatgagagatagaaattggaactaaaagcctacccaaattaaaagatcctagtaaacagtccagcctttcattgagacATCT---GAACTATAGATAGATCAATacttttaacagt-taattgtaatatgctgtgggtctctttggattcatcctattaggtgtccattgtccattgagcttcctggatctgaatttctgtttccttccccagatgtggacatttttctgtcattata----tctccgaatgtattt--tgttcctttc-------------------------------------------------gctctctcttctctttttactagtccaaaaatatatacattatttagcttgatggtgtcccataagtccctcaagctatcttcactcttttatatat-----tttttctttatactcttcagattgaattatttccatcgatctgtcttcaagttttcctgtattttattctgcttgatctagtttgct---------------------------------------------------------atagaatccctctatggaatttttgagttcaactattatatttttcagctttatgatttctatttagtacttttaaatatttt-----------------------------------------------------------------ctttt---------tgttgaa---attttgtttttttaagcattgctctttatacctcagtggctatctatatgactgatttttgaattccctgttaggtaaatcacatgtctccatttcactacagttgacttctagagatttattttgttctttt---------atttggaacatattaccttgtttcttaatttat----------ttttttgattttctgggttggtgtctgcacattagataagacaaccacctctcccagAATGAAATATGATCCCAAATCAACTTAGGGTAAGCCTGGATAAAGTTGATTTATTCTAACATCCTGGGTgaagctaaaaagaatattctcttggaggaaagccatatttcccaagaattttaatttttcttt----aaaaaaaaa-------ctcac----------attcattaaaaattcacaaggcataccaagagatagaaacaagaggaaaagcagacaatagaaacagtcacatagctgatccaggcattaaaattaaattatagtgactgtactttgaaataactgtgactattatgttcaataaaGAGATAAAAATAG--TCAGAAAGAAaaaatggtgaagaggaggcaagattaacttgcaactcctactcggacaggcagagcagcatgtggagactcaaattatgaacttttgctcccagaactaccacagaaacataccagaaaagctgagagaatacacagatcctttgaaggaagtggcttgctgctgcaggctccttgagacagccaaaaactgtgggtactc-aaagtgtgagagggcaaatgtctacccc-a-----acacacattctaactggggaacctgaaggtccagatcatgggagaagcatttgaccttacctggagctgagatgaattt-agagagctgagcaaaatataggggtacaaaaagcagcaggaagagtcctgt-gggcactattgttccccagggaaacaattcctga------ctttcaggggtccttggggagggctgccagtggaactg---tgg--aaaaaccacagggagaagg
i colAng1.NW_012119644v1   C 0 I 16
s calJac3.chr2             123755336 2015 - 204313951 tgttggaaatattgttaagccattaaaaacagccagcccttgatgggccagcatcttagtgagaagaggaactcactgaagtgaacatgacattttatgctggg-tattt---------ttttt--tt---------gtctcaatctatttgc----tgattcataagcagcattgctgacaactaataaatcaagcagaaagagttgactaaaaagtacagaagctga----gcatagccttcagtagtctcat-gggcttagggagaaaaatttaggcattcgggcctagcaaggcagctcaagaagctcaagattagga---agatgggtcagtattttga-agagcagagaaactcagagaagtaaacctgtcagtttgagctgcttttccctgaaataatttgtcat---tcataaatgaaacagactgagcatctgggaaactgggcagaaaacagttgctaaatgcctaaagatctaagtgtagttatctgtagtcc-actgtgaggagagataaaacttggaactaaaagcctacccaaattaaaagaccctagtaaagagtccagccttccactgagatacctgaagaactataGATAGATCAATCC-TTTAAAAGTCTAATTGTAAtagacagtgggtctctttggattcatcctattagg-------tgttcatggagtttcctggctctgaatttctatttctttccccagacttgtaaagttttctgccattatt----tctttgaatatattttctgttccttt----------------------------------------------------tatctcttttttttttggcagtccaaaagtacatatattatttagcttgatggtgtcccataaatccctcaagctaccttcactcttttatattcttttttttttttttttactcttcagattgaattatttttattgatctgtcttcaagttttcctgtcttttattctgcttgatctattttgct---------------------------------------------------------atagactctctttatggaatttttgagttcaattattaaaattttcagctttataatttctgtttagtactttt-aatatttt-----------------------------------------------------------------ctctt---------tgttgaa---ttttttttttttaaggcattgctcttta--------gggccatctttataacagatttttgaattccctgttaggtacatcacatttatccatttcactacagttggcttctagagatttatcttttttttttttttttttaatttggaacatattaccttgtttcttaatttttcttgggttgatttcttgattttctgggttggtgtctgcacattagataagacaaccacctctcAGAGAATGAAATATGATCCCAAATCAAC--AGGGTAATCCTGGGTAAAGTT-ATGTATTCTAACATTTTGGGagaagctaaaaagaatcttctcttggatgaaagctacatttcccaagaatttcaatttttctta--aa----aaaat-------ctcac----------atttattaaaagttcacaaggcataccaacaaatagtaacaagaggaaaagcaggcagtagaaacagttacatcaatgatccaggcattt-----aaattatattgaccaaacttaaaaataactatgactgttacatccaataaGGAG--ATAAAAAGAATCAGAGAGTAaaaatcgtgaacaggaggcaagactaacttgcagctcctactcggacagacagagcaacatgtagagactcacactgtgaacttttgctccaagagctaccacagaaacataccaggaaagctgagagaatccacagatgttttgaaggaggtggtttgctgctgcaggctccttgagacagccaaaaactgttactacct-gaagtgtgagagggggaatgtctaccccca----cacacacgttcccactgaggaacctgaaggttcagatcatgggagaaggatctgaccttatctggagctaagatgaattt-agagagctgagcaaaatatagggatacaggaagcagcaggaagatccctgt-gggtactattggtccccagggaaaccattcctgactttgtcttttaggagtccttggggaaggctgccagtggaactccaggggaaaaaaaccacagggagaagg
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55796246 1992 -  71252344 tgttggaaatattgttaagtcatc-gaaacagcaagcccttgatgggccagcatcttagtgagaagaggaactcactgaagtgaacatgacattttatgctggg-tattt---------ttttt--tctttg-----gtctcaatctatttgc----tgattcataagcagcattgctgacaactaataaatcaagcagaaagagttcactaaaaagtacagaagctga----gcatagccttcagtagtctcat-gggcttagggag-gaaatttaggcattcagggctagc-AGGCAGCTCAAGAAGCTCAAGATTGGAA---GGGAGGGTCAGTATTTTGA-AGAGCAGAGA---------AAGTAAA-CTGTCAGTTTGAGCTGCTTTTCCCTGAAAGACTTTGTCAT---TCATAAGTGAAACAGACTGAGCATCTGGGAAACTGAGCAGAAAACAGTTGCTAAATGCCTAATGGTTTAAGTATAGTTATCTATAGTCC-ACTGTGAGGAGAGATAAAACTTGGAACTAAAAGCCTACCCAAATTAAAAGACCCTAGTAAAGAGTCCAGCCTTCCATTGAGACACCTGAAGAACTATAGATAGATGAGTcc-tttaaaagtctgattgtaataggctgtgggtctctttggagtcatcctattagg-------tgttcatggagtttcctggctctgaatttctatttctttccccagacttgtaaagtttcctgccattatt----tctttgaatatattttctgttccttta-------------------------------------------------tctctcttttttctttttggtagtccaaaagtgcatatattatttagcttgatggtgtcccataaatccctaaagctaccttcactcttttatattc--ttttttttttttttactcttcagattgaattatttccattgatctgtcttcaagttttcctatcttttattctacttgatctattttgct---------------------------------------------------------atagaatctctttatggaatttttgagttcaattattaaaattttcagttttatgatttctgtttagtactttt-agtatttt-----------------------------------------------------------------ttctt---------tgtcaa------tttttttttttaagcatttctcttta--------gggccatctttacgactgatttttgaattcc--gttaggtgaatcacatttatccatttcactacagttggcttctagagatttatcttgttctttt---------atttgtaacatattaccttgtttcttaatttttcttgggttgatttcttgattttctgggttggtgtctgcacattagataagacaaccacctctcAGAGAATGAAATATGATCCCAAATCAAC--AGGGTAATCCTGGATAAAGTT-ATTTATTCTAACATTTTGGGagaagctaaaaagaatcttctcttggaggaaagctacatttcccaagaatttcaatttttctta--aa--acaaaat-------ctcac----------atttattaaaagttcacaaggcataccaacaaatagaaacaagaggaaaagtagacaatagaaacagtcacactaatgatccaggcatta-----aaattatattgaccatacttaaaactaactatgactgttatgtccaataaGGAG--ATAAAAAGAATCAGAGAGTAaaaatggtgaacaggaggcaagactaacttgcagttcctactcgaacagacagagcaacatgtagaaactcacattgcgaactgttgctctaagagctaccacagaaacacaccaggaaagctgagagaatccacagatgttttgaaggaggtggtttgctgctgcaggctccttgagacagccaaaaactgtgactacct-gaagtgtgagagggggaatgtctacccctg-----acacacattctcactgaggaacctgaaggtcaagatcatgggagaaggatttgaccatatctggagctgagatgaattt-agagaactgagcaaaatacagaaatacaggaagcagcaggaagatccctgt-gggtactattggtccccaaggaaaccattcctgactttgtcttttaggagtccttggggaaggctgccagtggaactt--gggaaaaaaaaccacaggaagaagg
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1       99693 2038 -   3089952 tgttgaaaatattgttgagccatc-gaaacagccagcccttgatgggccggcatcttagtaagaagaggaactcactgaagtgaacatgacattttatgctggg-tattt---------ttttt--tttttg-----gtctcaatctatttgc----tgattcataagcagcattgctgacaactaatcaatcaagcagaaagagttgactaaaacgtacagacgctga----gcatagccttcagtagcctcat-gggcttagggagaaaaatttaaacattcagggctagcaaggcagctcaagaagctcaagactggga---gggagggtcggtattttga-agagcagagaaaattggagaagtaagcctgtcagtttgagctgcttttccctgaaagaatttgtcat---tcataag----------tgagcatctgggaaactgagcagaaaacagttgctaaatgcctacagatctaagtatagttatctgtagtcc-actgtgagaagagataaaacttggaatcaaaagcctactcaaattaaaagaccctagtaaagagtccagccttccattgagatacctgaagaactataAATAGATCAATcc-tctaaaagtctaattgtaataggcggtgggtctctttggattcatcctattagg-------tgttcatggagtttcctggctctgaatttctatttcttttcccagacttgtaaagttttctgccattatt----tctttgaatatattttctgttcctttatctctcttttttctttttggtagtccaaaagtacatatattatttagcttctctcttttttctttttggtagtccaaaagtacatatattatttagcttgattgtgtcccataaatccctcaagctaccttcactcttgtatattc-----tttttttttttactcttcagattgaattatttccattgatctgtcttcaagttttcctatcttttattctgcttgatctattttgct---------------------------------------------------------acagaatctctttatgaaatttttgagttcaattattaaaattttcagctttatgatttctgtttagtactttt-aatatttt-----------------------------------------------------------------gtctt---------tgttgaa---attttttttttttagacattgctcttta--------gggccatctttatgactgatttttgaattccctgttaggtaaatcacatttatccatttcactacagttggcttctagagatttatcttgttctttt---------atttgaaacatattaccttgtttcttgatttttcttgggttgatttcttgattttctgggttggtgtctgcacattagataagacaaccacctctTAGAGAATGAAATATGATCCCAAATCAAC--AGGGTAATCCTGGATAAAGTT-ATTTATTCTAACATTTTGGGAGAAGCTAAAAAGAATCTTCTCTCGGAGGAAAGCTACATTTCCCAAGAATTTcaatttttctta--aaaaaaaaaat-------ctcac----------atttattaaaagttcacaaggcatatcaacaaatagaaataagaggaaaaacagacaatagaaacagtcacatcaatgatccaggcatta-----aaattatattgaccatacttaaaaataactatgactgttatgtccaataaGGAG--ATAAAAAGAATCAGAGAGTAaaaatggtgaacaggaggcaagactaacttgcagttcttgctct-acatgtgcagcaacatgtagagactcacattgtgaacttttgctccaagagctaccacagaaacataccaggaaagctgagagaatccacagatgttttgaaggaggtggttttt-------ggctccttgagacagccaaaaactgtgactaccc-gaagtgtgagagggggaatgtctaccccca----gacacacattctcactgaggaacctgaaggtccaggtcatgggagaaggatttgaccttatgtggagcggagatgaattt-agagagctgagcaaaatatagggacacaggaagcagcaggaagatccctg--gggtactattggtcccctgagaaaccatttctgactttgtcttttaggagtccttggggaaggctaccagtagaactt---gggaaaaaaaccgcagggagaagg
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13300178 2010 -  42888418 tgttggaaatattgttaagccatt-gaaacagccagcccttgatgggccagcatcttagtgagaagaggaactcactgaagttaacatgacattttatgctggg-tattt---------ttttt--t----------gtctcaatctatttgc----tgattcataagcagcattgctgacaactaataaatcaagcagaaagagttgactaaaaagtacagaagctga----gcatagccttcagtagtctcat-gggcttagggagaaaaatttaggcattcagggctagcaaggcagctcaagaagctcaagattggga---aggagggtcagtattttga-agagcagagaaactcagagaagtaaacctgtcagtttgagctgcttttcactgaaagaatttgtcat---tcataagtgaaacagactgagcatctgggaaactgagcagaAAACAGTTGCTAAATGCCTAAATATCTAAGTATAGTTATCTGTAGTCC-ACTGTGAGGAGAGATAAAACTTGGAACTAAAAGCCTACCCAAATCAAAAGACCCTAGTAAAGACTCCAGCCTTCCACTGAGATACCTGAAGAACTATTGATAGATCAATcc-tttaaaagtctaattgtaataggtggtgggtctctttggattcatcctattagg-------tgttcatggagtttcctggctctgaatttctatttgtttccccagacttgtaaagttttctgccattatt----tctttgaatatattttctgttccttta-------------------------------------------------tctctcttttttctttttggtagtccaaaagtacatatattatttagcttgatggtgtcccataaatccctcaagctaccttcactcttttatattcttttttttttttttttactcttcagattgaattatttccattgatctgtcttcaagttttcctatcttttattctgcttgatctattttgct---------------------------------------------------------atagaatctctttatggaatttttgagttcaattattaaaattttcagctttatgatttctgtttagta-tctt-aatatttt-----------------------------------------------------------------ctctt---------tgttgaaattttttttttttttcaagcattgctcttta--------gggccatctttacgactgatttttgaattccctgttaggtaaatcacatttatccatttcactacagttggcttctagagatttatcttgttctttt---------atttggaacatattaccttgtttcttaattttttttggattgatttcttgattttctgggttggtgtctgcacattagataagacaaccacctttcAGAGAATGAAATATGATCCCAAATCAAC--AGGGTAATCCTGGATAAAGTT-ATTTATTCTAACATATTGGGagaagctaaaaagaatcttctcttggaggaaagctacatttcccaagaatttcaatttttctta--aa---aaaaac-------ctcac----------atttattaaaagttcacaaggcataccaacaaatagaaacaagaggaaaagcagacaatagaaacagtcacatcaatgatccaggcatta-----aaattatattgaccatacttaaaaataactaccactgttatgtccaataaGGAG--ATAAAAAGAATCACAGAGTAaaaatggtgaacaggaggcaagactaacttgcagctcctactcggacagacagagcaacatgtagagactcacattgtgaacttttgctccaagagctaccacacaaacataccaggaaagctgagagaatccacagatgttttgaaggaggtggtttgctgctgcaggctccttgagacagccaaaaactgtgactacct-gaagtgtgag-gggggaaagtctacccccaaacacacatacattctcactgatgaacctgaaggtccagatcatgggagaaggatttgaccttatctggagccgagatgacttt-agagagctgagcaaaatatcaggatacagaaagcagcaggaagatccctgt-gggaactattggtccccagggaaaccattcctgactttgtcttttagaagtccttggggaaggctgccagtggaactc---gggaaaaaaaccacagggagaagg
i aotNan1.NW_018505940v1   C 0 C 0

a score=38154.000000
s hg38.chr5_KI270796v1_alt    169514 12 +    172708 aaactttcacat
s panTro5.chr5             125283692 12 + 181907262 aaactttcacat
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126614493 12 + 183735486 aaactttcacat
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1806335 12 +   8933513 aaacttccacat
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139937118 12 + 163208435 aaacttccacat
i nomLeu3.chr2             C 0 C 0
s macFas5.chr6             124346201 12 + 181584905 tgatttccagat
i macFas5.chr6             I 4 C 0
s calJac3.chr2             123757351 12 - 204313951 aaacttccagat
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55798238 12 -  71252344 aaacttccagat
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1      101731 12 -   3089952 aaacttccagat
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13302188 12 -  42888418 aaacttccagat
i aotNan1.NW_018505940v1   C 0 C 0
e manLeu1.NW_012103321v1     4127803 16 -   4237731 I
e chlSab2.chr23             28457082 15 +  82825804 I
e cerAty1.NW_012002512v1     5356273 16 +  26952557 I
e macNem1.NW_012012355v1    16344889 16 +  18395747 I
e rheMac8.chr6             122922573 16 + 180051392 I
e colAng1.NW_012119644v1      396342 16 -   1175262 I

a score=4095.000000
s hg38.chr5_KI270796v1_alt    169526 1 +    172708 a
s panTro5.chr5             125283704 1 + 181907262 a
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126614505 1 + 183735486 a
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1806347 1 +   8933513 a
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139937130 1 + 163208435 a
i nomLeu3.chr2             C 0 C 0
s chlSab2.chr23             28457097 1 +  82825804 a
i chlSab2.chr23            I 15 C 0
s calJac3.chr2             123757363 1 - 204313951 a
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55798250 1 -  71252344 a
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1      101743 1 -   3089952 a
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13302200 1 -  42888418 a
i aotNan1.NW_018505940v1   C 0 C 0
e manLeu1.NW_012103321v1     4127803 16 -   4237731 I
e cerAty1.NW_012002512v1     5356273 16 +  26952557 I
e macNem1.NW_012012355v1    16344889 16 +  18395747 I
e macFas5.chr6             124346213 0 + 181584905 C
e rheMac8.chr6             122922573 16 + 180051392 I
e colAng1.NW_012119644v1      396342 16 -   1175262 I

a score=13718723.000000
s hg38.chr5_KI270796v1_alt    169527 1425 +    172708 aactttgtaacaattttgaccaaatgcatggtgtcctggacagcatccggggtggg--gggaggggtgaatggggagtgcagatacaagcacagaaactgctgcaggt-gggaggtgtgaaatctgaaagccctgcttactttctcagtcaggaggcttgtaacctggggcaagttctcagccctgctcaccagttgcctggaaatgaactcagtgctattga-ggggggacagtgggagtgagactggccttttgggctacgtgggagctggatgaggcctgtcgcttctggctttcccccatttccctggtgactgctacaatgcagcagaggcagccataatctccctggggatgtaactccattggcctaagaaccacacccccttcccccatagcagctacagcaagccccgctcaaggagagtctgagctcagacacacctaaccctgctgcaacctgatggtctttctccacccacccttgtagctgaagacaagggaaataatttcttgggaggtctgtggtcccacctactacctgagaaacccaaatacttatccaggcaaccctagggcaaacttgcatcttccctatactactgcagctgatgctctattgaaagtgccacctcctggctggaggcaaaccatcacaaaaccagcacagtaaacaaaactaccaccaaggaccttc----acggagtccagttcactctcctgctacctccaccagagcaggtgctggtgtccatagctgagagacctgaagatggatcacatcacaggactc--tgcagacacttcccagtaccagcctggagcctgggagccccactgggtggctagacccagaagacaaataacaatcactgaagtt-agactctcaggaagccccatcactagggaaaggaagagagcaccacattaagggagcaccccatgggaaaaaggaatctgaac-aaagcccttgagccctggatctgctctctgacatagtgtatccaa--gtaagaaagactcaggaaaacaatcctggtaatatgacaaaacaagggtatgaaacacccccaaaagatcacactgtctcaccagcaatggagacaaaatgagaataaatctctgaattgccaaaaaaaaaaaagagaatttagaaggttgattattaagctgcttacggaggcacc-agagaaaggtgaatacaaacttaaataaatttttaaaaagatacagaatatggacagaaaattatccagagaaatagatagcataaataaaacacaatcacaactcctggaaataaaggacacacttaaagaaatgcaaaatacactggaaagtctcagcaatagaactgaacaaatagaagatagaactttagagcttgaagacaaggcttttgaattaacccaatgaggcagagacaaag-aaaaaa
s panTro5.chr5             125283705 1425 + 181907262 aactttgtaacaattttgaccaaatgcatggtgtcctggacagaatccggggtggg--gggaggggtgaatggggagtgcagatacaagcacagaaactgctgcaggt-gggaggtgtgaaatctgaaagccctgcttactttctcagtcaggaggcttgtagcctggggcaagttctcagccctgctcaccagttgcctggaaatgaactcagtgctattga-ggggggacagtgggagtgagaccggccttttgggctacgtgggagctggatgaggcctgtcacttctggctttcccccatttccctggtgactgctacgatgcagcagaggcagccataatctccctgggggcgtaactccattggcctaagaaccacacccccttcccccatagcagctacagcaagccctgctcaaggagagtctgagctcagacacacctaaccctgctgcaacctgatggtctttctccacccacccttgtagccgaagacaaaggaaataatttcttgggaggtctgtggtcccacctactacctgagaaacccaaatacttatccaggcaaccctagggcaaacttgcatcttccctatactactgcagctgatgctctattgaaagtgccacctcctggctggaggcaaaccaacacaaaaccagcacagtaaacaaaactaccaccaaggaccttc----acggagtccagttcactctcctgctacctccaccagagcaggtgctggtgtccatagctgagagacctgaagatggatcacatcacaggactc--tgcagacacttcccagtaccagcctggagcctggtagccccactgggtggctagacccagaagacaaataacaatcactgaagtt-agactctcaggaagccccatcactagggaaaggaagagagcaccacattaagggagcaccccatgggaaaaaggaatctgaac-aaagcccttgagccctggatcttctctctgacatagtgtatccaa--gtaagaaagactcaggaaaacaatcctggtaatatgacaaaacaagggtatgaaacacccccagaagatcatactatctcaccagcaatggaggcaaaacgagaataaatctctgaattgcc-caaaagaaaaagagaatttagaaggttgattattaagctacttacagaggcacc-agagaaaggtgaatacaaacttaaataaatttttaaaaagatacagaatatggacagaaaattatccagagaaatagatagcataaataaaacacaatcacaacttctggaaataaaggacacacttaaagaaatgcaaaatacactggaaagtctcagcaatagaactgaacaaatagaagaaagaactttagagcttgaagacaaggcttttgaattaacccaatgaggcagagacaaagaaaaaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126614506 1422 + 183735486 aactttgtaacaattttgaccaaatgcatggtgtcctggacagaatccggggtggg--gggaggggtgaatggggagtgcagatacaagcacagaaactgctgcaggt-gggaggtgtgaaatctgaaagccctgc-tactttctcagtcaggaggcttgtagcctggggcaagttctcagccctgctcaccagttgcctggaaatgaactcagtgctattga-ggggggacagtgggagtgagaccggccttttgggctacgtgggagctggatgaggcctgtcacttctggctttcccccatttccctggtgactgctacgatgcagcagaggcagccataatctccctggggacgtaactccattggcctaagaaccacacccccttcccccatagcagctacagcaagccctgctcaaggagagtctgagctcagacacatctaaccctgctgcaacctgatagtctttctccacccacccttgtagccgaagacaaaggaaataatttcttgggaggtctgtggtcccacctactacctgagaaacccaaatacttatccaggcaaccctagggcaaacttgcatcttccctatactactgcagctgatgctctattgaaagtgccacctcctggctggaggcaaaccaacacaaaaccagcacagtaaacaaaactaccaccaaggaccttc----agggagtccagttcactctcctgctacctccaccagagcaggtgctggtgtccatagctgagagacctgaagatggatcacatcacaggactc--tgcagacacttcccagtaccagcctggagcctggtagccccactgggtggctagacccagaagacaaataacaatcactgaagtt-agactctcaggaagccccatcactagggaaaggaagagagcaccacattaagggagcaccccatgggaaaaaggaatctgaac-aaagcccttgagccctggatcttctctctgacatagtgtatccaa--gtaagaaagactcaggaaaacaatcctggtaatatgacaaaacaagggtatgaaacacccccagaagatcatactatctcaccagcaatggaggcaaaacgagaataaatctctgaattgcc--aaaagaaaaagagaatttagaaggttgattattaagctacttacagaggcacc-agagaaaggtgaatacaaacttaaataaattttt-aaaagatacagaatatggacagaaaattatccagagaaatagatagcataaataaaacacaatcacaacttctggaaataaaggacacacttaaagaaatgcaaaatacactggaaagtctcagcaatagaactgaacaaatagaagaaagaattttagagcttgaagacaaggcttttgaattaacccaatgaggcagagacaaagaaaaaaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1806348 1423 +   8933513 aactttgtaacaattttgaccaaatgcatggtgtcctggacagaatccggggtcgg--gggaggggtgaatggggagtgcagagacaagcacagaaactgccgcaggt-gggaggtgtgaaatctgaaagccctgcttactttctcagtcaggaggcttgtagcctggggcaagttctcagccctgctcaccagttgcctggaaatgaactcaatgctattga-ggggggacagtgggagtgagactggccttttgggctacgtgggagctggatgagacctgtcacttctggctttcccccatttccctggtgaccgctacgatgcagcagaggcagccataatctccctggggacctaactccattggcctaagaaccacacccccttcccccatagcagctacagcaagccccgctcaaggagagtctgagctcagacacacctaaccctgctgcaacctgatggtctttctccacccacccttgtagctgaagacaaaggaaataatttcttgggaggtctatggtcccaactactacctgagaaacccaaatacctatccaggcaaccctagggcaaacttgcatcttccctatactactgcagctgatgctctattgaaagtgccacctcctggctggaggcaaaccaacacaaaaccagcacagtaaacaaaaccaccaccaaggaccttc----atggagtccagttcattctcctgctacctccaccagagcaggtgctggtgtccatagctgagagacctgaagatggattacatcacaggactctttgcagacacttcccagtaccagcctggagcctggtagccccactgggtggctagacccagaagacaaataacaatcactgaagtt-agactctcaggaagccccatcactagggaaaggaagagagcaccacattaagggagcaccccatgggaaaaaggaatctgaac-aaagcccttgagccctggatcttctctctgacatagtgtatccaa--gtaagaaagactcaggaaaacaatcctggtaatatgacaaaacaagggtatgaaacacccccaaaagatcacactatctcaccagcaatggaggcaaaatgagaataaatctctgaattgcc----aaaaaaaagagaatttagaaggttgattattaagctacttatggaggcacc-agagaaaggtgaatacaaacttaaataaatttttaaaaagatacagaatatgaacagaaaattatccagagaaatagatagcataaataaaacacaatcacaactcctggaaataaaggacacacttaaagaaatgcaaaatacactggaaagtctcagcaatagaactgaacaaatagaagagagaactttagagcttgaagacaaggcttttgaattaacccaatgaggcagagacaaag-aaaaaa
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139937131 1424 + 163208435 aactttgtaacaattttgaccaaatgcatggtgttctggacagaatctggggcggg--gggaggggtgaatggggagtgcagatacaagcacagaaactgctgcaggt-ggcagacgtgaaatctgaaagccctgcttagtttctcagtcaggaggcttctagcctggggcaagttctcagccctgctcaccagttgcctggaaatgaactcagtgctattgagggggggacagtgggagtgagactggccttttgggctacgtgggagctggatgaggcctgtcacttctggctttcccccatttccctggtgaccgctatgatgcagcagaggcagccataatctccctggggacgtaactccattggcctaagaaccacacccccttcccccatagcagctacagcaagccccactcaaggagagtctgagctcagacacacctaaccctgccacaacctgatggtctttctccacccacccttgtagctgaagacaaaggaaataatttcttgggaggtctatggtcccacctactacctgagaaacccaaacacttacccaggcaaccctaaggcaaacttgcatcttccctatactactgcagctgatgctctattgaaagtgccacctcctggctggaggcaaaccaacacaaaaccagcacagtaaacaaaactacaaccaaggaccttc----acagagtccagttcactctcctgctacctccaccagagcaggtgctggtgtccatagctgagcgacctgaagatggatcacatcacagtactctttgcagacacttcccagtaccagcctggagcctggtagcctcactggctggctagacccagaagagaaataataatcactgaagtt-agactcccaggaagccctatcactagggaaaggaagagagcaccacattaagggagcaccccatgggaaaaaggaatctgaac-aaagcccttgagccctggatcttctctctgacatagtgtatccaa--gtaagaaagacccaggaaaacaatcctggtaatatgacaaaacaagggtatgaaacacccccaaaagatcacactatctcaccagcaatggaggcaaaacaagaataaatctctgaactgcc----aaaaaaaagagaatttagaaggttgattagtaagctacttatggaggcacc-agagaaaggtgaatacaaacttgaataaatttttaaaaagatagagaatatggacagaaaattatccagaaaaatagatagcataaataaaacacaatcacaactcctggaaataaaggacacacttaaagaaatgcaaaatacgctggaaagtctcagcaatagaactgaacaaatagaagaaagaactttagagcttgaagacaaggcttttgaattaacccaatgaggcagagacaaag-aaaaaa
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122922589 1421 + 180051392 aactttgtaacaattttgaccaaatacatggtgtccgggacagaatctggcgggggcaggaaggcgtgaatggggagtgcagatacaagcagagaaactgttgtgggt-gggaggtgtgaaatctgaaagccctgcttactttctcagtctgga-gcttgtagcctggggcaagttctcagccctgctcaccagttgcctggaaatgaactcggtgctgttga-gtggggacagtgggagtgagactggccttttgggctatgtgggagctggatgaggcctgtcacttctcacttccccccgtttccctggcgatcgctatgatgcagcagaggcagccataacctccctgggcacgtaactccattggcctaagaaccacacccacttcccccatagcagctacagcaagccccactcaaggggagtctgagctctgacacacctaaccctgctccaacctgatggtctttctccacccacccttgtagctgaagacaaaggaaataatttcttgggaggtctatggtcccacctactacctgagaaacccaaatacctatccaggcaaccctaggacaaacttgcatcttccctatactactgccactgattctctattgaaagtaccacctcctggctggagacaaaccaacacaaaaccagcacactaaacaaaactacaaccaaggaacttc----acagagtctagttcactctcctgctacctccaccagggcaggtgctggtatccatagctcagagacctgaagatagatcacatcacaggaccctttgcagatacttcccagtaccaacctggagcctggtagccccactgggtggctagacccagaagagaaatcacaatcactgaagtt-agactctcaggaagccccatcactaggggaaggaagagagtatcacatcaagggagcaccccatgggaaaaaggaatctgaac-aaagcccttgagccctggatcttctctctgacgtagtgtatccaa--gtaagaaagacccaggaaaacaatcctggtaatatgagaaaacaagggtatgaaacacccccaaaagatcacactatctcaccagcaatggaggcaaaacaggaataaatctctgaattgcc-------aaaaagagaattcagaaggttgattattaagccacttatggaggcacc-agagaaaggtgaatacaaacttaaataaattttttaaaagatacagaatatggatagaaaattatccagagaaatagatagaataaataaaacacaatcacaactcctagaaataaaggacacacttaaagaaatgcaaaatacactggaaattctcagcaatagaactgaacaaatagaagaaagaactttagagcttgaagacaaggcttttgaattaacccaagtaggcagagacaaag-aaaaaa
i rheMac8.chr6             I 16 C 0
s macFas5.chr6             124346213 1421 + 181584905 aactttgtaacaattttgaccaaatacatggtgtccgggacagaatctggcgggggcaggaaggcgtgaatggggagtgcagatacaagcagagaaacggttgtgggt-gggaggtgtgaaatctgaaagccctgcttactttctcagtctgga-gcttgtagcctggggcaagttctcagccctgctcaccagctgcctggaaatgaactcggtgctgttga-gtggggacagtgggagtgagactggccttttgggctatgtgggagctggatgaggcctgtcacttctcacttccccccgtttccctggcgatcgctatgatgcagcagaggcagccataacctccctgggcacgtaactccattggcctaagaaccacacccacttcccccatagcagctacagcaagccccactcaaggggagtctgagctctgacacacctaaccctgctccaacctgatggtctttctccacccacccttgtagctgaagacaaaggaaataatttcttgggaggtctatggtcccacctactacctgagaaacccaaatacctatccaggcaaccctaggacaaacttgcatcttccctatactactgccactgattctctattgaaagtaccacctcctggctggagacaaaccaacacaaaaccagcacactaaacaaaactacaaccaaggaacttc----acagagtctagttcactctcctgctacctccaccagggcaggtgctggtatccatagctcagagacctgaagatagatcacatcacaggaccctttgcagatacttcccagtaccaacctggagcctggtagccccactgggtggctagacccagaagagaaatcacaatcactgaagtt-agactctcaggaagccccatcactaggggaaggaagagagtatcacatcaagggagcaccccatgggaaaaaggaatctgaac-aaagcccttgagccctggatcttctctctgacgtagtgtatccaa--gtaagaaagacccaggaaaacaatcctggtaatatgagaaaacaagggtatgaaacacccccaaaagatcacactatctcaccagcaatggaggcaaaacaggaataaatctctgaattgcc-------aaaaagagaattcagaaggttgattattaagccacttatggaggcacc-agagaaaggtgaatacaaacttaaataaattttttaaaagatacagaatatggatagaaaattatccagagaaatagatagaataaataaaacacaatcacaactcctagaaataaaggacacacttaaagaaatgcaaaatacactggaaattctcagcaatagaactgaacaaatagaagaaagaactttagagcttgaagacaaggcttttgaattaacccaattaggcagagacaaag-aaaaaa
i macFas5.chr6             C 0 C 0
s macNem1.NW_012012355v1    16344905 1421 +  18395747 aactttgtaacaattttgaccaaatacatggtgtccgggacagaatctggcgggggcaggaaggcgtgaatggggagtgcagatacaagcagagaaactgttgtgggt-gggaggtgtgaaatctgaaagccctgcttactttctcagtctgga-gcttgtagcctggggcaagttctcagccctgctcaccagttgcctggaaatgaactcggtgctgttga-gtggggacagtgggagtgagactggccttttgggctatgtgggaactggatgaggcctgtcacttctgacttccccccgtttccctggcgatcgctatgatgcagcagaggcagccataacctccctgggcacgtaactccattggcctaagaaccacacccacttcccccatagcagctacagcaagccccactcaaggggagtctgagctctgacacacctaaccctgctccaacctgatggtctttctccacccacccttgtagctgaagacaaaggaaataatttcttgggaggtctatggtcccacctactacctgagaaacccaaatacctatccaggcaaccctaggacaaacttgcatcttccctatactactgccactgattctctattgaaagtaccacctcctggctggagacaaaccaacacaaaaccagcacactaaacaaaactacaaccaaggaacttc----acagagtctagttcactctcctgctacctccaccagggcaggtgctggtatccatagctcagagacctgaagatagatcacatcacaggaccctttgcagatacttcccagtaccaacctggagcctggtagccccactgggtggctagacccagaagagaaatcacagtcactgaagtt-agactctcaggaagccccatcactagggaaaggaagagagtatcacatcaagggagcaccccatgggaaaaaggaatctgaac-aaagcccttgagccctggatcttctctctgacgtagtgtatccaa--gtaagaaagacccaggaaaacaatcctggtaatatgagaaaacaagggtatgaaacacccccaaaagatcacactatctcaccagcaatggaggcaaaacaagaataaatctctgaattgcc-------aaaaagagaattcagaaggttgattattaagccacttatggaggcacc-agagaaaggtgaatacaaacttaaataaattttttaaaagatacagaatatggatagaaaattatccagagaaatagatagaataaataaaacacaatcacaactcctagaaataaaggacacacttaaagaaatgcaaaatacactggaaattctcagcaatagaactgaacaaatagaagaaagaactttagagcttgaagacaaggcttttgaattaacccaattaggcagagacaaag-aaaaaa
i macNem1.NW_012012355v1   I 16 C 0
s cerAty1.NW_012002512v1     5356289 1421 +  26952557 aactttgtaacaattttgaccaaatacatggtgtccgggacagaatctggcgggggcaggaaggcgtgaatggggagtgcagatacaagcagagaaactgttgtgggt-gggaggtgtgaaatctgaaagccctgcttactttctcagtctgga-gcttgtagcctgggacaagttctcagccctgctcaccagttgcctggaaatgaactcggtgctgttga-gtggggacagtgggagtgagactggcctttcgggctatgtgggagctggatgaggcctgtcacttctggcttccccccgtttccctggcgaccgctatgatgcagcagaggcagccataacctccctgggcacgtaactccattggcctaagaaccacacccacttcccccatagcagctacagcaagccccactcaaggggagtctgagctctgacacacctaaccctgctccaacctgatggtctttctccacccacccttgtagctgaagacaaaggaaataatttcttgggaggtctatggtcccacctactacctgagaaacccaaatacctatccaggcaaccctaggacaaacttgcatcttccctatactactgccactgattctttattgaaagtaccacctcctggctggagacaaaccaacacaaaaccagcacactaaacaaaactacaaccaaggaacttc----acagagtctagttcactctcctgctacctccaccagggcaggtgctggtatccatagctcagagacctgaagatagatcgcatcacaggaccctttgcagatacttcccagtaccaacctggagcctggtagccccactgggtggctagacccagaagagaaatcacagtcactgaagtt-agactctcaggaagccccatcactaggggaaggaagagagcatcacatcaagggagcacctcatgggaaaaaggaatctgaac-aaagcccttgagccctggatcttctctctgacatagtgtatccaa--gtaagaaagacccaggaaaacaatcctggtaatatgagaaaacaagggtatgaaacacccccaaaagatcacactatctcaccagcagtggaggcaaaacaagaataaatctctgaattgcc-------aaaaagagaattcagaaggttgattattaagccacttatggaggcacc-agagaaaggtgaatacaaacttaaataaattttttaaaagatacagaatatggatagaaaattatccagagaaatagatagaataaataaaacacaatcacaactcctagaaataaaggacacacttaaagaaatgcaaaatacactggaaattctcagcaatagaactgaacaaatagaagaaagaactttagagcttgaagacaaggcttttgaattaacccaattaggcagagacaaag-aaaaaa
i cerAty1.NW_012002512v1   I 16 C 0
s chlSab2.chr23             28457098 1421 +  82825804 aactttgtaacaattttgaccaaatacatggtgtcccagacagaatctggcaggggcaggaaggcatgaatggggagtgcagatacaagcagagaaactgttgtgggt-gggaggtgtgaaatctgaaagccctgcttactttctcagtctgga-gcttgtagcctggggcaagttctcagccctgctcaccagttgcctggaaatgaactcagtgctgttga-gtggggacagtgggagtgagactggccttttgggctatgtgggagctggatgaggcctgtcacttctggcttccccccatttccctggcgaccactatgatgcagcagaggcagccataacctccctgggcacgtaactccattggcctaagaaccacacccacttcccccatagcagctacagcaggccccactcaaggggagtctgagctctgacacacctaaccctgctccaacttgatggtctttctccatccacccttgcagctgaagacaaaggaaataatttcttgggaggtctatggtcccacctactacctgagaaacccaaatacctatccaggcaacccaagggcaaacttgcatcttccctatactactgccactgattctctattgaaagtaccacctcctggctggagacaaaccaacacaaaaccagcacactgaacaaaactacaaccaaggaacttc----acagagtccagttcactctcctgctacctccaccagagcaggtgctgatatccatagctcagagacctgaagatagatcacatcacaagactctttgcagatacttcccagtaccaacctggagcctggtagccccactgggtggctagacccagaagagaaatcacagtcactgaagtt-agactctcaggaagccccatcactaggggagggaagagagcatcacatcaagggagcaccccatgggaaaaaggaatctgaac-aatgcctttgagccctggatcttctctctgacgtagtgtatccaa--gtaagaaagacccaggaaaacaatcctggtaatatgagaaaacaagggtatgaaacacccccaaaagatcacactatctcaccagcaatggaggcaaaacaagaataaatctctgaattgcc-------aaaaagagaattcaggaggttgattattaagccacttatggaggcatc-agagaaaggtgaatacaaacttaaataattttttaaaaagatacagaatagggatagaaaattatccagagaaattgatagattaaataaaacacaatcacaacgcctggaaataaaggacacacttaaagaaatgcaaaatacactggaaattctcagcaatagaactgaacaaatagaagaaagaactttagagcttgaagacaaggcttttgaattaatccaattaggcagagacaaag-aaaaaa
i chlSab2.chr23            C 0 C 0
s manLeu1.NW_012103321v1     4127819 1421 -   4237731 aactttgtaacaattttgaccaaatacatggtgtccgggacagaatctggtgggggcaggaaggcgtgaatggggagtgcagatacaagcagagaaactgttgtgggt-gggaggtgtgaaatctgaaagccctgcttactttctcagtctgga-gcttgtagcctggggcaagttctcagccctgctcaccagttgcctggaaatgaactcggtgctgttga-gtggggacagtgggagtgagactggccttttgggctatgtgggagctggatgaggcctgtcacttctggcttccccccgtttccctggcgaccgctatgatgcagcagaggcagccataacctccctgggcacgtaactccattggcctaagaaccacacccacttcccccatagcagctacagcaagccccactcaaggggagtctgagctctgacacacctaaccctgctccaacctgatggtctttctccacccacccttgtagctgaagacaaaggaaataatttcttgggaggtctatggtcccacctactacctgagaaacccaaatacctatccaggcaaccctaggacaaacttgcgtcttccctatactactgccactgattctctattgaaagtaccacctcctggctggagacaaaccaacacaaaaccagcacactaaacaaaactacaaccaaggaacttc----acagagtctagttcactctcctgctacctccaccagggcaggtgctggtatccatagctcagagacctgaagatagatcacatcacaggaccctttgcagatacttcccagtaccaacctggagcctggtagccccactgggtggctagacccagaagagaaatcacagtcactgaagtt-agactctcaggaagccccatcactaggggaaggaagagagcatcacatcaagggagcaccccatgggaaaaaggaatctgaac-aaagcccttgagccctggatcttctctctgacatagtatatccaa--gtaagaaagacccaggaaaacaatcctggtaatatgagaaaacaagggtatgaaacacccccaaaagatcacactatctcaccagcaacggaggcaaaacaagaataaatctctgaattgcc-------aaaaagagaattcagaaggttgattattaagccacctatggaggcacc-agagaaaggtgaatacaaacttaaataaattttttaaaagatacagaatatggatagaaaattatccagagaaatagatagaataaataaaacacaatcacaactcctagaaataaaggacacacttaaagaaatgcaaaatacactggaaattctcagcaatagaactgaacaaatagaagaaagaactttagagcttgaagacaaggcttttgaattaacccaattaggcagagacaaag-aaaaaa
i manLeu1.NW_012103321v1   I 16 C 0
s colAng1.NW_012119644v1      396358 1419 -   1175262 aactttgtaacaattttgaccaaatacatggtatcccggacagattctggcgggggcaggaaggcgtgaatggggagtacagatacaagcagagaaactgttgagggt-gggaggtgtaaaatctgaaagacctgcttactttctcagtctgga-gcttgtagcctggggcaagttctcagccctgctcactagttgcctggaaatgaactcagtgctgttga-gtggggacagtgggagtgagactggccttttgggctgtgtgggagctggatgaggcctgtcacttctggcttccccccatttccctggcgaccgctatgatgtagcagaggcagccataacctccctgggcacgtaactccattggcctaagaaccacacccacttcccccataggagctacagcaagtgccactcaaggggagtctgagctctgacacacctaaccatgctccaacctgatggtctttctccacccacccttgtagctgaagacaaaggaaataatttcttgggaggtctatggtcccacctactacctgagaaacgcaaatacctatccaggcaaccctagggcaaacttgcatcttccctatactactgccactgattctctattgaaagtaccacctcctggctggaggcaaaccaacacaaaaccagcacactaaacaaaactacaaccaaggaccttc----acagagtccagttcactctcctgctacctccaccagagcagatgctggtatccatagctcagagacctgaagatagatcacatcacaggactctttgcagatacttcccagtgccaacatggagcctggtagccccactgggtggctagacccagaagagaaatcacaatcactgaagttaagactctcaggaagccccatcactaggggaaggaagagagcatcacatcaagggagcaccccatgggaaaaaggaatctgaac-aaagcccttgaggcctggatcttctctctgacatagtgtatccaa--gtaagaaagacccaggaaaacaatcctggtaatatgagaaaacaagggtatgaaacacccccaaaagatcacactatctcaccagcaatggaggcaaaacaagaataaatctctgaattgcc-------aaaaagagaattcagaaggttgattattaagccacttatggaggcacc-agagaaaggtgaatacaaactgaaataaattttt--aaagatacagaatatggatagaaaattatccagagaaatagatagaaaaaataaaacacaatcacaactcctggaaataaaggacacacttaaagaaatgcaaaatacactggaaattctcagcaatagaactgaacaaatagaagagagaactttagagcttgaagacaaggc-tttgaattaacccaattaggcagagacaaag-aaaaaa
i colAng1.NW_012119644v1   I 16 N 0
s calJac3.chr2             123757364 1400 - 204313951 aactttataacaattttgaccaaatacaaggtgtcctggacagaatctaacggggg-----aggggtgagtagggaatgcagatacaagcacagagactgttgcccatggggatgtgtaaaatctgaaagccctgtttactttctcagtggggaggcttgtag-------------------cctgctcatcaactgcctggaaataaactcaatgctgttgg-gggggtacaatgtgagtgagactggccttttgggctgtgtgggagctgggtgaggcctgtcactgctggctttccctcatttccctggcaaccagtatgatgcagcagagactgctataattttcctggggacataaccacattggcctaagaaccacacccccttcccccatagcagctacaacaagctccgcccaaggagagtctgagctcagacacacctaaccctgccccagtctgatggtcc-tctctacccacccttgtagctgaagtcaaaggacataatttcctgggagctctatggtcccacctactacctgagaaacccaaatacttatccaggcaaccctaggaaaaacttacatcctccctatactactgccactgatgctctattgaaagtgccacctcctggctggaggccaaccaacacaaaaccagcacactaaacaaaactacaacaaatgaccctctagagtagagtccagttcactctcccactacttccaccagagcaggtgctgctatccatagctgagagacctaaagatggatcacatcacaggactc--tgcagacacttcctagtaccagcctggagcctggtagccccagtggttggctagaaccagaagagaaataacaatcactgcagtt-agactctgaagaagccccatcactagagaaagaaagagagcatcacatcaagggaatgccccatgggcaaaagaaatctgaacaaaagctcttgagccctagatcttcccttcgacatagtgtattcaa--gtgagaaagacctaggaaaacaatcttggtaatatgaaaaagcaagggtattaaacactcccaaaaggtcacactatcttatcagcagtggatccaaaccaagaatagatctctgaattgcc-------agaaaaagaattcaaaagtttgattattcagccactcatggaggtgcc-aaaaaaaggtgaatacaaactcaaataaacataaaaa-agatacaggatatggacagaaaaatctccagagaaatagataacataaataaaatacaatcacaactcctggaaataaaggacatacttaaagaagtgcaaaatacactggaaagtctcagcagtagaactcaagaagtagaagaaaaaattttagagcttgaagacaaggcttttgaattaacccaatgaggcagagacaaag-aaaaaa
i calJac3.chr2             C 0 C 0
s saiBol1.JH378106          55798251 1386 -  71252344 aactttgtaacaattttgaccaaatgcaaggtgtcctggatggaatctagt-gggg-----aggggtgagtagggtatgcagatacaagcataggaactgttgcgggtggggatgtgtaaaatctgaaagccctgtttactttctcagtggggaggcttgtag-------------------cctgctcaccagctgcctggaaataaactgagttttgtt-g-gggggcacagcatgagtgagactggccttttgggctgtgtaggagctgggtgagg-ctgtcactgctggctttccctcatttccctggcaactagtatgatgcagcagagacttctattatttccctggggacataatcacattggcctaagaaccaca-ccccttctcccatagcagctacaacaagccccacccaaggagtgtctgagctcagacacacctaaccctgccccagcctgatggtccttctctacccatccttgtagctgaagtcaaaggacataatttcctgggagctctatggtcccacctaatacctgagaaatccaaatacttatccaggcaaccctagggcaaacttacatcctccctatactactgctgctgatgctctattgaaagtgccacctcctggctggaggccaatcaacacaaaaccagcacactaaacaaaactacaacaaatgaccctc----atagagtccagttcactctcccactacttccaccagagcaggtgctgctatccatagctgagagacctaaagatggatcacatcacaggactc--tgcagacacttcctagtaccagcct--------gtagccccagtggttggctagacccagaaaagaaataacaatcactgcagtt-agactctgaagaagccccatcactagagaaaggaagagagcaccacatgaagggaatgccccatgggcaaaataaatctgaacaaaagcccgtaagccctagatcttccctctgacatagtgtatttaa--gtgggaaagacctaggaaaacaatcttggtgatatgaaaaaacaagggtattacacacccccaaaagatctcactctcttatcagcagtggatacaaaccaagaatagatctctgaattgcc-------agaaaaagaattcaaaagtttgattattcagccactcatggaggcaccaaaaaaaaggtgaataccaactcaaatacacttaaaaagagatacaggatatggacagaaaaatctccagagaaatagataacataaataaaacacaatcacaactcctggaaataaagtacatacttaaagaagtacaaaatacaatggaaagtctcagcagtagaactgaacaaatagaagaaagaactttagagcttgaagac-aggcttttgaattaacccaatgaggcagagacaaag-aaaaaa
i saiBol1.JH378106         C 0 C 0
s cebCap1.NW_016107590v1      101744 1384 -   3089952 aactttgtaacaattttgaccaaatgcaaggtgccctgaacagaatctaagggggg-----agaggtgagtagggaatgcagatacaagcacagaaactgttgcaggtggggatatgtaaaatctgaaagccctgtttactttctcagtggggaggcttgtag-------------------cctgctcaccagctgcctggaaataaactcagtgttgtt-g-gggggcacagtgtgagtgagactggccttctgggctgtgtgggagctgggtgaggcctgtcactgctggctttccctcatttccctggcaaccagtatgatgcagcagagactgctatagtttccctggggacataaccacattggcctaagaaccacacccccttaccccatagcagttacaacaagccctgcctaaagagagtatgagctcagacacacctaaccccgccccagcctgatggtccttctctacccacccttgtagctgaagtcaaaggacataatttcctgggagctctatggtcccacctactacctgagaaacccaaatacttatccaggcaaccctagggcaaacttacatcctccctatactactgccgctgatgctctattgaaagtgccacctcctggctggaggccaaccaacacaaaaccagcacactaaacaaaactacaacaaatgacactc----acagagtccagttcactctcccactgcttccatcagagcaggtgctgctatccatagctgagagacctaaagatggatcacatcacaggactc--tgcagacacttcctagtaccagcctggagcctggtagccccagtagttggctagacccagaagagaaatagcaatcactgacgtt-agactctgaagaagccccatcactagagaaaggaagagagcaccac---aagggaacaccccatgggcaaatgaaatctgaacaaaagcccttgagccctagatcttccctctgacata-cgtatccaa--gtgagaaagacctaggaaaacaatcttggtaatatgaaaaagcaaggatattaaacacccccaaaaagtcacactatcttatcagcagtggattcaaaccaagaatagatctccgaattgcc-------agaaaaagaaatcaaaagtttgattattcagccactcatggaggcacc-aaaaaaaggtgaatacaaactcaa----acataaaaa-aagtacaggatatggacagaaaaatctccagagaaatagataacataaataaaatacaatcacaactcctggaaaaaaaggacatccttaaagaagtgcaaaatacactggaaagtctcagcagtagaactgaacaaatagaagaaagaactttagagcttgaagacaaggcttt----ttaacccaatgaggcagagacaaag-aaaaaa
i cebCap1.NW_016107590v1   C 0 C 0
s aotNan1.NW_018505940v1    13302201 1399 -  42888418 aactttgtaacaattttgaccaaatgcaaggtgttctggacagaatctacgggggg-----aggggtgagtagggaatgtagatacaagcacagaaactgttgcgggtagggatgtgtaaaatctgaaagccctgtttactttctcagtggggaggcttgtag-------------------cctgctcaccagctgcctggagataaactcagtgctgtt-g-gggggcacagtgtgagttagactggccttttaggctgtgtgggagctaggtgaggcctgtcactgctggctttccctcatttccctggcaaccagtatgatgcagcagagaccgctataatttccctggggacataaccacattggcctaagaaccacatcgccttcccccatagcagctacaacaagccccacccaaggagagtctgagctcaggcacacctaaccctgtcccagcctaatggtccttctctatccacccttgtagctgaagtcaaaggacataatttcatgggagctctatggtcccacctactacctaagaaatccaaatacttatccaggcaaccctagggcaaacttacatcctccctatactactgccgctgatgctctattgaaagtgccacctcctggctggaggccaaccaacacaaaaccagcacactaaacatagctacaacaaatgaccctc----atagagtccagttcactctcccactacttccaccagagcaggtgctgctatccatagctgagagacctaaagatggatcacatcacaggactc--tgcagacacttcctagtaccagcctggagcctggtagccccagtagttggctagacccagaagagaaataacaatcactgcagtt-agactctgaagaagccccattactagagaaaggaagagagcaccacatcaagggaatgccccatgggcaaaagaaatctgaacaaaagcccttgagccctagatcttccctctgacatagtgtatttaagtgtgagaaagacctagaaaaacaatcttggtaatatgaaaaaacaaggatattaaacacccccaaaaggtcacactgtcttatcagcagtggatccaaaccaagaatagatctctgaattgcc-------agaaaaagaattcaaaagtttgattattcagccactcatggagccacc-aaacaaaggtgaatacaaactcaaataaacttaaaaaaagatacaggatatggacagagaaatctccagagaaatagataacataaataaaacacaatcctaactcctggaaataaaggacatacttaaagaagtgcaaaatacactggaaaatctcagcagtagaactgaacaagtagaagaaagaactttagagcttgaagacaaggcttttgaattaacccaatgaggcagagacaaag-aaaaaa
i aotNan1.NW_018505940v1   C 0 C 0

a score=42710.000000
s hg38.chr5_KI270796v1_alt    170952 5 +    172708 ggatt
s panTro5.chr5             125285130 5 + 181907262 ggatt
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126615928 5 + 183735486 ggatt
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1807771 5 +   8933513 ggatt
i gorGor5.CYUI01015135v1   C 0 C 0
s nomLeu3.chr2             139938555 5 + 163208435 ggatt
i nomLeu3.chr2             C 0 C 0
s rheMac8.chr6             122924010 5 + 180051392 gaatt
i rheMac8.chr6             C 0 N 0
s macFas5.chr6             124347634 5 + 181584905 gaatt
i macFas5.chr6             C 0 N 0
s macNem1.NW_012012355v1    16346326 5 +  18395747 gaatt
i macNem1.NW_012012355v1   C 0 N 0
s cerAty1.NW_012002512v1     5357710 5 +  26952557 gaatt
i cerAty1.NW_012002512v1   C 0 N 0
s chlSab2.chr23             28458519 5 +  82825804 gaatt
i chlSab2.chr23            C 0 N 0
s manLeu1.NW_012103321v1     4129240 5 -   4237731 gaatt
i manLeu1.NW_012103321v1   C 0 N 0
s calJac3.chr2             123758764 5 - 204313951 gaatt
i calJac3.chr2             C 0 N 0
s saiBol1.JH378106          55799637 5 -  71252344 gaatt
i saiBol1.JH378106         C 0 N 0
s cebCap1.NW_016107590v1      103128 5 -   3089952 gaatt
i cebCap1.NW_016107590v1   C 0 N 0
s aotNan1.NW_018505940v1    13303600 5 -  42888418 gaatt
i aotNan1.NW_018505940v1   C 0 N 0

a score=1547118.000000
s hg38.chr5_KI270796v1_alt    170957 1739 +    172708 agtccaacagcaaaatatgacaatcctaaatatatatgcccttaatgctggagctccaaaatttataggagaataactactagacctaagaaaggagatagacagcaacacaacaatagtgggggatttcattactctc---------------------------------tcaacaaagaaacaatggacttaaactataccctagaacaaatggacttaacagatattaacagaacattctacctaacaactgtagaatatacattctattcatcaacacatggaacattctccaagatagaacatatgataggccacaaaacaagttttaataaattttaaaaagtaaacattatatcaagcactctctcagaccacactggaataaaattgaaagtcaaattgaagaggaagtcttaaaaccatgcaaatacatggaaattaaataacctgtttctgaatgaccattgggtaaacaatgaaatc----aagatagaaattaaaaaattctttgaattgaataatagtgacacaacctatcaaaacctctgggatacaacaaaagcactgctaatatgagaattcacagcattgaaggcctacattgaaaagtctaaaagagcacaaatagacaatctaagctcacacttcaagggactagagaaacgaaaacaaactaaacccagatccagcagaagcaaattaacaacaatcagagcaggactaaatgaaattg----aaacaaacaaaaatacaaaagataaatgagacaaaaagctgattctttgaaaacttaaaattgatagaccaccagcaagattaaccataaaaaggagaagaagacccaaataagctcgattagaaacaaaatgggagatattgtaactgatatcacagaatacaaaagatcattgaaggctactatgaacacctttatgcacacaaactagaaaacctagaggagatggataaattcctggtaatatacaacactcctatattaaactgggaaggaac-------------agacaaataac---------------aatggtgattaaaaaaa--ttgccaacaaaaagtccagaaccagtcagattcacagctgaattctatcagacctttaaagaattggtaccaatcctatcgacactattccaaaagatagagaaagagggaattctccctaaatcattctatgaagccaatgtcaccgtaataccaaaaccaggaaaagacataacaaaaaaagaaaactatagactaatatccctgataaatatagatgcaaaaatcctcaacaaaatactagctaatcaaatccaacagcatatcgaaaagataatccaccatgatcaagtgggtttcataccagggatgcagggatggtttaaaatatgcaagtcaataaatgtgatataccacataaacagaattaaaccaaaaaatcacacgatcatctcaatagacacagaaaaagcatttcacaaaatccagcacttctttatgattaaaaccctcagcaaaattggcacagaagggacacaccttaaggtaataaaagccatctatgacaaacccacagccaacatttcactgaacaaggaaaagttgaaagcattccctctgagaactggaacaagacaggtatgtccactttcaccacttctatccaacatagtactggaagacctaaccagagcaatcaaataagagaaagacataaagggcatccaaatcagtaaagaggaagtcagactgtcactgttcactgatgataagattgtatacctagaaa
s panTro5.chr5             125285135 1783 + 181907262 agtccaacagcaaaatatgacaatactaaatatatatgcccttaatgctggaactccaaaatttataggagaataactactagacctaagaaaggagatagacagcaacacaacaatagtgggggatttcattactcactcacagaactagacagatcatcaagacagaaagtcaacaaagaaacaatggacttaaactataccctagaacaaacggacttaacagatattaacagaacattctacccaacaactgtagaatatacattctattcatcaacacatggaacattttccaagatagaacatatgataggccacaaaacaagttttaataaatttaaaaaagtaaacattatatcaagcactctctcagaccaccctggaataaaattgaaaatcaaattcaagaggaatccttaaaaccatgcaaatacatggaaattaaataacctgtttctgaatgaccattgggtaaacaatgaaatc----aagatagaaattaaaaaattctttgaattgaataatagtgacacaacctatcaaaacctctgggatacaacaaaagcactgctaatatgagaattcacagcattgaaggcctacattgaaaagtctaaaagagcacaaacagacaatctaagctcacacttcaagggactagagaaacgaaaacaaactaaacccagatccagcagaagcaaattaacaacaatcagagcaggactaaatgaaattg----aaacaaacaaaaatacaaaagataaatgagacaaaaagctgattctttgaaaacttaaaattgatagaccaccagcaagattaaccataaaaaggagaagaagacccaaataagctcgattagaaacaaaatgggagatattgtaactgatatcacagaatacaaaagatcattgaaggctactatgaacacctttacgcacacaaactagaaaacctagaggagatggataaattcctggtaatatacaacactcctatattaaactgggaaggaac-------------agacaaataacaagcagcaagatagaaatggtgattaaaaaaa--ttgccaacaaaaagtccagaaccagtcagattcacagctgaattctatcagacctttaaagaattggtagcaatcctatcgacactattccaaaagat----aaagagggaattctccctaaatcattctatgaagccaatgtcaccgtaataacaaaaccaggaaaagacataacaaaaaaagaaaactatagactaatatccctgataaatatagatgcaaaaatcctcaacaaaatactagctaatcaaatccaatagcatatcgaaaagataatccaccatgatcaagtgggtttcataccagggatgcagggatggtttaaaatatgcaagtcaataaatatgatataccacataaacagaattaaaccaaaaaatcacacgatcatctcaatagacacagaaaaagcatttcacaaaatccagcacttctttatgattaaaaccctcagcaaaattggcacagaagggacataccttaaggtaataaaagccatctatgacaaacccacagccaacatttcactgaacaaggaaaagttgaaagcattccctctgagaactggaacaagacaggtatgtccactttccccacttctatccaacatagtactggaagacctaaccagagcaatcaaataagagaaagagataaagggcatccaaatcagtaaagaggaagtcaaactgtcactgttcactgatgataagattgtatacctagaaa
i panTro5.chr5             C 0 C 0
s panPan2.chr5             126615933 1783 + 183735486 agtccaacagcaaaatatgacaatcctaaatatatatgcccttaatgctggaactccaaaatttataggagaataactactagacctaagaaaggagatagacagcaacacaacaatagtgggggatttcattactcactcacagaactagacagatcatcaagacagaaagtcaacaaagaaacaatggacttaaactataccctagaacaaacggacttaacagatattaacagaacattctacccaacaactgtagaatatacattctattcatcaacacatggaacattctccaagatagaacatatgataggccacaaaacaagttttaataaattttaaaaagtaaacattatatcaagcactctctcagaccaccctggaataaaattgaaaatcaaattcaagaggaatccttaaaaccacgcaaatacatggaaattaaataacctgtttctgaatgaccattgggtaaacaatgaaatc----aagatagaaattaaaaaattctttgaattgaataatagtgacacaacctatcaaaacctctgggatacaacaaaagcactgctaatatgagaattcacagcattgaaggcctacattgaaaagtctaaaagagcacaaatagacaatctaagctcacacttcaagggactagagaaacgaaaacaaactaaacccagatccagcagaagcaaattaacaacaatcagagcaggactaaataaaattg----aaacaaacaaaaatacaaaagataaatgagacaaaaagctgattctttgaaaacttaaaattgatagaccaccagcaagattaaccataaaaaggagaagaagacccaaataagctcgattagaaacaaaatgggagatattgtaactgatatcacagaatacaaaagatcattgaaggctactatgaacacctttacgcacacaaactagaaaacctagaggagatggataaattcctggtaatatacaacactcctatattaaactgggaaggaac-------------agacaaataacaagcagcaagattgaaatggtgattaaaaaaa--ttgccaacaaaaagtccagaaccagtcagattcacagctgaattctatcagacctttaaagaattggtaacaatcctatcgacactattccaaaagat----aaagagggaattctctctaaatcattctatgaagccaatgtcaccgtaataccaaaaccagaaaaagacataacaaaaaaagaaaactatagactaatatccctgataaatatagatgcaaaaatcctcaacaaaatactagctaatcaaatccaatagcatatcgaaaagataatccaccatgatcaagtgggtttcataccagggatgcagggatggtttaaaatatgcaagtcaataaatatgatataccacataaacagaattaaaccaaaaaatcacacgatcatctcaatagacacagaaaaagcatttcacaaaatccagcacttctttatgattaaaaccctcagcaaaattggcacagaagggacataccttaaggtaataaaagccatctatgacaaacccacagccaacatttcactgaacaaggaaaagttgaaagcattccctctgagaactggaacaagacaggtatgtccactttccccacttctatccaacatagtactggaagacctaaccagagcaatcaaataagagaaagagataaagggcatccaaatcagtaaagaggaagtcaaactgtcactgttcactgatgataagattgtatacctagaaa
i panPan2.chr5             C 0 C 0
s gorGor5.CYUI01015135v1     1807776 1791 +   8933513 agtccaacagcaaaatatgacaatcctaaatatatatgcccttaatgctggagctccaacatttataggagaataactactagacctaagaaaggagatagacagcaacacaacaatagtgggggatttcattactcactcacagaactagacagatcatcaagacagaaagtcaacaaagaaacaatggacttaaactataccctagaacaaatcgacttaacagatattaacaggacattctacccaacaactgtagaatatacattctattcatcaacacatggaacattctccaagatagaacatatgataggccacgaaacaagttttaataaatttaaaaaagtaaacattatatcaagcactctctcagaccacactggaataaaactgaaaatcaaattcaagaggaacccttaaaaccatgcacatacatgggaattaaataacctgtttctgaatgaccattgggtaaacaatgaaatc----aagatagaaattaaaaaattctttgaattgaataatagtgacacaacctatcaaaacctctgggatacaacaaaagcactgctaatatgagaattcacagcattgaaggcctatattgaacagtctaaaagagcacaaatagacaatctaagctcacacttcaagggactagagaaacgaaaacaaactaaacccagatccagcagaagcaaattaacaacaatcagagcaggactaaatgaaattgaaacaaacaaacaaaaatacaaaaaataaatgagacaaaaagctgattctttgaaaacttaaaattgatagaccaccagcaagattaaccacaaaaaggagaggaagacccaaataagctcgattagaaacaaaatgggagatattgtaactgatatcacagaatacaaaagatccttgaaggctactatgaacacctttacgcacacaaactagaaaacctagaggagatggataaattcctggaaatatacaacactcctatattaaactgggaaggaac-------------agacaaataacaagcagcaagattgaaatggtgattaaaaaaa--ttgccaacaaaaagtccagaaccagtcagattcacagctgaattctatcagacctttaaagaattggtaccaatcctattgacactattccaaaagacagagaaagagggaattctccctaaatcattctatgaagccaatgtcaccgtaataccaaaaccaggaaaagacataacaaaaaaagaaaactatagactaatatccctgataaatatagatgcaaaagtcctcaacaaaatactagctaatcaaatccaacagcatatcaaaaagataatccaccatgatcaagtgggtttcataccagggatgcagggatggtttaaaatatgcaagtcaataaatgtgatataccacataaacagaattaaaccaaaaaatcacacgatcatctcaatagacacagaaaaagcatttcacaaaatccagcacttctttatgattaaaaccctcagcaaaattggcacagaagggacataccttaaggtaataaaagccatctatgacaaacccacagccaacattttactgaacaaggagaagttgaaagcattccctctgagaactggaacaagacgggtatgtccacttgcaccacttctatccaacatagtactggaagacctaaccagagccatcaaataagagaaagagataaagggcatccaaatcagtaaagaggaagtcaaactgtcactgttcactgatgataagattgtatacctagaaa
i gorGor5.CYUI01015135v1   C 0 N 0
s nomLeu3.chr2             139938560 1774 + 163208435 agtccaacagcaaaatatgacaatcctgaatatatattcccttaatgctggagctccaaaatttatagaagaataactactagacctgagaaaggagagagacagcaacacaacaatagtggcggatttcattactcactcacagaactagacagatcatcaagacagaaagtcaacaaagaaacaatggacttacactataccctagaacaaatggacttaacagatattaacagaacattctacccaacaactgtagaatgtacattttattcatcaacacatggaatattctccaagatagaacatatgataggccacaaaacaagttttaataaatctaaaaaaataaacattatatcaagcactctctcagaccacactggaataaaattgaaaatcaaattcaagaggaacccttaaaaccatgcaaatacatggaaattaaataacctgtttctgaatgactgttgggtaaacaatgaaatctagatagatagaaattaaaaaatcctttgaactgaataatagtgacacaacctatcaaaacctctgggatacagcaaaagcactgctaatatgagaattcacagcattgaaggcctacatcgaaaagtctaaaagagcacaaatacacaatctaagcttacacttcaagggactagagaaacgaaaacaaactaaacccagatccagaagaagcaaaataacaacaataagagcaggaataaatgaaattg----aaataaacaaaaatacaaaagataaatgaaacaaaaagctgattctttgaaaagttaaaattgatagaccaccagcaagattaaccataaaaaggaga-gaagaccctaataagctcgattagaaacaaaatgggagatactgtaactgatatcacagaatatgaaaggtcattcaaggctactatgaacacctttacgcacacaaactagaaaacctagaggagatggat-------------------acattcctatattaaactgggaagaaacagaaactctgaaaagaaaaataacaagcagcaagattgaaatggtaataaaaaaaaatttgccaacaaaaagtccagaaccagtcagattcacagctgaattctatcagatctttaaagaattggtaccaatcctattgacactcttccaaaagat----aaagagggaattctccctaaatcattctctgaagccaatgtcaccataataccaaaaccaggaaaagacataacaaaaaaagaaaactatagactaatatccctgataaatatagatgcaaaaatcctcaacaaaatactagctaatcaaatccaacagcacatcaaaaagataatccaccatgatcaagtgggttttatac--------cagggatggtttaacatatgcaagtcaataaatgtgatataccacataaacagaattaaacccaaaaatcacacgatcatctcaatagacacagaaaaagcatttcacaaaatccagcacttctttatggttaaaaccctcagcaaaattggcacagaacggacataccttaaggtaataaaagccatctatgacaaacccacagccaacattttactgaacaaggaaaagttgaaagcattccctctgagagctggaacaagacagttatgcccactttcaccacttctatccaacatagtactggaagacctaactagagcaatcaaataagagaaagagataaagggcatccacatcagtaaagaggaagtcaaactgtcactattcactgatgataagatcgcatacctacaaa
i nomLeu3.chr2             C 0 C 0

a score=6822.000000
s hg38.chr5_KI270796v1_alt    172696 12 +    172708 accctaaagact
s panTro5.chr5             125286918 12 + 181907262 accctaaagact
i panTro5.chr5             C 0 N 0
s panPan2.chr5             126617716 12 + 183735486 accctaaagact
i panPan2.chr5             C 0 N 0
s nomLeu3.chr2             139940334 12 + 163208435 accctaaagact
i nomLeu3.chr2             C 0 N 0

